Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006556.1 Hibiscus syriacus cultivar Beakdansim tig00016028_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 157271
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:3875 original size:3 final size:3
Alignment explanation
Indices: 3867--3907 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
3857 GCTGTTATCA
* * *
3867 TCG TCG TCG TCG TCG TCG TCA CCA TCG TCG TCG TCG TCG TC
1 TCG TCG TCG TCG TCG TCG TCG TCG TCG TCG TCG TCG TCG TC
3908 CTAAGCAGGT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.05, C:0.37, G:0.27, T:0.32
Consensus pattern (3 bp):
TCG
Found at i:4284 original size:18 final size:18
Alignment explanation
Indices: 4246--4285 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
4236 AAAGGCGATG
**
4246 GCGGCATCATATATGGTT
1 GCGGCATCATATATGCCT
4264 GCGGCATCATATATGCCT
1 GCGGCATCATATATGCCT
4282 GCGG
1 GCGG
4286 TGGCTGCTGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.20, C:0.23, G:0.30, T:0.28
Consensus pattern (18 bp):
GCGGCATCATATATGCCT
Found at i:5977 original size:111 final size:111
Alignment explanation
Indices: 5790--6114 Score: 497
Period size: 111 Copynumber: 3.0 Consensus size: 111
5780 ATTACAAAAA
5790 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAA--T---TTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
5850 AATT-AAA--TTAAAATGTTACTGTATCAGCAAAGTGTCGAGATAT
66 AATTAAAACGTTAAAATGTTACTGTATCAGCAAAGTGTCGAGATAT
*
5893 TTAATTCTTAATCTAATAATCATGCATTAAATAAATTAACTAATTATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
* * * *
5958 AATTAAAACGTTAAAATGTTA-TCGTATCAGTAAAATATCGATATAT
66 AATTAAAACGTTAAAATGTTACT-GTATCAGCAAAGTGTCGAGATAT
*
6004 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAAATATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
** *
6069 AATTAAAACGTTAAAATGTTACCATATCAGCAAAGTGTAGAGATAT
66 AATTAAAACGTTAAAATGTTACTGTATCAGCAAAGTGTCGAGATAT
6115 ATGATTTCTA
Statistics
Matches: 198, Mismatches: 14, Indels: 12
0.88 0.06 0.05
Matches are distributed among these distances:
103 55 0.28
105 1 0.01
108 7 0.04
109 3 0.02
110 1 0.01
111 131 0.66
ACGTcount: A:0.46, C:0.10, G:0.07, T:0.38
Consensus pattern (111 bp):
TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
AATTAAAACGTTAAAATGTTACTGTATCAGCAAAGTGTCGAGATAT
Found at i:6993 original size:27 final size:29
Alignment explanation
Indices: 6958--7025 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 29
6948 GATAGTTATT
*
6958 ATTTGATAAATATTTAATAT-ATTTTTA-
1 ATTTGATAAATATTTAATATGATATTTAC
*
6985 TTTTGATAAAAATATTTAATATGATATTTAC
1 ATTTGAT--AAATATTTAATATGATATTTAC
7016 ATTTGATAAA
1 ATTTGATAAA
7026 AATATTTGAT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
27 6 0.18
29 16 0.47
30 6 0.18
31 6 0.18
ACGTcount: A:0.43, C:0.01, G:0.06, T:0.50
Consensus pattern (29 bp):
ATTTGATAAATATTTAATATGATATTTAC
Found at i:6997 original size:29 final size:31
Alignment explanation
Indices: 6958--7032 Score: 104
Period size: 31 Copynumber: 2.5 Consensus size: 31
6948 GATAGTTATT
*
6958 ATTTGAT--AAATATTTAATAT-ATTTTTA-
1 ATTTGATAAAAATATTTAATATGATATTTAC
*
6985 TTTTGATAAAAATATTTAATATGATATTTAC
1 ATTTGATAAAAATATTTAATATGATATTTAC
7016 ATTTGATAAAAATATTT
1 ATTTGATAAAAATATTT
7033 GATGTAACAC
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
27 6 0.15
29 13 0.32
30 6 0.15
31 16 0.39
ACGTcount: A:0.43, C:0.01, G:0.05, T:0.51
Consensus pattern (31 bp):
ATTTGATAAAAATATTTAATATGATATTTAC
Found at i:7073 original size:29 final size:31
Alignment explanation
Indices: 7041--7105 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
7031 TTGATGTAAC
7041 ACTTGTA-TTT-TTAAAATATCTAATAT-GAT
1 ACTTGTACTTTGTTAAAATATCTAATATAG-T
*
7070 ACTTATACTTTGTTAAAATATCTAATATAGT
1 ACTTGTACTTTGTTAAAATATCTAATATAGT
7101 ACTTG
1 ACTTG
