Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167882.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_15, 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: 22478863
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 61000 characters in sequence are not A, C, G, or T
File 34 of 106
Found at i:6321010 original size:18 final size:18
Alignment explanation
Indices: 6320989--6321028 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
6320979 ATTATATTTT
6320989 AATAATAT-TTAATATTAA
1 AATAATATATTAATA-TAA
*
6321007 AATATTATATTAATATAA
1 AATAATATATTAATATAA
6321025 AATA
1 AATA
6321029 CCTAAATGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
AATAATATATTAATATAA
Found at i:6321359 original size:41 final size:41
Alignment explanation
Indices: 6321308--6321389 Score: 121
Period size: 41 Copynumber: 2.0 Consensus size: 41
6321298 TTAAGAAAAT
6321308 AATATTATTATATTAT-TTAACATTAATTATTAAAATAATAA
1 AATATTATTATA-TATGTTAACATTAATTATTAAAATAATAA
** *
6321349 AATATTATTATATATGTTATTATTTATTATTAAAATAATAA
1 AATATTATTATATATGTTAACATTAATTATTAAAATAATAA
6321390 CGTAATACTA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
40 3 0.08
41 34 0.92
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (41 bp):
AATATTATTATATATGTTAACATTAATTATTAAAATAATAA
Found at i:6321908 original size:22 final size:23
Alignment explanation
Indices: 6321880--6321924 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
6321870 AAAAAACCTC
6321880 ATTTTTCATTGACCAG-TAAGTT
1 ATTTTTCATTGACCAGTTAAGTT
*
6321902 ATTTTTCATTGATCAGTTAAGTT
1 ATTTTTCATTGACCAGTTAAGTT
6321925 TCTGCTAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 15 0.71
23 6 0.29
ACGTcount: A:0.27, C:0.11, G:0.13, T:0.49
Consensus pattern (23 bp):
ATTTTTCATTGACCAGTTAAGTT
Found at i:6324244 original size:17 final size:16
Alignment explanation
Indices: 6324215--6324249 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 16
6324205 TTTTAAATTT
6324215 TTTGCACTTTATTTTC
1 TTTGCACTTTATTTTC
6324231 TTTGCACTTTTATTTTC
1 TTTGCAC-TTTATTTTC
6324248 TT
1 TT
6324250 GCTTTCCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.11, C:0.17, G:0.06, T:0.66
Consensus pattern (16 bp):
TTTGCACTTTATTTTC
Found at i:6324251 original size:16 final size:15
Alignment explanation
Indices: 6324211--6324251 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
6324201 TTTGTTTTAA
6324211 ATTTT-TTGCACTTT
1 ATTTTCTTGCACTTT
6324225 ATTTTCTTTGCACTTTT
1 ATTTTC-TTGCAC-TTT
6324242 ATTTTCTTGC
1 ATTTTCTTGC
6324252 TTTCCAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 5 0.21
16 10 0.42
17 9 0.38
ACGTcount: A:0.12, C:0.17, G:0.07, T:0.63
Consensus pattern (15 bp):
ATTTTCTTGCACTTT
Found at i:6328974 original size:119 final size:121
Alignment explanation
Indices: 6328817--6329297 Score: 472
Period size: 119 Copynumber: 4.0 Consensus size: 121
6328807 TTTTGGGTTA
** *
6328817 AAAAACACAATGTTTGAATA-AAAGA-C-AATGTTTCTATGTTAAAAAATGCAATCTATGTCA-A
1 AAAAACACAATGTTTGTCTACAAAGATCGCAT-TTT-TATGTTAAAAAATGCAATCTATGTCAGA
** * *
6328878 TTAATGTTTGATTTTTGTCAATTTCATGTCAACTAACAATGATGATATTTTTTATTTG
64 TTAATGTTTGAACTTTGTCAATTTCATGTCAACTAACAATGATGACATTTTTTGTTTG
* * * *
6328936 AAAAACACATTGTTTGTCTA-GAAGATCGCATTTTTATGTT-AAAAATGCAATCTATGTGAGTTT
1 AAAAACACAATGTTTGTCTACAAAGATCGCATTTTTATGTTAAAAAATGCAATCTATGTCAGATT
* *
6328999 AATGTTTGAACTTTATCAATTTCATATCAACTAACAATGATGACATTTTTTGTTTG
66 AATGTTTGAACTTTGTCAATTTCATGTCAACTAACAATGATGACATTTTTTGTTTG
* * * * * * *
6329055 AAAAATACAATGTTTGTCTACAAAGA-CAACATTTTTTATG-TAAAAAATGCAGTTTATATTAGT
1 AAAAACACAATGTTTGTCTACAAAGATC-GCA-TTTTTATGTTAAAAAATGCAATCTATGTCAGA
* * * * *
6329118 TTAATGTTTGAACTTTGTTAATTTC-TGTCATCTAATAGTAATGACATTTTTTGTTTG
64 TTAATGTTTGAACTTTGTCAATTTCATGTCAACTAACAATGATGACATTTTTTGTTTG
* * * * * *
6329175 AAAAACATAATATTTGTCTACAAACAT-GACGTTTTTATGTTTAAAACAT--AGTCTATGTCA-A
1 AAAAACACAATGTTTGTCTACAAAGATCG-CATTTTTATG-TTAAAAAATGCAATCTATGTCAGA
* * *
6329236 TT-ATGTTTGAACTTTGTCAATTTCATGTCAATTAATAATGA-CA-ATGATTTTTGTTTG
64 TTAATGTTTGAACTTTGTCAATTTCATGTCAACTAACAATGATGACAT--TTTTTGTTTG
6329293 AAAAA
1 AAAAA
6329298 TGTAGTGTTT
Statistics
Matches: 303, Mismatches: 45, Indels: 29
0.80 0.12 0.08
Matches are distributed among these distances:
116 2 0.01
117 22 0.07
118 47 0.16
119 114 0.38
120 61 0.20
121 57 0.19
ACGTcount: A:0.36, C:0.10, G:0.12, T:0.42
Consensus pattern (121 bp):
AAAAACACAATGTTTGTCTACAAAGATCGCATTTTTATGTTAAAAAATGCAATCTATGTCAGATT
AATGTTTGAACTTTGTCAATTTCATGTCAACTAACAATGATGACATTTTTTGTTTG
Found at i:6329294 original size:238 final size:238
Alignment explanation
Indices: 6328817--6329338 Score: 551
Period size: 238 Copynumber: 2.2 Consensus size: 238
6328807 TTTTGGGTTA
* ** * * * * * *
6328817 AAAAACACAATGTTTGAATA-AAAGACAATGTTTCTATGTTAAAAAATGCAATCTATGTCA-ATT
1 AAAAATACAATGTTTGTCTACAAAGACAATGTTTTTATG-TAAAAAATGCAGTTTATATTAGTTT
** * *
6328880 AATGTTTGATTTTTGTCAATTTCATGTCAACTAACAATGATGATATTTTTTATTTGAAAAACACA
65 AATGTTTGAACTTTGTCAATTTCATGTCAACTAACAATAATGACATTTTTTATTTGAAAAACACA
* * * * * *
6328945 TTGTTTGTCTAGAAGATCGCATTTTTATGTTAAAAATGCAATCTATGTGAGTTTAATGTTTGAAC
130 ATATTTGTCTAAAACATCGCATTTTTATGTTAAAAAT-CAATCTATGTCAGATTAATGTTTGAAC
*
6329010 TTTATCAATTTCATATCAACTAACAATGATGACATTTTTTGTTTG
194 TTTATCAATTTCATATCAACTAACAATGATCACATTTTTTGTTTG
6329055 AAAAATACAATGTTTGTCTACAAAGACAACAT-TTTTTATGTAAAAAATGCAGTTTATATTAGTT
1 AAAAATACAATGTTTGTCTACAAAGAC-A-ATGTTTTTATGTAAAAAATGCAGTTTATATTAGTT
* * * * * *
6329119 TAATGTTTGAACTTTGTTAATTTC-TGTCATCTAATAGTAATGACATTTTTTGTTTGAAAAACAT
64 TAATGTTTGAACTTTGTCAATTTCATGTCAACTAACAATAATGACATTTTTTATTTGAAAAACAC
* *
6329183 AATATTTGTCTACAAACAT-GACGTTTTTATGTTTAAAACAT-AGTCTATGTCA-ATT-ATGTTT
129 AATATTTGTCTA-AAACATCG-CATTTTTATG-TTAAAA-ATCAATCTATGTCAGATTAATGTTT
* * * *
6329244 GAACTTTGTCAATTTCATGTCAATTAATAATGA-CA-ATGATTTTTGTTTG
190 GAACTTTATCAATTTCATATCAACTAACAATGATCACAT--TTTTTGTTTG
** * * *
6329293 AAAAATGTAGTGTTTGTTTACAAAGACAATGTTTTTATGTTAAAAA
1 AAAAATACAATGTTTGTCTACAAAGACAATGTTTTTATGTAAAAAA
6329339 CATTGGTTTT
Statistics
Matches: 236, Mismatches: 37, Indels: 23
0.80 0.12 0.08
Matches are distributed among these distances:
236 4 0.02
237 16 0.07
238 85 0.36
239 69 0.29
240 52 0.22
241 8 0.03
242 2 0.01
ACGTcount: A:0.36, C:0.10, G:0.13, T:0.42
Consensus pattern (238 bp):
AAAAATACAATGTTTGTCTACAAAGACAATGTTTTTATGTAAAAAATGCAGTTTATATTAGTTTA
ATGTTTGAACTTTGTCAATTTCATGTCAACTAACAATAATGACATTTTTTATTTGAAAAACACAA
TATTTGTCTAAAACATCGCATTTTTATGTTAAAAATCAATCTATGTCAGATTAATGTTTGAACTT
TATCAATTTCATATCAACTAACAATGATCACATTTTTTGTTTG
Found at i:6336100 original size:22 final size:23
Alignment explanation
Indices: 6336063--6336107 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
6336053 CAAAAGATCA
*
6336063 ATGCTTTTTATTTAGGTGAAAAG
1 ATGCTTTTCATTTAGGTGAAAAG
6336086 ATGC-TTTCATTTAGGTGAAAAG
1 ATGCTTTTCATTTAGGTGAAAAG
6336108 CAAAAACCCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.31, C:0.07, G:0.22, T:0.40
Consensus pattern (23 bp):
ATGCTTTTCATTTAGGTGAAAAG
Found at i:6339636 original size:16 final size:17
Alignment explanation
Indices: 6339610--6339641 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
6339600 AAATATACTC
6339610 TTTTAATATTTATTTAA
1 TTTTAATATTTATTTAA
6339627 TTTT-ATATTTATTTA
1 TTTTAATATTTATTTA
6339642 TTGTATTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
TTTTAATATTTATTTAA
Found at i:6346442 original size:21 final size:20
Alignment explanation
Indices: 6346416--6346454 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
6346406 GTGAAATGCT
6346416 TTTCAAGATGAGATGTTTTTA
1 TTTCAA-ATGAGATGTTTTTA
*
6346437 TTTCAATTGAGAT-TTTTT
1 TTTCAAATGAGATGTTTTT
6346455 TTTTTAAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 6 0.35
21 6 0.35
ACGTcount: A:0.26, C:0.05, G:0.15, T:0.54
Consensus pattern (20 bp):
TTTCAAATGAGATGTTTTTA
Found at i:6346769 original size:115 final size:115
Alignment explanation
Indices: 6346447--6346764 Score: 379
Period size: 116 Copynumber: 2.7 Consensus size: 115
6346437 TTTCAATTGA
* * * * * *
6346447 GATTTTTTTTTTTAAGTTCCAAAACCTTTGTTAAGGAGGAGCTTTTTCAAAGGTGAGAATAATCG
1 GATTTTTTTTCTTAAGTTCCAAAACCTTTATTAAGGATGAGCTTTTTCAAAGATGAGAATGATCA
* * * * *
6346512 ATATGACCTTAGGGCATGATCCTTAAAACTTCAAAGTACCTTTTTACATTT
66 ATAAGAACTCA-GGCATGATCCTTAAAACTTCAAAGTACCATTTTAAATTT
* * * *
6346563 GATTTTTTTCCTTAAGTTTCAAAGCCTTTATTAA-GATAGAGCTTTTTCAAAGATGAGAATGATT
1 GATTTTTTTTCTTAAGTTCCAAAACCTTTATTAAGGAT-GAGCTTTTTCAAAGATGAGAATGATC
* * *
6346627 TATAAGATCTCAGGCATGATCCTTAAAACTTTC-AGGTACCATTTTAAATTT
65 AATAAGAACTCAGGCATGATCCTTAAAAC-TTCAAAGTACCATTTTAAATTT
* * *
6346678 GATATTTTTTTCTTAAGTTCCAAATCCTCTATTAAGGATGAGCTTTTTCAAATATGAGAATGATC
1 GAT-TTTTTTTCTTAAGTTCCAAAACCTTTATTAAGGATGAGCTTTTTCAAAGATGAGAATGATC
*
6346743 AATAAGAACTCAGAGTATGATC
65 AATAAGAACTCAG-GCATGATC
6346765 TAAAAGACCT
Statistics
Matches: 172, Mismatches: 25, Indels: 9
0.83 0.12 0.04
Matches are distributed among these distances:
115 37 0.22
116 125 0.73
117 10 0.06
ACGTcount: A:0.32, C:0.14, G:0.15, T:0.39
Consensus pattern (115 bp):
GATTTTTTTTCTTAAGTTCCAAAACCTTTATTAAGGATGAGCTTTTTCAAAGATGAGAATGATCA
ATAAGAACTCAGGCATGATCCTTAAAACTTCAAAGTACCATTTTAAATTT
Found at i:6346804 original size:22 final size:22
Alignment explanation
Indices: 6346779--6346820 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
6346769 AGACCTTTGA
6346779 GCATGATCTATAAAACTTCATG
1 GCATGATCTATAAAACTTCATG
*
6346801 GCATGATCTCTAAAACTTCA
1 GCATGATCTATAAAACTTCA
6346821 AGGTACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.36, C:0.21, G:0.12, T:0.31
Consensus pattern (22 bp):
GCATGATCTATAAAACTTCATG
Found at i:6346960 original size:156 final size:161
Alignment explanation
Indices: 6346621--6346965 Score: 386
Period size: 156 Copynumber: 2.2 Consensus size: 161
6346611 AAAGATGAGA
* *
6346621 ATGATTTATAAGATC-TCAGGCATGATC-CTTAAAACTTTCAGGTACCATTTTAAATTTGATATT
1 ATGATTTATAAGATCTTAAGGCATGATCTCTTAAAACTTTCAGGTACCATTTTAAA-TTGATATA
* ** * * *
6346684 TTTTTCTTAAGTTCCAAATCCTCTATTAAGGATGAGCTTTTTCAAATATGAGAATGATCAATAAG
65 TTTTTCTTAAGTTCCAAAGCCTCTATTAAGGAACAGCTTTTTCAAAAATAAAAATGATCAATAAG
* *
6346749 AACTCAGAGTATGATCTAAAAGACCTTTGAGC
130 AACTCAGAGTATGATCTAAAAGACCTTCGAAC
* * * * *
6346781 ATGATCTATAA-AACTTCATGGCATGATCTC-TAAAAC-TTCAAGGTACCCTTTTAGA-T-ATA-
1 ATGATTTATAAGATCTT-AAGGCATGATCTCTTAAAACTTTC-AGGTACCATTTTAAATTGATAT
* * * *
6346840 ATTTTT-TTAAGTTCCAAAGCCTTTGTTAAGGAACAGTTTTTTCAAAAATAAAAATGATCGATAA
64 ATTTTTCTTAAGTTCCAAAGCCTCTATTAAGGAACAGCTTTTTCAAAAATAAAAATGATCAATAA
* *
6346904 G-ACATCAGGGTATGATCTAAAAGATCTTCGAAC
129 GAAC-TCAGAGTATGATCTAAAAGACCTTCGAAC
*
6346937 ATGATTTTTAAGATCTTAAGGCATGATCT
1 ATGATTTATAAGATCTTAAGGCATGATCT
6346966 AAAATCTCTG
Statistics
Matches: 154, Mismatches: 25, Indels: 16
0.79 0.13 0.08
Matches are distributed among these distances:
155 2 0.01
156 94 0.61
157 9 0.06
158 3 0.02
159 3 0.02
160 14 0.09
161 28 0.18
162 1 0.01
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.35
Consensus pattern (161 bp):
ATGATTTATAAGATCTTAAGGCATGATCTCTTAAAACTTTCAGGTACCATTTTAAATTGATATAT
TTTTCTTAAGTTCCAAAGCCTCTATTAAGGAACAGCTTTTTCAAAAATAAAAATGATCAATAAGA
ACTCAGAGTATGATCTAAAAGACCTTCGAAC
Found at i:6347165 original size:22 final size:22
Alignment explanation
Indices: 6347140--6347315 Score: 90
Period size: 23 Copynumber: 7.8 Consensus size: 22
6347130 AAACTTATGA
*
6347140 GTATCCTTTTAAAAACCTCTAG
1 GTATCATTTTAAAAACCTCTAG
* * **
6347162 GTATCATCTTTAGAAATCTCCGG
1 GTATCAT-TTTAAAAACCTCTAG
* * *
6347185 GTAT-ATTTTTAAAACTTC-CG
1 GTATCATTTTAAAAACCTCTAG
*
6347205 AGTATCATTTTTCAAAAACCTCTAA
1 -GTATCA-TTTT-AAAAACCTCTAG
* *
6347230 GTATCATCTTAAAAACCTCTAT
1 GTATCATTTTAAAAACCTCTAG
* * * *
