Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167993.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_25, whole genome shotgun sequence
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: 17943224
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 94000 characters in sequence are not A, C, G, or T
File 10 of 100
Found at i:1766470 original size:2 final size:2
Alignment explanation
Indices: 1766463--1766491 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1766453 CCTAACCCTA
1766463 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 A
1766492 AGGTCTAACT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1768887 original size:26 final size:26
Alignment explanation
Indices: 1768857--1768910 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
1768847 AAACTTAGCC
*
1768857 TAAATCTCACATTGATCTAATGCATT
1 TAAATCTCACATTGATCGAATGCATT
1768883 TAAATCTCACATTGATCGAATGCATT
1 TAAATCTCACATTGATCGAATGCATT
1768909 TA
1 TA
1768911 GGCCGATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (26 bp):
TAAATCTCACATTGATCGAATGCATT
Found at i:1769024 original size:8 final size:8
Alignment explanation
Indices: 1769007--1769052 Score: 83
Period size: 8 Copynumber: 5.8 Consensus size: 8
1768997 AAAGGAAATC
*
1769007 TAAATATA
1 TAAATCTA
1769015 TAAATCTA
1 TAAATCTA
1769023 TAAATCTA
1 TAAATCTA
1769031 TAAATCTA
1 TAAATCTA
1769039 TAAATCTA
1 TAAATCTA
1769047 TAAATC
1 TAAATC
1769053 ACTCTCTCTT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
8 37 1.00
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.37
Consensus pattern (8 bp):
TAAATCTA
Found at i:1774487 original size:19 final size:18
Alignment explanation
Indices: 1774463--1774510 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 18
1774453 ATGTATCACA
1774463 TTATTAAAAAATTAATT-AT
1 TTATTAAAAAATT--TTAAT
1774482 TTATTATTAAAAATTTTAAT
1 TTATTA--AAAAATTTTAAT
1774502 TTATTAAAA
1 TTATTAAAA
1774511 TTAATATTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
18 3 0.12
19 8 0.31
20 8 0.31
21 7 0.27
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TTATTAAAAAATTTTAAT
Found at i:1775602 original size:31 final size:31
Alignment explanation
Indices: 1775566--1775639 Score: 94
Period size: 31 Copynumber: 2.4 Consensus size: 31
1775556 TAATAAAATA
*
1775566 TTTAATATGATATATAAATTTTAAAAATAAT
1 TTTAATATGATATATAAATTATAAAAATAAT
* * * *
1775597 TTTAATATAATATTTAAATTATAAATATATT
1 TTTAATATGATATATAAATTATAAAAATAAT
1775628 TATTAATATGAT
1 T-TTAATATGAT
1775640 GTTTATCTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
31 27 0.75
32 9 0.25
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (31 bp):
TTTAATATGATATATAAATTATAAAAATAAT
Found at i:1775735 original size:32 final size:29
Alignment explanation
Indices: 1775698--1775790 Score: 98
Period size: 29 Copynumber: 3.1 Consensus size: 29
1775688 ATAATCTTTC
*
1775698 AAATATAATATTAATTAATAAATTTATAATTT
1 AAATATAATATTAAATAAT--ATTTA-AATTT
* *
1775730 AAATATCATATTAAATAATTTTTAAATTT
1 AAATATAATATTAAATAATATTTAAATTT
* *
1775759 AAATA-ATATATTAAATAATTTTTAATTTT
1 AAATATA-ATATTAAATAATATTTAAATTT
1775788 AAA
1 AAA
1775791 AAATCATTCA
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
29 34 0.62
30 4 0.07
32 17 0.31
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (29 bp):
AAATATAATATTAAATAATATTTAAATTT
Found at i:1775757 original size:29 final size:29
Alignment explanation
Indices: 1775720--1775790 Score: 108
Period size: 29 Copynumber: 2.4 Consensus size: 29
1775710 AATTAATAAA
1775720 TTTATAATTTAAAT-ATCATATTAAATAATT
1 TTTA-AATTTAAATAAT-ATATTAAATAATT
1775750 TTTAAATTTAAATAATATATTAAATAATT
1 TTTAAATTTAAATAATATATTAAATAATT
*
1775779 TTTAATTTTAAA
1 TTTAAATTTAAA
1775791 AAATCATTCA
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
29 33 0.85
30 6 0.15
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (29 bp):
TTTAAATTTAAATAATATATTAAATAATT
Found at i:1775774 original size:18 final size:17
Alignment explanation
Indices: 1775740--1775774 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
1775730 AAATATCATA
*
1775740 TTAAATAATTTTTAAAT
1 TTAAATAATTATTAAAT
1775757 TTAAATAATATATTAAAT
1 TTAAATAAT-TATTAAAT
1775775 AATTTTTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TTAAATAATTATTAAAT
Found at i:1776274 original size:2 final size:2
Alignment explanation
Indices: 1776269--1776296 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1776259 TATGTGTGTG
1776269 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
1776297 AAATTAATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1783606 original size:7 final size:7
Alignment explanation
Indices: 1783594--1783623 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
1783584 AATTTAATTA
1783594 AAATTTT
1 AAATTTT
1783601 AAATTTT
1 AAATTTT
1783608 AAATTTT
1 AAATTTT
1783615 AAATTTT
1 AAATTTT
1783622 AA
1 AA
1783624 TATATTTTTA
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:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (7 bp):
AAATTTT
Found at i:1794399 original size:13 final size:13
Alignment explanation
Indices: 1794369--1794393 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1794359 CGATTGTAGG
1794369 GATTTTTATTTCA
1 GATTTTTATTTCA
1794382 GATTTTTATTTC
1 GATTTTTATTTC
1794394 GTATTTATCA
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:0.20, C:0.08, G:0.08, T:0.64
Consensus pattern (13 bp):
GATTTTTATTTCA
Found at i:1796092 original size:24 final size:23
Alignment explanation
Indices: 1796057--1796103 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
1796047 CGAGCCGTTC
* *
1796057 ATTTTTTTTTTTGTATTTTATTT
1 ATTTTTTGTTTTGTAATTTATTT
1796080 ATTTGTTTGTTTTGTAATTTATTT
1 ATTT-TTTGTTTTGTAATTTATTT
1796104 TTAGTAGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 4 0.19
24 17 0.81
ACGTcount: A:0.15, C:0.00, G:0.09, T:0.77
Consensus pattern (23 bp):
ATTTTTTGTTTTGTAATTTATTT
Found at i:1796228 original size:77 final size:78
Alignment explanation
Indices: 1796147--1796309 Score: 170
Period size: 77 Copynumber: 2.1 Consensus size: 78
1796137 AAAATAAAAT
* *
1796147 AAATAATAAAAATTTTCAAAAAAAAATTTTTGAAG-AAAAGTTGAAAGTA-TAACTTTCCTTGAA
1 AAATAATAAAAA-TTTCAAAAAAAAA-TTTTAAAGAAAAAGTTGAAAGTACTAACTTTCCTTAAA
*
1796210 AGTAAAATTTCT-AA
64 AATAAAATTTCTGAA
* *** * * * * *
1796224 AAATATTTCCAATTTCTAAAAAATATTTTAAAGAAAAATTTGAAAGTACTAATTTTTCTTAAAAA
1 AAATAATAAAAATTTCAAAAAAAAATTTTAAAGAAAAAGTTGAAAGTACTAACTTTCCTTAAAAA
1796289 TAAAATTTCTGAA
66 TAAAATTTCTGAA
*
1796302 AAAAAATA
1 AAATAATA
1796310 TTTTAGGAGA
Statistics
Matches: 68, Mismatches: 15, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
75 7 0.10
76 24 0.35
77 30 0.44
78 7 0.10
ACGTcount: A:0.52, C:0.07, G:0.07, T:0.34
Consensus pattern (78 bp):
AAATAATAAAAATTTCAAAAAAAAATTTTAAAGAAAAAGTTGAAAGTACTAACTTTCCTTAAAAA
TAAAATTTCTGAA
Found at i:1796245 original size:76 final size:78
Alignment explanation
Indices: 1796160--1796304 Score: 188
Period size: 76 Copynumber: 1.9 Consensus size: 78
1796150 TAATAAAAAT
* * *
1796160 TTTCAAAAAAAAATTTTTGAAG-AAAAGTTGAAAGTA-TAACTTTCCTTGAAAGTAAAATTTCT-
1 TTTCAAAAAAAAA-TTTTAAAGAAAAAGTTGAAAGTACTAACTTTCCTTAAAAATAAAATTTCTG
1796222 AAAAATATTTCCAA
65 AAAAATATTTCCAA
* * * * *
1796236 TTTCTAAAAAATATTTTAAAGAAAAATTTGAAAGTACTAATTTTTCTTAAAAATAAAATTTCTGA
1 TTTCAAAAAAAAATTTTAAAGAAAAAGTTGAAAGTACTAACTTTCCTTAAAAATAAAATTTCTGA
1796301 AAAA
66 AAAA
1796305 AAATATTTTA
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
75 7 0.12
76 24 0.41
77 22 0.38
78 5 0.09
ACGTcount: A:0.49, C:0.08, G:0.08, T:0.36
Consensus pattern (78 bp):
TTTCAAAAAAAAATTTTAAAGAAAAAGTTGAAAGTACTAACTTTCCTTAAAAATAAAATTTCTGA
AAAATATTTCCAA
Found at i:1796328 original size:61 final size:62
Alignment explanation
Indices: 1796241--1796417 Score: 193
Period size: 61 Copynumber: 2.9 Consensus size: 62
1796231 TCCAATTTCT
* * * **
1796241 AAAAAATATTTTAAAGAAAAATTTGAAAGTACTAATTTTTC-TTAAAAATAAAATT-TCTGAA
1 AAAAAATATTTTAGAG-AAAAGTTGAAAGTACTAAATTTTCTTTAAAAATAAAATTCTCAAAA
1796302 AAAAAATATTTTAGGAGAAAAGTTGAAAGTAC-AAATTTTCTTTAAAAATAAAATTCTCAAAA
1 AAAAAATATTTTA-GAGAAAAGTTGAAAGTACTAAATTTTCTTTAAAAATAAAATTCTCAAAA
* * * *
1796364 AGGAAAAACATTTTA-AGGAAAAGTTGAAATTA-TCAGTTTTCTTTAAAAATAAAA
1 A--AAAAATATTTTAGA-GAAAAGTTGAAAGTACTAAATTTTCTTTAAAAATAAAA
1796418 AGAAAACATT
Statistics
Matches: 100, Mismatches: 9, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
60 7 0.07
61 41 0.41
62 8 0.08
63 33 0.33
64 11 0.11
ACGTcount: A:0.52, C:0.06, G:0.10, T:0.33
Consensus pattern (62 bp):
AAAAAATATTTTAGAGAAAAGTTGAAAGTACTAAATTTTCTTTAAAAATAAAATTCTCAAAA
Found at i:1800394 original size:17 final size:16
Alignment explanation
Indices: 1800372--1800425 Score: 55
Period size: 15 Copynumber: 3.6 Consensus size: 16
1800362 AAATGGATGA
1800372 AAAAATGAAAATAAGAG
1 AAAAAT-AAAATAAGAG
1800389 AAAAATAAAA-AA-A-
1 AAAAATAAAATAAGAG
*
1800402 ATAAA-AAAATAAGAG
1 AAAAATAAAATAAGAG
1800417 AAAAA-AAAA
1 AAAAATAAAA
1800426 GATGAAAAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
12 4 0.12
13 6 0.19
14 2 0.06
15 10 0.31
16 4 0.12
17 6 0.19
ACGTcount: A:0.81, C:0.00, G:0.09, T:0.09
Consensus pattern (16 bp):
AAAAATAAAATAAGAG
Found at i:1800420 original size:12 final size:13
Alignment explanation
Indices: 1800395--1800439 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
1800385 AGAGAAAAAT
1800395 AAAAAAA-AT-AA
1 AAAAAAAGATGAA
1800406 AAAAATAAGA-GAA
1 AAAAA-AAGATGAA
1800419 AAAAAAAGATGAA
1 AAAAAAAGATGAA
1800432 AAGAAAAA
1 AA-AAAAA
1800440 AGAAAACTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
11 5 0.17
12 6 0.21
13 13 0.45
14 5 0.17
ACGTcount: A:0.82, C:0.00, G:0.11, T:0.07
