Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 17 of 207
Found at i:5169692 original size:18 final size:17
Alignment explanation
Indices: 5169671--5169705 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
5169661 TTATTATTTA
*
5169671 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
5169689 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
5169706 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:5169699 original size:28 final size:27
Alignment explanation
Indices: 5169629--5169701 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
5169619 TTTATTATCA
*
5169629 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
5169657 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
5169684 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
5169702 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:5169818 original size:144 final size:147
Alignment explanation
Indices: 5169590--5169861 Score: 487
Period size: 144 Copynumber: 1.9 Consensus size: 147
5169580 ATGATTATTG
5169590 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTA--TATTATCAAAAATAAATAATTTAATCATATTTAA
*
5169655 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
64 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
5169720 AGAAATTTGTTTTGGTAAA
129 AGAAATTTGTTTTGGTAAA
*
5169739 TTATT-TTATTTAAATTTTAATAAGATTA-A-TATCAATAATAAATAATTTAATCATATTTAAAC
1 TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
5169801 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
5169862 ATATTCTTAT
Statistics
Matches: 121, Mismatches: 2, Indels: 5
0.95 0.02 0.04
Matches are distributed among these distances:
144 92 0.76
145 1 0.01
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (147 bp):
TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCAG
AAATTTGTTTTGGTAAA
Found at i:5169836 original size:18 final size:17
Alignment explanation
Indices: 5169815--5169849 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
5169805 TTATTATTAA
*
5169815 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
5169833 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
5169850 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:5169893 original size:54 final size:54
Alignment explanation
Indices: 5169835--5170013 Score: 128
Period size: 55 Copynumber: 3.1 Consensus size: 54
5169825 ATTAAAATAT
*
5169835 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAACC
1 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
** * * * * *
5169889 ATAATATATGATACTGTAAAATAT-AAAATAACATAATTATTATTAAATAT-AATATAATTAAAA
1 ATAAT-T-T-A-A---TAAAAT-TCTTAATAA-TTAA-TATTCTT--ATATGAAT-TTACTCAAA
*
5169952 TAT
53 -AC
*
5169955 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATC
1 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
5170009 ATAAT
1 ATAAT
5170014 ATATGATTAT
Statistics
Matches: 91, Mismatches: 18, Indels: 32
0.65 0.13 0.23
Matches are distributed among these distances:
54 10 0.11
55 11 0.12
56 4 0.04
57 7 0.08
58 5 0.05
59 11 0.12
61 11 0.12
62 5 0.05
63 7 0.08
64 4 0.04
65 11 0.12
66 5 0.05
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.41
Consensus pattern (54 bp):
ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
Found at i:5169895 original size:61 final size:61
Alignment explanation
Indices: 5169830--5170017 Score: 190
Period size: 61 Copynumber: 3.1 Consensus size: 61
5169820 TTTTAATTAA
*
5169830 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAACCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
* * * * * * * * * * *
5169891 AATATATGATACT-GTAAAA-T-ATAA-AATAACATAATTATTAT-TAAATATAAT-ATAATTAA
1 AATATATAAT-TTAATAAAATTCTTAATAATTA-AT-ATTCTTATATGAATTTACTCA-AATCAT
5169950 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
5170011 AATATAT
1 AATATAT
5170018 GATTATAACT
Statistics
Matches: 94, Mismatches: 23, Indels: 20
0.69 0.17 0.15
Matches are distributed among these distances:
58 6 0.06
59 29 0.31
60 16 0.17
61 37 0.39
62 6 0.06
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.41
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
Found at i:5169928 original size:120 final size:120
Alignment explanation
Indices: 5169798--5170020 Score: 419
Period size: 120 Copynumber: 1.9 Consensus size: 120
5169788 ATCATATTTA
* *
5169798 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
5169863 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTGTAAAATATAAAAT
66 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTGTAAAATATAAAAT
5169918 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
5169983 TATTCTTATATGAATTTACTCAAATCATAATATATGAT
66 TATTCTTATATGAATTTACTCAAACCATAATATATGAT
5170021 TATAACTAAT
Statistics
Matches: 100, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 100 1.00
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.42
Consensus pattern (120 bp):
AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAACCATAATATATGATACTGTAAAATATAAAAT
Found at i:5169956 original size:18 final size:17
Alignment explanation
Indices: 5169935--5169969 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
5169925 TTATTATTAA
5169935 ATATAATATAATTAAAAT
1 ATATAATATAA-TAAAAT
*
5169953 ATATAATTTAATAAAAT
1 ATATAATATAATAAAAT
5169970 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATATAATATAATAAAAT
Found at i:5170032 original size:17 final size:16
Alignment explanation
Indices: 5170010--5170056 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
5170000 ACTCAAATCA
5170010 TAATATATGATTATAAC
1 TAATATATGATT-TAAC
*
5170027 T-A-ATATGATTTAAT
1 TAATATATGATTTAAC
5170041 TAAATATATGATTTAA
1 T-AATATATGATTTAA
5170057 TAAAATTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 4 0.15
15 8 0.31
16 2 0.08
17 12 0.46
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (16 bp):
TAATATATGATTTAAC
Found at i:5170057 original size:17 final size:17
Alignment explanation
Indices: 5170029--5170062 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
5170019 ATTATAACTA
*
5170029 ATATGATTTAATTAAAT
1 ATATGATTTAATAAAAT
5170046 ATATGATTTAATAAAAT
1 ATATGATTTAATAAAAT
5170063 TTAAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
ATATGATTTAATAAAAT
Found at i:5170205 original size:93 final size:92
Alignment explanation
Indices: 5170095--5170289 Score: 286
Period size: 93 Copynumber: 2.1 Consensus size: 92
5170085 GATTATAGTT
* * *
5170095 TATGAATTTGTATAATTTAAAATAA-TAATTATTACATATAATT-TAATAATAATATATAATTTC
1 TATGAATTTATACAATTTAAAATAATTAA-TATTAAATATAATTAT-ATAATAATATATAATTTC
* *
5170158 ATAAAATTCTTGATAATAAAAATTTTCTTA
64 ATAAAATTCTTAATAAT-AAAATGTTCTTA
* *
5170188 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAGTGATATATAATTTCAT
1 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
5170253 AAAATTCTTAATAATAAAATGTTCTTA
66 AAAATTCTTAATAATAAAATGTTCTTA
5170280 TATGAATTTA
1 TATGAATTTA
5170290 CTAAAATCAA
Statistics
Matches: 93, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
92 21 0.23
93 68 0.73
94 4 0.04
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (92 bp):
TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
AAAATTCTTAATAATAAAATGTTCTTA
Found at i:5178382 original size:7 final size:7
Alignment explanation
Indices: 5178370--5178399 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
5178360 TATATGCAGA
5178370 GCTTGGT
1 GCTTGGT
5178377 GCTTGGT
1 GCTTGGT
5178384 GCTTGGT
1 GCTTGGT
5178391 GCTTGGT
1 GCTTGGT
5178398 GC
1 GC
5178400 AAGCCCTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.00, C:0.17, G:0.43, T:0.40
Consensus pattern (7 bp):
GCTTGGT
Found at i:5178467 original size:33 final size:35
Alignment explanation
Indices: 5178405--5178472 Score: 104
Period size: 33 Copynumber: 2.0 Consensus size: 35
5178395 GGTGCAAGCC
*
5178405 CTATTGAATAAGTAGTGTCTTATTGTGTCAAGTTGG
1 CTATTGAATAAG-AGTGTCCTATTGTGTCAAGTTGG
5178441 CTATTGAATAA-A-TGTCCTATTGTGTCAAGTTG
1 CTATTGAATAAGAGTGTCCTATTGTGTCAAGTTG
5178473 ATCGTAAGAT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
33 19 0.61
34 1 0.03
36 11 0.35
ACGTcount: A:0.26, C:0.10, G:0.22, T:0.41
Consensus pattern (35 bp):
CTATTGAATAAGAGTGTCCTATTGTGTCAAGTTGG
Found at i:5179288 original size:8 final size:7
Alignment explanation
Indices: 5179275--5179320 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 7
5179265 ATTAAATTAT
5179275 TTTTAGA
1 TTTTAGA
5179282 CTTTTAGA
1 -TTTTAGA
5179290 TTTTAG-
1 TTTTAGA
5179296 TTTTAG-
1 TTTTAGA
5179302 TTTTA-A
1 TTTTAGA
5179308 TTTTAGAA
1 TTTTAG-A
5179316 TTTTA
1 TTTTA
5179321 TTTTTATTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
6 16 0.46
7 6 0.17
8 13 0.37
ACGTcount: A:0.26, C:0.02, G:0.11, T:0.61
Consensus pattern (7 bp):
TTTTAGA
Found at i:5179311 original size:12 final size:13
Alignment explanation
Indices: 5179283--5179326 Score: 54
Period size: 12 Copynumber: 3.4 Consensus size: 13
5179273 ATTTTTAGAC
*
5179283 TTTTAGATTTTAG
1 TTTTAGATTTTAA
5179296 TTTTAG-TTTTAA
1 TTTTAGATTTTAA
*
5179308 TTTTAGAATTTTAT
1 TTTTAG-ATTTTAA
5179322 TTTTA
1 TTTTA
5179327 TTTATTAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
12 11 0.41
13 6 0.22
14 10 0.37
ACGTcount: A:0.25, C:0.00, G:0.09, T:0.66
Consensus pattern (13 bp):
TTTTAGATTTTAA
Found at i:5179337 original size:20 final size:20
Alignment explanation
Indices: 5179283--5179326 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
5179273 ATTTTTAGAC
5179283 TTTTAGATTTTAG--TTTTAG
1 TTTTA-ATTTTAGAATTTTAG
*
5179302 TTTTAATTTTAGAATTTTAT
1 TTTTAATTTTAGAATTTTAG
5179322 TTTTA
1 TTTTA
5179327 TTTATTAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 7 0.32
19 5 0.23
20 10 0.45
ACGTcount: A:0.25, C:0.00, G:0.09, T:0.66
Consensus pattern (20 bp):
TTTTAATTTTAGAATTTTAG
Found at i:5180128 original size:16 final size:16
Alignment explanation
Indices: 5180095--5180128 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
5180085 AATTGAATCT
*
5180095 AAACTTAAATAATTAA
1 AAACTTAAATAATCAA
*
5180111 AAACTTAAATTATCAA
1 AAACTTAAATAATCAA
5180127 AA
1 AA
5180129 TTCGAAATGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.29
Consensus pattern (16 bp):
AAACTTAAATAATCAA
Found at i:5185527 original size:44 final size:43
Alignment explanation
Indices: 5185463--5185549 Score: 120
Period size: 44 Copynumber: 2.0 Consensus size: 43
5185453 TGGTCGTGTG
* *
5185463 ACCAAACCGTGTACAGTTCGAAATTAGAGTCACACGACCATGTC
1 ACCAAACCATGTACAATTCGAAA-TAGAGTCACACGACCATGTC
* * *
5185507 ACCAAACCATGTGCAATTCGAAATAGGGTCACACGGCCATGTC
1 ACCAAACCATGTACAATTCGAAATAGAGTCACACGACCATGTC
5185550 GCAGACTGTG
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
43 18 0.47
44 20 0.53
ACGTcount: A:0.33, C:0.28, G:0.20, T:0.20
Consensus pattern (43 bp):
ACCAAACCATGTACAATTCGAAATAGAGTCACACGACCATGTC
Found at i:5188145 original size:18 final size:19
Alignment explanation
Indices: 5188095--5188145 Score: 52
Period size: 18 Copynumber: 2.7 Consensus size: 19
5188085 AATTTTAAAA
*
5188095 TATGTACATACATATATTT
1 TATGTATATACATATATTT
* *
5188114 T-TCGTATTTCCATA-ATTT
1 TAT-GTATATACATATATTT
5188132 TATGTATATACATA
1 TATGTATATACATA
5188146 CATATATATT
Statistics
Matches: 25, Mismatches: 5, Indels: 5
0.71 0.14 0.14
Matches are distributed among these distances:
18 15 0.60
19 10 0.40
ACGTcount: A:0.33, C:0.12, G:0.06, T:0.49
Consensus pattern (19 bp):
TATGTATATACATATATTT
Found at i:5188357 original size:23 final size:20
Alignment explanation
Indices: 5188328--5188380 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 20
5188318 GTTTTTTTGC
5188328 TCATATTATTTTTGGTCACATTA
1 TCATATTATTTTT--TC-CATTA
5188351 TCATATTTATTTTTTCCATTA
1 TCATA-TTATTTTTTCCATTA
5188372 TGCATATTA
1 T-CATATTA
5188381 ACACCACACT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
21 9 0.32
22 6 0.21
23 5 0.18
24 8 0.29
ACGTcount: A:0.26, C:0.13, G:0.06, T:0.55
Consensus pattern (20 bp):
TCATATTATTTTTTCCATTA
Found at i:5188360 original size:24 final size:21
Alignment explanation
Indices: 5188328--5188379 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 21
5188318 GTTTTTTTGC
5188328 TCATA-TTATTTTTGGTCACATTA
1 TCATATTTATTTTT--TC-CATTA
5188351 TCATATTTATTTTTTCCATTA
1 TCATATTTATTTTTTCCATTA
5188372 TGCATATT
1 T-CATATT
5188380 AACACCACAC
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
21 6 0.22
22 8 0.30
23 5 0.19
24 8 0.30
ACGTcount: A:0.25, C:0.13, G:0.06, T:0.56
Consensus pattern (21 bp):
TCATATTTATTTTTTCCATTA
Found at i:5188598 original size:111 final size:110
Alignment explanation
Indices: 5188406--5188836 Score: 580
Period size: 111 Copynumber: 3.9 Consensus size: 110
5188396 AAAGAAAATT
* * * * * * *
5188406 TTTCTAAATGAGGCAATATTTAGCATTTGGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTGT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGC
* * *
5188471 CGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAAT
66 CGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTTAAAAAA
*
5188516 TTTTAAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTG
1 TTTCAAAATAAGGCAATGTTTTGCGTTT-GGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTG
5188581 CCGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTTAAAAAA
65 CCGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTTAAAAAA
* *
5188627 TTTCAAAATAAGGCAATGTTTTGCGTTTGAGAAATTCGAGAAAACATGTCATAAGGTGCTGGGTG
1 TTTCAAAATAAGGCAATGTTTTGCGTTTG-GAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTG
**
5188692 TTGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTTAAAAAAA
65 CCGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTT-AAAAAA
* * * * * * *
5188739 TTTCAAAATAAGGCAATGTTTTGTGTTTGAAAATTTGAG-GAACGTACCCTAAGGTGCTGGGTTC
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGC
* * * *
5188803 CGA--TTTCTCGTTTAACCAAATAGCCAAATATCCT
66 CGATTTTTCTCATTCAACCAAATGGCTAAATATCCT
5188837 CTCGAATTTC
Statistics
Matches: 287, Mismatches: 31, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
108 27 0.09
110 43 0.15
111 183 0.64
112 34 0.12
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.34
Consensus pattern (110 bp):
TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGC
CGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTTAAAAAA
Found at i:5196138 original size:16 final size:17
Alignment explanation
Indices: 5196114--5196146 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
5196104 TAAAATAAAA
5196114 AATAAAATAT-TTTTTT
1 AATAAAATATCTTTTTT
*
5196130 AATATAATATCTTTTTT
1 AATAAAATATCTTTTTT
5196147 TTATACGATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (17 bp):
AATAAAATATCTTTTTT
Found at i:5203990 original size:76 final size:76
Alignment explanation
Indices: 5203864--5204014 Score: 221
Period size: 76 Copynumber: 2.0 Consensus size: 76
5203854 AAAAAATGTG
* * * * * *
5203864 ACCTTGATCGGAGGCTCTCCCCCTTGTACAGAACAAGGTGAACTAGACATCCTCACCATTCTCTT
1 ACCTTGATCAGAGGCTCTCCACCTTGTACAGAACAAGGTGAACCACACATCCTCACCATCCTCTC
5203929 TGCCTTTTTCC
66 TGCCTTTTTCC
* *
5203940 ACCTTGATCAGAGGCTCTCCACCTTTTCCAGAACAAGGTGAACCACACATCCTCACCATCCTCTC
1 ACCTTGATCAGAGGCTCTCCACCTTGTACAGAACAAGGTGAACCACACATCCTCACCATCCTCTC
*
5204005 TGTCTTTTTC
66 TGCCTTTTTC
5204015 GGTTAACCCA
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
76 66 1.00
ACGTcount: A:0.22, C:0.34, G:0.14, T:0.30
Consensus pattern (76 bp):
ACCTTGATCAGAGGCTCTCCACCTTGTACAGAACAAGGTGAACCACACATCCTCACCATCCTCTC
TGCCTTTTTCC
Found at i:5205716 original size:10 final size:10
Alignment explanation
Indices: 5205701--5205725 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
5205691 ATTCATATTT
5205701 TATAATCATA
1 TATAATCATA
5205711 TATAATCATA
1 TATAATCATA
5205721 TATAA
1 TATAA
5205726 CCTTATGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (10 bp):
TATAATCATA
Found at i:5205792 original size:22 final size:23
Alignment explanation
Indices: 5205767--5205811 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
5205757 CTAATTATTT
*
5205767 TTTTTGAATATTTATAT-TTTTA
1 TTTTTGAATATATATATATTTTA
* *
5205789 TTTTTTATTATATATATATTTTA
1 TTTTTGAATATATATATATTTTA
5205812 ACTTTAAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (23 bp):
TTTTTGAATATATATATATTTTA
Found at i:5205801 original size:24 final size:24
Alignment explanation
Indices: 5205761--5205810 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 24
5205751 TTTTTTCTAA
*
5205761 TTATTTTTTTTGAATATTTATATTT
1 TTATTTTTTTT-AATATATATATTT
5205786 TTATTTTTTATT-ATATATATATTT
1 TTATTTTTT-TTAATATATATATTT
5205810 T
1 T
5205811 AACTTTAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 12 0.52
25 9 0.39
26 2 0.09
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (24 bp):
TTATTTTTTTTAATATATATATTT
Found at i:5206225 original size:19 final size:22
Alignment explanation
Indices: 5206187--5206228 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
5206177 GTTATGATGT
5206187 AAAAATAAATATTTTATATATA
1 AAAAATAAATATTTTATATATA
*
5206209 AAAAAT-AATTTTTTATATAT
1 AAAAATAAATATTTTATATAT
5206229 TTTTATCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
AAAAATAAATATTTTATATATA
Found at i:5211550 original size:2 final size:2
Alignment explanation
Indices: 5211543--5211573 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
5211533 ACAATTTTCT
5211543 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
5211574 CAGTCAAAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:5218842 original size:17 final size:17
Alignment explanation
Indices: 5218822--5218857 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
5218812 TCCATAAAAT
5218822 GGTGCCGGCCATTTACA
1 GGTGCCGGCCATTTACA
5218839 GGTGCCGGCCATTTACA
1 GGTGCCGGCCATTTACA
5218856 GG
1 GG
5218858 CCAACATTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.17, C:0.28, G:0.33, T:0.22
Consensus pattern (17 bp):
GGTGCCGGCCATTTACA
Found at i:5218921 original size:51 final size:51
Alignment explanation
Indices: 5218839--5218953 Score: 133
Period size: 51 Copynumber: 2.3 Consensus size: 51
5218829 GCCATTTACA
* ** ***
5218839 GGTGCCGGCCATTTACAGGCCAACATTC-AAAATTTTTTTATTTCGTGTACT
1 GGTGCCGGCCATTTACAAGCCAACACCCAAAAAAAATTTT-TTTCGTGTACT
*
5218890 GGTGCCGGCTATTTACAAGCCAACACCCAAAAAAAATTTTTTTCGTGTACT
1 GGTGCCGGCCATTTACAAGCCAACACCCAAAAAAAATTTTTTTCGTGTACT
**
5218941 GGTGTTGGCCATT
1 GGTGCCGGCCATT
5218954 GACAGGTTAG
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
51 45 0.85
52 8 0.15
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (51 bp):
GGTGCCGGCCATTTACAAGCCAACACCCAAAAAAAATTTTTTTCGTGTACT
Found at i:5220889 original size:40 final size:40