6347252 GTATTATCTTTCAAAACCTCAAA
1 GTATCAT-TTTAAAAACCTCTAG
* *
6347275 ATATTTC-TTTTCAAAAATCTCTAG
1 GTA--TCATTTT-AAAAACCTCTAG
*
6347299 GTATC-TTTTCAAAACCT
1 GTATCATTTTAAAAACCT
6347316 TTGGGTATTT
Statistics
Matches: 114, Mismatches: 30, Indels: 21
0.69 0.18 0.13
Matches are distributed among these distances:
20 1 0.01
21 18 0.16
22 32 0.28
23 38 0.33
24 24 0.21
25 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.07, T:0.39
Consensus pattern (22 bp):
GTATCATTTTAAAAACCTCTAG
Found at i:6347209 original size:21 final size:23
Alignment explanation
Indices: 6347180--6347221 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
6347170 TTTAGAAATC
*
6347180 TCCGGGTAT-ATTTTT-AAAACT
1 TCCGAGTATCATTTTTCAAAACT
6347201 TCCGAGTATCATTTTTCAAAA
1 TCCGAGTATCATTTTTCAAAA
6347222 ACCTCTAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 8 0.44
22 6 0.33
23 4 0.22
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.40
Consensus pattern (23 bp):
TCCGAGTATCATTTTTCAAAACT
Found at i:6347267 original size:23 final size:23
Alignment explanation
Indices: 6347118--6347315 Score: 90
Period size: 22 Copynumber: 8.8 Consensus size: 23
6347108 AATTCTTTGG
* * *
6347118 GTATCATCTTT-AAAACTTATGA
1 GTATCATCTTTCAAAACCTCTAA
* * *
6347140 GTATCCT-TTTAAAAACCTCTAG
1 GTATCATCTTTCAAAACCTCTAA
* ***
6347162 GTATCATCTTT-AGAAATCTCCGG
1 GTATCATCTTTCA-AAACCTCTAA
* * **
6347185 GTAT-AT-TTTTAAAACTTCCGA
1 GTATCATCTTTCAAAACCTCTAA
*
6347206 GTATCATTTTTCAAAAACCTCTAA
1 GTATCATCTTTC-AAAACCTCTAA
* *
6347230 GTATCATC-TTAAAAACCTCTAT
1 GTATCATCTTTCAAAACCTCTAA
* *
6347252 GTATTATCTTTCAAAACCTCAAA
1 GTATCATCTTTCAAAACCTCTAA
* * * *
6347275 ATAT-TTCTTTTCAAAAATCTCTAG
1 GTATCATC-TTTC-AAAACCTCTAA
6347299 GTATC-T-TTTCAAAACCT
1 GTATCATCTTTCAAAACCT
6347316 TTGGGTATTT
Statistics
Matches: 135, Mismatches: 30, Indels: 23
0.72 0.16 0.12
Matches are distributed among these distances:
21 23 0.17
22 48 0.36
23 37 0.27
24 27 0.20
ACGTcount: A:0.34, C:0.20, G:0.08, T:0.39
Consensus pattern (23 bp):
GTATCATCTTTCAAAACCTCTAA
Found at i:6347336 original size:24 final size:24
Alignment explanation
Indices: 6347304--6347353 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
6347294 TCTAGGTATC
* *
6347304 TTTTCAAAACCTTTGGGTATTTCT
1 TTTTCAAAACCTTTAGATATTTCT
* *
6347328 TTTTTAAAACTTTTAGATATTTCT
1 TTTTCAAAACCTTTAGATATTTCT
6347352 TT
1 TT
6347354 CAAAACTTTT
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:0.24, C:0.12, G:0.08, T:0.56
Consensus pattern (24 bp):
TTTTCAAAACCTTTAGATATTTCT
Found at i:6347361 original size:22 final size:23
Alignment explanation
Indices: 6347275--6347363 Score: 76
Period size: 22 Copynumber: 3.9 Consensus size: 23
6347265 AAACCTCAAA
* *
6347275 ATATTTCTTTTCAAAAATCTCTAG
1 ATATTTCTTTTCAAAACT-TTTAG
* * *
6347299 GTA--TCTTTTCAAAACCTTTGG
1 ATATTTCTTTTCAAAACTTTTAG
* *
6347320 GTATTTCTTTTTTAAAACTTTTAG
1 ATATTTC-TTTTCAAAACTTTTAG
6347344 ATATTTC-TTTCAAAACTTTT
1 ATATTTCTTTTCAAAACTTTT
6347364 GAATACATTT
Statistics
Matches: 52, Mismatches: 10, Indels: 8
0.74 0.14 0.11
Matches are distributed among these distances:
21 6 0.12
22 23 0.44
23 2 0.04
24 21 0.40
ACGTcount: A:0.28, C:0.15, G:0.07, T:0.51
Consensus pattern (23 bp):
ATATTTCTTTTCAAAACTTTTAG
Found at i:6348315 original size:19 final size:19
Alignment explanation
Indices: 6348253--6348316 Score: 67
Period size: 20 Copynumber: 3.3 Consensus size: 19
6348243 TTAATTGTTA
*
6348253 TTTTTATTTTTTATTTTTTAT
1 TTTTTA-TTTTGA-TTTTTAT
6348274 TTTTTATTTTGATTTCTTAT
1 TTTTTATTTTGATTT-TTAT
* *
6348294 TTTTT-GTTTGATTTTGAT
1 TTTTTATTTTGATTTTTAT
6348312 TTTTT
1 TTTTT
6348317 CCTTTTTTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
18 8 0.21
19 11 0.28
20 14 0.36
21 6 0.15
ACGTcount: A:0.12, C:0.02, G:0.06, T:0.80
Consensus pattern (19 bp):
TTTTTATTTTGATTTTTAT
Found at i:6348329 original size:6 final size:6
Alignment explanation
Indices: 6348250--6348315 Score: 53
Period size: 7 Copynumber: 10.3 Consensus size: 6
6348240 GTTTTAATTG
*
6348250 TTATTT TTATTTT TTATTTT TTATTTT TTATTT TGATTT CTTATTT TT-TGTT
1 TTATTT TTA-TTT TTA-TTT TTA-TTT TTATTT TTATTT -TTATTT TTAT-TT
* *
6348302 TGATTT TGATTT TT
1 TTATTT TTATTT TT
6348316 TCCTTTTTTA
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
5 1 0.02
6 25 0.48
7 26 0.50
ACGTcount: A:0.14, C:0.02, G:0.06, T:0.79
Consensus pattern (6 bp):
TTATTT
Found at i:6348329 original size:7 final size:7
Alignment explanation
Indices: 6348253--6348298 Score: 67
Period size: 7 Copynumber: 6.7 Consensus size: 7
6348243 TTAATTGTTA
6348253 TTTTTAT
1 TTTTTAT
6348260 TTTTTAT
1 TTTTTAT
6348267 TTTTTAT
1 TTTTTAT
6348274 TTTTTA-
1 TTTTTAT
*
6348280 TTTTGAT
1 TTTTTAT
*
6348287 TTCTTAT
1 TTTTTAT
6348294 TTTTT
1 TTTTT
6348299 GTTTGATTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
6 5 0.15
7 29 0.85
ACGTcount: A:0.13, C:0.02, G:0.02, T:0.83
Consensus pattern (7 bp):
TTTTTAT
Found at i:6348457 original size:36 final size:36
Alignment explanation
Indices: 6348417--6348491 Score: 114
Period size: 36 Copynumber: 2.1 Consensus size: 36
6348407 TTATTCTTAT
*
6348417 ATTATATGCTTAATTTTTATTATAATTATTTGCATG
1 ATTATATCCTTAATTTTTATTATAATTATTTGCATG
* * *
6348453 ATTATTTCCTTGATTTTTATTATATTTATTTGCATG
1 ATTATATCCTTAATTTTTATTATAATTATTTGCATG
6348489 ATT
1 ATT
6348492 TATTATGATA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.27, C:0.07, G:0.08, T:0.59
Consensus pattern (36 bp):
ATTATATCCTTAATTTTTATTATAATTATTTGCATG
Found at i:6348490 original size:24 final size:25
Alignment explanation
Indices: 6348454--6348504 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 25
6348444 ATTTGCATGA
* *
6348454 TTATTTCCTTGATTT-TTATTATAT
1 TTATTTCCATGATTTATTATGATAT
*
6348478 TTATTTGCATGATTTATTATGATAT
1 TTATTTCCATGATTTATTATGATAT
6348503 TT
1 TT
6348505 TTGCACAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 13 0.57
25 10 0.43
ACGTcount: A:0.24, C:0.06, G:0.08, T:0.63
Consensus pattern (25 bp):
TTATTTCCATGATTTATTATGATAT
Found at i:6348603 original size:35 final size:35
Alignment explanation
Indices: 6348535--6348603 Score: 88
Period size: 35 Copynumber: 1.9 Consensus size: 35
6348525 AGTTTATTTA
*
6348535 TTTGCATTGTTTATTATGATTTATTTTTGTATGATC
1 TTTGCATTGTTTATTATGA-TTATTTTTCTATGATC
6348571 TTTGCATAT-TTTAATTATGA-TATTTTTCTATGA
1 TTTGCAT-TGTTT-ATTATGATTATTTTTCTATGA
6348604 CATTTTTATA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
35 12 0.40
36 10 0.33
37 8 0.27
ACGTcount: A:0.23, C:0.06, G:0.12, T:0.59
Consensus pattern (35 bp):
TTTGCATTGTTTATTATGATTATTTTTCTATGATC
Found at i:6349751 original size:24 final size:25
Alignment explanation
Indices: 6349689--6349752 Score: 62
Period size: 24 Copynumber: 2.6 Consensus size: 25
6349679 GCCTAACATT
* *
6349689 AAAAATGTTAAAATATTTAAAAAGGA
1 AAAAATGATAAAA-AATTAAAAAGGA
*
6349715 AAAAA-GA-AGAAAAATTAAATA-GA
1 AAAAATGATA-AAAAATTAAAAAGGA
6349738 AAAAATGATAAAAAA
1 AAAAATGATAAAAAA
6349753 ATGAAGAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
23 7 0.22
24 15 0.47
25 5 0.16
26 5 0.16
ACGTcount: A:0.70, C:0.00, G:0.11, T:0.19
Consensus pattern (25 bp):
AAAAATGATAAAAAATTAAAAAGGA
Found at i:6354475 original size:19 final size:18
Alignment explanation
Indices: 6354448--6354490 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
6354438 GCTATTGTTG
*
6354448 ATGAGGGAAAAGAAGAAAA
1 ATGAAGGAAAAGAA-AAAA
* *
6354467 ATGAAGGAAATGAAAAGA
1 ATGAAGGAAAAGAAAAAA
6354485 ATGAAG
1 ATGAAG
6354491 AAGAATTTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.60, C:0.00, G:0.30, T:0.09
Consensus pattern (18 bp):
ATGAAGGAAAAGAAAAAA
Found at i:6354764 original size:19 final size:20
Alignment explanation
Indices: 6354737--6354776 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
6354727 TTTCTCAAAG
6354737 TTTTAGCTTTATA-TTTACT
1 TTTTAGCTTTATAGTTTACT
*
6354756 TTTTTGCTTTATAGTTTACT
1 TTTTAGCTTTATAGTTTACT
6354776 T
1 T
6354777 CAAAGATATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.17, C:0.10, G:0.07, T:0.65
Consensus pattern (20 bp):
TTTTAGCTTTATAGTTTACT
Found at i:6364472 original size:18 final size:19
Alignment explanation
Indices: 6364436--6364478 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
6364426 TTTTATTTTT
6364436 TAAAAAATAATTAACTTCA
1 TAAAAAATAATTAACTTCA
6364455 TAAAAAA-AATCTAA-TTCA
1 TAAAAAATAAT-TAACTTCA
*
6364473 GAAAAA
1 TAAAAA
6364479 TAAGATTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.63, C:0.09, G:0.02, T:0.26
Consensus pattern (19 bp):
TAAAAAATAATTAACTTCA
Found at i:6395040 original size:15 final size:13
Alignment explanation
Indices: 6395013--6395037 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6395003 TATTCATTTA
6395013 TTTTTTATTAAAT
1 TTTTTTATTAAAT
6395026 TTTTTTATTAAA
1 TTTTTTATTAAA
6395038 AATATATCTA
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):
TTTTTTATTAAAT
Found at i:6396015 original size:16 final size:15
Alignment explanation
Indices: 6395928--6396026 Score: 51
Period size: 16 Copynumber: 6.5 Consensus size: 15
6395918 ACAAATAAAT
* *
6395928 AAATAAAATGAAACA
1 AAATAAAAAGAAAAA
* *
6395943 AAATGAAGAGAAAATA
1 AAATAAAAAGAAAA-A
*
6395959 ACAA-AAACA-AAAAA
1 A-AATAAAAAGAAAAA
* *
6395973 AAAT-AAAATAAAAC
1 AAATAAAAAGAAAAA
** *
6395987 TCATAATAAAGAAACA
1 AAATAA-AAAGAAAAA
6396003 AAATGAAAAAGAAAAA
1 AAAT-AAAAAGAAAAA
6396019 AAATAAAA
1 AAATAAAA
6396027 TTAAGCATGC
Statistics
Matches: 61, Mismatches: 16, Indels: 14
0.67 0.18 0.15
Matches are distributed among these distances:
13 5 0.08
14 8 0.13
15 19 0.31
16 25 0.41
17 4 0.07
ACGTcount: A:0.76, C:0.06, G:0.07, T:0.11
Consensus pattern (15 bp):
AAATAAAAAGAAAAA
Found at i:6396527 original size:16 final size:17
Alignment explanation
Indices: 6396500--6396531 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
6396490 AAATCAATTC
6396500 CCAAAAACTAAATTTCA
1 CCAAAAACTAAATTTCA
6396517 CCAAAAA-TAAATTTC
1 CCAAAAACTAAATTTC
6396532 TCTCAATTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.53, C:0.22, G:0.00, T:0.25
Consensus pattern (17 bp):
CCAAAAACTAAATTTCA
Found at i:6396870 original size:22 final size:22
Alignment explanation
Indices: 6396845--6396887 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
6396835 AAAGATAAAC
* *
6396845 AAAATTAACAATAAATAAAATT
1 AAAAATAACAAAAAATAAAATT
*
6396867 AAAAATAATAAAAAATAAAAT
1 AAAAATAACAAAAAATAAAAT
6396888 GGATAAAGAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.23
Consensus pattern (22 bp):
AAAAATAACAAAAAATAAAATT
Found at i:6396880 original size:16 final size:16
Alignment explanation
Indices: 6396833--6396879 Score: 60
Period size: 16 Copynumber: 3.0 Consensus size: 16
6396823 ATCAAATAAT
* *
6396833 TTAAAGATAAACAAAA
1 TTAAAAATAAATAAAA
*
6396849 TTAACAATAAATAAAA
1 TTAAAAATAAATAAAA
6396865 TTAAAAAT-AATAAAA
1 TTAAAAATAAATAAAA
6396880 AATAAAATGG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
15 7 0.26
16 20 0.74
ACGTcount: A:0.70, C:0.04, G:0.02, T:0.23
Consensus pattern (16 bp):
TTAAAAATAAATAAAA
Found at i:6396923 original size:14 final size:14
Alignment explanation
Indices: 6396904--6396981 Score: 63
Period size: 14 Copynumber: 5.3 Consensus size: 14
6396894 AGAAAATAAT
6396904 AAATGAATAAAATA
1 AAATGAATAAAATA
*
6396918 AAATGAATAAGATA
1 AAATGAATAAAATA
6396932 AATATGTATATACAAAT-
1 AA-ATG-A-ATA-AAATA
6396949 AAATGCAATAAAAGTAA
1 AAATG-AATAAAA-T-A
6396966 AAAT-AAT-AAATA
1 AAATGAATAAAATA
6396978 AAAT
1 AAAT
6396982 ATAATGAAAA
Statistics
Matches: 54, Mismatches: 3, Indels: 16
0.74 0.04 0.22
Matches are distributed among these distances:
12 5 0.09
13 1 0.02
14 21 0.39
15 10 0.19
16 5 0.09
17 9 0.17
18 3 0.06
ACGTcount: A:0.65, C:0.03, G:0.08, T:0.24
Consensus pattern (14 bp):