7106 AACTATCATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
29 6 0.19
30 3 0.10
31 21 0.68
32 1 0.03
ACGTcount: A:0.37, C:0.09, G:0.08, T:0.46
Consensus pattern (31 bp):
ACTTGTACTTTGTTAAAATATCTAATATAGT
Found at i:8711 original size:29 final size:29
Alignment explanation
Indices: 8668--8777 Score: 195
Period size: 29 Copynumber: 3.8 Consensus size: 29
8658 TTTTATATGT
8668 TCATGTA-CTCATGTCATTTCTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTCTTGTGA
*
8696 TCATGTAGTTCATGTCATTTCTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTCTTGTGA
8725 TCATGTAGCTCATGTCATTTCTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTCTTGTGA
8754 TCATGTAGCTCATGTCATGTTCTC
1 TCATGTAGCTCATGTCAT-TTCTC
8778 ATATCACATA
Statistics
Matches: 78, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
28 7 0.09
29 66 0.85
30 5 0.06
ACGTcount: A:0.17, C:0.21, G:0.16, T:0.45
Consensus pattern (29 bp):
TCATGTAGCTCATGTCATTTCTCTTGTGA
Found at i:9221 original size:64 final size:63
Alignment explanation
Indices: 9148--9304 Score: 167
Period size: 64 Copynumber: 2.5 Consensus size: 63
9138 TAATGAAGGT
* * **
9148 ATGCATCGATGCACTACTTGTGCATCGGTGCA-TAAAGTGCATTCGATG-TTTTATTATTAATGG
1 ATGCATCGATGCACTACTTGTGCATCGATGCACT-AAGTGCATTCGATGCTTATATT-TTAA-AA
9211 G
63 G
* * *
9212 ATGCATCGATGCA-TGCCTTATGCATCGATGCACTAATTGCATTCGATGCTTATATTTTAAAAG
1 ATGCATCGATGCACT-ACTTGTGCATCGATGCACTAAGTGCATTCGATGCTTATATTTTAAAAG
* *
9275 AGTGCATCAATGCACTACCTGTGCATCGAT
1 A-TGCATCGATGCACTACTTGTGCATCGAT
9305 ACACCTTCAA
Statistics
Matches: 77, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
63 3 0.04
64 66 0.86
65 8 0.10
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (63 bp):
ATGCATCGATGCACTACTTGTGCATCGATGCACTAAGTGCATTCGATGCTTATATTTTAAAAG
Found at i:14501 original size:6 final size:6
Alignment explanation
Indices: 14492--14516 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
14482 GGGATGATAA
14492 ACGGGG ACGGGG ACGGGG ACGGGG A
1 ACGGGG ACGGGG ACGGGG ACGGGG A
14517 AAACCCATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.20, C:0.16, G:0.64, T:0.00
Consensus pattern (6 bp):
ACGGGG
Found at i:14616 original size:12 final size:13
Alignment explanation
Indices: 14580--14623 Score: 72
Period size: 13 Copynumber: 3.5 Consensus size: 13
14570 GCCCCGATTA
14580 CCCGATTACCCGC
1 CCCGATTACCCGC
14593 CCCGATTACCCGC
1 CCCGATTACCCGC
*
14606 CCCGA-TACCCGA
1 CCCGATTACCCGC
14618 CCCGAT
1 CCCGAT
14624 AAATATTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
12 11 0.38
13 18 0.62
ACGTcount: A:0.18, C:0.52, G:0.16, T:0.14
Consensus pattern (13 bp):
CCCGATTACCCGC
Found at i:14677 original size:32 final size:33
Alignment explanation
Indices: 14641--14726 Score: 113
Period size: 32 Copynumber: 2.7 Consensus size: 33
14631 AAAAATAATT
*
14641 ATTTATATATATATATA-ATATTAATAAATTTA
1 ATTTAAATATATATATATATATTAATAAATTTA
* * * *
14673 ATTTAAATA-AAAAATATATATTTATATATTTA
1 ATTTAAATATATATATATATATTAATAAATTTA
14705 ATTTAAATATATATATATATAT
1 ATTTAAATATATATATATATAT
14727 ACCCGACCCG
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
31 5 0.11
32 30 0.67
33 10 0.22
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (33 bp):
ATTTAAATATATATATATATATTAATAAATTTA
Found at i:14757 original size:24 final size:24
Alignment explanation
Indices: 14725--14779 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 24
14715 ATATATATAT
* * *
14725 ATACCCGACCCGATTCTCGGCCCA
1 ATACCCGACCCAATACCCGGCCCA
14749 ATACCCGACCCAATACCCGGCCCA
1 ATACCCGACCCAATACCCGGCCCA
14773 ATACCCG
1 ATACCCG
14780 TTTAAATAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.25, C:0.47, G:0.15, T:0.13
Consensus pattern (24 bp):
ATACCCGACCCAATACCCGGCCCA
Found at i:14762 original size:12 final size:12
Alignment explanation