Alignment explanation
Indices: 5220811--5220938 Score: 139
Period size: 40 Copynumber: 3.0 Consensus size: 40
5220801 ACCAAAAATT
*
5220811 TATTTTAAAAATTAAAATTAAAATTAAAAAAAAGTATTTTAAAAA
1 TATTTT-AAAATT-AAA--AAAATT-TAAAAAAGTATTTTAAAAA
5220856 TATTTTAAAATTAAAAAAATTTAAAAAAGTATTTTAAAAA
1 TATTTTAAAATTAAAAAAATTTAAAAAAGTATTTTAAAAA
* * *
5220896 AAATTTAAAATTTAAAAAATTTTTAAAAAAAAGTATTTTAAAA
1 TATTTTAAAA-TTAAAAAA-ATTT--AAAAAAGTATTTTAAAA
5220939 TTAAAAAAAA
Statistics
Matches: 75, Mismatches: 4, Indels: 9
0.85 0.05 0.10
Matches are distributed among these distances:
40 26 0.35
41 14 0.19
42 3 0.04
43 3 0.04
44 23 0.31
45 6 0.08
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (40 bp):
TATTTTAAAATTAAAAAAATTTAAAAAAGTATTTTAAAAA
Found at i:5220927 original size:32 final size:32
Alignment explanation
Indices: 5220871--5220956 Score: 88
Period size: 33 Copynumber: 2.7 Consensus size: 32
5220861 TAAAATTAAA
5220871 AAAATTTAAAAAAGTATTTTAAAAA-AAATTT
1 AAAATTTAAAAAAGTATTTTAAAAAGAAATTT
*
5220902 AAAATTTAAAAAA-T-TTTTAAAAAAAAGTATTTT
1 AAAATTTAAAAAAGTATTTTAAAAAGAA--A-TTT
* *
5220935 AAAATTAAAAAAAATATATTTA
1 AAAATTTAAAAAAGTAT-TTTA
5220957 TTATTCGGGC
Statistics
Matches: 47, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
29 9 0.19
30 3 0.06
31 13 0.28
32 1 0.02
33 15 0.32
34 1 0.02
35 1 0.02
36 4 0.09
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (32 bp):
AAAATTTAAAAAAGTATTTTAAAAAGAAATTT
Found at i:5220940 original size:40 final size:39
Alignment explanation
Indices: 5220818--5220938 Score: 120
Period size: 44 Copynumber: 2.9 Consensus size: 39
5220808 ATTTATTTTA
*
5220818 AAAATTAAAATTAAAATTAAAAAAAAGTATTTTAAAAATATTTT
1 AAAATTAAAA--AAATTTAAAAAAAAGTATTTT-AAAA-A-TTT
5220862 AAAATTAAAAAAATTT--AAAAAAGTATTTTAAAAAAAATTT
1 AAAATTAAAAAAATTTAAAAAAAAGTATTTT---AAAAATTT
*
5220902 AAAATTTAAAAAATTTTTAAAAAAAAGTATTTTAAAA
1 AAAA-TTAAAAAA-ATTTAAAAAAAAGTATTTTAAAA
5220939 TTAAAAAAAA
Statistics
Matches: 69, Mismatches: 2, Indels: 15
0.80 0.02 0.17
Matches are distributed among these distances:
40 20 0.29
41 13 0.19
42 13 0.19
44 23 0.33
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (39 bp):
AAAATTAAAAAAATTTAAAAAAAAGTATTTTAAAAATTT
Found at i:5221061 original size:32 final size:32
Alignment explanation
Indices: 5221020--5221091 Score: 144
Period size: 32 Copynumber: 2.2 Consensus size: 32
5221010 CGTTTTTTAA
5221020 TCGGGCCTCGTTTTTTTGGCCAAGCCCATATT
1 TCGGGCCTCGTTTTTTTGGCCAAGCCCATATT
5221052 TCGGGCCTCGTTTTTTTGGCCAAGCCCATATT
1 TCGGGCCTCGTTTTTTTGGCCAAGCCCATATT
5221084 TCGGGCCT
1 TCGGGCCT
5221092 ATATTTTTAC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.11, C:0.29, G:0.24, T:0.36
Consensus pattern (32 bp):
TCGGGCCTCGTTTTTTTGGCCAAGCCCATATT
Found at i:5221268 original size:50 final size:49
Alignment explanation
Indices: 5221206--5221322 Score: 135
Period size: 50 Copynumber: 2.3 Consensus size: 49
5221196 TAAATTTTTT
** * * *
5221206 TTTTCGTGTACTGGTTTCTGCTATTGACAAGCCAGCACTCAAAAAAAATC
1 TTTTCGTGTACTGGTGCCGGCCATTGACAAGCCAACAC-CAAAAAAAATC
* **
5221256 TTTTCGTTTACTGGTGCCGGCCATTGACAAGCCAACACCAAAAAAAAAAA
1 TTTTCGTGTACTGGTGCCGGCCATTGACAAGCCAACACC-AAAAAAAATC
*
5221306 TTTCCGTGTACTGGTGC
1 TTTTCGTGTACTGGTGC
5221323 TGGCTTTAGA
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
49 1 0.02
50 55 0.98
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (49 bp):
TTTTCGTGTACTGGTGCCGGCCATTGACAAGCCAACACCAAAAAAAATC
Found at i:5221857 original size:200 final size:200
Alignment explanation
Indices: 5221509--5221914 Score: 659
Period size: 200 Copynumber: 2.0 Consensus size: 200
5221499 AGCAAAACTG
* * *
5221509 AAACTTTGATACCTTTGAGCTATGCTTTTGAGTTTTACGGGTTCTATATCTTTTGTTTACTAAGT
1 AAAC-TTGATACCTTTGAGCTATGCTGTTGAGTGTTACGGGTTCTATATCTTTTGTTCACTAAGT
* *
5221574 TGGGAAAATATGATCATCCTTGTCTTTTTAGTTTTTCGAAACTCAAAACACTCCCACTACCTACT
65 TGGGAAAATATGATCATACTTGTCTTTTTAGTCTTTCGAAACTCAAAACACTCCCACTACCTACT
*
5221639 CTTTCTTTGGCTTTTATATTTTCTTCTTTCTTTTACACCTTAAAGCCTAAGAGTCTTACAAAAAT
130 CTTTCTTTGACTTTTATATTTTCTTCTTTCTTTTACACCTTAAAGCCTAAGAGTCTTACAAAAAT
*
5221704 TGCTTA
195 GGCTTA
5221710 AAACTTGATACCTTTGAGCTATGCTGTTGAGTGTTACGGGTTCTATATCTTTTGTTCACTAAGTT
1 AAACTTGATACCTTTGAGCTATGCTGTTGAGTGTTACGGGTTCTATATCTTTTGTTCACTAAGTT
* * *
5221775 GGGAAAATATGATCATACTTGTTTTTTTAGTCTTTCGAAACTTAAAACACTCTCACTACCTACTC
66 GGGAAAATATGATCATACTTGTCTTTTTAGTCTTTCGAAACTCAAAACACTCCCACTACCTACTC
* * * * * *
5221840 TTTCTTTTACTTTTATATTTTCTTCTTTTTTTTACACCTTAAAGCCTGAGAGTTTTATAAGAATG
131 TTTCTTTGACTTTTATATTTTCTTCTTTCTTTTACACCTTAAAGCCTAAGAGTCTTACAAAAATG
5221905 GCTTA
196 GCTTA
5221910 AAACT
1 AAACT
5221915 GTTAAAATAA
Statistics
Matches: 189, Mismatches: 16, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
200 185 0.98
201 4 0.02
ACGTcount: A:0.25, C:0.18, G:0.13, T:0.44
Consensus pattern (200 bp):
AAACTTGATACCTTTGAGCTATGCTGTTGAGTGTTACGGGTTCTATATCTTTTGTTCACTAAGTT
GGGAAAATATGATCATACTTGTCTTTTTAGTCTTTCGAAACTCAAAACACTCCCACTACCTACTC
TTTCTTTGACTTTTATATTTTCTTCTTTCTTTTACACCTTAAAGCCTAAGAGTCTTACAAAAATG
GCTTA
Found at i:5222041 original size:45 final size:46
Alignment explanation
Indices: 5221952--5222090 Score: 120
Period size: 47 Copynumber: 3.0 Consensus size: 46
5221942 CACCTAATTT
* * * * * *
5221952 TTTTTTTCGTGTACTGGTGTCACCCATTGACA-GTCAGTACCT-AAA
1 TTTTTTTCGTGTACTGGTTTCAGCAATTGATAGGCCAGCA-CTAAAA
*
5221997 TTTTTTTCGTGTACTGGTTTCGGCAATTGATAGGCCAGCACTAAAAA
1 TTTTTTTCGTGTACTGGTTTCAGCAATTGATAGGCCAGCACT-AAAA
**** * *
5222044 AAAGTTTCATGTACTGGTTTCTGCAATTGATAGGCCAGCACTCAAAA
1 TTTTTTTCGTGTACTGGTTTCAGCAATTGATAGGCCAGCACT-AAAA
5222091 ATAAAATTTT
Statistics
Matches: 77, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
45 29 0.38
46 5 0.06
47 43 0.56
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (46 bp):
TTTTTTTCGTGTACTGGTTTCAGCAATTGATAGGCCAGCACTAAAA
Found at i:5222062 original size:47 final size:47
Alignment explanation
Indices: 5222001--5222091 Score: 155
Period size: 47 Copynumber: 1.9 Consensus size: 47
5221991 CCTAAATTTT
*
5222001 TTTCGTGTACTGGTTTCGGCAATTGATAGGCCAGCACTAAAAAAAAG
1 TTTCATGTACTGGTTTCGGCAATTGATAGGCCAGCACTAAAAAAAAG
* *
5222048 TTTCATGTACTGGTTTCTGCAATTGATAGGCCAGCACTCAAAAA
1 TTTCATGTACTGGTTTCGGCAATTGATAGGCCAGCACTAAAAAA
5222092 TAAAATTTTC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 41 1.00
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.30
Consensus pattern (47 bp):
TTTCATGTACTGGTTTCGGCAATTGATAGGCCAGCACTAAAAAAAAG
Found at i:5222662 original size:49 final size:49
Alignment explanation
Indices: 5222562--5222715 Score: 137
Period size: 49 Copynumber: 3.1 Consensus size: 49
5222552 GTAATAATAA
*
5222562 TGACACGCCAGCACCCAAATTTTTTTTTTCATGTACTGGTGCCACCCAT
1 TGACAAGCCAGCACCCAAATTTTTTTTTTCATGTACTGGTGCCACCCAT
** * * ** ** *
5222611 TGACTGGCCAGCACCTAAATTTTTTTTTTCGTGTACTGGTTTCTGCTAT
1 TGACAAGCCAGCACCCAAATTTTTTTTTTCATGTACTGGTGCCACCCAT
* ** * * * *
5222660 TGACAAGCCAGCACTCAAAAAAATTTATTTTCGTTTACTGGTGCCAGCCAT
1 TGACAAGCCAGCAC-C-CAAATTTTTTTTTTCATGTACTGGTGCCACCCAT
5222711 TGACA
1 TGACA
5222716 GGCAATCACC
Statistics
Matches: 83, Mismatches: 20, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
49 52 0.63
50 1 0.01
51 30 0.36
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.35
Consensus pattern (49 bp):
TGACAAGCCAGCACCCAAATTTTTTTTTTCATGTACTGGTGCCACCCAT
Found at i:5222713 original size:51 final size:50
Alignment explanation
Indices: 5222583--5222755 Score: 177
Period size: 51 Copynumber: 3.4 Consensus size: 50
5222573 CACCCAAATT
* * * * **
5222583 TTTTTTTTCATGTACTGGTGCCACCCATTGACTGGCCAGCACC-TAAATT
1 TTTTTTTTCGTGTACTGGTGCCAGCCATTGACAGGCCAGCACCAAAAAAA
** * * *
5222632 TTTTTTTTCGTGTACTGGTTTCTGCTATTGACAAGCCAGCACTCAAAAAAA
1 TTTTTTTTCGTGTACTGGTGCCAGCCATTGACAGGCCAGCAC-CAAAAAAA
* * * *
5222683 TTTATTTTCGTTTACTGGTGCCAGCCATTGACAGGCAATCACCAAAAAAA
1 TTTTTTTTCGTGTACTGGTGCCAGCCATTGACAGGCCAGCACCAAAAAAA
5222733 TATTTTTTTCCGTGTACTGGTGC
1 T-TTTTTTT-CGTGTACTGGTGC
5222756 TAGCTTTAGA
Statistics
Matches: 98, Mismatches: 22, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
49 34 0.35
50 10 0.10
51 42 0.43
52 12 0.12
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.37
Consensus pattern (50 bp):
TTTTTTTTCGTGTACTGGTGCCAGCCATTGACAGGCCAGCACCAAAAAAA
Found at i:5223346 original size:52 final size:51
Alignment explanation
Indices: 5223177--5223349 Score: 147
Period size: 52 Copynumber: 3.4 Consensus size: 51
5223167 AGCTCCAAAT
* * *
5223177 TTTTTTTTTCATGTACTGGTGCCGCCCATTGACAGGCCAGCACC--TAAAA
1 TTTTTTTTTCATGTACTGGTGCCGGCTATTGACAGGCCAGCACCAAAAAAA
* * ** * *
5223226 -CTTTTTTTCGTGTACTGGTTTCTGCTATTGACAAGCCAGC-CCTAAAAAAAA
1 TTTTTTTTTCATGTACTGGTGCCGGCTATTGACAGGCCAGCACC--AAAAAAA
** * * * *
5223277 AATTCTTTTCATTTACTGGTGCCGGTTATTGACAGGCCAGCACCAACAAAA
1 TTTTTTTTTCATGTACTGGTGCCGGCTATTGACAGGCCAGCACCAAAAAAA
*
5223328 TTTTTTTTTCCGTGTACTGGTG
1 TTTTTTTTT-CATGTACTGGTG
5223350 TTGGCTTTAG
Statistics
Matches: 93, Mismatches: 24, Indels: 11
0.73 0.19 0.09
Matches are distributed among these distances:
47 2 0.02
48 32 0.34
51 16 0.17
52 41 0.44
53 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.36
Consensus pattern (51 bp):
TTTTTTTTTCATGTACTGGTGCCGGCTATTGACAGGCCAGCACCAAAAAAA
Found at i:5224936 original size:77 final size:77
Alignment explanation
Indices: 5224855--5225008 Score: 308
Period size: 77 Copynumber: 2.0 Consensus size: 77
5224845 CAAAATTATA
5224855 ATAGTAATAATGACATGCCAGTACCAATTTTTTTTTTCATGTACTGGTGCCGCCCATTGACAGGC
1 ATAGTAATAATGACATGCCAGTACCAATTTTTTTTTTCATGTACTGGTGCCGCCCATTGACAGGC
5224920 TAGCACCTAAAT
66 TAGCACCTAAAT
5224932 ATAGTAATAATGACATGCCAGTACCAATTTTTTTTTTCATGTACTGGTGCCGCCCATTGACAGGC
1 ATAGTAATAATGACATGCCAGTACCAATTTTTTTTTTCATGTACTGGTGCCGCCCATTGACAGGC
5224997 TAGCACCTAAAT
66 TAGCACCTAAAT
5225009 TTTTTTTTCA
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
77 77 1.00
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (77 bp):
ATAGTAATAATGACATGCCAGTACCAATTTTTTTTTTCATGTACTGGTGCCGCCCATTGACAGGC
TAGCACCTAAAT
Found at i:5226901 original size:494 final size:484
Alignment explanation
Indices: 5225942--5226908 Score: 1366
Period size: 494 Copynumber: 2.0 Consensus size: 484
5225932 CTGGTTTTCT
* *
5225942 GTGTTACGGGTTCTATATCTTTTGTTTACAAAATTGGAAAAATATGATCATCCTTACCTTTTTAG
1 GTGTTACGGGTTCTATATATTTTGTTCACAAAATTGGAAAAATATGATCATCCTTACCTTTTTAG
* *
5226007 TCTTTCGAAACTCAAAACACTCACACTACCTACTTTTTCTTTGGCTTATATATTTTGTTTTTTTT
66 TCTTTCGAAACTCAAAACACTCACACTACCTACTCTTTCTTTGGCTTATATATTTTCTTTTTTTT
* * *
5226072 TGCACCTTAAAACCTAACAGTTTTACAAAAATGACTCAAAACTATAATAATAATGACATGCCAGC
131 TGAACCTTAAAACCTAACAGTCTTACAAAAATGACTCAAAACTATAATAATAATGACACGCCAGC
*** * * *
5226137 AACAATTTCTTTTTTCATGTACTGGTGCCGTCCATTGATAGGCTAGCACCTAAAATTTTTTTTTC
196 AACAATAAATTTTTTCATGTACTGGTGCCGCCCATTGACAGGCCAGCACCTAAAATTTTTTTTTC
*
5226202 GTGTACTGGTTTCTGCTATTGACAAGCCAGCACTCAAAAAAAAATTCATGTATTAGTGCCGGCCA
261 GTGTACCGGTTTCTGCTATTGACAAGCCAGCACTCAAAAAAAAATTCATGTATTAGTGCCGGCCA
* * *
5226267 TCCACAGGCCAGCACAAAAAAAAGTTTTTCCGTTTACTGGTGCTGGCTTTAAAATATGTAATGTG
326 TCCAAAGGCAAGCACAAAAAAAAGTTTTTCCGTGTACTGGTGCTGGCTTTAAAATATGTAATGTG
* *
5226332 AAATAAAATTTAAGGACTGTTGAGAAACTTTACCTTAAATTAATAATTTCAAATAAATTAGATTT
391 AAATAAAATTTAAGGACTGTTGAGAAACTTTACCTTAAATTAATAATTTCAAATAAATCAAATTT
5226397 TCTATTTTTAGTTCATACAAGTTTGACAG
456 TCTATTTTTAGTTCATACAAGTTTGACAG
* * *
5226426 GTGTTACGGGTTCTATATATTTTGTTCACAAAGTTGGAAAAATATGATTATCCTTGCCTTTTTAG
1 GTGTTACGGGTTCTATATATTTTGTTCACAAAATTGGAAAAATATGATCATCCTTACCTTTTTAG
* *
5226491 TCTTTCGAAACTCAAAACACTCCCACTACCTACTCTTTCTTTGGCTTTTATATTTTCTTCTTTTT
66 TCTTTCGAAACTCAAAACACTCACACTACCTACTCTTTCTTTGGCTTATATATTTTCTT-TTTTT
* *
5226556 TCTGAACCTTAAAGCCTAAGAGTCTTACAAAAATGACTCAAAACTGTAATAATAATAATGACACG
130 T-TGAACCTTAAAACCTAACAGTCTTACAAAAATGACTCAAAAC--T-ATAATAATAATGACACG
*
5226621 CCAGCACCCAA-AAATTTTTTCATGTACTGGTGCCGCCCATTGACAGGCCAGCACCTAAAATTAT
191 CCAGCA-ACAATAAATTTTTTCATGTACTGGTGCCGCCCATTGACAGGCCAGCACCTAAAATT-T
* * **
5226685 TTTTCTTCGTGTACCGGTTTCTGCTATTGACAAGGCAGCACT-ATAAAAAAATCTTTTCGT-TTA
254 TTTT-TTCGTGTACCGGTTTCTGCTATTGACAAGCCAGCACTCAAAAAAAAAT-TCAT-GTATTA
** * * **** * *
5226748 CTGGTGCCGGCCATTGAAAGGCAATCACCAAAATTTTTTTTTTCGTGTACTGGTGCTGGCTTTAG
316 ---GTGCCGGCCATCCAAAGGCAAGCACAAAAAAAAGTTTTTCCGTGTACTGGTGCTGGCTTTAA
* ** *
5226813 AATATGTAATGTTAAATAAAATTTTGGGACTGTTGATG-AACTTTACCTTAAATTAGTAATTTCA
378 AATATGTAATGTGAAATAAAATTTAAGGACTGTTGA-GAAACTTTACCTTAAATTAATAATTTCA
*
5226877 ATTAAATCAAATTTTCTATTTTTAGTTCATAC
442 AATAAATCAAATTTTCTATTTTTAGTTCATAC
5226909 TGGTATGACA
Statistics
Matches: 423, Mismatches: 46, Indels: 18
0.87 0.09 0.04
Matches are distributed among these distances:
484 115 0.27
485 6 0.01
486 38 0.09
488 1 0.00
489 67 0.16
490 17 0.04
491 40 0.09
492 2 0.00
494 136 0.32
495 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (484 bp):
GTGTTACGGGTTCTATATATTTTGTTCACAAAATTGGAAAAATATGATCATCCTTACCTTTTTAG
TCTTTCGAAACTCAAAACACTCACACTACCTACTCTTTCTTTGGCTTATATATTTTCTTTTTTTT
TGAACCTTAAAACCTAACAGTCTTACAAAAATGACTCAAAACTATAATAATAATGACACGCCAGC
AACAATAAATTTTTTCATGTACTGGTGCCGCCCATTGACAGGCCAGCACCTAAAATTTTTTTTTC
GTGTACCGGTTTCTGCTATTGACAAGCCAGCACTCAAAAAAAAATTCATGTATTAGTGCCGGCCA
TCCAAAGGCAAGCACAAAAAAAAGTTTTTCCGTGTACTGGTGCTGGCTTTAAAATATGTAATGTG
AAATAAAATTTAAGGACTGTTGAGAAACTTTACCTTAAATTAATAATTTCAAATAAATCAAATTT
TCTATTTTTAGTTCATACAAGTTTGACAG
Found at i:5227285 original size:48 final size:45
Alignment explanation
Indices: 5227201--5227353 Score: 126
Period size: 48 Copynumber: 3.2 Consensus size: 45
5227191 ATAATAATAA
* * *
5227201 TGACATGCCAGCACCAAATTTTTTTTCATGTACTGGTGCCGCCCAT
1 TGACAGGCCAGCTCCAAATTTTTTTTCGTGTACTGGTGCCG-CCAT
* * *
5227247 TGACAGGCCAGCTCCTAAATTTTTTTTTCGTGTACTGGTTTCTGCTAT
1 TGACAGGCCAGCTCC-AAA-TTTTTTTTCGTGTACTGG-TGCCGCCAT
* * * *
5227295 TGACAAGCCAGCACTCAAAAAAATTTATTTTCGTTTACTGGTGCCGGCCAT
1 TGACAGGCCAG--CTC---CAAATTTTTTTTCGTGTACTGGTGCC-GCCAT
5227346 TGACAGGC
1 TGACAGGC
5227354 AATCACCAAA
Statistics
Matches: 84, Mismatches: 14, Indels: 13
0.76 0.13 0.12
Matches are distributed among these distances:
46 13 0.15
47 3 0.04
48 30 0.36
49 3 0.04
50 5 0.06
51 27 0.32
52 3 0.04
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.34
Consensus pattern (45 bp):
TGACAGGCCAGCTCCAAATTTTTTTTCGTGTACTGGTGCCGCCAT
Found at i:5227348 original size:51 final size:51
Alignment explanation
Indices: 5227216--5227390 Score: 169
Period size: 51 Copynumber: 3.5 Consensus size: 51
5227206 TGCCAGCACC
* * **
5227216 AAATTTTTTTTCATGTACTGGTGCCGCCCATTGACAGGCCAG--CTC-CTA
1 AAATTTTTTTTCGTGTACTGGTGCCGGCCATTGACAGGCCAGCACTCAAAA
* ** * * *
5227264 AATTTTTTTTTCGTGTACTGGTTTCTGCTATTGACAAGCCAGCACTCAAAA
1 AAATTTTTTTTCGTGTACTGGTGCCGGCCATTGACAGGCCAGCACTCAAAA
* * * *
5227315 AAATTTATTTTCGTTTACTGGTGCCGGCCATTGACAGGCAATCAC-CAAAA
1 AAATTTTTTTTCGTGTACTGGTGCCGGCCATTGACAGGCCAGCACTCAAAA
*
5227365 AGATATTTTTTTCCGTGTACTGGTGC
1 A-A-ATTTTTTTTCGTGTACTGGTGC
5227391 TGGCTTTAAA
Statistics
Matches: 99, Mismatches: 23, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
48 34 0.34
50 9 0.09
51 37 0.37
52 19 0.19
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.36
Consensus pattern (51 bp):
AAATTTTTTTTCGTGTACTGGTGCCGGCCATTGACAGGCCAGCACTCAAAA
Found at i:5228011 original size:62 final size:62
Alignment explanation
Indices: 5227914--5228038 Score: 250
Period size: 62 Copynumber: 2.0 Consensus size: 62
5227904 CCGGCCATTG
5227914 ACAGGCAATCACCAAAAAAATATTTTTCTTTTCATGTACTGGTGCTGACTTTAGAATATGTA
1 ACAGGCAATCACCAAAAAAATATTTTTCTTTTCATGTACTGGTGCTGACTTTAGAATATGTA
5227976 ACAGGCAATCACCAAAAAAATATTTTTCTTTTCATGTACTGGTGCTGACTTTAGAATATGTA
1 ACAGGCAATCACCAAAAAAATATTTTTCTTTTCATGTACTGGTGCTGACTTTAGAATATGTA
5228038 A
1 A
5228039 TGTTAAATAA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 63 1.00
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.35
Consensus pattern (62 bp):
ACAGGCAATCACCAAAAAAATATTTTTCTTTTCATGTACTGGTGCTGACTTTAGAATATGTA
Found at i:5229103 original size:591 final size:592
Alignment explanation
Indices: 5228933--5231233 Score: 3186
Period size: 591 Copynumber: 3.9 Consensus size: 592
5228923 ATACTCTTTC
* * *
5228933 TTTGACTTTTATATTTTGTTC-TTTTTTCTGCACCTTAAAGCTTAAGAGTCTTTCAAAAATGACT
1 TTTGGCTTTTATATTTTGTTCTTTTTTTCTGCACCTTAAAGCCTAAGAGTCTTACAAAAATGACT
** * * *
5228997 CAAAACTGTAATAATAATGACACGGTAGCACCCAAAATTTTTTCTTCATTTACTGGTGCCACCCA
66 CAAAACTGTAATAATAATGACACGCCAGCACCCAAAATTTTTTTTTCATGTACTGGTGCCGCCCA
*
5229062 TTGACAGGCCATCACCTAAATTTTTTTTTAGTATACTGGTTTCTGCTATTGACAAGGCAACACT-
131 TTGACAGGCCAGCACCTAAATTTTTTTTTAGTATACTGGTTTCTGCTATTGACAAGGCAACACTA
* * * *
5229126 CAAAAAAAATTATTTTCGTTTATTGGTGCCGGCCATTGACAGGCAATCACCAAAAAAATA-TTTT
196 AAAAAAAAATTCTTTTCGTTTACTGGTGCCGGCCATTGACAGACAATCACCAAAAAAATATTTTT
* * *
5229190 TTCCGTGTACTGGTGTTGGCTTTAGAATATGTATTATTAAATAAAATTTTGGGACTGTTGATGAA
261 TTCCGTGTACTGGTGCTGGCTTTAGAATATGTAATGTTAAATAAAATTTTGGGACTGTTGATGAA
* *
5229255 CTTTACCTTAAATTAGTAATTTTAATTAAATCAGATTTTCTATTTTTAGTTCATACAGGTATGAC
326 CTTTACCTTAAATTAGTAATTTCAATTAAATCAAATTTTCTATTTTTAGTTCATACAGGTATGAC
5229320 AGTGAACAAAAAACAGAGACAATGACAGACACCCTTGCTCCGGGAAAGATT-GGATTATCTGAAA
391 AGTGAACAAAAAACAGAGACAATGACAGACACCCTTGCTCCGGGAAAG-TTAGGATTATCTGAAA
* * * * * * * *
5229384 TTTAAACTTTGATACCCTTGAGCTTTGCTTTTAAGTGTTTCGGGTTTTATATATTTTATTCACAC
455 CTGAAACTTTGATACCCTTGAGCTTTGCTTTTGAGTGTTACGGGTTCTATATCTTTTGTTCACAA
* * * *
5229449 AGTTGGAAAAATATGATCATTCTTGCCTTTTTAATCTTTCGAAACACAAAACACTCCCACTACCT
520 AGTTGGAAAAATATGATCATCCTTGCCTTTTTAGTCTTTCGAAACTCAAAACACTCCTACTACCT
5229514 ACTCTTTC
585 ACTCTTTC
*
5229522 TTTGGCTTTTATATTTTGTTCTTTTTTTTTGCACCTTAAAGCCTAAGAGTCTTACAAAAATGACT
1 TTTGGCTTTTATATTTTGTTCTTTTTTTCTGCACCTTAAAGCCTAAGAGTCTTACAAAAATGACT
* * * * *
5229587 CAAAATTATAATAATAATAATGACATGCCAGTA-CC-AATTTTTTTTTTCATGTACTGGTGCCGC
66 CAAAA--CT-GTAATAATAATGACACGCCAGCACCCAAAATTTTTTTTTCATGTACTGGTGCCGC
* * *
5229650 CCATTGACAGGCTAGCACCTAAATTTTTTTTTCATGTAT--TGGTTTCTGCTATAGACAAGCCAA
128 CCATTGACAGGCCAGCACCTAAATTTTTTTTT-A-GTATACTGGTTTCTGCTATTGACAAGGCAA
* ** *
5229713 TACTCAAAAAAAAAAATTCTTTTCGTTTACTGGTGCCGGTTATTGACAGACCATCACCAACAAAA
191 CACT--AAAAAAAAAATTCTTTTCGTTTACTGGTGCCGGCCATTGACAGACAATCACCAA-AAAA
* * **
5229778 TTTTTTTTTTCCGTGTACTGGTGCTGGCTTTAGAATATGTAATGTTAAATAAAATTGAGGGACTG
253 ATATTTTTTTCCGTGTACTGGTGCTGGCTTTAGAATATGTAATGTTAAATAAAATTTTGGGACTG
* * *
5229843 TAT-ATGAACTTTTCCTTAAATTAGTAATTTCAATTAAATCAGATTTTCAATTTTTAGTTCATAC
318 T-TGATGAACTTTACCTTAAATTAGTAATTTCAATTAAATCAAATTTTCTATTTTTAGTTCATAC
* * *
5229907 AGGTATGACAGTGAACAAAAAACAGAGACAATGACAAACACCCTTGCTCTGGGAAAGTTAAGATT
