Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 4 of 297
Found at i:1102115 original size:21 final size:21
Alignment explanation
Indices: 1102061--1102117 Score: 60
Period size: 24 Copynumber: 2.5 Consensus size: 21
1102051 ATTATCATAT
*
1102061 AATTCATGCCACAAAATATACC
1 AATTCAT-CAACAAAATATACC
*
1102083 AATTCATCATCAACAAAATGTACC
1 AA-T--TCATCAACAAAATATACC
1102107 AATTCATCAAC
1 AATTCATCAAC
1102118 CTTATACCAT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
21 8 0.27
22 2 0.07
23 2 0.07
24 14 0.47
25 4 0.13
ACGTcount: A:0.46, C:0.26, G:0.04, T:0.25
Consensus pattern (21 bp):
AATTCATCAACAAAATATACC
Found at i:1103058 original size:42 final size:42
Alignment explanation
Indices: 1103026--1103129 Score: 172
Period size: 42 Copynumber: 2.5 Consensus size: 42
1103016 TAGCTTAGCT
1103026 ATGGTCTTACACGAATCTCATATCGATGCCAATGTCCTAGAC
1 ATGGTCTTACACGAATCTCATATCGATGCCAATGTCCTAGAC
* * *
1103068 ATGGTCTTACACGAATCTCATATCGATGCAAATGTCCCAGTC
1 ATGGTCTTACACGAATCTCATATCGATGCCAATGTCCTAGAC
*
1103110 ATGGTCTTACATGAATCTCA
1 ATGGTCTTACACGAATCTCA
1103130 CATCCCGATA
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 58 1.00
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (42 bp):
ATGGTCTTACACGAATCTCATATCGATGCCAATGTCCTAGAC
Found at i:1106862 original size:189 final size:189
Alignment explanation
Indices: 1106542--1106919 Score: 666
Period size: 189 Copynumber: 2.0 Consensus size: 189
1106532 CAAAATCTGG
1106542 GTGTTACAACTCTCCACCCTTTAGGGATTTTCGTCCCCGAAAATCTTACCAGAAAAGTGGTCTTC
1 GTGTTACAACTCTCCACCCTTTAGGGATTTTCGTCCCCGAAAATCTTACCAGAAAAGTGGTCTTC
* * * * *
1106607 ACTTAGATTCCTCAGTCTCATAGTCGATACCAAAGTACCTTTGCTCAGGTGGTGCCTCCAATACA
66 ACTTAGATTCCTCAATCTCATACTCAATACCAAAGTACCTTCGCTCAGGCGGTGCCTCCAATACA
1106672 TCTCTTTAATTTCTCATATGATCTGAAAGCTTACGGACTCAACTCCCAATTGTTCTTAA
131 TCTCTTTAATTTCTCATATGATCTGAAAGCTTACGGACTCAACTCCCAATTGTTCTTAA
* * * *
1106731 GTGTTACAACTCTCCCCCCTTTAGGGATTTTTGTCTCCGAAAATCTTACCGGAAAAGTGGTCTTC
1 GTGTTACAACTCTCCACCCTTTAGGGATTTTCGTCCCCGAAAATCTTACCAGAAAAGTGGTCTTC
*
1106796 ACTTAGATTCCTCAATCTCATTCTCAATACCAAAGTACCTTCGCTCAGGCGGTGCCTCCAATACA
66 ACTTAGATTCCTCAATCTCATACTCAATACCAAAGTACCTTCGCTCAGGCGGTGCCTCCAATACA
1106861 TCTCTTTAATTTCTCATATGATCTGAAAGCTTACGGACTCAACTCCCAATTGTTCTTAA
131 TCTCTTTAATTTCTCATATGATCTGAAAGCTTACGGACTCAACTCCCAATTGTTCTTAA
1106920 ATTTTCAAAG
Statistics
Matches: 179, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
189 179 1.00
ACGTcount: A:0.26, C:0.27, G:0.14, T:0.33
Consensus pattern (189 bp):
GTGTTACAACTCTCCACCCTTTAGGGATTTTCGTCCCCGAAAATCTTACCAGAAAAGTGGTCTTC
ACTTAGATTCCTCAATCTCATACTCAATACCAAAGTACCTTCGCTCAGGCGGTGCCTCCAATACA
TCTCTTTAATTTCTCATATGATCTGAAAGCTTACGGACTCAACTCCCAATTGTTCTTAA
Found at i:1118595 original size:11 final size:11
Alignment explanation
Indices: 1118579--1118611 Score: 66
Period size: 11 Copynumber: 3.0 Consensus size: 11
1118569 GTCTCTGCCC
1118579 GTGTGCCCAAT
1 GTGTGCCCAAT
1118590 GTGTGCCCAAT
1 GTGTGCCCAAT
1118601 GTGTGCCCAAT
1 GTGTGCCCAAT
1118612 TCTGAGCATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.18, C:0.27, G:0.27, T:0.27
Consensus pattern (11 bp):
GTGTGCCCAAT
Found at i:1121811 original size:24 final size:23
Alignment explanation
Indices: 1121784--1121830 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
1121774 AACAATTTGC
*
1121784 ACCCATGACCAAAGCATCAAAAAA
1 ACCCATGACCAAAGAAT-AAAAAA
*
1121808 ACCCTTGACCAAAGAATAAAAAA
1 ACCCATGACCAAAGAATAAAAAA
1121831 CATACCAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 6 0.29
24 15 0.71
ACGTcount: A:0.55, C:0.26, G:0.09, T:0.11
Consensus pattern (23 bp):
ACCCATGACCAAAGAATAAAAAA
Found at i:1125159 original size:29 final size:29
Alignment explanation
Indices: 1125125--1125192 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 29
1125115 ATGAGAGCTT
*
1125125 TTGTGGCTATATCTATTAAGTGGACGCCC
1 TTGTGGCTATATCTATTAAGTAGACGCCC
* * * *
1125154 TTGTGGCTATATTTATTATGTAGATGCCT
1 TTGTGGCTATATCTATTAAGTAGACGCCC
1125183 TTGTGGCTAT
1 TTGTGGCTAT
1125193 TTATCTGTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.19, C:0.15, G:0.24, T:0.43
Consensus pattern (29 bp):
TTGTGGCTATATCTATTAAGTAGACGCCC
Found at i:1125208 original size:28 final size:28
Alignment explanation
Indices: 1125124--1125253 Score: 108
Period size: 27 Copynumber: 4.6 Consensus size: 28
1125114 TATGAGAGCT
*
1125124 TTTGTGGCTA--TATCTATTAAGTGGACGCC
1 TTTGTGGCTATTTATCTATT---TGGATGCC
* * *
1125153 CTTGTGGCTATATTTAT-TATGTAGATGCC
1 TTTGTGGC--TATTTATCTATTTGGATGCC
*
1125182 TTTGTGGCTATTTATCTGTTTGGATGCC
1 TTTGTGGCTATTTATCTATTTGGATGCC
1125210 TTTGTGGCTATCTTA--TATTTGGATGCC
1 TTTGTGGCTAT-TTATCTATTTGGATGCC
* *
1125237 TTTTTGGCTATCTATCT
1 TTTGTGGCTATTTATCT
1125254 TTGATCTAGT
Statistics
Matches: 82, Mismatches: 11, Indels: 17
0.75 0.10 0.15
Matches are distributed among these distances:
26 2 0.02
27 28 0.34
28 21 0.26
29 23 0.28
31 2 0.02
32 3 0.04
33 3 0.04
ACGTcount: A:0.16, C:0.15, G:0.22, T:0.47
Consensus pattern (28 bp):
TTTGTGGCTATTTATCTATTTGGATGCC
Found at i:1125245 original size:55 final size:56
Alignment explanation
Indices: 1125145--1125253 Score: 141
Period size: 55 Copynumber: 1.9 Consensus size: 56
1125135 ATCTATTAAG
*
1125145 TGGACGCCCTTGTGGCTATATTTATTATGTAGATGCCTTTGTGGCTATTTATCTGTT
1 TGGACGCCCTTGTGGCTATATTTATTATG-AGATGCCTTTGTGGCTATCTATCTGTT
* * * *
1125202 TGGATGCCTTTGTGGCTATCTTATATT-TG-GATGCCTTTTTGGCTATCTATCT
1 TGGACGCCCTTGTGGCTATATT-TATTATGAGATGCCTTTGTGGCTATCTATCT
1125254 TTGATCTAGT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
55 21 0.46
57 21 0.46
58 4 0.09
ACGTcount: A:0.15, C:0.17, G:0.22, T:0.47
Consensus pattern (56 bp):
TGGACGCCCTTGTGGCTATATTTATTATGAGATGCCTTTGTGGCTATCTATCTGTT
Found at i:1129479 original size:34 final size:34
Alignment explanation
Indices: 1129407--1129489 Score: 93
Period size: 34 Copynumber: 2.5 Consensus size: 34
1129397 CAATTCAGTA
* *
1129407 ACAGT-TCAGTTTCAGTTAGGGCCTTAGCCCATT
1 ACAGTATCAGTATCAGTTAGGGCCTAAGCCCATT
1129440 ACAGTATCAGTATCAGTGT-GGGCCTAAGCCCATCT
1 ACAGTATCAGTATCAGT-TAGGGCCTAAGCCCAT-T
*
1129475 -CAGTAACAGTA-CAGT
1 ACAGTATCAGTATCAGT
1129490 ATAGATATGC
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
33 9 0.20
34 33 0.75
35 2 0.05
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.28
Consensus pattern (34 bp):
ACAGTATCAGTATCAGTTAGGGCCTAAGCCCATT
Found at i:1132100 original size:31 final size:31
Alignment explanation
Indices: 1132065--1132128 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
1132055 ATTTACCATT
1132065 TTGAACTAAACCCCCTCGAGGGCTAAATTTC
1 TTGAACTAAACCCCCTCGAGGGCTAAATTTC
1132096 TTGAACTAAACCCCCTCGAGGGCTAAATTTC
1 TTGAACTAAACCCCCTCGAGGGCTAAATTTC
1132127 TT
1 TT
1132129 TCTCAAATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (31 bp):
TTGAACTAAACCCCCTCGAGGGCTAAATTTC
Found at i:1136059 original size:237 final size:237
Alignment explanation
Indices: 1135639--1136113 Score: 896
Period size: 237 Copynumber: 2.0 Consensus size: 237
1135629 GGTCCTCGAG
1135639 ACCCTAAAATATGAAATTGAAACGGTTCAGGAACAAACCGGAATCAATAAAAATTTTCTGATCAC
1 ACCCTAAAATATGAAATTGAAACGGTTCAGGAACAAACCGGAATCAATAAAAATTTTCTGATCAC
1135704 TTAAACAAATCAAACAATTCATTTCATCTTTCATAAATAAACTATCCATCTGCGTCATAGTCACT
66 TTAAACAAATCAAACAATTCATTTCATCTTTCATAAATAAACTATCCATCTGCGTCATAGTCACT
*
1135769 AAATAAATCATAACTCGAGTTACGAAACTCAAAATTCAAATTTATAAATTTTCTCTGAGACTAGA
131 AAATAAATCATAACTCGAGTTACGAAACTCAAAATTCAAATTTATAAATTTTCTCTGAAACTAGA
1135834 CTCATATATCTTCTTACTTAATTTGTTTCATAATTTTTTGTC
196 CTCATATATCTTCTTACTTAATTTGTTTCATAATTTTTTGTC
*
1135876 ACCCTAAAATATGAAATTGAAACGGTTCAGGAATAAACCGGAATCAATAAAAATTTTCTGATCAC
1 ACCCTAAAATATGAAATTGAAACGGTTCAGGAACAAACCGGAATCAATAAAAATTTTCTGATCAC
*
1135941 TTAAACAAATCAAACAATTCATTTCATCTTTCATAAATAAACTATTCATCTGCGTCATAGTCACT
66 TTAAACAAATCAAACAATTCATTTCATCTTTCATAAATAAACTATCCATCTGCGTCATAGTCACT
* * *
1136006 AAATAAATCATAACTCGAGTTACGAAACTCGAAATTCGAATTTATAGATTTTCTCTGAAACTAGA
131 AAATAAATCATAACTCGAGTTACGAAACTCAAAATTCAAATTTATAAATTTTCTCTGAAACTAGA
1136071 CTCATATATCTTCTTACTTAATTTGTTTCATAATTTTTTGTC
196 CTCATATATCTTCTTACTTAATTTGTTTCATAATTTTTTGTC
1136113 A
1 A
1136114 AGCCAATTAG
Statistics
Matches: 232, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
237 232 1.00
ACGTcount: A:0.39, C:0.18, G:0.09, T:0.35
Consensus pattern (237 bp):
ACCCTAAAATATGAAATTGAAACGGTTCAGGAACAAACCGGAATCAATAAAAATTTTCTGATCAC
TTAAACAAATCAAACAATTCATTTCATCTTTCATAAATAAACTATCCATCTGCGTCATAGTCACT
AAATAAATCATAACTCGAGTTACGAAACTCAAAATTCAAATTTATAAATTTTCTCTGAAACTAGA
CTCATATATCTTCTTACTTAATTTGTTTCATAATTTTTTGTC
Found at i:1137372 original size:55 final size:53
Alignment explanation
Indices: 1137256--1137441 Score: 153
Period size: 55 Copynumber: 3.4 Consensus size: 53
1137246 CCATGTCTCA
* *
1137256 ACATGGTCTTTCATGGTATCCTTGCCTTATGAACTCACCAATGCCACGCCTTG
1 ACATGGTCTTACATGGGATCCTTGCCTTATGAACTCACCAATGCCACGCCTTG
* * * * * *
1137309 GCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAACTTATCAATGCGATGTCTTG
1 ACATGGTCTTACATGGGATCC-TTGCCTTAT-G-AACTCACCAATGCCACGCCTTG
* * * * *
1137364 ACATGGTCTTACATGGTA-CACTTGTCTTA-GAAACCTTACCAATTTCCATGCCTTG
1 ACATGGTCTTACATGGGATC-CTTGCCTTATG-AA-CTCACCAA-TGCCACGCCTTG
* *
1137419 GCATGGTCTTACATGGTATCCTT
1 ACATGGTCTTACATGGGATCCTT
1137442 AAACCCTAAT
Statistics
Matches: 109, Mismatches: 17, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
52 2 0.02
53 27 0.25
54 8 0.07
55 70 0.64
56 2 0.02
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (53 bp):
ACATGGTCTTACATGGGATCCTTGCCTTATGAACTCACCAATGCCACGCCTTG
Found at i:1154585 original size:39 final size:40
Alignment explanation
Indices: 1154514--1154658 Score: 172
Period size: 40 Copynumber: 3.6 Consensus size: 40
1154504 GCTCCTCGTT
* *
1154514 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
1154554 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
1154593 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
1154634 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
1154659 CATCATTCAA
Statistics
Matches: 90, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
38 3 0.03
39 31 0.34
40 44 0.49
41 12 0.13
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:1156356 original size:16 final size:16
Alignment explanation
Indices: 1156337--1156367 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1156327 CTTCTTCACT
1156337 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
1156353 TACTTACTTACTTAA
1 TACTCACTTACTTAA
1156368 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:1156373 original size:20 final size:20
Alignment explanation
Indices: 1156334--1156373 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
1156324 AAACTTCTTC
* *
1156334 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
1156354 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
1156374 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:1156687 original size:55 final size:55
Alignment explanation
Indices: 1156556--1156869 Score: 396
Period size: 55 Copynumber: 5.8 Consensus size: 55
1156546 ATACACGGGT
* * * **
1156556 ACCTTACC-ATTACCATGACTTGTCATGGTCTTATGTGGTATCC-TT--TT-GAA
1 ACCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTTTCCTTAGAA
* * *
1156606 A-CTTACC-ATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTTCCTTAGAA
1 ACCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTTTCCTTAGAA
* *
1156659 ACCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTA
1 ACCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTTT-CC-T-TAGAA
* * *