AAATGAATAAAATA
Found at i:6397961 original size:15 final size:16
Alignment explanation
Indices: 6397943--6397984 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
6397933 TCAAAAAATT
6397943 CTAATAA-AAAATTAA
1 CTAATAACAAAATTAA
6397958 CTAA-AACAAAATTAA
1 CTAATAACAAAATTAA
* *
6397973 CAAATAAGAAAA
1 CTAATAACAAAA
6397985 ACTAATATGC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 2 0.09
15 15 0.65
16 6 0.26
ACGTcount: A:0.69, C:0.10, G:0.02, T:0.19
Consensus pattern (16 bp):
CTAATAACAAAATTAA
Found at i:6399787 original size:59 final size:58
Alignment explanation
Indices: 6399475--6399810 Score: 292
Period size: 58 Copynumber: 5.7 Consensus size: 58
6399465 TTGTACAGGG
* * * *
6399475 AAAATTGACACTGTCAACTTTTTCTC-AAAATA-TTTTTTAGAAACTTTAATTTCGAAG-
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTA-AAACTTTTATTTC-AAGA
* * *
6399532 AAAATTGATACTTTCAACTTTTCCTTAAAAATCCA-CTTTTGAAAACTTATT-TTT-AAGA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAT--ATTTTTTTAAAACTT-TTATTTCAAGA
* ** * * *
6399590 AAAATTGATACTTTTAACTTTTTTTCAAAAATATTTTTTAGAAAACTTAT-TTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTT-TAAAACTTTTATTTCAAGA
* * * *
6399648 AAAAGTGTTACTTTCAACTTTACCTCAAAAATATTTTTTTTAGAAAGTTTTATTTTCAA-A
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTTTA-AAACTTTTA-TTTCAAGA
*
6399708 GAAAATTGATACTTTCAACTTTTCCTCAAAAATACTTTTTTTAAAATTTTTATTTCAAGA
1 -AAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTTTAAAACTTTTATTTCAAGA
* * * * *
6399768 AAAATTAATAATTTTAACTTTTCCATAAAATAATTTTTTTTTA
1 AAAATTGATACTTTCAACTTTTCC-TCAAA-AATATTTTTTTA
6399811 TCATTTTATT
Statistics
Matches: 229, Mismatches: 34, Indels: 29
0.78 0.12 0.10
Matches are distributed among these distances:
56 1 0.00
57 33 0.14
58 72 0.31
59 48 0.21
60 28 0.12
61 47 0.21
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.45
Consensus pattern (58 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTAAAACTTTTATTTCAAGA
Found at i:6402159 original size:4 final size:4
Alignment explanation
Indices: 6402137--6402174 Score: 58
Period size: 4 Copynumber: 9.2 Consensus size: 4
6402127 TCTTTTCATT
*
6402137 TTTA TTTT TTTA GTTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA -TTTA TTTA TTTA TTTA TTTA TTTA T
6402175 AGCTTGCATG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
4 27 0.87
5 4 0.13
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:6402313 original size:26 final size:27
Alignment explanation
Indices: 6402280--6402345 Score: 68
Period size: 26 Copynumber: 2.6 Consensus size: 27
6402270 AATGATGGAA
*
6402280 TTTT-TAAAAATT-TTAAATGAAAAAT
1 TTTTATAAAAATTCCTAAATGAAAAAT
** *
6402305 TTTTAT-AAAATTCCTAGGTGAGAAAT
1 TTTTATAAAAATTCCTAAATGAAAAAT
6402331 TTTTAT-AAAATTCCT
1 TTTTATAAAAATTCCT
6402346 TTTTCTAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
25 10 0.29
26 25 0.71
ACGTcount: A:0.42, C:0.06, G:0.08, T:0.44
Consensus pattern (27 bp):
TTTTATAAAAATTCCTAAATGAAAAAT
Found at i:6406104 original size:26 final size:27
Alignment explanation
Indices: 6406075--6406138 Score: 78
Period size: 26 Copynumber: 2.4 Consensus size: 27
6406065 AAAAGGTCTC
*
6406075 AAAAACAAAAATTAAAA-AAAAAGAAA
1 AAAAAGAAAAATTAAAAGAAAAAGAAA
* *
6406101 AAAAAGTAAAA-TAAAAGAAAAAGAGA
1 AAAAAGAAAAATTAAAAGAAAAAGAAA
*
6406127 GAAAAGAAAAAT
1 AAAAAGAAAAAT
6406139 GAATGACATA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
25 5 0.16
26 26 0.84
ACGTcount: A:0.80, C:0.02, G:0.11, T:0.08
Consensus pattern (27 bp):
AAAAAGAAAAATTAAAAGAAAAAGAAA
Found at i:6406136 original size:20 final size:20
Alignment explanation
Indices: 6406081--6406122 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
6406071 TCTCAAAAAC
*
6406081 AAAAATTAAAAAAAAAGAAA
1 AAAAAGTAAAAAAAAAGAAA
*
6406101 AAAAAGTAAAATAAAAGAAA
1 AAAAAGTAAAAAAAAAGAAA
6406121 AA
1 AA
6406123 GAGAGAAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.83, C:0.00, G:0.07, T:0.10
Consensus pattern (20 bp):
AAAAAGTAAAAAAAAAGAAA
Found at i:6407726 original size:109 final size:108
Alignment explanation
Indices: 6407528--6407745 Score: 319
Period size: 109 Copynumber: 2.0 Consensus size: 108
6407518 GATAAAATTA
* *
6407528 TGAGTTTTCAAATGAGAATTTTTTAGGTTTCAAATAAGAATCTTTAAATTTCAAATGAGAATATT
1 TGAGTTTTCAAATGAGAATCTTTGAGGTTTCAAATAAGAATCTTTAAATTTCAAATGAGAATATT
6407593 TGAGTTTTCAAATGAGAATCTTTGAGTTTTCAAATGAAAATCTT
66 TGAGTTTTCAAATGAGAATCTTTGAGTTTT-AAATGAAAATCTT
* * * * * *
6407637 TGAGTTTTCAAATGAGAATCTTTGAGTTTTCAAGTGAGAGTCTTTGAATTTCAAATGAGAATTTT
1 TGAGTTTTCAAATGAGAATCTTTGAGGTTTCAAATAAGAATCTTTAAATTTCAAATGAGAATATT
* * * *
6407702 TTAGTTTTCAAATTAGACTTTTTGAGTTTTAAATGAAAATCTT
66 TGAGTTTTCAAATGAGAATCTTTGAGTTTTAAATGAAAATCTT
6407745 T
1 T
6407746 TAGAATCTTT
Statistics
Matches: 97, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
108 14 0.14
109 83 0.86
ACGTcount: A:0.34, C:0.07, G:0.16, T:0.43
Consensus pattern (108 bp):
TGAGTTTTCAAATGAGAATCTTTGAGGTTTCAAATAAGAATCTTTAAATTTCAAATGAGAATATT
TGAGTTTTCAAATGAGAATCTTTGAGTTTTAAATGAAAATCTT
Found at i:6407746 original size:22 final size:22
Alignment explanation
Indices: 6407528--6407745 Score: 262
Period size: 22 Copynumber: 10.0 Consensus size: 22
6407518 GATAAAATTA
*
6407528 TGAGTTTTCAAATGAGAATTTT
1 TGAGTTTTCAAATGAGAATCTT
* * *
6407550 TTAGGTTTCAAATAAGAATCTT
1 TGAGTTTTCAAATGAGAATCTT
** *
6407572 T-AAATTTCAAATGAGAATATT
1 TGAGTTTTCAAATGAGAATCTT
6407593 TGAGTTTTCAAATGAGAATCTT
1 TGAGTTTTCAAATGAGAATCTT
*
6407615 TGAGTTTTCAAATGAAAATCTT
1 TGAGTTTTCAAATGAGAATCTT
6407637 TGAGTTTTCAAATGAGAATCTT
1 TGAGTTTTCAAATGAGAATCTT
* *
6407659 TGAGTTTTCAAGTGAGAGTCTT
1 TGAGTTTTCAAATGAGAATCTT
* *
6407681 TGA-ATTTCAAATGAGAATTTT
1 TGAGTTTTCAAATGAGAATCTT
* * * *
6407702 TTAGTTTTCAAATTAGACTTTT
1 TGAGTTTTCAAATGAGAATCTT
*
6407724 TGAGTTTT-AAATGAAAATCTT
1 TGAGTTTTCAAATGAGAATCTT
6407745 T
1 T
6407746 TAGAATCTTT
Statistics
Matches: 166, Mismatches: 28, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
21 43 0.26
22 123 0.74
ACGTcount: A:0.34, C:0.07, G:0.16, T:0.43
Consensus pattern (22 bp):
TGAGTTTTCAAATGAGAATCTT
Found at i:6407747 original size:43 final size:43
Alignment explanation
Indices: 6407530--6407748 Score: 233
Period size: 43 Copynumber: 5.0 Consensus size: 43
6407520 TAAAATTATG
* * * *
6407530 AGTTTTCAAATGAGAATTTTTTAGGTTTCAAATAAGAATC-TTT
1 AGTTTTCAAATGAGAATCTTTGA-GTTTTAAATGAGAATCTTTT
** * *
6407573 AAATTTCAAATGAGAATATTTGAGTTTTCAAATGAGAATCTTTG
1 AGTTTTCAAATGAGAATCTTTGAGTTTT-AAATGAGAATCTTTT
* *
6407617 AGTTTTCAAATGAAAATCTTTGAGTTTTCAAATGAGAATCTTTG
1 AGTTTTCAAATGAGAATCTTTGAGTTTT-AAATGAGAATCTTTT
* * * * *
6407661 AGTTTTCAAGTGAGAGTCTTTGAATTTCAAATGAGAATTTTTT
1 AGTTTTCAAATGAGAATCTTTGAGTTTTAAATGAGAATCTTTT
* * * *
6407704 AGTTTTCAAATTAGACTTTTTGAGTTTTAAATGAAAATCTTTT
1 AGTTTTCAAATGAGAATCTTTGAGTTTTAAATGAGAATCTTTT
6407747 AG
1 AG
6407749 AATCTTTAAG
Statistics
Matches: 148, Mismatches: 26, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
42 4 0.03
43 79 0.53
44 65 0.44
ACGTcount: A:0.34, C:0.07, G:0.16, T:0.43
Consensus pattern (43 bp):
AGTTTTCAAATGAGAATCTTTGAGTTTTAAATGAGAATCTTTT
Found at i:6408322 original size:31 final size:31
Alignment explanation
Indices: 6408277--6408337 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
6408267 AATCTTGAAA
* *
6408277 TCTTATGAATCTAAAATTTTGTGAATCAAAT
1 TCTTATGAAACTAAAATTTTGAGAATCAAAT
*
6408308 TCTTGTGAAACTAAAATTTTGAGAATCAAA
1 TCTTATGAAACTAAAATTTTGAGAATCAAA
6408338 ATTTGGTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.41, C:0.10, G:0.11, T:0.38
Consensus pattern (31 bp):
TCTTATGAAACTAAAATTTTGAGAATCAAAT
Found at i:6408339 original size:46 final size:49
Alignment explanation
Indices: 6408283--6408396 Score: 136
Period size: 41 Copynumber: 2.4 Consensus size: 49
6408273 GAAATCTTAT
6408283 GAATCTAAAATTTTGTGAATCAAATTCTTGTGAAACT-AAAA-TTTTGA
1 GAATCTAAAATTTTGTGAATCAAATTCTTGTGAAACTAAAAAGTTTTGA
*
6408330 GAATC-AAAA-TTTG-G--T-AAATTCTTGTGAAGCTAAAAAGTTTTTGA
1 GAATCTAAAATTTTGTGAATCAAATTCTTGTGAAACTAAAAAG-TTTTGA
6408374 GAATCTAAAAATTCTTGTGAATC
1 GAATCT-AAAATT-TTGTGAATC
6408397 TTTGAATTGA
Statistics
Matches: 55, Mismatches: 1, Indels: 17
0.75 0.01 0.23
Matches are distributed among these distances:
41 15 0.27
42 5 0.09
44 12 0.22
45 4 0.07
46 8 0.15
47 6 0.11
48 3 0.05
49 1 0.02
51 1 0.02
ACGTcount: A:0.39, C:0.09, G:0.15, T:0.37
Consensus pattern (49 bp):
GAATCTAAAATTTTGTGAATCAAATTCTTGTGAAACTAAAAAGTTTTGA
Found at i:6408340 original size:15 final size:16
Alignment explanation
Indices: 6408282--6408341 Score: 72
Period size: 15 Copynumber: 3.9 Consensus size: 16
6408272 TGAAATCTTA
6408282 TGAATCTAAAATTTTG
1 TGAATCTAAAATTTTG
6408298 TGAATC--AAATTCTTG
1 TGAATCTAAAATT-TTG
*
6408313 TGAAACTAAAATTTTG
1 TGAATCTAAAATTTTG
*
6408329 AGAATC-AAAATTT
1 TGAATCTAAAATTT
6408342 GGTAAATTCT
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
14 5 0.13
15 15 0.39
16 13 0.34
17 5 0.13
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.38
Consensus pattern (16 bp):
TGAATCTAAAATTTTG
Found at i:6408395 original size:18 final size:18
Alignment explanation
Indices: 6408345--6408397 Score: 70
Period size: 19 Copynumber: 2.9 Consensus size: 18
6408335 AAAATTTGGT
*
6408345 AAATTCTTGTGAAGCTAA
1 AAATTCTTGTGAATCTAA
* *
6408363 AAAGTTTTTGAGAATCTAA
1 AAA-TTCTTGTGAATCTAA
6408382 AAATTCTTGTGAATCT
1 AAATTCTTGTGAATCT
6408398 TTGAATTGAG
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
18 14 0.48
19 15 0.52
ACGTcount: A:0.38, C:0.09, G:0.15, T:0.38
Consensus pattern (18 bp):
AAATTCTTGTGAATCTAA
Found at i:6408425 original size:15 final size:15
Alignment explanation
Indices: 6408388--6408444 Score: 55
Period size: 15 Copynumber: 3.9 Consensus size: 15
6408378 CTAAAAATTC
*
6408388 TTGTGAATCTTTGAA
1 TTGTGAACCTTTGAA
*
6408403 TTGAGAACCTTTGAA
1 TTGTGAACCTTTGAA
* *
6408418 TTTTGAA-C-TTAAA
1 TTGTGAACCTTTGAA
*
6408431 TTGTGAATCTTTGA
1 TTGTGAACCTTTGA
6408445 GTTTCCATCA
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
13 10 0.30
14 2 0.06
15 21 0.64
ACGTcount: A:0.30, C:0.09, G:0.18, T:0.44
Consensus pattern (15 bp):
TTGTGAACCTTTGAA
Found at i:6408690 original size:43 final size:43
Alignment explanation
Indices: 6408484--6408835 Score: 322
Period size: 43 Copynumber: 8.2 Consensus size: 43
6408474 CTGGACATTA
* **
6408484 TTAGAGGA-CCTTTATTTATTTTTTCAAAGTTGTTGAGCCTTTGT
1 TTAGAGGAGCC-TTATTTA-TTTTTCAAAGTTGTTGAGCCTCTAC
* * * *
6408528 TTAGATGAG-C--ATTTATTTTTCAAAGTTGTTGAACCTTTAT
1 TTAGAGGAGCCTTATTTATTTTTCAAAGTTGTTGAGCCTCTAC
* * * * *
6408568 TTAGAGAAG-CTTATTTATTTTCCAAAGTCGTTGATCCTCTAA
1 TTAGAGGAGCCTTATTTATTTTTCAAAGTTGTTGAGCCTCTAC
** * *
6408610 TTAGAGGAGTTTTATTTATTTTTTGAAAGTCGTTGAGCCTCTAC
1 TTAGAGGAGCCTTATTTA-TTTTTCAAAGTTGTTGAGCCTCTAC
6408654 TTAGAGGAGCCTTATTTATTTTTCAAAGTTGTTGAGCCTCTAC
1 TTAGAGGAGCCTTATTTATTTTTCAAAGTTGTTGAGCCTCTAC
* * * *
6408697 TTAGATGAGCCTTATTTAGTTTTCCAAAGTGGTTGAGCCTCTAA
1 TTAGAGGAGCCTTATTTA-TTTTTCAAAGTTGTTGAGCCTCTAC
* ** ** * **
6408741 TTAGATGAGATTTATTT-TTTCTTCAAAGTCATTGAGCCTTTGT
1 TTAGAGGAGCCTTATTTATTT-TTCAAAGTTGTTGAGCCTCTAC
* * *
6408784 TTAGAGGAGCCTTGTATATTTTCCAAATGTTG-TGAGCCTCTAC
1 TTAGAGGAGCCTTATTTATTTTTCAAA-GTTGTTGAGCCTCTAC
6408827 TTAGAGGAG
1 TTAGAGGAG
6408836 TTCATATTAT
Statistics
Matches: 256, Mismatches: 43, Indels: 19
0.81 0.14 0.06
Matches are distributed among these distances:
40 31 0.12
41 5 0.02
42 36 0.14
43 97 0.38
44 87 0.34
ACGTcount: A:0.24, C:0.14, G:0.19, T:0.43
Consensus pattern (43 bp):
TTAGAGGAGCCTTATTTATTTTTCAAAGTTGTTGAGCCTCTAC
Found at i:6408788 original size:87 final size:85
Alignment explanation
Indices: 6408495--6408832 Score: 301
Period size: 87 Copynumber: 4.0 Consensus size: 85