Consensus pattern (13 bp):
AAAAAAAGATGAA
Found at i:1800438 original size:28 final size:27
Alignment explanation
Indices: 1800371--1800442 Score: 76
Period size: 28 Copynumber: 2.6 Consensus size: 27
1800361 AAAATGGATG
*
1800371 AAAAAATGAAAATAAGAGAAAAATAAA
1 AAAAAAAGAAAATAAGAGAAAAATAAA
*
1800398 AAAAATAAAAAAATAAGAGAAAAA-AAA
1 AAAAA-AAGAAAATAAGAGAAAAATAAA
*
1800425 AGATGAAAAGAAAA-AAGA
1 A-A-AAAAAGAAAATAAGA
1800443 AAACTCAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
27 13 0.34
28 23 0.61
29 2 0.05
ACGTcount: A:0.79, C:0.00, G:0.12, T:0.08
Consensus pattern (27 bp):
AAAAAAAGAAAATAAGAGAAAAATAAA
Found at i:1800444 original size:12 final size:12
Alignment explanation
Indices: 1800395--1800445 Score: 52
Period size: 12 Copynumber: 4.2 Consensus size: 12
1800385 AGAGAAAAAT
*
1800395 AAAAAAAATA-A
1 AAAAAAAAGAGA
*
1800406 AAAAATAAGAGA
1 AAAAAAAAGAGA
1800418 AAAAAAAAGATGA
1 AAAAAAAAGA-GA
1800431 AAAGAAAAA-AGA
1 AAA-AAAAAGAGA
1800443 AAA
1 AAA
1800446 CTCAAATTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
11 8 0.24
12 15 0.44
13 6 0.18
14 5 0.15
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.06
Consensus pattern (12 bp):
AAAAAAAAGAGA
Found at i:1801759 original size:46 final size:46
Alignment explanation
Indices: 1801706--1802122 Score: 511
Period size: 46 Copynumber: 9.1 Consensus size: 46
1801696 TTGATAAAGT
*
1801706 TTTGAGTCTTAAATGAGAATCTTTAAGACATTTTCAAATGAGAATA
1 TTTGAGTCTTAAATGAGAATCTTTAAGACATTTTCAAATGAGAATC
* * * *
1801752 TTTGAGTCTTAAATAAAAATCTTTAAAACGTTTTCAAATGAGAAGT-
1 TTTGAGTCTTAAATGAGAATCTTTAAGACATTTTCAAATGAGAA-TC
* * *
1801798 TTTGAGTCTTAAATGAAAATCTTTAAGACTTTTTTAAATGAGAATC
1 TTTGAGTCTTAAATGAGAATCTTTAAGACATTTTCAAATGAGAATC
* * *
1801844 TTTGAGTCTTAAAGGAGAATCTTTAATACATTTTCAAATTAGAATC
1 TTTGAGTCTTAAATGAGAATCTTTAAGACATTTTCAAATGAGAATC
* ** * *
1801890 TTTAAGTCTTAAATGAGAATCTTTAAGATGTTTCCAAATGAGAATT
1 TTTGAGTCTTAAATGAGAATCTTTAAGACATTTTCAAATGAGAATC
* *
1801936 TTTGAGTTTTAAATGAGAATCTTTTAGACATTTTCAAATGAGAATC
1 TTTGAGTCTTAAATGAGAATCTTTAAGACATTTTCAAATGAGAATC
* ** * *
1801982 TTTAAACCTTAAATGAGAATCTTTAAGACTTTTTCAAATGAAAATC
1 TTTGAGTCTTAAATGAGAATCTTTAAGACATTTTCAAATGAGAATC
* *
1802028 TTTGAGTCTTAAATGAGAATCTTTAAGACGTTTCCAAATGAGAATC
1 TTTGAGTCTTAAATGAGAATCTTTAAGACATTTTCAAATGAGAATC
* * * * *
1802074 TTTGAATCTTCAAATAAAAATCTTT--GA-GTGTT-AAATGAGAATC
1 TTTGAGTCTT-AAATGAGAATCTTTAAGACATTTTCAAATGAGAATC
1802117 TTTGAG
1 TTTGAG
1802123 GTGTGAAACC
Statistics
Matches: 320, Mismatches: 48, Indels: 9
0.85 0.13 0.02
Matches are distributed among these distances:
43 16 0.05
44 3 0.01
45 3 0.01
46 285 0.89
47 13 0.04
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (46 bp):
TTTGAGTCTTAAATGAGAATCTTTAAGACATTTTCAAATGAGAATC
Found at i:1801957 original size:138 final size:138
Alignment explanation
Indices: 1801706--1802122 Score: 563
Period size: 138 Copynumber: 3.0 Consensus size: 138
1801696 TTGATAAAGT
* * *
1801706 TTTGAGTCTTAAATGAGAATCTTTAAGACATTTTCAAATGAGAATATTTGAGTCTTAAATAAAAA
1 TTTGAGTCTTAAATGAGAATCTTTAAGACATTTTCAAATGAGAATCTTTGAGTCTTAAATGAGAA
* * * * *
1801771 TCTTTAAAACGTTTTCAAATGAGAAGTTTTGAGTCTTAAATGAAAATCTTTAAGACTTTTTTAAA
66 TCTTTAAGACGTTTCCAAATGAGAATTTTTGAGTCTTAAATGAAAATCTTTAAGACATTTTCAAA
1801836 TGAGAATC
131 TGAGAATC
* * * *
1801844 TTTGAGTCTTAAAGGAGAATCTTTAATACATTTTCAAATTAGAATCTTTAAGTCTTAAATGAGAA
1 TTTGAGTCTTAAATGAGAATCTTTAAGACATTTTCAAATGAGAATCTTTGAGTCTTAAATGAGAA
* * * *
1801909 TCTTTAAGATGTTTCCAAATGAGAATTTTTGAGTTTTAAATGAGAATCTTTTAGACATTTTCAAA
66 TCTTTAAGACGTTTCCAAATGAGAATTTTTGAGTCTTAAATGAAAATCTTTAAGACATTTTCAAA
1801974 TGAGAATC
131 TGAGAATC
* ** * *
1801982 TTTAAACCTTAAATGAGAATCTTTAAGACTTTTTCAAATGAAAATCTTTGAGTCTTAAATGAGAA
1 TTTGAGTCTTAAATGAGAATCTTTAAGACATTTTCAAATGAGAATCTTTGAGTCTTAAATGAGAA
* * * * *
1802047 TCTTTAAGACGTTTCCAAATGAGAATCTTTGAATCTTCAAATAAAAATCTTT--GA-GTGTT-AA
66 TCTTTAAGACGTTTCCAAATGAGAATTTTTGAGTCTT-AAATGAAAATCTTTAAGACATTTTCAA
1802108 ATGAGAATC
130 ATGAGAATC
1802117 TTTGAG
1 TTTGAG
1802123 GTGTGAAACC
Statistics
Matches: 243, Mismatches: 35, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
135 15 0.06
136 3 0.01
137 2 0.01
138 211 0.87
139 12 0.05
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (138 bp):
TTTGAGTCTTAAATGAGAATCTTTAAGACATTTTCAAATGAGAATCTTTGAGTCTTAAATGAGAA
TCTTTAAGACGTTTCCAAATGAGAATTTTTGAGTCTTAAATGAAAATCTTTAAGACATTTTCAAA
TGAGAATC
Found at i:1802190 original size:21 final size:21
Alignment explanation
Indices: 1802145--1802300 Score: 121
Period size: 21 Copynumber: 7.7 Consensus size: 21
1802135 AAATTTGTTG
*
1802145 AATGTGAATCTTTGAA-TTCA
1 AATGAGAATCTTTGAATTTCA
* *
1802165 TATGAGAATTTTTGAATTTCA
1 AATGAGAATCTTTGAATTTCA
* *
1802186 AATGAGAATCTTTGAAGTGTGA
1 AATGAGAATCTTTGAA-TTTCA
* * *
1802208 AACTCA-AA-ATTTG----TCG
1 AA-TGAGAATCTTTGAATTTCA
* * *
1802224 AATGTGAATCTTTAAATTC-A
1 AATGAGAATCTTTGAATTTCA
*
1802244 AATGAGAATATTTGAATTTCA
1 AATGAGAATCTTTGAATTTCA
*
1802265 AATGAGAATATTTGAATTTCA
1 AATGAGAATCTTTGAATTTCA
1802286 AATGAGAATCTTTGA
1 AATGAGAATCTTTGA
1802301 GATATAAAAT
Statistics
Matches: 104, Mismatches: 22, Indels: 19
0.72 0.15 0.13
Matches are distributed among these distances:
15 1 0.01
16 5 0.05
17 3 0.03
20 28 0.27
21 58 0.56
22 7 0.07
23 2 0.02
ACGTcount: A:0.38, C:0.08, G:0.16, T:0.38
Consensus pattern (21 bp):
AATGAGAATCTTTGAATTTCA
Found at i:1802206 original size:79 final size:79
Alignment explanation
Indices: 1802106--1802280 Score: 287
Period size: 79 Copynumber: 2.2 Consensus size: 79
1802096 TTTGAGTGTT
* * * *
1802106 AAATGAGAATCTTTGAGGTGTGAAACCCAAAATTTGTTGAATGTGAATCTTTGAATTCATATGAG
1 AAATGAGAATCTTTGAAGTGTGAAACCCAAAATTTGTCGAATGTGAATCTTTAAATTCAAATGAG
*
1802171 AATTTTTGAATTTC
66 AATATTTGAATTTC
*
1802185 AAATGAGAATCTTTGAAGTGTGAAACTCAAAATTTGTCGAATGTGAATCTTTAAATTCAAATGAG
1 AAATGAGAATCTTTGAAGTGTGAAACCCAAAATTTGTCGAATGTGAATCTTTAAATTCAAATGAG
1802250 AATATTTGAATTTC
66 AATATTTGAATTTC
*
1802264 AAATGAGAATATTTGAA
1 AAATGAGAATCTTTGAA
1802281 TTTCAAATGA
Statistics
Matches: 89, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
79 89 1.00
ACGTcount: A:0.38, C:0.08, G:0.18, T:0.36
Consensus pattern (79 bp):
AAATGAGAATCTTTGAAGTGTGAAACCCAAAATTTGTCGAATGTGAATCTTTAAATTCAAATGAG
AATATTTGAATTTC
Found at i:1802446 original size:43 final size:42
Alignment explanation
Indices: 1802346--1802455 Score: 107
Period size: 42 Copynumber: 2.6 Consensus size: 42
1802336 TTTGAACTAG
* * * *
1802346 AATGAGAAGCTTTGAGCTTTTCGATGTGAATCTCCAAGTTCA
1 AATGAGAAGCTTTAAACTTTTGGATGTGAATCTCCAAATTCA
** *
1802388 AACAAAAAAGC-TTAAACTTTTGGATGTGAATCTCCAAAATTCA
1 AA-TGAGAAGCTTTAAACTTTTGGATGTGAATCTCC-AAATTCA
* *
1802431 AATGAGAATCTTTAAA-TGTTGGATG
1 AATGAGAAGCTTTAAACTTTTGGATG
1802456 CGAGTCTTGT
Statistics
Matches: 53, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
42 35 0.66
43 18 0.34
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (42 bp):
AATGAGAAGCTTTAAACTTTTGGATGTGAATCTCCAAATTCA
Found at i:1803165 original size:13 final size:13
Alignment explanation
Indices: 1803147--1803176 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
1803137 ATTTTTATTC
1803147 ATTTTTATTTCAT
1 ATTTTTATTTCAT
*
1803160 ATTTTTATTTCGT
1 ATTTTTATTTCAT
1803173 ATTT
1 ATTT
1803177 ATCATTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.20, C:0.07, G:0.03, T:0.70
Consensus pattern (13 bp):
ATTTTTATTTCAT
Found at i:1804832 original size:4 final size:4
Alignment explanation
Indices: 1804825--1804866 Score: 50
Period size: 4 Copynumber: 10.8 Consensus size: 4
1804815 TTTTTGGTAT
* * *
1804825 TTTA TTTA TTTG TTTA TTTA TTTA TTTA TGT- CTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
1804867 TTAGGAGTAT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
3 1 0.03
4 30 0.97
ACGTcount: A:0.19, C:0.02, G:0.05, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:1819851 original size:32 final size:31
Alignment explanation
Indices: 1819782--1819862 Score: 101
Period size: 32 Copynumber: 2.6 Consensus size: 31
1819772 GCAGTAAGGC
*
1819782 TTTGGGCTTTTTTTGGG-TTAGAAATCTGAA
1 TTTGGGCTTTATTTGGGTTTAGAAATCTGAA
* * *
1819812 TTTGGGCTTTATTTGGGTTTGGACATTTGAA
1 TTTGGGCTTTATTTGGGTTTAGAAATCTGAA
*
1819843 TTTTGGGCTTAATTTGGGTT
1 -TTTGGGCTTTATTTGGGTT
1819863 AAAAATATTA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
30 16 0.36
31 10 0.23
32 18 0.41
ACGTcount: A:0.16, C:0.06, G:0.28, T:0.49
Consensus pattern (31 bp):
TTTGGGCTTTATTTGGGTTTAGAAATCTGAA
Found at i:1820655 original size:2 final size:2
Alignment explanation
Indices: 1820648--1820694 Score: 67
Period size: 2 Copynumber: 23.5 Consensus size: 2
1820638 CATAGCCTTT
* * *
1820648 TA TA TA TA TG TA TA TA TA TA TA TA TA TA TT TA TA TT 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
1820690 TA TA T
1 TA TA T
1820695 TAATTTGTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (2 bp):
TA
Found at i:1821537 original size:9 final size:9
Alignment explanation
Indices: 1821506--1821539 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
1821496 ATCCAGCTCG
1821506 ACCTCCTTC
1 ACCTCCTTC
*
1821515 ACCTCATTC
1 ACCTCCTTC
*
1821524 GCCTCCTTC
1 ACCTCCTTC
1821533 ACCTCCT
1 ACCTCCT
1821540 AACCACCACC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.12, C:0.53, G:0.03, T:0.32
Consensus pattern (9 bp):
ACCTCCTTC
Found at i:1823641 original size:30 final size:30
Alignment explanation
Indices: 1823577--1823644 Score: 91
Period size: 30 Copynumber: 2.3 Consensus size: 30
1823567 CTTATCTCAC
* * *
1823577 TCACTTAATAAAACACTCTTATTTGAAAGT
1 TCACATAATAAAACACTCTTATCTGAAAGA
**
1823607 TCACATAATAAAACACTCTTATCTGAGGGA
1 TCACATAATAAAACACTCTTATCTGAAAGA