1156716 A-CTTATCAA-TGCGATGTCTTGGCATGGTCTTACATGGTATCCTTTCCTTAGAA
1 ACCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTTTCCTTAGAA
* *
1156769 ATCTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTTCCTTAGAA
1 ACCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTTTCCTTAGAA
1156824 ACCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 ACCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1156870 AAACCCTAAT
Statistics
Matches: 230, Mismatches: 22, Indels: 19
0.85 0.08 0.07
Matches are distributed among these distances:
49 35 0.15
50 3 0.01
52 2 0.01
53 9 0.04
54 19 0.08
55 144 0.63
56 13 0.06
57 5 0.02
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (55 bp):
ACCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTTTCCTTAGAA
Found at i:1159514 original size:48 final size:47
Alignment explanation
Indices: 1159443--1159671 Score: 250
Period size: 48 Copynumber: 4.8 Consensus size: 47
1159433 GAGGGTAAAT
1159443 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCAC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAT-TCAC
* * * *
1159491 TGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCA-TGATG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATTCA-C
* *
1159538 TGGTCGATGCCATGTCCCAGACATGGTCTTACACTAG-TGCACATATCAAC
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCT-CTCAT-TC-AC
* * * * *
1159588 -ACTGATGCCATGTTCCAGACATGGTCTTACACTGGCTCTCATGTC-G
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAT-TCAC
*
1159634 TGGCCGATGCCATGTCCCAGACATGGTCTTACGCTAGC
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACTAGC
1159672 ACACATATCA
Statistics
Matches: 149, Mismatches: 23, Indels: 18
0.78 0.12 0.09
Matches are distributed among these distances:
46 2 0.01
47 2 0.01
48 142 0.95
49 1 0.01
50 1 0.01
51 1 0.01
ACGTcount: A:0.21, C:0.31, G:0.21, T:0.27
Consensus pattern (47 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATTCAC
Found at i:1159610 original size:96 final size:96
Alignment explanation
Indices: 1159444--1159681 Score: 338
Period size: 96 Copynumber: 2.5 Consensus size: 96
1159434 AGGGTAAATT
* * *
1159444 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTC-ACTGCCGATGCCATGTCCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAG-TCACATATCAACTACCGATGCCATGTCCC
1159508 AAACATGGTCTTACACTGGCTCTCATGAT-GTG
65 AAACATGGTCTTACACTGGCTCTCATG-TCGTG
* * *
1159540 GTCGATGCCATGTCCCAGACATGGTCTTACACTAGTGCACATATCAAC-ACTGATGCCATGTTCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGT-CACATATCAACTACCGATGCCATGTCCC
*
1159604 AGACATGGTCTTACACTGGCTCTCATGTCGTG
65 AAACATGGTCTTACACTGGCTCTCATGTCGTG
* *
1159636 GCCGATGCCATGTCCCAGACATGGTCTTACGCTAGCACACATATCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAG-TCACATATCA
1159682 CCCAAATGAC
Statistics
Matches: 128, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
95 2 0.02
96 124 0.97
97 2 0.02
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.26
Consensus pattern (96 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGTCACATATCAACTACCGATGCCATGTCCCA
AACATGGTCTTACACTGGCTCTCATGTCGTG
Found at i:1168756 original size:45 final size:45
Alignment explanation
Indices: 1168692--1168783 Score: 166
Period size: 45 Copynumber: 2.0 Consensus size: 45
1168682 CCTAGACTAG
* *
1168692 TAGTTTAAAGTAAGCAAGCAAATGCCCAATTAAAATTTAAATCCA
1 TAGTTTAAAGTAAACAAGCAAATGCCCAATTAAAACTTAAATCCA
1168737 TAGTTTAAAGTAAACAAGCAAATGCCCAATTAAAACTTAAATCCA
1 TAGTTTAAAGTAAACAAGCAAATGCCCAATTAAAACTTAAATCCA
1168782 TA
1 TA
1168784 AAAGGCCTTA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.48, C:0.16, G:0.10, T:0.26
Consensus pattern (45 bp):
TAGTTTAAAGTAAACAAGCAAATGCCCAATTAAAACTTAAATCCA
Found at i:1177721 original size:26 final size:27
Alignment explanation
Indices: 1177682--1177732 Score: 86
Period size: 26 Copynumber: 1.9 Consensus size: 27
1177672 CTAAGCATAG
*
1177682 TGGGGTTTTGTTTTAATTAACTAATAA
1 TGGGGTTTTGTTTTAACTAACTAATAA
1177709 TGGGG-TTTGTTTTAACTAACTAAT
1 TGGGGTTTTGTTTTAACTAACTAAT
1177733 TAACTAAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 18 0.78
27 5 0.22
ACGTcount: A:0.27, C:0.06, G:0.20, T:0.47
Consensus pattern (27 bp):
TGGGGTTTTGTTTTAACTAACTAATAA
Found at i:1182192 original size:21 final size:21
Alignment explanation
Indices: 1182141--1182192 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
1182131 TTTTTCCTAG
*
1182141 GATG-TTAATTGAATTAAATT
1 GATGATTAAATGAATTAAATT
*
1182161 GA-GTATGAAATGAATTAAATT
1 GATG-ATTAAATGAATTAAATT
1182182 GATGATTAAAT
1 GATGATTAAAT
1182193 TCATTTGTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
19 1 0.04
20 2 0.08
21 22 0.85
22 1 0.04
ACGTcount: A:0.44, C:0.00, G:0.17, T:0.38
Consensus pattern (21 bp):
GATGATTAAATGAATTAAATT
Found at i:1185931 original size:43 final size:43
Alignment explanation
Indices: 1185830--1185994 Score: 174
Period size: 43 Copynumber: 3.8 Consensus size: 43
1185820 CAATGCCATA
* * * * **
1185830 TCCCAGATATGGTCTTACATGTTATCACA-TATCGACGCCATTG
1 TCCCAGACATGGTCTTACATGTAATCATAGTA-CGATGCCAACG
* * * *
1185873 GCCCACACA-GTGTCTTACACGAAATCATAGTACGATGCCAACG
1 TCCCAGACATG-GTCTTACATGTAATCATAGTACGATGCCAACG
* *
1185916 TCCCAGACATGGTCTTACATGTAATC-TCAATACAATGCCAACG
1 TCCCAGACATGGTCTTACATGTAATCAT-AGTACGATGCCAACG
1185959 TCCCAGACATGGTCTTACATGTAATCATAGTACGAT
1 TCCCAGACATGGTCTTACATGTAATCATAGTACGAT
1185995 AACCTAGTGT
Statistics
Matches: 99, Mismatches: 18, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
42 2 0.02
43 93 0.94
44 4 0.04
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACATGTAATCATAGTACGATGCCAACG
Found at i:1193578 original size:43 final size:43
Alignment explanation
Indices: 1193531--1193639 Score: 139
Period size: 43 Copynumber: 2.5 Consensus size: 43
1193521 TCGACGACAC
* * **
1193531 TGTCCCAGACAGGGTCTTACATGAAATCAT-AATACGATGCCAA
1 TGTCCTAGACATGGTCTTACATGAAATC-TCAATAAAATGCCAA
* * *
1193574 TGTCCTAGACATGGTCTTATACGTAATCTCAATAAAATGCCAA
1 TGTCCTAGACATGGTCTTACATGAAATCTCAATAAAATGCCAA
1193617 TGTCCTAGACATGGTCTTACATG
1 TGTCCTAGACATGGTCTTACATG
1193640 TTATCACAAC
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
42 1 0.02
43 55 0.98
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.28
Consensus pattern (43 bp):
TGTCCTAGACATGGTCTTACATGAAATCTCAATAAAATGCCAA
Found at i:1203595 original size:13 final size:13
Alignment explanation
Indices: 1203577--1203601 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1203567 ACAAACAATC
1203577 AAATTTTCATACG
1 AAATTTTCATACG
1203590 AAATTTTCATAC
1 AAATTTTCATAC
1203602 ATACTAATTT
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:0.40, C:0.16, G:0.04, T:0.40
Consensus pattern (13 bp):
AAATTTTCATACG
Found at i:1208673 original size:42 final size:43
Alignment explanation
Indices: 1208560--1208679 Score: 113
Period size: 43 Copynumber: 2.8 Consensus size: 43
1208550 CAAAAATCTC
* * * * * *
1208560 ATACAATGCCAACGTCCCAGACGTAGTCTTACA-TATAATCAA
1 ATACGATGCCAACGTCCAAAACGTGGTCTTACACGATAACCAA
* *
1208602 ATATCGATGCC-ACTGTCCTATAC-TGGGTCTTACACGA-AACCAA
1 ATA-CGATGCCAAC-GTCCAAAACGT-GGTCTTACACGATAACCAA
1208645 ATACGATGCCAACGTCCAAAACGTGGTCTTACACG
1 ATACGATGCCAACGTCCAAAACGTGGTCTTACACG
1208680 TAAATCATAA
Statistics
Matches: 64, Mismatches: 8, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
42 31 0.48
43 32 0.50
44 1 0.02
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.23
Consensus pattern (43 bp):
ATACGATGCCAACGTCCAAAACGTGGTCTTACACGATAACCAA
Found at i:1212826 original size:43 final size:42
Alignment explanation
Indices: 1212779--1212929 Score: 119
Period size: 43 Copynumber: 3.5 Consensus size: 42
1212769 CTAGACGTGA
* *
1212779 TCTTACATGTAATCAAATATCGATGCCACCGTCCCAGACAGGG
1 TCTTACACGAAATCAAATATCGATGCCA-CGTCCCAGACAGGG
* * * * *
1212822 TCTTACACGAAATCAAATA-CAATACTGATGTCCCAGACATGG
1 TCTTACACGAAATCAAATATCGATGC-CACGTCCCAGACAGGG
* * *
1212864 TCTTACACGTAAATCATAA-GTCGATGCCAACGTCCCATAC-GTTG
1 TCTTACACG-AAATCA-AATATCGATGCC-ACGTCCCAGACAG-GG
* *
1212908 TCTTACATGAAATCACATATCG
1 TCTTACACGAAATCAAATATCG
1212930 GATCCTATGT
Statistics
Matches: 83, Mismatches: 18, Indels: 14
0.72 0.16 0.12
Matches are distributed among these distances:
42 26 0.31
43 33 0.40
44 24 0.29
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.26
Consensus pattern (42 bp):
TCTTACACGAAATCAAATATCGATGCCACGTCCCAGACAGGG
Found at i:1214034 original size:13 final size:13
Alignment explanation
Indices: 1214016--1214041 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1214006 ACAAACAATC
1214016 AAATTTTCATACA
1 AAATTTTCATACA
1214029 AAATTTTCATACA
1 AAATTTTCATACA
1214042 TACTAATTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (13 bp):
AAATTTTCATACA
Found at i:1215659 original size:15 final size:15
Alignment explanation
Indices: 1215627--1215655 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
1215617 ATTTTCTGTG
1215627 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
1215642 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
1215656 ATTTTCGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:1219744 original size:30 final size:30
Alignment explanation
Indices: 1219710--1219769 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
1219700 ATTTAATACG
1219710 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
1219740 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
1219770 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:1222859 original size:26 final size:26
Alignment explanation
Indices: 1222830--1222970 Score: 205
Period size: 26 Copynumber: 5.5 Consensus size: 26
1222820 TGATACAAAT
*
1222830 TGATAATAGGTTAGGTAAATGTTCAA
1 TGATAATAGGTTAGGTAAATGTTCCA
1222856 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
1222882 TGATAATAGATTAGGTAAATATTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
1222908 TGATAAT-GAGTTAGGTAAATGTTTCA
1 TGATAATAG-GTTAGGTAAATGTTCCA
* *
1222934 TGATAATGGGTTAGGTAAATGTCCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
1222960 TGATAAT-GGTT
1 TGATAATAGGTT
1222971 TCATGTCTTT
Statistics
Matches: 105, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
25 5 0.05
26 99 0.94
27 1 0.01
ACGTcount: A:0.35, C:0.06, G:0.23, T:0.35
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:1245252 original size:13 final size:13
Alignment explanation
Indices: 1245236--1245260 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1245226 TTAAATCAGT
1245236 TAATTAGTTTAAA
1 TAATTAGTTTAAA
1245249 TAATTAGTTTAA
1 TAATTAGTTTAA
1245261 TAAATAAACT
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TAATTAGTTTAAA
Found at i:1250621 original size:17 final size:17
Alignment explanation
Indices: 1250601--1250667 Score: 57
Period size: 17 Copynumber: 3.8 Consensus size: 17
1250591 TTATTTACTC
1250601 TTATTTTTTATTTTATT
1 TTATTTTTTATTTTATT
*
1250618 TTATTTTTCT-TTTGATT
1 TTATTTTT-TATTTTATT
* *
1250635 TT-TATTTTCATTTCAATT
1 TTAT-TTTTTATTT-TATT
1250653 TTATTATTTTATTTT
1 TTATT-TTTTATTTT
1250668 GAAAGACATA
Statistics
Matches: 39, Mismatches: 5, Indels: 11
0.71 0.09 0.20
Matches are distributed among these distances:
16 1 0.03
17 23 0.59
18 7 0.18
19 8 0.21
ACGTcount: A:0.18, C:0.04, G:0.01, T:0.76
Consensus pattern (17 bp):
TTATTTTTTATTTTATT
Found at i:1258497 original size:29 final size:29
Alignment explanation
Indices: 1258455--1258626 Score: 256
Period size: 29 Copynumber: 6.0 Consensus size: 29
1258445 GCATGTATAT
1258455 GAATGTGATTTGGGCCTAATGGGCCATAC
1 GAATGTGATTTGGGCCTAATGGGCCATAC
* *
1258484 GAATATGATTTGGGCATAATGGGCCATAC
1 GAATGTGATTTGGGCCTAATGGGCCATAC
