Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2169
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: 170354
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.36
File 1 of 2
Found at i:3166 original size:27 final size:28
Alignment explanation
Indices: 3118--3170 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
3108 TAAAAAATAA
* **
3118 ATTAAATATTAATTTTTTATATAAAATT
1 ATTAAATATTAATATTACATATAAAATT
3146 ATTAAATA-TAATATTACATATAAAA
1 ATTAAATATTAATATTACATATAAAA
3171 ATATATTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 14 0.64
28 8 0.36
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (28 bp):
ATTAAATATTAATATTACATATAAAATT
Found at i:4394 original size:30 final size:29
Alignment explanation
Indices: 4355--4411 Score: 71
Period size: 28 Copynumber: 1.9 Consensus size: 29
4345 GATAATGGTT
4355 AAGTGTAATTACTAATAATTAATA-AATTGA
1 AAGTGTAATT-C-AATAATTAATATAATTGA
* *
4385 AAGTTTAATTCAATAATTTATATAATT
1 AAGTGTAATTCAATAATTAATATAATT
4412 TCTTTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 10 0.42
29 5 0.21
30 9 0.38
ACGTcount: A:0.47, C:0.04, G:0.07, T:0.42
Consensus pattern (29 bp):
AAGTGTAATTCAATAATTAATATAATTGA
Found at i:4775 original size:2 final size:2
Alignment explanation
Indices: 4768--4798 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
4758 GTTTGTACCA
*
4768 AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4799 AACTAGCAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:6051 original size:2 final size:2
Alignment explanation
Indices: 6044--6072 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
6034 CCTATCTATC
6044 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 T
6073 CAAACCTGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6395 original size:2 final size:2
Alignment explanation
Indices: 6388--6424 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
6378 CTAAAGAAGG
6388 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6425 ACAATCATGC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6989 original size:21 final size:21
Alignment explanation
Indices: 6965--7006 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
6955 AATTTAAAAA
6965 TAAAAATAAAATTATAAATTT
1 TAAAAATAAAATTATAAATTT
* *
6986 TAAAATTTAAATTATAAATTT
1 TAAAAATAAAATTATAAATTT
7007 ATTAGATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
TAAAAATAAAATTATAAATTT
Found at i:7137 original size:20 final size:20
Alignment explanation
Indices: 7114--7180 Score: 68
Period size: 20 Copynumber: 3.4 Consensus size: 20
7104 AAAATTTTAG
7114 TATATTAATAATTATTATTT
1 TATATTAATAATTATTATTT
* *
7134 TATATAAATATTTATATATTT
1 TATATTAATAATTAT-TATTT
*
7155 ATATATTTAT-ATTA-TA-TT
1 -TATATTAATAATTATTATTT
7173 TATATTAA
1 TATATTAA
7181 GTTTATATAA
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
17 7 0.18
18 2 0.05
19 2 0.05
20 13 0.33
21 8 0.21
22 7 0.18
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
TATATTAATAATTATTATTT
Found at i:7152 original size:8 final size:8
Alignment explanation
Indices: 7141--7166 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
7131 TTTTATATAA
7141 ATATTTAT
1 ATATTTAT
7149 ATATTTAT
1 ATATTTAT
7157 ATATTTAT
1 ATATTTAT
7165 AT
1 AT
7167 TATATTTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
ATATTTAT
Found at i:7172 original size:11 final size:11
Alignment explanation
Indices: 7156--7188 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
7146 TATATATTTA
7156 TATATTTATAT
1 TATATTTATAT
7167 TATATTTATAT
1 TATATTTATAT
7178 TA-AGTTTATAT
1 TATA-TTTATAT
7189 AATTAAAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 1 0.05
11 20 0.95
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (11 bp):
TATATTTATAT
Found at i:7469 original size:3 final size:3
Alignment explanation
Indices: 7461--7486 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
7451 TATTCTTTTG
7461 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
7487 ATCTTGCATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:8291 original size:14 final size:14
Alignment explanation
Indices: 8247--8289 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
8237 AGCTTAATTC
8247 AATTA-ATTTATAA
1 AATTATATTTATAA
* *
8260 AATTATCTTTATGA
1 AATTATATTTATAA
8274 AATTATATTTAATAA
1 AATTATATTT-ATAA
8289 A
1 A
8290 TTTAAAATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
13 5 0.21
14 15 0.62
15 4 0.17
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (14 bp):
AATTATATTTATAA
Found at i:8633 original size:19 final size:17
Alignment explanation
Indices: 8611--8646 Score: 54
Period size: 19 Copynumber: 2.0 Consensus size: 17
8601 CTTATTTTAC
8611 TATTTAAAATATATTAAAA
1 TATTTAAAA-A-ATTAAAA
8630 TATTTAAAAAATTAAAA
1 TATTTAAAAAATTAAAA
8647 AAATATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.41
18 1 0.06
19 9 0.53
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
TATTTAAAAAATTAAAA
Found at i:12386 original size:18 final size:17
Alignment explanation
Indices: 12358--12398 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
12348 TATGAATATA
12358 ATAAAATATAAAAAAAT
1 ATAAAATATAAAAAAAT
*
12375 ATAAATATATAAATAAAT
1 ATAAA-ATATAAAAAAAT
12393 -TAAAAT
1 ATAAAAT
12399 CAATATTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 2 0.09
17 9 0.41
18 11 0.50
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
ATAAAATATAAAAAAAT
Found at i:12545 original size:20 final size:19
Alignment explanation
Indices: 12509--12548 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
12499 TATTTTTATT
12509 TAAATTTAATTATAAAATA
1 TAAATTTAATTATAAAATA
12528 TAAATATTAA-TATAAAA-A
1 TAAAT-TTAATTATAAAATA
12546 TAA
1 TAA
12549 TTTTTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 4 0.20
19 12 0.60
20 4 0.20
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
TAAATTTAATTATAAAATA
Found at i:12956 original size:20 final size:20
Alignment explanation
Indices: 12931--12982 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
12921 TATTTTTATA
*
12931 TATTATAATTTTATTTAAAT
1 TATTATAATTTTATATAAAT
12951 TATTATAATTTTATATAAAT
1 TATTATAATTTTATATAAAT
*
12971 TTTTAT-ATTTTA
1 TATTATAATTTTA
12983 ATAGTTTATA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 6 0.20
20 24 0.80
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TATTATAATTTTATATAAAT
Found at i:13435 original size:7 final size:7
Alignment explanation
Indices: 13423--13476 Score: 51
Period size: 7 Copynumber: 7.9 Consensus size: 7
13413 AAAATGTATA
13423 TTATATT
1 TTATATT
13430 TTATATT
1 TTATATT
13437 TTATA--
1 TTATATT
13442 TTATATT
1 TTATATT
13449 TTAATTATT
1 TT-A-TATT
* *
13458 TTTTATA
1 TTATATT
13465 TTATA-T
1 TTATATT
13471 TTATAT
1 TTATAT
13477 CATACAATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
5 5 0.13
6 5 0.13
7 21 0.55
8 1 0.03
9 6 0.16
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (7 bp):
TTATATT
Found at i:14259 original size:18 final size:18
Alignment explanation
Indices: 14233--14273 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
14223 AAAAGTCCAC
*
14233 TGAAGTCCCATGCTATAA
1 TGAAATCCCATGCTATAA
14251 TGAAATCCCATGCTATAA
1 TGAAATCCCATGCTATAA
14269 TGAAA
1 TGAAA
14274 AGAAGCATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.39, C:0.20, G:0.15, T:0.27
Consensus pattern (18 bp):
TGAAATCCCATGCTATAA
Found at i:14686 original size:23 final size:23
Alignment explanation
Indices: 14660--14704 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
14650 CTTTTACCTA
*
14660 TTTTATATTATAATTTA-ATTATT
1 TTTTATATCAT-ATTTATATTATT
14683 TTTTATATCATATTTATATTAT
1 TTTTATATCATATTTATATTAT
14705 ATTTAAAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (23 bp):
TTTTATATCATATTTATATTATT
Found at i:15427 original size:22 final size:22
Alignment explanation
Indices: 15397--15439 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
15387 TGTCTTAATT
*
15397 TGCACTTCTAAGAGTAATTTTA
1 TGCAATTCTAAGAGTAATTTTA
15419 TGCAATTCTAAGAGTAATTTT
1 TGCAATTCTAAGAGTAATTTT
15440 TTGATGGATC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.42
Consensus pattern (22 bp):
TGCAATTCTAAGAGTAATTTTA
Found at i:21348 original size:19 final size:20
Alignment explanation
Indices: 21326--21372 Score: 62
Period size: 19 Copynumber: 2.4 Consensus size: 20
21316 ATATATTAAA
21326 ATATTAAAAATTTAT-TTTT
1 ATATTAAAAATTTATATTTT
*
21345 ATATT-AATATTTATATTTT
1 ATATTAAAAATTTATATTTT
21364 ATAATTAAA
1 AT-ATTAAA
21373 TTTAAATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 8 0.33
19 11 0.46
20 3 0.12
21 2 0.08
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
ATATTAAAAATTTATATTTT
Found at i:21363 original size:20 final size:19
Alignment explanation
Indices: 21333--21376 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
21323 AAAATATTAA
21333 AAATTTAT-TTTTAT-ATT
1 AAATTTATATTTTATAATT
21350 AATATTTATATTTTATAATT
1 AA-ATTTATATTTTATAATT
21370 AAATTTA
1 AAATTTA
21377 AATAAAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 2 0.08