1823637 TCACATAA
1 TCACATAA
1823645 CACATAACTT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (30 bp):
TCACATAATAAAACACTCTTATCTGAAAGA
Found at i:1826623 original size:21 final size:22
Alignment explanation
Indices: 1826599--1826644 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
1826589 TAACATTCAT
* *
1826599 AAATATTAATAATAA-AATTTA
1 AAATAATAAAAATAATAATTTA
*
1826620 AAATAATAAAAATAATATTTTA
1 AAATAATAAAAATAATAATTTA
1826642 AAA
1 AAA
1826645 AAATTTTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (22 bp):
AAATAATAAAAATAATAATTTA
Found at i:1826637 original size:33 final size:33
Alignment explanation
Indices: 1826600--1826664 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
1826590 AACATTCATA
* *
1826600 AATATTAATAATAAAA-TTTAAAATAATAAAAAT
1 AATATT-ATAAAAAAATTTTAAAAAAATAAAAAT
*
1826633 AATATTTTAAAAAAATTTTAAAAAAATAAAAA
1 AATATTATAAAAAAATTTTAAAAAAATAAAAA
1826665 AATCACCTGA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 7 0.25
33 21 0.75
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (33 bp):
AATATTATAAAAAAATTTTAAAAAAATAAAAAT
Found at i:1828830 original size:17 final size:17
Alignment explanation
Indices: 1828806--1828902 Score: 85
Period size: 16 Copynumber: 5.7 Consensus size: 17
1828796 TAATTGTTAG
1828806 AATATTAAAAATTATTT
1 AATATTAAAAATTATTT
*
1828823 ATTATT-AAAATTA-TT
1 AATATTAAAAATTATTT
* *
1828838 AATATTAAAAAATAATT
1 AATATTAAAAATTATTT
* *
1828855 ATATTTTAATAATAATATTT
1 A-ATATTAA-AA-ATTATTT
1828875 AATATTAAAATATTA-TT
1 AATATTAAAA-ATTATTT
1828892 AATA-TAAAAAT
1 AATATTAAAAAT
1828903 ACTTAAAATA
Statistics
Matches: 68, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
15 9 0.13
16 18 0.26
17 14 0.21
18 12 0.18
19 8 0.12
20 7 0.10
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
AATATTAAAAATTATTT
Found at i:1828834 original size:16 final size:15
Alignment explanation
Indices: 1828806--1828902 Score: 59
Period size: 17 Copynumber: 5.7 Consensus size: 15
1828796 TAATTGTTAG
1828806 AATATTAAAAATTATTT
1 AATATT-AAAATTA-TT
*
1828823 ATTATTAAAATTATT
1 AATATTAAAATTATT
*
1828838 AATATTAAAAAATAATT
1 AATATT--AAAATTATT
*
1828855 ATATTTTAATAATAATATTT
1 A-ATATTAA-AAT--TA-TT
1828875 AATATTAAAATATTATT
1 AATATT-AAA-ATTATT
*
1828892 AATATAAAAAT
1 AATATTAAAAT
1828903 ACTTAAAATA
Statistics
Matches: 64, Mismatches: 7, Indels: 20
0.70 0.08 0.22
Matches are distributed among these distances:
15 9 0.14
16 12 0.19
17 24 0.38
18 6 0.09
19 6 0.09
20 7 0.11
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
AATATTAAAATTATT
Found at i:1828842 original size:32 final size:35
Alignment explanation
Indices: 1828806--1828892 Score: 101
Period size: 37 Copynumber: 2.5 Consensus size: 35
1828796 TAATTGTTAG
1828806 AATATTAAAAATTATT-TATTATTAA-AAT-TA-TT
1 AATATTAAAAATTATTATATT-TTAATAATATATTT
*
1828838 AATATTAAAAAATAATTATATTTTAATAATAATATTT
1 AATATT-AAAAATTATTATATTTTAATAAT-ATATTT
1828875 AATATTAAAATATTATTA
1 AATATTAAAA-ATTATTA
1828893 ATATAAAAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 9
0.81 0.04 0.16
Matches are distributed among these distances:
32 6 0.13
33 13 0.28
34 7 0.15
36 6 0.13
37 14 0.30
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (35 bp):
AATATTAAAAATTATTATATTTTAATAATATATTT
Found at i:1828969 original size:31 final size:31
Alignment explanation
Indices: 1828931--1829040 Score: 106
Period size: 31 Copynumber: 3.6 Consensus size: 31
1828921 TGTTATTTTT
1828931 TATATTATTTATTAATATATTATATTAATAA
1 TATATTATTTATTAATATATTATATTAATAA
1828962 TATATTATTTATTAATA-A-TATATTATTATAA
1 TATATTATTTATTAATATATTATATTA--ATAA
** * *
1828993 TAT-TTATGAATTAA-ATTAATGATATT--TAG
1 TATATTATTTATTAATA-T-ATTATATTAATAA
1829022 TATATTATTTATTAATATA
1 TATATTATTTATTAATATA
1829041 ATATTATTTA
Statistics
Matches: 65, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
29 14 0.22
30 20 0.31
31 25 0.38
32 1 0.02
33 5 0.08
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (31 bp):
TATATTATTTATTAATATATTATATTAATAA
Found at i:1828974 original size:18 final size:18
Alignment explanation
Indices: 1828931--1828988 Score: 81
Period size: 18 Copynumber: 3.5 Consensus size: 18
1828921 TGTTATTTTT
1828931 TATATTATTTA-T--TAA
1 TATATTATTTATTAATAA
1828946 TATATTA--TATTAATAA
1 TATATTATTTATTAATAA
1828962 TATATTATTTATTAATAA
1 TATATTATTTATTAATAA
1828980 TATATTATT
1 TATATTATT
1828989 ATAATATTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
13 2 0.05
14 1 0.03
15 7 0.18
16 10 0.26
18 18 0.47
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TATATTATTTATTAATAA
Found at i:1828986 original size:34 final size:33
Alignment explanation
Indices: 1828931--1829051 Score: 102
Period size: 30 Copynumber: 3.9 Consensus size: 33
1828921 TGTTATTTTT
1828931 TATATTATTTA-T--TAATATATTATATTAATAA
1 TATATTATTTATTAATAATATATTATATT-ATAA
1828962 TATATTATTTATTAATAATATA-T-TATTATAA
1 TATATTATTTATTAATAATATATTATATTATAA
** * * *
1828993 TAT-TTATGAATTAA-ATTA-ATGATATT-TAG
1 TATATTATTTATTAATAATATATTATATTATAA
1829022 TATATTATTTATTAAT-ATAATATTAT-TTAT
1 TATATTATTTATTAATAAT-ATATTATATTAT
1829052 TTATTAATAT
Statistics
Matches: 71, Mismatches: 9, Indels: 19
0.72 0.09 0.19
Matches are distributed among these distances:
28 1 0.01
29 8 0.11
30 23 0.32
31 21 0.30
32 10 0.14
33 1 0.01
34 7 0.10
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (33 bp):
TATATTATTTATTAATAATATATTATATTATAA
Found at i:1829071 original size:18 final size:20
Alignment explanation
Indices: 1828930--1829066 Score: 78
Period size: 22 Copynumber: 7.0 Consensus size: 20
1828920 TTGTTATTTT
*
1828930 TTATATTATTTAT-TAATATA
1 TTAT-TTATTAATATAATATA
1828950 TTA--TATT-A-ATAATATA
1 TTATTTATTAATATAATATA
1828966 TTATTTATT-A-ATAATATA
1 TTATTTATTAATATAATATA
*
1828984 TTA-TTA-TAATAT-TTATGAA
1 TTATTTATTAATATAATAT--A
* * * *
1829003 TTAAATTAATGATATTTAGTATA
1 TT--ATTTATTA-ATATAATATA
1829026 TTATTTATTAATATAATATTA
1 TTATTTATTAATATAATA-TA
1829047 TTTATTTATTAATATAATAT
1 -TTATTTATTAATATAATAT
1829067 TATTTTTAAG
Statistics
Matches: 93, Mismatches: 9, Indels: 29
0.71 0.07 0.22
Matches are distributed among these distances:
16 12 0.13
17 11 0.12
18 18 0.19
19 3 0.03
20 9 0.10
21 10 0.11
22 20 0.22
23 4 0.04
24 3 0.03
25 3 0.03
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (20 bp):
TTATTTATTAATATAATATA
Found at i:1829630 original size:31 final size:31
Alignment explanation
Indices: 1829553--1829687 Score: 139
Period size: 31 Copynumber: 4.3 Consensus size: 31
1829543 GCTTAGTTGG
*
1829553 AAATCTAAAATTTGGGCTTTGTTTGGGTTAA
1 AAATCTAAATTTTGGGCTTTGTTTGGGTTAA
* *
1829584 GACATCTGAATTTTGGGCTTTGTTT-GGTTCAA
1 -AAATCTAAATTTTGGGCTTTGTTTGGGTT-AA
* * * *
1829616 AAATCTAAATTTTGGACTTTATTCGAGTTAA
1 AAATCTAAATTTTGGGCTTTGTTTGGGTTAA
*
1829647 GAATCT-AATGTTTGGGCTTTGTTTGGGTTCAA
1 AAATCTAAAT-TTTGGGCTTTGTTTGGGTT-AA
*
1829679 TAATCTAAA
1 AAATCTAAA
1829688 GTGGCCCAAG
Statistics
Matches: 83, Mismatches: 15, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
30 3 0.04
31 45 0.54
32 33 0.40
33 2 0.02
ACGTcount: A:0.27, C:0.10, G:0.21, T:0.42
Consensus pattern (31 bp):
AAATCTAAATTTTGGGCTTTGTTTGGGTTAA
Found at i:1829646 original size:63 final size:63
Alignment explanation
Indices: 1829553--1829687 Score: 184
Period size: 63 Copynumber: 2.1 Consensus size: 63
1829543 GCTTAGTTGG
* * * *
1829553 AAATCTAAAATTTGGGCTTTGTTTGGGTTAAGACATCTGAAT-TTTGGGCTTTGTTT-GGTTCAA
1 AAATCTAAAATTTGGACTTTATTCGAGTTAAGA-ATCT-AATGTTTGGGCTTTGTTTGGGTTCAA
*
1829616 AAATCTAAATTTTGGACTTTATTCGAGTTAAGAATCTAATGTTTGGGCTTTGTTTGGGTTCAA
1 AAATCTAAAATTTGGACTTTATTCGAGTTAAGAATCTAATGTTTGGGCTTTGTTTGGGTTCAA
*
1829679 TAATCTAAA
1 AAATCTAAA
1829688 GTGGCCCAAG
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
61 3 0.05
62 18 0.28
63 43 0.67
ACGTcount: A:0.27, C:0.10, G:0.21, T:0.42
Consensus pattern (63 bp):
AAATCTAAAATTTGGACTTTATTCGAGTTAAGAATCTAATGTTTGGGCTTTGTTTGGGTTCAA
Found at i:1830814 original size:32 final size:32
Alignment explanation
Indices: 1830768--1830866 Score: 94
Period size: 32 Copynumber: 3.1 Consensus size: 32
1830758 AAAAATAATG
*
1830768 ATTTGTATATTTATATAACATAAAATATTAAA
1 ATTTATATATTTATATAACATAAAATATTAAA
* ***
1830800 ATTTATATATTTATATAATATTTTATA-TAAA
1 ATTTATATATTTATATAACATAAAATATTAAA
* *
1830831 AATTATATATTATGATTTAACATAAAA-ATATAAA
1 ATTTATATATT-T-ATATAACATAAAATAT-TAAA
1830865 AT
1 AT
1830867 ATAATTTTTT
Statistics
Matches: 51, Mismatches: 12, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
31 14 0.27
32 24 0.47
33 8 0.16
34 5 0.10
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (32 bp):
ATTTATATATTTATATAACATAAAATATTAAA
Found at i:1830839 original size:25 final size:26
Alignment explanation
Indices: 1830811--1830859 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
1830801 TTTATATATT
* *
1830811 TATATAAT-ATTTTATATAAAAATTA
1 TATATAATGATTTAACATAAAAATTA
*
1830836 TATATTATGATTTAACATAAAAAT
1 TATATAATGATTTAACATAAAAAT
1830860 ATAAAATATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 7 0.35
26 13 0.65
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (26 bp):
TATATAATGATTTAACATAAAAATTA
Found at i:1833693 original size:16 final size:15
Alignment explanation
Indices: 1833662--1833704 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 15
1833652 TCAACACACT
*
1833662 TTTTTTTTCTTTTTTC
1 TTTTTTTT-TTGTTTC
1833678 TTCTTTTTTTTGTTTC
1 TT-TTTTTTTTGTTTC
1833694 TTTTTTTTTTG
1 TTTTTTTTTTG
1833705 AAAAAGTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
15 9 0.36
16 10 0.40
17 6 0.24
ACGTcount: A:0.00, C:0.09, G:0.05, T:0.86
Consensus pattern (15 bp):
TTTTTTTTTTGTTTC
Found at i:1833891 original size:42 final size:42