Indices: 14725--14779 Score: 65
Period size: 12 Copynumber: 4.6 Consensus size: 12
14715 ATATATATAT
*
14725 ATACCCGACCCG
1 ATACCCGACCCA
* * *
14737 ATTCTCGGCCCA
1 ATACCCGACCCA
14749 ATACCCGACCCA
1 ATACCCGACCCA
*
14761 ATACCCGGCCCA
1 ATACCCGACCCA
14773 ATACCCG
1 ATACCCG
14780 TTTAAATAAC
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 35 1.00
ACGTcount: A:0.25, C:0.47, G:0.15, T:0.13
Consensus pattern (12 bp):
ATACCCGACCCA
Found at i:16173 original size:29 final size:29
Alignment explanation
Indices: 16130--16239 Score: 177
Period size: 29 Copynumber: 3.8 Consensus size: 29
16120 TTTTATATGT
16130 TCATGTA-CTCATGTCATTTCTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTCTTGTGA
*
16158 TCATGTAGTTCATGTCATTTCTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTCTTGTGA
*
16187 TCATGTAGCTCATGTCATTTCTCTTGGGA
1 TCATGTAGCTCATGTCATTTCTCTTGTGA
*
16216 TCACGTAGCTCATGTCATGTTCTC
1 TCATGTAGCTCATGTCAT-TTCTC
16240 ATATCACATA
Statistics
Matches: 76, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
28 7 0.09
29 64 0.84
30 5 0.07
ACGTcount: A:0.17, C:0.22, G:0.17, T:0.44
Consensus pattern (29 bp):
TCATGTAGCTCATGTCATTTCTCTTGTGA
Found at i:16768 original size:64 final size:64
Alignment explanation
Indices: 16616--16772 Score: 151
Period size: 64 Copynumber: 2.5 Consensus size: 64
16606 TAATGAAGGT
** * * *
16616 ATGCATCGATGCACTATTTGTGCATCGGTGCATAAAATACATTCGATGTTTTATTATTAATGGG
1 ATGCATCGATGCACTACCTGTGCATCGATGCATAAAATACATTCGATGTTTTATTATTAAAGAG
* * * * * *
16680 ATGCATTGATGCA-TGCCTTATGCATCGATGCACT-AATTGCATTTGATGTTTATATT-TTAAA-
1 ATGCATCGATGCACTACC-TGTGCATCGATGCA-TAAAATACATTCGATGTTT-TATTATTAAAG
16741 AG
63 AG
16743 AGTGCATCGATGCACTACCTGTGCATCGAT
1 A-TGCATCGATGCACTACCTGTGCATCGAT
16773 ACACCTTCAA
Statistics
Matches: 74, Mismatches: 14, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
63 3 0.04
64 63 0.85
65 8 0.11
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (64 bp):
ATGCATCGATGCACTACCTGTGCATCGATGCATAAAATACATTCGATGTTTTATTATTAAAGAG
Found at i:18543 original size:16 final size:17
Alignment explanation
Indices: 18510--18548 Score: 62
Period size: 18 Copynumber: 2.3 Consensus size: 17
18500 TAATCATAAA
18510 AATATATTAAATAATTTT
1 AATATATTAAAT-ATTTT
18528 AATATATTAAAT-TTTT
1 AATATATTAAATATTTT
18544 AATAT
1 AATAT
18549 TTTTTATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 9 0.43
18 12 0.57
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
AATATATTAAATATTTT
Found at i:24664 original size:29 final size:29
Alignment explanation
Indices: 24632--24689 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
24622 AACTCAAGTC
*
24632 ACCATTG-CTAATTATTCTTAACTCGAACA
1 ACCATTGTC-AATCATTCTTAACTCGAACA
*
24661 ACCATTGTCAATCATTCTTAACTGGAACA
1 ACCATTGTCAATCATTCTTAACTCGAACA
24690 TTTAAAACTC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 25 0.96
30 1 0.04
ACGTcount: A:0.34, C:0.24, G:0.09, T:0.33
Consensus pattern (29 bp):
ACCATTGTCAATCATTCTTAACTCGAACA
Found at i:25734 original size:13 final size:13
Alignment explanation
Indices: 25718--25778 Score: 77
Period size: 13 Copynumber: 4.7 Consensus size: 13
25708 ACAAAAATAT
25718 TTTTTAAAATCAC
1 TTTTTAAAATCAC
*
25731 TTTTCAAAATCAC
1 TTTTTAAAATCAC
*
25744 TTTTCAAAATCAC
1 TTTTTAAAATCAC
* * *
25757 TTTTTCAAGTTAC
1 TTTTTAAAATCAC
25770 TTTTTAAAA
1 TTTTTAAAA
25779 ATAATGCCTC
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 41 1.00
ACGTcount: A:0.36, C:0.16, G:0.02, T:0.46
Consensus pattern (13 bp):
TTTTTAAAATCAC
Found at i:34679 original size:60 final size:60
Alignment explanation
Indices: 34606--34727 Score: 199
Period size: 60 Copynumber: 2.0 Consensus size: 60
34596 TTTAATAGTC
*
34606 AAGGAACTCTCTATAGTCAAATGACCATTTTGTAACTTTTAATAGTTGAGGGACTCAACA
1 AAGGAACTCTCTATAGTCAAATGACCATTTTGTAACTTTTAACAGTTGAGGGACTCAACA