18 6 0.25
19 11 0.46
20 5 0.21
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
AAATTTATATTTTATAATT
Found at i:23133 original size:15 final size:16
Alignment explanation
Indices: 23111--23157 Score: 55
Period size: 13 Copynumber: 3.0 Consensus size: 16
23101 TAGTTTAAAC
23111 ACATTTAATATTTTTA
1 ACATTTAATATTTTTA
23127 A-ATTT-A-ATTTTTA
1 ACATTTAATATTTTTA
23140 ATCATTTAATCATTTTTA
1 A-CATTTAAT-ATTTTTA
23158 TTAAATTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
13 8 0.31
14 1 0.04
15 8 0.31
16 2 0.08
18 7 0.27
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.57
Consensus pattern (16 bp):
ACATTTAATATTTTTA
Found at i:26086 original size:45 final size:45
Alignment explanation
Indices: 25982--26092 Score: 168
Period size: 45 Copynumber: 2.5 Consensus size: 45
25972 AAGCTGCGGG
* * *
25982 AGCTGGTGCCCAAGATTCAGTTGGTGTTGCTGGCACAGAAGGTGT
1 AGCTGGTGCCCAAGGTTCAGGTGGTGTTGCAGGCACAGAAGGTGT
* *
26027 AGCTGGTGCCCAAGGTTCAGGTGGTGTTGCAGGCACTGTAGGTGT
1 AGCTGGTGCCCAAGGTTCAGGTGGTGTTGCAGGCACAGAAGGTGT
*
26072 AGCTGGTGCCCAAGGTGCAGG
1 AGCTGGTGCCCAAGGTTCAGG
26093 AGCCGGTGCC
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 60 1.00
ACGTcount: A:0.18, C:0.19, G:0.39, T:0.24
Consensus pattern (45 bp):
AGCTGGTGCCCAAGGTTCAGGTGGTGTTGCAGGCACAGAAGGTGT
Found at i:26101 original size:21 final size:21
Alignment explanation
Indices: 26076--26129 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
26066 AGGTGTAGCT
26076 GGTGCCCAAGGTGCAGGAGCC
1 GGTGCCCAAGGTGCAGGAGCC
** **
26097 GGTGCCCTCGGTGCAGGAGTT
1 GGTGCCCAAGGTGCAGGAGCC
26118 GGTGCCCAAGGT
1 GGTGCCCAAGGT
26130 CCAGTTGTCG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.15, C:0.26, G:0.43, T:0.17
Consensus pattern (21 bp):
GGTGCCCAAGGTGCAGGAGCC
Found at i:26190 original size:66 final size:65
Alignment explanation
Indices: 25914--26748 Score: 398
Period size: 66 Copynumber: 12.7 Consensus size: 65
25904 GTATGGAGAT
* * * * * * *
25914 GGAGCCGGTGTCCAAGGTTCAGCTGGTGTTGCTGGTACTGAAGGTGTGGCAGGTGCCCAAGCTGC
1 GGAGCTGGTGCCCAAGGTTCAG-TTGTGTTGCTGGGACTGAAGGTGTAGCTGGTGCCCAAGGTGC
*
25979 G
65 A
* * * *
25980 GGAGCTGGTGCCCAAGATTCAGTTGGTGTTGCTGGCACAGAAGGTGTAGCTGGTGCCCAAGGTTC
1 GGAGCTGGTGCCCAAGGTTCAGTT-GTGTTGCTGGGACTGAAGGTGTAGCTGGTGCCCAAGGTGC
26045 A
65 A
* * * ** * * * ** * * **
26046 GGTGGTGTTG--C-AGGCACTGTAGGTGTAGCTGGTG-CCCAAGGTGCAGGAGCCGGTGCCCTCG
1 GGAGCTGGTGCCCAAGGTTCAGT-TGTGTTGCTGG-GACTGAAGGT---GTAGCTGGTGCCCAAG
26107 GTGCA
61 GTGCA
* * * *
26112 GGAGTTGGTGCCCAAGGTCCAGTTGTCGTTGCTGGGACTGAAGGTGTAGCTGGTGTCCAAGGAGC
1 GGAGCTGGTGCCCAAGGTTCAGTTGT-GTTGCTGGGACTGAAGGTGTAGCTGGTGCCCAAGGTGC
26177 A
65 A
*
26178 GGAGCTGGTGCCCAAGGTTCAGTTGGTGTTGC-----C-CAAGGTGTAGAGGCTGGTGCCCAAGG
1 GGAGCTGGTGCCCAAGGTTCAGTT-GTGTTGCTGGGACTGAAGGTGT--A-GCTGGTGCCCAAGG
*
26237 TTC-
62 TGCA
* * ** * ** * ** * * *
26240 --AGTTGGTGTCGC-AGGCACTGAAGTTGTAGCTGGTG-CCCAAGGTGCAGGAGCCGGTGCCCAC
1 GGAGCTGGTG-CCCAAGGTTCAGTTG-TGTTGCTGG-GACTGAAGGT---GTAGCTGGTGCCCAA
26301 GGTGCA
60 GGTGCA
* * *
26307 GGAGTTGGTGCCCAAGGTTCAGTTGTCGTTGCTGGGACTGAAGGTGTAGCTGGTGGCCAAGGAGC
1 GGAGCTGGTGCCCAAGGTTCAGTTGT-GTTGCTGGGACTGAAGGTGTAGCTGGTGCCCAAGGTGC
26372 A
65 A
26373 GGAGCTGGTGCCCAAGGTTCAGTTGGTGTTGC-GGGCACTGAAGGTGTAGCTGGTGCCCAAGGTG
1 GGAGCTGGTGCCCAAGGTTCAGTT-GTGTTGCTGGG-ACTGAAGGTGTAGCTGGTGCCCAAGGTG
26437 CA
64 CA
* * * * ** * ** * *
26439 GGAGCTGGTGCCCACGGTGCAG--GAGTTGGTGCCCAAGGTTCAGTTGTCGTTGCTGG-GCCTGA
1 GGAGCTGGTGCCCAAGGTTCAGTTGTGTTGCTG--GGA-CTGAAG--GT-GTAGCTGGTGCC-CA
26501 AGGT---
59 AGGTGCA
* * ** * ** *
26505 GTAGCTGGTGGCCAAGG---AGCAG-G-AGCTGGTG-CCCAAGGT-TCAGTTGGTGTTGCCCAAG
1 GGAGCTGGTGCCCAAGGTTCAGTTGTGTTGCTGG-GACTGAAGGTGT-AGCT-G-G-TGCCCAAG
*
26563 GTGTA
61 GTGCA
* * *
26568 -GAGGCTGGTGCCCAAGGTTCAGTTGGTGTCGCAGGCACTGAAGGTGTAGCTGGTGCCCAAGGTG
1 GGA-GCTGGTGCCCAAGGTTCAGTT-GTGTTGCTGGGACTGAAGGTGTAGCTGGTGCCCAAGGTG
26632 CA
64 CA
* * * *
26634 GGAGCCGGTGCCCAAGGTTCAGTTGGTGTTGCAGGCACTGAAGGTGTAGCTGGTGCCCATGGTGC
1 GGAGCTGGTGCCCAAGGTTCAGTT-GTGTTGCTGGGACTGAAGGTGTAGCTGGTGCCCAAGGTGC
26699 A
65 A
* * * * * *
26700 GTAGTTGGTGCCCAAGGTTCAGTCGGTGTTGCAGGCACCGAAGGTGTAG
1 GGAGCTGGTGCCCAAGGTTCAGT-TGTGTTGCTGGGACTGAAGGTGTAG
26749 TTGGAGCTGG
Statistics
Matches: 582, Mismatches: 123, Indels: 128
0.70 0.15 0.15
Matches are distributed among these distances:
56 1 0.00
57 2 0.00
58 3 0.01
59 2 0.00
60 31 0.05
61 6 0.01
62 2 0.00
63 57 0.10
64 3 0.01
65 7 0.01
66 371 0.64
67 9 0.02
68 15 0.03
69 72 0.12
70 1 0.00
ACGTcount: A:0.17, C:0.20, G:0.40, T:0.23
Consensus pattern (65 bp):
GGAGCTGGTGCCCAAGGTTCAGTTGTGTTGCTGGGACTGAAGGTGTAGCTGGTGCCCAAGGTGCA
Found at i:26210 original size:21 final size:21
Alignment explanation
Indices: 26186--26248 Score: 76
Period size: 21 Copynumber: 3.0 Consensus size: 21
26176 CAGGAGCTGG
26186 TGCCCAAGGTTCAGTTGGTGT
1 TGCCCAAGGTTCAGTTGGTGT
* *
26207 TGCCCAAGGTGT-AG-AGGCTGG
1 TGCCCAAGGT-TCAGTTGG-TGT
26228 TGCCCAAGGTTCAGTTGGTGT
1 TGCCCAAGGTTCAGTTGGTGT
26249 CGCAGGCACT
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
20 3 0.09
21 28 0.82
22 3 0.09
ACGTcount: A:0.16, C:0.19, G:0.37, T:0.29
Consensus pattern (21 bp):
TGCCCAAGGTTCAGTTGGTGT
Found at i:26211 original size:87 final size:86
Alignment explanation
Indices: 26027--26717 Score: 377
Period size: 87 Copynumber: 7.9 Consensus size: 86
26017 CAGAAGGTGT
* * * * * *
26027 AGCTGGTGCCCAAGGTTCAGGTGGTGTTGCAGGCACTGTAGGTGTAGCTGGTGCCCAAGGTGCAG
1 AGCTGGTGCCCAAGGTTCA-GTTGTGTTGCTGGGACTGAAGGTGTAGCTGGTGTCCAAGGAGCAG
* **
26092 GAGCCGGTGCCCTCGGTGCAGG
65 GAGCTGGTGCCCAAGGTGCAGG
* *
26114 AGTTGGTGCCCAAGGTCCAGTTGTCGTTGCTGGGACTGAAGGTGTAGCTGGTGTCCAAGGAGCAG
1 AGCTGGTGCCCAAGGTTCAGTTGT-GTTGCTGGGACTGAAGGTGTAGCTGGTGTCCAAGGAGCAG
* *
26179 GAGCTGGTGCCCAAGGTTCAGT
65 GAGCTGGTGCCCAAGGTGCAGG
* * * * * ** *
26201 TGGTGTTGCCCAAGG-T--GTAGAG--GCTGGTG-CCCAAGGT-TCAGTTGGTGTCGC-AGGCAC
1 AGCTGGTGCCCAAGGTTCAGTTGTGTTGCTGG-GACTGAAGGTGT-AGCTGGTGTC-CAAGG-A-
*
26258 TGAAGTTGTAGCTGGTGCCCAAGGTGCAGG
61 -GCAG--G-AGCTGGTGCCCAAGGTGCAGG
* * * * * ** * * **
26288 AGCCGGTGCCCACGGTGCAG--GAGTTG--GTG-CCCAAGGT-TCAG-TTGTCGTTGCTGGGACT
1 AGCTGGTGCCCAAGGTTCAGTTGTGTTGCTGGGACTGAAGGTGT-AGCTGGT-G-TCCAAGGA--
* * *
26346 GAAGGTGTAGCTGGTGGCCAAGGAGCAGG
61 GCA-G-G-AGCTGGTGCCCAAGGTGCAGG
* *
26375 AGCTGGTGCCCAAGGTTCAGTTGGTGTTGC-GGGCACTGAAGGTGTAGCTGGTGCCCAAGGTGCA
1 AGCTGGTGCCCAAGGTTCAGTT-GTGTTGCTGGG-ACTGAAGGTGTAGCTGGTGTCCAAGGAGCA
*
26439 GGAGCTGGTGCCCACGGTGCAGG
64 GGAGCTGGTGCCCAAGGTGCAGG
* * *
26462 AGTTGGTGCCCAAGGTTCAGTTGTCGTTGCTGGGCCTGAAGGTGTAGCTGGTGGCCAAGGAGCAG
1 AGCTGGTGCCCAAGGTTCAGTTGT-GTTGCTGGGACTGAAGGTGTAGCTGGTGTCCAAGGAGCAG
* *
26527 GAGCTGGTGCCCAAGGTTCAGT
65 GAGCTGGTGCCCAAGGTGCAGG
* * * * * ** *
26549 TGGTGTTGCCCAAGG-T--GTAGAG--GCTGGTG-CCCAAGGT-TCAGTTGGTGTCGC-AGGCAC
1 AGCTGGTGCCCAAGGTTCAGTTGTGTTGCTGG-GACTGAAGGTGT-AGCTGGTGTC-CAAGG-A-
*
26606 TGAAGGTGTAGCTGGTGCCCAAGGTGCAGG
61 -GCA-G-G-AGCTGGTGCCCAAGGTGCAGG
* * * * * *
26636 AGCCGGTGCCCAAGGTTCAGTTGGTGTTGCAGGCACTGAAGGTGTAGCTGGTGCCCATGGTGCAG
1 AGCTGGTGCCCAAGGTTCAGTT-GTGTTGCTGGGACTGAAGGTGTAGCTGGTGTCCAAGGAGCAG
* *
26701 TAGTTGGTGCCCAAGGT
65 GAGCTGGTGCCCAAGGT
26718 TCAGTCGGTG
Statistics
Matches: 467, Mismatches: 90, Indels: 94
0.72 0.14 0.14
Matches are distributed among these distances:
80 2 0.00
81 45 0.10
82 6 0.01
83 2 0.00
84 11 0.02
85 1 0.00
86 12 0.03
87 318 0.68
88 13 0.03
89 2 0.00
90 13 0.03
91 4 0.01
92 4 0.01
93 29 0.06
94 5 0.01
ACGTcount: A:0.17, C:0.21, G:0.40, T:0.23
Consensus pattern (86 bp):
AGCTGGTGCCCAAGGTTCAGTTGTGTTGCTGGGACTGAAGGTGTAGCTGGTGTCCAAGGAGCAGG
AGCTGGTGCCCAAGGTGCAGG
Found at i:26211 original size:108 final size:108
Alignment explanation
Indices: 26072--26324 Score: 285
Period size: 108 Copynumber: 2.3 Consensus size: 108
26062 CTGTAGGTGT
** *
26072 AGCTGGTGCCCAAGGTGCAGGAGCCGGTGCCCTCGGTGCAG-GAGTTGGTGCCCAAGGTCCAGTT
1 AGCTGGTGCCCAAGGTGCAGGAGCCGGTGCCCAAGGTGCAGAG-GCTGGTGCCCAAGGTCCAGTT
* * * *
26136 -GTCGTTGCTGGGACTGAAGGTGTAGCTGGTGTCCAAGGAGCAGG
65 GGT-GTCGCAGGCACTGAAGGTGTAGCTGGTGCCCAAGGAGCAGG
* ** ** * * *
26180 AGCTGGTGCCCAAGGTTCAGTTGGTGTTGCCCAAGGTGTAGAGGCTGGTGCCCAAGGTTCAGTTG
1 AGCTGGTGCCCAAGGTGCAGGAGCCGGTGCCCAAGGTGCAGAGGCTGGTGCCCAAGGTCCAGTTG
* *
26245 GTGTCGCAGGCACTGAAGTTGTAGCTGGTGCCCAAGGTGCAGG
66 GTGTCGCAGGCACTGAAGGTGTAGCTGGTGCCCAAGGAGCAGG
* * **
26288 AGCCGGTGCCCACGGTGCAGGAGTTGGTGCCCAAGGT
1 AGCTGGTGCCCAAGGTGCAGGAGCCGGTGCCCAAGGT
26325 TCAGTTGTCG
Statistics
Matches: 119, Mismatches: 24, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
108 116 0.97
109 3 0.03
ACGTcount: A:0.17, C:0.22, G:0.40, T:0.21
Consensus pattern (108 bp):
AGCTGGTGCCCAAGGTGCAGGAGCCGGTGCCCAAGGTGCAGAGGCTGGTGCCCAAGGTCCAGTTG
GTGTCGCAGGCACTGAAGGTGTAGCTGGTGCCCAAGGAGCAGG
Found at i:26291 original size:195 final size:195
Alignment explanation
Indices: 25941--26440 Score: 745
Period size: 195 Copynumber: 2.5 Consensus size: 195
25931 TTCAGCTGGT
* * * ** * *
25941 GTTGCTGGTACTGAAGGTGTGGCAGGTGCCCAAGCTGCGGGAGCTGGTGCCCAAGATTCAGTTGG