382 AGGTATGACAGTGAACAAAAAACAGAGACAATGACAGACACCCTTGCTCCGGGAAAGTT-AG--G
* *
5229972 ATCTGAAACTGAAACTGAAACTGAAACTTTGATACCTTTGAGCTTTGCTTTTGAATGTTACGGGT
444 AT-T---A-T----CTGAAACTGAAACTTTGATACCCTTGAGCTTTGCTTTTGAGTGTTACGGGT
* * * * * *
5230037 TCTATATCTTTTGTTCATAAAATTGGAAAATTATGATTAACCTTGCCTTTTTAGTTTTTCGAAAC
500 TCTATATCTTTTGTTCACAAAGTTGGAAAAATATGATCATCCTTGCCTTTTTAGTCTTTCGAAAC
*
5230102 TCAAAACACTACTACTACCTA--C--TC
565 TCAAAACACTCCTACTACCTACTCTTTC
* * *
5230126 TTTGGCTTTTATATTTTCTTCTTTTTTTTTGCACCTTAAAGCCTAAAAGTCTTACAAAAATGACT
1 TTTGGCTTTTATATTTTGTTCTTTTTTTCTGCACCTTAAAGCCTAAGAGTCTTACAAAAATGACT
**
5230191 CAAAACTGTAATAATAATGACACGCCAGCACTTAAAA-TTTTTTTTCATGTACTGGTGCCGCCCA
66 CAAAACTGTAATAATAATGACACGCCAGCACCCAAAATTTTTTTTTCATGTACTGGTGCCGCCCA
* * * *
5230255 TTAACAGGCCAGCACCTAAATTTTTTTTTTCGTATACTGGTTTCTGCTATTGATAAGGCAGCACT
131 TTGACAGGCCAGCACCTAAA-TTTTTTTTTAGTATACTGGTTTCTGCTATTGACAAGGCAACACT
* *
5230320 -AAAAAAAAATTCTTATCGTTTACTGGTGCCGGCCATTGACAGACAGTCACCAAAAAAATATTTT
195 AAAAAAAAAATTCTTTTCGTTTACTGGTGCCGGCCATTGACAGACAATCACCAAAAAAATA--TT
* *
5230384 TTTTTCCGTGTACTGGTGTTGGCTTTAGAATATGTAATGTTAAATAAAATTTTGGGACTATTGAT
258 TTTTTCCGTGTACTGGTGCTGGCTTTAGAATATGTAATGTTAAATAAAATTTTGGGACTGTTGAT
*
5230449 GAGCTTTACCTTAAATTAGTAATTTCAATTAAAT-AAGATTTTCTATTTTTAGTTCATACAGGTA
323 GAACTTTACCTTAAATTAGTAATTTCAATTAAATCAA-ATTTTCTATTTTTAGTTCATACAGGTA
* * * *
5230513 TGACAGTGAA-AAAAAACAGAGACAGTAACAGACACCCTTGCTTCGGGAAAGTTAGAATTATCTG
387 TGACAGTGAACAAAAAACAGAGACAATGACAGACACCCTTGCTCCGGGAAAGTTAGGATTATCTG
* ** *
5230577 AAACTGAAACTTTGATACCCTTGAGCTTTGGTTTTTTGTGTTACGGGTTCTATATCTTTTGTTTA
452 AAACTGAAACTTTGATACCCTTGAGCTTTGCTTTTGAGTGTTACGGGTTCTATATCTTTTGTTCA
*
5230642 GAAAGTTGGAAAAATATGATCATCCTTGCCTTTTTAGTCTTTCGAAACTCAAAACACTCCTACTA
517 CAAAGTTGGAAAAATATGATCATCCTTGCCTTTTTAGTCTTTCGAAACTCAAAACACTCCTACTA
5230707 CCTACTCTTTC
582 CCTACTCTTTC
* * * * *
5230718 TTTGGTTTTTATATTTTATTC-TTTTTTCTCCACCATAAAGCCTAAGAGTCTTTCAAAAATGACT
1 TTTGGCTTTTATATTTTGTTCTTTTTTTCTGCACCTTAAAGCCTAAGAGTCTTACAAAAATGACT
* * *
5230782 CAAAACTGTAATAATAATGACACACCAGC-CCCCAAATTTTTTTTTCATATA-TGGTGCCGCCCA
66 CAAAACTGTAATAATAATGACACGCCAGCACCCAAAATTTTTTTTTCATGTACTGGTGCCGCCCA
* * * *
5230845 TTGACAAGCCAGCACCTAAAATTATTTTTCTTCGTGTACTGGTTTCGGCTATTGACAAGGCAACA
131 TTGACAGGCCAGCACCT-AAATT-TTTTT-TTAGTATACTGGTTTCTGCTATTGACAAGGCAACA
* * * * **
5230910 CTCAAAAAAAAATTCTTTTCGTTTACTGGTGCTGGCCATTGAAAGGCAATCACCAAAAAAA-AAA
193 CTAAAAAAAAAATTCTTTTCGTTTACTGGTGCCGGCCATTGACAGACAATCACCAAAAAAATATT
* * *
5230974 ATTTTCCGTGTACTGGTGCTGGCTTTAGAATATGTATTGTTAAAAAAAATTTTGGGACTGTTGAT
258 TTTTTCCGTGTACTGGTGCTGGCTTTAGAATATGTAATGTTAAATAAAATTTTGGGACTGTTGAT
*
5231039 GAACTTTACCTTAAATTAGTAATTTCAATTAAATCAAATTTTCTATTTTTAGTTCATAAAGGTAT
323 GAACTTTACCTTAAATTAGTAATTTCAATTAAATCAAATTTTCTATTTTTAGTTCATACAGGTAT
* * * **
5231104 GACAGTAAATAAAAAACAGAGGCAATGACAGACACTTTTGCTCCGGGAAAGTTAGGATTATCTGA
388 GACAGTGAACAAAAAACAGAGACAATGACAGACACCCTTGCTCCGGGAAAGTTAGGATTATCTGA
5231169 AACTGAAACTTTGATACCCTTGAGCTTTGCTTTTGAGTGTTACGGGTTCTATATCTTTTGTTCAC
453 AACTGAAACTTTGATACCCTTGAGCTTTGCTTTTGAGTGTTACGGGTTCTATATCTTTTGTTCAC
5231234 TAAATTTTTT
Statistics
Matches: 1511, Mismatches: 156, Indels: 88
0.86 0.09 0.05
Matches are distributed among these distances:
588 124 0.08
589 20 0.01
590 207 0.14
591 276 0.18
592 60 0.04
593 76 0.05
594 46 0.03
595 7 0.00
596 171 0.11
597 4 0.00
599 9 0.01
600 89 0.06
601 153 0.10
602 46 0.03
603 35 0.02
604 71 0.05
606 1 0.00
608 116 0.08
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (592 bp):
TTTGGCTTTTATATTTTGTTCTTTTTTTCTGCACCTTAAAGCCTAAGAGTCTTACAAAAATGACT
CAAAACTGTAATAATAATGACACGCCAGCACCCAAAATTTTTTTTTCATGTACTGGTGCCGCCCA
TTGACAGGCCAGCACCTAAATTTTTTTTTAGTATACTGGTTTCTGCTATTGACAAGGCAACACTA
AAAAAAAAATTCTTTTCGTTTACTGGTGCCGGCCATTGACAGACAATCACCAAAAAAATATTTTT
TTCCGTGTACTGGTGCTGGCTTTAGAATATGTAATGTTAAATAAAATTTTGGGACTGTTGATGAA
CTTTACCTTAAATTAGTAATTTCAATTAAATCAAATTTTCTATTTTTAGTTCATACAGGTATGAC
AGTGAACAAAAAACAGAGACAATGACAGACACCCTTGCTCCGGGAAAGTTAGGATTATCTGAAAC
TGAAACTTTGATACCCTTGAGCTTTGCTTTTGAGTGTTACGGGTTCTATATCTTTTGTTCACAAA
GTTGGAAAAATATGATCATCCTTGCCTTTTTAGTCTTTCGAAACTCAAAACACTCCTACTACCTA
CTCTTTC
Found at i:5229985 original size:6 final size:6
Alignment explanation
Indices: 5229974--5229999 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
5229964 TTAAGATTAT
5229974 CTGAAA CTGAAA CTGAAA CTGAAA CT
1 CTGAAA CTGAAA CTGAAA CTGAAA CT
5230000 TTGATACCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.46, C:0.19, G:0.15, T:0.19
Consensus pattern (6 bp):
CTGAAA
Found at i:5230937 original size:52 final size:51
Alignment explanation
Indices: 5230875--5230996 Score: 142
Period size: 52 Copynumber: 2.4 Consensus size: 51
5230865 ATTATTTTTC
* *
5230875 TTCGTGTACTGGT-TTCGGCTATTGACAAGGCAA-CACTCAAAAAAAAATTCTT
1 TTCGTGTACTGGTGCT-GGCCATTGA-AAGGCAATCAC-CAAAAAAAAATTCTT
* *
5230927 TTCGTTTACTGGTGCTGGCCATTGAAAGGCAATCACCAAAAAAAAAAAT-TT
1 TTCGTGTACTGGTGCTGGCCATTGAAAGGCAATCACC-AAAAAAAAATTCTT
*
5230978 TCCGTGTACTGGTGCTGGC
1 TTCGTGTACTGGTGCTGGC
5230997 TTTAGAATAT
Statistics
Matches: 61, Mismatches: 6, Indels: 7
0.82 0.08 0.09
Matches are distributed among these distances:
51 27 0.44
52 33 0.54
53 1 0.02
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (51 bp):
TTCGTGTACTGGTGCTGGCCATTGAAAGGCAATCACCAAAAAAAAATTCTT
Found at i:5231286 original size:591 final size:588
Alignment explanation
Indices: 5226426--5231233 Score: 5379
Period size: 590 Copynumber: 8.0 Consensus size: 588
5226416 AGTTTGACAG
* * *
5226426 GTGTTACGGGTTCTATATATTTTGTTCACAAAGTTGGAAAAATATGATTATCCTTGCCTTTTTAG
1 GTGTTACGGGTTCTATATCTTTTGTTCACAAAGTTGGAAAAATATGATCATTCTTGCCTTTTTAG
*
5226491 TCTTTCGAAACTCAAAACACTCCCACTACCTACTCTTTCTTTGGCTTTTATATTTTCTTCTTTTT
66 TC-TTCGAAACTCAAAACACTCCTACTACCTACTCTTTCTTTGGCTTTTATATTTTCTTCTTTTT
*
5226556 TCTGAACCTTAAAGCCTAAGAGTCTTACAAAAATGACTCAAAACTGTAATAATAATAATGACACG
130 TCTGCACCTTAAAGCCTAAGAGTCTTACAAAAATGACTCAAAACTG---TAATAATAATGACACG
**
5226621 CCAGCACCCAAA-AATTTTTTCATGTACTGGTGCCGCCCATTGACAGGCCAGCACCTAAAATTAT
192 CCAGCACCCAAATTTTTTTTTCATGTACTGGTGCCGCCCATTGACAGGCCAGCACCT-AAATT-T
* *
5226685 TTTTCTTCGTGTACCGGTTTCTGCTATTGACAAGGCAGCACT-ATAAAAAAA-TCTTTTCGTTTA
255 TTTT-TTCGTGTACTGGTTTCTGCTATTGACAAGGCAGCACTCAAAAAAAAATTCTTTTCGTTTA
* ** *
5226748 CTGGTGCCGGCCATTGAAAGGCAATCACC--AAAATTTTTTTTTTCGTGTACTGGTGCTGGCTTT
319 CTGGTGCCGGCCATTGACAGGCAATCACCAAAAAAAATTTTTTTCCGTGTACTGGTGCTGGCTTT
5226811 AGAATATGTAATGTTAAATAAAATTTTGGGACTGTTGATGAACTTTACCTTAAATTAGTAATTTC
384 AGAATATGTAATGTTAAATAAAATTTTGGGACTGTTGATGAACTTTACCTTAAATTAGTAATTTC
* * *
5226876 AATTAAATCAAATTTTCTATTTTTAGTTCATACTGGTATGACAGTAAACAAAAAACAGAGGCAAT
449 AATTAAATCAAATTTTCTATTTTTAGTTCATACAGGTATGACAGTGAACAAAAAACAGAGACAAT
* * * **
5226941 GACAGACACTCTTTCTCTGGGAAAGTTAGGATTATCTGAAACTGAAACTTTGATACTTTTGAGCT
514 GACAGACACCCTTGCTCCGGGAAAGTTAGGATTATCTGAAACTGAAACTTTGATACCCTTGAGCT
5227006 TTGCTTTTGA
579 TTGCTTTTGA
* *
5227016 GTGTTACGGGTTCTATATCTTTTGTTGACAAAGTTGGAAAAATATGATCATCCTTGCCTTTTTAG
1 GTGTTACGGGTTCTATATCTTTTGTTCACAAAGTTGGAAAAATATGATCATTCTTGCCTTTTTAG
*
5227081 TCTTTCGAAGCTCAAAACACTCCTACTACCTACTCTTTCTTTGGCTTTTATATTTT-TGTACTTT
66 TC-TTCGAAACTCAAAACACTCCTACTACCTACTCTTTCTTTGGCTTTTATATTTTCT-T-CTTT
* * * *
5227145 TTT-TGCACCTTAAAGCATAAGAGTCTTACAAAAATGACTGAAAACTATAATAATAATGACATGC
128 TTTCTGCACCTTAAAGCCTAAGAGTCTTACAAAAATGACTCAAAACTGTAATAATAATGACACGC
*
5227209 CAGCA-CCAAA-TTTTTTTTCATGTACTGGTGCCGCCCATTGACAGGCCAGCTCCTAAATTTTTT
193 CAGCACCCAAATTTTTTTTTCATGTACTGGTGCCGCCCATTGACAGGCCAGCACCTAAATTTTTT
* * *
5227272 TTTCGTGTACTGGTTTCTGCTATTGACAAGCCAGCACTC-AAAAAAATTTATTTTCGTTTACTGG
258 TTTCGTGTACTGGTTTCTGCTATTGACAAGGCAGCACTCAAAAAAAAATTCTTTTCGTTTACTGG
* *
5227336 TGCCGGCCATTGACAGGCAATCACCAAAAAGATATTTTTTTCCGTGTACTGGTGCTGGCTTTAAA
323 TGCCGGCCATTGACAGGCAATCACCAAAAA-AAATTTTTTTCCGTGTACTGGTGCTGGCTTTAGA
* * * *
5227401 ATATGTAATCTTAAATAAAATTTAGGGACTGTTGATCAATTTTACCTTAAATTAGTAATTTCAAT
387 ATATGTAATGTTAAATAAAATTTTGGGACTGTTGATGAACTTTACCTTAAATTAGTAATTTCAAT
* * * *
5227466 TAAATCAGATTTTCTATTTTTCGTTCATACAGGTATGACAATAAACAAAAAACAGAGACAATGAC
452 TAAATCAAATTTTCTATTTTTAGTTCATACAGGTATGACAGTGAACAAAAAACAGAGACAATGAC
*
5227531 AAACACCCTTGCTCCGGGAAAGTTAGGATTATCTGAAACTGAAACTTTGATACCCTTGAGCTTTG
517 AGACACCCTTGCTCCGGGAAAGTTAGGATTATCTGAAACTGAAACTTTGATACCCTTGAGCTTTG
* **
5227596 GTTTTTT
582 CTTTTGA
* * * * *
5227603 GTGTTACGGGTTCTATATCTTTTGTTCAAAAAGTTGGAAAAATATGATTATCCTTACTTTTTTAG
1 GTGTTACGGGTTCTATATCTTTTGTTCACAAAGTTGGAAAAATATGATCATTCTTGCCTTTTTAG
* *
5227668 TCTTTCAAAACTCAAAACACTCCCACTACCTA--C--TCTTTGGCTTTTATATTTTCTTCTTTTT
66 TC-TTCGAAACTCAAAACACTCCTACTACCTACTCTTTCTTTGGCTTTTATATTTTCTTCTTTTT
* * *
5227729 TCTGCACCTTAAAGCCTAAAAGTCTTACAAAAATGACTCAAAACTGTAATAATAATGAAATGCCA
130 TCTGCACCTTAAAGCCTAAGAGTCTTACAAAAATGACTCAAAACTGTAATAATAATGACACGCCA
** * *
5227794 AAACCTAAATTTTTTTTTTCATGTACTGGTGCCGCCAATTGACA-G---G--CC---A-------
195 GCACCCAAA-TTTTTTTTTCATGTACTGGTGCCGCCCATTGACAGGCCAGCACCTAAATTTTTTT
* * *
5227843 ---GTGTACTAGTTTCTGCTATTGACAAGCCAGCACTC--AAAAAAATTCTTTTTGTTTACTGGT
259 TTCGTGTACTGGTTTCTGCTATTGACAAGGCAGCACTCAAAAAAAAATTCTTTTCGTTTACTGGT
* * *
5227903 GCCGGCCATTGACAGGCAATCACCAAAAAAATATTTTTCTTTTCATGTACTGGTGCTGACTTTAG
324 GCCGGCCATTGACAGGCAATCACCAAAAAAA-A-TTTT-TTTCCGTGTACTGGTGCTGGCTTTAG
* * * ** * * * *
5227968 AATATGTAACAGGCAATCACCAAAAAAATATTT--TTCTTTTCATGTACTGGTGCTGACTTTAGA
386 AATATGT-A-ATG---TTA--AATAAAAT-TTTGGGACTGTTGATGAACT--T--T-ACCTTA-A
* * * ** * * * * **
5228031 A-TATGTAATGTTAAATAAAATTTAGGAACTGTTGATAAATTTTACCTTAAATTAGAAATTTAAT
437 ATTA-GTAAT-TTCAATTAAA-TCA--AA-T-TTTCT-ATTTTTA-GTT-CA-T--ACAGGT-A-
* *** * * * ** ** ***
5228095 TAAATCAGATTTTCAATTTTTAGTTCATACAGGTATGACAGTGAACA-AAAAAC-TGAGACAATG
487 T-GA-CAG-TGAACAA-----A----AAACA-G-A-GACAATG-ACAGACACCCTTG-CTCCGGG
* ** *** * * * * * * * ***
5228158 ACAGACACCCTTGCTCCGGGAAACTTAGGATTATCTGA-A-AC-TGAAACTGAAAC-TTTGA
535 AAAGTTAGGATT-AT-C-TGAAACTGA-AACT-T-TGATACCCTTG-AGCT-TTGCTTTTGA
* ** * * ** * *** * *
5228216 -TACCTTTGA-GCTTTGCTTTTGAGTGTTGCGGGTTCTATATCTTTTGTTCACAAAGT-TGGAAA
1 GT---GTT-ACGGGTT-C-TAT-A-TCTT--TTGTTC-ACA-AAGTTG--GA-AAAATAT-G---
* * * **** ** ** * * * * *
5228278 AAT-ATGATCATCCTTTCCTTTTTAGTTTTTTCGAAACTCAAAAC-ACTCCCA-CTACCTACTCT
47 -ATCAT--TCTTGC----CTTTTTAGTCTTCGAAACTCAAAACACTCCTACTACCTA-CT-CTTT
* * *
5228340 TTCTTTGGCTTTTATATTTTCTTCTTTTTTCTGCACCTTAAAGCCTAAAAATCTTACAAAAATGA
103 CT--TTGGCTTTTATATTTTCTTCTTTTTTCTGCACCTTAAAGCCTAAGAGTCTTACAAAAATGA
* * *
5228405 CTCAAAACTGTAATAATAATGACACGCCAGAACCTAAATTTTTTTTTCATGTACTGGTGCCGCCT
166 CTCAAAACTGTAATAATAATGACACGCCAGCACCCAAATTTTTTTTTCATGTACTGGTGCCGCCC
*
5228470 ATTGAGAGGCCAGCACCTAAATTTTTTTTTCGTGTACTGGTTTCTGCTATTGACAAGGCAGCACT
231 ATTGACAGGCCAGCACCTAAATTTTTTTTTCGTGTACTGGTTTCTGCTATTGACAAGGCAGCACT
5228535 -AAAAAAAAATTCTTTTCGTTTACTGGTGCCGGCCATTGACAGGCAATCACCAAAAAAATATTTT
296 CAAAAAAAAATTCTTTTCGTTTACTGGTGCCGGCCATTGACAGGCAATCACCAAAAAAA-A-TTT
* * *
5228599 TTTTCCGTGTACTGGTGTTGGCTTTAAAATATGTAATGTTAAATAAAATTTTGAGACTGTTGATG
359 TTTTCCGTGTACTGGTGCTGGCTTTAGAATATGTAATGTTAAATAAAATTTTGGGACTGTTGATG
* *
5228664 AACTTTACCTTACATTAGTAATTTCAATTAAATCAAATTTTCTATTTTTAGTTCATACAGGTTTG
424 AACTTTACCTTAAATTAGTAATTTCAATTAAATCAAATTTTCTATTTTTAGTTCATACAGGTATG
*
5228729 ACAGTGAACAAAAAACAGAGACAATGACAGACACCCTTGCTCCAGGAAAGTTAGGATTATCTGAA
489 ACAGTGAACAAAAAACAGAGACAATGACAGACACCCTTGCTCCGGGAAAGTTAGGATTATCTGAA
* **
5228794 ACTGAAACTTTGATACCCTTGAGCTTTGGTTTTTT
554 ACTGAAACTTTGATACCCTTGAGCTTTGCTTTTGA
* *
5228829 GTGTTACGGGTTCTATATCTTCTGTTCACAAAGTTGGAAAAATATGATCATCCTTGCCTTTTTAG
1 GTGTTACGGGTTCTATATCTTTTGTTCACAAAGTTGGAAAAATATGATCATTCTTGCCTTTTTAG
* * * *
5228894 TCTTTCAAAACTCAAAACACTCCTACTACATACTCTTTCTTTGACTTTTATATTTTGTTCTTTTT
66 TC-TTCGAAACTCAAAACACTCCTACTACCTACTCTTTCTTTGGCTTTTATATTTTCTTCTTTTT
* * **
5228959 TCTGCACCTTAAAGCTTAAGAGTCTTTCAAAAATGACTCAAAACTGTAATAATAATGACACGGTA
130 TCTGCACCTTAAAGCCTAAGAGTCTTACAAAAATGACTCAAAACTGTAATAATAATGACACGCCA
* * * *
5229024 GCACCCAAAATTTTTTCTTCATTTACTGGTGCCACCCATTGACAGGCCATCACCTAAATTTTTTT
195 GCACCC-AAATTTTTTTTTCATGTACTGGTGCCGCCCATTGACAGGCCAGCACCTAAATTTTTTT
* * * * *
5229089 TTAGTATACTGGTTTCTGCTATTGACAAGGCAACACTC-AAAAAAAATTATTTTCGTTTATTGGT
259 TTCGTGTACTGGTTTCTGCTATTGACAAGGCAGCACTCAAAAAAAAATTCTTTTCGTTTACTGGT
*
5229153 GCCGGCCATTGACAGGCAATCACC-AAAAAAATATTTTTTCCGTGTACTGGTGTTGGCTTTAGAA
324 GCCGGCCATTGACAGGCAATCACCAAAAAAAAT-TTTTTTCCGTGTACTGGTGCTGGCTTTAGAA
* * *
5229217 TATGTATTATTAAATAAAATTTTGGGACTGTTGATGAACTTTACCTTAAATTAGTAATTTTAATT
388 TATGTAATGTTAAATAAAATTTTGGGACTGTTGATGAACTTTACCTTAAATTAGTAATTTCAATT
*
5229282 AAATCAGATTTTCTATTTTTAGTTCATACAGGTATGACAGTGAACAAAAAACAGAGACAATGACA
453 AAATCAAATTTTCTATTTTTAGTTCATACAGGTATGACAGTGAACAAAAAACAGAGACAATGACA
* *
5229347 GACACCCTTGCTCCGGGAAAGATT-GGATTATCTGAAATTTAAACTTTGATACCCTTGAGCTTTG
518 GACACCCTTGCTCCGGGAAAG-TTAGGATTATCTGAAACTGAAACTTTGATACCCTTGAGCTTTG
*
5229411 CTTTTAA
582 CTTTTGA
* * * * * *
5229418 GTGTTTCGGGTTTTATATATTTTATTCACACAGTTGGAAAAATATGATCATTCTTGCCTTTTTAA
1 GTGTTACGGGTTCTATATCTTTTGTTCACAAAGTTGGAAAAATATGATCATTCTTGCCTTTTTAG
* * *
5229483 TCTTTCGAAACACAAAACACTCCCACTACCTACTCTTTCTTTGGCTTTTATATTTTGTTCTTTTT
66 TC-TTCGAAACTCAAAACACTCCTACTACCTACTCTTTCTTTGGCTTTTATATTTTCTTC-TTTT
* * * *
5229548 TTTTGCACCTTAAAGCCTAAGAGTCTTACAAAAATGACTCAAAATTATAATAATAATAATGACAT
129 TTCTGCACCTTAAAGCCTAAGAGTCTTACAAAAATGACTCAAAA--CT-GTAATAATAATGACAC
* * *
5229613 GCCAGTA-CCAATTTTTTTTTTCATGTACTGGTGCCGCCCATTGACAGGCTAGCACCTAAATTTT
191 GCCAGCACCCAAATTTTTTTTTCATGTACTGGTGCCGCCCATTGACAGGCCAGCACCTAAATTTT
* * * * **
5229677 TTTTTCATGTATTGGTTTCTGCTATAGACAAGCCAATACTCAAAAAAAAAAATTCTTTTCGTTTA
256 TTTTTCGTGTACTGGTTTCTGCTATTGACAAGGCAGCACTC--AAAAAAAAATTCTTTTCGTTTA
** * * **
5229742 CTGGTGCCGGTTATTGACAGACCATCACCAACAAAATTTTTTTTTTCCGTGTACTGGTGCTGGCT
319 CTGGTGCCGGCCATTGACAGGCAATCACCAA-AAAA-AATTTTTTTCCGTGTACTGGTGCTGGCT
** *
5229807 TTAGAATATGTAATGTTAAATAAAATTGAGGGACTGTAT-ATGAACTTTTCCTTAAATTAGTAAT
382 TTAGAATATGTAATGTTAAATAAAATTTTGGGACTGT-TGATGAACTTTACCTTAAATTAGTAAT
* *
5229871 TTCAATTAAATCAGATTTTCAATTTTTAGTTCATACAGGTATGACAGTGAACAAAAAACAGAGAC
446 TTCAATTAAATCAAATTTTCTATTTTTAGTTCATACAGGTATGACAGTGAACAAAAAACAGAGAC
* * *
5229936 AATGACAAACACCCTTGCTCTGGGAAAGTTAAGATTATCTGAAACTGAAACTGAAACTGAAACTT
511 AATGACAGACACCCTTGCTCCGGGAAAGTT-AG--GAT-T---A-T----CTGAAACTGAAACTT
*
5230001 TGATACCTTTGAGCTTTGCTTTTGA
564 TGATACCCTTGAGCTTTGCTTTTGA
* * * * * **
5230026 ATGTTACGGGTTCTATATCTTTTGTTCATAAAATTGGAAAATTATGATTAACCTTGCCTTTTTAG
1 GTGTTACGGGTTCTATATCTTTTGTTCACAAAGTTGGAAAAATATGATCATTCTTGCCTTTTTAG
* *
5230091 TTTTTCGAAACTCAAAACACTACTACTACCTA--C--TCTTTGGCTTTTATATTTTCTTCTTTTT
66 -TCTTCGAAACTCAAAACACTCCTACTACCTACTCTTTCTTTGGCTTTTATATTTTCTTC-TTTT
* *
5230152 TTTTGCACCTTAAAGCCTAAAAGTCTTACAAAAATGACTCAAAACTGTAATAATAATGACACGCC
129 TTCTGCACCTTAAAGCCTAAGAGTCTTACAAAAATGACTCAAAACTGTAATAATAATGACACGCC
** * *
5230217 AGCACTTAAAATTTTTTTTCATGTACTGGTGCCGCCCATTAACAGGCCAGCACCTAAATTTTTTT
194 AGCACCCAAATTTTTTTTTCATGTACTGGTGCCGCCCATTGACAGGCCAGCACCTAAA-TTTTTT
* * *
5230282 TTTCGTATACTGGTTTCTGCTATTGATAAGGCAGCACT-AAAAAAAAATTCTTATCGTTTACTGG
258 TTTCGTGTACTGGTTTCTGCTATTGACAAGGCAGCACTCAAAAAAAAATTCTTTTCGTTTACTGG
* * *
5230346 TGCCGGCCATTGACAGACAGTCACCAAAAAAATATTTTTTTTTCCGTGTACTGGTGTTGGCTTTA
323 TGCCGGCCATTGACAGGCAATCACCAAAAAAA-A--TTTTTTTCCGTGTACTGGTGCTGGCTTTA
* *
5230411 GAATATGTAATGTTAAATAAAATTTTGGGACTATTGATGAGCTTTACCTTAAATTAGTAATTTCA
385 GAATATGTAATGTTAAATAAAATTTTGGGACTGTTGATGAACTTTACCTTAAATTAGTAATTTCA
*
5230476 ATTAAAT-AAGATTTTCTATTTTTAGTTCATACAGGTATGACAGTGAA-AAAAAACAGAGACAGT
450 ATTAAATCAA-ATTTTCTATTTTTAGTTCATACAGGTATGACAGTGAACAAAAAACAGAGACAAT
* * *
5230539 AACAGACACCCTTGCTTCGGGAAAGTTAGAATTATCTGAAACTGAAACTTTGATACCCTTGAGCT
514 GACAGACACCCTTGCTCCGGGAAAGTTAGGATTATCTGAAACTGAAACTTTGATACCCTTGAGCT
* **
5230604 TTGGTTTTTT
579 TTGCTTTTGA
* * *
5230614 GTGTTACGGGTTCTATATCTTTTGTTTAGAAAGTTGGAAAAATATGATCATCCTTGCCTTTTTAG
1 GTGTTACGGGTTCTATATCTTTTGTTCACAAAGTTGGAAAAATATGATCATTCTTGCCTTTTTAG
* *
5230679 TCTTTCGAAACTCAAAACACTCCTACTACCTACTCTTTCTTTGGTTTTTATATTTTATTCTTTTT
66 TC-TTCGAAACTCAAAACACTCCTACTACCTACTCTTTCTTTGGCTTTTATATTTTCTTCTTTTT
* * * *
5230744 TCTCCACCATAAAGCCTAAGAGTCTTTCAAAAATGACTCAAAACTGTAATAATAATGACACACCA
130 TCTGCACCTTAAAGCCTAAGAGTCTTACAAAAATGACTCAAAACTGTAATAATAATGACACGCCA
* * *
5230809 GCCCCCAAATTTTTTTTTCATATA-TGGTGCCGCCCATTGACAAGCCAGCACCTAAAATTATTTT
195 GCACCCAAATTTTTTTTTCATGTACTGGTGCCGCCCATTGACAGGCCAGCACCT-AAATT-TTTT
* *
5230873 TCTTCGTGTACTGGTTTCGGCTATTGACAAGGCAACACTCAAAAAAAAATTCTTTTCGTTTACTG
258 T-TTCGTGTACTGGTTTCTGCTATTGACAAGGCAGCACTCAAAAAAAAATTCTTTTCGTTTACTG
* * ***
5230938 GTGCTGGCCATTGAAAGGCAATCACCAAAAAAAAAAATTTTCCGTGTACTGGTGCTGGCTTTAGA
322 GTGCCGGCCATTGACAGGCAATCACCAAAAAAAATTTTTTTCCGTGTACTGGTGCTGGCTTTAGA
* *
5231003 ATATGTATTGTTAAAAAAAATTTTGGGACTGTTGATGAACTTTACCTTAAATTAGTAATTTCAAT
387 ATATGTAATGTTAAATAAAATTTTGGGACTGTTGATGAACTTTACCTTAAATTAGTAATTTCAAT
* * * *
5231068 TAAATCAAATTTTCTATTTTTAGTTCATAAAGGTATGACAGTAAATAAAAAACAGAGGCAATGAC
452 TAAATCAAATTTTCTATTTTTAGTTCATACAGGTATGACAGTGAACAAAAAACAGAGACAATGAC
**
5231133 AGACACTTTTGCTCCGGGAAAGTTAGGATTATCTGAAACTGAAACTTTGATACCCTTGAGCTTTG
517 AGACACCCTTGCTCCGGGAAAGTTAGGATTATCTGAAACTGAAACTTTGATACCCTTGAGCTTTG
5231198 CTTTTGA
582 CTTTTGA
5231205 GTGTTACGGGTTCTATATCTTTTGTTCAC
1 GTGTTACGGGTTCTATATCTTTTGTTCAC
5231234 TAAATTTTTT
Statistics
Matches: 3563, Mismatches: 468, Indels: 373
0.81 0.11 0.08
Matches are distributed among these distances:
565 1 0.00
566 52 0.01
567 38 0.01
568 29 0.01
569 1 0.00
570 1 0.00
573 2 0.00
574 8 0.00
575 7 0.00
576 3 0.00
577 1 0.00
578 1 0.00
579 7 0.00
580 9 0.00
581 8 0.00
582 10 0.00
583 120 0.03
584 50 0.01
585 8 0.00
586 84 0.02
587 331 0.09
588 125 0.04
589 330 0.09
590 455 0.13
591 434 0.12
592 74 0.02
593 79 0.02
594 47 0.01
595 7 0.00
596 179 0.05
597 11 0.00
599 8 0.00
600 94 0.03
601 151 0.04
602 49 0.01
603 40 0.01
604 73 0.02
605 4 0.00
606 5 0.00
607 4 0.00
608 118 0.03
609 20 0.01
610 6 0.00
611 9 0.00
612 12 0.00
613 18 0.01
614 12 0.00
615 9 0.00
616 6 0.00
617 20 0.01
618 4 0.00
619 4 0.00
620 4 0.00
621 4 0.00
622 2 0.00
623 3 0.00
624 1 0.00
625 2 0.00
626 5 0.00
629 6 0.00
630 5 0.00
631 4 0.00
632 4 0.00
633 3 0.00
634 11 0.00
635 8 0.00
636 2 0.00
637 1 0.00
638 4 0.00
639 38 0.01
640 99 0.03
641 1 0.00
642 2 0.00
643 1 0.00
644 2 0.00
645 10 0.00
646 6 0.00
647 7 0.00
648 2 0.00
650 4 0.00
651 7 0.00
652 10 0.00
653 2 0.00
656 2 0.00
657 1 0.00
658 60 0.02
659 62 0.02