** * *
34666 AAGGAACTCTCTATAGTCGGATGACCATTTTGTTACTTTTAACAGTTGGGGGACTCAACA
1 AAGGAACTCTCTATAGTCAAATGACCATTTTGTAACTTTTAACAGTTGAGGGACTCAACA
34726 AA
1 AA
34728 ATAATATCCT
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
60 57 1.00
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (60 bp):
AAGGAACTCTCTATAGTCAAATGACCATTTTGTAACTTTTAACAGTTGAGGGACTCAACA
Found at i:34740 original size:60 final size:60
Alignment explanation
Indices: 34613--34744 Score: 176
Period size: 60 Copynumber: 2.2 Consensus size: 60
34603 GTCAAGGAAC
* * *
34613 TCTCTATAGTCAAATGACCATTTTGTAACTTTTAATAGTTGAGGGACTCAACAAAGGAAC
1 TCTCTATAGTCAAATGACCATTTTGTAACTTTTAACAGTTGAGGGACTCAACAAAAGAAA
** * * *
34673 TCTCTATAGTCGGATGACCATTTTGTTACTTTTAACAGTTGGGGGACTCAACAAAATAATA
1 TCTCTATAGTCAAATGACCATTTTGTAACTTTTAACAGTTGAGGGACTCAACAAAAGAA-A
34734 TC-CTATAGTCA
1 TCTCTATAGTCA
34745 GGGGACCATT
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
60 60 0.97
61 2 0.03
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (60 bp):
TCTCTATAGTCAAATGACCATTTTGTAACTTTTAACAGTTGAGGGACTCAACAAAAGAAA
Found at i:34752 original size:60 final size:60
Alignment explanation
Indices: 34613--34760 Score: 165
Period size: 60 Copynumber: 2.5 Consensus size: 60
34603 GTCAAGGAAC
** * * * *
34613 TCTCTATAGTCAAATGACCATTTTGTAACTTTTAATAGTTGAGGGACTCAACAAAGGAAC
1 TCTCTATAGTCGGAGGACCATTTTGTAACTTTTAACAGTTGAGGGACTCAACAAAAGAAA
* * * *
34673 TCTCTATAGTCGGATGACCATTTTGTTACTTTTAACAGTTGGGGGACTCAACAAAATAATA
1 TCTCTATAGTCGGAGGACCATTTTGTAACTTTTAACAGTTGAGGGACTCAACAAAAGAA-A
34734 TC-CTATAGTCAGG-GGACCATTTGTGTA
1 TCTCTATAGTC-GGAGGACCATTT-TGTA
34761 CTCACTTGAT
Statistics
Matches: 75, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
60 68 0.91
61 7 0.09
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (60 bp):
TCTCTATAGTCGGAGGACCATTTTGTAACTTTTAACAGTTGAGGGACTCAACAAAAGAAA
Found at i:35621 original size:6 final size:6
Alignment explanation
Indices: 35595--36949 Score: 2163
Period size: 6 Copynumber: 230.2 Consensus size: 6
35585 TTATTTATAT
35595 TATACA TTATACA T-T-CA TATACA TATACA TATACA TATACA TATACA
1 TATACA -TATACA TATACA TATACA TATACA TATACA TATACA TATACA
35642 TATACA TATACA TATACA TATACA TATACA TATACA TACATACA TATACATA
1 TATACA TATACA TATACA TATACA TATACA TATACA T--ATACA TATAC--A
35694 TATACA TATACA TATACA TATACA -ATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
35741 TATACA TATACA TATAC- -ATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
35787 TATAC- -ATACA TATACA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
35833 TATACA TATACA TATACA TATAC- -ATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
*
35879 CATACA TATACA TATAC- -ATACA TATACA TATACA TATAC- -ATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
35923 TATACA TATACA -ATACA TATACA TATACATA TATACA TATACATA TATACA
1 TATACA TATACA TATACA TATACA TATAC--A TATACA TATAC--A TATACA
35974 TATACA TATACA TATAC- TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
36021 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
36069 TATACA TATAC- -ATACA TATACA TATACA TATACA TATACA TATACATA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATAC--A
36117 TATACA TATACA TATAC- -ATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
36163 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
36211 TATACA TATACA TATACA TATACA TATACA TATACA TATAC- -ATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
36257 TATACA TATACA TATACA TATACA TATAC- -ATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
36303 TATACA TATACA TATAC- -ATACA TA-ACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
36348 TAT-CA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
36395 TATAC- -ATAC- TATACA TATAC- -ATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