1 GTTGCTGGGACTGAAGGTGTAGCTGGTGCCCAAGGAGCAGGAGCTGGTGCCCAAGGTTCAGTTGG
* *
26006 TGTTGCTGGCACAGAAGGTGTAGCTGGTGCCCAAGGTTCAGGTGGTGTTGCAGGCACTGTAGGTG
66 TGTTGC--GCACA-AAGGTGTAGCTGGTGCCCAAGGTTCAGGTGGTGTCGCAGGCACTGAAGGTG
*
26071 TAGCTGGTGCCCAAGGTGCAGGAGCCGGTGCCCTCGGTGCAGGAGTTGGTGCCCAAGGTCCAGTT
128 TAGCTGGTGCCCAAGGTGCAGGAGCCGGTGCCCACGGTGCAGGAGTTGGTGCCCAAGGTCCAGTT
26136 GTC
193 GTC
*
26139 GTTGCTGGGACTGAAGGTGTAGCTGGTGTCCAAGGAGCAGGAGCTGGTGCCCAAGGTTCAGTTGG
1 GTTGCTGGGACTGAAGGTGTAGCTGGTGCCCAAGGAGCAGGAGCTGGTGCCCAAGGTTCAGTTGG
* *
26204 TGTTGC-C-C-AAGGTGTAGAGGCTGGTGCCCAAGGTTCAGTTGGTGTCGCAGGCACTGAAGTTG
66 TGTTGCGCACAAAGGTGT--A-GCTGGTGCCCAAGGTTCAGGTGGTGTCGCAGGCACTGAAGGTG
*
26266 TAGCTGGTGCCCAAGGTGCAGGAGCCGGTGCCCACGGTGCAGGAGTTGGTGCCCAAGGTTCAGTT
128 TAGCTGGTGCCCAAGGTGCAGGAGCCGGTGCCCACGGTGCAGGAGTTGGTGCCCAAGGTCCAGTT
26331 GTC
193 GTC
*
26334 GTTGCTGGGACTGAAGGTGTAGCTGGTGGCCAAGGAGCAGGAGCTGGTGCCCAAGGTTCAGTTGG
1 GTTGCTGGGACTGAAGGTGTAGCTGGTGCCCAAGGAGCAGGAGCTGGTGCCCAAGGTTCAGTTGG
* *
26399 TGTTGCGGGCACTGAAGGTGTAGCTGGTGCCCAAGGTGCAGG
66 TGTTGC--GCAC-AAAGGTGTAGCTGGTGCCCAAGGTTCAGG
26441 AGCTGGTGCC
Statistics
Matches: 276, Mismatches: 17, Indels: 18
0.89 0.05 0.06
Matches are distributed among these distances:
192 7 0.03
194 2 0.01
195 176 0.64
198 82 0.30
199 2 0.01
201 7 0.03
ACGTcount: A:0.17, C:0.20, G:0.40, T:0.23
Consensus pattern (195 bp):
GTTGCTGGGACTGAAGGTGTAGCTGGTGCCCAAGGAGCAGGAGCTGGTGCCCAAGGTTCAGTTGG
TGTTGCGCACAAAGGTGTAGCTGGTGCCCAAGGTTCAGGTGGTGTCGCAGGCACTGAAGGTGTAG
CTGGTGCCCAAGGTGCAGGAGCCGGTGCCCACGGTGCAGGAGTTGGTGCCCAAGGTCCAGTTGTC
Found at i:26297 original size:21 final size:21
Alignment explanation
Indices: 26271--26324 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
26261 AGTTGTAGCT
26271 GGTGCCCAAGGTGCAGGAGCC
1 GGTGCCCAAGGTGCAGGAGCC
* **
26292 GGTGCCCACGGTGCAGGAGTT
1 GGTGCCCAAGGTGCAGGAGCC
26313 GGTGCCCAAGGT
1 GGTGCCCAAGGT
26325 TCAGTTGTCG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.17, C:0.26, G:0.43, T:0.15
Consensus pattern (21 bp):
GGTGCCCAAGGTGCAGGAGCC
Found at i:26426 original size:45 final size:45
Alignment explanation
Indices: 26375--26521 Score: 128
Period size: 45 Copynumber: 3.3 Consensus size: 45
26365 AAGGAGCAGG
26375 AGCTGGTGCCCAAGGTTCAGTTGGTGTTGCGGGCACTGAAGGTGT
1 AGCTGGTGCCCAAGGTTCAGTTGGTGTTGCGGGCACTGAAGGTGT
* ** * * * *
26420 AGCTGGTGCCCAAGGTGCAGGAGCTGGTGC--CCACGGTGCA-G-G-
1 AGCTGGTGCCCAAGGTTCAGTTGGTGTTGCGGGCAC--TGAAGGTGT
*
26462 AGTTGGTGCCCAAGGTTCAGTT-GTCGTTGCTGGGC-CTGAAGGTGT
1 AGCTGGTGCCCAAGGTTCAGTTGGT-GTTGC-GGGCACTGAAGGTGT
*
26507 AGCTGGTGGCCAAGG
1 AGCTGGTGCCCAAGG
26522 AGCAGGAGCT
Statistics
Matches: 76, Mismatches: 17, Indels: 18
0.68 0.15 0.16
Matches are distributed among these distances:
41 1 0.01
42 25 0.33
43 5 0.07
44 3 0.04
45 42 0.55
ACGTcount: A:0.16, C:0.20, G:0.41, T:0.23
Consensus pattern (45 bp):
AGCTGGTGCCCAAGGTTCAGTTGGTGTTGCGGGCACTGAAGGTGT
Found at i:26446 original size:21 final size:21
Alignment explanation
Indices: 26420--26585 Score: 99
Period size: 21 Copynumber: 7.8 Consensus size: 21
26410 CTGAAGGTGT
26420 AGCTGGTGCCCAAGGTGCAGG
1 AGCTGGTGCCCAAGGTGCAGG
*
26441 AGCTGGTGCCCACGGTGCAGG
1 AGCTGGTGCCCAAGGTGCAGG
* *
26462 AGTTGGTGCCCAAGGTTCAGTTGTCG
1 AGCTGGTGCCCAAGGTGCA---G--G
* * *
26488 TTGCTGG-GCCTGAAGGT---GT
1 -AGCTGGTGCC-CAAGGTGCAGG
* *
26507 AGCTGGTGGCCAAGGAGCAGG
1 AGCTGGTGCCCAAGGTGCAGG
* *
26528 AGCTGGTGCCCAAGGTTCAGT
1 AGCTGGTGCCCAAGGTGCAGG
* * * *
26549 TGGTGTTGCCCAAGGTGTA-G
1 AGCTGGTGCCCAAGGTGCAGG
26569 AGGCTGGTGCCCAAGGT
1 A-GCTGGTGCCCAAGGT
26586 TCAGTTGGTG
Statistics
Matches: 107, Mismatches: 26, Indels: 24
0.68 0.17 0.15
Matches are distributed among these distances:
18 9 0.08
19 2 0.02
21 82 0.77
24 1 0.01
26 4 0.04
27 9 0.08
ACGTcount: A:0.17, C:0.21, G:0.40, T:0.22
Consensus pattern (21 bp):
AGCTGGTGCCCAAGGTGCAGG
Found at i:26471 original size:195 final size:193
Alignment explanation
Indices: 25920--26477 Score: 668
Period size: 195 Copynumber: 2.8 Consensus size: 193
25910 AGATGGAGCC
* * * * * ** *
25920 GGTGTCCAAGGTTCAGCTGGT-GTTGCTGGTACTGAAGGTGTGGCAGGTGCCCAAGCTGCGGGAG
1 GGTGCCCAAGGTTCAG-TTGTCGTTGCTGGGACTGAAGGTGTAGCTGGTGCCCAAGGAGCAGGAG
* *
25984 CTGGTGCCCAAGATTCAGTTGGTGTTGCTGGCACAGAAGGTGTAGCTGGTGCCCAAGGTTCAGGT
65 CTGGTGCCCAAGGTTCAGTTGGTGTTGC-GGCAC-GAAGGTGTAGCTGGTGCCCAAGGTTCAGGA
* * * * *
26049 GGTGTTGCAGGCACTGT-AGGTGTAGCTGGTGCCCAAGGTGCAGGAGCCGGTGCCCTCGGTGCAG
128 GCTGGTGC--GCACGGTGAAG-G-AGCTGGTGCCCAAGGTGCAGGAGCCGGTGCCCACGGTGCAG
26113 GAGTT
189 GAGTT
* *
26118 GGTGCCCAAGGTCCAGTTGTCGTTGCTGGGACTGAAGGTGTAGCTGGTGTCCAAGGAGCAGGAGC
1 GGTGCCCAAGGTTCAGTTGTCGTTGCTGGGACTGAAGGTGTAGCTGGTGCCCAAGGAGCAGGAGC
26183 TGGTGCCCAAGGTTCAGTTGGTGTTGC--C-C-AAGGTGTAGAGGCTGGTGCCCAAGGTTC---A
66 TGGTGCCCAAGGTTCAGTTGGTGTTGCGGCACGAAGGTGT--A-GCTGGTGCCCAAGGTTCAGGA
*
26241 GTTGGTGTCGCA-GGCACTGAAGTTGTAGCTGGTGCCCAAGGTGCAGGAGCCGGTGCCCACGGTG
128 GCTGGTG-CGCACGG---TGAAG--G-AGCTGGTGCCCAAGGTGCAGGAGCCGGTGCCCACGGTG
26305 CAGGAGTT
186 CAGGAGTT
*
26313 GGTGCCCAAGGTTCAGTTGTCGTTGCTGGGACTGAAGGTGTAGCTGGTGGCCAAGGAGCAGGAGC
1 GGTGCCCAAGGTTCAGTTGTCGTTGCTGGGACTGAAGGTGTAGCTGGTGCCCAAGGAGCAGGAGC
*
26378 TGGTGCCCAAGGTTCAGTTGGTGTTGCGGGCACTGAAGGTGTAGCTGGTGCCCAAGGTGCAGGAG
66 TGGTGCCCAAGGTTCAGTTGGTGTTGC-GGCAC-GAAGGTGTAGCTGGTGCCCAAGGTTCAGGAG
* * *
26443 CTGGTGCCCACGGTGCAGGAGTTGGTGCCCAAGGT
129 CTGGTGCGCACGGTGAAGGAGCTGGTGCCCAAGGT
26478 TCAGTTGTCG
Statistics
Matches: 316, Mismatches: 24, Indels: 43
0.83 0.06 0.11
Matches are distributed among these distances:
190 1 0.00
191 3 0.01
192 12 0.04
193 2 0.01
194 4 0.01
195 171 0.54
196 1 0.00
197 3 0.01
198 98 0.31
199 2 0.01
200 3 0.01
201 16 0.05
ACGTcount: A:0.17, C:0.20, G:0.40, T:0.23
Consensus pattern (193 bp):
GGTGCCCAAGGTTCAGTTGTCGTTGCTGGGACTGAAGGTGTAGCTGGTGCCCAAGGAGCAGGAGC
TGGTGCCCAAGGTTCAGTTGGTGTTGCGGCACGAAGGTGTAGCTGGTGCCCAAGGTTCAGGAGCT
GGTGCGCACGGTGAAGGAGCTGGTGCCCAAGGTGCAGGAGCCGGTGCCCACGGTGCAGGAGTT
Found at i:26532 original size:108 final size:108
Alignment explanation
Indices: 26420--26651 Score: 299
Period size: 108 Copynumber: 2.1 Consensus size: 108
26410 CTGAAGGTGT
* *
26420 AGCTGGTGCCCAAGGTGCAGGAGCTGGTGCCCACGGTGCAG-GAGTTGGTGCCCAAGGTTCAGTT
1 AGCTGGTGCCCAAGGTGCAGGAGCTGGTGCCCAAGGTGCAGAG-GCTGGTGCCCAAGGTTCAGTT
* * *
26484 -GTCGTTGCTGGGC-CTGAAGGTGTAGCTGGTGGCCAAGGAGCAGG
65 GGT-GTCGC-AGGCACTGAAGGTGTAGCTGGTGCCCAAGGAGCAGG
* ** * * *
26528 AGCTGGTGCCCAAGGTTCAGTTGGTGTTGCCCAAGGTGTAGAGGCTGGTGCCCAAGGTTCAGTTG
1 AGCTGGTGCCCAAGGTGCAGGAGCTGGTGCCCAAGGTGCAGAGGCTGGTGCCCAAGGTTCAGTTG
*
26593 GTGTCGCAGGCACTGAAGGTGTAGCTGGTGCCCAAGGTGCAGG
66 GTGTCGCAGGCACTGAAGGTGTAGCTGGTGCCCAAGGAGCAGG
*
26636 AGCCGGTGCCCAAGGT
1 AGCTGGTGCCCAAGGT
26652 TCAGTTGGTG
Statistics
Matches: 108, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
107 3 0.03
108 102 0.94
109 3 0.03
ACGTcount: A:0.17, C:0.22, G:0.40, T:0.21
Consensus pattern (108 bp):
AGCTGGTGCCCAAGGTGCAGGAGCTGGTGCCCAAGGTGCAGAGGCTGGTGCCCAAGGTTCAGTTG
GTGTCGCAGGCACTGAAGGTGTAGCTGGTGCCCAAGGAGCAGG
Found at i:26555 original size:153 final size:153
Alignment explanation
Indices: 26223--26557 Score: 625
Period size: 153 Copynumber: 2.2 Consensus size: 153
26213 AGGTGTAGAG
* *
26223 GCTGGTGCCCAAGGTTCAGTTGGTGTCGCAGGCACTGAAGTTGTAGCTGGTGCCCAAGGTGCAGG
1 GCTGGTGCCCAAGGTTCAGTTGGTGTTGCAGGCACTGAAGGTGTAGCTGGTGCCCAAGGTGCAGG
26288 AGCCGGTGCCCACGGTGCAGGAGTTGGTGCCCAAGGTTCAGTTGTCGTTGCTGGGACTGAAGGTG
66 AGCCGGTGCCCACGGTGCAGGAGTTGGTGCCCAAGGTTCAGTTGTCGTTGCTGGGACTGAAGGTG
26353 TAGCTGGTGGCCAAGGAGCAGGA
131 TAGCTGGTGGCCAAGGAGCAGGA
*
26376 GCTGGTGCCCAAGGTTCAGTTGGTGTTGCGGGCACTGAAGGTGTAGCTGGTGCCCAAGGTGCAGG
1 GCTGGTGCCCAAGGTTCAGTTGGTGTTGCAGGCACTGAAGGTGTAGCTGGTGCCCAAGGTGCAGG
* *
26441 AGCTGGTGCCCACGGTGCAGGAGTTGGTGCCCAAGGTTCAGTTGTCGTTGCTGGGCCTGAAGGTG
66 AGCCGGTGCCCACGGTGCAGGAGTTGGTGCCCAAGGTTCAGTTGTCGTTGCTGGGACTGAAGGTG
26506 TAGCTGGTGGCCAAGGAGCAGGA
131 TAGCTGGTGGCCAAGGAGCAGGA
26529 GCTGGTGCCCAAGGTTCAGTTGGTGTTGC
1 GCTGGTGCCCAAGGTTCAGTTGGTGTTGC
26558 CCAAGGTGTA
Statistics
Matches: 177, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
153 177 1.00
ACGTcount: A:0.16, C:0.21, G:0.40, T:0.23
Consensus pattern (153 bp):
GCTGGTGCCCAAGGTTCAGTTGGTGTTGCAGGCACTGAAGGTGTAGCTGGTGCCCAAGGTGCAGG
AGCCGGTGCCCACGGTGCAGGAGTTGGTGCCCAAGGTTCAGTTGTCGTTGCTGGGACTGAAGGTG
TAGCTGGTGGCCAAGGAGCAGGA
Found at i:26652 original size:108 final size:108
Alignment explanation
Indices: 26465--26665 Score: 325
Period size: 108 Copynumber: 1.9 Consensus size: 108
26455 GTGCAGGAGT
* * *
26465 TGGTGCCCAAGGTTCAGTTGTCGTTGCTGGGCCTGAAGGTGTAGCTGGTGGCCAAGGAGCAGGAG
1 TGGTGCCCAAGGTTCAGTTGTCGTCGCTAGGCCTGAAGGTGTAGCTGGTGCCCAAGGAGCAGGAG
*
26530 CTGGTGCCCAAGGTTCAGTTGGTGTTGCCCAAGGTGTAGAGGC
66 CCGGTGCCCAAGGTTCAGTTGGTGTTGCCCAAGGTGTAGAGGC
*
26573 TGGTGCCCAAGGTTCAGTTGGT-GTCGC-AGGCACTGAAGGTGTAGCTGGTGCCCAAGGTGCAGG
1 TGGTGCCCAAGGTTCAGTT-GTCGTCGCTAGGC-CTGAAGGTGTAGCTGGTGCCCAAGGAGCAGG
26636 AGCCGGTGCCCAAGGTTCAGTTGGTGTTGC
64 AGCCGGTGCCCAAGGTTCAGTTGGTGTTGC
26666 AGGCACTGAA
Statistics