* *
1258513 GAATGTGATTTAGGCCTAATGGGCTATAC
1 GAATGTGATTTGGGCCTAATGGGCCATAC
1258542 GAATGTGATTTGGGCCTAATGGGCCATAC
1 GAATGTGATTTGGGCCTAATGGGCCATAC
* * *
1258571 GATTGTGATTTGGGCCTAATAGGCCATAT
1 GAATGTGATTTGGGCCTAATGGGCCATAC
* *
1258600 GAATGAGA-TTGGGCCTAGTGGGCCATA
1 GAATGTGATTTGGGCCTAATGGGCCATA
1258627 TGCATGTATG
Statistics
Matches: 128, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
28 17 0.13
29 111 0.87
ACGTcount: A:0.26, C:0.15, G:0.30, T:0.28
Consensus pattern (29 bp):
GAATGTGATTTGGGCCTAATGGGCCATAC
Found at i:1264740 original size:29 final size:29
Alignment explanation
Indices: 1264683--1264768 Score: 90
Period size: 28 Copynumber: 3.0 Consensus size: 29
1264673 TACTTGTATC
*
1264683 TGGCCCATTAAGCCC-AATCATATTCATA
1 TGGCCCATTAGGCCCAAATCATATTCATA
1264711 TGGCCCATTAGGCCCAAATCACCTA-T-ATA
1 TGGCCCATTAGGCCCAAATCA--TATTCATA
* * *
1264740 TGGCCCATTAGACCC-AGTCACATTCATA
1 TGGCCCATTAGGCCCAAATCATATTCATA
1264768 T
1 T
1264769 TCATGCTCAC
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
26 1 0.02
27 1 0.02
28 22 0.45
29 22 0.45
30 1 0.02
31 2 0.04
ACGTcount: A:0.30, C:0.30, G:0.13, T:0.27
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCATATTCATA
Found at i:1265021 original size:24 final size:23
Alignment explanation
Indices: 1264976--1265021 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
1264966 ACTGTAGCCA
* *
1264976 AACTTTTGACTTTTCGGCATTTC
1 AACTTTTGACTTTTCAGAATTTC
1264999 AACTTTTCGACTTTTCAGAATTT
1 AACTTTT-GACTTTTCAGAATTT
1265022 TGGCTTTTCG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.22, C:0.20, G:0.11, T:0.48
Consensus pattern (23 bp):
AACTTTTGACTTTTCAGAATTTC
Found at i:1265037 original size:16 final size:16
Alignment explanation
Indices: 1265018--1265061 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
1265008 ACTTTTCAGA
*
1265018 ATTTTGGCTTTTCGGC
1 ATTTAGGCTTTTCGGC
1265034 ATTTCAGG-TTTTCGGC
1 ATTT-AGGCTTTTCGGC
*
1265050 ATTTCGGCTTTT
1 ATTTAGGCTTTT
1265062 GCCGATACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
15 2 0.08
16 20 0.83
17 2 0.08
ACGTcount: A:0.09, C:0.18, G:0.23, T:0.50
Consensus pattern (16 bp):
ATTTAGGCTTTTCGGC
Found at i:1269416 original size:40 final size:40
Alignment explanation
Indices: 1269348--1269528 Score: 182
Period size: 40 Copynumber: 4.5 Consensus size: 40
1269338 TATCTTGCAT
* * * * * *
1269348 ACTAAGTGTCGTACATAGTCGAAACTATCTCAAATCGCGC
1 ACTAAGTGCCATATATAGCCGAAGCTATCTCAAATCGCAC
* *
1269388 ACTAAGTGCCATATATAGCCAAAGCTATCTCAATTCTTGCAC
1 ACTAAGTGCCATATATAGCCGAAGCTATCTCAAATC--GCAC
**
1269430 ACTAAGTGCCATATATAGCCGAAGCTATCTCGATCTCGCAC
1 ACTAAGTGCCATATATAGCCGAAGCTATCTC-AAATCGCAC
* * * * * *
1269471 ATTAGGTGCCATTTATAGCTGAAGCTATGTCAAATCACAC
1 ACTAAGTGCCATATATAGCCGAAGCTATCTCAAATCGCAC
*
1269511 ACTAAGTGCCACATATAG
1 ACTAAGTGCCATATATAG
1269529 TTGAATTGTC
Statistics
Matches: 115, Mismatches: 23, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
40 49 0.43
41 30 0.26
42 33 0.29
43 3 0.03
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.27
Consensus pattern (40 bp):
ACTAAGTGCCATATATAGCCGAAGCTATCTCAAATCGCAC
Found at i:1269437 original size:42 final size:41
Alignment explanation
Indices: 1269372--1269528 Score: 167
Period size: 42 Copynumber: 3.9 Consensus size: 41
1269362 ATAGTCGAAA
*
1269372 CTATCTCAAATC-GCGCACTAAGTGCCATATATAGCCAAAG
1 CTATCTCAAATCTGCACACTAAGTGCCATATATAGCCAAAG
* *
1269412 CTATCTCAATTCTTGCACACTAAGTGCCATATATAGCCGAAG
1 CTATCTCAAATC-TGCACACTAAGTGCCATATATAGCCAAAG
* * * * **
1269454 CTATCTC-GATCTCGCACATTAGGTGCCATTTATAGCTGAAG
1 CTATCTCAAATCT-GCACACTAAGTGCCATATATAGCCAAAG
* * *
1269495 CTATGTCAAATC-ACACACTAAGTGCCACATATAG
1 CTATCTCAAATCTGCACACTAAGTGCCATATATAG
1269529 TTGAATTGTC
Statistics
Matches: 97, Mismatches: 16, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
40 29 0.30
41 32 0.33
42 36 0.37
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.27
Consensus pattern (41 bp):
CTATCTCAAATCTGCACACTAAGTGCCATATATAGCCAAAG
Found at i:1272107 original size:93 final size:93
Alignment explanation
Indices: 1271995--1272166 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
1271985 CGCCCATAAG
* *
1271995 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1272060 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
1272088 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1272153 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
1272167 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:1272163 original size:46 final size:46
Alignment explanation
Indices: 1271988--1272163 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
1271978 TGTAACCCGC
* * *
1271988 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
1272034 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
1272084 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
1272127 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
1272164 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:1274228 original size:60 final size:60
Alignment explanation
Indices: 1274135--1274253 Score: 220
Period size: 60 Copynumber: 2.0 Consensus size: 60
1274125 TCTGATAACT
* *
1274135 ATTATTGTAAGCAAATTCCACCAATGGTAAGTATCTTTCCCAACTTCCTTGTAATTCCAA
1 ATTATTGTAAGCAAATTCCACCAACGGTAAGTATCTTTCCCAACTTCCTTGAAATTCCAA
1274195 ATTATTGTAAGCAAATTCCACCAACGGTAAGTATCTTTCCCAACTTCCTTGAAATTCCA
1 ATTATTGTAAGCAAATTCCACCAACGGTAAGTATCTTTCCCAACTTCCTTGAAATTCCA
1274254 GTACACAACA
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 57 1.00
ACGTcount: A:0.32, C:0.24, G:0.10, T:0.34
Consensus pattern (60 bp):
ATTATTGTAAGCAAATTCCACCAACGGTAAGTATCTTTCCCAACTTCCTTGAAATTCCAA
Found at i:1279142 original size:47 final size:49
Alignment explanation
Indices: 1279019--1279151 Score: 172
Period size: 46 Copynumber: 2.8 Consensus size: 49
1279009 TGTAACCCGC
1279019 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG--G-CGTTCACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGATGCCGTTCACAT
*
1279065 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGATGCC--GTTCACAT
* *
1279115 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGATGC
1279152 TCAACCATCC
Statistics
Matches: 78, Mismatches: 4, Indels: 9
0.86 0.04 0.10
Matches are distributed among these distances:
46 35 0.45
47 31 0.40
48 3 0.04
49 2 0.03
50 4 0.05
51 3 0.04
ACGTcount: A:0.29, C:0.31, G:0.21, T:0.20
Consensus pattern (49 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGATGCCGTTCACAT
Found at i:1292660 original size:34 final size:35
Alignment explanation
Indices: 1292596--1292661 Score: 98
Period size: 35 Copynumber: 1.9 Consensus size: 35
1292586 GTATTGAGAT
* *
1292596 GGGCTTAGGCCCAGACTATTTACTGATACTAAAAG
1 GGGCTAAGGCCCAGACTAGTTACTGATACTAAAAG
*
1292631 GGGCTAAGGCCCAGACT-GTTACTGTTACTAA
1 GGGCTAAGGCCCAGACTAGTTACTGATACTAA
1292662 TATGGGCTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 12 0.43
35 16 0.57
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (35 bp):
GGGCTAAGGCCCAGACTAGTTACTGATACTAAAAG
Found at i:1292677 original size:34 final size:35
Alignment explanation
Indices: 1292594--1292677 Score: 107
Period size: 34 Copynumber: 2.4 Consensus size: 35
1292584 CTGTATTGAG
*
1292594 ATGGGCTTAGGCCCAGACTATTTACTGATACTAAA
1 ATGGGCTTAGGCCCAGACTAGTTACTGATACTAAA
* * * *
1292629 AGGGGCTAAGGCCCAGACT-GTTACTGTTACTAAT
1 ATGGGCTTAGGCCCAGACTAGTTACTGATACTAAA
*
1292663 ATGGGCTTATGCCCA
1 ATGGGCTTAGGCCCA
1292678 AAATGTATTC
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
34 24 0.59
35 17 0.41
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.27
Consensus pattern (35 bp):
ATGGGCTTAGGCCCAGACTAGTTACTGATACTAAA
Found at i:1296092 original size:47 final size:47
Alignment explanation
Indices: 1296013--1296146 Score: 130
Period size: 49 Copynumber: 2.8 Consensus size: 47
1296003 AGGGTACGAT
* * *
1296013 GTCGATGCCATGTTCTAAATATGGACTTACACTGGCTTACCCATCTA-A
1 GTCGATGCCATGTCCCAAATA-GGTCTTACACTGGCTT-CCCATCTAGA
* * *
1296061 GTC-AGTGCCATGTCCCAGATAGGTCTTACACTGG-TTCTCATCTATCGGT
1 GTCGA-TGCCATGTCCCAAATAGGTCTTACACTGGCTTCCCATCTA---GA
*
1296110 GTCGATGCCATGTCCCAAATAGGTCTTACACTAGCTT
1 GTCGATGCCATGTCCCAAATAGGTCTTACACTGGCTT
1296147 GCATATCTCG
Statistics
Matches: 71, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
45 7 0.10
46 2 0.03
47 13 0.18
48 16 0.23
49 30 0.42
50 3 0.04
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.31
Consensus pattern (47 bp):
GTCGATGCCATGTCCCAAATAGGTCTTACACTGGCTTCCCATCTAGA
Found at i:1296184 original size:48 final size:46
Alignment explanation
Indices: 1296118--1296237 Score: 134
Period size: 46 Copynumber: 2.6 Consensus size: 46
1296108 GTGTCGATGC
* * * *
1296118 CATGTCCCAAATAGGTCTTACACTAGCT-TGCATATCTCGAGGCAAATG
1 CATGTCCCAGACATGTCTTACACTAGCTCT-CATA-AT-GAGGCAAATG
* * *
1296166 CATGTCCCAGACATGTCTTACACTGGCTCTCATAATGTGGCCAATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCATAATGAGGCAAATG
*
1296212 CATGTCCTAGACATGTCTTACACTAG
1 CATGTCCCAGACATGTCTTACACTAG
1296238 TACACATATC
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
46 32 0.52
47 1 0.02
48 28 0.45
49 1 0.02
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.28
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCATAATGAGGCAAATG
Found at i:1297799 original size:23 final size:24
Alignment explanation
Indices: 1297722--1297865 Score: 204
Period size: 24 Copynumber: 6.0 Consensus size: 24
1297712 GCTTTATCAT
*
1297722 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
1297747 ATAACTGGGGCA-AAGCCCTTTTTTA
1 ATAACTGGGGCATAAGCCC--TTTTA
*
1297772 ATAACTGGGGCATAAGCCC-ATTA
1 ATAACTGGGGCATAAGCCCTTTTA
1297795 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
1297819 ATAACTAGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
1297843 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
1297866 GCACTTCCTC
Statistics
Matches: 109, Mismatches: 5, Indels: 11
0.87 0.04 0.09
Matches are distributed among these distances:
23 23 0.21
24 55 0.50
25 25 0.23
26 6 0.06
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:1297937 original size:9 final size:9
Alignment explanation
Indices: 1297923--1297979 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
1297913 ATCTCGTGTG
1297923 CATATCATA
1 CATATCATA
*
1297932 CATATCATGTG
1 CATATCA--TA
1297943 CATATCATA
1 CATATCATA
* *
1297952 CATGTCATGTG
1 CATATCA--TA
1297963 CATATCATA
1 CATATCATA
1297972 CATATCAT
1 CATATCAT
1297980 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:1297942 original size:20 final size:20
Alignment explanation
Indices: 1297919--1297981 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
1297909 GAACATCTCG
1297919 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
1297939 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
1297959 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
1297979 TGT
1 TGT
1297982 TTATCAAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.37
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:1298046 original size:25 final size:25
Alignment explanation
Indices: 1298018--1298065 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
1298008 ATATATAAAC
* * *
1298018 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
1298043 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
1298066 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:1299908 original size:20 final size:18
Alignment explanation
Indices: 1299871--1299921 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
1299861 CTATAGCAAC
1299871 TCACAATTT-CAATTATT