36438 TATACA TAT-CA TATACA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
36485 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
36533 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
36581 TATACA TATACA TATACA TAT--A TATACA TATACA TATACA TAATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA T-ATACA
36628 TATACA TATACA TAT--A TATACA TATACA TATACA TAT-CA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
36673 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACATA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATAC--A
36723 TATACA TATACA -ATACA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
36770 TATACA TA-ACA TATACA TATACA TATACA TATAC- -ATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
*
36815 TATACA TATACA TATACA TATACA TATATA TATTACA TATACATA TATACA
1 TATACA TATACA TATACA TATACA TATACA TA-TACA TATAC--A TATACA
*
36866 TATACA TATACATA TATACA TATAC- -ATACA TATATA TATACA TAT--A
1 TATACA TATAC--A TATACA TATACA TATACA TATACA TATACA TATACA
**
36912 TATACA TATACA TATACA TATTTA TAATACA TATACA T
1 TATACA TATACA TATACA TATACA T-ATACA TATACA T
36950 TTATTTCGTA
Statistics
Matches: 1274, Mismatches: 10, Indels: 129
0.90 0.01 0.09
Matches are distributed among these distances:
4 71 0.06
5 51 0.04
6 1083 0.85
7 21 0.02
8 48 0.04
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.34
Consensus pattern (6 bp):
TATACA
Found at i:36976 original size:15 final size:16
Alignment explanation
Indices: 36920--36976 Score: 55
Period size: 15 Copynumber: 3.5 Consensus size: 16
36910 TATATACATA
36920 TACATATACATATTTAT
1 TACATATACAT-TTTAT
36937 AATACATATACA-TTTAT
1 --TACATATACATTTTAT
* *
36954 TTCGTATA-ATTTTAT
1 TACATATACATTTTAT
36969 TACATATA
1 TACATATA
36977 TCTATATACA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
14 1 0.03
15 17 0.52
17 5 0.15
19 10 0.30
ACGTcount: A:0.40, C:0.11, G:0.02, T:0.47
Consensus pattern (16 bp):
TACATATACATTTTAT
Found at i:37089 original size:2 final size:2
Alignment explanation
Indices: 37077--37109 Score: 57
Period size: 2 Copynumber: 16.0 Consensus size: 2
37067 ATTTACATTA
37077 AT AT AT CAT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT
37110 TTCTATATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 28 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:40478 original size:15 final size:17
Alignment explanation
Indices: 40458--40489 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
40448 GGTCCCCGCA
40458 GCATTCC-C-ATGATAT
1 GCATTCCTCAATGATAT
40473 GCATTCCTCAATGATAT
1 GCATTCCTCAATGATAT
40490 TATGTCATGG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.34
Consensus pattern (17 bp):
GCATTCCTCAATGATAT
Found at i:51563 original size:40 final size:40
Alignment explanation
Indices: 51481--51556 Score: 134
Period size: 40 Copynumber: 1.9 Consensus size: 40
51471 ATTAAGGGTA
*
51481 TTTTAGTTTACAACTTGAAATGTTACCAAATGTATAACAT
1 TTTTAGTTTACAACTTGAAATGTTACCAAATATATAACAT
*
51521 TTTTAGTTTACAACTTGAAATGTTATCAAATATATA
1 TTTTAGTTTACAACTTGAAATGTTACCAAATATATA
51557 TTATTTTAGG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.38, C:0.11, G:0.09, T:0.42
Consensus pattern (40 bp):
TTTTAGTTTACAACTTGAAATGTTACCAAATATATAACAT
Found at i:51926 original size:39 final size:38
Alignment explanation
Indices: 51871--51960 Score: 110
Period size: 39 Copynumber: 2.3 Consensus size: 38
51861 AAAGTATACT
* * *
51871 CAACCTAAAATATTATA-GTTTGATAACATTTTCAATTTG
1 CAACCTAAAATATTATACGTTGGA-AACAATTT-AAGTTG
*
51910 CAACCTAAAATGTTATACGGTTGGAAACAATTTAAGTTG
1 CAACCTAAAATATTATAC-GTTGGAAACAATTTAAGTTG
51949 CAACCTAAAATA
1 CAACCTAAAATA
51961 CCATCAATAT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
39 32 0.73
40 7 0.16
41 5 0.11
ACGTcount: A:0.41, C:0.14, G:0.11, T:0.33