Alignment explanation
Indices: 1833743--1834076 Score: 442
Period size: 42 Copynumber: 7.9 Consensus size: 42
1833733 AAGCTCAATG
*
1833743 ACTTTGAAAGAATAAAATGCAT-ATCTAAATAGAGGCAACCACA
1 ACTTTGAAA-AATAAAATGC-TCCTCTAAATAGAGGCAACCACA
* * *
1833786 ACTTTAAAAAAATAAAATGCTCCTCTAAATTGAGACAACCACA
1 ACTTT-GAAAAATAAAATGCTCCTCTAAATAGAGGCAACCACA
1833829 ACTTTTGAAAAATAAAATGCTCCTCTAAATAGAGGCAACCACA
1 AC-TTTGAAAAATAAAATGCTCCTCTAAATAGAGGCAACCACA
*
1833872 ACTTTGAAAAATAAAATGCTCATCTAAATAGAGGCAACCACA
1 ACTTTGAAAAATAAAATGCTCCTCTAAATAGAGGCAACCACA
* *
1833914 ACTTTGAAAAATAAAATGCTCCTCTAAATATAGGCAA-CAAA
1 ACTTTGAAAAATAAAATGCTCCTCTAAATAGAGGCAACCACA
* * *
1833955 ACTTTGAAAAAATATATTGCTCCTCTAAATAGAGGCAA-CAGA
1 ACTTTG-AAAAATAAAATGCTCCTCTAAATAGAGGCAACCACA
* * * * *
1833997 TCTTTGGAAAAATAAAATGCTCTTCTAAATAAAGGGAACCATA
1 ACTTT-GAAAAATAAAATGCTCCTCTAAATAGAGGCAACCACA
*
1834040 ACTTTGAAAGAT-AAATGCTCCTCTAAATAGAGGCAAC
1 ACTTTGAAAAATAAAATGCTCCTCTAAATAGAGGCAAC
1834077 AGAACTTAAA
Statistics
Matches: 258, Mismatches: 27, Indels: 14
0.86 0.09 0.05
Matches are distributed among these distances:
41 31 0.12
42 142 0.55
43 79 0.31
44 6 0.02
ACGTcount: A:0.46, C:0.18, G:0.12, T:0.24
Consensus pattern (42 bp):
ACTTTGAAAAATAAAATGCTCCTCTAAATAGAGGCAACCACA
Found at i:1834375 original size:21 final size:21
Alignment explanation
Indices: 1834340--1834398 Score: 66
Period size: 22 Copynumber: 2.8 Consensus size: 21
1834330 GCTCATATCA
**
1834340 AAAATTCTT-ATTTGAAACTTG
1 AAAATT-TTCATTTGAAACTCC
*
1834361 AAGATTTTCATTTGAAAACTCC
1 AAAATTTTCATTTG-AAACTCC
1834383 AAAATTTTCATTTGAA
1 AAAATTTTCATTTGAA
1834399 GATTTCTAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 2 0.06
21 12 0.38
22 18 0.56
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.41
Consensus pattern (21 bp):
AAAATTTTCATTTGAAACTCC
Found at i:1835289 original size:19 final size:19
Alignment explanation
Indices: 1835250--1835300 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
1835240 TGAGTCTTTC
*
1835250 TTTTTTATTTTTTCTCATT
1 TTTTTTATTTTTTATCATT
1835269 TTTTTTATTTTTTAT--TT
1 TTTTTTATTTTTTATCATT
1835286 TTTTGTTCATTTTTT
1 TTTT-TT-ATTTTTT
1835301 TAAGCATAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 6 0.21
18 2 0.07
19 21 0.72
ACGTcount: A:0.10, C:0.06, G:0.02, T:0.82
Consensus pattern (19 bp):
TTTTTTATTTTTTATCATT
Found at i:1846045 original size:202 final size:204
Alignment explanation
Indices: 1845696--1846061 Score: 453
Period size: 202 Copynumber: 1.8 Consensus size: 204
1845686 AAAAAAATAC
* * **
1845696 AATTATTTGTATTAAAATTTCATCTAAATTATTCCACAATTTGGGTCAAATTTAGAGAAAATTTT
1 AATTATTTGTATTAAAATTTCATCTAAATTATTCCACAATTTGGATCAAATTTAGACAAAATTCC
* * * *
1845761 TCACCTAAAGATTTCTTAGAAATTTACCATTTGAAATTTATAAGAATCTTATCCTTGGGTAATTT
66 TCACCTAAAGATTTCTTAAAAATTTACCATTTGAAATTTATAAGAATCTTATCATTGGATAATTA
*
1845826 GTATTTAATTCCAAAATTTT-TTA-TATTTTTATGGTTTTTTATTTTATATATTTTTGTTTTAAA
131 ATATTTAATTCCAAAATTTTATTACTATTTTTATGGTTTTTTATTTTATATATTTTTGTTTTAAA
1845889 ATAAATATT
196 ATAAATATT
* * * * *
1845898 AATTA-TTGTTATTGAAATTTTATTTAAATTATTTCACCATTTGAGAT-AAATTTAGACAAAATT
1 AATTATTTG-TATTAAAATTTCATCTAAATTATTCCACAATTTG-GATCAAATTTAGACAAAATT
* *
1845961 CCTCACCT-AGGAATTT-TATAAAAATTTACCATTTGAAATTTCTATA-AAT-TCTATCATTGGA
64 CCTCACCTAAAG-ATTTCT-TAAAAATTTACCATTTGAAATTTATA-AGAATCT-TATCATTGGA
*
1846022 TAATTAATATTT-ATTCTCAAAATTTTATTACTTTTTTTAT
125 TAATTAATATTTAATTC-CAAAATTTTATTACTATTTTTAT
1846062 TTTTTATTAA
Statistics
Matches: 138, Mismatches: 17, Indels: 16
0.81 0.10 0.09
Matches are distributed among these distances:
201 11 0.08
202 113 0.82
203 6 0.04
204 8 0.06
ACGTcount: A:0.35, C:0.09, G:0.07, T:0.48
Consensus pattern (204 bp):
AATTATTTGTATTAAAATTTCATCTAAATTATTCCACAATTTGGATCAAATTTAGACAAAATTCC
TCACCTAAAGATTTCTTAAAAATTTACCATTTGAAATTTATAAGAATCTTATCATTGGATAATTA
ATATTTAATTCCAAAATTTTATTACTATTTTTATGGTTTTTTATTTTATATATTTTTGTTTTAAA
ATAAATATT
Found at i:1847465 original size:21 final size:20
Alignment explanation
Indices: 1847432--1847470 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
1847422 ATCATCATAA
* *
1847432 CTTTTTAACTTTATTTTTTT
1 CTTTTCAACTTTAATTTTTT
1847452 CTTTTCAATCTTTAATTTT
1 CTTTTCAA-CTTTAATTTT
1847471 CTAATAGAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.18, C:0.13, G:0.00, T:0.69
Consensus pattern (20 bp):
CTTTTCAACTTTAATTTTTT
Found at i:1849329 original size:18 final size:18
Alignment explanation
Indices: 1849303--1849452 Score: 64
Period size: 18 Copynumber: 8.5 Consensus size: 18
1849293 TTATGCTTTA
*
1849303 TATTAATTATTAATATAT
1 TATTTATTATTAATATAT
*
1849321 TATTTATTAATAATATAT
1 TATTTATTATTAATATAT
* * * *
1849339 TATTAATATGTTATTATAA
1 TATTTAT-TATTAATATAT
*
1849358 TATTTATGAATT-A-A-AT
1 TATTTAT-TATTAATATAT
* *
1849374 TA-ATAATATT--TAGTAT
1 TATTTATTATTAATA-TAT
1849390 TATATTATTTATTAATATAT
1 TAT-TTA-TTATTAATATAT
* * *
1849410 CA--TATTAATAGTATAT
1 TATTTATTATTAATATAT
* * *
1849426 TATTTGTTAATAATATAC
1 TATTTATTATTAATATAT
1849444 TATTTATTA
1 TATTTATTA
1849453 ATATATTATA
Statistics
Matches: 95, Mismatches: 26, Indels: 22
0.66 0.18 0.15
Matches are distributed among these distances:
14 4 0.04
15 2 0.02
16 18 0.19
17 3 0.03
18 43 0.45
19 19 0.20
20 4 0.04
21 2 0.02
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.53
Consensus pattern (18 bp):
TATTTATTATTAATATAT
Found at i:1849492 original size:49 final size:50
Alignment explanation
Indices: 1849388--1849494 Score: 123
Period size: 49 Copynumber: 2.2 Consensus size: 50
1849378 AATATTTAGT
* **
1849388 ATTATATTATTTATTAATATATCATATTAATAGTATATTATTTGTTAATA
1 ATTATACTATTTATTAATATATCATATTAATAGTATATTATAAGTTAATA
* *
1849438 A-TATACTATTTATTAATATATTATAATATAATATTAT-TTATAAG-TAA-A
1 ATTATACTATTTATTAATATATCAT-AT-TAATAGTATATTATAAGTTAATA
1849486 ATTATACTA
1 ATTATACTA
1849495 AAAAATATTG
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
48 2 0.04
49 31 0.63
50 8 0.16
51 8 0.16
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (50 bp):
ATTATACTATTTATTAATATATCATATTAATAGTATATTATAAGTTAATA
Found at i:1850723 original size:2 final size:2
Alignment explanation
Indices: 1850716--1850753 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
1850706 CAATTTACTG
*
1850716 AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1850754 TCATGTCTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1850906 original size:25 final size:26
Alignment explanation
Indices: 1850856--1850911 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
1850846 TTTATATTTT
* * *
1850856 ATTTTATATAAAAATACTGTATTATA
1 ATTTAATATAAAAATACTATAATATA
1850882 ATTTAATATAAAAATA-TATAATATA
1 ATTTAATATAAAAATACTATAATATA
1850907 ATTTA
1 ATTTA
1850912 TTTATTTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 12 0.44
26 15 0.56
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (26 bp):
ATTTAATATAAAAATACTATAATATA
Found at i:1851280 original size:12 final size:12
Alignment explanation
Indices: 1851252--1851297 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
1851242 CCAGCCCCAG
*
1851252 CTCCACCACCAA
1 CTCCACCACCGA
*
1851264 ATCCACCACCGA
1 CTCCACCACCGA
* *
1851276 CTCCACCTCCGG
1 CTCCACCACCGA
1851288 CTCCACCACC
1 CTCCACCACC
1851298 ACCACCAAAC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.24, C:0.59, G:0.07, T:0.11
Consensus pattern (12 bp):
CTCCACCACCGA
Found at i:1851298 original size:36 final size:36
Alignment explanation
Indices: 1851251--1851339 Score: 105
Period size: 36 Copynumber: 2.5 Consensus size: 36
1851241 ACCAGCCCCA
*
1851251 GCTCCACCACCAAATCCACC-ACCGA-CTCCACCTCCG
1 GCTCCACCACC-AA-CCACCAACCCACCTCCACCTCCG
*
1851287 GCTCCACCACC-ACCACCAAACCCACCTCCACCTCCT
1 GCTCCACCACCAACCACC-AACCCACCTCCACCTCCG
1851323 GCTCCACCACC-ACCACC
1 GCTCCACCACCAACCACC
1851340 TAGTCCACCT
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
33 5 0.10
34 1 0.02
35 4 0.08
36 38 0.79
ACGTcount: A:0.25, C:0.60, G:0.06, T:0.10
Consensus pattern (36 bp):
GCTCCACCACCAACCACCAACCCACCTCCACCTCCG
Found at i:1851300 original size:30 final size:31
Alignment explanation
Indices: 1851266--1851351 Score: 84
Period size: 33 Copynumber: 2.6 Consensus size: 31
1851256 ACCACCAAAT
*
1851266 CCACCACCGACTCCACCTCCGGCTCCACCACCA
1 CCACCACCCACTCCACCTCCGGCT-C-CCACCA
*
1851299 CCACCAAACCCACCTCCACCTCCTGCT-CCACCA
1 CCACC--ACCCA-CTCCACCTCCGGCTCCCACCA
* *
1851332 CCACCACCTAGTCCACCTCC
1 CCACCACCCACTCCACCTCC
1851352 AAACCCACCA
Statistics
Matches: 46, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
30 9 0.20
31 4 0.09
33 16 0.35
35 4 0.09
36 13 0.28
ACGTcount: A:0.22, C:0.60, G:0.06, T:0.12
Consensus pattern (31 bp):
CCACCACCCACTCCACCTCCGGCTCCCACCA
Found at i:1851329 original size:18 final size:18
Alignment explanation
Indices: 1851276--1851352 Score: 59
Period size: 18 Copynumber: 4.3 Consensus size: 18
1851266 CCACCACCGA
* *
1851276 CTCCACCTCCGGCTCCAC
1 CTCCACCACCTGCTCCAC
* **
1851294 CACCACCACCAAAC-CCAC
1 CTCCACCACC-TGCTCCAC
*
1851312 CTCCACCTCCTGCTCCAC
1 CTCCACCACCTGCTCCAC
*
1851330 CACCACCACCTAG-TCCAC
1 CTCCACCACCT-GCTCCAC
1851348 CTCCA
1 CTCCA
1851353 AACCCACCAC
Statistics
Matches: 45, Mismatches: 11, Indels: 6
0.73 0.18 0.10
Matches are distributed among these distances:
17 1 0.02
18 42 0.93
19 2 0.04
ACGTcount: A:0.22, C:0.60, G:0.05, T:0.13
Consensus pattern (18 bp):
CTCCACCACCTGCTCCAC
Found at i:1851351 original size:24 final size:24
Alignment explanation
Indices: 1851324--1851402 Score: 59
Period size: 27 Copynumber: 3.0 Consensus size: 24
1851314 CCACCTCCTG
1851324 CTCCACCACCACCACCTAGTCCAC
1 CTCCACCACCACCACCTAGTCCAC
** *
1851348 CTCCAAACCCACCACCAGCTCCTCCTCCAA