1 TCACAATTTACAATTATT
1299888 TCACATATTTACAACTTATT
1 TCACA-ATTTACAA-TTATT
*
1299908 TTACAACTTTACAA
1 TCACAA-TTTACAA
1299922 AATAGCCCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 4 0.14
20 16 0.55
ACGTcount: A:0.37, C:0.20, G:0.00, T:0.43
Consensus pattern (18 bp):
TCACAATTTACAATTATT
Found at i:1303833 original size:40 final size:41
Alignment explanation
Indices: 1303789--1303957 Score: 155
Period size: 41 Copynumber: 4.1 Consensus size: 41
1303779 GATATCTCGT
* * * *
1303789 ACACTAAGTGTCGTACATAGTCGAAACTATCTCAA-ATCAC
1 ACACTAAGTGCCATACATAGCCGAAACTATCTCAATATCGC
* * * * * *
1303829 ACACTAAGTTCTACATATAGCC-AAAGTTATCTCAATTCTCGC
1 ACACTAAGTGCCATACATAGCCGAAA-CTATCTCAA-TATCGC
* * *
1303871 ACACTAAGTGCCATATATAGCCGAAGCTATCTCAATCTCGC
1 ACACTAAGTGCCATACATAGCCGAAACTATCTCAATATCGC
* * *
1303912 ACACTAAGTGCCATATATAGCCGAAGCTATGTCAA-ATCGC
1 ACACTAAGTGCCATACATAGCCGAAACTATCTCAATATCGC
1303952 ACACTA
1 ACACTA
1303958 GGAGCCACAT
Statistics
Matches: 108, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
39 3 0.03
40 33 0.31
41 40 0.37
42 30 0.28
43 2 0.02
ACGTcount: A:0.35, C:0.27, G:0.13, T:0.25
Consensus pattern (41 bp):
ACACTAAGTGCCATACATAGCCGAAACTATCTCAATATCGC
Found at i:1303877 original size:42 final size:41
Alignment explanation
Indices: 1303815--1303971 Score: 174
Period size: 41 Copynumber: 3.9 Consensus size: 41
1303805 ATAGTCGAAA
* * * *
1303815 CTATCTCAA-ATCACACACTAAGTTCTACATATAGCCAAAG
1 CTATCTCAATCTCGCACACTAAGTGCCACATATAGCCAAAG
* * *
1303855 TTATCTCAATTCTCGCACACTAAGTGCCATATATAGCCGAAG
1 CTATCTCAA-TCTCGCACACTAAGTGCCACATATAGCCAAAG
* *
1303897 CTATCTCAATCTCGCACACTAAGTGCCATATATAGCCGAAG
1 CTATCTCAATCTCGCACACTAAGTGCCACATATAGCCAAAG
* * * *
1303938 CTATGTCAA-ATCGCACACTAGGAGCCACATATAG
1 CTATCTCAATCTCGCACACTAAGTGCCACATATAG
1303972 TTCATTTGTC
Statistics
Matches: 102, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
40 29 0.28
41 40 0.39
42 33 0.32
ACGTcount: A:0.34, C:0.27, G:0.13, T:0.25
Consensus pattern (41 bp):
CTATCTCAATCTCGCACACTAAGTGCCACATATAGCCAAAG
Found at i:1303970 original size:40 final size:41
Alignment explanation
Indices: 1303789--1303971 Score: 190
Period size: 40 Copynumber: 4.5 Consensus size: 41
1303779 GATATCTCGT
* * * * * *
1303789 ACACTAAGTGTCGTACATAGTCGAAACTATCTCAA-ATCAC
1 ACACTAAGTGCCATATATAGCCGAAGCTATCTCAATATCGC
* * * * * *
1303829 ACACTAAGTTCTACATATAGCCAAAGTTATCTCAATTCTCGC
1 ACACTAAGTGCCATATATAGCCGAAGCTATCTCAA-TATCGC
*
1303871 ACACTAAGTGCCATATATAGCCGAAGCTATCTCAATCTCGC
1 ACACTAAGTGCCATATATAGCCGAAGCTATCTCAATATCGC
*
1303912 ACACTAAGTGCCATATATAGCCGAAGCTATGTCAA-ATCGC
1 ACACTAAGTGCCATATATAGCCGAAGCTATCTCAATATCGC
* * *
1303952 ACACTAGGAGCCACATATAG
1 ACACTAAGTGCCATATATAG
1303972 TTCATTTGTC
Statistics
Matches: 119, Mismatches: 22, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
40 46 0.39
41 40 0.34
42 33 0.28
ACGTcount: A:0.35, C:0.26, G:0.14, T:0.25
Consensus pattern (41 bp):
ACACTAAGTGCCATATATAGCCGAAGCTATCTCAATATCGC
Found at i:1307131 original size:46 final size:46
Alignment explanation
Indices: 1306956--1307130 Score: 160
Period size: 46 Copynumber: 3.8 Consensus size: 46
1306946 GTCCTAGTGC
* * * *
1306956 AAGACATGTTTAGGACATGCATCGGCCAC-ATTATGAGAGCCACTGT
1 AAGACATGTCTAGGACATGCATCGGCTACGA-GATGAGAGCCAATGT
* * * * *
1307002 AAGACCATGTCTGGGACATGGCATCGG-TATTGAGACGAGAGTCAGTGT
1 AAGA-CATGTCTAGGACAT-GCATCGGCTA-CGAGATGAGAGCCAATGT
* * *
1307050 AAGACATGTCTGGGACATCCATCGGCCT-TGAGATGTA-AGCCAATGT
1 AAGACATGTCTAGGACATGCATCGG-CTACGAGATG-AGAGCCAATGT
1307096 AAGACATGTCTAGGACATGCATCGGCTACGAGATG
1 AAGACATGTCTAGGACATGCATCGGCTACGAGATG
1307131 TGTTTTTTGT
Statistics
Matches: 106, Mismatches: 15, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
45 2 0.02
46 52 0.49
47 28 0.26
48 23 0.22
49 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (46 bp):
AAGACATGTCTAGGACATGCATCGGCTACGAGATGAGAGCCAATGT
Found at i:1311546 original size:40 final size:40
Alignment explanation
Indices: 1311502--1311763 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
1311492 GCTCCTCGTT
* *
1311502 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
1311542 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
1311582 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
1311621 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
1311660 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
1311699 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
1311740 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
1311764 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:1321436 original size:25 final size:25
Alignment explanation
Indices: 1321408--1321552 Score: 69
Period size: 25 Copynumber: 5.8 Consensus size: 25
1321398 GCTTTGCAGG
1321408 TAACTCGCCACAAAGGCTTCCCAGA
1 TAACTCGCCACAAAGGCTTCCCAGA
** * * * *
1321433 TAACCTAACTACTAAGTCTTCCCAAA
1 TAA-CTCGCCACAAAGGCTTCCCAGA
* * * ***
1321459 CAA-TACACCACATAGGCTTTTAAGA
1 TAACT-CGCCACAAAGGCTTCCCAGA
* * *
1321484 TAATTCGCCATAAAGGCTTCCTAGA
1 TAACTCGCCACAAAGGCTTCCCAGA
* * **
1321509 TAACCTAGCCACAAAAGCTT-ATAGA
1 TAA-CTCGCCACAAAGGCTTCCCAGA
*
1321534 TAACTTGCCACAAAGGCTT
1 TAACTCGCCACAAAGGCTT
1321553 GGATTAGCAT
Statistics
Matches: 86, Mismatches: 30, Indels: 9
0.69 0.24 0.07
Matches are distributed among these distances:
24 15 0.17
25 40 0.47
26 31 0.36
ACGTcount: A:0.37, C:0.28, G:0.12, T:0.23
Consensus pattern (25 bp):
TAACTCGCCACAAAGGCTTCCCAGA
Found at i:1321528 original size:26 final size:24
Alignment explanation
Indices: 1321466--1321552 Score: 75
Period size: 25 Copynumber: 3.5 Consensus size: 24
1321456 AAACAATACA
* * * *
1321466 CCACATAGGCTTTTAAGATAATTCG
1 CCACAAAGGCTTAT-AGATAACTAG
* *
1321491 CCATAAAGGCTTCCTAGATAACCTAG
1 CCACAAAGGCTT-ATAGATAA-CTAG
* *
1321517 CCACAAAAGCTTATAGATAACTTG
1 CCACAAAGGCTTATAGATAACTAG
1321541 CCACAAAGGCTT
1 CCACAAAGGCTT
1321553 GGATTAGCAT
Statistics
Matches: 50, Mismatches: 10, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
24 14 0.28
25 23 0.46
26 13 0.26
ACGTcount: A:0.36, C:0.24, G:0.15, T:0.25
Consensus pattern (24 bp):
CCACAAAGGCTTATAGATAACTAG
Found at i:1321545 original size:24 final size:25
Alignment explanation
Indices: 1321505--1321552 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
1321495 AAAGGCTTCC
1321505 TAGATAACCTAGCCACAAAAGCTTA
1 TAGATAACCTAGCCACAAAAGCTTA
* *
1321530 TAGATAA-CTTGCCACAAAGGCTT
1 TAGATAACCTAGCCACAAAAGCTT
1321553 GGATTAGCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 14 0.67
25 7 0.33
ACGTcount: A:0.40, C:0.23, G:0.15, T:0.23
Consensus pattern (25 bp):
TAGATAACCTAGCCACAAAAGCTTA
Found at i:1327598 original size:150 final size:150
Alignment explanation
Indices: 1327327--1327623 Score: 594
Period size: 150 Copynumber: 2.0 Consensus size: 150
1327317 ATTCAACTAG
1327327 CCCTTTTTGCATAAATAGCACAATTTATGAAAGTGATTAACCATCCCCATGGCCAATCCTTGTCA
1 CCCTTTTTGCATAAATAGCACAATTTATGAAAGTGATTAACCATCCCCATGGCCAATCCTTGTCA
1327392 AGCATATCCACACCAAATGATTATAACAATATACTCAAACACATATAAGCCATTTTCGCATGGCT
66 AGCATATCCACACCAAATGATTATAACAATATACTCAAACACATATAAGCCATTTTCGCATGGCT
1327457 ATCCAAAATTTATACAAGTC
131 ATCCAAAATTTATACAAGTC
1327477 CCCTTTTTGCATAAATAGCACAATTTATGAAAGTGATTAACCATCCCCATGGCCAATCCTTGTCA
1 CCCTTTTTGCATAAATAGCACAATTTATGAAAGTGATTAACCATCCCCATGGCCAATCCTTGTCA
1327542 AGCATATCCACACCAAATGATTATAACAATATACTCAAACACATATAAGCCATTTTCGCATGGCT
66 AGCATATCCACACCAAATGATTATAACAATATACTCAAACACATATAAGCCATTTTCGCATGGCT
1327607 ATCCAAAATTTATACAA
131 ATCCAAAATTTATACAA
1327624 CTCCAAAGGG
Statistics
Matches: 147, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
150 147 1.00
ACGTcount: A:0.37, C:0.25, G:0.10, T:0.29
Consensus pattern (150 bp):
CCCTTTTTGCATAAATAGCACAATTTATGAAAGTGATTAACCATCCCCATGGCCAATCCTTGTCA
AGCATATCCACACCAAATGATTATAACAATATACTCAAACACATATAAGCCATTTTCGCATGGCT
ATCCAAAATTTATACAAGTC
Found at i:1328262 original size:39 final size:39
Alignment explanation
Indices: 1328145--1328549 Score: 697
Period size: 39 Copynumber: 10.3 Consensus size: 39
1328135 GCTCCTCGTT
* *
1328145 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAGT-TAGT-ATCTCGCA
* * *
1328185 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAGTTAGTATCTCGCA
*
1328225 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAGTTAGTATCTCGCA
1328264 CAAATGCCTTCGGGCTTAGCCCGGAGTTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAGTTAGTATCTCGCA
1328303 CAAATGCCTTCGGGCTTAGCCCGGAGTTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAGTTAGTATCTCGCA
1328342 CAAATGCCTTCGGGCTTAGCCCGGAGTTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAGTTAGTATCTCGCA
1328381 CAAATGCCTTCGGGCTTAGCCCGGAGTTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAGTTAGTATCTCGCA
1328420 CAAATGCCTTCGGGCTTAGCCCGGAGTTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAGTTAGTATCTCGCA
1328459 CAAATGCCTTCGGGCTTAGCCCGGAGTTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAGTTAGTATCTCGCA
*
1328498 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAGTTAGTATCTCGCA
1328537 CAAATGCCTTCGG
1 CAAATGCCTTCGG
1328550 ATCTTAGTCC
Statistics
Matches: 355, Mismatches: 8, Indels: 5
0.96 0.02 0.01
Matches are distributed among these distances:
39 307 0.86
40 46 0.13
41 2 0.01
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGAGTTAGTATCTCGCA
Found at i:1335178 original size:49 final size:48
Alignment explanation
Indices: 1334832--1335241 Score: 202
Period size: 46 Copynumber: 8.7 Consensus size: 48
1334822 TTTGTGTGCT
* * * *
1334832 AGTGTAAGA-CATGTCTGGGATAT-GCATTGGCCAC-ATT-ATGAGAACC
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCGATTGATGAG--CC
* * * * * **
1334878 CGTGTAAGACCATGCCT-GGACATGGCATCAGCATTGAAACGA-GAGCC
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCG-ATTGATGAGCC
* *
1334925 AGTGTAAGA-CATGTTTGGGACAT-GCATCGGCCTCGA--GATGTAAGCC
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCGATTGATG--AGCC
* * * **
1334971 AGTGTAAGA-CATGTCTGGGACAT-GCATCAG-CTACGA--GATGTGGT
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCCT-CGATTGATGAGCC
* * * * *
1335015 AGTGTAAAACCATGTCTGGGACATGGCATCAGCACAT--ATAGATG-TCTC
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGC-C-TCGATTGATGAGC-C
* * * * *
1335063 AATATAAGACCAT-TCCTAGGACATGGCATCGACAC-AGATATG-TGAGAGCT
1 AGTGTAAGACCATGT-CTAGGACATGGCATCGGC-CTCGAT-TGAT--GAGCC
* *
1335113 AGTGTAAGACCATGTCT-GAGACATGGCGTCGGCCTCGATTTCGAT-AGTC
1 AGTGTAAGACCATGTCTAG-GACATGGCATCGGCCTCGA-TT-GATGAGCC
* * *
1335162 AGTGTAAGACCCTGTCTAGGACATGGCATC-GACTTGATTGATGAGCC
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCGATTGATGAGCC
1335209 AGTGTAAGACCATGTCTAGGACATGGCATCGGC
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGC
1335242 ATTATACCCC
Statistics
Matches: 282, Mismatches: 48, Indels: 66
0.71 0.12 0.17
Matches are distributed among these distances:
43 2 0.01
44 10 0.04
45 17 0.06
46 77 0.27
47 63 0.22
48 41 0.15
49 36 0.13
50 31 0.11
51 4 0.01
52 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCGATTGATGAGCC
Found at i:1340254 original size:42 final size:43
Alignment explanation
Indices: 1340148--1340257 Score: 125
Period size: 44 Copynumber: 2.6 Consensus size: 43
1340138 GGATATGTAT
* * * *
1340148 TTTCGTGTAAGACCATGTCTAGGACGTTCGCATCGACTTATGA
1 TTTCGTGTAAGACCCTGTCTGGGACATTCGCATCGAATTATGA
* * *
1340191 TTTATGTGTAAGACCAC-GTCTGGGACATTGGCATCTAATT-TGA
1 TTT-CGTGTAAGACC-CTGTCTGGGACATTCGCATCGAATTATGA
1340234 TTTCGTGTAAGACCCTGTCTGGGA
1 TTTCGTGTAAGACCCTGTCTGGGA
1340258 TAGTGAAATC
Statistics
Matches: 56, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