Consensus pattern (38 bp):
CAACCTAAAATATTATACGTTGGAAACAATTTAAGTTG
Found at i:57786 original size:22 final size:22
Alignment explanation
Indices: 57736--57786 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
57726 TTTCTATCCA
* *
57736 TTTCAATGTAAAGTCTTTATCT
1 TTTCAACGTAAAGTCTTTAACT
57758 TTATCAACGT-AAGTCTTATAACT
1 TT-TCAACGTAAAGTCTT-TAACT
57781 TTTCAA
1 TTTCAA
57787 ACCTTAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
22 13 0.52
23 12 0.48
ACGTcount: A:0.31, C:0.16, G:0.08, T:0.45
Consensus pattern (22 bp):
TTTCAACGTAAAGTCTTTAACT
Found at i:71583 original size:60 final size:60
Alignment explanation
Indices: 71519--71631 Score: 149
Period size: 60 Copynumber: 1.9 Consensus size: 60
71509 TATGGTTCTT
* * * *
71519 ATTTTAAATT-AGTCTTCAAAGTTTTAAATATTTTAATTCTA-TCCTCAAACTATAAACCTC
1 ATTTTAAATTAATTC-TCAAACTTTTAAACATTATAATTCTATTCCT-AAACTATAAACCTC
*
71579 ATTTTAAATTAATTCTCAAACTTTTAAACATTATAATTTTATTCCTAAACTAT
1 ATTTTAAATTAATTCTCAAACTTTTAAACATTATAATTCTATTCCTAAACTAT
71632 CGGTATATGC
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
60 39 0.85
61 7 0.15
ACGTcount: A:0.38, C:0.15, G:0.02, T:0.45
Consensus pattern (60 bp):
ATTTTAAATTAATTCTCAAACTTTTAAACATTATAATTCTATTCCTAAACTATAAACCTC
Found at i:71848 original size:44 final size:44
Alignment explanation
Indices: 71768--71851 Score: 109
Period size: 44 Copynumber: 1.9 Consensus size: 44
71758 TCCTCAAAAC
* *
71768 CATACTTATAATGGAATTAAGCGGTACTTTGGTTTTTATTGTTG
1 CATACTTATAATGAAATTAAGCGGTACTTTGATTTTTATTGTTG
*
71812 CATACTTATAATGAAATTGAAAG-GTTA-TTTGATTTTTATT
1 CATACTTATAATGAAATT--AAGCGGTACTTTGATTTTTATT
71852 TTTCTTCTCC
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
44 29 0.83
45 3 0.09
46 3 0.09
ACGTcount: A:0.30, C:0.07, G:0.17, T:0.46
Consensus pattern (44 bp):
CATACTTATAATGAAATTAAGCGGTACTTTGATTTTTATTGTTG
Found at i:72732 original size:21 final size:21
Alignment explanation
Indices: 72708--72755 Score: 51
Period size: 23 Copynumber: 2.2 Consensus size: 21
72698 AGAATTTTTA
72708 TCCTTATGACACACTTTTCTC
1 TCCTTATGACACACTTTTCTC
* **
72729 TCCTCTTGTGACACGTTTTTCTC
1 T-C-CTTATGACACACTTTTCTC
72752 TCCT
1 TCCT
72756 ATTGTGACAC
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
21 3 0.14
22 2 0.09
23 17 0.77
ACGTcount: A:0.12, C:0.33, G:0.08, T:0.46
Consensus pattern (21 bp):
TCCTTATGACACACTTTTCTC
Found at i:72740 original size:23 final size:23
Alignment explanation
Indices: 72714--72792 Score: 97
Period size: 23 Copynumber: 3.4 Consensus size: 23
72704 TTTATCCTTA
*
72714 TGACACACTTTTCTCTCCTCTTG
1 TGACACATTTTTCTCTCCTCTTG
* *
72737 TGACACGTTTTTCTCTCCTATTG
1 TGACACATTTTTCTCTCCTCTTG
*
72760 TGACACGTTTTTACTC-CGCTCTTG
1 TGACACATTTTT-CTCTC-CTCTTG
72784 TGACACATT
1 TGACACATT
72793 CCTTATGACT
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
23 33 0.67
24 16 0.33
ACGTcount: A:0.15, C:0.29, G:0.13, T:0.43
Consensus pattern (23 bp):
TGACACATTTTTCTCTCCTCTTG
Found at i:72784 original size:24 final size:23
Alignment explanation
Indices: 72722--72789 Score: 102
Period size: 23 Copynumber: 2.9 Consensus size: 23
72712 TATGACACAC
72722 TTTTCTCTCCTCTTGTGACACGT
1 TTTTCTCTCCTCTTGTGACACGT
*
72745 TTTTCTCTCCTATTGTGACACGT
1 TTTTCTCTCCTCTTGTGACACGT
72768 TTTTACTC-CGCTCTTGTGACAC
1 TTTT-CTCTC-CTCTTGTGACAC
72790 ATTCCTTATG
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
23 27 0.66
24 14 0.34
ACGTcount: A:0.12, C:0.29, G:0.13, T:0.46
Consensus pattern (23 bp):
TTTTCTCTCCTCTTGTGACACGT
Found at i:73855 original size:13 final size:13
Alignment explanation
Indices: 73837--73862 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
73827 TATTAAAAAT
73837 TACAAAATGGTCA
1 TACAAAATGGTCA
73850 TACAAAATGGTCA
1 TACAAAATGGTCA
73863 CCCAACTATT
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:0.15, T:0.23