1 CTCC--A-CCACCACCA---CCTAGTCCAC
* *
1851378 ATCCAGCACCACCACCTAGTCCAC
1 CTCCACCACCACCACCTAGTCCAC
1851402 C
1 C
1851403 ACCTCCCCCA
Statistics
Matches: 40, Mismatches: 9, Indels: 12
0.66 0.15 0.20
Matches are distributed among these distances:
24 11 0.28
26 1 0.03
27 17 0.43
28 1 0.03
30 10 0.25
ACGTcount: A:0.27, C:0.56, G:0.05, T:0.13
Consensus pattern (24 bp):
CTCCACCACCACCACCTAGTCCAC
Found at i:1851454 original size:18 final size:18
Alignment explanation
Indices: 1851431--1851471 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
1851421 CCCTCCACCC
* **
1851431 CCACCTCCGCCAAGTCCA
1 CCACCTCCACCAACCCCA
1851449 CCACCTCCACCAACCCCA
1 CCACCTCCACCAACCCCA
1851467 CCACC
1 CCACC
1851472 AGCACCCCCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.24, C:0.63, G:0.05, T:0.07
Consensus pattern (18 bp):
CCACCTCCACCAACCCCA
Found at i:1851468 original size:66 final size:66
Alignment explanation
Indices: 1851344--1851471 Score: 148
Period size: 66 Copynumber: 1.9 Consensus size: 66
1851334 ACCACCTAGT
* * * * * **
1851344 CCACCTCCAAACCCACCACCAGCTCCTCCTCCAAATCCAGCACCACCACCTAGTCCACCACCTCC
1 CCACCTCCAAACCCACCACCACCACCTCCGCCAAATCCACCACCACCACCAACCCCACCACCTCC
1851409 C
66 C
* * * * *
1851410 CCACCTCCGAACCCTCCACCCCCACCTCCGCCAAGTCCACCACCTCCACCAACCCCACCACC
1 CCACCTCCAAACCCACCACCACCACCTCCGCCAAATCCACCACCACCACCAACCCCACCACC
1851472 AGCACCCCCA
Statistics
Matches: 50, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
66 50 1.00
ACGTcount: A:0.24, C:0.61, G:0.05, T:0.10
Consensus pattern (66 bp):
CCACCTCCAAACCCACCACCACCACCTCCGCCAAATCCACCACCACCACCAACCCCACCACCTCC
C
Found at i:1851539 original size:24 final size:24
Alignment explanation
Indices: 1851492--1851562 Score: 88
Period size: 24 Copynumber: 3.0 Consensus size: 24
1851482 CCAAATCCAG
* *
1851492 CTCCACCACCTAACCCTCCTCCAC
1 CTCCACCACCTAACCCACCACCAC
*
1851516 CTCCACCACCAAACCCACCACCAC
1 CTCCACCACCTAACCCACCACCAC
* * *
1851540 CTCCTCCTCCTAAGCCACCACCA
1 CTCCACCACCTAACCCACCACCA
1851563 AATCTCGGTC
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 40 1.00
ACGTcount: A:0.25, C:0.61, G:0.01, T:0.13
Consensus pattern (24 bp):
CTCCACCACCTAACCCACCACCAC
Found at i:1852726 original size:36 final size:36
Alignment explanation
Indices: 1852679--1852750 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
1852669 CGACTCTCGG
* *
1852679 CATAATCTCTTTATTCTTTATTATTTACTAAATGAA
1 CATAATATCTTTATTCTTTATTATTTACCAAATGAA
*
1852715 CATAATATCTTTATTCTTTATTCTTTACCAAATGAA
1 CATAATATCTTTATTCTTTATTATTTACCAAATGAA
1852751 GCATGGTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.33, C:0.15, G:0.03, T:0.49
Consensus pattern (36 bp):
CATAATATCTTTATTCTTTATTATTTACCAAATGAA
Found at i:1858703 original size:24 final size:24
Alignment explanation
Indices: 1858668--1858717 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
1858658 GTGAATCATC
* * *
1858668 ATTCTCATTTTTTTTGTAATAAAT
1 ATTCTCACTTTTATTGCAATAAAT
*
1858692 ATTCTCACTTTTATTGCAGTAAAT
1 ATTCTCACTTTTATTGCAATAAAT
1858716 AT
1 AT
1858718 AAAATAACGG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.30, C:0.12, G:0.06, T:0.52
Consensus pattern (24 bp):
ATTCTCACTTTTATTGCAATAAAT
Found at i:1864809 original size:18 final size:17
Alignment explanation
Indices: 1864776--1864817 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
1864766 CTGCTTAAAA
1864776 GAAAATTAAAACTCAAT
1 GAAAATTAAAACTCAAT
* *
1864793 TAAAATTCAAAATTCAAT
1 GAAAATT-AAAACTCAAT
1864811 GAAAATT
1 GAAAATT
1864818 TACCTTAGAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.57, C:0.10, G:0.05, T:0.29
Consensus pattern (17 bp):
GAAAATTAAAACTCAAT
Found at i:1866167 original size:13 final size:13
Alignment explanation
Indices: 1866151--1866209 Score: 55
Period size: 13 Copynumber: 4.4 Consensus size: 13
1866141 ATTATTATAA
1866151 ATAAATATTTATT
1 ATAAATATTTATT
* *
1866164 ATAAAAATTTATA
1 ATAAATATTTATT
* *
1866177 ATAAATTTTTTTT
1 ATAAATATTTATT
*
1866190 ATTATATATATTATT
1 A-TAAATAT-TTATT
1866205 ATAAA
1 ATAAA
1866210 AAAAATTAGG
Statistics
Matches: 34, Mismatches: 10, Indels: 3
0.72 0.21 0.06
Matches are distributed among these distances:
13 21 0.62
14 8 0.24
15 5 0.15
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
ATAAATATTTATT
Found at i:1866617 original size:30 final size:30
Alignment explanation
Indices: 1866553--1866620 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
1866543 TATTATAATT
* *
1866553 AATTAAATCATAAATTTTTTATTTTAAATC
1 AATTAAACCATAAATTATTTATTTTAAATC
*
1866583 AATTAAACCATTAAA-TATTTATTTT-CATC
1 AATTAAACCA-TAAATTATTTATTTTAAATC
1866612 AAATTAAAC
1 -AATTAAAC
1866621 TTTTATCTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 3 0.09
30 26 0.79
31 4 0.12
ACGTcount: A:0.46, C:0.10, G:0.00, T:0.44
Consensus pattern (30 bp):
AATTAAACCATAAATTATTTATTTTAAATC
Found at i:1868092 original size:11 final size:11
Alignment explanation
Indices: 1868046--1868092 Score: 57
Period size: 10 Copynumber: 4.5 Consensus size: 11
1868036 TATAAAATAT
1868046 ATTTT-TTAAA
1 ATTTTATTAAA
1868056 ATTTTATT-AA
1 ATTTTATTAAA
1868066 A-TTTATATAAA
1 ATTTTAT-TAAA
1868077 A-TTTATTAAA
1 ATTTTATTAAA
1868087 ATTTTA
1 ATTTTA
1868093 AATTGTATCA
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
9 5 0.15
10 14 0.42
11 14 0.42
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (11 bp):
ATTTTATTAAA
Found at i:1870686 original size:19 final size:19
Alignment explanation
Indices: 1870662--1870699 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
1870652 TGCTATGTAA
1870662 GTCATGAAATATGATTGTT
1 GTCATGAAATATGATTGTT
1870681 GTCATGAAATATGATTGTT
1 GTCATGAAATATGATTGTT
1870700 TGTCTCTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.05, G:0.21, T:0.42
Consensus pattern (19 bp):
GTCATGAAATATGATTGTT
Found at i:1884102 original size:8 final size:8
Alignment explanation
Indices: 1884085--1884122 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
1884075 TTCAAACCAA
1884085 AAAAAT-T
1 AAAAATAT
*
1884092 AAAAACAT
1 AAAAATAT
1884100 AAAAAGTAT
1 AAAAA-TAT
1884109 AAAAATAT
1 AAAAATAT
1884117 AAAAAT
1 AAAAAT
1884123 TTTTGGAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
7 5 0.19
8 15 0.56
9 7 0.26
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.21
Consensus pattern (8 bp):
AAAAATAT
Found at i:1890656 original size:15 final size:15
Alignment explanation
Indices: 1890651--1890696 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
1890641 AAAAATTGAA
*
1890651 AAAAGAATGAAAAAAT
1 AAAA-AATGAAAAAAG
*
1890667 AAAAAATGAAAAATG
1 AAAAAATGAAAAAAG
1890682 AAAAAAT-AAAAAAG
1 AAAAAATGAAAAAAG
1890696 A
1 A
1890697 TGAAAATGAG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
14 7 0.26
15 16 0.59
16 4 0.15
ACGTcount: A:0.78, C:0.00, G:0.11, T:0.11
Consensus pattern (15 bp):
AAAAAATGAAAAAAG
Found at i:1890670 original size:7 final size:7
Alignment explanation
Indices: 1890660--1890694 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
1890650 AAAAAGAATG
1890660 AAAAAAT
1 AAAAAAT
1890667 AAAAAAT
1 AAAAAAT
*
1890674 GAAAAAT
1 AAAAAAT
1890681 GAAAAAAT
1 -AAAAAAT
1890689 AAAAAA
1 AAAAAA
1890695 GATGAAAATG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 19 0.76
8 6 0.24
ACGTcount: A:0.83, C:0.00, G:0.06, T:0.11
Consensus pattern (7 bp):
AAAAAAT
Found at i:1890715 original size:23 final size:23
Alignment explanation
Indices: 1890641--1890715 Score: 62
Period size: 26 Copynumber: 3.1 Consensus size: 23
1890631 AAAGAAGAAG
* *
1890641 AAAAATTGAAAAAAGAATGAAAAAA
1 AAAAAATGAAAAATGAA--AAAAAA
1890666 TAAAAAATGAAAAATGAAAAAATAA
1 -AAAAAATGAAAAATGAAAAAA-AA
* * *
1890691 AAAAGATG-AAAATGAGAGAAAA
1 AAAAAATGAAAAATGAAAAAAAA
1890713 AAA
1 AAA
1890716 GACTCAAATT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
22 5 0.12
23 10 0.23
24 11 0.26
25 2 0.05
26 15 0.35
ACGTcount: A:0.75, C:0.00, G:0.13, T:0.12
Consensus pattern (23 bp):
AAAAAATGAAAAATGAAAAAAAA
Found at i:1892200 original size:45 final size:45
Alignment explanation
Indices: 1892110--1892400 Score: 406
Period size: 45 Copynumber: 6.5 Consensus size: 45
1892100 CATGATTGTC
* * * *
1892110 GAGGAGCAATTTATTTTTTTCAAAGTC-GTGATTACCTTTGTTTA
1 GAGGAGCAATTTATTTTTTTCAAAGTCAGTGGTTGCCTCTATTTA
* * *
1892154 GATGAGTAATTTATTTTTTTCAAAGTCAGTGGTTGTCTCTATTTA
1 GAGGAGCAATTTATTTTTTTCAAAGTCAGTGGTTGCCTCTATTTA
* *
1892199 GAGAAGCAATTTATTTTTTTCAAAGTCAATGGTTGCCTCTATTTA
1 GAGGAGCAATTTATTTTTTTCAAAGTCAGTGGTTGCCTCTATTTA
*
1892244 GAGGAGCAATTTATTTTTTT-AAAGTCATCGTGGTTGCCTCTGTTTA
1 GAGGAGCAATTTATTTTTTTCAAAGTCA--GTGGTTGCCTCTATTTA
* * * * *
1892290 GAAGAGCAATTTATTTTTTCCAAAGTCAGTGGTTACCCCTGTTTA
1 GAGGAGCAATTTATTTTTTTCAAAGTCAGTGGTTGCCTCTATTTA
*
1892335 GAGGAGCAATTTATTTTTTTCAAAGTTAGTGGTTGCCTCTATTTA
1 GAGGAGCAATTTATTTTTTTCAAAGTCAGTGGTTGCCTCTATTTA
1892380 GAGGAGCAATTTATTTTTTTC
1 GAGGAGCAATTTATTTTTTTC
1892401 CAAAAGTTAC
Statistics
Matches: 218, Mismatches: 25, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
44 32 0.15
45 146 0.67
46 33 0.15
47 7 0.03
ACGTcount: A:0.25, C:0.12, G:0.19, T:0.44
Consensus pattern (45 bp):
GAGGAGCAATTTATTTTTTTCAAAGTCAGTGGTTGCCTCTATTTA
Found at i:1892404 original size:91 final size:90
Alignment explanation
Indices: 1892110--1892400 Score: 415
Period size: 91 Copynumber: 3.2 Consensus size: 90
1892100 CATGATTGTC
* * * *
1892110 GAGGAGCAATTTATTTTTTTCAAAGTC-GTGATTACCTTTGTTTAGATGAGTAATTTATTTTTTT
1 GAGGAGCAATTTATTTTTTTCAAAGTCAGTGGTTACCTCTGTTTAGAGGAGCAATTTATTTTTTT
* *
1892174 CAAAGTCAGTGGTTGTCTCTATTTA
66 CAAAGTTAGTGGTTGCCTCTATTTA
* * * *
1892199 GAGAAGCAATTTATTTTTTTCAAAGTCAATGGTTGCCTCTATTTAGAGGAGCAATTTATTTTTTT
1 GAGGAGCAATTTATTTTTTTCAAAGTCAGTGGTTACCTCTGTTTAGAGGAGCAATTTATTTTTTT