41 1 0.02
42 18 0.32
43 9 0.16
44 28 0.50
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.34
Consensus pattern (43 bp):
TTTCGTGTAAGACCCTGTCTGGGACATTCGCATCGAATTATGA
Found at i:1345207 original size:13 final size:13
Alignment explanation
Indices: 1345189--1345213 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1345179 CTCAATGTGA
1345189 TCTGAATTTTGAT
1 TCTGAATTTTGAT
1345202 TCTGAATTTTGA
1 TCTGAATTTTGA
1345214 GTTAGTAATG
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:0.24, C:0.08, G:0.16, T:0.52
Consensus pattern (13 bp):
TCTGAATTTTGAT
Found at i:1347837 original size:44 final size:43
Alignment explanation
Indices: 1347789--1347937 Score: 171
Period size: 43 Copynumber: 3.5 Consensus size: 43
1347779 ATGTGTTTTT
* *
1347789 GTGTAAGACCACGTCTGGGACATTGGCATCGACATATGATTTAC
1 GTGTAAGACCACGTCTGGGACATTGGCATC-ATATTTGATTTAC
*
1347833 GTGTAAGACCACGTCTGGGACATTGGCATCATATTTGATTT-T
1 GTGTAAGACCACGTCTGGGACATTGGCATCATATTTGATTTAC
* *
1347875 GTGTAAGACTCTA--TCTGGGATAGTGGCATCAATATTTGA-TTAC
1 GTGTAAGAC-C-ACGTCTGGGACATTGGCATC-ATATTTGATTTAC
* *
1347918 ATGTAAGACCACGTTTGGGA
1 GTGTAAGACCACGTCTGGGA
1347938 TGTTCACATT
Statistics
Matches: 91, Mismatches: 8, Indels: 13
0.81 0.07 0.12
Matches are distributed among these distances:
41 1 0.01
42 27 0.30
43 32 0.35
44 31 0.34
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.32
Consensus pattern (43 bp):
GTGTAAGACCACGTCTGGGACATTGGCATCATATTTGATTTAC
Found at i:1347924 original size:43 final size:42
Alignment explanation
Indices: 1347802--1347926 Score: 110
Period size: 42 Copynumber: 2.9 Consensus size: 42
1347792 TAAGACCACG
* * * *
1347802 TCTGGGACATTGGCATCGACATATGATTTACGTGTAAGAC-C-A
1 TCTGGGACAGTGGCATC-ATATTTGA-TTACATGTAAGACTCTA
* ***
1347844 CGTCTGGGACATTGGCATCATATTTGATTTTGTGTAAGACTCTA
1 --TCTGGGACAGTGGCATCATATTTGATTACATGTAAGACTCTA
*
1347888 TCTGGGATAGTGGCATCAATATTTGATTACATGTAAGAC
1 TCTGGGACAGTGGCATC-ATATTTGATTACATGTAAGAC
1347927 CACGTTTGGG
Statistics
Matches: 69, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
42 26 0.38
43 25 0.36
44 18 0.26
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.34
Consensus pattern (42 bp):
TCTGGGACAGTGGCATCATATTTGATTACATGTAAGACTCTA
Found at i:1349982 original size:40 final size:40
Alignment explanation
Indices: 1349892--1350111 Score: 205
Period size: 40 Copynumber: 5.5 Consensus size: 40
1349882 ACCCAAGCAT
* * ** * *
1349892 CTTCGGAATTTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * * *
1349930 CTTCAGGTCTTAGCCCGGATATGGTCATTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
1349970 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGG
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
1350010 CTTCGGGTCTTAGCCCGGATATAGTAACTCA-CACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACT-AGCACAAATGC
* * * *
1350050 CTTC-GGATCTTAGTCTGGATATAGTCACTAGCATAAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
1350090 CTTTGGGACTTAGCCCAGATAT
1 CTTCGGGACTTAGCCCGGATAT
1350112 CATTCGAATA
Statistics
Matches: 144, Mismatches: 32, Indels: 10
0.77 0.17 0.05
Matches are distributed among these distances:
38 9 0.06
39 17 0.12
40 114 0.79
41 4 0.03
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.26
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:1356486 original size:93 final size:93
Alignment explanation
Indices: 1356373--1356545 Score: 278
Period size: 93 Copynumber: 1.9 Consensus size: 93
1356363 TGCCCATAAG
* *
1356373 CGAACTCGGACTCAACTCAATGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCAGATTCAACTC
1 CGAACTCGGACTCAACTCAATGAGCTC-GGACATTCGCATCCATAAGTGAACTCAGACTCAACTC
1356437 AACGAGCTT-GGATGCCTAGTTACATCTCA
65 AACGAG-TTCGGATGCCTAGTTACATCTCA
* *
1356466 CGAACTCGGACTCAACTCAATGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAATGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
1356531 ACGAGTTCGGATGCC
66 ACGAGTTCGGATGCC
1356546 CAAATATCCC
Statistics
Matches: 74, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
92 4 0.05
93 70 0.95
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAATGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:1356521 original size:46 final size:46
Alignment explanation
Indices: 1356366--1356541 Score: 157
Period size: 46 Copynumber: 3.8 Consensus size: 46
1356356 TGTAACCTGC
* * *
1356366 CCATAAGCGAACTCGGACTCAACTCAATGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* * * *
1356412 CCATAAGTGAACTCAGATTCAACTCAACGAGCTT-GGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAG-TTCGGA---C-A-TTCGCAT
* *
1356462 -C-TCA-CGAACTCGGACTCAACTCAATGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
1356505 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
1356542 TGCCCAAATA
Statistics
Matches: 102, Mismatches: 16, Indels: 24
0.72 0.11 0.17
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 57 0.56
47 24 0.24
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:1361223 original size:46 final size:46
Alignment explanation
Indices: 1361060--1361235 Score: 173
Period size: 46 Copynumber: 3.8 Consensus size: 46
1361050 TGTAACCCGC
* * *
1361060 CCATAAGCGAACTCGGACTCAATTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
1361106 CCATAAGTGAACT-GAGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCG-GACTCAACTCAACGAGCTCGGA---C-A-TTCGCAT
* * *
1361156 -C-TCA-CGAACTCGGACTCAACTCAATGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
1361199 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
1361236 TGCCCAAATA
Statistics
Matches: 106, Mismatches: 13, Indels: 22
0.75 0.09 0.16
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 3 0.03
46 60 0.57
47 25 0.24
48 3 0.03
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:1361226 original size:93 final size:93
Alignment explanation
Indices: 1361067--1361239 Score: 276
Period size: 93 Copynumber: 1.9 Consensus size: 93
1361057 CGCCCATAAG
* * *
1361067 CGAACTCGGACTCAATTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTGAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTGAGACTCAACTCA
1361132 ACGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
* *
1361160 CGAACTCGGACTCAACTCAATGAGTTCGGACATTCGCATCCATAAGTGAACTCG-GACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACT-GAGACTCAACTC
*
1361224 AACGAGTTCGGATGCC
65 AACGAGCTCGGATGCC
1361240 CAAATATCCC
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
93 72 0.99
94 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTGAGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:1364034 original size:9 final size:9
Alignment explanation
Indices: 1364018--1364051 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
1364008 GATCAAGTAA
1364018 AATTAAATT
1 AATTAAATT
*
1364027 AGTTAAATT
1 AATTAAATT
*
1364036 AATCAAATT
1 AATTAAATT
1364045 AATTAAA
1 AATTAAA
1364052 ATAAATATTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (9 bp):
AATTAAATT
Found at i:1367870 original size:28 final size:28
Alignment explanation
Indices: 1367811--1367872 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 28
1367801 TTACCTAAAC
1367811 CCCCTATATATGGTAAATGACTATTTTT
1 CCCCTATATATGGTAAATGACTATTTTT
1367839 -CCCT-TATATGGTAAGATGACT-TTTTT
1 CCCCTATATATGGTAA-ATGACTATTTTT
1367865 GCCCCTAT
1 -CCCCTAT
1367873 GTGTGTATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
26 15 0.50
27 10 0.33
28 4 0.13
29 1 0.03
ACGTcount: A:0.24, C:0.21, G:0.13, T:0.42
Consensus pattern (28 bp):
CCCCTATATATGGTAAATGACTATTTTT
Found at i:1377000 original size:35 final size:35
Alignment explanation
Indices: 1376961--1377095 Score: 128
Period size: 35 Copynumber: 3.9 Consensus size: 35
1376951 GTATGTACAT
* * *
1376961 ATGTGATGATGTATTGAACTTTTATATTTGGCTAC
1 ATGTGATGATATATTGAACTTGTATATTCGGCTAC
* * * * *
1376996 ATGTGATGTTATATTAAATTTGAATATTCGACTAC
1 ATGTGATGATATATTGAACTTGTATATTCGGCTAC
* * * *
1377031 ATGTGATGTTTTAATGAACTTGTATATTCGG-TCAT
1 ATGTGATGATATATTGAACTTGTATATTCGGCT-AC
* *
1377066 ATATGATGATATATTGTACTTGTATATTCG
1 ATGTGATGATATATTGAACTTGTATATTCG
1377096 ACTATATATG
Statistics
Matches: 79, Mismatches: 20, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
34 1 0.01
35 78 0.99
ACGTcount: A:0.29, C:0.08, G:0.18, T:0.45
Consensus pattern (35 bp):
ATGTGATGATATATTGAACTTGTATATTCGGCTAC
Found at i:1384334 original size:22 final size:22
Alignment explanation
Indices: 1384294--1384335 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
1384284 AGCATTCCAT
*
1384294 AACTCAAGATAATATAAAAAAA
1 AACTCAAGATAAAATAAAAAAA
*
1384316 AACTC-AGATAAAATCAAAAA
1 AACTCAAGATAAAATAAAAAA
1384336 TCATGCTTGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.67, C:0.12, G:0.05, T:0.17
Consensus pattern (22 bp):
AACTCAAGATAAAATAAAAAAA
Found at i:1384449 original size:30 final size:30
Alignment explanation
Indices: 1384415--1384476 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
1384405 TATGGAAAAG
1384415 ATTGAAACATACTTGGAAATTTAAAAATTT
1 ATTGAAACATACTTGGAAATTTAAAAATTT
1384445 ATTGAAACATACTTGGAAATTTAAAAATTT
1 ATTGAAACATACTTGGAAATTTAAAAATTT
1384475 AT
1 AT
1384477 GCAAATATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.47, C:0.06, G:0.10, T:0.37
Consensus pattern (30 bp):
ATTGAAACATACTTGGAAATTTAAAAATTT
Found at i:1388626 original size:59 final size:59
Alignment explanation
Indices: 1388554--1388671 Score: 236
Period size: 59 Copynumber: 2.0 Consensus size: 59
1388544 TATTCATTTA
1388554 ACTTGTTCCATAGAGATCCCTAAGTTATGTTATTATCCCTATTCAAGACTAATAACATC
1 ACTTGTTCCATAGAGATCCCTAAGTTATGTTATTATCCCTATTCAAGACTAATAACATC
1388613 ACTTGTTCCATAGAGATCCCTAAGTTATGTTATTATCCCTATTCAAGACTAATAACATC
1 ACTTGTTCCATAGAGATCCCTAAGTTATGTTATTATCCCTATTCAAGACTAATAACATC
1388672 TAATCCCTAG
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.32, C:0.22, G:0.10, T:0.36
Consensus pattern (59 bp):
ACTTGTTCCATAGAGATCCCTAAGTTATGTTATTATCCCTATTCAAGACTAATAACATC
Found at i:1394800 original size:21 final size:21
Alignment explanation
Indices: 1394766--1394805 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
1394756 TTCACAATCA
* *
1394766 AAAGTCATACATCATCATATC
1 AAAGTCAAACATCAACATATC
*
1394787 AAAGTCAAATATCAACATA
1 AAAGTCAAACATCAACATA
1394806 AGGTCCCTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.50, C:0.20, G:0.05, T:0.25
Consensus pattern (21 bp):
AAAGTCAAACATCAACATATC
Found at i:1396343 original size:27 final size:27
Alignment explanation
Indices: 1396312--1396597 Score: 215
Period size: 27 Copynumber: 10.7 Consensus size: 27
1396302 TTAGAATACT
**
1396312 TTAGTTTACCAAATTACCAAAATACCC
1 TTAGTTTATAAAATTACCAAAATACCC
* *
1396339 TTAGTTTGTAAAATTACTAAAATACCC
1 TTAGTTTATAAAATTACCAAAATACCC
*
1396366 TTGGTTTATAAAATTACCAAAATACCC
1 TTAGTTTATAAAATTACCAAAATACCC
* *
1396393 CTAGTTTGTAAAATTACCAAAATACCC
1 TTAGTTTATAAAATTACCAAAATACCC
* * **
1396420 CTAGTTTGTAAAATTACTGAAATACCC
1 TTAGTTTATAAAATTACCAAAATACCC
* * **
1396447 CT-GATTTGTAAAATTACTGAAATACTCC
1 TTAG-TTTATAAAATTACCAAAATAC-CC
* *
1396475 TGA-TTTACAAAATTACCAAAATACCTC
1 TTAGTTTATAAAATTACCAAAATACC-C
* * **
1396502 TGA-TTTGTAAAATTACTGAAATACCC
1 TTAGTTTATAAAATTACCAAAATACCC
* * *
1396528 TGA-TTTGTAAAATTACTAAAATA-CC
1 TTAGTTTATAAAATTACCAAAATACCC
* * * *
1396553 TTCGACTTATACAATTACCAAAGTACCC
1 TTAG-TTTATAAAATTACCAAAATACCC
* * *
1396581 -CAATTTACAAAATTACC
1 TTAGTTTATAAAATTACC
1396598 GTTTTACCCT
Statistics
Matches: 216, Mismatches: 36, Indels: 15
0.81 0.13 0.06
Matches are distributed among these distances:
25 3 0.01
26 36 0.17
27 173 0.80
28 4 0.02
ACGTcount: A:0.40, C:0.20, G:0.07, T:0.33