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.37
Consensus pattern (588 bp):
GTGTTACGGGTTCTATATCTTTTGTTCACAAAGTTGGAAAAATATGATCATTCTTGCCTTTTTAG
TCTTCGAAACTCAAAACACTCCTACTACCTACTCTTTCTTTGGCTTTTATATTTTCTTCTTTTTT
CTGCACCTTAAAGCCTAAGAGTCTTACAAAAATGACTCAAAACTGTAATAATAATGACACGCCAG
CACCCAAATTTTTTTTTCATGTACTGGTGCCGCCCATTGACAGGCCAGCACCTAAATTTTTTTTT
CGTGTACTGGTTTCTGCTATTGACAAGGCAGCACTCAAAAAAAAATTCTTTTCGTTTACTGGTGC
CGGCCATTGACAGGCAATCACCAAAAAAAATTTTTTTCCGTGTACTGGTGCTGGCTTTAGAATAT
GTAATGTTAAATAAAATTTTGGGACTGTTGATGAACTTTACCTTAAATTAGTAATTTCAATTAAA
TCAAATTTTCTATTTTTAGTTCATACAGGTATGACAGTGAACAAAAAACAGAGACAATGACAGAC
ACCCTTGCTCCGGGAAAGTTAGGATTATCTGAAACTGAAACTTTGATACCCTTGAGCTTTGCTTT
TGA
Found at i:5231598 original size:368 final size:372
Alignment explanation
Indices: 5230863--5231601 Score: 1164
Period size: 368 Copynumber: 2.0 Consensus size: 372
5230853 CCAGCACCTA
*
5230863 AAATTATTTTTCTTCGTGTACTGGTTTCGGCTATTGACAAGGCAACACTCAAAAAAAAATTCTTT
1 AAATTATTTTTCTTCGTGTACTGGTTTCGGCTATTGACAAGCCAACACTCAAAAAAAAATTCTTT
* * *
5230928 TCGTTTACTGGTGCTGGCCATTGAAAGGCAATCACCAAAAAAAAAAATTTTCCGTGTACTGGTGC
66 TCGTTTACTGGTACCGACCATTGAAAGGCAATCACCAAAAAAAAAAATTTTCCGTGTACTGGTGC
* *
5230993 TGGCTTTAGAATATGTATTGTTAAAAAAAATTTTGGGACTGTTGATGAACTTTACCTTAAATTAG
131 TGGCTTTAGAATATGTAATGTTAAAAAAAATTTAGGGACTGTTGATGAACTTTACCTTAAATTAG
* *
5231058 TAATTTCAATTAAATCAAATTTTCTATTTTTAGTTCATAAAGGTATGACAGTAAATAAAAAACAG
196 TAATTTCAATTAAATCAAATTTTCAATTTTTAGTTCATAAAGGTATGACAGTAAACAAAAAACAG
* * **
5231123 AGGCAATGACAGACACTTTTGCTCCGGGAAAGTTAGGATTATCTGAAACTGAAACTTTGATACCC
261 AGACAATAACAGACACCCTTGCTCCGGGAAAGTTAGGATTATCTGAAACTGAAACTTTGATACCC
* *
5231188 TTGAGCTTTGCTTTTGAGTGTTACGGGTTCTATATCTTTTGTTCACT
326 TTGAGCTTTGCTTTTCAGTGTTACGGGTTCTATATATTTTGTTCACT
* * * *
5231235 AAATT-TTTTT-TTTGTGTATTGGTTTCTGCTATTGACAAGCCAATACTC-AAAAAAAATTCTTT
1 AAATTATTTTTCTTCGTGTACTGGTTTCGGCTATTGACAAGCCAACACTCAAAAAAAAATTCTTT
* ******
5231297 TCGTTTACTGGTACCGACCATTGACAGGCAATCACC-AAAATTTTTTTTTTCCGTGTACTGGTGC
66 TCGTTTACTGGTACCGACCATTGAAAGGCAATCACCAAAAAAAAAAATTTTCCGTGTACTGGTGC
* *
5231361 TGGCTTTAGAATATGTAATGTTAAATAAAATTTAGGGACTGTTGATGAATTTTACCTTAAATTAG
131 TGGCTTTAGAATATGTAATGTTAAAAAAAATTTAGGGACTGTTGATGAACTTTACCTTAAATTAG
* * *
5231426 TAATTTTAATTAAATCAAATTTTCAATTTTTAGTTCATACAGGTATGACAGTGAACAAAAAACAG
196 TAATTTCAATTAAATCAAATTTTCAATTTTTAGTTCATAAAGGTATGACAGTAAACAAAAAACAG
5231491 AGACAATAACAGACACCCTTGCTCCGGGAAAGATT-GGATTATCTGAAACTGAAACTTTGATACC
261 AGACAATAACAGACACCCTTGCTCCGGGAAAG-TTAGGATTATCTGAAACTGAAACTTTGATACC
5231555 CTTGAGCTTTGCTTTTCAGTGTTACGGGTTCTATATATTTTGTTCAC
325 CTTGAGCTTTGCTTTTCAGTGTTACGGGTTCTATATATTTTGTTCAC
5231602 AAAGTTGGAA
Statistics
Matches: 336, Mismatches: 30, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
368 245 0.73
369 48 0.14
370 33 0.10
371 5 0.01
372 5 0.01
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.37
Consensus pattern (372 bp):
AAATTATTTTTCTTCGTGTACTGGTTTCGGCTATTGACAAGCCAACACTCAAAAAAAAATTCTTT
TCGTTTACTGGTACCGACCATTGAAAGGCAATCACCAAAAAAAAAAATTTTCCGTGTACTGGTGC
TGGCTTTAGAATATGTAATGTTAAAAAAAATTTAGGGACTGTTGATGAACTTTACCTTAAATTAG
TAATTTCAATTAAATCAAATTTTCAATTTTTAGTTCATAAAGGTATGACAGTAAACAAAAAACAG
AGACAATAACAGACACCCTTGCTCCGGGAAAGTTAGGATTATCTGAAACTGAAACTTTGATACCC
TTGAGCTTTGCTTTTCAGTGTTACGGGTTCTATATATTTTGTTCACT
Found at i:5231858 original size:49 final size:47
Alignment explanation
Indices: 5231756--5231872 Score: 128
Period size: 49 Copynumber: 2.4 Consensus size: 47
5231746 TATAATAATA
* *
5231756 ATATTGACATGCCAGCACCAATTTTTTTTTTCATTTACTGGTGTCGC
1 ATATTGACAAGCCAGCACCAATTTTTTTTTTCATGTACTGGTGTCGC
** * * * *
5231803 CCATTGACAGGTCAGCACCTAAATTTTTTTTTTCGTGTACTGGTTTCTG-
1 ATATTGACAAGCCAGCACC--AATTTTTTTTTTCATGTACTGGTGTC-GC
5231852 ATATTGACAAGCCAGCACCAA
1 ATATTGACAAGCCAGCACCAA
5231873 CAAAAAAAAA
Statistics
Matches: 56, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
47 17 0.30
49 38 0.68
50 1 0.02
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (47 bp):
ATATTGACAAGCCAGCACCAATTTTTTTTTTCATGTACTGGTGTCGC
Found at i:5232396 original size:547 final size:538
Alignment explanation
Indices: 5231348--5232443 Score: 1451
Period size: 547 Copynumber: 2.0 Consensus size: 538
5231338 TTTTTTTTTC
* *
5231348 CGTGTACTGGTGCTGGCTTTAGAATATGTAATGTTAAATAAAATTTAGGGACTGTTGATGAATTT
1 CGTGTACTGGTGCTGGCTTTAGAATATGTAATGTTAAATAAAATTTAGGGACTGTTGAGGAACTT
*
5231413 TACCTTAAATTAGTAATTTTAATTAAATCAAATTTTCAATTTTTAGTTCATACAGGTATGACAGT
66 TACCTTAAATTAGTAATTTCAATTAAATCAAATTTTCAATTTTTAGTTCATACAGGTATGACAGT
* *
5231478 GAACAAAAAACAGAGACAATAACAGACACCCTTGCTCCGGGAAAGATTGGATTATCTGAAACTGA
131 GAACAAAAAACAGAGACAATAACAGACACCCTTGCTCCGGCAAAGATTGGATTATCTAAAACTGA
* * *
5231543 AACTTTGATACCCTTGAGCTTTGCTTTTCAGTGTTACGGGTTCTATATATTTTGTTCACAAAGTT
196 AACTTTGATACCCTTGAGCTATCCTTTTCAGTGTTACGGGTTCTATATATTTTGTTCACAAAGTA
* * * * *
5231608 GGAAAAATATGACCATCATTGCCTTTTTAGTCTTTCGAAGCTCAAAACACTTCCACTATCTACTC
261 GGAAAAATATGACCATCATTGCCTTTTTAGTCTTTCAAAACTCAAAACACTTCCAATACCTACTA
*
5231673 TTTCTTTGGCTTTTATATTTTGTTTTTTTTTTGCACCTTAAAACCTAAGAGTCTTACAAAAATGA
326 TTTCTTTGGCTTTTATATTTTGTTTTTTTTTTACACCTTAAAACCTAAGAGTCTTACAAAAATGA
* * * * * * *
5231738 CTCAAAACTATAATAATAATATTGACATGCCAGCACCAATTTTTTTTTTCATTTACTGGTGTCGC
391 CTCAAAACTATAAAAATAATAATAACACGCCAGCACAAAATTTTTTTTTCATTTACTGGTGTAGC
* * *
5231803 CCATTGACAGGTCAGCACCTAAATTTTTTTTTTCGTGTACTGGTTTCTGA-TATTGACA-AGCCA
456 CCATTGACAGGCCAGCACCTAAATTTCTTTTTTCGTGTACTGGTTTCT-ACAATTGACATA-CCA
5231866 GCAC-CAACAAAAAAAAATTT
519 GCACTCAA-AAAAAAAAATTT
*
5231886 CTGTGTACTGGTGCTGGCTTTAGAATATGTTATGTTAAATAAAATTTAGGGACTGTTGAGGAACT
1 C-GTGTACTGGTGCTGGCTTTAGAATATGTAATGTTAAATAAAATTTAGGGACTGTTGAGGAACT
* * * * * *
5231951 TTACCTTAAATTAGTAATTTCAATTAAATTAGATTTTCTATTTTTCGTTCATATAGGTATGATAG
65 TTACCTTAAATTAGTAATTTCAATTAAATCAAATTTTCAATTTTTAGTTCATACAGGTATGACAG
* *
5232016 TGAACAAAAAACAGAGACAAAATGACAGACGCCCTTGCTCCGGCAAAG-TTAGGATTATTTGAAA
130 TGAACAAAAAACAGAGAC--AATAACAGACACCCTTGCTCCGGCAAAGATT-GGATTA--T----
* * * *
5232080 CTAAAACTGAAACTTTGATACCTTTGAGCTATCCTTTTGAGTGTTATGGGTTCTATATCTTTTGT
186 CTAAAACTGAAACTTTGATACCCTTGAGCTATCCTTTTCAGTGTTACGGGTTCTATATATTTTGT
* * * *
5232145 TTACTAATA-TAGG-AAAATATGATCATCTTTGTCTTTTTAGTCTTTCAAAACTCAAAACAC-TC
251 TCAC-AA-AGTAGGAAAAATATGACCATCATTGCCTTTTTAGTCTTTCAAAACTCAAAACACTTC
* * * *
5232207 CAATACCTACTATTTTTTTGGCTTTTATATTTTCTTTTTTTTTTCTACACCTTTAAGCCTAAGAG
314 CAATACCTACTATTTCTTTGGCTTTTATATTTT-GTTTTTTTTT-TACACCTTAAAACCTAAGAG
* * *
5232272 TCTTACAAAAAT-AGCTTAAAACTGTAAAAATAATAATAAC-CGGCAGCACTAAAATTTTTTTTT
377 TCTTACAAAAATGA-CTCAAAACTATAAAAATAATAATAACACGCCAGCAC-AAAATTTTTTTTT
* *
5232335 C-TTGTACTGTTGCTAG-CCATTTACAGGCCAGCACCTAAA-TTCTTTTTTCGTGTACTGGTTTC
440 CATT-TACTGGTG-TAGCCCATTGACAGGCCAGCACCTAAATTTCTTTTTTCGTGTACTGGTTTC
**
5232397 TACAATTGTTATACCAGCACTCAAAAAAAAAAATTT
503 TACAATTGACATACCAGCACTCAAAAAAAAAAATTT
5232433 CGTGTACTGGT
1 CGTGTACTGGT
5232444 ACCGACCATC
Statistics
Matches: 485, Mismatches: 52, Indels: 34
0.85 0.09 0.06
Matches are distributed among these distances:
538 1 0.00
539 136 0.28
540 2 0.00
541 31 0.06
543 1 0.00
546 42 0.09
547 170 0.35
548 99 0.20
549 3 0.01
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.38
Consensus pattern (538 bp):
CGTGTACTGGTGCTGGCTTTAGAATATGTAATGTTAAATAAAATTTAGGGACTGTTGAGGAACTT
TACCTTAAATTAGTAATTTCAATTAAATCAAATTTTCAATTTTTAGTTCATACAGGTATGACAGT
GAACAAAAAACAGAGACAATAACAGACACCCTTGCTCCGGCAAAGATTGGATTATCTAAAACTGA
AACTTTGATACCCTTGAGCTATCCTTTTCAGTGTTACGGGTTCTATATATTTTGTTCACAAAGTA
GGAAAAATATGACCATCATTGCCTTTTTAGTCTTTCAAAACTCAAAACACTTCCAATACCTACTA
TTTCTTTGGCTTTTATATTTTGTTTTTTTTTTACACCTTAAAACCTAAGAGTCTTACAAAAATGA
CTCAAAACTATAAAAATAATAATAACACGCCAGCACAAAATTTTTTTTTCATTTACTGGTGTAGC
CCATTGACAGGCCAGCACCTAAATTTCTTTTTTCGTGTACTGGTTTCTACAATTGACATACCAGC
ACTCAAAAAAAAAAATTT
Found at i:5233022 original size:594 final size:593
Alignment explanation
Indices: 5231883--5236493 Score: 5531
Period size: 594 Copynumber: 7.8 Consensus size: 593
5231873 CAAAAAAAAA
* * *
5231883 TTTCTGTGTACTGGTGCTGGCTTTAGAATATGTTATGTTAAATAAAATTTAGGGACTGTTGAGGA
1 TTTCCGTGTACTGGTGCTGGCTTTAGAATATGTAATGTTAAATAAAATTTAGGGACTGTTGATGA
* * *
5231948 ACTTTACCTTAAATTAGTAATTTCAATTAAATTAGATTTTCTATTTTTCGTTCATATAGGTATGA
66 ACTTTACCTTAAATTAGTAATTTCAATTAAATCAGATTTTCTATTTTTAGTTCATACAGGTATGA
* * * *
5232013 TAGTGAACAAAAAACAGAGACAAAATGACAGACGCCCTTGCTCCGGCAAAGTTAGGATTATTTGA
131 CAGTGAACAAAAAACAGAGAC--AATGACAGACACCCTTGCTCCGGGAAAGTTAGGATTATCTGA
* *
5232078 AACTAAAACTGAAACTTTGATACCTTTGAGCTATCCTTTTGAGTGTTATGGGTTCTATATCTTTT
194 AACTAAAACTGAAACTTTGATACCTTTGAGCTATGCTTTTGAGTGTTACGGGTTCTATATCTTTT
* *
5232143 GTTTACTAA-TATAGG-AAAATATGATCAT-CTTTGTCTTTTTAGTCTTTCAAAACTCAAAACAC
259 GTTCACTAAGT-T-GGAAAAATATGATCATCCTTT-TCTTTTTAGTCTTTCGAAACTCAAAACAC
* * * * *
5232205 -TCCAATACCTACTATTTTTTTGGCTTTTATATTTTCTTTTTTTTTTCTACACCTTTAAGCCTAA
321 TTCCACTACCTACTCTTTCTTTGGCTTTTATATTTTC-TTCTTTTTTCTACACCTTAAAGCCTAA
* * *
5232269 GAGTCTTACAAAAAT-AGCTTAAAACTGTAAAAATAATAATAAC-CGGCAGCA-CTAAAATTTTT
385 GAGTCTTACAAAAATGA-CTCAAAACTGT-AAAATAATAATAACACGCCAGCACCCAAAATTTTT
* * *
5232331 TTTTCTTGTACTGTTGCTAGCCATTTACAGGCCAGCACCT-AAATTCTTTTTTCGTGTACTGGTT
448 TTTTCTTGTACTGGTGCTGGCCATTTACAGGCCAGCACCTAAAATTTTTTTTTCGTGTACTGGTT
* * * *
5232395 TCTACAATTGTTATACCAGCACTCAAAAAAAAAAATTTCGTGTACTGGTACCGACCATCCACAGG
513 TCTGCAATTGATA-ACCAGCACTC---AAAAAAAATTTCGTGTACTGGTGCCGGCCATCCACAGG
5232460 CCAGCA-AAAAAAAAAGTTT
574 CCAGCACAAAAAAAAAGTTT
* * *
5232479 TTTCCGTGTACTGGTGCTGGATTTAGAATATGTAATGCTAAATAAAATTTAGGGTCTGTTGATGA
1 TTTCCGTGTACTGGTGCTGGCTTTAGAATATGTAATGTTAAATAAAATTTAGGGACTGTTGATGA
* * * * * *
5232544 AATTTACCTTAAATTAGTTATTTTAATTAAATTAGATTTTCTATTTTTAGTTCATATAAGTATGA
66 ACTTTACCTTAAATTAGTAATTTCAATTAAATCAGATTTTCTATTTTTAGTTCATACAGGTATGA
** * * *
5232609 CAGTGAACAAAAAGTAGAGATAATGAAAGACACCCTTGCTCCGGGAAAGTTAAGATTATCTGAAA
131 CAGTGAACAAAAAACAGAGACAATGACAGACACCCTTGCTCCGGGAAAGTTAGGATTATCTGAAA
* *
5232674 CTAAAACTGAAACTTTGATAACTTTGAGCTATGCTTTTGAGTGTTACAGGTTCTATATCTTTTGT
196 CTAAAACTGAAACTTTGATACCTTTGAGCTATGCTTTTGAGTGTTACGGGTTCTATATCTTTTGT
* *
5232739 TTACTAAGTTGGGAAAATATGATCATCCTTTTCTTTTTAGTCTTTCGAAACTCAAAACACTTCCA
261 TCACTAAGTTGGAAAAATATGATCATCCTTTTCTTTTTAGTCTTTCGAAACTCAAAACACTTCCA
* * * * *
5232804 GTACCTACTTTTTCTTTGGCTCTTATATTTTCTTCTTTTTTCTACTCCTTAAAGCCTGAGAGTCT
326 CTACCTACTCTTTCTTTGGCTTTTATATTTTCTTCTTTTTTCTACACCTTAAAGCCTAAGAGTCT
* * * * *
5232869 TACAAAAATGGCTTAAAACTGTAAAAATAATAATAACCCGCCACCACCCAAAATTTTGTTTTCTT
391 TACAAAAATGACTCAAAACTGT-AAAATAATAATAACACGCCAGCACCCAAAATTTTTTTTTCTT
* *
5232934 GTACTGGTGTTGGCCATTTACATGCCAGCACCTAAAATTTTTTTTTCGTGTACTGGTTTCTGCAA
455 GTACTGGTGCTGGCCATTTACAGGCCAGCACCTAAAATTTTTTTTTCGTGTACTGGTTTCTGCAA
* * * * * *
5232999 TTGATAGACCAGCACTCAAAAAAAAATTCATGTACTAGTGCAGGCCATCCACAAGCCAACACAAA
520 TTGATA-ACCAGCACTCAAAAAAAATTTCGTGTACTGGTGCCGGCCATCCACAGGCCAGCAC-AA
5233064 AAAAAAAGTTT
583 AAAAAAAGTTT
* *
5233075 TTTCCGTGTACTGGTGTTGGCTTTAGAATATGTAATGTGAAATAAAATTTAGGGACTGTTGATGA
1 TTTCCGTGTACTGGTGCTGGCTTTAGAATATGTAATGTTAAATAAAATTTAGGGACTGTTGATGA
* * * *
5233140 ACTTTACTTTAAATTAATAATTTCAATTAAATTAGATTTTCTATTTTTAGTTCATACAGGTTTGA
66 ACTTTACCTTAAATTAGTAATTTCAATTAAATCAGATTTTCTATTTTTAGTTCATACAGGTATGA
* ** *
5233205 CAGTGAACAAAAAACAGAGACAATGATAGACACCCTTTTTCGGGGAAAGTTAGGATTATCTG---
131 CAGTGAACAAAAAACAGAGACAATGACAGACACCCTTGCTCCGGGAAAGTTAGGATTATCTGAAA
*
5233267 ---AAACTGAAACTTTGATACCTTTGAGCTTTGCTTTTGAGTGTTACGGGTTCTATATCTTTTGT
196 CTAAAACTGAAACTTTGATACCTTTGAGCTATGCTTTTGAGTGTTACGGGTTCTATATCTTTTGT
* ** * *
5233329 TCACAAAGTTGGAAAAATATGATCATCCTTGCCCTTTTAGTCTTTCGAAACTCAAAACACTCCCA
261 TCACTAAGTTGGAAAAATATGATCATCCTTTTCTTTTTAGTCTTTCGAAACTCAAAACACTTCCA
* *
5233394 CTACCTACTATTTCTTTGGCTTTTATATTTTCTTCTTTTTTCTGCACCTTAAAGCCTAAGAGTCT
326 CTACCTACTCTTTCTTTGGCTTTTATATTTTCTTCTTTTTTCTACACCTTAAAGCCTAAGAGTCT
* * ** *
5233459 TACAAAAATGACTCAAAACTGT--AATAATAATGACACGCCAGCACCCAAAA-TTTTTTGTAATA
391 TACAAAAATGACTCAAAACTGTAAAATAATAATAACACGCCAGCACCCAAAATTTTTTTTTCTTG
* * * * * *
5233521 TACTGGTGCCGCCCATTGACAGGCCAGTACCTAAAAATTTTTTTCTTCGTGTATTGGTTTCTGCT
456 TACTGGTGCTGGCCATTTACAGGCCAGCACCT-AAAATTTTTTT-TTCGTGTACTGGTTTCTGCA
* * * * ** *
5233586 ATTGACAAGGCAGCACTCAAAAAAAAAATTCTTTTCGTTTACTGGTGCCGACCATTGA-ACGGCA
519 ATTGATAA-CCAGCACTC--AAAAAAAA----TTTCGTGTACTGGTGCCGGCCATCCACA-GGCC
* * *
5233650 ATCACCAAAAAAATATTTT
576 AGCA-CAAAAAAAAAGTTT
* * * *
5233669 TTTTCGTGTACTGGTGCTAGCTTTAAAATATGTAATGTTAAATAAAATTTTGGGACTGTTGATGA
1 TTTCCGTGTACTGGTGCTGGCTTTAGAATATGTAATGTTAAATAAAATTTAGGGACTGTTGATGA
* * *
5233734 ACTTTACCTAAAATTAGTAATTTCAATTAAATCACATTTTCTATTTTTAATTCATACAGGTATGA
66 ACTTTACCTTAAATTAGTAATTTCAATTAAATCAGATTTTCTATTTTTAGTTCATACAGGTATGA
* * *
5233799 CAGTAAACAAAAAACAGAGGCAATGACAGACACCCTTGCTCCGGGGAAACTTAGGATTATCTG--
131 CAGTGAACAAAAAACAGAGACAATGACAGACACCCTTGCTCC-GGGAAAGTTAGGATTATCTGAA
* *
5233862 ----AAACTGAAACTTTGATACCCTTGAGCTTTGCTTTTGAGTGTTACGGGTTCTATATCTTTTG
195 ACTAAAACTGAAACTTTGATACCTTTGAGCTATGCTTTTGAGTGTTACGGGTTCTATATCTTTTG
* ** *
5233923 TTCA-TAAAGTTGGAAAAATATGACCATCCTTCCCTTTTTAGTCTTTCGAAGCTCAAAACACTTC
260 TTCACT-AAGTTGGAAAAATATGATCATCCTTTTCTTTTTAGTCTTTCGAAACTCAAAACACTTC
** * * * *
5233987 CACTACCTACTCTTTCTTTGGCCCTTATATTTTGTTTTTTTTTTTTTGCACCTTAAAGCCTAAGA
324 CACTACCTACTCTTTCTTTGGCTTTTATA-TTT-TCTTCTTTTTTCTACACCTTAAAGCCTAAGA
* * * * *
5234052 GTCTTACAAAAATAACTCAAAAC--TATAATAATAATGACATGCCAGCA-CCAAATTTTTTTTTT
387 GTCTTACAAAAATGACTCAAAACTGTAAAATAATAATAACACGCCAGCACCCAAAATTTTTTTTT
* * *
5234114 CATT-TACTGGTG-TCGCCCATTGACAGGCCAGCACCTAATA-TTTTTTTTCGTGTACTGGTTTC
452 C-TTGTACTGGTGCT-GGCCATTTACAGGCCAGCACCTAAAATTTTTTTTTCGTGTACTGGTTTC
* * * * * * ** *
5234176 TGCTATTGACAAGCTAGCACTCAAAAAAAAATCTTTTCATTTACTGGTGCCGGCTATTGATAGGC
515 TGCAATTGATAA-CCAGCACTC-AAAAAAAA---TTTCGTGTACTGGTGCCGGCCATCCACAGGC
**
5234241 CAGCACCAACAAAAAAA--AA
575 CAGCA-CAA-AAAAAAAGTTT
* *
5234260 TTTCTGTGTACTGGTGCTGGCTTTAGAATATGTATTGTTAAATAAAATTTAGGGACTGTTGATGA
1 TTTCCGTGTACTGGTGCTGGCTTTAGAATATGTAATGTTAAATAAAATTTAGGGACTGTTGATGA
* * * *
5234325 ACTTTATCTTAATTTAGTAATTTCAATTAAATCAGATTTTTTATTTTTCGTTCATACAGGTATGA
66 ACTTTACCTTAAATTAGTAATTTCAATTAAATCAGATTTTCTATTTTTAGTTCATACAGGTATGA
5234390 CAGTGAACAAAAAACAGAGACAGAATGACAGACACCCTTGCTCCGGGAAAGTTAGGATTATCTGA
131 CAGTGAACAAAAAACAGAGAC--AATGACAGACACCCTTGCTCCGGGAAAGTTAGGATTATCTGA
* * * * *
5234455 AATTAAAACTAAAACTTTGATACATTTGAGCTATCCTTTTGAGTGTTATGGGTTCTATATCTTTT
194 AACTAAAACTGAAACTTTGATACCTTTGAGCTATGCTTTTGAGTGTTACGGGTTCTATATCTTTT
* * * *
5234520 GTTTACTAA-TATAGG-AAAATATGATAATCTTTTTCTTTTTATTCTTTCGAAACTCAAAACAC-
259 GTTCACTAAGT-T-GGAAAAATATGATCATCCTTTTCTTTTTAGTCTTTCGAAACTCAAAACACT
* * *
5234582 TCCTA-TACTTACTCTTTTTTTGGCTTTTATATTTTCTTCTTTTTTCTACACCTTTAAGCCTAAG
322 TCC-ACTACCTACTCTTTCTTTGGCTTTTATATTTTCTTCTTTTTTCTACACCTTAAAGCCTAAG
* *
5234646 AGTCTTACAAAAAT-AGCTTAAAACTGTAAAAATAATAATAAC-CGGCAGCA-CCAAAATTTTTT
386 AGTCTTACAAAAATGA-CTCAAAACTGT-AAAATAATAATAACACGCCAGCACCCAAAATTTTTT
* * * * *
5234708 TTTCTTGTAATGTTGCTAGCCATTTATAGGCCAGCACCT-AAA-TTTTTTTTCGTGTACTAG-TT
449 TTTCTTGTACTGGTGCTGGCCATTTACAGGCCAGCACCTAAAATTTTTTTTTCGTGTACTGGTTT
* *
5234770 -T-C------T-----G-------AAAAAATTTCGTGTATTGGTACCGGCCATCCACAGGCCAGC
514 CTGCAATTGATAACCAGCACTCAAAAAAAATTTCGTGTACTGGTGCCGGCCATCCACAGGCCAGC
5234815 A-AAAAAAAAAGTTT
579 ACAAAAAAAAAGTTT
5234829 TTTCCGTGTACTGGTGCTGGCTTTAGAATATGTAATGTTAAATAAAATTTAGGGACTGTTGATGA
1 TTTCCGTGTACTGGTGCTGGCTTTAGAATATGTAATGTTAAATAAAATTTAGGGACTGTTGATGA
*
5234894 ACTTTACCTTAAATTAGTAATTTCAATTAAATCAGATTTTCTATTTTTAGTTCATATAGGTATGA
66 ACTTTACCTTAAATTAGTAATTTCAATTAAATCAGATTTTCTATTTTTAGTTCATACAGGTATGA
* * * *
5234959 CAGTAAACAAAAAACACAGATAATGAGAGACACCCTTGCTCCGGGAAAGTTAGGATTATCTGAAA
131 CAGTGAACAAAAAACAGAGACAATGACAGACACCCTTGCTCCGGGAAAGTTAGGATTATCTGAAA
* *
5235024 CTGAAACTGAAACTGAAACTGAAACTTCGATAACTTTGAGCTATGCTTTTGAGTGTTACAGGTTC
196 CT---A---AAACTGAAACT-----TT-GATACCTTTGAGCTATGCTTTTGAGTGTTACGGGTTC
* * * *
5235089 TATATCTTTTGTTTACTAAGTTGGGAAAATTTGATCATCCTTGTCTTTTTAGTCTTTCGAAACTC
249 TATATCTTTTGTTCACTAAGTTGGAAAAATATGATCATCCTTTTCTTTTTAGTCTTTCGAAACTC
* * * *
5235154 AAAACACTCCCAGTACCTACTCTTTCTTTGGCTCTTATATTTTCTTCTTTTTTTCTACTCCTTAA
314 AAAACACTTCCACTACCTACTCTTTCTTTGGCTTTTATATTTTCTTC-TTTTTTCTACACCTTAA
* * * *
5235219 AGCCTAAGAGTCTTACAAAAATGGCTTAAAACTGT--AATAATAATAACCCGCCACCACCCAAAA
378 AGCCTAAGAGTCTTACAAAAATGACTCAAAACTGTAAAATAATAATAACACGCCAGCACCCAAAA
* * * *
5235282 TTTTTTTTTCTTGTATTGGTGCTGGCCATTTACAAGCCAGCAGCTAAACTTTTTTTTTCGTGTAC
443 TTTTTTTTTCTTGTACTGGTGCTGGCCATTTACAGGCCAGCACCTAAAATTTTTTTTTCGTGTAC
** ** * * *
5235347 TGGTTTCTGCAATTGATAGGTCAGCACT-AAAAAAAAAATCATGTACTAGTGCAGGCCATCCACA
508 TGGTTTCTGCAATTGATA-ACCAGCACTCAAAAAAAATTTCGTGTACTGGTGCCGGCCATCCACA
5235411 GGCCAGCACAAAAAAAAAGTTT
572 GGCCAGCACAAAAAAAAAGTTT
*
5235433 TTTCCGTGTACTGGTGCTGGCTTTAGAATATATAATGTTAAATAAAATTTAGGGACTGTTGATGA
1 TTTCCGTGTACTGGTGCTGGCTTTAGAATATGTAATGTTAAATAAAATTTAGGGACTGTTGATGA
* *
5235498 ACTTTACCTTAAATTAGT-ATTTCCAATTAAATTAGATTTTCTATTTTTAGTTCATACAGGTATT
66 ACTTTACCTTAAATTAGTAATTT-CAATTAAATCAGATTTTCTATTTTTAGTTCATACAGGTATG
* *
5235562 ACAGTGAAAAAAAAATAGAGACAATGACAGACACCCTTGCTCCGGGAAAGATT-GGATTATCTGA
130 ACAGTGAACAAAAAACAGAGACAATGACAGACACCCTTGCTCCGGGAAAG-TTAGGATTATCTGA
* *
5235626 AA-T-----TGAAACTTTGATACCCTTGAGCTTTGCTTTTGAGTGTTACGGGTTCTATATCTTTT
194 AACTAAAACTGAAACTTTGATACCTTTGAGCTATGCTTTTGAGTGTTACGGGTTCTATATCTTTT
* * ** * *
5235685 GTTCACAAAGTTGGAAAAATATGATCATTCTTGCCTTTTTAATCTTTTGAAACTCAAAACAC-TC
259 GTTCACTAAGTTGGAAAAATATGATCATCCTTTTCTTTTTAGTCTTTCGAAACTCAAAACACTTC
* * *
5235749 CTACTACCTACTCTTTCTTTGGCTTTTATATTTTGTTCTTTTTTTTTTGCACCTTAAAGCCTAAG
324 C-ACTACCTACTCTTTCTTTGGCTTTTATATTTTCTTC--TTTTTTCTACACCTTAAAGCCTAAG
* * *
5235814 AGTATTACAAAAATGACTCAAAACTATAATAATAATAATAATAATAATGACATGCCAGCA-CCAA
386 AGTCTTACAAAAATGACTCAAAAC-----T-GTAA-AATAATAAT-A--ACACGCCAGCACCCAA
* * * * * * * *
5235878 ATTTTTTTTTTCATGTACTAGTGCCGCCCATTGACAGGTCAGCACTTAAAATTTTTTTTTCGTGT
441 AATTTTTTTTTCTTGTACTGGTGCTGGCCATTTACAGGCCAGCACCTAAAATTTTTTTTTCGTGT
* * * * * * **
5235943 ACTGGTTTCTGCTATTGACAAGCCAGCCCTCAAAAAAAATTCTTTTTGTTTATTGGTGCCGGTTA
506 ACTGGTTTCTGCAATTGATAA-CCAGCACTCAAAAAAAA----TTTCGTGTACTGGTGCCGGCCA
** * *
5236008 TTGACAGGCCGGCACCAACAAAAAAA---A
566 TCCACAGGCCAGCA-CAA-AAAAAAAGTTT
* * *
5236035 TTT-CGTGTACTGGTGCTGGCTTTAGAATATGTAATGTTAAAGAAAATTTAGGGACTATAGATGA
1 TTTCCGTGTACTGGTGCTGGCTTTAGAATATGTAATGTTAAATAAAATTTAGGGACTGTTGATGA
*
5236099 ACTTTACCTTAAATTAGTAATTTCAATTAAATCAGATTTTCTATTTTTCGTTCATACAGGTATGA
66 ACTTTACCTTAAATTAGTAATTTCAATTAAATCAGATTTTCTATTTTTAGTTCATACAGGTATGA
*