* *
1892264 -AAAGTCATCGTGGTTGCCTCTGTTTA
66 CAAAGT--TAGTGGTTGCCTCTATTTA
* * *
1892290 GAAGAGCAATTTATTTTTTCCAAAGTCAGTGGTTACCCCTGTTTAGAGGAGCAATTTATTTTTTT
1 GAGGAGCAATTTATTTTTTTCAAAGTCAGTGGTTACCTCTGTTTAGAGGAGCAATTTATTTTTTT
1892355 CAAAGTTAGTGGTTGCCTCTATTTA
66 CAAAGTTAGTGGTTGCCTCTATTTA
1892380 GAGGAGCAATTTATTTTTTTC
1 GAGGAGCAATTTATTTTTTTC
1892401 CAAAAGTTAC
Statistics
Matches: 175, Mismatches: 23, Indels: 7
0.85 0.11 0.03
Matches are distributed among these distances:
89 31 0.18
90 66 0.38
91 73 0.42
92 5 0.03
ACGTcount: A:0.25, C:0.12, G:0.19, T:0.44
Consensus pattern (90 bp):
GAGGAGCAATTTATTTTTTTCAAAGTCAGTGGTTACCTCTGTTTAGAGGAGCAATTTATTTTTTT
CAAAGTTAGTGGTTGCCTCTATTTA
Found at i:1892642 original size:45 final size:45
Alignment explanation
Indices: 1892585--1893015 Score: 592
Period size: 45 Copynumber: 9.7 Consensus size: 45
1892575 GTCGTCATGA
1892585 TTGCCTCTATTTAGAGGAGCAATTTATTTTTTTCAAAGTCAGTGG
1 TTGCCTCTATTTAGAGGAGCAATTTATTTTTTTCAAAGTCAGTGG
* * *
1892630 TTACCTCTATTTAGAGAAGCAATTTATTTTTTTCAAAGTCAGTGA
1 TTGCCTCTATTTAGAGGAGCAATTTATTTTTTTCAAAGTCAGTGG
*
1892675 TTGCCTCTATTTAGATGAGCAATTTATTTTTTTCAAAGTCAGTGG
1 TTGCCTCTATTTAGAGGAGCAATTTATTTTTTTCAAAGTCAGTGG
* * *
1892720 TTACCTCTATTTAGAGAAGCAATTTATTTTTTTCAAAGTCAGTGA
1 TTGCCTCTATTTAGAGGAGCAATTTATTTTTTTCAAAGTCAGTGG
* *
1892765 TTGCCTCTATTTAGATGAGCAATTTA-TTTTTTCAAAGTCGTCGTGG
1 TTGCCTCTATTTAGAGGAGCAATTTATTTTTTTCAAAGTC--AGTGG
*
1892811 TTGCCTCTGTTTAGAGGAGCAATTTATTTTTTTCAAAGTC-GTGG
1 TTGCCTCTATTTAGAGGAGCAATTTATTTTTTTCAAAGTCAGTGG
*
1892855 TTG-C-C----TAGAGGAGCAATTTATTTTTTTTCAAAGTCAATGG
1 TTGCCTCTATTTAGAGGAGCAATTTA-TTTTTTTCAAAGTCAGTGG
* * * *
1892895 TTGCCTCTGTTTAGATGAGCAATTTATTTTTTTCAAAGTTAGTGA
1 TTGCCTCTATTTAGAGGAGCAATTTATTTTTTTCAAAGTCAGTGG
* *
1892940 TTGCCTCTATTTAGAAGAGCAATTTATTTTTTTTCAAAAATC-GTGG
1 TTGCCTCTATTTAGAGGAGCAATTTA-TTTTTTTC-AAAGTCAGTGG
*
1892986 TTGCCTCTTTTTAGAGGAGCAATTTATTTT
1 TTGCCTCTATTTAGAGGAGCAATTTATTTT
1893016 CGAAATTGTG
Statistics
Matches: 343, Mismatches: 30, Indels: 26
0.86 0.08 0.07
Matches are distributed among these distances:
38 15 0.04
39 14 0.04
40 6 0.02
41 1 0.00
42 2 0.01
43 1 0.00
44 20 0.06
45 191 0.56
46 76 0.22
47 17 0.05
ACGTcount: A:0.26, C:0.13, G:0.18, T:0.44
Consensus pattern (45 bp):
TTGCCTCTATTTAGAGGAGCAATTTATTTTTTTCAAAGTCAGTGG
Found at i:1892930 original size:175 final size:178
Alignment explanation
Indices: 1892578--1893015 Score: 615
Period size: 175 Copynumber: 2.5 Consensus size: 178
1892568 TTTCAAAGTC
* * *
1892578 GTCA-TGATTGCCTCTATTTAGAGGAGCAATTTATTTTTTTCAAAGTC-AGTGGTTACCTCTATT
1 GTCAGTGATTGCCTCTATTTAGAAGAGCAATTTATTTTTTTCAAAGTCTCGTGGTTGCCTCTATT
* *
1892641 TAGAGAAGCAATTTATTTTTTTCAAAGTCAGTGATTGCCTCTATTTAGATGAGCAATTTATTTTT
66 TAGAGGAGCAATTTATTTTTTTCAAAGTCAGTGATTGCCTC---TTAGAGGAGCAATTTATTTTT
*
1892706 TTCAAAGTCAGTGGTTACCTCTATTTAGAGAAGCAATTTATTTTTTTCAAA
128 TTCAAAGTCAATGGTTACCTCTATTTAGAGAAGCAATTTATTTTTTTCAAA
* *
1892757 GTCAGTGATTGCCTCTATTTAGATGAGCAATTTA-TTTTTTCAAAGTCGTCGTGGTTGCCTCTGT
1 GTCAGTGATTGCCTCTATTTAGAAGAGCAATTTATTTTTTTCAAAGTC-TCGTGGTTGCCTCTAT
*
1892821 TTAGAGGAGCAATTTATTTTTTTCAAAGTC-GTGGTTG-C-C-TAGAGGAGCAATTTATTTTTTT
65 TTAGAGGAGCAATTTATTTTTTTCAAAGTCAGTGATTGCCTCTTAGAGGAGCAATTTA-TTTTTT
* *
1892882 TCAAAGTCAATGGTTGCCTCTGTTTAGATG-AGCAATTTATTTTTTTCAAA
129 TCAAAGTCAATGGTTACCTCTATTTAGA-GAAGCAATTTATTTTTTTCAAA
* ** *
1892932 GTTAGTGATTGCCTCTATTTAGAAGAGCAATTTATTTTTTTTCAAA-AATCGTGGTTGCCTCTTT
1 GTCAGTGATTGCCTCTATTTAGAAGAGCAATTTA-TTTTTTTCAAAGTCTCGTGGTTGCCTCTAT
1892996 TTAGAGGAGCAATTTATTTT
65 TTAGAGGAGCAATTTATTTT
1893016 CGAAATTGTG
Statistics
Matches: 237, Mismatches: 15, Indels: 18
0.88 0.06 0.07
Matches are distributed among these distances:
174 14 0.06
175 118 0.50
176 1 0.00
177 10 0.04
178 1 0.00
179 18 0.08
180 34 0.14
181 41 0.17
ACGTcount: A:0.26, C:0.13, G:0.18, T:0.43
Consensus pattern (178 bp):
GTCAGTGATTGCCTCTATTTAGAAGAGCAATTTATTTTTTTCAAAGTCTCGTGGTTGCCTCTATT
TAGAGGAGCAATTTATTTTTTTCAAAGTCAGTGATTGCCTCTTAGAGGAGCAATTTATTTTTTTC
AAAGTCAATGGTTACCTCTATTTAGAGAAGCAATTTATTTTTTTCAAA
Found at i:1893055 original size:42 final size:44
Alignment explanation
Indices: 1893008--1893093 Score: 106
Period size: 44 Copynumber: 2.0 Consensus size: 44
1892998 AGAGGAGCAA
* *
1893008 TTTA-TTTTCGAAA-TTG-TGATGCCTCTGCTTAAAGGAGCTTTG
1 TTTATTTTTCAAAAGTTGTTGA-GCCTCTACTTAAAGGAGCTTTG
* *
1893050 TTTATTTTTCAAAAGTTGTTGAGTCTCTACTTAGAGGAGCTTTG
1 TTTATTTTTCAAAAGTTGTTGAGCCTCTACTTAAAGGAGCTTTG
1893094 ATAAAAAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
42 4 0.11
43 8 0.22
44 22 0.59
45 3 0.08
ACGTcount: A:0.22, C:0.13, G:0.21, T:0.44
Consensus pattern (44 bp):
TTTATTTTTCAAAAGTTGTTGAGCCTCTACTTAAAGGAGCTTTG
Found at i:1893275 original size:4 final size:4
Alignment explanation
Indices: 1893266--1893322 Score: 66
Period size: 4 Copynumber: 15.0 Consensus size: 4
1893256 AGGCCCAAAG
* * *
1893266 ATTT ATTT ATTT ATTT ATCT -TTT ATAT A-TT ATTT -GTT ATTT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
1893311 ATTT ATTT ATTT
1 ATTT ATTT ATTT
1893323 TTTTTTTTCT
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
3 6 0.14
4 38 0.86
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.72
Consensus pattern (4 bp):
ATTT
Found at i:1895541 original size:2 final size:2
Alignment explanation
Indices: 1895534--1895577 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
1895524 AAATAAATAA
1895534 AT AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT AT
1895576 AT
1 AT
1895578 TAGATGCTTC
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1895684 original size:165 final size:165
Alignment explanation
Indices: 1895412--1895721 Score: 548
Period size: 165 Copynumber: 1.9 Consensus size: 165
1895402 GACCTTAATC
*
1895412 TTAGATGCTTCATAGAATTTATGCACAAAACATGTCTTATACATAGTTTTTGACTTTTACTTCCT
1 TTAGATGCTTCATAGAATTTATGCACAAAACATGTCTCATACATAGTTTTTGACTTTTACTTCCT
1895477 AGTTAGGTCTTCCAAGCAAAGAACAAGAAAGGTTTGCTAATATAAATAAATAAATAAATATATAT
66 AGTTAGGTCTTCCAAGCAAAGAACAAGAAAGGTTTGCTAATATAAATAAATAAATAAATATATAT
1895542 ATATATATATATATATATATATATATATATATATA
131 ATATATATATATATATATATATATATATATATATA
*
1895577 TTAGATGCTTCATAGAATTTGTGCACAAAACATGTCTCATACATAGTTTTTGACTTTTACTTCCT
1 TTAGATGCTTCATAGAATTTATGCACAAAACATGTCTCATACATAGTTTTTGACTTTTACTTCCT
* * * * *
1895642 AGTTAGGTCTTCCAAGCAATGAACAAGAAAGGTTTGCTAATATATATATATATATATATATATAT
66 AGTTAGGTCTTCCAAGCAAAGAACAAGAAAGGTTTGCTAATATAAATAAATAAATAAATATATAT
*
1895707 ATATATATTTATATA
131 ATATATATATATATA
1895722 ATCACTCTTT
Statistics
Matches: 137, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
165 137 1.00
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (165 bp):
TTAGATGCTTCATAGAATTTATGCACAAAACATGTCTCATACATAGTTTTTGACTTTTACTTCCT
AGTTAGGTCTTCCAAGCAAAGAACAAGAAAGGTTTGCTAATATAAATAAATAAATAAATATATAT
ATATATATATATATATATATATATATATATATATA
Found at i:1895688 original size:2 final size:2
Alignment explanation
Indices: 1895681--1895721 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
1895671 AGGTTTGCTA
*
1895681 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1895722 ATCACTCTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:1897805 original size:17 final size:18
Alignment explanation
Indices: 1897783--1897821 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
1897773 TTAAATTATT
1897783 TAAATTAACAAAAAC-AA
1 TAAATTAACAAAAACGAA
*
1897800 TAAATTAATAAAAACGAA
1 TAAATTAACAAAAACGAA
1897818 TAAA
1 TAAA
1897822 GAATAAGAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.69, C:0.08, G:0.03, T:0.21
Consensus pattern (18 bp):
TAAATTAACAAAAACGAA
Found at i:1898241 original size:26 final size:26
Alignment explanation
Indices: 1898212--1898263 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
1898202 TTTTTTGTTA
1898212 TTTTTTCATG-TTTA-CTAATTTGTTTG
1 TTTTTT-ATGTTTTATCT-ATTTGTTTG
1898238 TTTTTTATGTTTTATCTATTTGTTTG
1 TTTTTTATGTTTTATCTATTTGTTTG
1898264 AATAGAAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
25 3 0.12
26 19 0.79
27 2 0.08
ACGTcount: A:0.13, C:0.06, G:0.12, T:0.69
Consensus pattern (26 bp):
TTTTTTATGTTTTATCTATTTGTTTG
Found at i:1899022 original size:10 final size:10
Alignment explanation
Indices: 1899007--1899032 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
1898997 TGTTTATTAT
1899007 ATTTAAAATA
1 ATTTAAAATA
1899017 ATTTAAAATA
1 ATTTAAAATA
1899027 ATTTAA
1 ATTTAA
1899033 TTCTTTAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (10 bp):
ATTTAAAATA
Found at i:1901421 original size:58 final size:58
Alignment explanation
Indices: 1901332--1901573 Score: 211
Period size: 58 Copynumber: 4.0 Consensus size: 58
1901322 AGTTTTTTTA
*
1901332 TTTATTTTTAAGAAAAATTGATACTTTCAACTTTTT-TAAAAAAAAAAATTTTTT-AGAAT
1 TTTA-TTTTAAGAAAAATTGATACTTTCAACTTTTTCT--AAAAAAAAATTTTTTAAAAAT
* * * * **
1901391 TTTATTTTAAGAAAAATTGGTACTTCCAACTTTTTCTCAAAATACTTTTTTTAAAAAT
1 TTTATTTTAAGAAAAATTGATACTTTCAACTTTTTCTAAAAAAAAATTTTTTAAAAAT
* * **
1901449 TTTATTTTCAAGGAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTTGAAAATTTTTA
1 TTTATTTT-AAGAAAAATTGATACTTTCAACTTTTTCT-AAAAAAAAATTTTTT-AAAA-----A
1901514 TTT
58 --T
* * *
1901517 TTTATTTTCAAGAAAAATTGATACTTTCATCTTTTTCT-CAAAAATATTTTTTAAAAA
1 TTTATTTT-AAGAAAAATTGATACTTTCAACTTTTTCTAAAAAAAAATTTTTTAAAAA
1901574 ATTAAAAATA
Statistics
Matches: 154, Mismatches: 17, Indels: 23
0.79 0.09 0.12
Matches are distributed among these distances:
57 11 0.07
58 41 0.27
59 31 0.20
60 14 0.09
61 4 0.03
65 4 0.03
66 12 0.08
68 37 0.24
ACGTcount: A:0.38, C:0.09, G:0.05, T:0.48
Consensus pattern (58 bp):
TTTATTTTAAGAAAAATTGATACTTTCAACTTTTTCTAAAAAAAAATTTTTTAAAAAT