Consensus pattern (27 bp):
TTAGTTTATAAAATTACCAAAATACCC
Found at i:1396387 original size:54 final size:53
Alignment explanation
Indices: 1396322--1396552 Score: 279
Period size: 54 Copynumber: 4.3 Consensus size: 53
1396312 TTAGTTTACC
* *
1396322 AAATTACCAAAATACCCTTAGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCC-TGATTTATA
* *
1396376 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCT-AGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATA-CCCTGA-TTTATA
** * *
1396430 AAATTACTGAAATACCCCT-GATTTGTAAAATTACTGAAATACTCCTGATTTACA
1 AAATTACCAAAATACCCCTAG-TTTGTAAAATTACTAAAATAC-CCTGATTTATA
* * *
1396484 AAATTACCAAAATACCTCT-GATTTGTAAAATTACTGAAATACCCTGATTTGTA
1 AAATTACCAAAATACCCCTAG-TTTGTAAAATTACTAAAATACCCTGATTTATA
*
1396537 AAATTACTAAAATACC
1 AAATTACCAAAATACC
1396553 TTCGACTTAT
Statistics
Matches: 156, Mismatches: 16, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
53 26 0.17
54 126 0.81
55 4 0.03
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (53 bp):
AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTGATTTATA
Found at i:1396459 original size:81 final size:81
Alignment explanation
Indices: 1396316--1396552 Score: 327
Period size: 81 Copynumber: 2.9 Consensus size: 81
1396306 AATACTTTAG
* * * * * *
1396316 TTTACCAAATTACCAAAATACCCTTAGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAATT
1 TTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTGAAATACCCCTGATTTGTAAAATT
*
1396381 ACCAAAATACCCCT-A
66 ACTAAAATACCCCTGA
**
1396396 GTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTGAAATACCCCTGATTTGTAAAAT
1 -TTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTGAAATACCCCTGATTTGTAAAAT
* *
1396461 TACTGAAATACTCCTGA
65 TACTAAAATACCCCTGA
*
1396478 TTTACAAAATTACCAAAATACCTCT-GATTTGTAAAATTACTGAAATA-CCCTGATTTGTAAAAT
1 TTTACAAAATTACCAAAATACCCCTAG-TTTGTAAAATTACTGAAATACCCCTGATTTGTAAAAT
1396541 TACTAAAATACC
65 TACTAAAATACC
1396553 TTCGACTTAT
Statistics
Matches: 138, Mismatches: 16, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
80 27 0.20
81 110 0.80
82 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.33
Consensus pattern (81 bp):
TTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTGAAATACCCCTGATTTGTAAAATT
ACTAAAATACCCCTGA
Found at i:1396633 original size:27 final size:27
Alignment explanation
Indices: 1396322--1396634 Score: 203
Period size: 27 Copynumber: 11.7 Consensus size: 27
1396312 TTAGTTTACC
* * *
1396322 AAATTACCAAAATACCCT-TAGTTTGTA
1 AAATTACCGAAATACCCTCGA-TTTATA
** * *
1396349 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCGAAATACCCTCGATTTATA
* * *
1396376 AAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACCGAAATACCCTCGA-TTTATA
* * *
1396403 AAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACCGAAATACCCTCGA-TTTATA
* *
1396430 AAATTACTGAAATACCC-CTGATTTGTA
1 AAATTACCGAAATACCCTC-GATTTATA
* *
1396457 AAATTACTGAAATACTCCT-GATTTACA
1 AAATTACCGAAATAC-CCTCGATTTATA
* *
1396484 AAATTACCAAAATA-CCTCTGATTTGTA
1 AAATTACCGAAATACCCTC-GATTTATA
* *
1396511 AAATTACTGAAATACCCT-GATTTGTA
1 AAATTACCGAAATACCCTCGATTTATA
** * *
1396537 AAATTACTAAAATACCTTCGACTTATA
1 AAATTACCGAAATACCCTCGATTTATA
* * *
1396564 CAATTACC-AAAGTACCC-CAATTTACA
1 AAATTACCGAAA-TACCCTCGATTTATA
*** *
1396590 AAATTACCGTTTTACCCTCGATTTACA
1 AAATTACCGAAATACCCTCGATTTATA
*
1396617 AAATTACCGAAACACCCT
1 AAATTACCGAAATACCCT
1396635 TATAAGGTAG
Statistics
Matches: 235, Mismatches: 39, Indels: 24
0.79 0.13 0.08
Matches are distributed among these distances:
25 3 0.01
26 45 0.19
27 181 0.77
28 6 0.03
ACGTcount: A:0.40, C:0.21, G:0.07, T:0.32
Consensus pattern (27 bp):
AAATTACCGAAATACCCTCGATTTATA
Found at i:1396648 original size:27 final size:27
Alignment explanation
Indices: 1396618--1396759 Score: 126
Period size: 27 Copynumber: 5.3 Consensus size: 27
1396608 CGATTTACAA
* *
1396618 AATTACCGAAACACCCTTATAAGG-TAG
1 AATTACCGAAATACCCTTGT-AGGATAG
*
1396645 AATTACTGAAATATCCC-TGTAGGATAG
1 AATTACCGAAATA-CCCTTGTAGGATAG
* *
1396672 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGATAG
* * * *
1396699 AAATACCAAAATACCCCTGTAGGCTAG
1 AATTACCGAAATACCCTTGTAGGATAG
* * * * *
1396726 AATTACCGAGATACCTTTGTGGGGTAA
1 AATTACCGAAATACCCTTGTAGGATAG
1396753 AATTACC
1 AATTACC
1396760 ATTTTGCCCT
Statistics
Matches: 93, Mismatches: 19, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
26 6 0.06
27 84 0.90
28 3 0.03
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGATAG
Found at i:1396740 original size:54 final size:54
Alignment explanation
Indices: 1396618--1396760 Score: 162
Period size: 54 Copynumber: 2.6 Consensus size: 54
1396608 CGATTTACAA
* * * * ** *
1396618 AATTACCGAAACACCCTTATAAGGTAGAATTACTGAAATATCCCTGTAGGATAG
1 AATTACCGAAATACCCTTGTAGGGTAGAAATACCAAAATACCCCTGTAGGATAG
* *
1396672 AATTATCGAAATACCCTTGTAGGGTAGAAATACCAAAATACCCCTGTAGGCTAG
1 AATTACCGAAATACCCTTGTAGGGTAGAAATACCAAAATACCCCTGTAGGATAG
* * *
1396726 AATTACCGAGATACCTTTGTGGGGTA-AAATTACCA
1 AATTACCGAAATACCCTTGTAGGGTAGAAA-TACCA
1396761 TTTTGCCCTT
Statistics
Matches: 75, Mismatches: 13, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
53 3 0.04
54 72 0.96
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (54 bp):
AATTACCGAAATACCCTTGTAGGGTAGAAATACCAAAATACCCCTGTAGGATAG
Found at i:1397700 original size:6 final size:6
Alignment explanation
Indices: 1397661--1397785 Score: 69
Period size: 6 Copynumber: 20.3 Consensus size: 6
1397651 TTGCATTCAC
* * * * *
1397661 ATTCTA ATTCTA ATTCT- ATTACCTG ATACTG ATTCTG ATTCTG -TCACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG
* * *
1397711 ATTCTG ATTCTG ATTTTG ATTCTG ATTCTG -TCACCTG TTTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
* *
1397760 ATTCTC ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG A-TTCTG AT
1397786 AATGTTTCTT
Statistics
Matches: 93, Mismatches: 15, Indels: 22
0.72 0.12 0.17
Matches are distributed among these distances:
5 6 0.06
6 75 0.81
7 8 0.09
8 4 0.04
ACGTcount: A:0.20, C:0.19, G:0.12, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:1397701 original size:25 final size:25
Alignment explanation
Indices: 1397667--1397725 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 25
1397657 TCACATTCTA
* * *
1397667 ATTCTAATTCTATTACCTGATACTG
1 ATTCTGATTCTATCACCTAATACTG
* *
1397692 ATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTATCACCTAATACTG
1397717 ATTCTGATT
1 ATTCTGATT
1397726 TTGATTCTGA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.24, C:0.20, G:0.10, T:0.46
Consensus pattern (25 bp):
ATTCTGATTCTATCACCTAATACTG
Found at i:1397714 original size:19 final size:19
Alignment explanation
Indices: 1397689--1397759 Score: 83
Period size: 19 Copynumber: 3.8 Consensus size: 19
1397679 TTACCTGATA
1397689 CTGATTCTGATTCTGTCAC
1 CTGATTCTGATTCTGTCAC
* *
1397708 CTAATTCTGATTCTG--ATT
1 CTGATTCTGATTCTGTCA-C
*
1397726 TTGATTCTGATTCTGTCAC
1 CTGATTCTGATTCTGTCAC
*
1397745 CTGTTTCTGATTCTG
1 CTGATTCTGATTCTG
1397760 ATTCTCATTT
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
17 1 0.02
18 13 0.31
19 27 0.64
20 1 0.02
ACGTcount: A:0.15, C:0.21, G:0.15, T:0.48
Consensus pattern (19 bp):
CTGATTCTGATTCTGTCAC
Found at i:1397724 original size:37 final size:37
Alignment explanation
Indices: 1397670--1397776 Score: 135
Period size: 37 Copynumber: 2.9 Consensus size: 37
1397660 CATTCTAATT
*
1397670 CTAATTCT-ATTACCTGATACTGATTCTGATTCTGTCAC
1 CTAATTCTGATT--CTGATTCTGATTCTGATTCTGTCAC
*
1397708 CTAATTCTGATTCTGATTTTGATTCTGATTCTGTCAC
1 CTAATTCTGATTCTGATTCTGATTCTGATTCTGTCAC
** * *
1397745 CTGTTTCTGATTCTGATTCTCATTTTGATTCT
1 CTAATTCTGATTCTGATTCTGATTCTGATTCT
1397777 AGTTCTGATA
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
37 50 0.82
38 8 0.13
39 3 0.05
ACGTcount: A:0.19, C:0.21, G:0.12, T:0.49
Consensus pattern (37 bp):
CTAATTCTGATTCTGATTCTGATTCTGATTCTGTCAC
Found at i:1399329 original size:43 final size:43
Alignment explanation
Indices: 1399157--1399329 Score: 140
Period size: 43 Copynumber: 4.0 Consensus size: 43
1399147 AGTTCGTACA
* * * *
1399157 ATGCCAACGTCCGAGACGTAGTCTTACATGTAATCAAATATCA
1 ATGCCAACGTCCCAGACGTAGTCTTACACGAAATCAAATATCG
*
1399200 ATGCC-ACTGTCCCAGACAG-AGTCTTACACGAAATCAAACAT-G
1 ATGCCAAC-GTCCCAGAC-GTAGTCTTACACGAAATCAAATATCG
* * * * * *
1399242 ATGTCGATGTACCAGACAT-GATCTTACACGTAAATCTCAA-ATCG
1 ATGCCAACGTCCCAGACGTAG-TCTTACACG-AAATC-AAATATCG
* * *
1399286 ATGCCAACGTCCCAGACGTGGTCCTACATGAAATCAAATATCG
1 ATGCCAACGTCCCAGACGTAGTCTTACACGAAATCAAATATCG
1399329 A
1 A
1399330 AATCCTATGT
Statistics
Matches: 102, Mismatches: 18, Indels: 20
0.73 0.13 0.14
Matches are distributed among these distances:
41 1 0.01
42 25 0.25
43 50 0.49
44 25 0.25
45 1 0.01
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.23
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTAGTCTTACACGAAATCAAATATCG
Found at i:1407914 original size:43 final size:43
Alignment explanation
Indices: 1407794--1407950 Score: 178
Period size: 43 Copynumber: 3.7 Consensus size: 43
1407784 TGTGTTCTCG
* *
1407794 TGTAAGACCACGTTTGGGATGTTGGCATCGACT-TATGATTTACA
1 TGTAAGACCACGTCTGGGATGTTGGCATCGA-TATTTGATTT-CA
* * * *
1407838 TGTAAGACCATGTCTGAGACGTTGGCAT-TATATTTGATTTCA
1 TGTAAGACCACGTCTGGGATGTTGGCATCGATATTTGATTTCA
*
1407880 TGTAAGACC-CTGTCTGGGATAG-TGGCATCGATATTTGATTACA
1 TGTAAGACCAC-GTCTGGGAT-GTTGGCATCGATATTTGATTTCA
*
1407923 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGATGTTGGCAT
1407951 TGTACGAGCT
Statistics
Matches: 95, Mismatches: 12, Indels: 13
0.79 0.10 0.11
Matches are distributed among these distances:
42 26 0.27
43 44 0.46
44 25 0.26
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGATGTTGGCATCGATATTTGATTTCA
Found at i:1407948 original size:85 final size:86
Alignment explanation
Indices: 1407794--1407951 Score: 225
Period size: 85 Copynumber: 1.8 Consensus size: 86
1407784 TGTGTTCTCG
* *
1407794 TGTAAGACCACGTTTGGGATGTTGGCATCGACTTATGATTTACATGTAAGACCATGTCTGAGACG
1 TGTAAGACCACGTCTGGGATGTTGGCATCGACTTATGATTTACATGTAAGACCACGTCTGAGACG
1407859 TTGGCATTATATTTGATTTCA
66 TTGGCATTATATTTGATTTCA
* *
1407880 TGTAAGACC-CTGTCTGGGATAG-TGGCATCGA-TATTTGA-TTACATGTAAGACCACGTCTGGG
1 TGTAAGACCAC-GTCTGGGAT-GTTGGCATCGACT-TATGATTTACATGTAAGACCACGTCTGAG
1407941 ACGTTGGCATT
63 ACGTTGGCATT
1407952 GTACGAGCTT
Statistics
Matches: 65, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
85 34 0.52
86 30 0.46
87 1 0.02
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (86 bp):
TGTAAGACCACGTCTGGGATGTTGGCATCGACTTATGATTTACATGTAAGACCACGTCTGAGACG
TTGGCATTATATTTGATTTCA
Found at i:1410907 original size:48 final size:48
Alignment explanation
Indices: 1410832--1411048 Score: 235
Period size: 48 Copynumber: 4.5 Consensus size: 48
1410822 AAAGTACAAA
* * * * *
1410832 GCCATGTCCCCGACATGGTCTTGCATGAATCCACATACCATCACCGAT
1 GCCATGTCCCAGACATGGTCTTACATGAATCCACATATCATCGCTGAT
*
1410880 GCCATGTCCCCGACATGGTCTTACATGAATCCACATATCATCGCTGAT
1 GCCATGTCCCAGACATGGTCTTACATGAATCCACATATCATCGCTGAT
* * *
1410928 GCCATGTCCCAGACATGGTCTTACA-CAAGCACATATATCATCGCTGAT
1 GCCATGTCCCAGACATGGTCTTACATGAATC-CACATATCATCGCTGAT
* * **
1410976 GCCATGTCCCAGACATGGTTTTACA--CAGGCACATATACCATCG-TCGAT
1 GCCATGTCCCAGACATGGTCTTACATGAATCCACATAT--CATCGCT-GAT
* *
1411024 GTCATGTCCCAAACATGGTCTTACA
1 GCCATGTCCCAGACATGGTCTTACA
1411049 CAGGCACATT
Statistics
Matches: 150, Mismatches: 15, Indels: 8
0.87 0.09 0.05
Matches are distributed among these distances:
46 6 0.04
47 6 0.04
48 138 0.92
ACGTcount: A:0.27, C:0.31, G:0.17, T:0.25
Consensus pattern (48 bp):