6408485 TAGAGGACCT
* * * * * *
6408495 TTATTTATTTTTTCAAAGTTGTTGAGCCTTTGTTTAGATGAG-C--ATTTATTTTTCAAAGTTGT
1 TTATTTA-TTTTTCAAAGTCGTTGAGCCTCTATTTAGAGGAGCCTTATTTATTTTCCAAAGTGGT
* * *
6408557 TGAACCTTTATTTAGAGA-AGC
65 TGAGCCTCTACTTAGAGAGA-C
* * * ** ** *
6408578 TTATTTATTTTCCAAAGTCGTTGATCCTCTAATTAGAGGAGTTTTATTTATTTTTTGAAAGTCGT
1 TTATTTATTTTTCAAAGTCGTTGAGCCTCTATTTAGAGGAGCCTTATTTA-TTTTCCAAAGTGGT
*
6408643 TGAGCCTCTACTTAGAGGAGCC
65 TGAGCCTCTACTTAGA-GAGAC
* * *
6408665 TTATTTATTTTTCAAAGTTGTTGAGCCTCTACTTAGATGAGCCTTATTTAGTTTTCCAAAGTGGT
1 TTATTTATTTTTCAAAGTCGTTGAGCCTCTATTTAGAGGAGCCTTATTTA-TTTTCCAAAGTGGT
* *
6408730 TGAGCCTCTAATTAGATGAGAT
65 TGAGCCTCTACTTAGA-GAGAC
* * * * * *
6408752 TTATTT-TTTCTTCAAAGTCATTGAGCCTTTGTTTAGAGGAGCCTTGTATATTTTCCAAA-TGTT
1 TTATTTATTT-TTCAAAGTCGTTGAGCCTCTATTTAGAGGAGCCTTATTTATTTTCCAAAGTGGT
6408815 GTGAGCCTCTACTTAGAG
65 -TGAGCCTCTACTTAGAG
6408833 GAGTTCATAT
Statistics
Matches: 208, Mismatches: 39, Indels: 14
0.80 0.15 0.05
Matches are distributed among these distances:
82 27 0.13
83 7 0.03
85 9 0.04
86 52 0.25
87 113 0.54
ACGTcount: A:0.24, C:0.14, G:0.18, T:0.44
Consensus pattern (85 bp):
TTATTTATTTTTCAAAGTCGTTGAGCCTCTATTTAGAGGAGCCTTATTTATTTTCCAAAGTGGTT
GAGCCTCTACTTAGAGAGAC
Found at i:6410550 original size:18 final size:20
Alignment explanation
Indices: 6410527--6410573 Score: 71
Period size: 21 Copynumber: 2.4 Consensus size: 20
6410517 GTCCGAGCTA
6410527 ATTTTTTTCC-TTTT-TTTT
1 ATTTTTTTCCATTTTATTTT
6410545 ATTTTTTTCCATTTTTATTTT
1 ATTTTTTTCCA-TTTTATTTT
6410566 ATTTTTTT
1 ATTTTTTT
6410574 AGTTTATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
18 10 0.38
20 4 0.15
21 12 0.46
ACGTcount: A:0.11, C:0.09, G:0.00, T:0.81
Consensus pattern (20 bp):
ATTTTTTTCCATTTTATTTT
Found at i:6410572 original size:13 final size:13
Alignment explanation
Indices: 6410556--6410591 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
6410546 TTTTTTTCCA
6410556 TTTTTATTTTATT
1 TTTTTATTTTATT
*
6410569 TTTTTAGTTTATT
1 TTTTTATTTTATT
*
6410582 TATTTATTTT
1 TTTTTATTTT
6410592 TTTATAGCAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.81
Consensus pattern (13 bp):
TTTTTATTTTATT
Found at i:6420820 original size:11 final size:11
Alignment explanation
Indices: 6420804--6420829 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
6420794 TTTTTATGGC
6420804 ATAGCCTCTAA
1 ATAGCCTCTAA
6420815 ATAGCCTCTAA
1 ATAGCCTCTAA
6420826 ATAG
1 ATAG
6420830 GCTGAATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.23, G:0.12, T:0.27
Consensus pattern (11 bp):
ATAGCCTCTAA
Found at i:6426518 original size:3 final size:3
Alignment explanation
Indices: 6426510--6426551 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
6426500 TATAAATTAA
6426510 ACT ACT ACT ACT ACT ACT ACT A-T ACT ACT ACT ACT ACT ACT A
1 ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT A
6426552 TTATTATTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.36, C:0.31, G:0.00, T:0.33
Consensus pattern (3 bp):
ACT
Found at i:6426537 original size:20 final size:20
Alignment explanation
Indices: 6426512--6426552 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
6426502 TAAATTAAAC
6426512 TACTACTACTACTACTACTA
1 TACTACTACTACTACTACTA
6426532 TACTACTACTACTACTACTA
1 TACTACTACTACTACTACTA
6426552 T
1 T
6426553 TATTATTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.29, G:0.00, T:0.37
Consensus pattern (20 bp):
TACTACTACTACTACTACTA
Found at i:6427281 original size:14 final size:14
Alignment explanation
Indices: 6427264--6427322 Score: 50
Period size: 14 Copynumber: 4.2 Consensus size: 14
6427254 AAATAATATA
6427264 AAATTCATAAAAAT
1 AAATTCATAAAAAT
**
6427278 AAATAAAT-AAAAT
1 AAATTCATAAAAAT
* *
6427291 GAAATT-AAAAACAAC
1 -AAATTCATAAA-AAT
6427306 AAATTCATAAAAAT
1 AAATTCATAAAAAT
6427320 AAA
1 AAA
6427323 AAATGAAAAT
Statistics
Matches: 34, Mismatches: 7, Indels: 8
0.69 0.14 0.16
Matches are distributed among these distances:
13 6 0.18
14 22 0.65
15 6 0.18
ACGTcount: A:0.69, C:0.07, G:0.02, T:0.22
Consensus pattern (14 bp):
AAATTCATAAAAAT
Found at i:6427309 original size:28 final size:29
Alignment explanation
Indices: 6427240--6427323 Score: 75
Period size: 28 Copynumber: 2.9 Consensus size: 29
6427230 GAGAAAAGAA
*
6427240 CAAAAACAAACAAA-AAATAATATAAAATT
1 CAAAAAC-AACAAATAAATAAAATAAAATT
* * *
6427269 CATAAA-AATAAATAAATAAAATGAAATT
1 CAAAAACAACAAATAAATAAAATAAAATT
**
6427297 -AAAAACAACAAATTCATAAAAATAAAA
1 CAAAAACAACAAATAAAT-AAAATAAAA
6427324 AATGAAAATG
Statistics
Matches: 43, Mismatches: 9, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
27 9 0.21
28 21 0.49
29 13 0.30
ACGTcount: A:0.71, C:0.08, G:0.01, T:0.19
Consensus pattern (29 bp):
CAAAAACAACAAATAAATAAAATAAAATT
Found at i:6428184 original size:3 final size:3
Alignment explanation
Indices: 6428176--6428229 Score: 69
Period size: 3 Copynumber: 18.7 Consensus size: 3
6428166 AATTAAAACA
*
6428176 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA- AAG AAT AA- AAT AA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
6428221 AAT GAAT AA
1 AAT -AAT AA
6428230 GATAAATATA
Statistics
Matches: 46, Mismatches: 1, Indels: 8
0.84 0.02 0.15
Matches are distributed among these distances:
2 6 0.13
3 37 0.80
4 3 0.07
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:6428237 original size:9 final size:9
Alignment explanation
Indices: 6428145--6428303 Score: 59
Period size: 9 Copynumber: 17.1 Consensus size: 9
6428135 AATTAAATTT
6428145 ATAAAAT-A
1 ATAAAATAA
6428153 ATAAAATAA
1 ATAAAATAA
6428162 CA-AAAATTAA
1 -ATAAAA-TAA
6428172 A-ACAAAT-A
1 ATA-AAATAA
6428180 ATAATAAT-A
1 ATAA-AATAA
6428189 ATAATAAT-A
1 ATAA-AATAA
6428198 ATAATAATAA
1 ATAA-AATAA
*
6428208 A-AGAATAAA
1 ATAAAAT-AA
*
6428217 ATAAAATGA
1 ATAAAATAA
*
6428226 ATAAGATAA
1 ATAAAATAA
*
6428235 ATATATATACA
1 ATA-AAATA-A
*
6428246 A-ATAAATGCA
1 ATA-AAAT-AA
6428256 ATAAAAGTAA
1 ATAAAA-TAA
*
6428266 A-AACATAAA
1 ATAAAAT-AA
6428275 ATAATAATAA
1 ATAA-AATAA
6428285 ATATAAATAA
1 ATA-AAATAA
6428295 AT-AAATAA
1 ATAAAATAA
6428303 A
1 A
6428304 AATTAAACAA
Statistics
Matches: 122, Mismatches: 11, Indels: 36
0.72 0.07 0.21
Matches are distributed among these distances:
8 21 0.17
9 51 0.42
10 43 0.35
11 7 0.06
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.24
Consensus pattern (9 bp):
ATAAAATAA
Found at i:6428285 original size:25 final size:26
Alignment explanation
Indices: 6428185--6428284 Score: 73
Period size: 25 Copynumber: 3.6 Consensus size: 26
6428175 AAATAATAAT
6428185 AATAATAATAATAATAATAA-TAAAAG
1 AATAA-AATAATAATAATAAGTAAAAG
*
6428211 AATAAAATAA-AATGAATAAGATAAATAT
1 AATAAAATAATAAT-AATAAG-TAAA-AG
6428239 ATATACAAATAAATGCAATAA-AAGTAAAA-
1 A-ATA-AAAT-AAT--AATAATAAGTAAAAG
6428268 ACATAAAATAATAATAA
1 A-ATAAAATAATAATAA
6428285 ATATAAATAA
Statistics
Matches: 62, Mismatches: 2, Indels: 21
0.73 0.02 0.25
Matches are distributed among these distances:
24 3 0.05
25 15 0.24
26 5 0.08
27 7 0.11
28 6 0.10
29 7 0.11
30 5 0.08
31 6 0.10
32 3 0.05
33 2 0.03
34 3 0.05
ACGTcount: A:0.68, C:0.03, G:0.05, T:0.24
Consensus pattern (26 bp):
AATAAAATAATAATAATAAGTAAAAG
Found at i:6428301 original size:52 final size:52
Alignment explanation
Indices: 6428203--6428303 Score: 120
Period size: 52 Copynumber: 1.9 Consensus size: 52
6428193 TAATAATAAT
*
6428203 AATAAAAGAATAAAATAAAATGAATAAGATAAATATATATACAAATAAATGC
1 AATAAAAGAATAAAATAAAATGAATAAGATAAATATATAAACAAATAAATGC
*
6428255 AATAAAAGTAA-AAACATAAAAT-AAT-A-ATAAATATAAATAAATAAATAAA
1 AATAAAAG-AATAAA-ATAAAATGAATAAGATAAATAT--ATAAACAAATAAA
6428304 AATTAAACAA
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
50 8 0.19
51 1 0.02
52 25 0.58
53 9 0.21
ACGTcount: A:0.69, C:0.03, G:0.05, T:0.23
Consensus pattern (52 bp):
AATAAAAGAATAAAATAAAATGAATAAGATAAATATATAAACAAATAAATGC
Found at i:6438444 original size:41 final size:41
Alignment explanation
Indices: 6438354--6438452 Score: 112
Period size: 45 Copynumber: 2.4 Consensus size: 41
6438344 TTCCTTTCAC
* *
6438354 TTTTTTACATTGGCTTTTTTTTTCTCTAGCCCATCATTCTTT
1 TTTTTTACATTGGCTTTTTTTTTCTCCAGCCCAT-ATCCTTT
* *
6438396 TCCTTTTACATTGGTTTTTTTCTTTTCTCCAGCCC-T-TCCTTT
1 T-TTTTTACATTGG-CTTTTT-TTTTCTCCAGCCCATATCCTTT
6438438 TTTTTTACATTGGCT
1 TTTTTTACATTGGCT
6438453 ACTTCTTTTT
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
40 1 0.02
41 11 0.23
42 7 0.15
43 11 0.23
44 6 0.12
45 12 0.25
ACGTcount: A:0.10, C:0.23, G:0.08, T:0.59
Consensus pattern (41 bp):
TTTTTTACATTGGCTTTTTTTTTCTCCAGCCCATATCCTTT
Found at i:6439919 original size:12 final size:12
Alignment explanation
Indices: 6439902--6439935 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
6439892 GATTTTGAAA
6439902 TTTTTGTTTTGT
1 TTTTTGTTTTGT
6439914 TTTTTGTTTT-T
1 TTTTTGTTTTGT
6439925 TTTTT-TTTTGT
1 TTTTTGTTTTGT
6439936 AAATTAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 4 0.19
11 7 0.33
12 10 0.48
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (12 bp):
TTTTTGTTTTGT
Found at i:6440220 original size:105 final size:105
Alignment explanation
Indices: 6439992--6440306 Score: 348
Period size: 105 Copynumber: 3.0 Consensus size: 105
6439982 AAATAAAACA
* * *
6439992 AGAGATCATGCCCAGAGGTCTTACAAATCTCAACATCTTTGAATGCTTCTCTCAATTAGA-GCAT
1 AGAGATTATGCCTAGAGGTCTTACAAATCTCAACATCTTTGAATGCTTCTCTCAATAAGAGGCAT
* *** * *
6440056 TGAAACTTTAAAAATTTTAAATGATTCATCTGAAGGTCTT
66 TGAAACTTTAAAAATTTAAAATGATTTGCCCGGAGGTCTT
* * * * * *
6440096 GGAGATTATG-TTTGAAGGTCTTACAAATCTCGACATCTTTGAATGCTCCTCTCAATAAAAGGCA
1 AGAGATTATGCCTAG-AGGTCTTACAAATCTCAACATCTTTGAATGCTTCTCTCAATAAGAGGCA
* * *
6440160 TTAAAACTTTGAAAATTTAAAATGGTTTGCCCGGAGGTCTT
65 TTGAAACTTTAAAAATTTAAAATGATTTGCCCGGAGGTCTT
* * *
6440201 AGAGATTATGCCTAGAGGTCTTACAAATCTCAATATCTTTGAATGCTTATC-CTAATAAGAGTCA
1 AGAGATTATGCCTAGAGGTCTTACAAATCTCAACATCTTTGAATGCTTCTCTC-AATAAGAGGCA
* * ** * *
6440265 TTGAAACTTTCAAATTTTAAAATCTTTTGCTCAGAGGTCTT
65 TTGAAACTTTAAAAATTTAAAATGATTTGCCCGGAGGTCTT
6440306 A
1 A
6440307 AAAATTATCT
Statistics
Matches: 173, Mismatches: 34, Indels: 7
0.81 0.16 0.03
Matches are distributed among these distances:
103 1 0.01
104 50 0.29
105 120 0.69
106 2 0.01
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.35
Consensus pattern (105 bp):
AGAGATTATGCCTAGAGGTCTTACAAATCTCAACATCTTTGAATGCTTCTCTCAATAAGAGGCAT
TGAAACTTTAAAAATTTAAAATGATTTGCCCGGAGGTCTT
Found at i:6440611 original size:18 final size:18
Alignment explanation
Indices: 6440588--6440628 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
6440578 AAATGCTGCA
*
6440588 AATGCAAATGTCGATGTG
1 AATGCAAATGTCAATGTG
*
6440606 AATGCAAATGTCAATTTG
1 AATGCAAATGTCAATGTG
6440624 AATGC
1 AATGC
6440629 TTGATACAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.29
Consensus pattern (18 bp):
AATGCAAATGTCAATGTG
Found at i:6441036 original size:100 final size:98
Alignment explanation
Indices: 6440873--6441077 Score: 257
Period size: 100 Copynumber: 2.1 Consensus size: 98
6440863 GATGTAGATG
* * * * *
6440873 TGAATGCAAATGTCTTTCTCATGATACACATGCAAGTGTAAATACAAGTGATACAAATGCGAATG
1 TGAATGCAAATGTCTTTCTAATGATACACACGCAAGTGCAAATACAAATGATACAAATACGAATG
* *
6440938 TCTTTTTTGTGATATAGATGCAAGTGATGCAAATA
66 TCTTTTTT-T-ATACAGATGCAAGTGATACAAATA
* * * * **
6440973 TGAATGTAAGTGTCTTTCTAATGATACACACGCAAGTGCGAATGCAAATGATGTAAATACGAATG
1 TGAATGCAAATGTCTTTCTAATGATACACACGCAAGTGCAAATACAAATGATACAAATACGAATG
*
6441038 TCTTTTTTTATGCAGATGCAAGTGATACAAATA
66 TCTTTTTTTATACAGATGCAAGTGATACAAATA
*
6441071 TAAATGC
1 TGAATGC
6441078 CTTTTTTTGT
Statistics
Matches: 89, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
98 26 0.29
99 1 0.01
100 62 0.70
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.32