Found at i:1901483 original size:59 final size:59
Alignment explanation
Indices: 1901332--1901576 Score: 264
Period size: 68 Copynumber: 4.0 Consensus size: 59
1901322 AGTTTTTTTA
* * * * *
1901332 TTTATTTTTAAGAAAAATTGATACTTTCAACTTTTT-TAAAAAAAAAAATTTTTT-AGAAT
1 TTTATTTTCAAGAAAAATTGATACTTTCAACTTTTTCT--CAAAAATATTTTTTTAAAAAT
* *
1901391 TTTATTTT-AAGAAAAATTGGTACTTCCAACTTTTTCTC-AAAATACTTTTTTTAAAAAT
1 TTTATTTTCAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATA-TTTTTTTAAAAAT
*
1901449 TTTATTTTCAAGGAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTTGAAAATTTTTA
1 TTTATTTTCAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATA-TTTTTTT-AAAA-----A
1901514 TTT
59 --T
* *
1901517 TTTATTTTCAAGAAAAATTGATACTTTCATCTTTTTCTCAAAAATATTTTTTAAAAAAT
1 TTTATTTTCAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTAAAAAT
1901576 T
1 T
1901577 AAAAATATTT
Statistics
Matches: 160, Mismatches: 13, Indels: 26
0.80 0.07 0.13
Matches are distributed among these distances:
56 5 0.03
57 6 0.04
58 37 0.23
59 38 0.24
60 13 0.08
61 5 0.03
66 5 0.03
67 6 0.04
68 45 0.28
ACGTcount: A:0.38, C:0.09, G:0.05, T:0.49
Consensus pattern (59 bp):
TTTATTTTCAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTAAAAAT
Found at i:1901762 original size:19 final size:19
Alignment explanation
Indices: 1901748--1901812 Score: 71
Period size: 20 Copynumber: 3.3 Consensus size: 19
1901738 ATAAAAAAAT
1901748 AAAAAATACTAAAAAAAACC
1 AAAAAATA-TAAAAAAAACC
*
1901768 AAAAAATAT-AAACAAACGC
1 AAAAAATATAAAAAAAAC-C
1901787 ATAAAAA-ATAAAAAAACACC
1 A-AAAAATATAAAAAAA-ACC
1901807 AAAAAA
1 AAAAAA
1901813 ATCAAATTGG
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
18 7 0.18
19 10 0.26
20 20 0.51
21 2 0.05
ACGTcount: A:0.75, C:0.14, G:0.02, T:0.09
Consensus pattern (19 bp):
AAAAAATATAAAAAAAACC
Found at i:1901765 original size:20 final size:19
Alignment explanation
Indices: 1901740--1901812 Score: 58
Period size: 19 Copynumber: 3.7 Consensus size: 19
1901730 ACAAACACAT
*
1901740 AAAAAAATAAAAAATACTAA
1 AAAAAAACAAAAAATA-TAA
*
1901760 AAAAAACCAAAAAATATAA
1 AAAAAAACAAAAAATATAA
* **
1901779 ACAAACGCATAAAAA-ATAA
1 AAAAAAACA-AAAAATATAA
*
1901798 AAAAACACCAAAAAA
1 AAAAA-AACAAAAAA
1901813 ATCAAATTGG
Statistics
Matches: 43, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
19 22 0.51
20 21 0.49
ACGTcount: A:0.77, C:0.12, G:0.01, T:0.10
Consensus pattern (19 bp):
AAAAAAACAAAAAATATAA
Found at i:1901813 original size:19 final size:19
Alignment explanation
Indices: 1901757--1901814 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
1901747 TAAAAAATAC
1901757 TAAAAAAA-ACCAAAAAATA
1 TAAAAAAACACCAAAAAA-A
* *
1901776 TAAACAAAC-GCATAAAAAA
1 TAAAAAAACACCA-AAAAAA
1901795 TAAAAAAACACCAAAAAAA
1 TAAAAAAACACCAAAAAAA
1901814 T
1 T
1901815 CAAATTGGCT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
19 25 0.78
20 7 0.22
ACGTcount: A:0.74, C:0.14, G:0.02, T:0.10
Consensus pattern (19 bp):
TAAAAAAACACCAAAAAAA
Found at i:1902337 original size:18 final size:19
Alignment explanation
Indices: 1902316--1902356 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
1902306 AAATTCACCG
1902316 GAAA-CTGAAAAATTTTCA
1 GAAATCTGAAAAATTTTCA
* *
1902334 GAAATCTGGAAACTTTTCA
1 GAAATCTGAAAAATTTTCA
1902353 -AAAT
1 GAAAT
1902357 TTTCAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.46, C:0.12, G:0.12, T:0.29
Consensus pattern (19 bp):
GAAATCTGAAAAATTTTCA
Found at i:1904450 original size:21 final size:21
Alignment explanation
Indices: 1904426--1904484 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 21
1904416 ATAATAGTAC
*
1904426 AAATTTTATTAATAATTATCA
1 AAATATTATTAATAATTATCA
*
1904447 AAATAATATT-ATAAATTATCA
1 AAATATTATTAAT-AATTATCA
* *
1904468 AAATGTTACTAA-AATTA
1 AAATATTATTAATAATTA
1904485 CCTTATAGTT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
20 7 0.23
21 23 0.74
22 1 0.03
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.41
Consensus pattern (21 bp):
AAATATTATTAATAATTATCA
Found at i:1904603 original size:45 final size:44
Alignment explanation
Indices: 1904546--1904660 Score: 135
Period size: 42 Copynumber: 2.6 Consensus size: 44
1904536 TACTAAAAAA
* * *
1904546 ATATCAAAGATTACTAAAATTGTATTATTTAATATTATCAAAAGT
1 ATATCAATGATTACTAAAATT-TATTATCTAAAATTATCAAAAGT
* *
1904591 ATATCGATGATTACTAAAA-TT-TTATCTAAAATTATCAAAATT
1 ATATCAATGATTACTAAAATTTATTATCTAAAATTATCAAAAGT
* *
1904633 TTATCAATGATGACTAAAATTATATTAT
1 ATATCAATGATTACTAAAATT-TATTAT
1904661 AAGTTACCAA
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
42 34 0.58
43 2 0.03
44 2 0.03
45 21 0.36
ACGTcount: A:0.45, C:0.08, G:0.06, T:0.41
Consensus pattern (44 bp):
ATATCAATGATTACTAAAATTTATTATCTAAAATTATCAAAAGT
Found at i:1904616 original size:21 final size:21
Alignment explanation
Indices: 1904592--1904653 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
1904582 ATCAAAAGTA
*
1904592 TATCGATGATTACTAAAATTT
1 TATCAATGATTACTAAAATTT
*
1904613 TATCTAA-AATTA-TCAAAATTT
1 TATC-AATGATTACT-AAAATTT
*
1904634 TATCAATGATGACTAAAATT
1 TATCAATGATTACTAAAATT
1904654 ATATTATAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
20 3 0.09
21 28 0.85
22 2 0.06
ACGTcount: A:0.44, C:0.10, G:0.06, T:0.40
Consensus pattern (21 bp):
TATCAATGATTACTAAAATTT
Found at i:1904708 original size:21 final size:21
Alignment explanation
Indices: 1904684--1904736 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
1904674 AATATTAAAG
1904684 GTTATCAAAATTGTAT-AGAAA
1 GTTATCAAAATTGTATCA-AAA
*
1904705 GTTATCAAAATTTTATCAAAA
1 GTTATCAAAATTGTATCAAAA
*
1904726 GTTATAAAAAT
1 GTTATCAAAAT
1904737 CAAAATTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 28 0.97
22 1 0.03
ACGTcount: A:0.49, C:0.06, G:0.09, T:0.36
Consensus pattern (21 bp):
GTTATCAAAATTGTATCAAAA
Found at i:1906863 original size:12 final size:12
Alignment explanation
Indices: 1906846--1906887 Score: 59
Period size: 12 Copynumber: 3.5 Consensus size: 12
1906836 TTTTTTAATA
1906846 TAAATATAAAAT
1 TAAATATAAAAT
*
1906858 TAAATA-AATAT
1 TAAATATAAAAT
1906869 ATAAATATAAAAT
1 -TAAATATAAAAT
1906882 TAAATA
1 TAAATA
1906888 AATAATAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
11 4 0.15
12 18 0.69
13 4 0.15
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
TAAATATAAAAT
Found at i:1906873 original size:24 final size:24
Alignment explanation
Indices: 1906843--1906896 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
1906833 ATATTTTTTA
1906843 ATATAAATATAAAATTAAATAAAT
1 ATATAAATATAAAATTAAATAAAT
1906867 ATATAAATATAAAATTAAATAAAT
1 ATATAAATATAAAATTAAATAAAT
1906891 A-ATAAA
1 ATATAAA
1906897 AAATATATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 5 0.17
24 25 0.83
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (24 bp):
ATATAAATATAAAATTAAATAAAT
Found at i:1908916 original size:23 final size:23
Alignment explanation
Indices: 1908901--1908947 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
1908891 ATTTTTATAT
1908901 AAAGTTTTAATATATTTAAATAA
1 AAAGTTTTAATATATTTAAATAA
* *
1908924 AAATTTTTAATATATTTAACTAA
1 AAAGTTTTAATATATTTAAATAA
1908947 A
1 A
1908948 TTTTAATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (23 bp):
AAAGTTTTAATATATTTAAATAA
Found at i:1908923 original size:21 final size:20
Alignment explanation
Indices: 1908894--1908957 Score: 74
Period size: 23 Copynumber: 3.0 Consensus size: 20
1908884 ATATATTATT
*
1908894 TTTATATAAAGTTTTAATATA
1 TTTAAATAAA-TTTTAATATA
1908915 TTTAAATAAAAATTTTTAATATA
1 TTTAAAT--AAA-TTTTAATATA
*
1908938 TTTAACTAAATTTTAATATA
1 TTTAAATAAATTTTAATATA
1908958 AAATTATTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
20 10 0.26
21 9 0.24
23 19 0.50
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (20 bp):
TTTAAATAAATTTTAATATA
Found at i:1909000 original size:17 final size:17
Alignment explanation
Indices: 1908975--1909012 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
1908965 TATTTTATTT
*
1908975 TATAT-AAATTTAAA-A
1 TATATAAAAATTAAATA
1908990 TATATAAAAATTAAATA
1 TATATAAAAATTAAATA
1909007 TATATA
1 TATATA
1909013 TATATAATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 5 0.25
16 8 0.40
17 7 0.35
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
TATATAAAAATTAAATA
Found at i:1913047 original size:19 final size:21
Alignment explanation
Indices: 1913023--1913068 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
1913013 ATACACCATG
*
1913023 AATTTTA-AAATTTT-TATAT
1 AATTTTAGAAATTTTAAATAT
*
1913042 AATTTTAGTAATTTTAAATAT
1 AATTTTAGAAATTTTAAATAT
1913063 AATTTT
1 AATTTT
1913069 TCTAATATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 7 0.30
20 6 0.26
21 10 0.43
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (21 bp):
AATTTTAGAAATTTTAAATAT
Found at i:1917725 original size:10 final size:10
Alignment explanation
Indices: 1917694--1917733 Score: 53
Period size: 10 Copynumber: 3.8 Consensus size: 10
1917684 AAGACTTGGA
1917694 AGAAGAAGACG
1 AGAAGAAGA-G
1917705 AGGAAGAAGAG
1 A-GAAGAAGAG
*
1917716 AGAAGGAGAG
1 AGAAGAAGAG
1917726 AGAAGAAG
1 AGAAGAAG
1917734 CTTAAGCTCG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
10 15 0.58
11 3 0.12
12 8 0.31
ACGTcount: A:0.55, C:0.03, G:0.42, T:0.00
Consensus pattern (10 bp):
AGAAGAAGAG
Found at i:1917886 original size:15 final size:15
Alignment explanation
Indices: 1917866--1917920 Score: 65
Period size: 15 Copynumber: 3.5 Consensus size: 15
1917856 ACTGGAGGAA
* *
1917866 GAAGAAGAGGACGAT
1 GAAGAAGAGGAAGAG
1917881 GAAGAAGAGGAAGAG
1 GAAGAAGAGGAAGAG
*
1917896 GAAGAAGAGGAGAGTG
1 GAAGAAGAGGA-AGAG
1917912 AGAAGAAGA
1 -GAAGAAGA