GCCATGTCCCAGACATGGTCTTACATGAATCCACATATCATCGCTGAT
Found at i:1411049 original size:48 final size:48
Alignment explanation
Indices: 1410866--1411057 Score: 237
Period size: 48 Copynumber: 4.0 Consensus size: 48
1410856 ATGAATCCAC
* * * * **
1410866 ATACCATCACCGATGCCATGTCCCCGACATGGTCTTACATGAATCCACAT
1 ATACCATCGCTGATGCCATGTCCCAGACATGGTCTTACA--CAGGCACAT
*
1410916 AT--CATCGCTGATGCCATGTCCCAGACATGGTCTTACACAAGCACAT
1 ATACCATCGCTGATGCCATGTCCCAGACATGGTCTTACACAGGCACAT
* *
1410962 ATATCATCGCTGATGCCATGTCCCAGACATGGTTTTACACAGGCACAT
1 ATACCATCGCTGATGCCATGTCCCAGACATGGTCTTACACAGGCACAT
* *
1411010 ATACCATCG-TCGATGTCATGTCCCAAACATGGTCTTACACAGGCACAT
1 ATACCATCGCT-GATGCCATGTCCCAGACATGGTCTTACACAGGCACAT
1411058 TTAGCACGGT
Statistics
Matches: 127, Mismatches: 12, Indels: 8
0.86 0.08 0.05
Matches are distributed among these distances:
46 8 0.06
47 1 0.01
48 116 0.91
50 2 0.02
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.25
Consensus pattern (48 bp):
ATACCATCGCTGATGCCATGTCCCAGACATGGTCTTACACAGGCACAT
Found at i:1423051 original size:22 final size:22
Alignment explanation
Indices: 1423023--1423079 Score: 96
Period size: 22 Copynumber: 2.6 Consensus size: 22
1423013 TACTAGGCTC
1423023 ACACGCCCGTGTGGTCCGAGGG
1 ACACGCCCGTGTGGTCCGAGGG
*
1423045 ACACGCCCGTGTGGTTCGAGGG
1 ACACGCCCGTGTGGTCCGAGGG
*
1423067 ACACACCCGTGTG
1 ACACGCCCGTGTG
1423080 ACCCTAAGAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.16, C:0.32, G:0.37, T:0.16
Consensus pattern (22 bp):
ACACGCCCGTGTGGTCCGAGGG
Found at i:1425393 original size:50 final size:48
Alignment explanation
Indices: 1425274--1425689 Score: 266
Period size: 49 Copynumber: 8.7 Consensus size: 48
1425264 GGTAAAGTGC
* *
1425274 CGATGCCATGTCTCAGACATGGTCTTACATTGGCTATCATCTTCGAGG
1 CGATGCCATGTCTCAGACATGGTCTTACACTAGCTATCATCTTCGAGG
* * *
1425322 CTGATGCCATGTC-CTAAACATGGTCTTACACTAGCTCTCA-CATAATC-ATGT
1 C-GATGCCATGTCTC-AGACATGGTCTTACACTAGCTATCATC-T--TCGA-GG
* *
1425373 CGATGCCATGTCTCAGACATGGTCTTACATTGGCTATCATCTTCGAGG
1 CGATGCCATGTCTCAGACATGGTCTTACACTAGCTATCATCTTCGAGG
* * *
1425421 CTGATGCCATGTC-CTAAACATGGTCTTACACTAGCTCTCA-CATAATC-ATGT
1 C-GATGCCATGTCTC-AGACATGGTCTTACACTAGCTATCATC-T--TCGA-GG
*
1425472 CGATGCCATGTCTCAGACATGGTCTTACACT-GAC-A-CATC-TCGTAGC
1 CGATGCCATGTCTCAGACATGGTCTTACACTAG-CTATCATCTTCG-AGG
* * * * *
1425518 CGATG-CATGTCCCAG-CAT-GTCTTATACTGGCT-TACGTC-CCGAGG
1 CGATGCCATGTCTCAGACATGGTCTTACACTAGCTAT-CATCTTCGAGG
* * * *
1425562 CTGATG-CATGTCTTAGACAT-GTCTTACACTAGC-ACTCGTC-TCAATGC
1 C-GATGCCATGTCTCAGACATGGTCTTACACTAGCTA-TCATCTTCGA-GG
* ** *
1425609 CGATGCCATGTC-CTAGACATGGTCTTACACTAGCTCTCATAAT-GTGG
1 CGATGCCATGTCTC-AGACATGGTCTTACACTAGCTATCATCTTCGAGG
*
1425656 CCGATG-CATGTCCCAGACAT-GTCTTACACTAGCT
1 -CGATGCCATGTCTCAGACATGGTCTTACACTAGCT
1425690 CACACAAATG
Statistics
Matches: 295, Mismatches: 37, Indels: 74
0.73 0.09 0.18
Matches are distributed among these distances:
43 10 0.03
44 7 0.02
45 28 0.09
46 44 0.15
47 29 0.10
48 33 0.11
49 70 0.24
50 63 0.21
51 11 0.04
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (48 bp):
CGATGCCATGTCTCAGACATGGTCTTACACTAGCTATCATCTTCGAGG
Found at i:1425445 original size:99 final size:99
Alignment explanation
Indices: 1425274--1425500 Score: 454
Period size: 99 Copynumber: 2.3 Consensus size: 99
1425264 GGTAAAGTGC
1425274 CGATGCCATGTCTCAGACATGGTCTTACATTGGCTATCATCTTCGAGGCTGATGCCATGTCCTAA
1 CGATGCCATGTCTCAGACATGGTCTTACATTGGCTATCATCTTCGAGGCTGATGCCATGTCCTAA
1425339 ACATGGTCTTACACTAGCTCTCACATAATCATGT
66 ACATGGTCTTACACTAGCTCTCACATAATCATGT
1425373 CGATGCCATGTCTCAGACATGGTCTTACATTGGCTATCATCTTCGAGGCTGATGCCATGTCCTAA
1 CGATGCCATGTCTCAGACATGGTCTTACATTGGCTATCATCTTCGAGGCTGATGCCATGTCCTAA
1425438 ACATGGTCTTACACTAGCTCTCACATAATCATGT
66 ACATGGTCTTACACTAGCTCTCACATAATCATGT
1425472 CGATGCCATGTCTCAGACATGGTCTTACA
1 CGATGCCATGTCTCAGACATGGTCTTACA
1425501 CTGACACATC
Statistics
Matches: 128, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
99 128 1.00
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (99 bp):
CGATGCCATGTCTCAGACATGGTCTTACATTGGCTATCATCTTCGAGGCTGATGCCATGTCCTAA
ACATGGTCTTACACTAGCTCTCACATAATCATGT
Found at i:1425593 original size:139 final size:142
Alignment explanation
Indices: 1425324--1425681 Score: 367
Period size: 139 Copynumber: 2.5 Consensus size: 142
1425314 CTTCGAGGCT
* * * * *
1425324 GATGCCATGTCCTAAACATGGTCTTACACTAGCTCTCACATAAT-CATGTCGATGCCATGTCTCA
1 GATGCCATGTCCTAGACATGGTCTTACACTAG--CACACATAATGTA-GCCGATG-CATGTCCCA
* * * *
1425388 GACATGGTCTTACATTGGC-TATCATCTTCGAGGCTGATGCCATGTCCTAAACATGGTCTTACAC
62 GACAT-GTCTTATACTGGCTTA-CGTC-CCGAGGCTGATGCCATGTCCTAAACATGGTCTTACAC
* *
1425452 TAGCTCTCACATAATC-ATGTC
124 TAGCACT--CAT-ATCAATGCC
*
1425473 GATGCCATGT-CTCAGACATGGTCTTACACT-G-ACACAT-CTCGTAGCCGATGCATGTCCCAG-
1 GATGCCATGTCCT-AGACATGGTCTTACACTAGCACACATAAT-GTAGCCGATGCATGTCCCAGA
* *
1425533 CATGTCTTATACTGGCTTACGTCCCGAGGCTGATG-CATGTCTTAGACAT-GTCTTACACTAGCA
64 CATGTCTTATACTGGCTTACGTCCCGAGGCTGATGCCATGTCCTAAACATGGTCTTACACTAGCA
* *
1425596 CTCGTCTCAATGCC
129 CTCATATCAATGCC
* * *
1425610 GATGCCATGTCCTAGACATGGTCTTACACTAGCTCTCATAATGTGGCCGATGCATGTCCCAGACA
1 GATGCCATGTCCTAGACATGGTCTTACACTAGCACACATAATGTAGCCGATGCATGTCCCAGACA
1425675 TGTCTTA
66 TGTCTTA
1425682 CACTAGCTCA
Statistics
Matches: 179, Mismatches: 20, Indels: 29
0.79 0.09 0.13
Matches are distributed among these distances:
136 2 0.01
137 33 0.18
138 3 0.02
139 38 0.21
140 22 0.12
141 11 0.06
142 14 0.08
143 5 0.03
144 10 0.06
145 11 0.06
146 1 0.01
148 3 0.02
149 26 0.15
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.30
Consensus pattern (142 bp):
GATGCCATGTCCTAGACATGGTCTTACACTAGCACACATAATGTAGCCGATGCATGTCCCAGACA
TGTCTTATACTGGCTTACGTCCCGAGGCTGATGCCATGTCCTAAACATGGTCTTACACTAGCACT
CATATCAATGCC
Found at i:1425664 original size:94 final size:96
Alignment explanation
Indices: 1425271--1425688 Score: 389
Period size: 99 Copynumber: 4.4 Consensus size: 96
1425261 ATGGGTAAAG
* * * *
1425271 TGCCGATGCCATGTCTCAGACATGGTCTTACATTGGCTA-TCATCTTCGAGGCTGATGCCATGTC
1 TGCCGATGCCATGTCTCAGACATGGTCTTACACTAGC-ACTCATC-TC-ATGCCGATGCCATGTC
1425335 CTAAACATGGTCTTACACTAGCTCTCACATAATCA
63 CTAAACATGGTCTTACACTAGCTCT-ACATAATCA
* * * * *
1425370 TGTCGATGCCATGTCTCAGACATGGTCTTACATTGGCTA-TCATCTTCGAGGCTGATGCCATGTC
1 TGCCGATGCCATGTCTCAGACATGGTCTTACACTAGC-ACTCATC-TC-ATGCCGATGCCATGTC
1425434 CTAAACATGGTCTTACACTAGCTCTCACATAATCA
63 CTAAACATGGTCTTACACTAGCTCT-ACATAATCA
* * *
1425469 TGTCGATGCCATGTCTCAGACATGGTCTTACACT-G-ACACATCTCGTAGCCGATG-CATGTCC-
1 TGCCGATGCCATGTCTCAGACATGGTCTTACACTAGCACTCATCTCAT-GCCGATGCCATGTCCT
* * * * * **
1425530 CAGCAT-GTCTTATACTGGCT-TACGT-CCCGA
65 AAACATGGTCTTACACTAGCTCTACATAATC-A
* * * *
1425560 GGCTGATG-CATGTCTTAGACAT-GTCTTACACTAGCACTCGTCTCAATGCCGATGCCATGTCCT
1 TGCCGATGCCATGTCTCAGACATGGTCTTACACTAGCACTCATCTC-ATGCCGATGCCATGTCCT
* *
1425623 AGACATGGTCTTACACTAGCTCT-CATAAT-G
65 AAACATGGTCTTACACTAGCTCTACATAATCA
*
1425653 TGGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGC
1 T-GCCGATGCCATGTCTCAGACATGGTCTTACACTAGC
1425689 TCACACAAAT
Statistics
Matches: 274, Mismatches: 33, Indels: 29
0.82 0.10 0.09
Matches are distributed among these distances:
89 10 0.04
90 15 0.05
91 23 0.08
92 9 0.03
93 15 0.05
94 49 0.18
95 8 0.03
96 9 0.03
97 4 0.01
98 1 0.00
99 131 0.48
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (96 bp):
TGCCGATGCCATGTCTCAGACATGGTCTTACACTAGCACTCATCTCATGCCGATGCCATGTCCTA
AACATGGTCTTACACTAGCTCTACATAATCA
Found at i:1429239 original size:31 final size:29
Alignment explanation
Indices: 1429199--1429304 Score: 106
Period size: 31 Copynumber: 3.5 Consensus size: 29
1429189 GATATTAAAT
*
1429199 TTAATTTAATACTTATCTAAATAGTATTTTA
1 TTAATTTAATA-TTATCTAGATA-TATTTTA
* * **
1429230 TTAAATTAATATTA-ATATGATATATTAAA
1 TTAATTTAATATTATCTA-GATATATTTTA
1429259 TTTAATTTAATATTTATCTAGATAATATTTTA
1 -TTAATTTAATA-TTATCTAGAT-ATATTTTA
1429291 TTAATTTAATATTA
1 TTAATTTAATATTA
1429305 ATGTGATTAA
Statistics
Matches: 61, Mismatches: 9, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
29 7 0.11
30 19 0.31
31 27 0.44
32 8 0.13
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.52
Consensus pattern (29 bp):
TTAATTTAATATTATCTAGATATATTTTA
Found at i:1429242 original size:61 final size:61
Alignment explanation
Indices: 1429177--1429306 Score: 215
Period size: 61 Copynumber: 2.1 Consensus size: 61
1429167 ATTTATCTAG
*
1429177 ATATTAATATGAGATATTAAATTTAATTTAATACTTATCTAAATAGTATTTTATTAAATTA
1 ATATTAATATGAGATATTAAATTTAATTTAATACTTATCTAAATAATATTTTATTAAATTA
* * * *
1429238 ATATTAATATGATATATTAAATTTAATTTAATATTTATCTAGATAATATTTTATTAATTTA
1 ATATTAATATGAGATATTAAATTTAATTTAATACTTATCTAAATAATATTTTATTAAATTA
1429299 ATATTAAT
1 ATATTAAT
1429307 GTGATTAAAT
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
61 64 1.00
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (61 bp):
ATATTAATATGAGATATTAAATTTAATTTAATACTTATCTAAATAATATTTTATTAAATTA
Found at i:1432104 original size:7 final size:7
Alignment explanation
Indices: 1432092--1432124 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
1432082 AAATATATTT
*
1432092 TTTATAG
1 TTTATAA
1432099 TTTATAA
1 TTTATAA
1432106 TTTATAA
1 TTTATAA
1432113 TTTATAA
1 TTTATAA
1432120 TTTAT
1 TTTAT
1432125 TAATGTATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (7 bp):
TTTATAA
Found at i:1434270 original size:40 final size:40
Alignment explanation
Indices: 1434215--1434295 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
1434205 ATCACTTGAA
1434215 AATTAAAAAAATTATATAAATTTCTAAGTGATGATACAAT
1 AATTAAAAAAATTATATAAATTTCTAAGTGATGATACAAT
*
1434255 AATTAAAAAAATTATATAAATTTCTAAGTGATGATATAAT
1 AATTAAAAAAATTATATAAATTTCTAAGTGATGATACAAT
1434295 A
1 A
1434296 TAATATTAGA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.53, C:0.04, G:0.07, T:0.36
Consensus pattern (40 bp):
AATTAAAAAAATTATATAAATTTCTAAGTGATGATACAAT
Found at i:1434293 original size:20 final size:20
Alignment explanation
Indices: 1434228--1434293 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 20
1434218 TAAAAAAATT
1434228 ATATAAATTTCTAAGTGATG
1 ATATAAATTTCTAAGTGATG
* * * *** *
1434248 ATACAATAATT-AAAAAAATT
1 ATATAA-ATTTCTAAGTGATG
1434268 ATATAAATTTCTAAGTGATG
1 ATATAAATTTCTAAGTGATG
1434288 ATATAA
1 ATATAA
1434294 TATAATATTA
Statistics
Matches: 30, Mismatches: 14, Indels: 4
0.62 0.29 0.08
Matches are distributed among these distances:
19 3 0.10
20 24 0.80
21 3 0.10
ACGTcount: A:0.50, C:0.05, G:0.09, T:0.36
Consensus pattern (20 bp):
ATATAAATTTCTAAGTGATG
Found at i:1434644 original size:12 final size:12
Alignment explanation
Indices: 1434627--1434651 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1434617 ATACGTCTGG
1434627 TTGTCAAGTTCA
1 TTGTCAAGTTCA
1434639 TTGTCAAGTTCA
1 TTGTCAAGTTCA
1434651 T
1 T
1434652 GAAACAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.44
Consensus pattern (12 bp):
TTGTCAAGTTCA
Found at i:1435657 original size:13 final size:14
Alignment explanation
Indices: 1435625--1435654 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
1435615 TAAAGACTAA
*
1435625 TTTATTTTTATTTT
1 TTTAATTTTATTTT
1435639 TTTAATTTTATTTT
1 TTTAATTTTATTTT
1435653 TT
1 TT
1435655 AATAGAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTAATTTTATTTT
Found at i:1444455 original size:43 final size:44
Alignment explanation
Indices: 1444407--1444496 Score: 130
Period size: 43 Copynumber: 2.1 Consensus size: 44
1444397 AACTTTGTTT
* *
1444407 TTAGTTTACC-ACTTAAACTCTGATTAGTGCAGGTTATTTTAA-A
1 TTAGTTT-CCTACTTAAACTCTCATTAATGCAGGTTATTTTAATA