5236164 CAGTGAACAAAAAACAGAGACAATGACAAACACCCTTGCTCCGGGAAAGTTAGGATTATCTGAAA
131 CAGTGAACAAAAAACAGAGACAATGACAGACACCCTTGCTCCGGGAAAGTTAGGATTATCTGAAA
* * *
5236229 CTGAAACTGAAACTTTGATACCTTTGAGCTTTGCTTTTGAATGTTACGGGTTCTATATCTTTTGT
196 CTAAAACTGAAACTTTGATACCTTTGAGCTATGCTTTTGAGTGTTACGGGTTCTATATCTTTTGT
* * * * *
5236294 TCACAAAGTTGGAAAAATATGATCATCC-TTGCATTTTTAGTTTTTCGAAACTCAAAACCCTCCC
261 TCACTAAGTTGGAAAAATATGATCATCCTTTTC-TTTTTAGTCTTTCGAAACTCAAAACACTTCC
* * *
5236358 ACTACTTACTCTTTCTTTGGCTTTTATATTTTCTTCTTTTTTCTGCACCTTAAAGCCTAAAAGTC
325 ACTACCTACTCTTTCTTTGGCTTTTATATTTTCTTCTTTTTTCTACACCTTAAAGCCTAAGAGTC
* * * *
5236423 TTACAAAAATGACTCGAAACTGT--AATAATAATGACACGCCAGCACCTAAAATTTTTTTTTCGT
390 TTACAAAAATGACTCAAAACTGTAAAATAATAATAACACGCCAGCACCCAAAATTTTTTTTTCTT
5236486 GTACTGGT
455 GTACTGGT
5236494 TTCTGCTATT
Statistics
Matches: 3496, Mismatches: 388, Indels: 264
0.84 0.09 0.06
Matches are distributed among these distances:
567 51 0.01
568 2 0.00
569 141 0.04
570 29 0.01
573 16 0.00
578 16 0.00
579 101 0.03
580 79 0.02
581 51 0.01
582 17 0.00
583 2 0.00
584 1 0.00
585 3 0.00
586 163 0.05
587 83 0.02
588 32 0.01
590 204 0.06
591 137 0.04
592 63 0.02
593 52 0.01
594 495 0.14
595 261 0.07
596 418 0.12
597 224 0.06
598 197 0.06
599 20 0.01
600 3 0.00
601 173 0.05
602 8 0.00
603 63 0.02
604 193 0.06
605 54 0.02
606 2 0.00
607 140 0.04
608 2 0.00
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.36
Consensus pattern (593 bp):
TTTCCGTGTACTGGTGCTGGCTTTAGAATATGTAATGTTAAATAAAATTTAGGGACTGTTGATGA
ACTTTACCTTAAATTAGTAATTTCAATTAAATCAGATTTTCTATTTTTAGTTCATACAGGTATGA
CAGTGAACAAAAAACAGAGACAATGACAGACACCCTTGCTCCGGGAAAGTTAGGATTATCTGAAA
CTAAAACTGAAACTTTGATACCTTTGAGCTATGCTTTTGAGTGTTACGGGTTCTATATCTTTTGT
TCACTAAGTTGGAAAAATATGATCATCCTTTTCTTTTTAGTCTTTCGAAACTCAAAACACTTCCA
CTACCTACTCTTTCTTTGGCTTTTATATTTTCTTCTTTTTTCTACACCTTAAAGCCTAAGAGTCT
TACAAAAATGACTCAAAACTGTAAAATAATAATAACACGCCAGCACCCAAAATTTTTTTTTCTTG
TACTGGTGCTGGCCATTTACAGGCCAGCACCTAAAATTTTTTTTTCGTGTACTGGTTTCTGCAAT
TGATAACCAGCACTCAAAAAAAATTTCGTGTACTGGTGCCGGCCATCCACAGGCCAGCACAAAAA
AAAAGTTT
Found at i:5234184 original size:48 final size:48
Alignment explanation
Indices: 5234086--5234200 Score: 124
Period size: 48 Copynumber: 2.4 Consensus size: 48
5234076 ATAATAATAA
* * *
5234086 TGACATGCCAGCACCAAATTTTTTTTTTCATTTACTGGTGTCGCCCAT
1 TGACAAGCCAGCACCAAATATTTTTTTTCATGTACTGGTGTCGCCCAT
* * * * *
5234134 TGACAGGCCAGCACCTAATATTTTTTTTCGTGTACTGGTTTCTG-CTAT
1 TGACAAGCCAGCACCAAATATTTTTTTTCATGTACTGGTGTC-GCCCAT
*
5234182 TGACAAGCTAGCACTCAAA
1 TGACAAGCCAGCAC-CAAA
5234201 AAAAAATCTT
Statistics
Matches: 55, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
48 51 0.93
49 4 0.07
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.37
Consensus pattern (48 bp):
TGACAAGCCAGCACCAAATATTTTTTTTCATGTACTGGTGTCGCCCAT
Found at i:5235029 original size:6 final size:6
Alignment explanation
Indices: 5235018--5235049 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
5235008 TTAGGATTAT
5235018 CTGAAA CTGAAA CTGAAA CTGAAA CTGAAA CT
1 CTGAAA CTGAAA CTGAAA CTGAAA CTGAAA CT
5235050 TCGATAACTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.47, C:0.19, G:0.16, T:0.19
Consensus pattern (6 bp):
CTGAAA
Found at i:5236557 original size:52 final size:53
Alignment explanation
Indices: 5236478--5236600 Score: 117
Period size: 52 Copynumber: 2.3 Consensus size: 53
5236468 CTAAAATTTT
* ** * *
5236478 TTTTTCGTGTACTGGTTTCTGCTATTGACAA-GCCAGCACTCAAAAAAA-AATTC
1 TTTTCCGTGTACTGGTGCCGGCCATTGA-AATGCCAGCAC-CAAAAAAATAATTC
* * * * *
5236531 TTTT-CGTTTACTGGTGCCGGCCATTGAAATGCCATCTCCAAAAAAATATTTT
1 TTTTCCGTGTACTGGTGCCGGCCATTGAAATGCCAGCACCAAAAAAATAATTC
5236583 TTTTCCGTGTACTGGTGC
1 TTTTCCGTGTACTGGTGC
5236601 TGGCTTTAGA
Statistics
Matches: 57, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
51 10 0.18
52 31 0.54
53 16 0.28
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.37
Consensus pattern (53 bp):
TTTTCCGTGTACTGGTGCCGGCCATTGAAATGCCAGCACCAAAAAAATAATTC
Found at i:5237925 original size:590 final size:587
Alignment explanation
Indices: 5236454--5238609 Score: 3188
Period size: 588 Copynumber: 3.7 Consensus size: 587
5236444 GTAATAATAA
*
5236454 TGACACGCCAGCACCTAAAATTTTTTTTTCGTGTACTGGTTTCTGCTATTGACAAGCCAGCACTC
1 TGACAGGCCAGCACCTAAAATTTTTTTTTCGTGTACTGGTTTCTGCTATTGACAAGCCAGCACTC
* * * *
5236519 AAAAAAAAATTCTTTTCGTTTACTGGTGCCGGCCATTGAAATGCCATCTCCAAAAAAATATTTTT
66 AAAAAAAAA---ATTTCATTTACTGGTGCCGGCCATTGAAAGGCCATCACC---AAAAT-TTTTT
*
5236584 TTTCCGTGTACTGGTGCTGGCTTTAGAATATGTAATGTGAAATAAAATTTTGGGACTGTTGATGA
124 TTTCCGTGTACTGGTGCTAGCTTTAGAATATGTAATGTGAAATAAAATTTTGGGACTGTTGATGA
** *
5236649 GTTTTACCTTAAATTAGTAATTTCAATTAAATCAAATTTTCTATTTTTAGTTCATACAGGTATGA
189 ACTTTACCTTAAATTAGTAATTTCAATTAAATCAGATTTTCTATTTTTAGTTCATACAGGTATGA
5236714 CAGTGAACAAAAAACAGAGACAATGACAGACACCCTTGCTCCGGGAAAGTTAGGATTATCTGAAA
254 CAGTGAACAAAAAACAGAGACAATGACAGACACCCTTGCTCCGGGAAAGTTAGGATTATCTGAAA
* **
5236779 CTGAAACTTTGATACCTTTGAGCTTTGGTTTTTTGTGTTACGGGTTCTATATCTTTTGTTCACAA
319 CTGAAACTTTGATACCTTTGAGCTTTGCTTTTGAGTGTTACGGGTTCTATATCTTTTGTTCACAA
*
5236844 AGTTGGAAAAATATGATCATCCTTACCTTTTTAGTATTTCGAAACTCAAAACACTCCCACTACCT
384 AGTTGGAAAAATATGATCATCCTTACCTTTTTAGTCTTTCGAAACTCAAAACACTCCCACTACCT
* *
5236909 ACTCTTTCTTTGGCTTTTATATTTTGTTCTTTTTTTGCACCTTAAAGCCTCAGAGTCTTACAAAA
449 ACTCTTTCTTTGGCTTTTATATTTTCTTCTTTTTTTGCACCTTAAAGCCTAAGAGTCTTACAAAA
* * * * *
5236974 ATGACTCAAAACTATAATAATAATAATGACATGCCAGCA-AC-AATTTTTTGTTTCAAGTACTGG
514 ATGACTCAAAACTGTAATAATAATAATGACACGCCAGCACCCAAAATTTTT-TTTCATGTACTGG
5237037 TGCCGCCCAT
578 TGCCGCCCAT
* * * * * *
5237047 TAATAGGCTAGCACCTAAAATTTTTTTTTCGTGTACTGGTTTCTGCAATTGATAGGCCAGCACTC
1 TGACAGGCCAGCACCTAAAATTTTTTTTTCGTGTACTGGTTTCTGCTATTGACAAGCCAGCACTC
* * * ** * * * ***
5237112 -AAAAAACAA-TTCATGTACTAGTGCCGGCCATCCACAGGCCAGCACAAAAAAAAAAAGTTTTTT
66 AAAAAAAAAATTTCATTTACTGGTGCCGGCCATTGAAAGGCCATCAC----CAAAATTTTTTTTT
* * *
5237175 CCGTGTACTGATGCTGGCTTTAGAATATGTAATGTGAAATAAAATTTAGGGACTGTTGATGAACT
127 CCGTGTACTGGTGCTAGCTTTAGAATATGTAATGTGAAATAAAATTTTGGGACTGTTGATGAACT
* * *
5237240 TTACCTTAAATTAATAATTTCAATTAAATTAGATTTTCTATTTTTAGTTCATACAGGTTTGACAG
192 TTACCTTAAATTAGTAATTTCAATTAAATCAGATTTTCTATTTTTAGTTCATACAGGTATGACAG
* * * *
5237305 TGAACAAAAAACAGAGACAATGATAGACACCTTTACTCGGGGAAAGTTAGGATTATCTGAAACTG
257 TGAACAAAAAACAGAGACAATGACAGACACCCTTGCTCCGGGAAAGTTAGGATTATCTGAAACTG
* * *
5237370 AAACTTTGATACCTTTAAGCTTTGCTTTTGATTGTTATGGGTTCTATATCTTTTGTTCACAAAGT
322 AAACTTTGATACCTTTGAGCTTTGCTTTTGAGTGTTACGGGTTCTATATCTTTTGTTCACAAAGT
* *
5237435 TGGAAAAATATAATCATCCTTGCCTTTTTAGTCTTTCGAAACTCAAAACACTCCCACTACCTACT
387 TGGAAAAATATGATCATCCTTACCTTTTTAGTCTTTCGAAACTCAAAACACTCCCACTACCTACT
5237500 CTTTCTTTGGCTTTTATATTTTCTTCCTTTTTTTGCACCTTAAAGCCTAAGAGTCTTACAAAAAT
452 CTTTCTTTGGCTTTTATATTTTCTT-CTTTTTTTGCACCTTAAAGCCTAAGAGTCTTACAAAAAT
* * *
5237565 AACTCAAAACTGTAATAATAATAATGACACGCCAGCACCCAAAATTCTTTTTCATGTACTGGTGT
516 GACTCAAAACTGTAATAATAATAATGACACGCCAGCACCCAAAATTTTTTTTCATGTACTGGTGC
5237630 CGCCCAT
581 CGCCCAT
* * *
5237637 TGACAGGCCAGTACCTAAAAATTTTTTTCTTCGTGTACTTGTTTCTGCTATTGACAAGGCAGCAC
1 TGACAGGCCAGCACCT-AAAATTTTTTT-TTCGTGTACTGGTTTCTGCTATTGACAAGCCAGCAC
* *
5237702 TCAAAAAAAAAATTTCATTTACTGGTGCCGGCCATTAAAAGGCAATCACCAAAATTTTTTTTTCC
64 TCAAAAAAAAAATTTCATTTACTGGTGCCGGCCATTGAAAGGCCATCACCAAAATTTTTTTTTCC
* *
5237767 GTGTATTGGTGCTAGCTTTAGAATATGTAATGTTAAATAAAATTTTGGGACTGTTGATGAACTTT
129 GTGTACTGGTGCTAGCTTTAGAATATGTAATGTGAAATAAAATTTTGGGACTGTTGATGAACTTT
*
5237832 ACCTTAAATTAGTAATTTCAATTAAATCAGATTTTCTATTTTTAGTTCATACAGGTATGACAGTA
194 ACCTTAAATTAGTAATTTCAATTAAATCAGATTTTCTATTTTTAGTTCATACAGGTATGACAGTG
*
5237897 AACAAAAAACAGAGGCAATGACAGACACCCTTGCTCCGGGAAAGTTAGGATTATCTGAAACTGAA
259 AACAAAAAACAGAGACAATGACAGACACCCTTGCTCCGGGAAAGTTAGGATTATCTGAAACTGAA
* *
5237962 ACTTTGATACCCTTGAGCTTTACTTTTGAGTGTTACGGGTTCTATATCTTTTGTTCACAAAGTTG
324 ACTTTGATACCTTTGAGCTTTGCTTTTGAGTGTTACGGGTTCTATATCTTTTGTTCACAAAGTTG
* * * *
5238027 GAAAAATATGATAATCCTTACCTTTTTAGTCTTTAGAATCTCAAAATACTCCCACTACCTACTCT
389 GAAAAATATGATCATCCTTACCTTTTTAGTCTTTCGAAACTCAAAACACTCCCACTACCTACTCT
* *
5238092 TTCTTTGGCTTTTATATTTTTTTTCTTTTTTCTACACCTTAAAGCCTAA-ATGTCTTACAAAAAT
454 TTCTTTGGCTTTTATA-TTTTCTTCTTTTTT-TGCACCTTAAAGCCTAAGA-GTCTTACAAAAAT
5238156 GACTCAAAACTG---TAATAATAATGACACG-C--CACCCAAAATTTTTTTTTCATGTACTGGTG
516 GACTCAAAACTGTAATAATAATAATGACACGCCAGCACCCAAAA-TTTTTTTTCATGTACTGGTG
*
5238215 CCGACCAT
580 CCGCCCAT
* * *
5238223 TGACAGGCCAGCACCT-AAA-TTTTTTTTCGTGTACTGGTTTCTACTATTGACAAACCAACACTC
1 TGACAGGCCAGCACCTAAAATTTTTTTTTCGTGTACTGGTTTCTGCTATTGACAAGCCAGCACTC
* * *
5238286 AAAAAAAATTTATTTTCGTTTACTGGTGCCGGCCATTGACAGGCCATCACC-AAATTTTTTTTTC
66 AAAAAAAA---AATTTCATTTACTGGTGCCGGCCATTGAAAGGCCATCACCAAAATTTTTTTTTC
* * * *
5238350 CATGTACTGGTGCTAGCTTTAGAATATGTATTGTTAAATAAAATTTTGGGATTGTTGATGAACTT
128 CGTGTACTGGTGCTAGCTTTAGAATATGTAATGTGAAATAAAATTTTGGGACTGTTGATGAACTT
* * *
5238415 TACCTCAAATTAGTAATTTCAATTAAATCAGATTTTTTATTTTTAGTTCATACAAGTATGACAGT
193 TACCTTAAATTAGTAATTTCAATTAAATCAGATTTTCTATTTTTAGTTCATACAGGTATGACAGT
*
5238480 GAACAAAAAACAGAGACAATGACAGACACCCTTGCTCCGGGAAAGTTAGGATTTTTCTGAAACTG
258 GAACAAAAAACAGAGACAATGACAGACACCCTTGCTCCGGGAAAGTTAGGA-TTATCTGAAACTG
* * * *
5238545 AAACTTTAATACCTTTGAGTTTTGCTTTTGAGTGTTACGGGTTCTATATATTTTGTTTACAAAGT
322 AAACTTTGATACCTTTGAGCTTTGCTTTTGAGTGTTACGGGTTCTATATCTTTTGTTCACAAAGT
5238610 AAAGAAACTA
Statistics
Matches: 1412, Mismatches: 132, Indels: 46
0.89 0.08 0.03
Matches are distributed among these distances:
582 41 0.03
583 6 0.00
584 188 0.13
585 115 0.08
586 40 0.03
587 1 0.00
588 377 0.27
589 76 0.05
590 370 0.26
591 63 0.04
592 40 0.03
593 66 0.05
594 29 0.02
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (587 bp):
TGACAGGCCAGCACCTAAAATTTTTTTTTCGTGTACTGGTTTCTGCTATTGACAAGCCAGCACTC
AAAAAAAAAATTTCATTTACTGGTGCCGGCCATTGAAAGGCCATCACCAAAATTTTTTTTTCCGT
GTACTGGTGCTAGCTTTAGAATATGTAATGTGAAATAAAATTTTGGGACTGTTGATGAACTTTAC
CTTAAATTAGTAATTTCAATTAAATCAGATTTTCTATTTTTAGTTCATACAGGTATGACAGTGAA
CAAAAAACAGAGACAATGACAGACACCCTTGCTCCGGGAAAGTTAGGATTATCTGAAACTGAAAC
TTTGATACCTTTGAGCTTTGCTTTTGAGTGTTACGGGTTCTATATCTTTTGTTCACAAAGTTGGA
AAAATATGATCATCCTTACCTTTTTAGTCTTTCGAAACTCAAAACACTCCCACTACCTACTCTTT
CTTTGGCTTTTATATTTTCTTCTTTTTTTGCACCTTAAAGCCTAAGAGTCTTACAAAAATGACTC
AAAACTGTAATAATAATAATGACACGCCAGCACCCAAAATTTTTTTTCATGTACTGGTGCCGCCC
AT
Found at i:5238256 original size:47 final size:46
Alignment explanation
Indices: 5238195--5238362 Score: 138
Period size: 47 Copynumber: 3.5 Consensus size: 46
5238185 CACCCAAAAT
*
5238195 TTTTTTTTCATGTACTGGTGCCGACCATTGACAGGCCAGCACCTAAA
1 TTTTTTTTCATGTACTGGTGCCGACCATTGACAGGCCAACACC-AAA
* ** * * **
5238242 TTTTTTTTCGTGTACTGGTTTCTACTATTGACAAACCAACACTCAAAAAAAA
1 TTTTTTTTCATGTACTGGTGCCGACCATTGACAGGCCAACAC-C-----AAA
* * * * *
5238294 TTTATTTTCGTTTACTGGTGCCGGCCATTGACAGGCCATCACCAAA
1 TTTTTTTTCATGTACTGGTGCCGACCATTGACAGGCCAACACCAAA
5238340 TTTTTTTTTCCATGTACTGGTGC
1 -TTTTTTTT-CATGTACTGGTGC
5238363 TAGCTTTAGA
Statistics
Matches: 92, Mismatches: 22, Indels: 13
0.72 0.17 0.10
Matches are distributed among these distances:
46 3 0.03
47 41 0.45
48 12 0.13
51 1 0.01
52 35 0.38
ACGTcount: A:0.24, C:0.23, G:0.16, T:0.37
Consensus pattern (46 bp):
TTTTTTTTCATGTACTGGTGCCGACCATTGACAGGCCAACACCAAA
Found at i:5238502 original size:584 final size:585
Alignment explanation
Indices: 5236454--5238609 Score: 3154
Period size: 590 Copynumber: 3.7 Consensus size: 585
5236444 GTAATAATAA
*
5236454 TGACACGCCAGCACCTAAAATTTTTTTTTCGTGTACTGGTTTCTGCTATTGACAAGCCAGCACTC
1 TGACAGGCCAGCACCTAAAATTTTTTTTTCGTGTACTGGTTTCTGCTATTGACAAGCCAGCACTC
* * * *
5236519 AAAAAAAAATTCTTTTCGTTTACTGGTGCCGGCCATTGAAATGCCATCTCCAAAAAAATATTTTT
66 AAAAAAAATTTATTTTCGTTTACTGGTGCCGGCCATTGAAAGGCCATCACC---AAAAT-TTTTT
*
5236584 TTTCCGTGTACTGGTGCTGGCTTTAGAATATGTAATGTGAAATAAAATTTTGGGACTGTTGATGA
127 TTTCCGTGTACTGGTGCTAGCTTTAGAATATGTAATGTGAAATAAAATTTTGGGACTGTTGATGA
** *
5236649 GTTTTACCTTAAATTAGTAATTTCAATTAAATCAAATTTTCTATTTTTAGTTCATACAGGTATGA
192 ACTTTACCTTAAATTAGTAATTTCAATTAAATCAGATTTTCTATTTTTAGTTCATACAGGTATGA
5236714 CAGTGAACAAAAAACAGAGACAATGACAGACACCCTTGCTCCGGGAAAGTTAGGATTATCTGAAA
257 CAGTGAACAAAAAACAGAGACAATGACAGACACCCTTGCTCCGGGAAAGTTAGGATTATCTGAAA
* **
5236779 CTGAAACTTTGATACCTTTGAGCTTTGGTTTTTTGTGTTACGGGTTCTATATCTTTTGTTCACAA
322 CTGAAACTTTGATACCTTTGAGCTTTGCTTTTGAGTGTTACGGGTTCTATATCTTTTGTTCACAA
*
5236844 AGTTGGAAAAATATGATCATCCTTACCTTTTTAGTATTTCGAAACTCAAAACACTCCCACTACCT
387 AGTTGGAAAAATATGATCATCCTTACCTTTTTAGTCTTTCGAAACTCAAAACACTCCCACTACCT
* *
5236909 ACTCTTTCTTTGGCTTTTATA-TTTTGTTCTTTTTTTGCACCTTAAAGCCTCAGAGTCTTACAAA
452 ACTCTTTCTTTGGCTTTTATATTTTTTTTCTTTTTTTGCACCTTAAAGCCT-AAAGTCTTACAAA
* * * *
5236973 AATGACTCAAAACTATAATAATAATAATGACATGCCA-GCAACAATTTTTTGTTTCAAGTACTGG
516 AATGACTCAAAAC--T-GTAATAATAATGACACGCCACCCAA-AATTTTTT-TTTCATGTACTGG
5237037 TGCCGCCCAT
576 TGCCGCCCAT
* * * * * *
5237047 TAATAGGCTAGCACCTAAAATTTTTTTTTCGTGTACTGGTTTCTGCAATTGATAGGCCAGCACTC
1 TGACAGGCCAGCACCTAAAATTTTTTTTTCGTGTACTGGTTTCTGCTATTGACAAGCCAGCACTC
* * ** * * * ***
5237112 AAAAAACAATTCA---T-G--TACTAGTGCCGGCCATCCACAGGCCAGCACAAAAAAAAAAAGTT
66 AAAAAA-AATTTATTTTCGTTTACTGGTGCCGGCCATTGAAAGGCCATCAC----CAAAATTTTT
* * *
5237171 TTTTCCGTGTACTGATGCTGGCTTTAGAATATGTAATGTGAAATAAAATTTAGGGACTGTTGATG
126 TTTTCCGTGTACTGGTGCTAGCTTTAGAATATGTAATGTGAAATAAAATTTTGGGACTGTTGATG
* * *
5237236 AACTTTACCTTAAATTAATAATTTCAATTAAATTAGATTTTCTATTTTTAGTTCATACAGGTTTG
191 AACTTTACCTTAAATTAGTAATTTCAATTAAATCAGATTTTCTATTTTTAGTTCATACAGGTATG
* * * *
5237301 ACAGTGAACAAAAAACAGAGACAATGATAGACACCTTTACTCGGGGAAAGTTAGGATTATCTGAA
256 ACAGTGAACAAAAAACAGAGACAATGACAGACACCCTTGCTCCGGGAAAGTTAGGATTATCTGAA
* * *
5237366 ACTGAAACTTTGATACCTTTAAGCTTTGCTTTTGATTGTTATGGGTTCTATATCTTTTGTTCACA
321 ACTGAAACTTTGATACCTTTGAGCTTTGCTTTTGAGTGTTACGGGTTCTATATCTTTTGTTCACA
* *
5237431 AAGTTGGAAAAATATAATCATCCTTGCCTTTTTAGTCTTTCGAAACTCAAAACACTCCCACTACC
386 AAGTTGGAAAAATATGATCATCCTTACCTTTTTAGTCTTTCGAAACTCAAAACACTCCCACTACC
* *
5237496 TACTCTTTCTTTGGCTTTTATATTTTCTTCCTTTTTTTGCACCTTAAAGCCTAAGAGTCTTACAA
451 TACTCTTTCTTTGGCTTTTATATTTTTTTTCTTTTTTTGCACCTTAAAGCCTAA-AGTCTTACAA
* *
5237561 AAATAACTCAAAACTGTAATAATAATAATGACACGCCAGCACCCAAAA-TTCTTTTTCATGTACT
515 AAATGACTCAAAACTG---TAATAATAATGACACG-C--CACCCAAAATTTTTTTTTCATGTACT
*
5237625 GGTGTCGCCCAT
574 GGTGCCGCCCAT
* * *
5237637 TGACAGGCCAGTACCTAAAAATTTTTTTCTTCGTGTACTTGTTTCTGCTATTGACAAGGCAGCAC
1 TGACAGGCCAGCACCT-AAAATTTTTTT-TTCGTGTACTGGTTTCTGCTATTGACAAGCCAGCAC
* * * *
5237702 TCAAAAAAAA---AATTTCATTTACTGGTGCCGGCCATTAAAAGGCAATCACCAAAATTTTTTTT
64 TCAAAAAAAATTTATTTTCGTTTACTGGTGCCGGCCATTGAAAGGCCATCACCAAAATTTTTTTT
* *
5237764 TCCGTGTATTGGTGCTAGCTTTAGAATATGTAATGTTAAATAAAATTTTGGGACTGTTGATGAAC
129 TCCGTGTACTGGTGCTAGCTTTAGAATATGTAATGTGAAATAAAATTTTGGGACTGTTGATGAAC
5237829 TTTACCTTAAATTAGTAATTTCAATTAAATCAGATTTTCTATTTTTAGTTCATACAGGTATGACA
194 TTTACCTTAAATTAGTAATTTCAATTAAATCAGATTTTCTATTTTTAGTTCATACAGGTATGACA
* *
5237894 GTAAACAAAAAACAGAGGCAATGACAGACACCCTTGCTCCGGGAAAGTTAGGATTATCTGAAACT
259 GTGAACAAAAAACAGAGACAATGACAGACACCCTTGCTCCGGGAAAGTTAGGATTATCTGAAACT
* *
5237959 GAAACTTTGATACCCTTGAGCTTTACTTTTGAGTGTTACGGGTTCTATATCTTTTGTTCACAAAG
324 GAAACTTTGATACCTTTGAGCTTTGCTTTTGAGTGTTACGGGTTCTATATCTTTTGTTCACAAAG
* * * *
5238024 TTGGAAAAATATGATAATCCTTACCTTTTTAGTCTTTAGAATCTCAAAATACTCCCACTACCTAC
389 TTGGAAAAATATGATCATCCTTACCTTTTTAGTCTTTCGAAACTCAAAACACTCCCACTACCTAC
*
5238089 TCTTTCTTTGGCTTTTATATTTTTTTTCTTTTTTCTACACCTTAAAGCCTAAATGTCTTACAAAA
454 TCTTTCTTTGGCTTTTATATTTTTTTTCTTTTTT-TGCACCTTAAAGCCTAAA-GTCTTACAAAA
*
5238154 ATGACTCAAAACTGTAATAATAATGACACGCCACCCAAAATTTTTTTTTCATGTACTGGTGCCGA
517 ATGACTCAAAACTGTAATAATAATGACACGCCACCCAAAATTTTTTTTTCATGTACTGGTGCCGC
5238219 CCAT
582 CCAT
* * *
5238223 TGACAGGCCAGCACCT-AAA-TTTTTTTTCGTGTACTGGTTTCTACTATTGACAAACCAACACTC
1 TGACAGGCCAGCACCTAAAATTTTTTTTTCGTGTACTGGTTTCTGCTATTGACAAGCCAGCACTC
*
5238286 AAAAAAAATTTATTTTCGTTTACTGGTGCCGGCCATTGACAGGCCATCACC-AAATTTTTTTTTC
66 AAAAAAAATTTATTTTCGTTTACTGGTGCCGGCCATTGAAAGGCCATCACCAAAATTTTTTTTTC
* * * *
5238350 CATGTACTGGTGCTAGCTTTAGAATATGTATTGTTAAATAAAATTTTGGGATTGTTGATGAACTT
131 CGTGTACTGGTGCTAGCTTTAGAATATGTAATGTGAAATAAAATTTTGGGACTGTTGATGAACTT
* * *
5238415 TACCTCAAATTAGTAATTTCAATTAAATCAGATTTTTTATTTTTAGTTCATACAAGTATGACAGT
196 TACCTTAAATTAGTAATTTCAATTAAATCAGATTTTCTATTTTTAGTTCATACAGGTATGACAGT
*
5238480 GAACAAAAAACAGAGACAATGACAGACACCCTTGCTCCGGGAAAGTTAGGATTTTTCTGAAACTG
261 GAACAAAAAACAGAGACAATGACAGACACCCTTGCTCCGGGAAAGTTAGGA-TTATCTGAAACTG
* * * *
5238545 AAACTTTAATACCTTTGAGTTTTGCTTTTGAGTGTTACGGGTTCTATATATTTTGTTTACAAAGT
325 AAACTTTGATACCTTTGAGCTTTGCTTTTGAGTGTTACGGGTTCTATATCTTTTGTTCACAAAGT
5238610 AAAGAAACTA
Statistics
Matches: 1402, Mismatches: 132, Indels: 66
0.88 0.08 0.04
Matches are distributed among these distances:
582 41 0.03
583 6 0.00
584 188 0.13
585 115 0.08
586 40 0.03
587 2 0.00
588 369 0.26
589 68 0.05
590 377 0.27
591 59 0.04
592 43 0.03
593 67 0.05
594 27 0.02
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (585 bp):
TGACAGGCCAGCACCTAAAATTTTTTTTTCGTGTACTGGTTTCTGCTATTGACAAGCCAGCACTC
AAAAAAAATTTATTTTCGTTTACTGGTGCCGGCCATTGAAAGGCCATCACCAAAATTTTTTTTTC
CGTGTACTGGTGCTAGCTTTAGAATATGTAATGTGAAATAAAATTTTGGGACTGTTGATGAACTT
TACCTTAAATTAGTAATTTCAATTAAATCAGATTTTCTATTTTTAGTTCATACAGGTATGACAGT
GAACAAAAAACAGAGACAATGACAGACACCCTTGCTCCGGGAAAGTTAGGATTATCTGAAACTGA
AACTTTGATACCTTTGAGCTTTGCTTTTGAGTGTTACGGGTTCTATATCTTTTGTTCACAAAGTT
GGAAAAATATGATCATCCTTACCTTTTTAGTCTTTCGAAACTCAAAACACTCCCACTACCTACTC
TTTCTTTGGCTTTTATATTTTTTTTCTTTTTTTGCACCTTAAAGCCTAAAGTCTTACAAAAATGA
CTCAAAACTGTAATAATAATGACACGCCACCCAAAATTTTTTTTTCATGTACTGGTGCCGCCCAT
Found at i:5240163 original size:29 final size:29
Alignment explanation
Indices: 5240131--5240262 Score: 140
Period size: 29 Copynumber: 4.5 Consensus size: 29
5240121 AATGCAAAAA
** *
5240131 TAAAAATTACATTTTAACCCTGTACTTTT
1 TAAAAATTACATTTTAACCCTAAACTTTC
* * *
5240160 TAAAATTTACATTTTGACCTTAAACTTTTC
1 TAAAAATTACATTTTAACCCTAAAC-TTTC
5240190 T-AAAATTACATTTTAACCCCTAAACTTTC
1 TAAAAATTACATTTTAA-CCCTAAACTTTC
* * * *
5240219 TCAAAATTGCACTTTGACCCCTAAACTTTC
1 TAAAAATTACA-TTTTAACCCTAAACTTTC
5240249 TAAAAATTACATTT
1 TAAAAATTACATTT
5240263 GGCCCATATT
Statistics
Matches: 85, Mismatches: 14, Indels: 8
0.79 0.13 0.07
Matches are distributed among these distances:
29 41 0.48
30 40 0.47
31 4 0.05
ACGTcount: A:0.36, C:0.20, G:0.03, T:0.41
Consensus pattern (29 bp):
TAAAAATTACATTTTAACCCTAAACTTTC
Found at i:5240196 original size:30 final size:29
Alignment explanation