Consensus pattern (98 bp):
TGAATGCAAATGTCTTTCTAATGATACACACGCAAGTGCAAATACAAATGATACAAATACGAATG
TCTTTTTTTATACAGATGCAAGTGATACAAATA
Found at i:6441365 original size:43 final size:45
Alignment explanation
Indices: 6441277--6441381 Score: 133
Period size: 43 Copynumber: 2.4 Consensus size: 45
6441267 TGAATGTAAA
*
6441277 TGATGTAAATGCGAATGTCCTTTTTTTTTATGATATAAACACAAG
1 TGATGTAAATGCGAATGTCCTTTTTTTTTATGATACAAACACAAG
* * * * **
6441322 TGATGCAAATACGAATGT-C-TTTTTTTTGTGATGCAAATGCAAG
1 TGATGTAAATGCGAATGTCCTTTTTTTTTATGATACAAACACAAG
6441365 TGATGTAAATGCGAATG
1 TGATGTAAATGCGAATG
6441382 CAAATGTCTT
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
43 34 0.67
44 1 0.02
45 16 0.31
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.37
Consensus pattern (45 bp):
TGATGTAAATGCGAATGTCCTTTTTTTTTATGATACAAACACAAG
Found at i:6443255 original size:18 final size:18
Alignment explanation
Indices: 6443232--6443275 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
6443222 TGTCACAACC
6443232 ATTTTTTTATTTCTTTAT-
1 ATTTTTTTATTT-TTTATG
* *
6443250 ATTTTTTTCTTTTTTTTG
1 ATTTTTTTATTTTTTATG
6443268 ATTTTTTT
1 ATTTTTTT
6443276 TTAGACATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 19 0.83
ACGTcount: A:0.11, C:0.05, G:0.02, T:0.82
Consensus pattern (18 bp):
ATTTTTTTATTTTTTATG
Found at i:6444273 original size:2 final size:2
Alignment explanation
Indices: 6444266--6444295 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
6444256 GATGAGGTTT
6444266 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
6444296 ATAATCACCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6444961 original size:18 final size:17
Alignment explanation
Indices: 6444934--6444967 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
6444924 GGATTGGAAG
6444934 TTTTTCTTATTTATTTCT
1 TTTTTCTTATTT-TTTCT
*
6444952 TTTTTTTTATTTTTTC
1 TTTTTCTTATTTTTTC
6444968 CTTGGTCATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTTTCTTATTTTTTCT
Found at i:6451589 original size:11 final size:11
Alignment explanation
Indices: 6451573--6451597 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
6451563 TGTAGTAGCT
6451573 AAAAATAATTA
1 AAAAATAATTA
6451584 AAAAATAATTA
1 AAAAATAATTA
6451595 AAA
1 AAA
6451598 TCATGCCGCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (11 bp):
AAAAATAATTA
Found at i:6451938 original size:39 final size:37
Alignment explanation
Indices: 6451854--6451983 Score: 116
Period size: 42 Copynumber: 3.3 Consensus size: 37
6451844 TAGCCTTTCC
* * *
6451854 TTTTTTTTTACGTTGGCTTCTTTTTTTTCTTCAACCTGTCCT
1 TTTTTTTTTACATTGGC-T-TTTTTTTTCTCCAA-CT-T-TT
6451896 TTTTTTTTTACATTGGCTTATTTCTTTTCTCCAACTTTT
1 TTTTTTTTTACATTGGCTT-TTT-TTTTCTCCAACTTTT
* * * *
6451935 TTTTTTTGTACATTAGCTTTTTTTTTCTCTAGCCTTTT
1 TTTTTTTTTACATTGGCTTTTTTTTTCTCCA-ACTTTT
6451973 TTTCTTTTTTA
1 TTT-TTTTTTA
6451984 TGTTGGTTTC
Statistics
Matches: 76, Mismatches: 8, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
37 8 0.11
38 11 0.14
39 24 0.32
40 2 0.03
41 6 0.08
42 25 0.33
ACGTcount: A:0.10, C:0.18, G:0.07, T:0.65
Consensus pattern (37 bp):
TTTTTTTTTACATTGGCTTTTTTTTTCTCCAACTTTT
Found at i:6451941 original size:42 final size:42
Alignment explanation
Indices: 6451854--6451963 Score: 124
Period size: 42 Copynumber: 2.7 Consensus size: 42
6451844 TAGCCTTTCC
* * * *
6451854 TTTTTTTTTACGTTGGCTTCTTTTTTTTCTTCAACCTGTCCT
1 TTTTTTTTTACATTGGCTTATTTCTTTTCTCCAACCTGTCCT
6451896 TTTTTTTTTACATTGGCTTATTTCTTTTCTCCAA-CT-T--T
1 TTTTTTTTTACATTGGCTTATTTCTTTTCTCCAACCTGTCCT
*
6451934 TTTTTTTTGTACATTAGCTT-TTT-TTTTCTC
1 TTTTTTTT-TACATTGGCTTATTTCTTTTCTC
6451964 TAGCCTTTTT
Statistics
Matches: 62, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
37 7 0.11
38 12 0.19
39 10 0.16
40 1 0.02
41 2 0.03
42 30 0.48
ACGTcount: A:0.10, C:0.18, G:0.07, T:0.65
Consensus pattern (42 bp):
TTTTTTTTTACATTGGCTTATTTCTTTTCTCCAACCTGTCCT
Found at i:6452700 original size:35 final size:34
Alignment explanation
Indices: 6452643--6452708 Score: 89
Period size: 35 Copynumber: 1.9 Consensus size: 34
6452633 TATTTTAATT
*
6452643 AAGAAAAATTAAATTAATAAATTAAAATTAACTA
1 AAGAAAAATTAAAATAATAAATTAAAATTAACTA
*
6452677 AAGAATAAATTATAAATAA-AAATTATAATTAA
1 AAGAA-AAATTA-AAATAATAAATTAAAATTAA
6452709 AACACTTAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 5 0.18
35 18 0.64
36 5 0.18
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.30
Consensus pattern (34 bp):
AAGAAAAATTAAAATAATAAATTAAAATTAACTA
Found at i:6452701 original size:13 final size:14
Alignment explanation
Indices: 6452653--6452710 Score: 57
Period size: 13 Copynumber: 4.1 Consensus size: 14
6452643 AAGAAAAATT
*
6452653 AAATTAATAAATTA
1 AAATTAATAAATAA
*
6452667 AAATTAACTAAAGAA
1 AAATTAA-TAAATAA
6452682 TAAATT-ATAAATAA
1 -AAATTAATAAATAA
*
6452696 AAATT-ATAATTAA
1 AAATTAATAAATAA
6452709 AA
1 AA
6452711 CACTTAATGA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
13 14 0.37
14 13 0.34
15 6 0.16
16 5 0.13
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (14 bp):
AAATTAATAAATAA
Found at i:6455022 original size:27 final size:25
Alignment explanation
Indices: 6454971--6455026 Score: 60
Period size: 27 Copynumber: 2.1 Consensus size: 25
6454961 AATATTTATT
*
6454971 AAATATAAAAAATTGCAAAAAAAAAGA
1 AAATATAAAAAAAT-CAAAAAAAAA-A
6454998 AAATATAAAAAAAT-AAACAATAAAAA
1 AAATATAAAAAAATCAAA-AA-AAAAA
6455024 AAA
1 AAA
6455027 GGCAAAAAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
25 3 0.12
26 6 0.23
27 17 0.65
ACGTcount: A:0.79, C:0.04, G:0.04, T:0.14
Consensus pattern (25 bp):
AAATATAAAAAAATCAAAAAAAAAA
Found at i:6455094 original size:18 final size:18
Alignment explanation
Indices: 6455071--6455105 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
6455061 AGGTGTAACA
6455071 TGTACACATCCGTCAATG
1 TGTACACATCCGTCAATG
*
6455089 TGTACACATCTGTCAAT
1 TGTACACATCCGTCAAT
6455106 TTTTTGTAAA
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:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (18 bp):
TGTACACATCCGTCAATG
Found at i:6457908 original size:64 final size:61
Alignment explanation
Indices: 6457822--6457961 Score: 163
Period size: 61 Copynumber: 2.2 Consensus size: 61
6457812 TCATAGATGA
* * * * * * *
6457822 AATAGAAGCAAGGAAGTTGAATGCCTTGATTAAGATAGTCAATTTGCCTTTGATATATTTATGT
1 AATAGAAACAAGGAAGTAGAATG-CTTGAGTAAAACAATCAA-TTG-CTTTGACATATTTATGT
* *
6457886 AATAGAAACAATGAAGTAGAATGCTTTAGTAAAACAATCAATTGCTTTGACATATTTATGT
1 AATAGAAACAAGGAAGTAGAATGCTTGAGTAAAACAATCAATTGCTTTGACATATTTATGT
*
6457947 AATAGAAGCAAGGAA
1 AATAGAAACAAGGAA
6457962 TTCGATTGTA
Statistics
Matches: 65, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
61 29 0.45
62 3 0.05
63 13 0.20
64 20 0.31
ACGTcount: A:0.41, C:0.09, G:0.19, T:0.31
Consensus pattern (61 bp):
AATAGAAACAAGGAAGTAGAATGCTTGAGTAAAACAATCAATTGCTTTGACATATTTATGT
Found at i:6459438 original size:22 final size:22
Alignment explanation
Indices: 6459369--6459444 Score: 68
Period size: 22 Copynumber: 3.5 Consensus size: 22
6459359 CTAAATCGCT
*
6459369 ATGTACATATACTTGTATCTAA
1 ATGTACATATACTTCTATCTAA
* *
6459391 ATGGACATAT-C-TCTAATGC-ACT
1 ATGTACATATACTTCT-AT-CTA-A
6459413 ATGTACATATACTTCTATCTAA
1 ATGTACATATACTTCTATCTAA
*
6459435 ATGTATATAT
1 ATGTACATAT
6459445 CTTAAAATCA
Statistics
Matches: 42, Mismatches: 6, Indels: 12
0.70 0.10 0.20
Matches are distributed among these distances:
20 2 0.05
21 4 0.10
22 29 0.69
23 4 0.10
24 3 0.07
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.39
Consensus pattern (22 bp):
ATGTACATATACTTCTATCTAA
Found at i:6459461 original size:44 final size:44
Alignment explanation
Indices: 6459369--6459466 Score: 128
Period size: 44 Copynumber: 2.2 Consensus size: 44
6459359 CTAAATCGCT
* *
6459369 ATGTACATATACTTGTATCTAAATGGACATATCTCTAATGCACT
1 ATGTACATATACTTCTATCTAAATGGACATATCTCTAATGCACA
* *
6459413 ATGTACATATACTTCTATCTAAATGTATATATCT-TAAAAT-CACA
1 ATGTACATATACTTCTATCTAAATGGACATATCTCT--AATGCACA
6459457 ATGTACATAT
1 ATGTACATAT
6459467 CCCTAAGGTA
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
43 1 0.02
44 44 0.92
45 3 0.06
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.38
Consensus pattern (44 bp):
ATGTACATATACTTCTATCTAAATGGACATATCTCTAATGCACA
Found at i:6460968 original size:26 final size:26
Alignment explanation
Indices: 6460933--6460984 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
6460923 CGATTCAATT
*
6460933 TTTTTAGATATTGTATAAAATTTAAA
1 TTTTTAGATATTATATAAAATTTAAA
*
6460959 TTTTTGGATATTATATAAAATTTAAA
1 TTTTTAGATATTATATAAAATTTAAA
6460985 ATTTAAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (26 bp):
TTTTTAGATATTATATAAAATTTAAA
Found at i:6464404 original size:3 final size:3
Alignment explanation
Indices: 6464391--6464426 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
6464381 AAGGTGATTC
*
6464391 ATA AAA ATA ATA ATA ATA ATA ATA ATA ATA A-A ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
6464427 GGAAATGTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:6470583 original size:19 final size:20
Alignment explanation
Indices: 6470520--6470585 Score: 64
Period size: 24 Copynumber: 3.1 Consensus size: 20
6470510 AAAAATATTA
6470520 TAAAA-AAAAAATTATCCTTT
1 TAAAATAAAAAATTAT-CTTT
*
6470540 TAATATAAAATAATTTAATTCTTT
1 TAAAATAAAA-AA-TT-A-TCTTT
6470564 TAAAATAAAAAATTAT-TTT
1 TAAAATAAAAAATTATCTTT
6470583 TAA
1 TAA
6470586 TTTATGAGAT
Statistics
Matches: 39, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
19 6 0.15
20 5 0.13
21 5 0.13
22 4 0.10
23 4 0.10
24 14 0.36
25 1 0.03
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (20 bp):
TAAAATAAAAAATTATCTTT
Found at i:6472308 original size:30 final size:30
Alignment explanation
Indices: 6472235--6472312 Score: 95
Period size: 31 Copynumber: 2.5 Consensus size: 30
6472225 TAAAACTAAT
* *
6472235 TTTTTAATTTTTATTTTTCATCCAAATAAA
1 TTTTTAATTTTAATTTGTCATCCAAATAAA
*
6472265 TTCTTTAAATTTTAATTTGT-ATCTAAATAAA
1 TT-TTT-AATTTTAATTTGTCATCCAAATAAA
6472296 TTTTTAACTTTTAATTT
1 TTTTTAA-TTTTAATTT
6472313 ATAGCTAGAT
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
29 2 0.05
30 14 0.33
31 15 0.36
32 11 0.26
ACGTcount: A:0.33, C:0.08, G:0.01, T:0.58
Consensus pattern (30 bp):
TTTTTAATTTTAATTTGTCATCCAAATAAA
Found at i:6473516 original size:30 final size:30
Alignment explanation
Indices: 6473480--6473538 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
6473470 ATTGATTTAT
* *
6473480 GTTAAGAGTTTATTTAGATACAAATTAAAA
1 GTTAAGAATTAATTTAGATACAAATTAAAA
*
6473510 GTTAAGAATTAATTTAGATATAAATTAAA
1 GTTAAGAATTAATTTAGATACAAATTAAA
6473539 GTATTAGGGC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.49, C:0.02, G:0.12, T:0.37
Consensus pattern (30 bp):
GTTAAGAATTAATTTAGATACAAATTAAAA
Found at i:6473910 original size:2 final size:2
Alignment explanation
Indices: 6473903--6473936 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
6473893 ATCATCTTGC
6473903 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
6473937 TAACTCGTGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6474814 original size:2 final size:2
Alignment explanation
Indices: 6474807--6474838 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
6474797 ACTGTGCTGA
6474807 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
6474839 GAATGCACAC
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:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6475542 original size:25 final size:25
Alignment explanation
Indices: 6475507--6475572 Score: 69
Period size: 26 Copynumber: 2.6 Consensus size: 25
6475497 TTGATATAAC
* * *
6475507 TATTAAGATATTAAAAATGATTTGT
1 TATTAAAATATTAAAAATAATTTAT
*
6475532 TATTAAAATATATTAAAATAATTTAT