Matches: 86, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
107 3 0.03
108 81 0.94
109 2 0.02
ACGTcount: A:0.16, C:0.20, G:0.39, T:0.24
Consensus pattern (108 bp):
TGGTGCCCAAGGTTCAGTTGTCGTCGCTAGGCCTGAAGGTGTAGCTGGTGCCCAAGGAGCAGGAG
CCGGTGCCCAAGGTTCAGTTGGTGTTGCCCAAGGTGTAGAGGC
Found at i:26703 original size:21 final size:21
Alignment explanation
Indices: 26679--26722 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
26669 CACTGAAGGT
*
26679 GTAGCTGGTGCCCATGGTGCA
1 GTAGCTGGTGCCCAAGGTGCA
* *
26700 GTAGTTGGTGCCCAAGGTTCA
1 GTAGCTGGTGCCCAAGGTGCA
26721 GT
1 GT
26723 CGGTGTTGCA
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:0.16, C:0.20, G:0.36, T:0.27
Consensus pattern (21 bp):
GTAGCTGGTGCCCAAGGTGCA
Found at i:32556 original size:2 final size:2
Alignment explanation
Indices: 32551--32575 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
32541 AATAAGTGTG
32551 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 T
32576 GATAAATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:32692 original size:39 final size:37
Alignment explanation
Indices: 32577--32685 Score: 118
Period size: 37 Copynumber: 3.0 Consensus size: 37
32567 TATATATATG
*
32577 ATAAATAATAAAAAATTATTAAAAATATATTTATATTAA
1 ATAAA-AATAAAAAATTATT-AAATTATATTTATATTAA
* * * * *
32616 AT---AATAAAACA-TAATAAATTATACTTATGTTGA
1 ATAAAAATAAAAAATTATTAAATTATATTTATATTAA
32649 ATAAAAATAAAAAATTATTAAATTATATTTATATTAA
1 ATAAAAATAAAAAATTATTAAATTATATTTATATTAA
32686 TTATAAATTA
Statistics
Matches: 55, Mismatches: 11, Indels: 10
0.72 0.14 0.13
Matches are distributed among these distances:
33 16 0.29
34 3 0.05
35 8 0.15
36 8 0.15
37 18 0.33
39 2 0.04
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (37 bp):
ATAAAAATAAAAAATTATTAAATTATATTTATATTAA
Found at i:32755 original size:32 final size:32
Alignment explanation
Indices: 32653--32756 Score: 131
Period size: 32 Copynumber: 3.3 Consensus size: 32
32643 TGTTGAATAA
*
32653 AAATAAAAAATTATTAAA-TTATATTTATATT
1 AAATAATAAATTATTAAAGTTATATTTATATT
* * **
32684 -AATTATAAATTATTAAAGTTATATTTACAAG
1 AAATAATAAATTATTAAAGTTATATTTATATT
* *
32715 AAAAAATAAGTTATTAAAGTTATATTTATATT
1 AAATAATAAATTATTAAAGTTATATTTATATT
32747 AAATAATAAA
1 AAATAATAAA
32757 ATATATATTC
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
30 15 0.26
31 10 0.17
32 33 0.57
ACGTcount: A:0.54, C:0.01, G:0.04, T:0.41
Consensus pattern (32 bp):
AAATAATAAATTATTAAAGTTATATTTATATT
Found at i:32760 original size:21 final size:20
Alignment explanation
Indices: 32736--32795 Score: 52
Period size: 21 Copynumber: 2.8 Consensus size: 20
32726 TATTAAAGTT
32736 ATATTTATATTAAATAATAAA
1 ATATTTATATTAAATAA-AAA
32757 ATA--TATATTCAAAATTAAAAA
1 ATATTTATATT--AAA-TAAAAA
32778 ATATTTTTATATTAAATA
1 ATA--TTTATATTAAATA
32796 TTATAAATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 13
0.71 0.00 0.29
Matches are distributed among these distances:
19 6 0.19
21 12 0.38
22 5 0.16
23 3 0.09
25 6 0.19
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (20 bp):
ATATTTATATTAAATAAAAA
Found at i:33011 original size:5 final size:5
Alignment explanation
Indices: 33001--33027 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
32991 TTCCACAAGT
33001 TTTTA TTTTA TTTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TT
33028 AATATTTAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:33035 original size:15 final size:15
Alignment explanation
Indices: 33001--33034 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
32991 TTCCACAAGT
*
33001 TTTTATTTTATTTTA
1 TTTTATTTTATTATA
33016 TTTTATTTTATTAATA
1 TTTTATTTTATT-ATA
33032 TTT
1 TTT
33035 AGAAACTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTATTTTATTATA
Found at i:35477 original size:2 final size:2
Alignment explanation
Indices: 35472--35502 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
35462 TGTGTGTGTG
35472 TA TA TA TA T- TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
35503 GAATATAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:35855 original size:20 final size:20
Alignment explanation
Indices: 35830--35891 Score: 67
Period size: 20 Copynumber: 3.1 Consensus size: 20
35820 TTATATAAAT
35830 ATAAATATAATAAATATTTA
1 ATAAATATAATAAATATTTA
*
35850 ATAAATAT-ATATATATTTCA
1 ATAAATATAATAAATATTT-A
*
35870 TTAAATA-ATATAAAT-TTTA
1 ATAAATATA-ATAAATATTTA
35889 ATA
1 ATA
35892 TAAGACTACA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
19 12 0.34
20 18 0.51
21 5 0.14
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (20 bp):
ATAAATATAATAAATATTTA
Found at i:35867 original size:19 final size:19
Alignment explanation
Indices: 35830--35891 Score: 63
Period size: 19 Copynumber: 3.2 Consensus size: 19
35820 TTATATAAAT
*
35830 ATAAATATAATAAATATTTA
1 ATAAATAT-ATATATATTTA
35850 ATAAATATATATATATTTCA
1 ATAAATATATATATATTT-A
* *
35870 TTAAATA-ATATAAATTTTA
1 ATAAATATATATATA-TTTA
35889 ATA
1 ATA
35892 TAAGACTACA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
19 18 0.50
20 18 0.50
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (19 bp):
ATAAATATATATATATTTA
Found at i:36091 original size:13 final size:13
Alignment explanation
Indices: 36066--36102 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
36056 TTTCATATCT
36066 AAATATATAAATAC
1 AAATAT-TAAATAC
36080 AAATATTAAATAC
1 AAATATTAAATAC
*
36093 AAATACTAAA
1 AAATATTAAA
36103 AAATTGGGAC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 16 0.73
14 6 0.27
ACGTcount: A:0.65, C:0.08, G:0.00, T:0.27
Consensus pattern (13 bp):
AAATATTAAATAC
Found at i:41209 original size:27 final size:27
Alignment explanation
Indices: 41162--41215 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
41152 ACCAGTCACA
41162 ACACAGCGCTACGACCATTATTTTGCG
1 ACACAGCGCTACGACCATTATTTTGCG
*
41189 ACACAGCGCTATGA-CAGTTATTTTGCG
1 ACACAGCGCTACGACCA-TTATTTTGCG
41216 GCCGCAACTC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 2 0.08
27 23 0.92
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (27 bp):
ACACAGCGCTACGACCATTATTTTGCG
Found at i:42130 original size:24 final size:24
Alignment explanation
Indices: 42103--42160 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
42093 AGGTTTATAT
42103 TTATAATTTTT-TATATTTAAAATA
1 TTAT-ATTTTTATATATTTAAAATA
* *
42127 TTATATTTTTATATATTTTATATA
1 TTATATTTTTATATATTTAAAATA
42151 TTAATATTTT
1 TT-ATATTTT
42161 ATTTTATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
23 6 0.20
24 17 0.57
25 7 0.23
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (24 bp):
TTATATTTTTATATATTTAAAATA
Found at i:42165 original size:20 final size:19
Alignment explanation
Indices: 42133--42179 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 19
42123 AATATTATAT
42133 TTTTATATATTTTA---TA
1 TTTTATATATTTTATTTTA
*
42149 TATTA-ATATTTTATTTTA
1 TTTTATATATTTTATTTTA
42167 TTTTATATATTTT
1 TTTTATATATTTT
42180 TATGTATAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
15 8 0.32
16 4 0.16
18 6 0.24
19 7 0.28
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (19 bp):
TTTTATATATTTTATTTTA
Found at i:42168 original size:25 final size:24
Alignment explanation
Indices: 42098--42178 Score: 92
Period size: 25 Copynumber: 3.3 Consensus size: 24
42088 TTTATAGGTT
*
42098 TATATTTATAATTTTTTATATTTAA
1 TATATTTAT-ATTTTTTATATTTTA
*
42123 AATA-TTATATTTTTATATATTTTA
1 TATATTTATATTTTT-TATATTTTA
* *
42147 TATATTAATATTTTATTTTATTTTA
1 TATATTTATATTTT-TTATATTTTA
42172 TATATTT
1 TATATTT
42179 TTATGTATAA
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
23 6 0.13
24 15 0.32
25 25 0.53
26 1 0.02
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (24 bp):
TATATTTATATTTTTTATATTTTA
Found at i:42182 original size:20 final size:20
Alignment explanation
Indices: 42140--42179 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
42130 TATTTTTATA
42140 TATTTTATATATTAATATTT
1 TATTTTATATATTAATATTT
42160 TATTTTAT-T-TTATATATTT
1 TATTTTATATATTA-ATATTT
42179 T
1 T
42180 TATGTATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 3 0.16
19 8 0.42
20 8 0.42
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (20 bp):
TATTTTATATATTAATATTT
Found at i:42199 original size:26 final size:25
Alignment explanation
Indices: 42140--42202 Score: 81
Period size: 26 Copynumber: 2.5 Consensus size: 25
42130 TATTTTTATA
* *
42140 TATTTTATATATTAATATTTTATTT
1 TATTTTATATATTAATATTATAATT
**
42165 TATTTTATATATTTTTATGTATAATT
1 TATTTTATATATTAATAT-TATAATT
42191 TATTTTATATAT
1 TATTTTATATAT
42203 AGGAAAAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
25 16 0.48
26 17 0.52
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.67
Consensus pattern (25 bp):
TATTTTATATATTAATATTATAATT
Found at i:42743 original size:27 final size:25
Alignment explanation
Indices: 42689--42764 Score: 66
Period size: 26 Copynumber: 3.0 Consensus size: 25
42679 TTATTTTTTG
*
42689 TATTTAA-A-ATATTATATTTTATA
1 TATTTAATATATATTATAATTTATA
** *
42712 TATTTTTTATATATTAATAATTTATT
1 TATTTAATATATATT-ATAATTTATA