Indices: 5240133--5240262 Score: 138
Period size: 30 Copynumber: 4.4 Consensus size: 29
5240123 TGCAAAAATA
** *
5240133 AAAATTACATTTTAA-CCCTGTACTTTTT
1 AAAATTACATTTTAACCCCTAAACTTTCT
* *
5240161 AAAATTTACATTTTGA-CCTTAAACTTTTCT
1 AAAA-TTACATTTTAACCCCTAAAC-TTTCT
5240191 AAAATTACATTTTAACCCCTAAACTTTCT
1 AAAATTACATTTTAACCCCTAAACTTTCT
* * *
5240220 CAAAATTGCACTTTGACCCCTAAACTTTCT
1 -AAAATTACATTTTAACCCCTAAACTTTCT
5240250 AAAAATTACATTT
1 -AAAATTACATTT
5240263 GGCCCATATT
Statistics
Matches: 85, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
28 4 0.05
29 30 0.35
30 51 0.60
ACGTcount: A:0.35, C:0.21, G:0.03, T:0.41
Consensus pattern (29 bp):
AAAATTACATTTTAACCCCTAAACTTTCT
Found at i:5240249 original size:59 final size:59
Alignment explanation
Indices: 5240131--5240262 Score: 162
Period size: 59 Copynumber: 2.2 Consensus size: 59
5240121 AATGCAAAAA
** * * *
5240131 TAAAAATTACATTTTAACCCTGTACTTTTTAAAATTTACATTTTGACCTTAAACTTTTC
1 TAAAAATTACATTTTAACCCTAAACTTTTCAAAATTTACACTTTGACCCTAAACTTTTC
*
5240190 T-AAAATTACATTTTAACCCCTAAACTTTCTCAAAA-TTGCACTTTGACCCCTAAAC-TTTC
1 TAAAAATTACATTTTAA-CCCTAAACTTT-TCAAAATTTACACTTTGA-CCCTAAACTTTTC
5240249 TAAAAATTACATTT
1 TAAAAATTACATTT
5240263 GGCCCATATT
Statistics
Matches: 63, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
58 15 0.24
59 24 0.38
60 24 0.38
ACGTcount: A:0.36, C:0.20, G:0.03, T:0.41
Consensus pattern (59 bp):
TAAAAATTACATTTTAACCCTAAACTTTTCAAAATTTACACTTTGACCCTAAACTTTTC
Found at i:5240862 original size:31 final size:28
Alignment explanation
Indices: 5240800--5240866 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 28
5240790 GAGCTTTCGA
5240800 AAGAGAAAGAAAAGAAAAGGAAATGGGAG
1 AAGAG-AAGAAAAGAAAAGGAAATGGGAG
5240829 AAGAGAAGAAAAGATAGAAAGCGAAA-GGGAG
1 AAGAGAAGAAAAG--A-AAAG-GAAATGGGAG
5240860 AAGAGAA
1 AAGAGAA
5240867 AAATGGGAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
28 8 0.24
29 5 0.15
30 1 0.03
31 16 0.47
32 4 0.12
ACGTcount: A:0.61, C:0.01, G:0.34, T:0.03
Consensus pattern (28 bp):
AAGAGAAGAAAAGAAAAGGAAATGGGAG
Found at i:5244284 original size:24 final size:24
Alignment explanation
Indices: 5244229--5244284 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
5244219 GAATTATAAA
5244229 ATATAT-AAAATATGTACATATAT
1 ATATATAAAAATATGTACATATAT
* **
5244252 ATATGTAAAAATATGTATTTATAT
1 ATATATAAAAATATGTACATATAT
*
5244276 ATTTATAAA
1 ATATATAAA
5244285 GGTTAGAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 5 0.19
24 22 0.81
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (24 bp):
ATATATAAAAATATGTACATATAT
Found at i:5246233 original size:44 final size:42
Alignment explanation
Indices: 5246097--5246465 Score: 198
Period size: 44 Copynumber: 8.5 Consensus size: 42
5246087 ATCTACTCTG
* * * * * *
5246097 CTGTAACCTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCA
1 CTGTAATCTCAGGGAGATAAGAT-CTCT-TCTTGATCTGCTCCA
* * * * *
5246141 CTGTAA-CTTCAGGGAGATAGGATAGT-GTCTTCGATCTGATCCG
1 CTGTAATC-TCAGGGAGATAAGAT-CTCTTCTT-GATCTGCTCCA
* *
5246184 CTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCA
1 CTGTAATCTCAGGGAGATAAGATCTCT-TCTT-GATCTGCTCCA
* * * **
5246228 CTGTAACCTCAGGGAGATAAGATCTGAAATTCTTTGGTCTATTCCA
1 CTGTAATCTCAGGGAGATAAGATCT---CTTC-TTGATCTGCTCCA
** * *
5246274 CTGTAATCTCAGGGAGATAAGA-C-CTGATGTGATCTTCTCTA
1 CTGTAATCTCAGGGAGATAAGATCTCTTCT-TGATCTGCTCCA
* * *
5246315 CTGTAA-CTTCAGAGAGATAAGATC-C-T-TTAATCCGCTCCA
1 CTGTAATC-TCAGGGAGATAAGATCTCTTCTTGATCTGCTCCA
* * * *
5246354 TTGTAATCTCAAGGAGATAGGAT-TACTATCTTTGATCTGCTCCG
1 CTGTAATCTCAGGGAGATAAGATCT-CT-TC-TTGATCTGCTCCA
* * * *
5246398 CTGTAATCTCAGGGAGATAAGATATGAAATTCTTTGGTCTGTTCCA
1 CTGTAATCTCAGGGAGATAAGATCT---CTTC-TTGATCTGCTCCA
5246444 CTGTAATCTCAGGGAGATAAGA
1 CTGTAATCTCAGGGAGATAAGA
5246466 CCTGTATAAT
Statistics
Matches: 251, Mismatches: 52, Indels: 42
0.73 0.15 0.12
Matches are distributed among these distances:
39 25 0.10
40 5 0.02
41 28 0.11
42 7 0.03
43 28 0.11
44 87 0.35
45 2 0.01
46 64 0.25
47 5 0.02
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (42 bp):
CTGTAATCTCAGGGAGATAAGATCTCTTCTTGATCTGCTCCA
Found at i:5246288 original size:46 final size:44
Alignment explanation
Indices: 5246224--5246465 Score: 152
Period size: 46 Copynumber: 5.6 Consensus size: 44
5246214 TTCAATCTGC
*
5246224 TCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTTGGTCTAT
1 TCCACTGTAATCTCAGGGAGATAAGATCTG-AATTCTTTGGTCT-T
* * *
5246270 TCCACTGTAATCTCAGGGAGATAAGACCTG-A---TGTGATCTT
1 TCCACTGTAATCTCAGGGAGATAAGATCTGAATTCTTTGGTCTT
* * * *
5246310 CTCTACTGTAA-CTTCAGAGAGATAAGATCCTTTAA-TC---CG-C--
1 -TCCACTGTAATC-TCAGGGAGATAAGAT-C-TGAATTCTTTGGTCTT
* * * * * *
5246350 TCCATTGTAATCTCAAGGAGATAGGAT-T-ACTATCTTTGATCTGC
1 TCCACTGTAATCTCAGGGAGATAAGATCTGAAT-TCTTTGGTCT-T
* *
5246394 TCCGCTGTAATCTCAGGGAGATAAGATATGAAATTCTTTGGTCTGT
1 TCCACTGTAATCTCAGGGAGATAAGATCTG-AATTCTTTGGTCT-T
5246440 TCCACTGTAATCTCAGGGAGATAAGA
1 TCCACTGTAATCTCAGGGAGATAAGA
5246466 CCTGTATAAT
Statistics
Matches: 150, Mismatches: 26, Indels: 40
0.69 0.12 0.19
Matches are distributed among these distances:
35 1 0.01
36 1 0.01
37 2 0.01
39 20 0.13
40 3 0.02
41 29 0.19
42 2 0.01
43 1 0.01
44 25 0.17
45 1 0.01
46 63 0.42
47 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (44 bp):
TCCACTGTAATCTCAGGGAGATAAGATCTGAATTCTTTGGTCTT
Found at i:5258817 original size:21 final size:22
Alignment explanation
Indices: 5258791--5258845 Score: 58
Period size: 24 Copynumber: 2.4 Consensus size: 22
5258781 GAATTATAAA
5258791 ATATATAAAATATGTA-CATAT
1 ATATATAAAATATGTATCATAT
*
5258812 ATATATGTAAAAATATGTATTATAT
1 ATATA--T-AAAATATGTATCATAT
*
5258837 ATTTATAAA
1 ATATATAAA
5258846 GGTTAGAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
21 5 0.18
22 3 0.11
23 2 0.07
24 10 0.36
25 8 0.29
ACGTcount: A:0.51, C:0.02, G:0.05, T:0.42
Consensus pattern (22 bp):
ATATATAAAATATGTATCATAT
Found at i:5258817 original size:23 final size:22
Alignment explanation
Indices: 5258791--5258845 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 22
5258781 GAATTATAAA
5258791 ATATATAAAATATGTACATATAT
1 ATATATAAAATATGTA-ATATAT
* *
5258814 ATATGTAAAAATATGTATTATAT
1 ATATAT-AAAATATGTAATATAT
*
5258837 ATTTATAAA
1 ATATATAAA
5258846 GGTTAGAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 3 0.11
23 14 0.52
24 10 0.37
ACGTcount: A:0.51, C:0.02, G:0.05, T:0.42
Consensus pattern (22 bp):
ATATATAAAATATGTAATATAT
Found at i:5259004 original size:3 final size:3
Alignment explanation
Indices: 5258996--5259037 Score: 57
Period size: 3 Copynumber: 13.3 Consensus size: 3
5258986 CTATAAAAGC
*
5258996 AAT AAT AAT AAT AAT AAT AAT AAT GCAAT AAC AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT --AAT AAT AAT AAT AAT A
5259038 TAAAATTTGT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
3 32 0.91
5 3 0.09
ACGTcount: A:0.64, C:0.05, G:0.02, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:5261546 original size:17 final size:17
Alignment explanation
Indices: 5261524--5261585 Score: 52
Period size: 17 Copynumber: 3.5 Consensus size: 17
5261514 CTTTTTAAAA
5261524 AAAAATAATCGTGTTTC
1 AAAAATAATCGTGTTTC
** *
5261541 AAAAATTTTCATGTTCTC
1 AAAAATAATCGTGTT-TC
* **
5261559 AAAATTTCTCGTGTTTC
1 AAAAATAATCGTGTTTC
5261576 AAAAAGTAAT
1 AAAAA-TAAT
5261586 AATAAAATTT
Statistics
Matches: 34, Mismatches: 9, Indels: 3
0.74 0.20 0.07
Matches are distributed among these distances:
17 18 0.53
18 16 0.47
ACGTcount: A:0.39, C:0.13, G:0.10, T:0.39
Consensus pattern (17 bp):
AAAAATAATCGTGTTTC
Found at i:5261560 original size:18 final size:18
Alignment explanation
Indices: 5261535--5261580 Score: 60
Period size: 17 Copynumber: 2.6 Consensus size: 18
5261525 AAAATAATCG
5261535 TGTTTCAAAAATTT-TCA
1 TGTTTCAAAAATTTCTCA
*
5261552 TGTTCTC-AAAATTTCTCG
1 TGTT-TCAAAAATTTCTCA
5261570 TGTTTCAAAAA
1 TGTTTCAAAAA
5261581 GTAATAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 13 0.52
18 12 0.48
ACGTcount: A:0.33, C:0.15, G:0.09, T:0.43
Consensus pattern (18 bp):
TGTTTCAAAAATTTCTCA
Found at i:5261661 original size:18 final size:18
Alignment explanation
Indices: 5261640--5261845 Score: 84
Period size: 17 Copynumber: 11.3 Consensus size: 18
5261630 TTCGTGCTTC
5261640 AAAAATTTCCGTGTTTTT
1 AAAAATTTCCGTGTTTTT
* *
5261658 AAAAAAAATTTCTGTG-TTTC
1 ---AAAAATTTCCGTGTTTTT
* *
5261678 AAAAA-ATCCTGTGTTTTC
1 AAAAATTTCC-GTGTTTTT
*
5261696 AAAAATTTTCGTG-TTTT
1 AAAAATTTCCGTGTTTTT
** *
5261713 AGGAATTTTCGTGTTTTTT
1 AAAAATTTCCGTG-TTTTT
* *
5261732 AAAAAAAACTT-CGTG-TTTC
1 ---AAAAATTTCCGTGTTTTT
* *
5261751 AAAAATTTCTGTGTTTTCA
1 AAAAATTTCCGTGTTTT-T
*
5261770 AAAAATTTCCGTG-TTTC
1 AAAAATTTCCGTGTTTTT
** *
5261787 AAAAAAATCCTGTGTTTTA
1 AAAAATTTCC-GTGTTTTT
** *
5261806 AAAAATTTTAGTG-TCTT
1 AAAAATTTCCGTGTTTTT
* *
5261823 AGAAATTTTCGTGTTTTT
1 AAAAATTTCCGTGTTTTT
5261841 AAAAA
1 AAAAA
5261846 AAAAATTCCT
Statistics
Matches: 140, Mismatches: 31, Indels: 31
0.69 0.15 0.15
Matches are distributed among these distances:
16 9 0.06
17 46 0.33
18 31 0.22
19 30 0.21
20 3 0.02
21 16 0.11
22 5 0.04
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.44
Consensus pattern (18 bp):
AAAAATTTCCGTGTTTTT
Found at i:5261665 original size:38 final size:37
Alignment explanation
Indices: 5261615--5261848 Score: 169
Period size: 36 Copynumber: 6.4 Consensus size: 37
5261605 TATATTCAGT
*
5261615 TTTTTAAAAAAAAACTTCGTGCTTCAAAAATTTCCGTG
1 TTTTT-AAAAAAAACTTCGTGTTTCAAAAATTTCCGTG
* *
5261653 TTTTTAAAAAAAATTTCTGTGTTTCAAAAA-ATCC-TG
1 TTTTTAAAAAAAACTTC-GTGTTTCAAAAATTTCCGTG
* ** * ** *
5261689 TGTTTT-CAAAAATTTTCGTGTTTTAGGAATTTTCGTG
1 T-TTTTAAAAAAAACTTCGTGTTTCAAAAATTTCCGTG
*
5261726 TTTTTTAAAAAAAACTTCGTGTTTCAAAAATTTCTGTG
1 -TTTTTAAAAAAAACTTCGTGTTTCAAAAATTTCCGTG
* * **
5261764 -TTTT-CAAAAAATTTCCGTGTTTCAAAAAAATCC-TG
1 TTTTTAAAAAAAACTT-CGTGTTTCAAAAATTTCCGTG
** * * *
5261799 TGTTTT-AAAAAATTTTAGTGTCTT-AGAAATTTTCGTG
1 T-TTTTAAAAAAAACTTCGTGT-TTCAAAAATTTCCGTG
5261836 TTTTTAAAAAAAA
1 TTTTTAAAAAAAA
5261849 AATTCCTCGT
Statistics
Matches: 153, Mismatches: 31, Indels: 25
0.73 0.15 0.12
Matches are distributed among these distances:
35 19 0.12
36 47 0.31
37 47 0.31
38 40 0.26
ACGTcount: A:0.35, C:0.11, G:0.12, T:0.43
Consensus pattern (37 bp):
TTTTTAAAAAAAACTTCGTGTTTCAAAAATTTCCGTG
Found at i:5261682 original size:21 final size:21
Alignment explanation
Indices: 5261640--5261683 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
5261630 TTCGTGCTTC
**
5261640 AAAAATTTCCGTGTTTTTAAA
1 AAAAATTTCCGTGTTTCAAAA
*
5261661 AAAAATTTCTGTGTTTCAAAA
1 AAAAATTTCCGTGTTTCAAAA
5261682 AA
1 AA
5261684 TCCTGTGTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.43, C:0.09, G:0.09, T:0.39
Consensus pattern (21 bp):
AAAAATTTCCGTGTTTCAAAA
Found at i:5261700 original size:37 final size:36
Alignment explanation
Indices: 5261616--5261810 Score: 171
Period size: 37 Copynumber: 5.3 Consensus size: 36
5261606 ATATTCAGTT
* *
5261616 TTTTAAAAAAAAACTTCGTGCTTCAAAAATTTCC-GTG
1 TTTT-AAAAAAAATTTCGTGTTTCAAAAA-TTCCTGTG
*
5261653 TTTTTAAAAAAAATTTCTGTGTTTCAAAAAATCCTGTG
1 -TTTTAAAAAAAATTTC-GTGTTTCAAAAATTCCTGTG
* * * ** * *
5261691 TTTT-CAAAAATTTTCGTGTTTTAGGAATTTTCGTGTT
1 TTTTAAAAAAAATTTCGTGTTTCA--AAAATTCCTGTG
* *
5261728 TTTTAAAAAAAACTTCGTGTTTCAAAAATTTCTGTG
1 TTTTAAAAAAAATTTCGTGTTTCAAAAATTCCTGTG
* *
5261764 TTTT-CAAAAAATTTCCGTGTTTCAAAAAAATCCTGTG
1 TTTTAAAAAAAATTT-CGTGTTTC-AAAAATTCCTGTG
5261801 TTTTAAAAAA
1 TTTTAAAAAA
5261811 TTTTAGTGTC
Statistics
Matches: 124, Mismatches: 25, Indels: 16
0.75 0.15 0.10
Matches are distributed among these distances:
35 15 0.12
36 28 0.23
37 44 0.35
38 37 0.30
ACGTcount: A:0.35, C:0.12, G:0.11, T:0.42
Consensus pattern (36 bp):
TTTTAAAAAAAATTTCGTGTTTCAAAAATTCCTGTG
Found at i:5261708 original size:73 final size:73
Alignment explanation
Indices: 5261630--5261810 Score: 222
Period size: 73 Copynumber: 2.5 Consensus size: 73
5261620 AAAAAAAAAC
* *
5261630 TTCGTGCTTCAAAAATTTCCGTGTTTTTAAAAAAAATTTCTGTGTTTCAAAAAATCCTGTGTTTT
1 TTCGTGTTTCAAAAATTTCCGTGTTTTTAAAAAAAACTTC-GTGTTTCAAAAAATCCTGTGTTTT
5261695 C-AAAAATT
65 CAAAAAATT
* ** * * *
5261703 TTCGTGTTTTAGGAATTTTCGTGTTTTTTAAAAAAAACTTCGTGTTTCAAAAATTTCTGTGTTTT
1 TTCGTGTTTCAAAAATTTCCGTG-TTTTTAAAAAAAACTTCGTGTTTCAAAAAATCCTGTGTTTT
5261768 CAAAAAATT
65 CAAAAAATT
* **
5261777 TCCGTGTTTCAAAAAAATCC-TGTGTTTTAAAAAA
1 TTCGTGTTTCAAAAATTTCCGTGT-TTTTAAAAAA
5261811 TTTTAGTGTC
Statistics
Matches: 90, Mismatches: 15, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
72 1 0.01
73 53 0.59
74 36 0.40
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (73 bp):
TTCGTGTTTCAAAAATTTCCGTGTTTTTAAAAAAAACTTCGTGTTTCAAAAAATCCTGTGTTTTC
AAAAAATT
Found at i:5261830 original size:110 final size:111
Alignment explanation
Indices: 5261613--5261849 Score: 361
Period size: 110 Copynumber: 2.1 Consensus size: 111
5261603 TTTATATTCA
*
5261613 GTTTTTTAAAAAAAAACTTCGTGCTTCAAAAATTTCCGTGTTTTTAAAAAAAATTTCTGTGTTTC
1 GTTTTTT-AAAAAAAACTTCGTGCTTCAAAAATTTCCGTGTTTTTAAAAAAAATTTCCGTGTTTC
* * * *
5261678 AAAAAATCCTGTGTTTTCAAAAATTTTCGTGTTTTAGGAATTTTCGT
65 AAAAAATCCTGTGTTTTAAAAAATTTTAGTGTCTTAGAAATTTTCGT
* * *
5261725 GTTTTTTAAAAAAAACTTCGTGTTTCAAAAATTTCTGTG-TTTT-CAAAAAATTTCCGTGTTTCA
1 GTTTTTTAAAAAAAACTTCGTGCTTCAAAAATTTCCGTGTTTTTAAAAAAAATTTCCGTGTTTC-
5261788 AAAAAATCCTGTGTTTTAAAAAATTTTAGTGTCTTAGAAATTTTCGT
65 AAAAAATCCTGTGTTTTAAAAAATTTTAGTGTCTTAGAAATTTTCGT
*
5261835 GTTTTTAAAAAAAAA
1 GTTTTTTAAAAAAAA
5261850 ATTCCTCGTA
Statistics
Matches: 115, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
109 17 0.15
110 61 0.53
111 30 0.26
112 7 0.06
ACGTcount: A:0.35, C:0.11, G:0.12, T:0.43
Consensus pattern (111 bp):
GTTTTTTAAAAAAAACTTCGTGCTTCAAAAATTTCCGTGTTTTTAAAAAAAATTTCCGTGTTTCA
AAAAATCCTGTGTTTTAAAAAATTTTAGTGTCTTAGAAATTTTCGT
Found at i:5261935 original size:17 final size:16
Alignment explanation
Indices: 5261915--5261992 Score: 54
Period size: 17 Copynumber: 4.8 Consensus size: 16
5261905 AAAAAAATCC
5261915 TCGTGTTTCACAAATTT
1 TCGTGTTTCA-AAATTT
* * *
5261932 TCGTATTATAAAAAAATT
1 TCGTGTT-T-CAAAATTT
5261950 TCGTGTTTCAAGAATTT
1 TCGTGTTTCAA-AATTT
*
5261967 TCGTG---CAAATTTT
1 TCGTGTTTCAAAATTT
*
5261980 TCGTGTTTTAAAA
1 TCGTGTTTCAAAA
5261993 AAATAAAAAT
Statistics
Matches: 46, Mismatches: 9, Indels: 13
0.68 0.13 0.19
Matches are distributed among these distances:
13 9 0.20
14 3 0.07
16 5 0.11
17 16 0.35
18 12 0.26
19 1 0.02
ACGTcount: A:0.31, C:0.12, G:0.13, T:0.45
Consensus pattern (16 bp):
TCGTGTTTCAAAATTT
Found at i:5261954 original size:35 final size:35
Alignment explanation
Indices: 5261884--5261970 Score: 113
Period size: 36 Copynumber: 2.4 Consensus size: 35
5261874 CTTTTAGCGT
* *
5261884 TTTCAAAATTTTTCGTGTTTTAAAAAAATCCTCGTG
1 TTTCAAAA-TTTTCGTATTATAAAAAAATCCTCGTG
*
5261920 TTTCACAAATTTTCGTATTATAAAAAAAT-TTCGTG
1 TTTCA-AAATTTTCGTATTATAAAAAAATCCTCGTG
5261955 TTTCAAGAATTTTCGT
1 TTTCAA-AATTTTCGT
5261971 GCAAATTTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
34 1 0.02
35 19 0.41
36 23 0.50
37 3 0.07
ACGTcount: A:0.32, C:0.13, G:0.10, T:0.45
Consensus pattern (35 bp):
TTTCAAAATTTTCGTATTATAAAAAAATCCTCGTG
Found at i:5262021 original size:90 final size:92
Alignment explanation
Indices: 5261907--5262090 Score: 273
Period size: 90 Copynumber: 2.0 Consensus size: 92
5261897 CGTGTTTTAA
* *
5261907 AAAAATCCTCGTGTTTCACAAATTTTCGTATTAT-AAAAAAATTTCGTGTTTCAAGAATTTTCGT
1 AAAAATCCTCGTGTTTCACAAATTTTCATATTATCAAAAAAATTTCATGTTTCAAGAATTTTCGT
* *
5261971 GC-AAATTTTTCGTGTTTTAAAAAAAT
66 GCTAAAATTCTCGTGTTTTAAAAAAAT
* * *
5261997 AAAAATTCTCGTGTTTCACAAATTTTCATATTTTCAAAAAAATTTCATGTTTCAAGAATTTTTGT
1 AAAAATCCTCGTGTTTCACAAATTTTCATATTATCAAAAAAATTTCATGTTTCAAGAATTTTCGT
5262062 GCTTAAAAATTCTCGTGTTTTAAAAAAAT
66 GC-T-AAAATTCTCGTGTTTTAAAAAAAT
5262091 TCTCATAATT
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
90 31 0.37
91 30 0.36
94 22 0.27
ACGTcount: A:0.36, C:0.12, G:0.10, T:0.42
Consensus pattern (92 bp):
AAAAATCCTCGTGTTTCACAAATTTTCATATTATCAAAAAAATTTCATGTTTCAAGAATTTTCGT
GCTAAAATTCTCGTGTTTTAAAAAAAT
Found at i:5265517 original size:4 final size:4
Alignment explanation
Indices: 5265493--5265530 Score: 53
Period size: 4 Copynumber: 10.0 Consensus size: 4
5265483 GTATAATTAA
*
5265493 CATT CA-T CCTT CATT -ATT CATT CATT CATT CATT CATT
1 CATT CATT CATT CATT CATT CATT CATT CATT CATT CATT
5265531 GCATGTACAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
3 5 0.17
4 25 0.83
ACGTcount: A:0.24, C:0.26, G:0.00, T:0.50
Consensus pattern (4 bp):
CATT
Found at i:5265525 original size:12 final size:12
Alignment explanation
Indices: 5265493--5265530 Score: 53
Period size: 11 Copynumber: 3.3 Consensus size: 12
5265483 GTATAATTAA
*
5265493 CATTCA-TCCTT
1 CATTCATTCATT
5265504 CATT-ATTCATT
1 CATTCATTCATT
5265515 CATTCATTCATT
1 CATTCATTCATT
5265527 CATT
1 CATT
5265531 GCATGTACAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
10 1 0.04
11 12 0.50
12 11 0.46
ACGTcount: A:0.24, C:0.26, G:0.00, T:0.50
Consensus pattern (12 bp):
CATTCATTCATT
Found at i:5272852 original size:17 final size:16
Alignment explanation
Indices: 5272823--5272874 Score: 52
Period size: 15 Copynumber: 3.2 Consensus size: 16
5272813 ATATTATGCC
*
5272823 TAAAAAAACAAAAAAA
1 TAAAAAAAAAAAAAAA
* *
5272839 -CAAAAAAATAAAAAA
1 TAAAAAAAAAAAAAAA
*
5272854 TAAAAAAGAAAGAAAAA
1 TAAAAAA-AAAAAAAAA
5272871 TAAA
1 TAAA
5272875 GATGAAAACC
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
15 12 0.43
16 5 0.18
17 11 0.39
ACGTcount: A:0.85, C:0.04, G:0.04, T:0.08
Consensus pattern (16 bp):
TAAAAAAAAAAAAAAA
Found at i:5272859 original size:8 final size:8
Alignment explanation
Indices: 5272823--5272874 Score: 54
Period size: 8 Copynumber: 6.5 Consensus size: 8
5272813 ATATTATGCC
5272823 TAAAAAAA
1 TAAAAAAA
*
5272831 CAAAAAAA
1 TAAAAAAA
*
5272839 CAAAAAAA
1 TAAAAAAA
5272847 T-AAAAAA
1 TAAAAAAA
5272854 TAAAAAAGA
1 TAAAAAA-A
5272863 -AAGAAAAA
1 TAA-AAAAA
5272871 TAAA
1 TAAA
5272875 GATGAAAACC
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
7 7 0.18
8 24 0.63
9 7 0.18
ACGTcount: A:0.85, C:0.04, G:0.04, T:0.08
Consensus pattern (8 bp):
TAAAAAAA
Found at i:5273780 original size:80 final size:79
Alignment explanation
Indices: 5273692--5274609 Score: 1109
Period size: 80 Copynumber: 11.7 Consensus size: 79
5273682 TTTCAAGATT
* * *
5273692 TATTTTTCAATTTCTATTTTTGCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTG
1 TATTTTTCAATTTCTGTTTTT-CAAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCG
5273757 GGTCACATCCTGAGG