*
1444450 TTAGTTTCCTACTTAAACTCTCATTAATGTAGGTTATTTTAATA
1 TTAGTTTCCTACTTAAACTCTCATTAATGCAGGTTATTTTAATA
1444494 TTA
1 TTA
1444497 TTTGGCCTAC
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
42 2 0.05
43 36 0.86
44 4 0.10
ACGTcount: A:0.30, C:0.13, G:0.11, T:0.46
Consensus pattern (44 bp):
TTAGTTTCCTACTTAAACTCTCATTAATGCAGGTTATTTTAATA
Found at i:1446989 original size:51 final size:51
Alignment explanation
Indices: 1446929--1447030 Score: 195
Period size: 51 Copynumber: 2.0 Consensus size: 51
1446919 GAACAATCGC
*
1446929 TCCCCTAATAGTAATCAGCAAAAAAGGAATTGTTAGATGAAAGATAATTAT
1 TCCCCTAATAGTAATCAACAAAAAAGGAATTGTTAGATGAAAGATAATTAT
1446980 TCCCCTAATAGTAATCAACAAAAAAGGAATTGTTAGATGAAAGATAATTAT
1 TCCCCTAATAGTAATCAACAAAAAAGGAATTGTTAGATGAAAGATAATTAT
1447031 AACAGAGAGA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.46, C:0.12, G:0.15, T:0.27
Consensus pattern (51 bp):
TCCCCTAATAGTAATCAACAAAAAAGGAATTGTTAGATGAAAGATAATTAT
Found at i:1453242 original size:5 final size:5
Alignment explanation
Indices: 1453232--1453256 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
1453222 TTTTTCTTGC
1453232 AATTT AATTT AATTT AATTT AATTT
1 AATTT AATTT AATTT AATTT AATTT
1453257 TTATTATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
AATTT
Found at i:1458789 original size:47 final size:47
Alignment explanation
Indices: 1458718--1459167 Score: 846
Period size: 47 Copynumber: 9.6 Consensus size: 47
1458708 CCCTTCGGGA
* * * * *
1458718 CTTATCATATTTATACACTTTCACATTCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
*
1458765 CCTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1458812 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1458859 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1458906 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1458953 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1459000 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1459047 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1459094 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1459141 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
1459168 TATTCAAATA
Statistics
Matches: 396, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 396 1.00
ACGTcount: A:0.28, C:0.32, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
Found at i:1463011 original size:27 final size:26
Alignment explanation
Indices: 1462963--1463022 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
1462953 GCGAGGCTGC
*
1462963 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
1462990 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
1463016 CAGATAT
1 CAGATAT
1463023 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:1467365 original size:27 final size:26
Alignment explanation
Indices: 1467317--1467376 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
1467307 GCGAGGCTGC
*
1467317 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
1467344 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
1467370 CAGATAT
1 CAGATAT
1467377 ATATATATGT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:1467389 original size:33 final size:32
Alignment explanation
Indices: 1467338--1467401 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
1467328 ACGAAGTCAC
* *
1467338 CAGATACAGATATTGTGGCTAGGCCACCAGAA
1 CAGATACAGATATTGTGGCGAAGCCACCAGAA
* *
1467370 CAGATATATATATATGTGGCGAAGCCACCAGA
1 CAGATACAGATAT-TGTGGCGAAGCCACCAGA
1467402 TTGTAGCGAG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.20
Consensus pattern (32 bp):
CAGATACAGATATTGTGGCGAAGCCACCAGAA
Found at i:1475586 original size:13 final size:13
Alignment explanation
Indices: 1475568--1475592 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1475558 GTAAGTGATT
1475568 TTGATGATTTTTC
1 TTGATGATTTTTC
1475581 TTGATGATTTTT
1 TTGATGATTTTT
1475593 ATACTTTTAA
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:0.16, C:0.04, G:0.16, T:0.64
Consensus pattern (13 bp):
TTGATGATTTTTC
Found at i:1476413 original size:46 final size:48
Alignment explanation
Indices: 1476266--1476773 Score: 328
Period size: 46 Copynumber: 10.8 Consensus size: 48
1476256 TTATTTGTGT
* * * *
1476266 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGACCAC-ATTATGAAA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGA-GATGTAA
* * * * * *
1476312 ACCAGTGTAAGACCATGTCTGGCACATGGCATCGGCATTGAGACG-AGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTA-A
*
1476360 GCTAGTGTAAGA-CATGTTTGGGACAT-GCATCGGCCTCGAGATGTAA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTAA
* *
1476406 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGG-CTACGAGAGGT--
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-CGAGATGTAA
* * ** *
1476450 GTTAGTGTAAGACCATGTCTGGGACATGGCATCGACACGTATAGAGGT--
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-C-TCGAGATGTAA
* * ** * *
1476498 G-TGAGTATAAGACCATGTCTGGGACATGGCATCAGTATGGATATGTGAGA
1 GCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGT-A-A
* * *
1476548 GCTAGTGTAAGA-CATGTTTGGGACAT-GCATCGGCCACGAGAGGT--
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTAA
* * ** * *
1476592 GTTAGTGTAAGACCATGTCTGGGACATGGCATCAGTATGGATATGTGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGT-A-A
* * * *
1476642 GCTAGTGTAAGACCATGTTTGGGACATGGCATTGGCCTCGA-TTTTGATA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGT-A-A
* *
1476691 G-TCAGTGTAAGACCATGT-TCGGGACATGGCATC-GACTTGATGGATG--A
1 GCT-AGTGTAAGACCATGTCT-GGGACATGGCATCGGCCTCGA--GATGTAA
*
1476738 G-TCAGTGTAAGACCATGTCTGGGATATGGCATCGGC
1 GCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGC
1476774 ATTATACCCT
Statistics
Matches: 364, Mismatches: 68, Indels: 58
0.74 0.14 0.12
Matches are distributed among these distances:
44 21 0.06
45 29 0.08
46 85 0.23
47 59 0.16
48 77 0.21
49 48 0.13
50 43 0.12
51 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (48 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTAA
Found at i:1476603 original size:94 final size:97
Alignment explanation
Indices: 1476314--1476773 Score: 417
Period size: 94 Copynumber: 4.9 Consensus size: 97
1476304 TTATGAAAAC
* * * * * *
1476314 CAGTGTAAGACCATGTCTGGCACATGGCATCGGCATTGAGA--CGAGAGCTAGTGTAAGA-CATG
1 CAGTGTAAGACCATGTCTGGGACATGGCATCAGTATGGATATGTGAGAGCTAGTGTAAGACCATG
* * *
1476376 TTTGGGACAT-GCATCGGCCTCGAGATGTAAGC
66 TTTGGGACATGGCATCGGCCACGAGAGGT-AGT
* * * * *
1476408 CAGTGTAAGA-CATGTCTGGGACAT-GCATC-----GGCTACGAGAGGTGTTAGTGTAAGACCAT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCAGTATGGATATGTGA-GAGCTAGTGTAAGACCAT
* *
1476466 GTCTGGGACATGGCATC-GACACGTATAGAGGT-GT
65 GTTTGGGACATGGCATCGGCCACG---AGAGGTAGT
* *
1476500 GAGTATAAGACCATGTCTGGGACATGGCATCAGTATGGATATGTGAGAGCTAGTGTAAGA-CATG
1 CAGTGTAAGACCATGTCTGGGACATGGCATCAGTATGGATATGTGAGAGCTAGTGTAAGACCATG
1476564 TTTGGGACAT-GCATCGGCCACGAGAGGT-GT
66 TTTGGGACATGGCATCGGCCACGAGAGGTAGT
*
1476594 TAGTGTAAGACCATGTCTGGGACATGGCATCAGTATGGATATGTGAGAGCTAGTGTAAGACCATG
1 CAGTGTAAGACCATGTCTGGGACATGGCATCAGTATGGATATGTGAGAGCTAGTGTAAGACCATG
* * ** *
1476659 TTTGGGACATGGCATTGGCCTCGATTTTGATAGT
66 TTTGGGACATGGCATCGGCCACGA--GAGGTAGT
*
1476693 CAGTGTAAGACCATGT-TCGGGACATGGCATC-G-ACTTG--ATG-GATGAG-TCAGTGTAAGAC
1 CAGTGTAAGACCATGTCT-GGGACATGGCATCAGTA-TGGATATGTGA-GAGCT-AGTGTAAGAC
* *
1476751 CATGTCTGGGATATGGCATCGGC
62 CATGTTTGGGACATGGCATCGGC
1476774 ATTATACCCT
Statistics
Matches: 308, Mismatches: 33, Indels: 48
0.79 0.08 0.12
Matches are distributed among these distances:
87 2 0.01
89 2 0.01
90 12 0.04
91 17 0.06
92 19 0.06
93 27 0.09
94 86 0.28
95 17 0.06
96 52 0.17
97 19 0.06
98 18 0.06
99 37 0.12
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.25
Consensus pattern (97 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCAGTATGGATATGTGAGAGCTAGTGTAAGACCATG
TTTGGGACATGGCATCGGCCACGAGAGGTAGT
Found at i:1476709 original size:49 final size:49
Alignment explanation
Indices: 1476595--1476769 Score: 164
Period size: 50 Copynumber: 3.6 Consensus size: 49
1476585 GAGAGGTGTT
* * * *
1476595 AGTGTAAGACCATGTCTGGGACATGGCATCAGTA-TGGATATGTGAGAG-C
1 AGTGTAAGACCATGTCTGGGACATGGCATTAG-ACTCGAT-TTTGATAGTC
* * *
1476644 TAGTGTAAGACCATGTTTGGGACATGGCATTGGCCTCGATTTTGATAGTC
1 -AGTGTAAGACCATGTCTGGGACATGGCATTAGACTCGATTTTGATAGTC
* * *
1476694 AGTGTAAGACCATGT-TCGGGACATGGCA-TCGACTTGA--TGGATGAGTC
1 AGTGTAAGACCATGTCT-GGGACATGGCATTAGACTCGATTTTGAT-AGTC
*
1476741 AGTGTAAGACCATGTCTGGGATATGGCAT
1 AGTGTAAGACCATGTCTGGGACATGGCAT
1476770 CGGCATTATA
Statistics
Matches: 107, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
46 4 0.04
47 29 0.27
48 8 0.07
49 32 0.30
50 34 0.32
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (49 bp):
AGTGTAAGACCATGTCTGGGACATGGCATTAGACTCGATTTTGATAGTC
Found at i:1477669 original size:5 final size:5
Alignment explanation
Indices: 1477659--1477693 Score: 56
Period size: 5 Copynumber: 7.4 Consensus size: 5
1477649 ATGATTAAAG
1477659 TATAA TAT-A -ATAA TATAA TATAA TATAA TATAA TA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TA
1477694 AAGTAATTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 2 0.07
4 2 0.07
5 24 0.86
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TATAA
Found at i:1477737 original size:13 final size:14
Alignment explanation
Indices: 1477702--1477739 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
1477692 TAAAGTAATT
*
1477702 AAATAAAACAAATA
1 AAATAAAAGAAATA
*
1477716 AAATAAAAGAAA-G
1 AAATAAAAGAAATA
1477729 AAATAAAAGAA
1 AAATAAAAGAA
1477740 CAAATGAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.79, C:0.03, G:0.08, T:0.11
Consensus pattern (14 bp):
AAATAAAAGAAATA
Found at i:1479599 original size:20 final size:20
Alignment explanation
Indices: 1479574--1479614 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
1479564 GCCCTATGGC
*
1479574 CATGTCCCAAGCCACACGGG
1 CATGTCCCAAGCAACACGGG
*
1479594 CATGTCCCAGGCAACACGGG
1 CATGTCCCAAGCAACACGGG
1479614 C
1 C
1479615 GTGTGCCCCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.24, C:0.39, G:0.27, T:0.10
Consensus pattern (20 bp):
CATGTCCCAAGCAACACGGG
Found at i:1485892 original size:27 final size:27
Alignment explanation
Indices: 1485868--1486211 Score: 310
Period size: 27 Copynumber: 12.7 Consensus size: 27
1485858 TTAGTTTACC
1485868 AAATTACCAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTTGGTTTATA
* * *
1485895 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTATA
* *
1485922 AAATTACCAAAATACCTTTGGTTTACA
1 AAATTACCAAAATACCCTTGGTTTATA
*
1485949 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTATA
* *
1485976 AAATTACTAAAATACCCTTAGTTTATA
1 AAATTACCAAAATACCCTTGGTTTATA
*
1486003 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTATA
* * *
1486030 AAATTATCAAAATACCCTTAGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTATA
* * * *
1486057 AAATTACCAAAATACCATTGATTTGTG
1 AAATTACCAAAATACCCTTGGTTTATA
** * *** *
1486084 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTACCAAAATACCCTTGGTTTATA
*** * ** *
1486111 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTTGGTTTATA
* *
1486138 AAATTACCAAAGTACCCTTGATTTATA
1 AAATTACCAAAATACCCTTGGTTTATA
* * **** * * *
1486165 GAATTATCGTTTTACCCTCGATTTACA
1 AAATTACCAAAATACCCTTGGTTTATA
*
1486192 AAATTACCGAAATACCCTTG
1 AAATTACCAAAATACCCTTG
1486212 TAGGGTAGAA
Statistics
Matches: 263, Mismatches: 54, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 263 1.00
ACGTcount: A:0.38, C:0.19, G:0.09, T:0.33
Consensus pattern (27 bp):
AAATTACCAAAATACCCTTGGTTTATA
Done.