* *
42738 TCATTTAATATATATTTTTATTTATA
1 T-ATTTAATATATATTATAATTTATA
42764 T
1 T
42765 GTGTATTCGT
Statistics
Matches: 40, Mismatches: 9, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
23 5 0.12
24 1 0.03
25 5 0.12
26 17 0.43
27 12 0.30
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (25 bp):
TATTTAATATATATTATAATTTATA
Found at i:43448 original size:24 final size:26
Alignment explanation
Indices: 43407--43456 Score: 77
Period size: 24 Copynumber: 2.0 Consensus size: 26
43397 AAAAAGGAAA
*
43407 AAAATTATATATATTTTTTTATATTT
1 AAAATTATATATATTTTTATATATTT
43433 AAAA-TAT-TATATTTTTATATATTT
1 AAAATTATATATATTTTTATATATTT
43457 TTTACATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 16 0.70
25 3 0.13
26 4 0.17
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (26 bp):
AAAATTATATATATTTTTATATATTT
Found at i:43487 original size:33 final size:34
Alignment explanation
Indices: 43411--43491 Score: 96
Period size: 34 Copynumber: 2.4 Consensus size: 34
43401 AGGAAAAAAA
*
43411 TTATATATATTTTTTTATATTTAAAATATTATAT
1 TTATATATATTTTTTCATATTTAAAATATTATAT
*
43445 TTTTATATATTTTTTACATA-TTAATAAT-TTAT-T
1 TTATATATATTTTTT-CATATTTAA-AATATTATAT
*
43478 TTATGTATATTTTT
1 TTATATATATTTTT
43492 ATGTATTTGT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
33 13 0.32
34 22 0.54
35 6 0.15
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (34 bp):
TTATATATATTTTTTCATATTTAAAATATTATAT
Found at i:43582 original size:19 final size:19
Alignment explanation
Indices: 43554--43618 Score: 62
Period size: 19 Copynumber: 3.5 Consensus size: 19
43544 TATTATTTAA
43554 AATA-TTATAAATTTATGT
1 AATATTTATAAATTTATGT
*
43572 AATATTTATAAATATT-TTT
1 AATATTTATAAAT-TTATGT
* * *
43591 TATATTTATATATTCATGT
1 AATATTTATAAATTTATGT
*
43610 CATATTTAT
1 AATATTTAT
43619 TTTTTTGTAT
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
18 5 0.13
19 31 0.82
20 2 0.05
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.55
Consensus pattern (19 bp):
AATATTTATAAATTTATGT
Found at i:45186 original size:33 final size:33
Alignment explanation
Indices: 45143--45209 Score: 93
Period size: 33 Copynumber: 2.0 Consensus size: 33
45133 AGGAGAAAAA
*
45143 ATTTATATATT-TATCTTTTTAT-AATTTATTTAT
1 ATTTAAATATTATAT-TTTTTATAAATTT-TTTAT
45176 ATTTAAATATTATATTTTTTATAAATTTTTTAT
1 ATTTAAATATTATATTTTTTATAAATTTTTTAT
45209 A
1 A
45210 CATTAATAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
33 23 0.74
34 8 0.26
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.64
Consensus pattern (33 bp):
ATTTAAATATTATATTTTTTATAAATTTTTTAT
Found at i:45225 original size:33 final size:32
Alignment explanation
Indices: 45149--45246 Score: 92
Period size: 33 Copynumber: 2.8 Consensus size: 32
45139 AAAAATTTAT
*
45149 ATATTTATCTTTTTAT-AATTTATTTATATTTAA
1 ATATTTAT-TTTTTATAAATTT-TTTATAATTAA
45182 ATATTATATTTTTTATAAATTTTTTATACATT-A
1 ATATT-TATTTTTTATAAATTTTTTATA-ATTAA
45215 ATAATTTATTTTATTATATATATATTTTTATA
1 AT-ATTTATTTT-TTATA-A-AT-TTTTTATA
45247 TGTATGTTTA
Statistics
Matches: 56, Mismatches: 1, Indels: 12
0.81 0.01 0.17
Matches are distributed among these distances:
33 27 0.48
34 18 0.32
35 1 0.02
36 2 0.04
37 8 0.14
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (32 bp):
ATATTTATTTTTTATAAATTTTTTATAATTAA
Found at i:46671 original size:59 final size:58
Alignment explanation
Indices: 46557--46669 Score: 147
Period size: 58 Copynumber: 1.9 Consensus size: 58
46547 TGTTCATGTC
* *
46557 ATATCTCCATTCATGAAATATTTTATATAATTTGTCATAATAATTTAATTTAAAATATT
1 ATATCTCAATTCATG-AATATTTTATATAATTTGTCATAATAATTTAATTAAAAATATT
* * * *
46616 ATATCTCAATTCATG-ATATTTTTTCATAATTTGTTATAGTGATTTAATTAAAAA
1 ATATCTCAATTCATGAATATTTTAT-ATAATTTGTCATAATAATTTAATTAAAAA
46670 ATTTTATGTC
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
57 8 0.17
58 25 0.53
59 14 0.30
ACGTcount: A:0.39, C:0.08, G:0.05, T:0.48
Consensus pattern (58 bp):
ATATCTCAATTCATGAATATTTTATATAATTTGTCATAATAATTTAATTAAAAATATT
Found at i:46995 original size:31 final size:30
Alignment explanation
Indices: 46922--46995 Score: 78
Period size: 31 Copynumber: 2.4 Consensus size: 30
46912 ATTTATTTAC
* *
46922 AAAATATTTTTAAATAAATTTTATTAATTAT
1 AAAAT-TTTTTAAAAAAATTTTATAAATTAT
* *
46953 AATATTATTTAATAAAAATTTTATAAA-TATT
1 AAAATTTTTTAA-AAAAATTTTATAAATTA-T
46984 AAAATTTTTTAA
1 AAAATTTTTTAA
46996 GGAAGCGGAA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
30 8 0.23
31 27 0.77
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (30 bp):
AAAATTTTTTAAAAAAATTTTATAAATTAT
Found at i:47222 original size:2 final size:2
Alignment explanation
Indices: 47215--47247 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
47205 GTGAATGCTT
47215 TA 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 TA T
47248 TAATAATTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:47439 original size:22 final size:22
Alignment explanation
Indices: 47414--47457 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
47404 AAAAATATTT
*
47414 TTATTTAAAT-TTAATTATAAAA
1 TTATATAAATATTAA-TATAAAA
47436 TTATATAAATATTAATATAAAA
1 TTATATAAATATTAATATAAAA
47458 ATAATATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
TTATATAAATATTAATATAAAA
Found at i:47627 original size:16 final size:16
Alignment explanation
Indices: 47606--47641 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
47596 GGCCAAGTGA
47606 ATATTTTA-TATATTTT
1 ATATTTTACTATA-TTT
47622 ATATTTTACTATATTT
1 ATATTTTACTATATTT
47638 ATAT
1 ATAT
47642 AAATATTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (16 bp):
ATATTTTACTATATTT
Found at i:53832 original size:3 final size:3
Alignment explanation
Indices: 53826--53865 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
53816 ATTATACAAC
53826 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
53866 ATAGGCTATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:54132 original size:20 final size:21
Alignment explanation
Indices: 54107--54164 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
54097 ATAACATGGT
54107 ATATTATATTAAAATATA-TA
1 ATATTATATTAAAATATATTA
*
54127 ATATTA-ATTATTAATATATTA
1 ATATTATATTA-AAATATATTA
*
54148 AAATT-TATATAAAATAT
1 ATATTATAT-TAAAATAT
54165 GTAAAATCTT
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
19 4 0.13
20 12 0.39
21 13 0.42
22 2 0.06
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
ATATTATATTAAAATATATTA
Found at i:54171 original size:20 final size:20
Alignment explanation
Indices: 54110--54171 Score: 63
Period size: 22 Copynumber: 3.0 Consensus size: 20
54100 ACATGGTATA
*
54110 TTATATTAAAATATATAATAT
1 TTATATTAAAATAT-TAAAAT
* *
54131 TAATTATTAATATATTAAAAT
1 TTA-TATTAAAATATTAAAAT
54152 TTATA-TAAAATATGTAAAAT
1 TTATATTAAAATAT-TAAAAT
54172 CTTAAATATT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
19 7 0.21
20 8 0.24
21 9 0.26
22 10 0.29
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (20 bp):
TTATATTAAAATATTAAAAT
Found at i:54911 original size:11 final size:11
Alignment explanation
Indices: 54887--54918 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
54877 GCAAAGATTT
54887 CATTTTTTAT-
1 CATTTTTTATA
54897 -ATTTTTTATA
1 CATTTTTTATA
54907 CATTTTTTATA
1 CATTTTTTATA
54918 C
1 C
54919 CTCAATTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
9 9 0.45
11 11 0.55
ACGTcount: A:0.25, C:0.09, G:0.00, T:0.66
Consensus pattern (11 bp):
CATTTTTTATA
Found at i:55668 original size:38 final size:38
Alignment explanation
Indices: 55597--55670 Score: 121
Period size: 38 Copynumber: 1.9 Consensus size: 38
55587 TTGAGAAACC
* * *
55597 AATAATTTTTTACGAAGTGAAATTAAGATCAAATAACT
1 AATAATTTTTTACGAAGTGAAATCAACAACAAATAACT
55635 AATAATTTTTTACGAAGTGAAATCAACAACAAATAA
1 AATAATTTTTTACGAAGTGAAATCAACAACAAATAA
55671 TGAAAACAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.50, C:0.09, G:0.09, T:0.31
Consensus pattern (38 bp):
AATAATTTTTTACGAAGTGAAATCAACAACAAATAACT
Found at i:57038 original size:77 final size:77
Alignment explanation
Indices: 56794--57084 Score: 216
Period size: 77 Copynumber: 3.8 Consensus size: 77
56784 CTTACTGATC
* * * * * * *
56794 CTTAATGGACATATATGGACATAAAAGTATTCATATGA-CCTTAAAAACTTGGTTTTCATGTACT
1 CTTAATAGACATGTATAGACATAAAAGTATTCACATGATTC-TAAAGACTTGGTTTTAATGTACT
*
56858 ATTACTTAAATGA
65 ATTACCTAAATGA
* * * * * * *
56871 CCTTAATAGACATGTATCGACATGAAAGTA-ACTACATAACTT-T-AGGAATTTGGTTTTACTGT
1 -CTTAATAGACATGTATAGACATAAAAGTATTC-ACATGA-TTCTAAAG-ACTTGGTTTTAATGT
* *
56933 ACCA-TACCTTAATGA
62 ACTATTACCTAAATGA
* * * * * *
56948 ATCTAACAAACATGTATAGACATGAAAGTATTTACATGATTCTAGAGACTTGGTTTTAATGTACT
1 CT-TAATAGACATGTATAGACATAAAAGTATTCACATGATTCTAAAGACTTGGTTTTAATGTACT
**
57013 ATTACCTGGATGA
65 ATTACCTAAATGA
* * * *
57026 CTTAATGGACATGTATTA-AAATAAAAGTATTCACGTGATTCTAAAGACTTGATTTTAAT
1 CTTAATAGACATGTA-TAGACATAAAAGTATTCACATGATTCTAAAGACTTGGTTTTAAT
57085 TTGAAACTTT
Statistics
Matches: 163, Mismatches: 40, Indels: 21
0.73 0.18 0.09
Matches are distributed among these distances:
76 3 0.02
77 102 0.63