65 GGTCACATCCTGAGG
5273772 TATTTTTCAATTTCTGTTTTTC--AAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGG
1 TATTTTTCAATTTCTGTTTTTCAAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGG
5273835 GTCACATCCTGAGG
66 GTCACATCCTGAGG
* *
5273849 TATTTTTCAATTTCTGTTTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGA
1 TATTTTTCAATTTCTGTTTTTCAAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGG
*
5273913 GTCACATCTTGAGG
66 GTCACATCCTGAGG
*
5273927 TATTTTTCAATTTCTGTTTTTC---AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCATCGG
1 TATTTTTCAATTTCTGTTTTTCAAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGG
5273989 GTCACATCCTGAGG
66 GTCACATCCTGAGG
* * *
5274003 TATTTTTCAATTTCTATTTTTTAAAAAAAAACCAACTCATAATGCGAGAGGTGAGTTGAGCCTCG
1 TATTTTTCAATTTCT-GTTTTTCAAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCG
5274068 GGT--CATCCTGAGG
65 GGTCACATCCTGAGG
** * *
5274081 TAACTTTCAATTTTTATTTTTC--AAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGG
1 TATTTTTCAATTTCTGTTTTTCAAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGG
*
5274144 GT--CATCCCGAGG
66 GTCACATCCTGAGG
* *
5274156 TATTTTTCAATTTCTATTTTTCAAAAAAAAAACTCAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 TATTTTTCAATTTCTGTTTTTC--AAAAAAAA-TCAACTCATAATGCGAGAGGTGAGTTGAGCCT
* *
5274221 CTGGT--CATCCCGAGG
63 CGGGTCACATCCTGAGG
* * *
5274236 TATTTTTCAATTTTTGCTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
1 TATTTTTCAATTTCTGTTTTTCAAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGG
*
5274301 GTCACATGCC-GAGA
66 GTCACAT-CCTGAGG
* *
5274315 TATATTT-AA-TTCATGTTTTTTC---AAACATCAACTCATAATGCGAGAGGTGAGTTGAGCCTC
1 TATTTTTCAATTTC-TG-TTTTTCAAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTC
*
5274375 GGGTCACATGCTGAGG
64 GGGTCACATCCTGAGG
* * * *
5274391 TATTTCTTTTAAATTTCTGTTTTTCAAAAAAAAATAATAACTCATATTGCAAGAGGTGAGTTGAG
1 TA--T-TTTTCAATTTCTGTTTTTC-AAAAAAAAT--CAACTCATAATGCGAGAGGTGAGTTGAG
* *
5274456 CTTCGTGTCACATGCC-GAGG
60 CCTCGGGTCACAT-CCTGAGG
* *
5274476 TATTTATTTTAAATTTCTGTTTTTCAAAAAAAATCAACTCATAATGCGAGAGGCGAGTTGAGCCT
1 TA--T-TTTTCAATTTCTGTTTTTCAAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCT
* *
5274541 CGAGT--CATGCTGAGG
63 CGGGTCACATCCTGAGG
* * * *
5274556 TA-TTTTCAATATCTATTTTTC---AAAGATCAACTCATAAT-CTGAGAAGTGAGTTGA
1 TATTTTTCAATTTCTGTTTTTCAAAAAAAATCAACTCATAATGC-GAGAGGTGAGTTGA
5274610 ACTTCGGATC
Statistics
Matches: 748, Mismatches: 60, Indels: 67
0.85 0.07 0.08
Matches are distributed among these distances:
72 1 0.00
73 28 0.04
75 71 0.09
76 131 0.18
77 123 0.16
78 109 0.15
79 34 0.05
80 139 0.19
81 3 0.00
82 30 0.04
83 5 0.01
84 9 0.01
85 64 0.09
86 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (79 bp):
TATTTTTCAATTTCTGTTTTTCAAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGG
GTCACATCCTGAGG
Found at i:5273896 original size:155 final size:153
Alignment explanation
Indices: 5273692--5274609 Score: 1113
Period size: 155 Copynumber: 5.9 Consensus size: 153
5273682 TTTCAAGATT
* * *
5273692 TATTTTTCAATTTCTATTTTTGCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTG
1 TATTTTTCAATTTCTGTTTTT-CAAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCG
5273757 GGTCACATCCTGAGGTATTTTTCAATTTCTGTTTTTCAAAAAATCAACTCATAATGCGAGAGGTG
65 GGT--CATCCTGAGGTATTTTTCAATTTCTGTTTTTCAAAAAATCAACTCATAATGCGAGAGGTG
5273822 AGTTGAGCCTCGGGTCACATCCTGAGG
128 AGTTGAGCCTCGGGTCACATCC-GAGG
* *
5273849 TATTTTTCAATTTCTGTTTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGA
1 TATTTTTCAATTTCTGTTTTTCAAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGG
*
5273913 GTCACATCTTGAGGTATTTTTCAATTTCTGTTTTTC-AAAAATCAACTCATAATGCGAGAGGTGA
66 GT--CATCCTGAGGTATTTTTCAATTTCTGTTTTTCAAAAAATCAACTCATAATGCGAGAGGTGA
*
5273977 GTTGAGCATCGGGTCACATCCTGAGG
129 GTTGAGCCTCGGGTCACATCC-GAGG
* * *
5274003 TATTTTTCAATTTCTATTTTTTAAAAAAAAACCAACTCATAATGCGAGAGGTGAGTTGAGCCTCG
1 TATTTTTCAATTTCT-GTTTTTCAAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCG
** * *
5274068 GGTCATCCTGAGGTAACTTTCAATTTTTATTTTTCAAAAAATCAACTCATAATGCGAGAGGTGAG
65 GGTCATCCTGAGGTATTTTTCAATTTCTGTTTTTCAAAAAATCAACTCATAATGCGAGAGGTGAG
5274133 TTGAGCCTCGGGT--CATCCCGAGG
130 TTGAGCCTCGGGTCACAT-CCGAGG
* *
5274156 TATTTTTCAATTTCTATTTTTCAAAAAAAAAACTCAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 TATTTTTCAATTTCTGTTTTTC--AAAAAAAA-TCAACTCATAATGCGAGAGGTGAGTTGAGCCT
* * * * *
5274221 CTGGTCATCCCGAGGTATTTTTCAATTTTTGCTTTTCAAAAAAAATCAACTCATATTGCGAGAGG
63 CGGGTCATCCTGAGGTATTTTTCAATTTCTGTTTTTC--AAAAAATCAACTCATAATGCGAGAGG
*
5274286 TGAGTTGAGCCTCGGGTCACATGCCGAGA
126 TGAGTTGAGCCTCGGGTCACAT-CCGAGG
* *
5274315 TATATTT-AA-TTCATGTTTTTTC---AAACATCAACTCATAATGCGAGAGGTGAGTTGAGCCTC
1 TATTTTTCAATTTC-TG-TTTTTCAAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTC
* * * *
5274375 GGGTCACATGCTGAGGTATTTCTTTTAAATTTCTGTTTTTCAAAAAAAAATAATAACTCATATTG
64 GGGT--CATCCTGAGGTA--T-TTTTCAATTTCTGTTTTTC---AAAAAAT--CAACTCATAATG
* * *
5274440 CAAGAGGTGAGTTGAGCTTCGTGTCACATGCCGAGG
119 CGAGAGGTGAGTTGAGCCTCGGGTCACAT-CCGAGG
* *
5274476 TATTTATTTTAAATTTCTGTTTTTCAAAAAAAATCAACTCATAATGCGAGAGGCGAGTTGAGCCT
1 TA--T-TTTTCAATTTCTGTTTTTCAAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCT
* * * * * *
5274541 CGAGTCATGCTGAGGTA-TTTTCAATATCTATTTTTC-AAAGATCAACTCATAAT-CTGAGAAGT
63 CGGGTCATCCTGAGGTATTTTTCAATTTCTGTTTTTCAAAAAATCAACTCATAATGC-GAGAGGT
5274603 GAGTTGA
127 GAGTTGA
5274610 ACTTCGGATC
Statistics
Matches: 675, Mismatches: 56, Indels: 62
0.85 0.07 0.08
Matches are distributed among these distances:
152 5 0.01
153 57 0.08
154 110 0.16
155 213 0.32
156 42 0.06
157 71 0.11
158 19 0.03
159 29 0.04
161 61 0.09
163 1 0.00
164 9 0.01
165 16 0.02
166 3 0.00
167 39 0.06
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (153 bp):
TATTTTTCAATTTCTGTTTTTCAAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGG
GTCATCCTGAGGTATTTTTCAATTTCTGTTTTTCAAAAAATCAACTCATAATGCGAGAGGTGAGT
TGAGCCTCGGGTCACATCCGAGG
Found at i:5274963 original size:29 final size:29
Alignment explanation
Indices: 5274930--5275055 Score: 96
Period size: 29 Copynumber: 4.3 Consensus size: 29
5274920 AAAATAAAAA
* *
5274930 TTACATTTTAACCCTATACTTTT-TGAAAT
1 TTACATTTTAACCCTAAACTTTTCT-AAAC
* *
5274959 TTACATTTTGACCCCAAACTTTTCTAAAC
1 TTACATTTTAACCCTAAACTTTTCTAAAC
* *
5274988 TTACATTTCAACCCCTAAAC-TTTCTCAAAA
1 TTACATTTTAA-CCCTAAACTTTTCT-AAAC
* * * *
5275018 TTGCACTTTGACCCCTAAAC-TTTCTAAAAA
1 TTACA-TTTTAACCCTAAACTTTTCT-AAAC
5275048 TTACATTT
1 TTACATTT
5275056 GGCCCCATAT
Statistics
Matches: 80, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
29 40 0.50
30 36 0.45
31 4 0.05
ACGTcount: A:0.33, C:0.25, G:0.03, T:0.40
Consensus pattern (29 bp):
TTACATTTTAACCCTAAACTTTTCTAAAC
Found at i:5275010 original size:30 final size:30
Alignment explanation
Indices: 5274924--5275055 Score: 135
Period size: 30 Copynumber: 4.5 Consensus size: 30
5274914 AATGTAAAAA
* *
5274924 TAAAAATTACATTTTAA-CCCTATACTTTT
1 TAAAAATTACATTTTAACCCCTAAACTTTC
* * *
5274953 TGAAATTTACATTTTGACCCC-AAACTTTTC
1 TAAAAATTACATTTTAACCCCTAAAC-TTTC
* *
5274983 T-AAACTTACATTTCAACCCCTAAACTTTC
1 TAAAAATTACATTTTAACCCCTAAACTTTC
* * * *
5275012 TCAAAATTGCACTTTGACCCCTAAACTTTC
1 TAAAAATTACATTTTAACCCCTAAACTTTC
5275042 TAAAAATTACATTT
1 TAAAAATTACATTT
5275056 GGCCCCATAT
Statistics
Matches: 83, Mismatches: 16, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
29 38 0.46
30 45 0.54
ACGTcount: A:0.35, C:0.23, G:0.03, T:0.39
Consensus pattern (30 bp):
TAAAAATTACATTTTAACCCCTAAACTTTC
Found at i:5275010 original size:59 final size:59
Alignment explanation
Indices: 5274924--5275055 Score: 160
Period size: 59 Copynumber: 2.2 Consensus size: 59
5274914 AATGTAAAAA
* * * * * *
5274924 TAAAAATTACATTTTAACCCTATACTTTTTGAAATTTACATTTTGACCCC-AAACTTTTC
1 TAAAAATTACATTTCAACCCTAAACTTTCTCAAAATTACACTTTGACCCCTAAAC-TTTC
* *
5274983 T-AAACTTACATTTCAACCCCTAAACTTTCTCAAAATTGCACTTTGACCCCTAAACTTTC
1 TAAAAATTACATTTCAA-CCCTAAACTTTCTCAAAATTACACTTTGACCCCTAAACTTTC
5275042 TAAAAATTACATTT
1 TAAAAATTACATTT
5275056 GGCCCCATAT
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
58 13 0.21
59 33 0.54
60 15 0.25
ACGTcount: A:0.35, C:0.23, G:0.03, T:0.39
Consensus pattern (59 bp):
TAAAAATTACATTTCAACCCTAAACTTTCTCAAAATTACACTTTGACCCCTAAACTTTC
Found at i:5275802 original size:11 final size:11
Alignment explanation
Indices: 5275788--5275817 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
5275778 GAAGAAAAGT
*
5275788 AGAAAAGAGAA
1 AGAAAAAAGAA
5275799 AGAAAAAAGAA
1 AGAAAAAAGAA
5275810 AGAAAAAA
1 AGAAAAAA
5275818 ATAAAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (11 bp):
AGAAAAAAGAA
Found at i:5276622 original size:18 final size:17
Alignment explanation
Indices: 5276581--5276807 Score: 74
Period size: 17 Copynumber: 12.8 Consensus size: 17
5276571 AAAATAATAA
5276581 TCGTGTTTCAAAAATTT
1 TCGTGTTTCAAAAATTT
*
5276598 TCATGTTCTC-AAAATTT
1 TCGTGTT-TCAAAAATTT
* *
5276615 CTCGTGTTT----TATAT
1 -TCGTGTTTCAAAAATTT
* **
5276629 TCG-GTTTAAAAAAAACT
1 TCGTGTTT-CAAAAATTT
5276646 TCGTGTTTCAAAAATTT
1 TCGTGTTTCAAAAATTT
* * *
5276663 CCGTGTTTTTAAAAAAAATT
1 TCGTG--TTT-CAAAAATTT
**
5276683 TCTGTGTTTCAAAAAATCA
1 TC-GTGTTTC-AAAAATTT
5276702 T-GTGTTTTCAAAAATTT
1 TCGTG-TTTCAAAAATTT
* * **
5276719 TCATGTTTTAGGAATTT
1 TCGTGTTTCAAAAATTT
* **
5276736 TCGTGTTTTTTTTAAAAAAACT
1 TCGTG-----TTTCAAAAATTT
5276758 TCGTGTTTCAAAAATTT
1 TCGTGTTTCAAAAATTT
*
5276775 CCGTGTTTTCGAAAAATTT
1 TCGTG-TTTC-AAAAATTT
5276794 AT-GTGTTTCAAAAA
1 -TCGTGTTTCAAAAA
5276808 AAACTTGTGT
Statistics
Matches: 152, Mismatches: 35, Indels: 46
0.65 0.15 0.20
Matches are distributed among these distances:
12 4 0.03
13 3 0.02
14 3 0.02
17 70 0.46
18 26 0.17
19 23 0.15
20 8 0.05
21 3 0.02
22 12 0.08
ACGTcount: A:0.32, C:0.11, G:0.12, T:0.45
Consensus pattern (17 bp):
TCGTGTTTCAAAAATTT
Found at i:5276696 original size:19 final size:19
Alignment explanation
Indices: 5276632--5276698 Score: 59
Period size: 19 Copynumber: 3.5 Consensus size: 19
5276622 TTTATATTCG
*
5276632 GTTTAAAAAAAACTTC-GT
1 GTTTAAAAAAAATTTCTGT
*
5276650 GTTT--CAAAAATTTCCGTGT
1 GTTTAAAAAAAATTT-C-TGT
*
5276669 TTTTAAAAAAAATTTCTGT
1 GTTTAAAAAAAATTTCTGT
5276688 GTTTCAAAAAA
1 GTTT-AAAAAA
5276699 TCATGTGTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
16 7 0.18
17 1 0.03
18 4 0.11
19 11 0.29
20 7 0.18
21 8 0.21
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.39
Consensus pattern (19 bp):
GTTTAAAAAAAATTTCTGT
Found at i:5276697 original size:21 final size:21
Alignment explanation
Indices: 5276655--5276698 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
5276645 TTCGTGTTTC
**
5276655 AAAAATTTCCGTGTTTTTAAA
1 AAAAATTTCCGTGTTTCAAAA
*
5276676 AAAAATTTCTGTGTTTCAAAA
1 AAAAATTTCCGTGTTTCAAAA
5276697 AA
1 AA
5276699 TCATGTGTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.43, C:0.09, G:0.09, T:0.39
Consensus pattern (21 bp):
AAAAATTTCCGTGTTTCAAAA
Found at i:5276761 original size:112 final size:111
Alignment explanation
Indices: 5276637--5276886 Score: 342
Period size: 111 Copynumber: 2.2 Consensus size: 111
5276627 ATTCGGTTTA
* *
5276637 AAAAAAACTTCGTGTTTCAAAAATTTCCGTGTTTTTAAAAAAAATTTCTGTGTTTC-AAAAAATC
1 AAAAAAACTTCGTGTTTCAAAAATTTCCGTG-TTTT-AAAAAAATTTATGTGTTTCAAAAAAAAC
* * *
5276701 ATGTGTTTTCAAAAATTTTCA-TGTTTTAGGAATTTTCGTGTTTTTTTT
64 ATGTGTTTTAAAAAATTTT-AGTGTGTTAGAAATTTTCGTGTTTTTTTT
** *
5276749 AAAAAAACTTCGTGTTTCAAAAATTTCCGTGTTTTCGAAAAATTTATGTGTTTCAAAAAAAACTT
1 AAAAAAACTTCGTGTTTCAAAAATTTCCGTGTTTTAAAAAAATTTATGTGTTTCAAAAAAAACAT
*
5276814 GTGTTTTAAAAAATTTTAGTGTGTTAGAAATTTTCGTTTTTTTTTT
66 GTGTTTTAAAAAATTTTAGTGTGTTAGAAATTTTCGTGTTTTTTTT
* * *
5276860 AAAAAATTCCTCGTATTTCAAAAATTT
1 AAAAAA-ACTTCGTGTTTCAAAAATTT
5276887 TTGACTTTTC
Statistics
Matches: 123, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
110 17 0.14
111 58 0.47
112 48 0.39
ACGTcount: A:0.34, C:0.10, G:0.11, T:0.45
Consensus pattern (111 bp):
AAAAAAACTTCGTGTTTCAAAAATTTCCGTGTTTTAAAAAAATTTATGTGTTTCAAAAAAAACAT
GTGTTTTAAAAAATTTTAGTGTGTTAGAAATTTTCGTGTTTTTTTT
Found at i:5276808 original size:18 final size:17
Alignment explanation
Indices: 5276759--5276807 Score: 62
Period size: 19 Copynumber: 2.8 Consensus size: 17
5276749 AAAAAAACTT
*
5276759 CGTGTTTCAAAAATTTC
1 CGTGTTTCAAAAATTTA
5276776 CGTGTTTTCGAAAAATTTA
1 CGTG-TTTC-AAAAATTTA
*
5276795 TGTGTTTCAAAAA
1 CGTGTTTCAAAAA
5276808 AAACTTGTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 9 0.32
18 8 0.29
19 11 0.39
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.41
Consensus pattern (17 bp):
CGTGTTTCAAAAATTTA
Found at i:5276926 original size:18 final size:18
Alignment explanation
Indices: 5276892--5276926 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
5276882 AATTTTTGAC
*
5276892 TTTTCGCGTTTTCAAAAT
1 TTTTCGCGTTTTAAAAAT
*
5276910 TTTTCGTGTTTTAAAAA
1 TTTTCGCGTTTTAAAAA
5276927 AATAAAAAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.11, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTTCGCGTTTTAAAAAT
Found at i:5276994 original size:17 final size:16
Alignment explanation
Indices: 5276941--5277019 Score: 68
Period size: 16 Copynumber: 4.6 Consensus size: 16
5276931 AAAAATCTCA
5276941 TGTTTCACAAATTTTCG
1 TGTTTCA-AAATTTTCG
* *
5276958 TATTTTCAAAAAAATTTCG
1 T-GTTTC--AAAATTTTCG
5276977 TGTTTCAAGAATTTTCG
1 TGTTTCAA-AATTTTCG
* *
5276994 TGCTTCAAAATTCTCG
1 TGTTTCAAAATTTTCG
*
5277010 TGTTTTAAAA
1 TGTTTCAAAA
5277020 AAATTCTCAT
Statistics
Matches: 50, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
16 17 0.34
17 15 0.30
18 8 0.16
19 9 0.18
20 1 0.02
ACGTcount: A:0.30, C:0.14, G:0.11, T:0.44
Consensus pattern (16 bp):
TGTTTCAAAATTTTCG
Found at i:5277005 original size:16 final size:16
Alignment explanation
Indices: 5276967--5277011 Score: 54
Period size: 17 Copynumber: 2.8 Consensus size: 16
5276957 GTATTTTCAA
* *
5276967 AAAAATTTCGTGTTTC
1 AAAATTTTCGTGCTTC
5276983 AAGAATTTTCGTGCTTC
1 AA-AATTTTCGTGCTTC
*
5277000 AAAATTCTCGTG
1 AAAATTTTCGTG
5277012 TTTTAAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 11 0.44
17 14 0.56
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.40
Consensus pattern (16 bp):
AAAATTTTCGTGCTTC
Found at i:5281018 original size:415 final size:415
Alignment explanation
Indices: 5279483--5284222 Score: 7334
Period size: 414 Copynumber: 11.4 Consensus size: 415
5279473 TCAGCAAAAA
* *
5279483 TTGTTTTTTTCATACAAGCAGCGTGTGTGGAGTCTTATAAAAAAACTGTTTTTGGTTGCTTTACC
1 TTGTTTTTTTCATACAGGCAGCGTGTGTGGAGTCTTATAAAAAAGCTGTTTTTGGTTGCTTTACC
* *
5279548 CATCTTTTGAATCTATTTGAGCAACAGATGCTCTAGAATCAACTATCTTCCTAGAAGGCTAATCA
66 CATCTTTTGTATCTATTTGAGCAGCAGATGCTCTAGAATCAACTATCTTCCTAGAAGGCTAATCA
*
5279613 AGT----AAAGAAAAAAAATTCCATAAAATGAAGAATCCTTCAGCACATTTTGGCTTTTATATTT
131 AGTAAAGAAAGAAAAAAAATTCCATAAAATGGAGAATCCTTCAGCACATTTTGGCTTTTATATTT
* *
5279674 T-ATGAAATGTGCCTGCCATCCAATTCGTGACGCATGGCGAGATTCCTCTCTGCCCTCCACTCAG
196 TCA-GAATTGTGCCTGCCATCCAATTCGTGACGCATGGCGAGATTCCTCTCTGCCCTCCGCTCAG
*
5279738 CAACGCAATTCCCATGCTCACCAGTTATAGCACCAAAATCTACCCTCTCTTCAAACTCACCTCAC
260 CAACGCAATTCCCATGCTCACCAGTTATAGCACCAAAATCCACCCTCTCTTCAAACTCACCTCAC
* * *
5279803 ACTCGTGAATGTCCTTTCCAAATCCTAGCGTGACGTGGATGATCCGCCGAATCCTCACCACGGTC
325 TCTCGTGAATGTCCATCCCAAATCCTAGCGTGACGTGGATGATCCGCCGAATCCTCACCACGGTC
**
5279868 GATTAGGTTAAACGGTTCTACAAAGT
390 GATTAGGTTAAACGGTTCCGCAAAGT
* * *
5279894 TTGTTTTTTT-ATACAGGCAGCGTGTGTAGAGTCTTATAAAAAAGGTTGTTTTTAGTTGCTTTAC
1 TTGTTTTTTTCATACAGGCAGCGTGTGTGGAGTCTTATAAAAAA-GCTGTTTTTGGTTGCTTTAC
*
5279958 CCATCTTTTGTATCTATTTGAGCAGCACATGCTCTAGAATCAACTATCTTCCTAGAAGGCTAGCT
65 CCATCTTTTGTATCTATTTGAGCAGCAGATGCTCTAGAATCAACTATCTTCCTAGAA-G---GCT
* *
5280023 AATCAAGTAAAGAAAGAAAAAAAATTCCATAAAATGGAGAATCCTTTAGCACATTATGGCTTTTA
126 AATCAAGTAAAGAAAGAAAAAAAATTCCATAAAATGGAGAATCCTTCAGCACATTTTGGCTTTTA
5280088 TATTTTCAGAATTGTGCCTGCCATCCAATTCGTGACGCATGGCGAGATTCCTCTCTGCCCTCCGC
191 TATTTTCAGAATTGTGCCTGCCATCCAATTCGTGACGCATGGCGAGATTCCTCTCTGCCCTCCGC
* * * *
5280153 TCAGCAACACAATTCCCATGCTCACCAGTTACAGCACCAAAATCCACCCTCTCTTTAAACTCATC
256 TCAGCAACGCAATTCCCATGCTCACCAGTTATAGCACCAAAATCCACCCTCTCTTCAAACTCACC
* * *
5280218 TCACTTTCGTGAATGTCCATCCCAAATCTTAGCGTGACGTGGATGATCCGCCGAATCCACACCAC
321 TCACTCTCGTGAATGTCCATCCCAAATCCTAGCGTGACGTGGATGATCCGCCGAATCCTCACCAC
* *
5280283 GGTCGATTAAGTTAAACGGTTTCGCAAAGT
386 GGTCGATTAGGTTAAACGGTTCCGCAAAGT
* *
5280313 TTG-TTTTTTCATACAGGCAGCGTGTGTGGAGTCTTATAAAAATGCTGTTATTGGTTGCTTTACC
1 TTGTTTTTTTCATACAGGCAGCGTGTGTGGAGTCTTATAAAAAAGCTGTTTTTGGTTGCTTTACC
* * *
5280377 CATCTTTTGTATCTATTTGAGCAGCAGATGCTCTAGAATAAACTGTCTTTCTAGAAGGCTAATCA
66 CATCTTTTGTATCTATTTGAGCAGCAGATGCTCTAGAATCAACTATCTTCCTAGAAGGCTAATCA
* * *
5280442 AGTAAAGAAAAAAAGAAAAAATTCCATAAAATGGAGAATCCTTAACCACATTTTGGCTTTTATAT
131 AGTAAAG-AAAGAA-AAAAAATTCCATAAAATGGAGAATCCTTCAGCACATTTTGGCTTTTATAT
* * * * *
5280507 TTTCAGAATTATTCCTGCCATCCAATTCATGACGCATGGCGAGATTACTCTCTTCCCTCCGCTCA
194 TTTCAGAATTGTGCCTGCCATCCAATTCGTGACGCATGGCGAGATTCCTCTCTGCCCTCCGCTCA
* *
5280572 GCAACGCAATTCCCATACTCACAAGTTATAGCACCAAAATCCACCCTCTCTTCAAACTCACCTCA
259 GCAACGCAATTCCCATGCTCACCAGTTATAGCACCAAAATCCACCCTCTCTTCAAACTCACCTCA
* * * * *
5280637 CACACGTGAATGTTCTTCCAAAATCCTAGCGTGACGTGGATGATCCGCCGAATCCTCACCACGGT
324 CTCTCGTGAATGTCCATCCCAAATCCTAGCGTGACGTGGATGATCCGCCGAATCCTCACCACGGT
5280702 CGATTAGGTTAAACGGTTCCGCAAAGT
389 CGATTAGGTTAAACGGTTCCGCAAAGT
* *
5280729 TTGTTTTTTTCATACAGGCAGCGTGTGTGGAGTCTTATAAAAAAGCTATTTTTGGTTACTTTACC
1 TTGTTTTTTTCATACAGGCAGCGTGTGTGGAGTCTTATAAAAAAGCTGTTTTTGGTTGCTTTACC
* *
5280794 CATCTTTTGTATCTATTTGAGCAGCAGATGCTCTAAAATCAACTATCTTCCTAGAAGGTTAATCA
66 CATCTTTTGTATCTATTTGAGCAGCAGATGCTCTAGAATCAACTATCTTCCTAGAAGGCTAATCA
* * * *
5280859 AGTAAAGAAAGAAAAAAAATTTCATAAAATGGAGAATCCTTCAGCACAATTTAGTTTTTATATTT
131 AGTAAAGAAAGAAAAAAAATTCCATAAAATGGAGAATCCTTCAGCACATTTTGGCTTTTATATTT
* *
5280924 TCAGAATTATTCCTGCCATCCAATTCGTGACGCATGGCGAGATTCCTCTCTGCCCTCCGCTCAGC
196 TCAGAATTGTGCCTGCCATCCAATTCGTGACGCATGGCGAGATTCCTCTCTGCCCTCCGCTCAGC
* * *
5280989 AACGCAATTCCCATGCTCACCAATTATAGCACCAAGATCCACCCTCTCTTCAAACTCACCTCACC
261 AACGCAATTCCCATGCTCACCAGTTATAGCACCAAAATCCACCCTCTCTTCAAACTCACCTCACT
5281054 CTCGTGAATGTCCATCCCAAATCCTAGCGTGACGTGGATGATCCGCCGAATCCTCACCACGGTCG
326 CTCGTGAATGTCCATCCCAAATCCTAGCGTGACGTGGATGATCCGCCGAATCCTCACCACGGTCG
* * *
5281119 ATTACGTTAAACGATTCCGTAAA--
391 ATTAGGTTAAACGGTTCCGCAAAGT
* * * * *
5281142 --GTTTTTTTCATACAGACAGTGTGTGTGGAGTCTTATTAAAAAGTTGTTATTGGTTGCTTTACC
1 TTGTTTTTTTCATACAGGCAGCGTGTGTGGAGTCTTATAAAAAAGCTGTTTTTGGTTGCTTTACC
* * * * * *