Consensus pattern (13 bp):
TACAAAATGGTCA
Found at i:74663 original size:21 final size:21
Alignment explanation
Indices: 74637--74690 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
74627 GCGTTGCATT
74637 TCGCGTTGCGATAATTGAAAA
1 TCGCGTTGCGATAATTGAAAA
*
74658 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAATTGAAAA
74679 TCGCGTTGCGAT
1 TCGCGTTGCGAT
74691 TTTCCATTTC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (21 bp):
TCGCGTTGCGATAATTGAAAA
Found at i:74704 original size:20 final size:20
Alignment explanation
Indices: 74679--74866 Score: 130
Period size: 20 Copynumber: 9.6 Consensus size: 20
74669 TAGTTGAAAA
*
74679 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCAGT
74699 TCGCGTTGCGATTTTCCAGT
1 TCGCGTTGCGATTTTCCAGT
* *
74719 TCGCGTTGCGATAGTCTACAGT
1 TCGCGTTGCGAT--TTTCCAGT
*
74741 T-GTCGTTGCGATTTTCCAAAT
1 TCG-CGTTGCGATTTTCC-AGT
* *
74762 T--CGTTGCGATAGTCTACAGT
1 TCGCGTTGCGAT--TTTCCAGT
*
74782 T-GTCGTTGCGATTTTCCAAAT
1 TCG-CGTTGCGATTTTCC-AGT
**
74803 T--CGTTGCGA------AAA
1 TCGCGTTGCGATTTTCCAGT
*
74815 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCAGT
74835 TCGCGTTGCGATTTTCCAGT
1 TCGCGTTGCGATTTTCCAGT
74855 TCGCGTTGCGAT
1 TCGCGTTGCGAT
74867 AGTTGAAAAT
Statistics
Matches: 135, Mismatches: 16, Indels: 34
0.73 0.09 0.18
Matches are distributed among these distances:
12 3 0.02
14 8 0.06
19 17 0.13
20 72 0.53
21 10 0.07
22 25 0.19
ACGTcount: A:0.15, C:0.22, G:0.23, T:0.39
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCCAGT
Found at i:74747 original size:22 final size:22
Alignment explanation
Indices: 74722--74793 Score: 87
Period size: 22 Copynumber: 3.4 Consensus size: 22
74712 TTCCAGTTCG
74722 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
* * **
74744 CGTTGCGAT--TTTCCAAAT-T
1 CGTTGCGATAGTCTACAGTTGT
74763 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
74785 CGTTGCGAT
1 CGTTGCGAT
74794 TTTCCAAATT
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
19 10 0.26
20 5 0.13
21 5 0.13
22 19 0.49
ACGTcount: A:0.18, C:0.19, G:0.25, T:0.38
Consensus pattern (22 bp):
CGTTGCGATAGTCTACAGTTGT
Found at i:74767 original size:19 final size:19
Alignment explanation
Indices: 74743--74811 Score: 75
Period size: 19 Copynumber: 3.5 Consensus size: 19
74733 TCTACAGTTG
74743 TCGTTGCGATTTTCCAAAT
1 TCGTTGCGATTTTCCAAAT
* * **
74762 TCGTTGCGATAGTCTACAGTT
1 TCGTTGCGAT--TTTCCAAAT
74783 GTCGTTGCGATTTTCCAAAT
1 -TCGTTGCGATTTTCCAAAT
74803 TCGTTGCGA
1 TCGTTGCGA
74812 AAATCGCGTT
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
19 19 0.49
20 5 0.13
21 5 0.13
22 10 0.26
ACGTcount: A:0.19, C:0.20, G:0.22, T:0.39
Consensus pattern (19 bp):
TCGTTGCGATTTTCCAAAT
Found at i:74777 original size:41 final size:41
Alignment explanation
Indices: 74702--74964 Score: 246
Period size: 41 Copynumber: 6.6 Consensus size: 41
74692 TTCCATTTCG
*
74702 CGTTGCGATTTTCC-AGTTCGCGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATTTTCCAAATT--CGTTGCGATAGTCTACAGTTGT
74744 CGTTGCGATTTTCCAAATTCGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATTTTCCAAATTCGTTGCGATAGTCTACAGTTGT
*
74785 CGTTGCGATTTTCCAAATTCGTTGCGA-A----A-A-TCG-
1 CGTTGCGATTTTCCAAATTCGTTGCGATAGTCTACAGTTGT
* * *
74818 CGTTGCGATTTTCC-ATTTCGCGTTGCGAT--TTTCCAGTTCG-
1 CGTTGCGATTTTCCAAATT--CGTTGCGATAGTCTACAGTT-GT
* ** * * *
74858 CGTTGCGATAGTTGAAAATCGCGTTGCGATAGTGTATAGTTGT
1 CGTTGCGAT-TTTCCAAAT-TCGTTGCGATAGTCTACAGTTGT
* *
74901 CGTTGCGATTTTCTAAATTCGTTGCGATAGTCTACAGTTAT
1 CGTTGCGATTTTCCAAATTCGTTGCGATAGTCTACAGTTGT
*
74942 CGTTGCGATTTTCTAAATTCGTT
1 CGTTGCGATTTTCCAAATTCGTT
74965 TCGAAAATTC
Statistics
Matches: 185, Mismatches: 20, Indels: 33
0.78 0.08 0.14
Matches are distributed among these distances:
32 3 0.02
33 14 0.08
34 10 0.05
35 1 0.01