78 58 0.36
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.35
Consensus pattern (77 bp):
CTTAATAGACATGTATAGACATAAAAGTATTCACATGATTCTAAAGACTTGGTTTTAATGTACTA
TTACCTAAATGA
Found at i:57992 original size:23 final size:23
Alignment explanation
Indices: 57966--58009 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
57956 CTAATAATAA
* *
57966 TAAAACTTTTAAAAAATTTAATG
1 TAAAAATTTCAAAAAATTTAATG
*
57989 TAAAAATTTCAAATAATTTAA
1 TAAAAATTTCAAAAAATTTAA
58010 ACTTTGGGGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.39
Consensus pattern (23 bp):
TAAAAATTTCAAAAAATTTAATG
Found at i:59354 original size:12 final size:12
Alignment explanation
Indices: 59321--59355 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
59311 CGTGTATGTG
*
59321 TATATATATATA
1 TATATATATTTA
59333 TATATATATTTA
1 TATATATATTTA
*
59345 TATTTATATTT
1 TATATATATTT
59356 CTTCATTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TATATATATTTA
Found at i:60028 original size:16 final size:16
Alignment explanation
Indices: 60009--60087 Score: 88
Period size: 16 Copynumber: 4.9 Consensus size: 16
59999 TCTCTCGAAA
60009 TCAAAATAATTTAAAT
1 TCAAAATAATTTAAAT
*
60025 TCAAAATAATTCAAA-
1 TCAAAATAATTTAAAT
* *
60040 TCTAAAATATTTTAAAA
1 TC-AAAATAATTTAAAT
*
60057 TCAAAATAATTTTAAT
1 TCAAAATAATTTAAAT
* *
60073 TTAAAATAATCTAAA
1 TCAAAATAATTTAAA
60088 ACTAAAATTA
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
15 2 0.04
16 48 0.92
17 2 0.04
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.37
Consensus pattern (16 bp):
TCAAAATAATTTAAAT
Found at i:60078 original size:32 final size:32
Alignment explanation
Indices: 60006--60088 Score: 105
Period size: 32 Copynumber: 2.6 Consensus size: 32
59996 AAATCTCTCG
*
60006 AAATC-AAAATAATTTAAATTCAAAATAATTC
1 AAATCTAAAATAATTTAAAATCAAAATAATTC
* *
60037 AAATCTAAAATATTTTAAAATCAAAATAATTT
1 AAATCTAAAATAATTTAAAATCAAAATAATTC
* * *
60069 TAATTTAAAATAATCTAAAA
1 AAATCTAAAATAATTTAAAA
60089 CTAAAATTAC
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
31 5 0.11
32 39 0.89
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.35
Consensus pattern (32 bp):
AAATCTAAAATAATTTAAAATCAAAATAATTC
Found at i:63056 original size:18 final size:18
Alignment explanation
Indices: 63017--63059 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
63007 CTTATTTAAA
63017 TTCTT-TTGTTCTTCTTC
1 TTCTTCTTGTTCTTCTTC
* * *
63034 CTCTTCTTGTTGTTGTTC
1 TTCTTCTTGTTCTTCTTC
63052 TTCTTCTT
1 TTCTTCTT
63060 TGTACCTTCT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 4 0.19
18 17 0.81
ACGTcount: A:0.00, C:0.23, G:0.09, T:0.67
Consensus pattern (18 bp):
TTCTTCTTGTTCTTCTTC
Found at i:66067 original size:2 final size:2
Alignment explanation
Indices: 66060--66103 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
66050 TCTCATTCGT
66060 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
66102 TC
1 TC
66104 GCTTGCTACT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:68319 original size:19 final size:19
Alignment explanation
Indices: 68276--68323 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
68266 ATTTATATGA
* *
68276 AATAAATTATTAATTTATT
1 AATAATTTATTAATATATT
68295 AA-AATTTATATAATATA-T
1 AATAATTTAT-TAATATATT
68313 AATAATTTATT
1 AATAATTTATT
68324 TTAAAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
18 10 0.40
19 15 0.60
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
AATAATTTATTAATATATT
Found at i:68921 original size:16 final size:16
Alignment explanation
Indices: 68896--68926 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
68886 AATTTTCTTC
*
68896 AAATACAATGTTTTTT
1 AAATAAAATGTTTTTT
68912 AAATAAAATGTTTTT
1 AAATAAAATGTTTTT
68927 CACAAGGTGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.48
Consensus pattern (16 bp):
AAATAAAATGTTTTTT
Found at i:72104 original size:15 final size:13
Alignment explanation
Indices: 72074--72098 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
72064 ACTTGTCATA
72074 TTATATTTTTAAT
1 TTATATTTTTAAT
72087 TTATATTTTTAA
1 TTATATTTTTAA
72099 AATTTAATCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TTATATTTTTAAT
Found at i:72218 original size:21 final size:22
Alignment explanation
Indices: 72194--72236 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
72184 CAATATTATG
72194 TATACTTA-TTTTTATATAATA
1 TATACTTATTTTTTATATAATA
*
72215 TATATTTATTTTTTATATAATA
1 TATACTTATTTTTTATATAATA
72237 AACATTTCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (22 bp):
TATACTTATTTTTTATATAATA
Found at i:72243 original size:22 final size:22
Alignment explanation
Indices: 72202--72243 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
72192 TGTATACTTA
* *
72202 TTTTTATATAATATATATTTAT
1 TTTTTATATAATAAACATTTAT
72224 TTTTTATATAATAAACATTT
1 TTTTTATATAATAAACATTT
72244 CATAATCTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (22 bp):
TTTTTATATAATAAACATTTAT
Found at i:73592 original size:24 final size:25
Alignment explanation
Indices: 73533--73595 Score: 65
Period size: 29 Copynumber: 2.4 Consensus size: 25
73523 ATATAATTAG
73533 ATAATATGAATATAATATAAAAAATTA
1 ATAATAT-AATATAATATAAAAAA-TA
*
73560 ATTAAAATATAATATAATATGAAAAA-A
1 A-T--AATATAATATAATATAAAAAATA
73587 ATAATATAA
1 ATAATATAA
73596 ACATGATACA
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
24 7 0.22
26 1 0.03
27 3 0.09
28 1 0.03
29 15 0.47
30 5 0.16
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (25 bp):
ATAATATAATATAATATAAAAAATA
Found at i:75360 original size:2 final size:2
Alignment explanation
Indices: 75353--75398 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
75343 AAGTAAGGCT
75353 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
75395 TA TA
1 TA TA
75399 ATAGTTTTTA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:75673 original size:12 final size:12
Alignment explanation
Indices: 75597--75665 Score: 65
Period size: 12 Copynumber: 6.1 Consensus size: 12
75587 CGTCTAATAA
*
75597 TATACATATATG
1 TATATATATATG
* *
75609 TATATATGTGTG
1 TATATATATATG
*
75621 TATATATATACG
1 TATATATATATG
75633 TATA-ATA-A--
1 TATATATATATG
*
75641 TATACATATATG
1 TATATATATATG
75653 TATATATATATG
1 TATATATATATG
75665 T
1 T
75666 GTGTATATTT
Statistics
Matches: 46, Mismatches: 7, Indels: 8
0.75 0.11 0.13
Matches are distributed among these distances:
8 4 0.09
9 3 0.07
10 2 0.04
11 3 0.07
12 34 0.74
ACGTcount: A:0.41, C:0.04, G:0.10, T:0.45
Consensus pattern (12 bp):
TATATATATATG
Found at i:76404 original size:20 final size:21
Alignment explanation
Indices: 76379--76419 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
76369 AAAGCAGATG
*
76379 TTTAAATGAAAT-AATATTTA
1 TTTAAATAAAATAAATATTTA
76399 TTTAAATAAAATAAATATTTA
1 TTTAAATAAAATAAATATTTA
76420 CCAACTACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (21 bp):
TTTAAATAAAATAAATATTTA
Found at i:77995 original size:20 final size:18
Alignment explanation
Indices: 77970--78010 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
77960 AAATTAATAT
77970 AATATAATAATAAATATAAA
1 AATATAAT-AT-AATATAAA
*
77990 AATATAATGTAATATAAA
1 AATATAATATAATATAAA
78008 AAT
1 AAT
78011 TGTAGTATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 11 0.55
19 1 0.05
20 8 0.40
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (18 bp):
AATATAATATAATATAAA
Found at i:78023 original size:2 final size:2
Alignment explanation
Indices: 78016--78055 Score: 57
Period size: 2 Copynumber: 21.0 Consensus size: 2
78006 AAAATTGTAG
*
78016 TA TA TA TA -A TC T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
78056 AGTGAATTGC
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
1 2 0.06
2 33 0.94
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:78620 original size:18 final size:19
Alignment explanation
Indices: 78580--78618 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
78570 AGAATCCAGA
78580 TTAATTAGACTTATTTTTT
1 TTAATTAGACTTATTTTTT
78599 TTAATTTAGACTT-TTTTTT
1 TTAA-TTAGACTTATTTTTT
78618 T
1 T
78619 AAAAAAAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.23, C:0.05, G:0.05, T:0.67
Consensus pattern (19 bp):
TTAATTAGACTTATTTTTT
Found at i:82972 original size:8 final size:9
Alignment explanation
Indices: 82955--82991 Score: 51
Period size: 8 Copynumber: 4.3 Consensus size: 9
82945 AATAAAATAA
82955 TTTTATTAT
1 TTTTATTAT
82964 TTTTA-TAT
1 TTTTATTAT
*
82972 TTTTA-AAT
1 TTTTATTAT
82980 TTTTATTAT
1 TTTTATTAT
82989 TTT
1 TTT
82992 AAGTATATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
8 15 0.60
9 10 0.40
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (9 bp):
TTTTATTAT
Found at i:83358 original size:4 final size:4
Alignment explanation
Indices: 83351--83385 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
83341 TTTTTTTCTC
83351 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
83386 TGCCTTTTCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:84237 original size:30 final size:30
Alignment explanation