1917921 AAAAGATTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
15 24 0.69
16 3 0.09
17 8 0.23
ACGTcount: A:0.51, C:0.02, G:0.44, T:0.04
Consensus pattern (15 bp):
GAAGAAGAGGAAGAG
Found at i:1917972 original size:3 final size:3
Alignment explanation
Indices: 1917961--1918015 Score: 58
Period size: 3 Copynumber: 18.3 Consensus size: 3
1917951 GTGATGAAGT
* * *
1917961 TGA TCA TGA TGA TGA TGA TGA TGA TGGA -GT TGA TGA TGA TGA AGA
1 TGA TGA TGA TGA TGA TGA TGA TGA T-GA TGA TGA TGA TGA TGA TGA
*
1918006 AGA TGA TGA T
1 TGA TGA TGA T
1918016 CATGGTGACT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
2 1 0.02
3 41 0.93
4 2 0.05
ACGTcount: A:0.35, C:0.02, G:0.33, T:0.31
Consensus pattern (3 bp):
TGA
Found at i:1917972 original size:15 final size:15
Alignment explanation
Indices: 1917952--1918015 Score: 74
Period size: 15 Copynumber: 4.3 Consensus size: 15
1917942 TCAACGGTGG
*
1917952 TGATGAAGTTGATCA
1 TGATGAAGTTGATGA
* *
1917967 TGATGATGATGATGA
1 TGATGAAGTTGATGA
*
1917982 TGATGGAGTTGATGA
1 TGATGAAGTTGATGA
**
1917997 TGATGAAGAAGATGA
1 TGATGAAGTTGATGA
1918012 TGAT
1 TGAT
1918016 CATGGTGACT
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 40 1.00
ACGTcount: A:0.34, C:0.02, G:0.33, T:0.31
Consensus pattern (15 bp):
TGATGAAGTTGATGA
Found at i:1918644 original size:2 final size:2
Alignment explanation
Indices: 1918628--1918682 Score: 94
Period size: 2 Copynumber: 28.0 Consensus size: 2
1918618 CTGTCTCACC
*
1918628 CT CT TT CT C- CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1918669 CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT
1918683 ATCTATATCG
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 49 0.98
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
CT
Found at i:1921749 original size:48 final size:48
Alignment explanation
Indices: 1921693--1921832 Score: 226
Period size: 48 Copynumber: 2.9 Consensus size: 48
1921683 CACCGAGCTG
* * *
1921693 CTGATGTTCGAAAGGATGATGCAACTTGTATGACCCCAGTTCGTGCTA
1 CTGATGTTCGAAAGGATGATGCAACTTATAAGACCCCAGTTCCTGCTA
1921741 CTGATGTTCGAAAGGATGATGCAACTTATAAGACCCCAGTTCCTGCTA
1 CTGATGTTCGAAAGGATGATGCAACTTATAAGACCCCAGTTCCTGCTA
* * *
1921789 CTGATGTTCGAAAGGATGATGCAACTTCTAAAACCCCTGTTCCT
1 CTGATGTTCGAAAGGATGATGCAACTTATAAGACCCCAGTTCCT
1921833 TCTAAGCCAC
Statistics
Matches: 86, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 86 1.00
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (48 bp):
CTGATGTTCGAAAGGATGATGCAACTTATAAGACCCCAGTTCCTGCTA
Found at i:1922973 original size:19 final size:20
Alignment explanation
Indices: 1922949--1922996 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
1922939 AATTCATTGT
1922949 GAAAGATGAA-AAG-AAAAAA
1 GAAAGAT-AACAAGAAAAAAA
1922968 GAAAGATAACAAGAAAAAAA
1 GAAAGATAACAAGAAAAAAA
*
1922988 GAAAAATAA
1 GAAAGATAA
1922997 GAGAGAATTG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 2 0.08
19 10 0.38
20 14 0.54
ACGTcount: A:0.75, C:0.02, G:0.17, T:0.06
Consensus pattern (20 bp):
GAAAGATAACAAGAAAAAAA
Found at i:1924218 original size:8 final size:8
Alignment explanation
Indices: 1924207--1924283 Score: 55
Period size: 8 Copynumber: 9.4 Consensus size: 8
1924197 CATATACATG
1924207 TATATACA
1 TATATACA
1924215 TATATACA
1 TATATACA
* **
1924223 TGTATGTA
1 TATATACA
*
1924231 TCTATACA
1 TATATACA
*
1924239 TGTATACA
1 TATATACA
*
1924247 TGTATGTACA
1 --TATATACA
*
1924257 TATATATA
1 TATATACA
*
1924265 TATATATA
1 TATATACA
*
1924273 TATATATA
1 TATATACA
1924281 TAT
1 TAT
1924284 TTGATCCGTG
Statistics
Matches: 56, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
8 50 0.89
10 6 0.11
ACGTcount: A:0.42, C:0.08, G:0.06, T:0.44
Consensus pattern (8 bp):
TATATACA
Found at i:1924260 original size:16 final size:16
Alignment explanation
Indices: 1924193--1924243 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 16
1924183 TACTTTTAGT
1924193 TGTACATATACATGTA
1 TGTACATATACATGTA
*
1924209 TATACATATATACATGTA
1 TGTAC--ATATACATGTA
1924227 TGTATC-TATACATGTA
1 TGTA-CATATACATGTA
1924243 T
1 T
1924244 ACATGTATGT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
16 15 0.50
18 14 0.47
19 1 0.03
ACGTcount: A:0.37, C:0.12, G:0.10, T:0.41
Consensus pattern (16 bp):
TGTACATATACATGTA
Found at i:1924263 original size:2 final size:2
Alignment explanation
Indices: 1924256--1924283 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1924246 ATGTATGTAC
1924256 AT 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 AT
1924284 TTGATCCGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1938986 original size:19 final size:20
Alignment explanation
Indices: 1938941--1938987 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
1938931 AATAACAATT
1938941 TTTAATTAAAATAGTAAAAA
1 TTTAATTAAAATAGTAAAAA
* *
1938961 TAT-ATTAAAAT-TTAAAAA
1 TTTAATTAAAATAGTAAAAA
1938979 TTTAATTAA
1 TTTAATTAA
1938988 GTTCGTGAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
18 8 0.35
19 13 0.57
20 2 0.09
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (20 bp):
TTTAATTAAAATAGTAAAAA
Found at i:1946737 original size:48 final size:49
Alignment explanation
Indices: 1946623--1946760 Score: 233
Period size: 48 Copynumber: 2.8 Consensus size: 49
1946613 GCAAAAACTT
* *
1946623 AACCTGTTAACCAGGACTGTTTGTAACACATGCTGACAATTTCTCCACCA
1 AACCTGTTAACCAGGACTGTTTATAGCACATGCTGACAA-TTCTCCACCA
1946673 AACCTGTTAACCAGGACTGTTTATAGCACATGCTGACAATT-TCCACCA
1 AACCTGTTAACCAGGACTGTTTATAGCACATGCTGACAATTCTCCACCA
*
1946721 AACCTGTTAACCAGGACTGTTTATAGCACATGCTGCCAAT
1 AACCTGTTAACCAGGACTGTTTATAGCACATGCTGACAAT
1946761 AATTAAGGTG
Statistics
Matches: 85, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
48 46 0.54
49 2 0.02
50 37 0.44
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (49 bp):
AACCTGTTAACCAGGACTGTTTATAGCACATGCTGACAATTCTCCACCA
Found at i:1947110 original size:27 final size:27
Alignment explanation
Indices: 1947080--1947135 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
1947070 GCTATAGCTA
1947080 CAAGTACTGGTATGTCTAGTCAGGATC
1 CAAGTACTGGTATGTCTAGTCAGGATC
1947107 CAAGTACTGGTATGTCTAGTCAGGATC
1 CAAGTACTGGTATGTCTAGTCAGGATC
1947134 CA
1 CA
1947136 TCATTGAGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.29
Consensus pattern (27 bp):
CAAGTACTGGTATGTCTAGTCAGGATC
Found at i:1950660 original size:15 final size:15
Alignment explanation
Indices: 1950640--1950673 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
1950630 TGTTATTTTT
1950640 AAAAAAGTTTGATTA
1 AAAAAAGTTTGATTA
* *
1950655 AAAAAATTTTGTTTA
1 AAAAAAGTTTGATTA
1950670 AAAA
1 AAAA
1950674 TATGATAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.35
Consensus pattern (15 bp):
AAAAAAGTTTGATTA
Found at i:1959996 original size:11 final size:11
Alignment explanation
Indices: 1959982--1960020 Score: 55
Period size: 10 Copynumber: 3.7 Consensus size: 11
1959972 TATTTATCTA
1959982 AAAATTATTTT
1 AAAATTATTTT
*
1959993 AAAATT-TATT
1 AAAATTATTTT
1960003 AAAA-TATTTT
1 AAAATTATTTT
1960013 AAAATTAT
1 AAAATTAT
1960021 ATATATTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
9 1 0.04
10 14 0.58
11 9 0.38
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (11 bp):
AAAATTATTTT
Found at i:1960721 original size:21 final size:25
Alignment explanation
Indices: 1960676--1960730 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 25
1960666 ATTTTTAATT
1960676 TTTTATATATTATTCTAATATAAAA
1 TTTTATATATTATTCTAATATAAAA
1960701 TTTTA-ATA-TATT-TAA-ATAAAA
1 TTTTATATATTATTCTAATATAAAA
*
1960722 TTTGATATA
1 TTTTATATA
1960731 AAATTTTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
21 10 0.36
22 6 0.21
23 4 0.14
24 3 0.11
25 5 0.18
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (25 bp):
TTTTATATATTATTCTAATATAAAA
Found at i:1960769 original size:20 final size:19
Alignment explanation
Indices: 1960726--1960770 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
1960716 ATAAAATTTG
* *
1960726 ATATAAAATTTTAAAAAAT
1 ATATAAAAATTAAAAAAAT
*
1960745 CTATAAAAATTAAAAATAAT
1 ATATAAAAATTAAAAA-AAT
1960765 ATATAA
1 ATATAA
1960771 TTCGATTTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
ATATAAAAATTAAAAAAAT
Found at i:1971918 original size:22 final size:23
Alignment explanation
Indices: 1971868--1971923 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
1971858 AAATAATATT
*
1971868 AAAT-TTAATAATTTTGCTAAATA
1 AAATATTAA-AATTTTGATAAATA
*
1971891 AAATATTAAAATTTTGATTAA-A
1 AAATATTAAAATTTTGATAAATA
1971913 AAATA-TAAAAT
1 AAATATTAAAAT
1971924 ATATTATATG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 6 0.20
22 6 0.20
23 14 0.47
24 4 0.13
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.39
Consensus pattern (23 bp):
AAATATTAAAATTTTGATAAATA
Found at i:1979004 original size:21 final size:21
Alignment explanation
Indices: 1978980--1979021 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1978970 TGATGCATTT
* * *
1978980 GAGGTGGAGGATATATTTGAG
1 GAGGTGAAAGATACATTTGAG
1979001 GAGGTGAAAGATACATTTGAG
1 GAGGTGAAAGATACATTTGAG
1979022 ATGGATAATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.02, G:0.38, T:0.26
Consensus pattern (21 bp):
GAGGTGAAAGATACATTTGAG
Found at i:1979400 original size:27 final size:27
Alignment explanation
Indices: 1979370--1979421 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
1979360 CAAAATTCGT
*
1979370 ACCATCACCATCATCA-TCTAGACTTAA
1 ACCACCACCATCATCACTCT-GACTTAA
1979397 ACCACCACCATCATCACTCTGACTT
1 ACCACCACCATCATCACTCTGACTT
1979422 GATGTTGGAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 20 0.87
28 3 0.13
ACGTcount: A:0.33, C:0.38, G:0.04, T:0.25
Consensus pattern (27 bp):
ACCACCACCATCATCACTCTGACTTAA
Done.