5281205 TATCTTTTATATCTATTTGAGCAGCATATGCTCTAAAATCAA-TCGTCTTCCTAGAAAGCTAATC
66 CATCTTTTGTATCTATTTGAGCAGCAGATGCTCTAGAATCAACT-ATCTTCCTAGAAGGCTAATC
** *
5281269 AAGTAAAGAAAGAAAAAAAATTGAATAAAATGGAGAATCCTTCAGCACATTTTGGCTATTATATT
130 AAGTAAAGAAAGAAAAAAAATTCCATAAAATGGAGAATCCTTCAGCACATTTTGGCTTTTATATT
* * * *
5281334 TTCAGAATTGTGCCTACCATCAAATTCGTGACGCATGGCGAGATTCCTCTCTGCCCACTGCTCAG
195 TTCAGAATTGTGCCTGCCATCCAATTCGTGACGCATGGCGAGATTCCTCTCTGCCCTCCGCTCAG
* * * * * * *
5281399 TAACGCAATTCTCATGCTCCCCAGTTATAGGACCAAAATCCACCATCTCTTCAAAGTGACCTCAC
260 CAACGCAATTCCCATGCTCACCAGTTATAGCACCAAAATCCACCCTCTCTTCAAACTCACCTCAC
* *
5281464 TCTCGTGAATGTCCATCCCAAATCCTAGCGTGACGTGGATGATTCGCCGAATCTTCACCACGGTC
325 TCTCGTGAATGTCCATCCCAAATCCTAGCGTGACGTGGATGATCCGCCGAATCCTCACCACGGTC
* *
5281529 AATTAGGTTAAACGGTTTCGCAAAG-
390 GATTAGGTTAAACGGTTCCGCAAAGT
* * *
5281554 TT-TTTTTTCCATACAGGCAGCGTGAGTGGAGTCTTATTAAAAAGCTGTTTTTGGTTGCTTTACC
1 TTGTTTTTTTCATACAGGCAGCGTGTGTGGAGTCTTATAAAAAAGCTGTTTTTGGTTGCTTTACC
* *
5281618 CATATTTTG-ATTCTATTTGAGCATCAGATGCTCTAGAATCAACTATCTTCCTAGAAGGCTAATC
66 CATCTTTTGTA-TCTATTTGAGCAGCAGATGCTCTAGAATCAACTATCTTCCTAGAAGGCTAATC
5281682 AAGTAAAGAAAGAAAAAAAATTCCATAAAATGGAGAATCCTTCAGCACATTTTGGCTTTTATATT
130 AAGTAAAGAAAGAAAAAAAATTCCATAAAATGGAGAATCCTTCAGCACATTTTGGCTTTTATATT
* * * *
5281747 TTAAGAATTGTGCCTGCCATCCAATTCATGACGCATGGTGAGATTCCTCTCTACCCTCCGCTCAG
195 TTCAGAATTGTGCCTGCCATCCAATTCGTGACGCATGGCGAGATTCCTCTCTGCCCTCCGCTCAG
* * *
5281812 CAACGCAATTCTCATGCTCACCAGTTATAGCACCAAAATCTACCTTCTCTTCAAACTCACCTCAC
260 CAACGCAATTCCCATGCTCACCAGTTATAGCACCAAAATCCACCCTCTCTTCAAACTCACCTCAC
*
5281877 TCTCGTGAATGTCCATCCCAAATCCTAGCGTGACATGGATGATCCGCCGAATCCTCACCACGGTC
325 TCTCGTGAATGTCCATCCCAAATCCTAGCGTGACGTGGATGATCCGCCGAATCCTCACCACGGTC
5281942 GATTAGGTTAAACGGTTCTC-CAAAGT
390 GATTAGGTTAAACGGTTC-CGCAAAGT
* * * * *
5281968 TT-TTTTTTT-ATACAGGTAGCGTGTGTGGAGTCTTATAAAAAAGATATTTTTGGTTTCTTTACA
1 TTGTTTTTTTCATACAGGCAGCGTGTGTGGAGTCTTATAAAAAAGCTGTTTTTGGTTGCTTTACC
* * * *
5282031 CATCTTTTGTATCTATTTGAGTAGTAGATGCTCTAGAATCAACTATCTTCTTAGAAGGTTAATCA
66 CATCTTTTGTATCTATTTGAGCAGCAGATGCTCTAGAATCAACTATCTTCCTAGAAGGCTAATCA
* *
5282096 AGTAAAGAAAGAAAAAAAAATTCCATAAAATGGAGGATCCTTCAGCACATTTTGGCTTTTATATC
131 AGTAAAGAAAG-AAAAAAAATTCCATAAAATGGAGAATCCTTCAGCACATTTTGGCTTTTATATT
* *
5282161 TTCAGAATTGTGCCTGCCATCCAATTCGTGACGCATGGCAAGATTCCTCTCCGCCCTCCGCTCAG
195 TTCAGAATTGTGCCTGCCATCCAATTCGTGACGCATGGCGAGATTCCTCTCTGCCCTCCGCTCAG
*
5282226 CAACGCAATTCCCATGCTCACCAGTTATAGCACCAAAATCCACCCTCTCTTCAAACTCATCTCAC
260 CAACGCAATTCCCATGCTCACCAGTTATAGCACCAAAATCCACCCTCTCTTCAAACTCACCTCAC
** * *
5282291 TCTCGTGAATGTCCATCCCAAATATTAGCGTGACGTGGATGATCCACCGAATCCACACCACGGTC
325 TCTCGTGAATGTCCATCCCAAATCCTAGCGTGACGTGGATGATCCGCCGAATCCTCACCACGGTC
* **
5282356 GACTAGGTTAAACGGTTTTGCAAAG-
390 GATTAGGTTAAACGGTTCCGCAAAGT
* * *
5282381 TT-TTTTTTTCATACAGGCAGCGTGTGTGGAGTCTTATAAAAATGTTGTTATTGGTTGCTTTACC
1 TTGTTTTTTTCATACAGGCAGCGTGTGTGGAGTCTTATAAAAAAGCTGTTTTTGGTTGCTTTACC
* * *
5282445 CATCTTTTGTATCTATTTGAGCAGCAGATGCTTTAGAATCAACTAACTTCCTAGAAGGTTAATCA
66 CATCTTTTGTATCTATTTGAGCAGCAGATGCTCTAGAATCAACTATCTTCCTAGAAGGCTAATCA
*
5282510 AGTAAAGAAAAAAAGAAAAAATTCCATAAAATGGAGAATCCTTCAGCACATTTTGGCTTTTATAT
131 AGTAAAG-AAAGAA-AAAAAATTCCATAAAATGGAGAATCCTTCAGCACATTTTGGCTTTTATAT
* *
5282575 TTTAAGAATTGTGCCTGCCATCCAATTCGTGATGCATGGCGAGATTCCTCTCTGCCCTCCGCTCA
194 TTTCAGAATTGTGCCTGCCATCCAATTCGTGACGCATGGCGAGATTCCTCTCTGCCCTCCGCTCA
* *
5282640 GCAACGCATTTCCCATGCTCACCAGTTATAGCACCAAAATCCACCCTCTCTTCAAACTCATCTCA
259 GCAACGCAATTCCCATGCTCACCAGTTATAGCACCAAAATCCACCCTCTCTTCAAACTCACCTCA
* * *
5282705 CTCTCGTGAATGTCCATCCCAAATCCTAGCATGACGTGGATGATCCGTCGAATCCTCACCACAGT
324 CTCTCGTGAATGTCCATCCCAAATCCTAGCGTGACGTGGATGATCCGCCGAATCCTCACCACGGT
* *
5282770 CGATTAGGTTAAACGGTTCTGTAAAGTT
389 CGATTAGGTTAAACGGTTCCGCAAAG-T
* * * *
5282798 TATTTTTTTTTCAGACAGGCAGCGTGTGTGGAGTTTTATAAAAAAGCTGTTATTGGTTGCTTTAC
1 T-TGTTTTTTTCATACAGGCAGCGTGTGTGGAGTCTTATAAAAAAGCTGTTTTTGGTTGCTTTAC
* *
5282863 CCATCTTTTGCATCTATTTGAGCAGCAGATGCTCTAGAATCAACTATCTTCGTAGAAGGCTAATC
65 CCATCTTTTGTATCTATTTGAGCAGCAGATGCTCTAGAATCAACTATCTTCCTAGAAGGCTAATC
5282928 AAGTAAAGAAAGAAAAAAAATTCCATAAAATGGAGAATCCTTCAGCACATTTTGGCTTTTATATT
130 AAGTAAAGAAAGAAAAAAAATTCCATAAAATGGAGAATCCTTCAGCACATTTTGGCTTTTATATT
* * *
5282993 TTCAGAATTGTGCCTGCCATCAAATTTGTGACGCATGGCGAGATTCCTCTCTGCCCTCTGCTCAG
195 TTCAGAATTGTGCCTGCCATCCAATTCGTGACGCATGGCGAGATTCCTCTCTGCCCTCCGCTCAG
** * * * * *
5283058 CAACGCAATTCTTATGCTCACCAGTTATAGCACAAAAATCCACCCTCTATTTAAAGTGACCTCAC
260 CAACGCAATTCCCATGCTCACCAGTTATAGCACCAAAATCCACCCTCTCTTCAAACTCACCTCAC
* * **
5283123 TCTCGTGAATGTCCATCCCAAATCCTAGTGTGACGTGGATGATTCTTCGAATCCTCACCACGGTC
325 TCTCGTGAATGTCCATCCCAAATCCTAGCGTGACGTGGATGATCCGCCGAATCCTCACCACGGTC
*
5283188 AATTAGGTTAAACGGTTCCGCAAA-T
390 GATTAGGTTAAACGGTTCCGCAAAGT
* * * * * *
5283213 TT-TTTTTTTCATACAGACTGTGTGTGTGGAGTCTTATTAAAAAGCTGTTATTGGTTACTTTACC
1 TTGTTTTTTTCATACAGGCAGCGTGTGTGGAGTCTTATAAAAAAGCTGTTTTTGGTTGCTTTACC
5283277 CATCTTTTGTATCTATTTGAGCAGCAGATGCTCTAGAATCAACTATCTTCCTAGAAGGCTAATCA
66 CATCTTTTGTATCTATTTGAGCAGCAGATGCTCTAGAATCAACTATCTTCCTAGAAGGCTAATCA
*
5283342 AGTAAAGAAAGAAAGAAAAAATT-CGTAAAATGGAGAATCCTTCAGCACATTTTGGCTTTTATAT
131 AGTAAAGAAAG-AA-AAAAAATTCCATAAAATGGAGAATCCTTCAGCACATTTTGGCTTTTATAT
* * ** *
5283406 TTTAAGAATTGTGACAACCATCCAATTCGTGACGCATGGCGAGATTCCTCTCTGCCCTCTGCTCA
194 TTTCAGAATTGTGCCTGCCATCCAATTCGTGACGCATGGCGAGATTCCTCTCTGCCCTCCGCTCA
*
5283471 GCAACGCAATTCCCATGCTCACCAGTTATAGCACCAAAATCCACCCTCTCTTCAAACGCACCTCA
259 GCAACGCAATTCCCATGCTCACCAGTTATAGCACCAAAATCCACCCTCTCTTCAAACTCACCTCA
* **
5283536 CTCTCGTGAATGTCCTTCCCAAATCCTAGCGTGACGTGGATGATCCGTAGAATCCTCACCACGGT
324 CTCTCGTGAATGTCCATCCCAAATCCTAGCGTGACGTGGATGATCCGCCGAATCCTCACCACGGT
*
5283601 CGATTAGGTTAAATGGTTCCGCAAAGT
389 CGATTAGGTTAAACGGTTCCGCAAAGT
* *
5283628 TTATTTTTTTCATACAGGCAGCGTGTGTGGAGTCTTATAAAAAA-CTATTTTTGGTTGCTTTACC
1 TTGTTTTTTTCATACAGGCAGCGTGTGTGGAGTCTTATAAAAAAGCTGTTTTTGGTTGCTTTACC
* *
5283692 CATCTTTTGTATCTATTTGAACAGCAGATGCTCTAGAATCAACTATCTTCCTAAAAGGCTAATCA
66 CATCTTTTGTATCTATTTGAGCAGCAGATGCTCTAGAATCAACTATCTTCCTAGAAGGCTAATCA
* *
5283757 AGTAAAGAAAGAAAAAAAATTCCATAAAATGGACAATCCTTCAGCACATTTTGGCTTTTAAATTT
131 AGTAAAGAAAGAAAAAAAATTCCATAAAATGGAGAATCCTTCAGCACATTTTGGCTTTTATATTT
* * * * *
5283822 TCAGAATTGTGCCTGCCATCAAATTTGTAACGCATGGCGAGATTTCTCTCTGCCCTCCACTCAGC
196 TCAGAATTGTGCCTGCCATCCAATTCGTGACGCATGGCGAGATTCCTCTCTGCCCTCCGCTCAGC
*
5283887 AACGCAATTCCCATGCTCACCAGTTATAGCACCAAAATCCACCCTTTCTTCAAACTCACCTCACT
261 AACGCAATTCCCATGCTCACCAGTTATAGCACCAAAATCCACCCTCTCTTCAAACTCACCTCACT
* * *
5283952 CTCGTGAATGTCCTTCCCAAATCCTAGCGTGACGTGGATGATCTGTCGAATCCTCACCACGGTCG
326 CTCGTGAATGTCCATCCCAAATCCTAGCGTGACGTGGATGATCCGCCGAATCCTCACCACGGTCG
5284017 ATTAGGTTAAACGGTTCCGCAAAGT
391 ATTAGGTTAAACGGTTCCGCAAAGT
* *
5284042 TTGTATTTTTCATACAGACAGCGTGTGTGGAGTCTTATAAAAAAGCTGTTTTTGGTTGCTTTACC
1 TTGTTTTTTTCATACAGGCAGCGTGTGTGGAGTCTTATAAAAAAGCTGTTTTTGGTTGCTTTACC
* * *
5284107 CATCTTTTGTATCTATTTGAGCAGCATATGCTCTAAAATCAACTATCTTCTTAGAAGGCTAATCA
66 CATCTTTTGTATCTATTTGAGCAGCAGATGCTCTAGAATCAACTATCTTCCTAGAAGGCTAATCA
5284172 AGTAAAGAAAGAAAAAAAA-TCCATAAAATGGAGAATCCTTCAGCACATTTT
131 AGTAAAGAAAGAAAAAAAATTCCATAAAATGGAGAATCCTTCAGCACATTTT
5284223 ATTAAACCCG
Statistics
Matches: 3955, Mismatches: 336, Indels: 73
0.91 0.08 0.02
Matches are distributed among these distances:
410 32 0.01
411 448 0.11
412 2 0.00
413 629 0.16
414 955 0.24
415 724 0.18
416 293 0.07
417 374 0.09
418 82 0.02
419 415 0.10
420 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (415 bp):
TTGTTTTTTTCATACAGGCAGCGTGTGTGGAGTCTTATAAAAAAGCTGTTTTTGGTTGCTTTACC
CATCTTTTGTATCTATTTGAGCAGCAGATGCTCTAGAATCAACTATCTTCCTAGAAGGCTAATCA
AGTAAAGAAAGAAAAAAAATTCCATAAAATGGAGAATCCTTCAGCACATTTTGGCTTTTATATTT
TCAGAATTGTGCCTGCCATCCAATTCGTGACGCATGGCGAGATTCCTCTCTGCCCTCCGCTCAGC
AACGCAATTCCCATGCTCACCAGTTATAGCACCAAAATCCACCCTCTCTTCAAACTCACCTCACT
CTCGTGAATGTCCATCCCAAATCCTAGCGTGACGTGGATGATCCGCCGAATCCTCACCACGGTCG
ATTAGGTTAAACGGTTCCGCAAAGT
Found at i:5288048 original size:17 final size:18
Alignment explanation
Indices: 5288026--5288060 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
5288016 TCGAACGGGG
*
5288026 GAAAAGAA-AAAGGGAAA
1 GAAAAGAAGAAAGAGAAA
5288043 GAAAAGAAGAAAGAGAAA
1 GAAAAGAAGAAAGAGAAA
5288061 ATTAGGGATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (18 bp):
GAAAAGAAGAAAGAGAAA
Found at i:5288811 original size:18 final size:18
Alignment explanation
Indices: 5288768--5288812 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
5288758 TTTTGATTAG
*
5288768 TGAATGGAAGAGTGAATT
1 TGAATTGAAGAGTGAATT
5288786 TGATATTGAA-AGTGAATTT
1 TGA-ATTGAAGAGTGAA-TT
5288805 TGAATTGA
1 TGAATTGA
5288813 GAATTGGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 14 0.58
19 10 0.42
ACGTcount: A:0.38, C:0.00, G:0.27, T:0.36
Consensus pattern (18 bp):
TGAATTGAAGAGTGAATT
Found at i:5290560 original size:29 final size:27
Alignment explanation
Indices: 5290499--5290558 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 27
5290489 CAATTAACAT
* *
5290499 ATTTTAATTATTAAATGAATTAATTTA
1 ATTTTAATTATTAAATGAATCAATATA
5290526 ATTTTACATTATTATAATGAATCAA-ATA
1 ATTTTA-ATTATTA-AATGAATCAATATA
5290554 ATTTT
1 ATTTT
5290559 TATTTAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 6 0.21
28 14 0.48
29 9 0.31
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.50
Consensus pattern (27 bp):
ATTTTAATTATTAAATGAATCAATATA
Found at i:5298958 original size:4 final size:4
Alignment explanation
Indices: 5298949--5298985 Score: 74
Period size: 4 Copynumber: 9.2 Consensus size: 4
5298939 TTCTAGAACA
5298949 TATG TATG TATG TATG TATG TATG TATG TATG TATG T
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG T
5298986 GAAAGAGTAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:5311832 original size:6 final size:7
Alignment explanation
Indices: 5311813--5311840 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
5311803 TATAATTTAA
5311813 TATTTTT
1 TATTTTT
5311820 TATTTTT
1 TATTTTT
5311827 TATTTTT
1 TATTTTT
5311834 TATTTTT
1 TATTTTT
5311841 CAGTATTGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (7 bp):
TATTTTT
Found at i:5314213 original size:32 final size:32
Alignment explanation
Indices: 5314163--5314237 Score: 104
Period size: 32 Copynumber: 2.4 Consensus size: 32
5314153 AATATATAAT
*
5314163 AAATATTTA-TTTTTTATTTTATTTAAT-TTTA
1 AAATATATATTTTTTTATTTT-TTTAATGTTTA
5314194 AAATATATATTTTTTTATTTTTTTAATGTTTA
1 AAATATATATTTTTTTATTTTTTTAATGTTTA
5314226 AAATA-AT-TTTTT
1 AAATATATATTTTT
5314238 GGTGTTTATT
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
30 5 0.12
31 16 0.39
32 20 0.49
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.65
Consensus pattern (32 bp):
AAATATATATTTTTTTATTTTTTTAATGTTTA
Found at i:5321498 original size:120 final size:121
Alignment explanation
Indices: 5321331--5321559 Score: 275
Period size: 120 Copynumber: 1.9 Consensus size: 121
5321321 GTTTTAAGAT
* * * * *
5321331 GATATTTGGCTATTTGGTCAAACGATAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTTGAAT
1 GATATTTGGCTATTTGGTCAAACGAAAAATCGAAACCCAGCAAGTTAGAGCACGATTTCTCGAAT
* * * *
5321396 TTCC-AAACGCAAAATATTGCTTTATTTAGAAA-TTCTT-TTTTGAAACTTTAAAG
66 ATCCAAAACGCAAAATATTGCCTTAATTAAAAATTTCTTCTTTTGAAACTTTAAAG
* ** * * *
5321449 GATATTTTGCTATTTAGGTTTAACGAGAAAATCGAAACCCCGTAAGTTAGAGTACGATTTCTCGA
1 GATATTTGGCTATTT-GGTCAAACGA-AAAATCGAAACCCAGCAAGTTAGAGCACGATTTCTCGA
*
5321514 ATATCCAAAACGCGAAATATTGCCTTAATTAAAAATTTCTTCTTTT
64 ATATCCAAAACGCAAAATATTGCCTTAATTAAAAATTTCTTCTTTT
5321560 TTTAAAAAGA
Statistics
Matches: 90, Mismatches: 16, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
118 14 0.16
119 8 0.09
120 35 0.39
121 24 0.27
122 5 0.06
123 4 0.04
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.35
Consensus pattern (121 bp):
GATATTTGGCTATTTGGTCAAACGAAAAATCGAAACCCAGCAAGTTAGAGCACGATTTCTCGAAT
ATCCAAAACGCAAAATATTGCCTTAATTAAAAATTTCTTCTTTTGAAACTTTAAAG
Found at i:5322129 original size:26 final size:26
Alignment explanation
Indices: 5322093--5322144 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
5322083 ATAAAACAAA
* * *
5322093 AATTTGAAATAAATAATATGTAAAAC
1 AATTTAAAATAAATAACATATAAAAC
5322119 AATTTAAAATAAATAACATATAAAAC
1 AATTTAAAATAAATAACATATAAAAC
5322145 TTAAAATTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.62, C:0.06, G:0.04, T:0.29
Consensus pattern (26 bp):
AATTTAAAATAAATAACATATAAAAC
Found at i:5322148 original size:23 final size:24
Alignment explanation
Indices: 5322099--5322151 Score: 63
Period size: 26 Copynumber: 2.2 Consensus size: 24
5322089 CAAAAATTTG
* *
5322099 AAATAAATAATATGTAAAACAATTTA
1 AAATAAATAACATATAAAAC-A-TTA
5322125 AAATAAATAACATATAAAAC-TTA
1 AAATAAATAACATATAAAACATTA
5322148 AAAT
1 AAAT
5322152 TAATGATGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 7 0.28
26 18 0.72
ACGTcount: A:0.64, C:0.06, G:0.02, T:0.28
Consensus pattern (24 bp):
AAATAAATAACATATAAAACATTA
Found at i:5326253 original size:32 final size:32
Alignment explanation
Indices: 5326212--5326276 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
5326202 TGAGTATTGC
5326212 AAATTATCTACAAATGCTTTCCATCTAAAACA
1 AAATTATCTACAAATGCTTTCCATCTAAAACA
*
5326244 AAATTATCTACAAATGCTTTCCATCTGAAACA
1 AAATTATCTACAAATGCTTTCCATCTAAAACA
5326276 A
1 A
5326277 GCTTGTCTTC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.43, C:0.22, G:0.05, T:0.31
Consensus pattern (32 bp):
AAATTATCTACAAATGCTTTCCATCTAAAACA
Found at i:5329866 original size:5 final size:5
Alignment explanation
Indices: 5329856--5329884 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
5329846 ACATTGAATC
5329856 AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
5329885 TAAACTTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:5333901 original size:43 final size:43
Alignment explanation
Indices: 5333771--5333903 Score: 203
Period size: 43 Copynumber: 3.1 Consensus size: 43
5333761 AATCTGTGTT
*
5333771 TTATTTTTTATTCTTATTGCTTTGCGATCTTTTTATATTGTCA
1 TTATTTTTTATTCTTATTGCTTTGCGATCTTTCTATATTGTCA
* * * *
5333814 CTATTTCTTATTCTTATTGCTTTGCGATCCTTCTATATTATCA
1 TTATTTTTTATTCTTATTGCTTTGCGATCTTTCTATATTGTCA
* *
5333857 TTATTTTTTATTCTTATTGCTTTGCTATCTTTCTAAATTGTCA
1 TTATTTTTTATTCTTATTGCTTTGCGATCTTTCTATATTGTCA
5333900 TTAT
1 TTAT
5333904 CGACGTTTAG
Statistics
Matches: 79, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 79 1.00
ACGTcount: A:0.18, C:0.15, G:0.08, T:0.59
Consensus pattern (43 bp):
TTATTTTTTATTCTTATTGCTTTGCGATCTTTCTATATTGTCA
Found at i:5335107 original size:18 final size:18
Alignment explanation
Indices: 5335084--5335132 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
5335074 TCTAAATTAA
5335084 AAAATACAAAAAATGAA-T
1 AAAATACAAAAAAT-AATT
**
5335102 AAAATAGTAAAAATAATT
1 AAAATACAAAAAATAATT
5335120 AAAATACAAAAAA
1 AAAATACAAAAAA
5335133 AAAAAAGAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
17 2 0.08
18 24 0.92
ACGTcount: A:0.73, C:0.04, G:0.04, T:0.18
Consensus pattern (18 bp):
AAAATACAAAAAATAATT
Found at i:5337747 original size:14 final size:14
Alignment explanation
Indices: 5337728--5337755 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
5337718 GTCGTGCGCA
5337728 TCGATAATACTATG
1 TCGATAATACTATG
5337742 TCGATAATACTATG
1 TCGATAATACTATG
5337756 AACTATATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (14 bp):
TCGATAATACTATG
Found at i:5346429 original size:21 final size:20
Alignment explanation
Indices: 5346405--5346449 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
5346395 TTTACCCTCC
*
5346405 CTGTTTTACCTTATGCCTCTT
1 CTGTTTCACCTT-TGCCTCTT
*
5346426 CTG-TTCCCCTTTGCCTCTT
1 CTGTTTCACCTTTGCCTCTT
5346445 CTGTT
1 CTGTT
5346450 CCTTCCTTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
19 11 0.52
20 7 0.33
21 3 0.14
ACGTcount: A:0.04, C:0.33, G:0.11, T:0.51
Consensus pattern (20 bp):
CTGTTTCACCTTTGCCTCTT
Found at i:5346442 original size:19 final size:20
Alignment explanation
Indices: 5346413--5346451 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
5346403 CCCTGTTTTA
5346413 CCTTATGCCTCTTCTGTTCC
1 CCTTATGCCTCTTCTGTTCC
5346433 CCTT-TGCCTCTTCTGTTCC
1 CCTTATGCCTCTTCTGTTCC
5346452 TTCCTTCTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.03, C:0.41, G:0.10, T:0.46
Consensus pattern (20 bp):
CCTTATGCCTCTTCTGTTCC
Found at i:5346560 original size:33 final size:33
Alignment explanation
Indices: 5346523--5346590 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 33
5346513 TTTCTTTTCT
*
5346523 TTTCTGCCGATTTGCTCCCTTTGTTTCTCACAG
1 TTTCTGCCGATTTGCTCCCTCTGTTTCTCACAG
*
5346556 TTTCTGCCGATTTGCTCCCTCTGTTTCTCATAG
1 TTTCTGCCGATTTGCTCCCTCTGTTTCTCACAG
5346589 TT
1 TT
5346591 CTCCACACGC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.09, C:0.29, G:0.15, T:0.47
Consensus pattern (33 bp):
TTTCTGCCGATTTGCTCCCTCTGTTTCTCACAG
Found at i:5348605 original size:59 final size:58
Alignment explanation
Indices: 5348529--5348822 Score: 179
Period size: 59 Copynumber: 4.9 Consensus size: 58
5348519 ATTATTAAGA
5348529 ATTTTATTA-AATCATATATTTTAATTAAAATATATTCAATAATAATTATTTCAAATTAT
1 ATTTTA-TAGAATCATATATTTTAATTAAAATATATTCAATAATAATTATTT-AAATTAT
* * * ** * * * * * *
5348588 ATTTTATAGCATCATATATTATGATTTTAGTAAATTCATATAAGAA-TATTGATTATTAAGA
1 ATTTTATAGAATCATATATTTTAATTAAAATATATTCA-ATAATAATTATTTA-AATT-A-T
* *
5348649 ATTTTATTA-AATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTAT
1 ATTTTA-TAGAATCATATATTTTAATTAAAATATATTCAATAATAATTAT-TTAAATTAT
* ** * * * * * * *
5348708 ATTTTCTAGTTTCATATATTATGATT-TAGTAAATTCATATAAGAA-TA-TTAATTATTAAGA
1 ATTTTATAGAATCATATATTTTAATTAAAATATATTCA-ATAATAATTATTTAA--ATT-A-T
* *
5348768 ATTTTATTA-AATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
1 ATTTTA-TAGAATCATATATTTTAATTAAAATATATTCAATAATAATTAT-TTAAA
5348823 ATATGATTAA
Statistics
Matches: 169, Mismatches: 47, Indels: 36
0.67 0.19 0.14
Matches are distributed among these distances:
56 4 0.02
58 17 0.10
59 59 0.35
60 37 0.22
61 44 0.26
62 4 0.02
63 4 0.02
ACGTcount: A:0.44, C:0.03, G:0.04, T:0.49
Consensus pattern (58 bp):
ATTTTATAGAATCATATATTTTAATTAAAATATATTCAATAATAATTATTTAAATTAT
Found at i:5348677 original size:18 final size:17
Alignment explanation
Indices: 5348649--5348683 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
5348639 ATTATTAAGA
*
5348649 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
5348666 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
5348684 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Done.