Indices: 84196--84256 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
84186 GTAATGGAAG
*
84196 ATCAAGGTCCGAACCCTAATATTGCGAGCC
1 ATCAAGATCCGAACCCTAATATTGCGAGCC
84226 ATCAAGATCCGAACCCTAATATTGCGAGCC
1 ATCAAGATCCGAACCCTAATATTGCGAGCC
84256 A
1 A
84257 GGGTTCAGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.33, C:0.30, G:0.18, T:0.20
Consensus pattern (30 bp):
ATCAAGATCCGAACCCTAATATTGCGAGCC
Found at i:85201 original size:2 final size:2
Alignment explanation
Indices: 85194--85242 Score: 71
Period size: 2 Copynumber: 24.5 Consensus size: 2
85184 AATTTGGAAG
* *
85194 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT GT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
85236 GT AT AT A
1 AT AT AT A
85243 ACTATTTGCA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.49
Consensus pattern (2 bp):
AT
Found at i:90403 original size:2 final size:2
Alignment explanation
Indices: 90351--90385 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
90341 CATTTTGGTT
90351 TA TA 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 TA TA T
90386 TAATTTTTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:91602 original size:2 final size:2
Alignment explanation
Indices: 91595--91635 Score: 59
Period size: 2 Copynumber: 21.0 Consensus size: 2
91585 CTAATAAGAA
91595 AT AT AT AT AT AT AT AT AT AT AT AT AT GAT AT -T A- AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT
91636 TATTTGAGTT
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
1 2 0.06
2 32 0.89
3 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:91996 original size:12 final size:12
Alignment explanation
Indices: 91981--92005 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
91971 CTTAGAAAAC
91981 TCTCTCTTTTTT
1 TCTCTCTTTTTT
91993 TCTCTCTTTTTT
1 TCTCTCTTTTTT
92005 T
1 T
92006 GACTTAACTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (12 bp):
TCTCTCTTTTTT
Found at i:94051 original size:16 final size:18
Alignment explanation
Indices: 94016--94060 Score: 60
Period size: 16 Copynumber: 2.7 Consensus size: 18
94006 TTACAAGATA
94016 AAAATATATAAATATATT
1 AAAATATATAAATATATT
94034 AAAATA-ATAAAT-TATT
1 AAAATATATAAATATATT
*
94050 AATATAT-TAAA
1 AAAATATATAAA
94061 ATTTTTATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
16 13 0.52
17 6 0.24
18 6 0.24
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
AAAATATATAAATATATT
Found at i:94053 original size:24 final size:24
Alignment explanation
Indices: 94013--94062 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
94003 CTTTTACAAG
94013 ATAAAAATATATAAATATATTAAA
1 ATAAAAATATATAAATATATTAAA
*
94037 ATAATAAAT-TATTAATATATTAAA
1 ATAA-AAATATATAAATATATTAAA
94061 AT
1 AT
94063 TTTTATATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 20 0.83
25 4 0.17
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (24 bp):
ATAAAAATATATAAATATATTAAA
Found at i:94069 original size:14 final size:16
Alignment explanation
Indices: 94052--94097 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 16
94042 AAATTATTAA
94052 TATATTA-A-AATTTT
1 TATATTATATAATTTT
94066 TATATTATATAATTTT
1 TATATTATATAATTTT
*
94082 TAATATAATTATAATT
1 T-ATATTA-TATAATT
94098 AGATTTGTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
14 7 0.26
15 1 0.04
16 7 0.26
17 5 0.19
18 7 0.26
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TATATTATATAATTTT
Found at i:94676 original size:251 final size:251
Alignment explanation
Indices: 94178--95549 Score: 1503
Period size: 245 Copynumber: 5.5 Consensus size: 251
94168 ATTCGATTAA
*
94178 TTTTTTATTATTTATTATATTATTATAAAATATTATTTTATTAATATTTATAATTTTTATAATTA
1 TTTTTTATTATTCATTATATTA-T-TAAAATATTATTTTATTAATATTTATAATTTTTATAATTA
* ** *
94243 AATTTAAATAAAAATATTATTTTTATTATTAAATAATGATTTGAGCCATTTCAAATTTATAAAAA
64 AATTTAAATAAAAATATTATTTTTATTATTAAATAATGATTTGAGCCGTTTCAAATCCACAAAAA
* * * *
94308 TCTTATCAAAGCTCAAACCATATAAGGTT-AGTAGAGTAAGCTGAGCGAATAATTCAACCTAAAC
129 TCTTATCCAA-CTCAAACCATATAAGGTTAATTA-AGTAAGCTGAGCGAATAATCCAACCTAAAT
* * *
94372 AAATAACTTGATTTTTAAATAAATTTAATTATAATTTATAAAATATTTGACTTGAAAACT
192 AAATAACTTGACTTTTAAATAAATTTAATTATAACTTATAAAATATCTGACTTGAAAACT
* * * * * *
94432 TTTTTTATTATTCATTGTATTACTAAAATATTATTGTATTAACATTTATAGTTTTTACAATTAAA
1 TTTTTTATTATTCATTATATTATTAAAATATTATTTTATTAATATTTATAATTTTTATAATTAAA
* * ** * **
94497 TTTAAGTAAAAATATTATTTTTATTATTAAATAATGATTTAAGCAATTTTAAATCCACGTAAATC
66 TTTAAATAAAAATATTATTTTTATTATTAAATAATGATTTGAGCCGTTTCAAATCCACAAAAATC
* * * * * * * *
94562 TTATCCAATTTAAACCATATAAGGTTAGTTAAGTAAGCCGAGTGAATGATCCAATCTAAACAAAT
131 TTATCCAACTCAAACCATATAAGGTTAATTAAGTAAGCTGAGCGAATAATCCAACCTAAATAAAT
* * *
94627 AATTTAACTTTTAAATAAATTTAATTATAACTTATAAAATATCTGACTTGAAAACG
196 AACTTGACTTTTAAATAAATTTAATTATAACTTATAAAATATCTGACTTGAAAACT
* * *
94683 TTTTTTATTATTCATTATATTATTAAAATATTATTTTATTAATACTTATAATTTTTAAAATTTAA
1 TTTTTTATTATTCATTATATTATTAAAATATTATTTTATTAATATTTATAATTTTTATAATTAAA
** *
94748 TTTAAATAAAAATATTA-TTTTATTATTAAATAATGATTTGAGTTGTTTTAAATCCACAAAAA-C
66 TTTAAATAAAAATATTATTTTTATTATTAAATAATGATTTGAGCCGTTTCAAATCCACAAAAATC
* * * * * *
94811 CT-T---ACTTAAACAATATAAGGTCAATTAAGTAAGCAGAGCGAATAATTCAACCTAAATAAAT
131 TTATCCAACTCAAACCATATAAGGTTAATTAAGTAAGCTGAGCGAATAATCCAACCTAAATAAAT
* * * *
94872 AACTTGACTTTTAAATAAATTTAATTATAACGTACAAAAAATCTTACTTGAAAACT
196 AACTTGACTTTTAAATAAATTTAATTATAACTTATAAAATATCTGACTTGAAAACT
* * *
94928 ATTTTTATTATTCATTACATCATTAAAATATTATTTTATTAATATTTATAA-TTTTATAATTAAA
1 TTTTTTATTATTCATTATATTATTAAAATATTATTTTATTAATATTTATAATTTTTATAATTAAA
* * * * *
94992 TTTAAATAAAAATATTATTTTTATTATTAAA-AGCTAATTCGAGCGGTTTCAAATCCAACAAAGA
66 TTTAAATAAAAATATTATTTTTATTATTAAATA-ATGATTTGAGCCGTTTCAAATCC-ACAAAAA
* * * ** * *
95056 TCTTATCAAATGCTCAAATCATATAAGGTCAATTGTGTAAACTGAGCGAATAATCCAATCTAAAT
129 TCTTATCCAA--CTCAAACCATATAAGGTTAATTAAGTAAGCTGAGCGAATAATCCAACCTAAAT
* ** *
95121 AAATAACTTGATTTTTAAATAAATTTAATTATAACTTATAAAATATCCAACTTAAAAACT
192 AAATAACTTGACTTTTAAATAAATTTAATTATAACTTATAAAATATCTGACTTGAAAACT
*
95181 TTTTTTATTATTCATTATATTATTAAAATATTA----ATT--TA--T-TAATTTTT-TATTTAAA
1 TTTTTTATTATTCATTATATTATTAAAATATTATTTTATTAATATTTATAATTTTTATAATTAAA
* * ** *
95236 -TT---TAAAAATATT-CTTTTATTATTAAATAATAATTCAAGCCGTTTCAAATCCATAAAAATC
66 TTTAAATAAAAATATTATTTTTATTATTAAATAATGATTTGAGCCGTTTCAAATCCACAAAAATC
* * * * * * * *
95296 TTACCTACAACTAAAATCTTATAAGGTTACTTGAGTAAGGCTGATCGAATAATCTAACCTAAATA
131 TTA--TCCAACTCAAACCATATAAGGTTAATTAAGTAA-GCTGAGCGAATAATCCAACCTAAATA
* * * * *
95361 AATAATTTTACTTTTAAATAAATTTAGTTATAATTTATAAAATATCTTACTT-AAAA-T
193 AATAACTTGACTTTTAAATAAATTTAATTATAACTTATAAAATATCTGACTTGAAAACT
* * * *
95418 TTTTTT-TTATT-ATT-CATTA-T--ATTATTATTTTATAAACATTTATAATTTTTATAATTAAA
1 TTTTTTATTATTCATTATATTATTAAAATATTATTTTATTAATATTTATAATTTTTATAATTAAA
* ** ** * * *
95477 TTTAAATAAAAATATTATTTTTATTATTTAATAATGATTCAAATCGTTTCAAATCTATAAAAATT
66 TTTAAATAAAAATATTATTTTTATTATTAAATAATGATTTGAGCCGTTTCAAATCCACAAAAATC
95542 TTATCCAA
131 TTATCCAA
95550 AGATTATATA
Statistics
Matches: 951, Mismatches: 136, Indels: 72
0.82 0.12 0.06
Matches are distributed among these distances:
231 6 0.01
233 1 0.00
234 4 0.00
235 5 0.01
236 5 0.01
237 8 0.01
238 37 0.04
239 101 0.11
240 22 0.02
241 7 0.01
242 2 0.00
243 2 0.00
244 43 0.05
245 189 0.20
246 50 0.05
247 4 0.00
248 2 0.00
249 5 0.01
250 39 0.04
251 169 0.18
252 103 0.11
253 127 0.13
254 20 0.02
ACGTcount: A:0.42, C:0.09, G:0.06, T:0.43
Consensus pattern (251 bp):
TTTTTTATTATTCATTATATTATTAAAATATTATTTTATTAATATTTATAATTTTTATAATTAAA
TTTAAATAAAAATATTATTTTTATTATTAAATAATGATTTGAGCCGTTTCAAATCCACAAAAATC
TTATCCAACTCAAACCATATAAGGTTAATTAAGTAAGCTGAGCGAATAATCCAACCTAAATAAAT
AACTTGACTTTTAAATAAATTTAATTATAACTTATAAAATATCTGACTTGAAAACT
Found at i:94721 original size:16 final size:16
Alignment explanation
Indices: 94696--94772 Score: 54
Period size: 16 Copynumber: 4.8 Consensus size: 16
94686 TTTATTATTC
*
94696 ATTATATTATTAAAAT
1 ATTATTTTATTAAAAT
94712 ATTATTTTATT--AAT
1 ATTATTTTATTAAAAT
94726 ACTTATAATTT-TTAAAAT
1 A-TTAT--TTTATTAAAAT
* *
94744 -TTAATTTAAATAAAAAT
1 ATT-ATTT-TATTAAAAT
94761 ATTATTTTATTA
1 ATTATTTTATTA
94773 TTAAATAATG
Statistics
Matches: 47, Mismatches: 5, Indels: 18
0.67 0.07 0.26
Matches are distributed among these distances:
14 4 0.09
15 6 0.13
16 17 0.36
17 15 0.32
18 5 0.11
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.53
Consensus pattern (16 bp):
ATTATTTTATTAAAAT
Found at i:95641 original size:23 final size:22
Alignment explanation
Indices: 95603--95646 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
95593 TTTAAATTAA
* *
95603 TAATTTAATTTTTAAATAAATT
1 TAATTTAATTTATAAAAAAATT
95625 TAATTATAATTTATAAAAAAAT
1 TAATT-TAATTTATAAAAAAAT
95647 ATTTAATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
TAATTTAATTTATAAAAAAATT
Found at i:96947 original size:18 final size:18
Alignment explanation
Indices: 96924--96958 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
96914 AGTATAGTCT
96924 TTTTATCAATCAATTTTA
1 TTTTATCAATCAATTTTA
*