1 TATTAAAATAT-TAAAAATAATTTAT
*
6475558 TATTTAAATTATTAA
1 TA-TTAAAATATTAA
6475573 TATTAAAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
25 10 0.30
26 15 0.45
27 8 0.24
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.47
Consensus pattern (25 bp):
TATTAAAATATTAAAAATAATTTAT
Found at i:6475549 original size:26 final size:26
Alignment explanation
Indices: 6475514--6475572 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
6475504 AACTATTAAG
* *
6475514 ATATTAAAAATGATTTGTTATTAAAAT
1 ATATT-AAAATAATTTATTATTAAAAT
*
6475541 ATATTAAAATAATTTATTATTTAAAT
1 ATATTAAAATAATTTATTATTAAAAT
6475567 -TATTAA
1 ATATTAA
6475573 TATTAAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 6 0.21
26 18 0.62
27 5 0.17
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.47
Consensus pattern (26 bp):
ATATTAAAATAATTTATTATTAAAAT
Found at i:6475620 original size:20 final size:20
Alignment explanation
Indices: 6475567--6475621 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
6475557 TTATTTAAAT
*
6475567 TATTAATATTAAAAAATAATTA
1 TATT-ATATT-AATAATAATTA
* * *
6475589 TATTTTAATAATAATATTTA
1 TATTATATTAATAATAATTA
6475609 TATTATATTAATA
1 TATTATATTAATA
6475622 TAAAAAACAC
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
20 20 0.74
21 3 0.11
22 4 0.15
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
TATTATATTAATAATAATTA
Found at i:6475995 original size:19 final size:19
Alignment explanation
Indices: 6475973--6476030 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 19
6475963 TTTTACATTA
6475973 ATTATTAAAATAATAAAAT
1 ATTATTAAAATAATAAAAT
* * **
6475992 ATTATT-TAATATATTATTT
1 ATTATTAAAATA-ATAAAAT
*
6476011 ATTATTAAAAGAATAAAAT
1 ATTATTAAAATAATAAAAT
6476030 A
1 A
6476031 ATACTATTTA
Statistics
Matches: 28, Mismatches: 9, Indels: 4
0.68 0.22 0.10
Matches are distributed among these distances:
18 4 0.14
19 21 0.75
20 3 0.11
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (19 bp):
ATTATTAAAATAATAAAAT
Found at i:6476192 original size:25 final size:25
Alignment explanation
Indices: 6476145--6476192 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
6476135 TTAATATGTT
*
6476145 AATATTTTAATTAAAATTAAATAAA
1 AATATTTTAATTAAAATAAAATAAA
*
6476170 AATATTTT-ATTAATATAATAATA
1 AATATTTTAATTAAAATAA-AATA
6476193 TAGAAGGTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (25 bp):
AATATTTTAATTAAAATAAAATAAA
Found at i:6478845 original size:14 final size:14
Alignment explanation
Indices: 6478822--6478864 Score: 59
Period size: 14 Copynumber: 3.0 Consensus size: 14
6478812 TAACTTAGGG
*
6478822 AAATGGAAAATGGA
1 AAATGAAAAATGGA
*
6478836 AAATGAAAAATGAA
1 AAATGAAAAATGGA
6478850 AAATGAAAAAATGGA
1 AAATG-AAAAATGGA
6478865 GCTATTACAG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
14 17 0.68
15 8 0.32
ACGTcount: A:0.65, C:0.00, G:0.21, T:0.14
Consensus pattern (14 bp):
AAATGAAAAATGGA
Found at i:6478862 original size:8 final size:7
Alignment explanation
Indices: 6478822--6478859 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
6478812 TAACTTAGGG
*
6478822 AAATGGA
1 AAATGAA
*
6478829 AAATGGA
1 AAATGAA
6478836 AAATGAA
1 AAATGAA
6478843 AAATGAA
1 AAATGAA
6478850 AAATGAA
1 AAATGAA
6478857 AAA
1 AAA
6478860 ATGGAGCTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.68, C:0.00, G:0.18, T:0.13
Consensus pattern (7 bp):
AAATGAA
Found at i:6490387 original size:36 final size:36
Alignment explanation
Indices: 6490332--6490426 Score: 122
Period size: 36 Copynumber: 2.7 Consensus size: 36
6490322 TGTCAATATC
* * **
6490332 ATCAAGTAGAAA-TTTTCATACGATTAAGATCATCA
1 ATCAAATAGAAATTTTTCATACCACCAAGATCATCA
*
6490367 GTCAAATTA-AAATTTTTCATACCACCAAGATCATCA
1 ATCAAA-TAGAAATTTTTCATACCACCAAGATCATCA
6490403 ATCAAATAGAAATTTTTCATACCA
1 ATCAAATAGAAATTTTTCATACCA
6490427 ATTCCTCTCC
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
35 9 0.18
36 42 0.82
ACGTcount: A:0.43, C:0.18, G:0.07, T:0.32
Consensus pattern (36 bp):
ATCAAATAGAAATTTTTCATACCACCAAGATCATCA
Found at i:6490567 original size:19 final size:18
Alignment explanation
Indices: 6490538--6490576 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
6490528 CAAACCAATC
6490538 TCAATATCAAGCAAAATA
1 TCAATATCAAGCAAAATA
*
6490556 TCAATCATCAAGCAATATA
1 TCAAT-ATCAAGCAAAATA
6490575 TC
1 TC
6490577 GATTTCACTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.49, C:0.21, G:0.05, T:0.26
Consensus pattern (18 bp):
TCAATATCAAGCAAAATA
Found at i:6492562 original size:73 final size:73
Alignment explanation
Indices: 6492401--6492578 Score: 173
Period size: 73 Copynumber: 2.4 Consensus size: 73
6492391 CCATGGACCG
*
6492401 ATCGATCAGGTCCATAAGGGGGATC-ATCGATTGCTCACATTTTCCACTTAATTTGGCTACTGGA
1 ATCGATCAGGTCC--AAGGGGGATCGATCGATTCCTCACATTTTCCACTTAATTTGGCTACTGGA
** *
6492465 TGGAAAGTCG
64 TGGAAAACCA
* ** * * * *
6492475 ATTGATTTGATCCAAGGGGGATCGATCGGTTCCTCAACATTTTCC-TTTAATTTGGTTACTGGAT
1 ATCGATCAGGTCCAAGGGGGATCGATCGATTCCTC-ACATTTTCCACTTAATTTGGCTACTGGAT
6492539 -GAAAACCAA
65 GGAAAACC-A
* **
6492548 ATCGATCCGGTCCAAAAGGGATCGATCGATT
1 ATCGATCAGGTCCAAGGGGGATCGATCGATT
6492579 TTCCCTGTAG
Statistics
Matches: 83, Mismatches: 18, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
72 15 0.18
73 50 0.60
74 18 0.22
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (73 bp):
ATCGATCAGGTCCAAGGGGGATCGATCGATTCCTCACATTTTCCACTTAATTTGGCTACTGGATG
GAAAACCA
Found at i:6497733 original size:18 final size:18
Alignment explanation
Indices: 6497707--6497749 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
6497697 TATCTCATAT
*
6497707 TGAACCCAAGAATATAGA
1 TGAAACCAAGAATATAGA
6497725 TGAAACCAAGAATATAGA
1 TGAAACCAAGAATATAGA
6497743 TGAAACC
1 TGAAACC
6497750 TTAGGAGATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.51, C:0.16, G:0.16, T:0.16
Consensus pattern (18 bp):
TGAAACCAAGAATATAGA
Found at i:6501403 original size:15 final size:15
Alignment explanation
Indices: 6501383--6501424 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
6501373 TTCATCCTCA
6501383 TATGGCTTGTGATAT
1 TATGGCTTGTGATAT
*
6501398 TATGGCTTTTGATAT
1 TATGGCTTGTGATAT
*
6501413 TGTGGCTTGTGA
1 TATGGCTTGTGA
6501425 AATTGATATC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.17, C:0.07, G:0.29, T:0.48
Consensus pattern (15 bp):
TATGGCTTGTGATAT
Found at i:6501429 original size:15 final size:15
Alignment explanation
Indices: 6501385--6501429 Score: 63
Period size: 15 Copynumber: 3.0 Consensus size: 15
6501375 CATCCTCATA
*
6501385 TGGCTTGTGATATTA
1 TGGCTTGTGATATTG
*
6501400 TGGCTTTTGATATTG
1 TGGCTTGTGATATTG
*
6501415 TGGCTTGTGAAATTG
1 TGGCTTGTGATATTG
6501430 ATATCTTGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.18, C:0.07, G:0.29, T:0.47
Consensus pattern (15 bp):
TGGCTTGTGATATTG
Found at i:6514302 original size:132 final size:129
Alignment explanation
Indices: 6514166--6514582 Score: 410
Period size: 132 Copynumber: 3.2 Consensus size: 129
6514156 TATAATTATT
* * *
6514166 TAAAATATTTTTAAAAAGTCAATTAAGCAATGATTATGAAAATTCATTGCAAATGTAATACCA-T
1 TAAAATA--TTTAAAAAATAAATTAAGCAATGATTATGAAAATTCGTTGCAAAT-TAATA-CAGT
* * *
6514230 TTTGCAATAATAA-TTTTTATTGTTACAAGTATATTAAAAATTTTCGTAACAACTTTTTTGTTGT
62 TTTGCAACAATAATTTTTTATCGTTACAA-TATATTAAAAATTTTCATAACAACTTTTTTGTTGT
6514294 TGTA
126 TGTA
* * * * * *
6514298 TAAAAGTATTAAAAAAATAAATTAAGTAATGA-CATTGAAAAATCGTTACAAATAAATTA-AGTT
1 TAAAA-TATTTAAAAAATAAATTAAGCAATGATTA-TGAAAATTCGTTGCAAATTAA-TACAGTT
* * * * *
6514361 TTCACAACAATAATTTTTTACCATTACAAATATAATAAAAATTTTCATAACAAATTTTTTGTTGT
63 TT-GCAACAATAATTTTTTATCGTTAC-AATATATTAAAAATTTTCATAACAACTTTTTTGTTGT
6514426 TGTA
126 TGTA
* * *
6514430 T-AAATA-TTAAAAAATAAATTACA-CAACTACATTA-AAAAATT-GTTGCAAA-TAAAACAAGT
1 TAAAATATTTAAAAAATAAATTA-AGCAA-T-GATTATGAAAATTCGTTGCAAATTAATAC-AG-
*
6514489 TTTTGCAACAACAATTTTTTATCGTTACAA-ATATTAAAAA-TTTCATAA-AACTTTTTTGTTGT
61 TTTTGCAACAATAATTTTTTATCGTTACAATATATTAAAAATTTTCATAACAACTTTTTTGTTGT
6514551 TGTA
126 TGTA
*
6514555 TAAAATATTAAAAAAATAAATTAAGCAA
1 TAAAATATTTAAAAAATAAATTAAGCAA
6514583 CGACATTGAA
Statistics
Matches: 235, Mismatches: 33, Indels: 39
0.77 0.11 0.13
Matches are distributed among these distances:
125 18 0.08
126 14 0.06
127 27 0.11
128 4 0.02
129 46 0.20
130 20 0.09
131 49 0.21
132 53 0.23
133 4 0.02
ACGTcount: A:0.46, C:0.09, G:0.07, T:0.38
Consensus pattern (129 bp):
TAAAATATTTAAAAAATAAATTAAGCAATGATTATGAAAATTCGTTGCAAATTAATACAGTTTTG
CAACAATAATTTTTTATCGTTACAATATATTAAAAATTTTCATAACAACTTTTTTGTTGTTGTA
Found at i:6514498 original size:129 final size:130
Alignment explanation
Indices: 6514229--6514617 Score: 515
Period size: 129 Copynumber: 3.0 Consensus size: 130
6514219 TGTAATACCA
* * * *
6514229 TTTTGCAATAATAA-TTTTTATTGTTACAAGTATATTAAAAATTTTCGTAACAACTTTTTTGTTG
1 TTTTGCAACAATAATTTTTTATCGTTACAAATATA-TAAAAATTTTCATAACAACTTTTTTGTTG
* * **
6514293 TTGTATAAAAGTATTAAAAAAATAAATTAAGTAA-TGACATTGAAAAATCGTTACAAATAAATTA
65 TTGTATAAAA-TATTAAAAAAATAAATTAAGCAACT-ACATTGAAAAATCGTTGCAAATAAAACA
6514357 AGT
128 AGT
** * * *
6514360 TTTCACAACAATAATTTTTTACCATTACAAATATAATAAAAATTTTCATAACAAATTTTTTGTTG
1 TTTTGCAACAATAATTTTTTATCGTTACAAATAT-ATAAAAATTTTCATAACAACTTTTTTGTTG
* *
6514425 TTGTAT-AAATATT-AAAAAATAAATTACA-CAACTACATTAAAAAATTGTTGCAAATAAAACAA
65 TTGTATAAAATATTAAAAAAATAAATTA-AGCAACTACATTGAAAAATCGTTGCAAATAAAACAA
6514487 GT
129 GT
*
6514489 TTTTGCAACAACAATTTTTTATCGTTACAAATAT-TAAAAA-TTTCATAA-AACTTTTTTGTTGT
1 TTTTGCAACAATAATTTTTTATCGTTACAAATATATAAAAATTTTCATAACAACTTTTTTGTTGT
* *
6514551 TGTATAAAATATTAAAAAAATAAATTAAGCAACGACATTGAAACATCGTTGCAAATAAAACAAGT
66 TGTATAAAATATTAAAAAAATAAATTAAGCAACTACATTGAAAAATCGTTGCAAATAAAACAAGT
6514616 TT
1 TT
6514618 CATAATAGTA
Statistics
Matches: 226, Mismatches: 25, Indels: 18
0.84 0.09 0.07
Matches are distributed among these distances:
125 18 0.08
126 16 0.07
127 53 0.23
129 70 0.31
130 6 0.03
131 14 0.06
132 48 0.21
133 1 0.00
ACGTcount: A:0.45, C:0.09, G:0.08, T:0.38
Consensus pattern (130 bp):
TTTTGCAACAATAATTTTTTATCGTTACAAATATATAAAAATTTTCATAACAACTTTTTTGTTGT
TGTATAAAATATTAAAAAAATAAATTAAGCAACTACATTGAAAAATCGTTGCAAATAAAACAAGT
Found at i:6514728 original size:256 final size:259
Alignment explanation
Indices: 6514229--6514747 Score: 633
Period size: 256 Copynumber: 2.0 Consensus size: 259
6514219 TGTAATACCA
* * * *
6514229 TTTTGCAATAATAATTTTTATTGTTACAAGTATATTAAAAATTTTCGTAACAACTTTTTTGTTGT
1 TTTTGCAACAACAATTTTTATCGTTACAAG-ATATTAAAAATTTTCATAACAACTTTTTTGTTGT
* * **
6514294 TGTATAAAAGTATTAAAAAAATAAATTAAGTAATGACATTGAAAAATCGTTACAAATAAATTAAG
65 TGTATAAAAGTATTAAAAAAATAAATTAAGCAACGACATTGAAAAATCGTTACAAATAAAACAAG
* * * *
6514359 TTTTCACAACAATAATTTTTTACCATTACAAATATAATAAAAATTTTCATAACAAATTTTTTGTT
130 TTTTCACAACAATAATATTTTACCAGTACAAATACAATAAAAATTTTCATAACAAATTTTTTGTC
* * *
6514424 GTTGTATAAATATTAAAAAATAAATTACACAACTACATTAAAAAATTGTTGCAAATAAAACAAGT
195 ATTATATAAATATTAAAAAATAAATTAAACAACTACATTAAAAAATTGTTGCAAATAAAACAAGT
6514489 TTTTGCAACAACAATTTTTTATCGTTACAA-ATATTAAAAA-TTTCATAA-AACTTTTTTGTTGT
1 TTTTGCAACAACAA-TTTTTATCGTTACAAGATATTAAAAATTTTCATAACAACTTTTTTGTTGT
* *
6514551 TGTATAAAA-TATTAAAAAAATAAATTAAGCAACGACATTGAAACATCGTTGCAAATAAAACAAG
65 TGTATAAAAGTATTAAAAAAATAAATTAAGCAACGACATTGAAAAATCGTTACAAATAAAACAAG
* * * *** * * **
6514615 -TTTCATAATAGTAATATTTTATTGGTACAAATACGATAAAAACTTTT-GTAA-TTATGTTTTTG
130 TTTTCACAACAATAATATTTTACCAGTACAAATACAATAAAAA-TTTTCATAACAAAT-TTTTT-
* **
6514677 GTCATTATATAAAATATTAAAAAATAACTTAAACAA-TGACATT-GCAAATTGTTGCAAATAAAA
192 GTCATTATAT-AAATATTAAAAAATAAATTAAACAACT-ACATTAAAAAATTGTTGCAAATAAAA
*
6514740 TAAGT
255 CAAGT
6514745 TTT
1 TTT
6514748 CATAACAACT
Statistics
Matches: 222, Mismatches: 31, Indels: 16
0.83 0.12 0.06
Matches are distributed among these distances:
254 2 0.01
255 40 0.18
256 86 0.39
257 51 0.23
258 7 0.03
259 10 0.05
260 12 0.05
261 14 0.06
ACGTcount: A:0.45, C:0.09, G:0.08, T:0.38
Consensus pattern (259 bp):
TTTTGCAACAACAATTTTTATCGTTACAAGATATTAAAAATTTTCATAACAACTTTTTTGTTGTT
GTATAAAAGTATTAAAAAAATAAATTAAGCAACGACATTGAAAAATCGTTACAAATAAAACAAGT
TTTCACAACAATAATATTTTACCAGTACAAATACAATAAAAATTTTCATAACAAATTTTTTGTCA
TTATATAAATATTAAAAAATAAATTAAACAACTACATTAAAAAATTGTTGCAAATAAAACAAGT
Found at i:6518026 original size:18 final size:18
Alignment explanation
Indices: 6518005--6518056 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
6517995 AATGTACTCT
6518005 AAACCCTAAACCTAACAA
1 AAACCCTAAACCTAACAA
* * **
6518023 AAACCCAAAACTTAACCT
1 AAACCCTAAACCTAACAA
6518041 AAACCCTAAACTCTAA
1 AAACCCTAAAC-CTAA
6518057 AACCGAAACC
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
18 24 0.89
19 3 0.11
ACGTcount: A:0.52, C:0.33, G:0.00, T:0.15
Consensus pattern (18 bp):
AAACCCTAAACCTAACAA
Found at i:6520123 original size:132 final size:133
Alignment explanation
Indices: 6519715--6520971 Score: 1112
Period size: 130 Copynumber: 9.6 Consensus size: 133
6519705 ACAAAAAGTG
* * ** *
6519715 GTTGCGAAAACTTATTTTATTTGCAA-TTATTTTTCAATGTCATTGCTTAAGTTATTTTTT-AAT
1 GTTGCAAAAACCTATTTTATTTGCAACAAATTTTTCAATGTCATTGCTTAATTTATTTTTTAAAT
*
6519778 ATTTTATATA-ATGAC-A-AAAAAAGTTGTTACGAAAATTTTTATCATATTTGCAATGATAAAAA
66 ATTTT-TATACA--ACAATAAAAAAGTTGTTACGAAAATTTTTATCATATTTGTAATGATAAAAA
6519840 ATTATT
128 ATTATT
* * * ** ** *
6519846 ATTGCAAAAA-CTTTTTTATTTGTAAC-AATTTTAAAATGTTGTTGCTTAATTTACTTGTTT-AA
1 GTTGCAAAAACCTATTTTATTTGCAACAAATTTTTCAATGTCATTGCTTAATTTA-TTTTTTAAA
* * * * ** *
6519908 TA-TTTTATACAATGACT-AAAAA-TTATTATGAAAATTTTTATCATATTTGTAACAATAAAAGA
65 TATTTTTATACAA-CAATAAAAAAGTTGTTACGAAAATTTTTATCATATTTGTAATGATAAAAAA
6519970 TTATT
129 TTATT
* * *
6519975 ATTGCAAAAACCTGTTTTATTAGCAACAAATTTTT-AATGTCATTGCTTAATTTATTTTTTAAAT
1 GTTGCAAAAACCTATTTTATTTGCAACAAATTTTTCAATGTCATTGCTTAATTTATTTTTTAAAT
* * *
6520039 ATTTTTATACAACAATAAAAAAGTTGTTACAAAAATTTTCATCATATTTTTAATGATAAAAAATT
66 ATTTTTATACAACAATAAAAAAGTTGTTACGAAAATTTTTATCATATTTGTAATGATAAAAAATT
*
6520104 TTT
131 ATT
* *** * * * *
6520107 ATTATGAAAACGTGTTTTATTTGCAA-AAATTTTTCAATGTCATTACTTAAATTATTTTTTAAAT
1 GTTGCAAAAACCTATTTTATTTGCAACAAATTTTTCAATGTCATTGCTTAATTTATTTTTTAAAT
* * * * * * ** *
6520171 ATTTTTATACAACAACAAAAAGGTTTTTATGGAATTTTTTAAATCATATTTGTAACAATAAAATA
66 ATTTTTATACAACAATAAAAAAGTTGTTACGAAAATTTTT--ATCATATTTGTAATGATAAAAAA
*
6520236 TTTTT
129 TTATT
** ** * *
6520241 GTTGCAAAAATTTATTTTATTTGCAA-TGATTTTTCAATGTCGTTACTTAATTTATTTTTTAAAT
1 GTTGCAAAAACCTATTTTATTTGCAACAAATTTTTCAATGTCATTGCTTAATTTATTTTTTAAAT
* ** * *
6520305 ATTTTAATACAA-TGTAAAAAA-TTGTTATGAAAATTTTTATCATATTTGTAACGATAAAAAAAT
66 ATTTTTATACAACAATAAAAAAGTTGTTACGAAAATTTTTATCATATTTGTAATGAT-AAAAAAT
6520368 T-TT
130 TATT
* * * * * *
6520371 GTTACGAAAACTTATTTTCAATTGCAACAAA-TTTTCAATATTATTGCTTAATTTATTTTTTAAA
1 GTTGCAAAAACCTATTTT-ATTTGCAACAAATTTTTCAATGTCATTGCTTAATTTATTTTTTAAA
** * * * * * *
6520435 TATTTTTATACAATGACAAAAAAATTGTTATGAAAATTTTCATCATATTTGTATTGATGAAAAAT
65 TATTTTTATACAACAATAAAAAAGTTGTTACGAAAATTTTTATCATATTTGTAATGATAAAAAAT
6520500 TATT
130 TATT
** * * * *
6520504 GTTGTGAAAACCTGTTTTGTTTGCAAC-GATTTTTTAATGTCATTGCTTAATTTATTTTTTAAAT
1 GTTGCAAAAACCTATTTTATTTGCAACAAATTTTTCAATGTCATTGCTTAATTTATTTTTTAAAT
* * * * * *
6520568 ATTTTAATGCAAC--GAAAAAATTTGTTACGAAAATTTTAATCATATTTGTAATGATAAAAGATT
66 ATTTTTATACAACAATAAAAAAGTTGTTACGAAAATTTTTATCATATTTGTAATGATAAAAAATT
6520631 ATT
131 ATT
** ** * * *
6520634 GTTATAAAAACCTATTTTATTTGCAA-TGATTTTTCAATATAATTACTTAATTTATTTTTTAAAA
1 GTTGCAAAAACCTATTTTATTTGCAACAAATTTTTCAATGTCATTGCTTAATTTATTTTTT-AAA
* * * *
6520698 TATTTTTATACAACGACAAAAAAGTTGTTACGAAATTTTTTTATCATATTTATTACAT--TAAAA
65 TATTTTTATACAACAATAAAAAAGTTGTTACGAAA-ATTTTTATCATATTT-GTA-ATGATAAAA
6520761 AATTATT
127 AATTATT
* * * ** *
6520768 ATTGCAAAAACTTATTTTATTTGCAAC-AATTTTTCAATATTGTTACTTAATTTATTTTTTAAAT
1 GTTGCAAAAACCTATTTTATTTGCAACAAATTTTTCAATGTCATTGCTTAATTTATTTTTTAAAT
* * * ** * * *
6520832 ATTGTAATGCAATGATAAAAAA-TTATTACAAAAATTTTTATCATATTTGTAATAATAAAAAATT
66 ATTTTTATACAACAATAAAAAAGTTGTTACGAAAATTTTTATCATATTTGTAATGATAAAAAATT
6520896 ATT
131 ATT
** ** ** * * ** * *
6520899 GTTGTGAAAA-CTGATTTTATTTATAA-TGATTTTTTAGTGTTGTTGTTTAATTTATTTTCTAAA
1 GTTGCAAAAACCT-ATTTTATTTGCAACAAATTTTTCAATGTCATTGCTTAATTTATTTTTTAAA
6520962 TATTTTTATA
65 TATTTTTATA
6520972 TAATGACAAA
Statistics
Matches: 928, Mismatches: 164, Indels: 68
0.80 0.14 0.06
Matches are distributed among these distances:
128 1 0.00
129 60 0.06
130 211 0.23
131 197 0.21
132 201 0.22
133 90 0.10
134 164 0.18
135 2 0.00
136 2 0.00
ACGTcount: A:0.38, C:0.07, G:0.08, T:0.47
Consensus pattern (133 bp):
GTTGCAAAAACCTATTTTATTTGCAACAAATTTTTCAATGTCATTGCTTAATTTATTTTTTAAAT
ATTTTTATACAACAATAAAAAAGTTGTTACGAAAATTTTTATCATATTTGTAATGATAAAAAATT
ATT
Found at i:6520746 original size:527 final size:527
Alignment explanation
Indices: 6519715--6520990 Score: 1629
Period size: 527 Copynumber: 2.4 Consensus size: 527
6519705 ACAAAAAGTG
* * * * *
6519715 GTTGCGAAAACTTATTTTATTTGCAATTATTTTTCAATGTCATTGCTTAAGTTATTTTTT-AATA
1 GTTGCAAAAACTTATTTTATTTGCAATAATTTTTCAATGTCGTTACTTAATTTATTTTTTAAATA
* * *
6519779 TTTT-ATATAATGACAAAAAAAGTTGTTACGAAAATTTTTATCATATTTGCAATGATAAAAAATT
66 TTTTAATACAATGA-TAAAAAA-TTGTTACGAAAATTTTTATCATATTTGTAATGATAAAAAATT
* * *
6519843 ATTATTGCAAAAACTT-TTTTATTTGTAACAATTTTAAAATGTTGTTGCTTAATTTACTTGTTT-
129 ATTGTTGCGAAAACTTATTTTATTTGTAACAATTTT-AAATGTTGTTGCTTAATTTA-TTTTTTA
* * *
6519906 AATA-TTTTATACAATGAC-TAAAAATTATTATGAAAATTTTTATCATATTTGTAACAATAAAAG
192 AATATTTTTATACAATGACAAAAAAATTGTTATGAAAATTTTCATCATATTTGTAACAATAAAAG
6519969 ATTATTATTGCAAAAACCTGTTTTATTAGCAACAAATTTTTAATGTCATTGCTTAATTTATTTTT
257 ATTATTATTGCAAAAACCTGTTTTATTAGCAACAAATTTTTAATGTCATTGCTTAATTTATTTTT
* * * *
6520034 TAAATATTTTTATACAACAATAAAAAAGTTGTTACAAAAATTTTCATCATATTTTTAATGATAAA
322 TAAATATTTTAATACAAC-AGAAAAAAGTTGTTACAAAAATTTTAATCATATTTGTAATGATAAA
* * * * * *
6520099 AAATTTTTATTATGAAAACGTGTTTTATTTGCAAAAATTTTTCAATGTCATTACTTAAATTATTT
386 AAATTATTATTATAAAAACCTATTTTATTTGCAAAAATTTTTCAATATAATTACTTAAATTATTT
* * * * *
6520164 TTTAAATATTTTTATACAACAACAAAAAGGTTTTTATGGAATTTTTTAAATCATATTTGTAACAA
451 TTTAAATATTTTTATACAACAACAAAAAAGTTGTTACGAAATTTTTTAAATCATATTTATAACAA
* *
6520229 TAAAATATTTTT
516 TAAAAAATTATT
* *
6520241 GTTGCAAAAATTTATTTTATTTGCAATGATTTTTCAATGTCGTTACTTAATTTATTTTTTAAATA
1 GTTGCAAAAACTTATTTTATTTGCAATAATTTTTCAATGTCGTTACTTAATTTATTTTTTAAATA
* *
6520306 TTTTAATACAATG-TAAAAAATTGTTATGAAAATTTTTATCATATTTGTAACGATAAAAAAATT-
66 TTTTAATACAATGATAAAAAATTGTTACGAAAATTTTTATCATATTTGTAATGAT-AAAAAATTA
* * * * * *
6520369 TTGTTACGAAAACTTATTTTCAATTGCAACAAATTTTCAATATTATTGCTTAATTTATTTTTTAA
130 TTGTTGCGAAAACTTATTTT-ATTTGTAAC-AATTTTAAATGTTGTTGCTTAATTTATTTTTTAA
***
6520434 ATATTTTTATACAATGACAAAAAAATTGTTATGAAAATTTTCATCATATTTGTATTGATGAAAA-
193 ATATTTTTATACAATGACAAAAAAATTGTTATGAAAATTTTCATCATATTTGTAACAAT-AAAAG
* ** * * * *
6520498 ATTATTGTTGTGAAAACCTGTTTTGTTTGCAACGATTTTTTAATGTCATTGCTTAATTTATTTTT
257 ATTATTATTGCAAAAACCTGTTTTATTAGCAACAAATTTTTAATGTCATTGCTTAATTTATTTTT
* * *
6520563 TAAATATTTTAATGCAAC-GAAAAAATTTGTTACGAAAATTTTAATCATATTTGTAATGATAAAA
322 TAAATATTTTAATACAACAGAAAAAAGTTGTTACAAAAATTTTAATCATATTTGTAATGATAAAA
* * ** *
6520627 GATTATTGTTATAAAAACCTATTTTATTTGCAATGATTTTTCAATATAATTACTTAATTTATTTT
387 AATTATTATTATAAAAACCTATTTTATTTGCAAAAATTTTTCAATATAATTACTTAAATTATTTT
* * * *
6520692 TTAAAATATTTTTATACAACGACAAAAAAGTTGTTACGAAATTTTTT-TATCATATTTATTACAT
452 TT-AAATATTTTTATACAACAACAAAAAAGTTGTTACGAAATTTTTTAAATCATATTTATAACAA
6520756 TAAAAAATTATT
516 TAAAAAATTATT
* * * *
6520768 ATTGCAAAAACTTATTTTATTTGCAACAATTTTTCAATATTGTTACTTAATTTATTTTTTAAATA
1 GTTGCAAAAACTTATTTTATTTGCAATAATTTTTCAATGTCGTTACTTAATTTATTTTTTAAATA
* * * * *
6520833 TTGTAATGCAATGATAAAAAATTATTACAAAAATTTTTATCATATTTGTAATAATAAAAAATTAT
66 TTTTAATACAATGATAAAAAATTGTTACGAAAATTTTTATCATATTTGTAATGATAAAAAATTAT
* * * * * * * * *
6520898 TGTTGTGAAAACTGATTTTATTTATAATGATTTTTTAGTGTTGTTGTTTAATTTATTTTCTAAAT
131 TGTTGCGAAAACTTATTTTATTTGTAA-CAATTTTAAATGTTGTTGCTTAATTTATTTTTTAAAT
*
6520963 ATTTTTATATAATGACAAAAAAAATTGT
195 ATTTTTATACAATGAC-AAAAAAATTGT
6520991 ATTCATACTA
Statistics
Matches: 645, Mismatches: 90, Indels: 28
0.85 0.12 0.04
Matches are distributed among these distances:
525 43 0.07
526 77 0.12
527 283 0.44
528 130 0.20
529 108 0.17
530 4 0.01
ACGTcount: A:0.38, C:0.07, G:0.08, T:0.46
Consensus pattern (527 bp):
GTTGCAAAAACTTATTTTATTTGCAATAATTTTTCAATGTCGTTACTTAATTTATTTTTTAAATA
TTTTAATACAATGATAAAAAATTGTTACGAAAATTTTTATCATATTTGTAATGATAAAAAATTAT
TGTTGCGAAAACTTATTTTATTTGTAACAATTTTAAATGTTGTTGCTTAATTTATTTTTTAAATA
TTTTTATACAATGACAAAAAAATTGTTATGAAAATTTTCATCATATTTGTAACAATAAAAGATTA
TTATTGCAAAAACCTGTTTTATTAGCAACAAATTTTTAATGTCATTGCTTAATTTATTTTTTAAA
TATTTTAATACAACAGAAAAAAGTTGTTACAAAAATTTTAATCATATTTGTAATGATAAAAAATT
ATTATTATAAAAACCTATTTTATTTGCAAAAATTTTTCAATATAATTACTTAAATTATTTTTTAA
ATATTTTTATACAACAACAAAAAAGTTGTTACGAAATTTTTTAAATCATATTTATAACAATAAAA
AATTATT
Found at i:6520951 original size:131 final size:131
Alignment explanation
Indices: 6519715--6520984 Score: 1186
Period size: 131 Copynumber: 9.7 Consensus size: 131
6519705 ACAAAAAGTG
* * ** *
6519715 GTTGCGAAAACTTATTTTATTTGCAATTATTTTTCAATGTCATTGCTTAAGTTATTTTTT-AATA
1 GTTGCAAAAACTGATTTTATTTGCAACAATTTTTCAATGTCATTGCTTAATTTATTTTTTAAATA
* * *
6519779 -TTTTATATAATGACAAAAAAAGTTGTTACGAAAATTTTTATCATATTTGCAATGATAAAAAATT
66 TTTTTATACAATGA-TAAAAAA-TTGTTACGAAAATTTTTATCATATTTGTAATGATAAAAAATT
6519843 ATT
129 ATT
* * * ** ** *
6519846 ATTGCAAAAACT-TTTTTATTTGTAACAATTTTAAAATGTTGTTGCTTAATTTACTTGTTT-AAT
1 GTTGCAAAAACTGATTTTATTTGCAACAATTTTTCAATGTCATTGCTTAATTTA-TTTTTTAAAT
* * ** *
6519909 A-TTTTATACAATGACT-AAAAATTATTATGAAAATTTTTATCATATTTGTAACAATAAAAGATT
65 ATTTTTATACAATGA-TAAAAAATTGTTACGAAAATTTTTATCATATTTGTAATGATAAAAAATT
6519972 ATT
129 ATT
* *
6519975 ATTGCAAAAACCTG-TTTTATTAGCAACAAATTTTT-AATGTCATTGCTTAATTTATTTTTTAAA
1 GTTGCAAAAA-CTGATTTTATTTGCAAC-AATTTTTCAATGTCATTGCTTAATTTATTTTTTAAA
** * * *
6520038 TATTTTTATACAACAATAAAAAAGTTGTTACAAAAATTTTCATCATATTTTTAATGATAAAAAAT
64 TATTTTTATACAATGATAAAAAA-TTGTTACGAAAATTTTTATCATATTTGTAATGATAAAAAAT
*
6520103 TTTT
128 TATT
* *** * * *
6520107 ATTATGAAAACGTG-TTTTATTTGCAAAAATTTTTCAATGTCATTACTTAAATTATTTTTTAAAT
1 GTTGCAAAAAC-TGATTTTATTTGCAACAATTTTTCAATGTCATTGCTTAATTTATTTTTTAAAT
** * * * * * * ** *
6520171 ATTTTTATACAACAACAAAAAGGTTTTTATGGAATTTTTTAAATCATATTTGTAACAATAAAATA
65 ATTTTTATACAATGATAAAAA-ATTGTTACGAAAATTTTT--ATCATATTTGTAATGATAAAAAA
*
6520236 TTTTT
127 TTATT
* * ** * *
6520241 GTTGCAAAAATTTATTTTATTTGCAATGATTTTTCAATGTCGTTACTTAATTTATTTTTTAAATA
1 GTTGCAAAAACTGATTTTATTTGCAACAATTTTTCAATGTCATTGCTTAATTTATTTTTTAAATA
* * *
6520306 TTTTAATACAATG-TAAAAAATTGTTATGAAAATTTTTATCATATTTGTAACGATAAAAAAATT-
66 TTTTTATACAATGATAAAAAATTGTTACGAAAATTTTTATCATATTTGTAATGAT-AAAAAATTA
6520369 TT
130 TT
* * * * * * *
6520371 GTTACGAAAACTTATTTTCAATTGCAACAAATTTTCAATATTATTGCTTAATTTATTTTTTAAAT
1 GTTGCAAAAACTGATTTT-ATTTGCAACAATTTTTCAATGTCATTGCTTAATTTATTTTTTAAAT
* * * * *
6520436 ATTTTTATACAATGACAAAAAAATTGTTATGAAAATTTTCATCATATTTGTATTGATGAAAAATT
65 ATTTTTATACAATGA-TAAAAAATTGTTACGAAAATTTTTATCATATTTGTAATGATAAAAAATT
6520501 ATT
129 ATT
* * * * *
6520504 GTTGTGAAAACCTG-TTTTGTTTGCAACGATTTTTTAATGTCATTGCTTAATTTATTTTTTAAAT
1 GTTG-CAAAAACTGATTTTATTTGCAACAATTTTTCAATGTCATTGCTTAATTTATTTTTTAAAT
* * * * * *
6520568 ATTTTAATGCAACGA-AAAAATTTGTTACGAAAATTTTAATCATATTTGTAATGATAAAAGATTA
65 ATTTTTATACAATGATAAAAAATTGTTACGAAAATTTTTATCATATTTGTAATGATAAAAAATTA
6520632 TT
130 TT
** ** * * *
6520634 GTTATAAAAACCT-ATTTTATTTGCAATGATTTTTCAATATAATTACTTAATTTATTTTTTAAAA