96942 TTTTATCAATTAATTTT
1 TTTTATCAATCAATTTT
96959 GGAGGATGAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTTATCAATCAATTTTA
Found at i:98072 original size:2 final size:2
Alignment explanation
Indices: 98067--98098 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
98057 ATATATAGAA
98067 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
98099 GGATCTTAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:98394 original size:22 final size:23
Alignment explanation
Indices: 98361--98432 Score: 78
Period size: 21 Copynumber: 3.1 Consensus size: 23
98351 AAATTATTAT
*
98361 TTAATTAAAAAATTATTTAAATA
1 TTAATTATAAAATTATTTAAATA
*
98384 -TAATTATAAAA-TATATAAATA
1 TTAATTATAAAATTATTTAAATA
98405 TTAA-TATAAAATATATTTTAAAATA
1 TTAATTATAAAAT-TA-TTT-AAATA
98430 TTA
1 TTA
98433 TTTTTAATAT
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
21 16 0.39
22 13 0.32
23 2 0.05
24 2 0.05
25 8 0.20
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
TTAATTATAAAATTATTTAAATA
Found at i:98404 original size:21 final size:22
Alignment explanation
Indices: 98361--98420 Score: 79
Period size: 21 Copynumber: 2.8 Consensus size: 22
98351 AAATTATTAT
* *
98361 TTAATTAAAAAATTATTTAAATA
1 TTAATTATAAAA-TATATAAATA
98384 -TAATTATAAAATATATAAATA
1 TTAATTATAAAATATATAAATA
98405 TTAA-TATAAAATATAT
1 TTAATTATAAAATATAT
98421 TTTAAAATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
21 21 0.62
22 13 0.38
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
TTAATTATAAAATATATAAATA
Found at i:98434 original size:13 final size:12
Alignment explanation
Indices: 98411--98450 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
98401 AATATTAATA
98411 TAAAATATATTT
1 TAAAATATATTT
98423 TAAAATATTATTT
1 TAAAATA-TATTT
*
98436 T-TAATATATTT
1 TAAAATATATTT
98447 TAAA
1 TAAA
98451 TAATAAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 6 0.25
12 12 0.50
13 6 0.25
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (12 bp):
TAAAATATATTT
Found at i:98439 original size:14 final size:13
Alignment explanation
Indices: 98400--98450 Score: 54
Period size: 12 Copynumber: 4.2 Consensus size: 13
98390 TAAAATATAT
* *
98400 AAATATTAATATA
1 AAATATTATTTTA
98413 AAATA-TATTTTA
1 AAATATTATTTTA
98425 AAATATTATTTT-
1 AAATATTATTTTA
*
98437 TAATA-TATTTTA
1 AAATATTATTTTA
98449 AA
1 AA
98451 TAATAAAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
11 6 0.19
12 15 0.47
13 11 0.34
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (13 bp):
AAATATTATTTTA
Found at i:98538 original size:2 final size:2
Alignment explanation
Indices: 98531--98565 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
98521 CCATCACCAG
98531 TA TA 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 TA TA T
98566 TAAAAGTTTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:98890 original size:2 final size:2
Alignment explanation
Indices: 98883--98913 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
98873 TTTATTTTTA
98883 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
98914 CACTTTAATA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:100357 original size:22 final size:23
Alignment explanation
Indices: 100276--100356 Score: 76
Period size: 25 Copynumber: 3.4 Consensus size: 23
100266 ATTGTATAAT
* *
100276 TAATTATATTAACATTTATATAAAA
1 TAATTATATTAATATTT-TA-AATA
100301 TAATT-TATTAATATATTTAAATTTA
1 TAATTATATTAATAT-TTTAAA--TA
*
100326 TAAATATA-TAATATTTTAAATA
1 TAATTATATTAATATTTTAAATA
100348 TAATTATAT
1 TAATTATAT
100357 ACATAATAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
22 9 0.19
23 2 0.04
24 16 0.34
25 18 0.38
26 2 0.04
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (23 bp):
TAATTATATTAATATTTTAAATA
Found at i:102032 original size:17 final size:16
Alignment explanation
Indices: 102008--102053 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 16
101998 AAATTTGATA
102008 AAAATAAAAAAATAATT
1 AAAATAAAAAAATAA-T
*
102025 AAACTAAAAATAA-AAT
1 AAAATAAAAA-AATAAT
102041 AAAATAAAAAAAT
1 AAAATAAAAAAAT
102054 TTAAATTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
15 2 0.08
16 10 0.40
17 11 0.44
18 2 0.08
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (16 bp):
AAAATAAAAAAATAAT
Found at i:102617 original size:20 final size:20
Alignment explanation
Indices: 102592--102629 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
102582 AAAAAAATAG
102592 TTTTTAT-ATTAATATTTATA
1 TTTTTATAATTAA-ATTTATA
102612 TTTTTATAATTAAATTTA
1 TTTTTATAATTAAATTTA
102630 AATAAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
TTTTTATAATTAAATTTATA
Found at i:103932 original size:2 final size:2
Alignment explanation
Indices: 103925--103950 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
103915 AACGACCAAG
103925 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
103951 TAAAATCTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:104173 original size:23 final size:23
Alignment explanation
Indices: 104138--104187 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 23
104128 AGATCATAAT
*
104138 TTAAAAATAAAAAATTATATATA
1 TTAAAAATAAAAAATTAAATATA
* * * *
104161 TTAAAATTTAAAATTTAAATTTA
1 TTAAAAATAAAAAATTAAATATA
104184 TTAA
1 TTAA
104188 TTAATATTTA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (23 bp):
TTAAAAATAAAAAATTAAATATA
Found at i:106099 original size:16 final size:16
Alignment explanation
Indices: 106064--106107 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
106054 AAATTGAAAT
106064 ATTTAAT-TTT-A-AA
1 ATTTAATATTTAATAA
*
106077 ATATAATATTTAATAA
1 ATTTAATATTTAATAA
106093 ATTTAATATTTAATA
1 ATTTAATATTTAATA
106108 TTTATAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
13 6 0.23
14 3 0.12
15 1 0.04
16 16 0.62
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
ATTTAATATTTAATAA
Found at i:106103 original size:7 final size:7
Alignment explanation
Indices: 106061--106111 Score: 59
Period size: 7 Copynumber: 7.1 Consensus size: 7
106051 ATGAAATTGA
106061 AATATTT
1 AATATTT
106068 AAT-TTT
1 AATATTT
* *
106074 AAAATAT
1 AATATTT
106081 AATATTT
1 AATATTT
106088 AATAAATTT
1 AAT--ATTT
106097 AATATTT
1 AATATTT
106104 AATATTT
1 AATATTT
106111 A
1 A
106112 TAATTTTTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
6 5 0.14
7 25 0.68
9 7 0.19
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (7 bp):
AATATTT
Found at i:106115 original size:16 final size:16
Alignment explanation
Indices: 106078--106126 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
106068 AATTTTAAAA
*
106078 TATAATATTTAATAAAT
1 TATAATATTTAAT-ATT
106095 T-TAATATTTAATATT
1 TATAATATTTAATATT
* *
106110 TATAATTTTTATTATT
1 TATAATATTTAATATT
106126 T
1 T
106127 TTAAATTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 3 0.11
16 24 0.86
17 1 0.04
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATAATATTTAATATT
Found at i:106120 original size:23 final size:23
Alignment explanation
Indices: 106067--106118 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
106057 TTGAAATATT
* *
106067 TAATTTTAAAATATAATATTTAA
1 TAATTTTAATATTTAATATTTAA
*
106090 TAAATTTAATATTTAATATTT-A
1 TAATTTTAATATTTAATATTTAA
106112 TAATTTT
1 TAATTTT
106119 TATTATTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
22 7 0.28
23 18 0.72
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (23 bp):
TAATTTTAATATTTAATATTTAA
Found at i:106289 original size:8 final size:8
Alignment explanation
Indices: 106276--106401 Score: 82
Period size: 8 Copynumber: 15.5 Consensus size: 8
106266 TGATCTATTA
106276 ATTTATAT
1 ATTTATAT
106284 ATTTATATT
1 ATTTATA-T
*
106293 ATTT-TTT
1 ATTTATAT
106300 ATTT-TAT
1 ATTTATAT
*
106307 AATTATAT
1 ATTTATAT
* *
106315 -TTAAAAT
1 ATTTATAT
106322 A-TTATAT
1 ATTTATAT
106329 ATTTATAT
1 ATTTATAT
*
106337 AATTTTTTAT
1 -A-TTTATAT
106347 ATATTA-AT
1 AT-TTATAT
106355 AATTTATATT
1 -ATTTATA-T
* *
106365 ATATAAAT
1 ATTTATAT
*
106373 TTTTATAT
1 ATTTATAT
106381 ATTTATAT
1 ATTTATAT
106389 ATTTATATT
1 ATTTATA-T
106398 ATTT
1 ATTT
106402 TTTTATTATA
Statistics
Matches: 91, Mismatches: 16, Indels: 21
0.71 0.12 0.16
Matches are distributed among these distances:
7 19 0.21
8 43 0.47
9 22 0.24
10 7 0.08
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
ATTTATAT
Found at i:106356 original size:18 final size:17
Alignment explanation
Indices: 106334--106425 Score: 74
Period size: 14 Copynumber: 5.8 Consensus size: 17
106324 TATATATTTA
106334 TATAATTTTTTATATAT
1 TATAATTTTTTATATAT
*
106351 TAATAA-TTTATAT-TA-
1 T-ATAATTTTTTATATAT
*
106366 TATAAATTTTTATATAT
1 TATAATTTTTTATATAT
* *
106383 T-T-ATATATT-TATAT
1 TATAATTTTTTATATAT
106397 TAT--TTTTTTATTATAT
1 TATAATTTTTTA-TATAT
106413 TATAATTTTTTAT
1 TATAATTTTTTAT
106426 TACTTTTCGT
Statistics
Matches: 59, Mismatches: 7, Indels: 18
0.70 0.08 0.21
Matches are distributed among these distances:
14 14 0.24
15 12 0.20
16 13 0.22
17 9 0.15
18 11 0.19
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TATAATTTTTTATATAT
Done.