1 GTTGCAAAAA-CTGATTTTATTTGCAACAATTTTTCAATGTCATTGCTTAATTTATTTTTT-AAA
* * * *
6520698 TATTTTTATACAACGACAAAAAAGTTGTTACGAAATTTTTTTATCATATTTATTACAT--TAAAA
64 TATTTTTATACAATGATAAAAAA-TTGTTACGAAA-ATTTTTATCATATTT-GTA-ATGATAAAA
6520761 AATTATT
125 AATTATT
* * * ** *
6520768 ATTGCAAAAACTTATTTTATTTGCAACAATTTTTCAATATTGTTACTTAATTTATTTTTTAAATA
1 GTTGCAAAAACTGATTTTATTTGCAACAATTTTTCAATGTCATTGCTTAATTTATTTTTTAAATA
* * * * * *
6520833 TTGTAATGCAATGATAAAAAATTATTACAAAAATTTTTATCATATTTGTAATAATAAAAAATTAT
66 TTTTTATACAATGATAAAAAATTGTTACGAAAATTTTTATCATATTTGTAATGATAAAAAATTAT
6520898 T
131 T
** ** ** * * ** * *
6520899 GTTGTGAAAACTGATTTTATTTATAATGATTTTTTAGTGTTGTTGTTTAATTTATTTTCTAAATA
1 GTTGCAAAAACTGATTTTATTTGCAACAATTTTTCAATGTCATTGCTTAATTTATTTTTTAAATA
* *
6520964 TTTTTATATAATGACAAAAAA
66 TTTTTATACAATGATAAAAAA
6520985 AATTGTATTC
Statistics
Matches: 943, Mismatches: 165, Indels: 62
0.81 0.14 0.05
Matches are distributed among these distances:
129 60 0.06
130 197 0.21
131 230 0.24
132 200 0.21
133 86 0.09
134 166 0.18
135 2 0.00
136 2 0.00
ACGTcount: A:0.38, C:0.07, G:0.08, T:0.46
Consensus pattern (131 bp):
GTTGCAAAAACTGATTTTATTTGCAACAATTTTTCAATGTCATTGCTTAATTTATTTTTTAAATA
TTTTTATACAATGATAAAAAATTGTTACGAAAATTTTTATCATATTTGTAATGATAAAAAATTAT
T
Found at i:6521224 original size:2 final size:2
Alignment explanation
Indices: 6521217--6521242 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6521207 TGGCCATCAA
6521217 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
6521243 CAACAACTTT
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:6522854 original size:9 final size:8
Alignment explanation
Indices: 6522831--6522919 Score: 54
Period size: 8 Copynumber: 10.2 Consensus size: 8
6522821 AAGAGACAGT
6522831 AAAATAAA
1 AAAATAAA
6522839 AAAATAAA
1 AAAATAAA
6522847 AAATATAATAA
1 AAA-AT-A-AA
6522858 ATAAATAAA
1 A-AAATAAA
*
6522867 AAGAATTCAA
1 AA-AA-TAAA
*
6522877 AATATAAA
1 AAAATAAA
6522885 ATAAATAAA
1 A-AAATAAA
*
6522894 AATAA-AAT
1 AA-AATAAA
*
6522902 AAAATGAA
1 AAAATAAA
*
6522910 AAAAGAAA
1 AAAATAAA
6522918 AA
1 AA
6522920 CTTGCAATCG
Statistics
Matches: 63, Mismatches: 9, Indels: 18
0.70 0.10 0.20
Matches are distributed among these distances:
7 2 0.03
8 30 0.48
9 17 0.27
10 7 0.11
11 5 0.08
12 2 0.03
ACGTcount: A:0.78, C:0.01, G:0.03, T:0.18
Consensus pattern (8 bp):
AAAATAAA
Found at i:6522886 original size:27 final size:28
Alignment explanation
Indices: 6522832--6522905 Score: 87
Period size: 31 Copynumber: 2.6 Consensus size: 28
6522822 AGAGACAGTA
6522832 AAATAAAAAAATAAAAAATATAATAAAT
1 AAATAAAAAAATAAAAAATATAATAAAT
* *
6522860 AAATAAAAAGAATTCAAAATATAAAATAAAT
1 AAATAAAAA-AA-T-AAAAAATATAATAAAT
*
6522891 AAA-AATAAAATAAAA
1 AAATAAAAAAATAAAA
6522906 TGAAAAAAGA
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
27 4 0.10
28 10 0.25
29 4 0.10
30 5 0.12
31 17 0.43
ACGTcount: A:0.77, C:0.01, G:0.01, T:0.20
Consensus pattern (28 bp):
AAATAAAAAAATAAAAAATATAATAAAT
Found at i:6522891 original size:31 final size:28
Alignment explanation
Indices: 6522832--6522905 Score: 78
Period size: 29 Copynumber: 2.6 Consensus size: 28
6522822 AGAGACAGTA
*
6522832 AAATAAAAAAATAAAAAATATAATAAAT
1 AAATAAAAAAATAAAAAATATAAAAAAT
**
6522860 AAATAAAAAGAATTCAAAATATAAAATAAAT
1 AAATAAAAA-AATAAAAAATAT-AAA-AAAT
*
6522891 AAA-AATAAAATAAAA
1 AAATAAAAAAATAAAA
6522906 TGAAAAAAGA
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
28 9 0.24
29 15 0.41
30 6 0.16
31 7 0.19
ACGTcount: A:0.77, C:0.01, G:0.01, T:0.20
Consensus pattern (28 bp):
AAATAAAAAAATAAAAAATATAAAAAAT
Found at i:6522906 original size:27 final size:28
Alignment explanation
Indices: 6522832--6522906 Score: 84
Period size: 27 Copynumber: 2.7 Consensus size: 28
6522822 AGAGACAGTA
6522832 AAATAAAAAAATAA-AAAATATAATAAAT
1 AAATAAAAAAA-AATAAAATATAATAAAT
* *
6522860 AAATAAAAAGAATTCAAAATAT-A-AAAT
1 AAATAAAAAAAAAT-AAAATATAATAAAT
6522887 AAATAAAAATAAAATAAAAT
1 AAATAAAAA-AAAATAAAAT
6522907 GAAAAAAGAA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
27 19 0.47
28 14 0.35
29 7 0.17
ACGTcount: A:0.76, C:0.01, G:0.01, T:0.21
Consensus pattern (28 bp):
AAATAAAAAAAAATAAAATATAATAAAT
Found at i:6522911 original size:11 final size:11
Alignment explanation
Indices: 6522830--6522905 Score: 52
Period size: 11 Copynumber: 6.9 Consensus size: 11
6522820 TAAGAGACAG
6522830 TAAAATAAAAA
1 TAAAATAAAAA
*
6522841 -AATA-AAAAA
1 TAAAATAAAAA
*
6522850 TATAATAAATAAA
1 TAAAAT-AA-AAA
* *
6522863 TAAAA-AGAAT
1 TAAAATAAAAA
6522873 TCAAAATATAAAA
1 T-AAAATA-AAAA
6522886 T-AAATAAAAA
1 TAAAATAAAAA
6522896 TAAAATAAAA
1 TAAAATAAAA
6522906 TGAAAAAAGA
Statistics
Matches: 49, Mismatches: 8, Indels: 16
0.67 0.11 0.22
Matches are distributed among these distances:
9 5 0.10
10 13 0.27
11 18 0.37
12 3 0.06
13 10 0.20
ACGTcount: A:0.76, C:0.01, G:0.01, T:0.21
Consensus pattern (11 bp):
TAAAATAAAAA
Found at i:6523701 original size:3 final size:3
Alignment explanation
Indices: 6523688--6523842 Score: 113
Period size: 3 Copynumber: 56.0 Consensus size: 3
6523678 AAGAAAGAGG
*
6523688 AAT AA- AAT AAT AAT AAT AAT AAT -AT AAC AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
6523734 AAT GAT AAT AGT AAT -AT AAT -AT ACT -AT AAT AAT -AT ATAT CAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT
* * * *
6523776 -AT ACT -AT AAT -AT AAT AAT GAT -AT AGT -AT AAT AGT AAT -AT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
6523818 AAT AAT -AT AAT -AT AAT AAT AGT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
6523843 GTAATACTAG
Statistics
Matches: 119, Mismatches: 18, Indels: 30
0.71 0.11 0.18
Matches are distributed among these distances:
2 25 0.21
3 92 0.77
4 2 0.02
ACGTcount: A:0.58, C:0.03, G:0.04, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:6523835 original size:43 final size:44
Alignment explanation
Indices: 6523688--6523837 Score: 150
Period size: 43 Copynumber: 3.5 Consensus size: 44
6523678 AAGAAAGAGG
* *
6523688 AATAAAATAATAATAATAATAATATAACAATAATAATA-ATAATAAT
1 AATAATATAAT-ATAATAATAATAT-ACTATAATAATATAT-ATAAT
* *
6523734 AAT--GATAATAGTAAT-ATAATATACTATAATAATATATATCAT
1 AATAATATAATA-TAATAATAATATACTATAATAATATATATAAT
* * * *
6523776 -ATACTATAATATAATAATGATATAGTATAATAGTA-ATATAAT
1 AATAATATAATATAATAATAATATACTATAATAATATATATAAT
6523818 AATAATATAATATAATAATA
1 AATAATATAATATAATAATA
6523838 GTAATGTAAT
Statistics
Matches: 88, Mismatches: 10, Indels: 15
0.78 0.09 0.13
Matches are distributed among these distances:
41 2 0.02
42 25 0.28
43 49 0.56
44 9 0.10
46 3 0.03
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (44 bp):
AATAATATAATATAATAATAATATACTATAATAATATATATAAT
Found at i:6523847 original size:11 final size:11
Alignment explanation
Indices: 6523716--6523848 Score: 91
Period size: 11 Copynumber: 12.4 Consensus size: 11
6523706 ATAATATAAC
*
6523716 AATAATAATAAT
1 AATAGTAAT-AT
*
6523728 AATAATAATGAT
1 AATAGTAAT-AT
6523740 AATAGTAATAT
1 AATAGTAATAT
*
6523751 AATA-TACTAT
1 AATAGTAATAT
*
6523761 AATAATATATAT
1 AATAGTA-ATAT
* *
6523773 CATA-TACTAT
1 AATAGTAATAT
6523783 AATA-TAATAAT
1 AATAGTAAT-AT
* *
6523794 GATA-TAGTAT
1 AATAGTAATAT
6523804 AATAGTAATAT
1 AATAGTAATAT
*
6523815 AATAATAATAT
1 AATAGTAATAT
6523826 AATA-T-A-AT
1 AATAGTAATAT
*
6523834 AATAGTAATGT
1 AATAGTAATAT
6523845 AATA
1 AATA
6523849 CTAGTAACAA
Statistics
Matches: 100, Mismatches: 14, Indels: 15
0.78 0.11 0.12
Matches are distributed among these distances:
8 6 0.06
9 2 0.02
10 25 0.25
11 42 0.42
12 25 0.25
ACGTcount: A:0.56, C:0.02, G:0.05, T:0.37
Consensus pattern (11 bp):
AATAGTAATAT
Found at i:6523853 original size:14 final size:14
Alignment explanation
Indices: 6523697--6523855 Score: 85
Period size: 14 Copynumber: 10.9 Consensus size: 14
6523687 GAATAAAATA
*
6523697 ATAATAATAATAAT
1 ATAATAATAGTAAT
* *
6523711 ATAACAATAATAAT
1 ATAATAATAGTAAT
* *
6523725 AATAATAATAATGAT
1 -ATAATAATAGTAAT
*
6523740 AATAGTAATA-TAAT
1 -ATAATAATAGTAAT
*
6523754 ATACTATAATAATATAT
1 ATA--ATAATAGTA-AT
*
6523771 ATCATATACTA-TAAT
1 AT-A-ATAATAGTAAT
6523786 ATAATAAT-G--AT
1 ATAATAATAGTAAT
6523797 ATAGTATAATAGTAAT
1 ATA--ATAATAGTAAT
*
6523813 ATAATAATAATATAAT
1 ATAATAAT-A-GTAAT
6523829 ATAATAATAGTAAT
1 ATAATAATAGTAAT
* *
6523843 GTAATACTAGTAA
1 ATAATAATAGTAA
6523856 CAAAAAATGA
Statistics
Matches: 119, Mismatches: 12, Indels: 28
0.75 0.08 0.18
Matches are distributed among these distances:
11 5 0.04
13 12 0.10
14 38 0.32
15 32 0.27
16 21 0.18
17 10 0.08
18 1 0.01
ACGTcount: A:0.56, C:0.03, G:0.05, T:0.36
Consensus pattern (14 bp):
ATAATAATAGTAAT
Found at i:6524399 original size:112 final size:112
Alignment explanation
Indices: 6524167--6524631 Score: 321
Period size: 112 Copynumber: 4.1 Consensus size: 112
6524157 ATCTGAACAA
* * *** * * **
6524167 AGTTGAGATCTAACAATCGGGATTAAACTGTGAGTTTAGAAAATTGACCT-GAACCGAGTCAAGG
1 AGTTGAGATCAAACAATCAGGATTAAACTACAAGTCTAAAAAATTGACCTAG-ACCGAGTTGAGG
* * ** * *** *
6524231 TTAAACGATCGAGATTAAACCATAAGTCTAGAGAAGTGATCTAGTTGG
65 TCAAACGATCGAGATTGAACCGCAAGTCTAGAAAAACAATCTAGATGG
** * * * *
6524279 AGCCGAGATCGAACAATCAGGATTAAACCACAAGTCTAGAAAATTGACCTAGACCTAGTTGAGGT
1 AGTTGAGATCAAACAATCAGGATTAAACTACAAGTCTAAAAAATTGACCTAGACCGAGTTGAGGT
* * * *
6524344 CAAACGATCGAGATTGAACCGTAAGTCTAGAAAAATAATTTGGATGG
66 CAAACGATCGAGATTGAACCGCAAGTCTAGAAAAACAATCTAGATGG
** ** * * * * *
6524391 AGTTGAGATTGAATGAT-AGAGATTAAAATACAAGTATGAAAAAACTAACCTAGATCGAGTTGAG
1 AGTTGAGATCAAACAATCAG-GATTAAACTACAAGTCT-AAAAAATTGACCTAGACCGAGTTGAG
* * ** * * * ***
6524455 GTCAAATGA-CTGGGATTGAATTGCAAGTTTGGAAAAACAATCTAAACAA
64 GTCAAACGATC-GAGATTGAACCGCAAGTCTAGAAAAACAATCTAGATGG
* * * *
6524504 AGCTAAGATCAAACAACTGAGG-TTAAACTACGAGTCTAAAAAATTGACCTAGACCGAGTCT-AG
1 AGTTGAGATCAAACAA-TCAGGATTAAACTACAAGTCTAAAAAATTGACCTAGACCGAGT-TGAG
* * * * *
6524567 GTTAAAC-AGTTGAGATTGAACCGCAAGTCTATAAAAGCAATCTGGATGG
64 GTCAAACGA-TCGAGATTGAACCGCAAGTCTAGAAAAACAATCTAGATGG
6524616 AGTTGAGATCAAACAA
1 AGTTGAGATCAAACAA
6524632 CTAGCATTAA
Statistics
Matches: 267, Mismatches: 77, Indels: 18
0.74 0.21 0.05
Matches are distributed among these distances:
111 3 0.01
112 182 0.68
113 78 0.29
114 2 0.01
115 2 0.01
ACGTcount: A:0.40, C:0.14, G:0.22, T:0.23
Consensus pattern (112 bp):
AGTTGAGATCAAACAATCAGGATTAAACTACAAGTCTAAAAAATTGACCTAGACCGAGTTGAGGT
CAAACGATCGAGATTGAACCGCAAGTCTAGAAAAACAATCTAGATGG
Found at i:6536256 original size:20 final size:19
Alignment explanation
Indices: 6536231--6536270 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
6536221 AATTCAAAAT
* *
6536231 ATAAAATTAATAAAAATAAA
1 ATAAAATGAA-AAAAAGAAA
6536251 ATAAAATGAAAAAAAGAAA
1 ATAAAATGAAAAAAAGAAA
6536270 A
1 A
6536271 CCTGCGATCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (19 bp):
ATAAAATGAAAAAAAGAAA
Found at i:6537053 original size:3 final size:3
Alignment explanation
Indices: 6537047--6537207 Score: 86
Period size: 3 Copynumber: 59.3 Consensus size: 3
6537037 ATAAAAACAA
* * *
6537047 AAT AAT AAT AAT AAT AAT AAT AGT AAT -AT AAT AAT AAT GAT AAT AGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
6537094 AAT -AT AAT -AT ACT -AT AAT AAT -AT AA- CAT CAT -AT ACT -AT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* ** *
6537135 -AT AAT AAT AAT -AT AGT -AT AAT GGT AAT -AT AGT AAT AAT -AT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
**
6537178 -AT AAT -AT GCT -AT AAT AAT AAT -AT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
6537208 GTATAGTAAT
Statistics
Matches: 120, Mismatches: 21, Indels: 34
0.69 0.12 0.19
Matches are distributed among these distances:
2 29 0.24
3 91 0.76
ACGTcount: A:0.56, C:0.03, G:0.05, T:0.36
Consensus pattern (3 bp):
AAT
Done.