36 1 0.01
38 1 0.01
39 1 0.01
40 11 0.06
41 102 0.55
42 23 0.12
43 18 0.10
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.39
Consensus pattern (41 bp):
CGTTGCGATTTTCCAAATTCGTTGCGATAGTCTACAGTTGT
Found at i:74824 original size:116 final size:116
Alignment explanation
Indices: 74699--74927 Score: 320
Period size: 116 Copynumber: 2.0 Consensus size: 116
74689 ATTTTCCATT
* *
74699 TCGCGTTGCGATTTTCCAGTTCGCGTTGCGATAGTCTACAGTT-GTCGTTGCGAT-TTTCCAAAT
1 TCGCGTTGCGATTTTCCAGTTCGCGTTGCGAT--TCTACAGTTCG-CGTTGCGATAGTTCAAAAT
*
74762 -TCGTTGCGATAGTCTACAGTTGTCGTTGCGATTTTCCAAATTCGTTGCGAAAA
63 CGCGTTGCGATAGTCTACAGTTGTCGTTGCGATTTTCCAAATTCGTTGCGAAAA
* * * *
74815 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATTTTCCAGTTCGCGTTGCGATAGTTGAAAATCGC
1 TCGCGTTGCGATTTTCCAGTTCGCGTTGCGATTCTACAGTTCGCGTTGCGATAGTTCAAAATCGC
* * *
74880 GTTGCGATAGTGTATAGTTGTCGTTGCGATTTTCTAAATTCGTTGCGA
66 GTTGCGATAGTCTACAGTTGTCGTTGCGATTTTCCAAATTCGTTGCGA
74928 TAGTCTACAG
Statistics
Matches: 100, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
114 16 0.16
115 7 0.07
116 77 0.77
ACGTcount: A:0.18, C:0.20, G:0.24, T:0.38
Consensus pattern (116 bp):
TCGCGTTGCGATTTTCCAGTTCGCGTTGCGATTCTACAGTTCGCGTTGCGATAGTTCAAAATCGC
GTTGCGATAGTCTACAGTTGTCGTTGCGATTTTCCAAATTCGTTGCGAAAA
Found at i:74919 original size:157 final size:156
Alignment explanation
Indices: 74679--74972 Score: 471
Period size: 157 Copynumber: 1.9 Consensus size: 156
74669 TAGTTGAAAA
* * * **
74679 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATTTTCCAGTTCGCGTTGCGATAGTCTACAGTTGT
1 TCGCGTTGCGATTTTCCAGTTCGCGTTGCGATGTTCAAAATCGCGTTGCGATAGTCTACAGTTGT
*
74744 CGTTGCGATTTTCCAAATTCGTTGCGATAGTCTACAGTTGTCGTTGCGATTTTCCAAATTCGTTG
66 CGTTGCGATTTTCCAAATTCGTTGCGATAGTCTACAGTTATCGTTGCGATTTTCCAAATTCGTTG
74809 CGAAAATCGCGTTGCGATTTTCCATT
131 CGAAAATCGCGTTGCGATTTTCCATT
* * *
74835 TCGCGTTGCGATTTTCCAGTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATAGTGTATAGTTG
1 TCGCGTTGCGATTTTCCAGTTCGCGTTGCGAT-GTTCAAAATCGCGTTGCGATAGTCTACAGTTG
* *
74900 TCGTTGCGATTTTCTAAATTCGTTGCGATAGTCTACAGTTATCGTTGCGATTTTCTAAATTCGTT
65 TCGTTGCGATTTTCCAAATTCGTTGCGATAGTCTACAGTTATCGTTGCGATTTTCCAAATTCGTT
*
74965 TCGAAAAT
130 GCGAAAAT
74973 TCGTTGTGAT
Statistics
Matches: 125, Mismatches: 12, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
156 31 0.25
157 94 0.75
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.39
Consensus pattern (156 bp):
TCGCGTTGCGATTTTCCAGTTCGCGTTGCGATGTTCAAAATCGCGTTGCGATAGTCTACAGTTGT
CGTTGCGATTTTCCAAATTCGTTGCGATAGTCTACAGTTATCGTTGCGATTTTCCAAATTCGTTG
CGAAAATCGCGTTGCGATTTTCCATT
Found at i:74924 original size:19 final size:19
Alignment explanation
Indices: 74900--74964 Score: 76
Period size: 19 Copynumber: 3.3 Consensus size: 19
74890 TGTATAGTTG
74900 TCGTTGCGATTTTCTAAAT
1 TCGTTGCGATTTTCTAAAT
** *
74919 TCGTTGCGATAGTCTACAGTT
1 TCGTTGCGATTTTCTA-A-AT
74940 ATCGTTGCGATTTTCTAAAT
1 -TCGTTGCGATTTTCTAAAT
74960 TCGTT
1 TCGTT
74965 TCGAAAATTC
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
19 19 0.51
20 2 0.05
21 2 0.05
22 14 0.38
ACGTcount: A:0.20, C:0.17, G:0.18, T:0.45
Consensus pattern (19 bp):
TCGTTGCGATTTTCTAAAT
Found at i:74947 original size:22 final size:20
Alignment explanation
Indices: 74879--74950 Score: 65
Period size: 22 Copynumber: 3.5 Consensus size: 20
74869 TTGAAAATCG
*
74879 CGTTGCGATAGTGTATAGTTGT
1 CGTTGCGATAGTCTA-AGTT-T
** *
74901 CGTTGCGATTTTCTAA-ATT
1 CGTTGCGATAGTCTAAGTTT
74920 CGTTGCGATAGTCTACAGTTAT
1 CGTTGCGATAGTCTA-AGTT-T
74942 CGTTGCGAT
1 CGTTGCGAT
74951 TTTCTAAATT
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
19 14 0.35
20 2 0.05
21 2 0.05
22 22 0.55
ACGTcount: A:0.19, C:0.15, G:0.25, T:0.40
Consensus pattern (20 bp):
CGTTGCGATAGTCTAAGTTT
Found at i:75074 original size:6 final size:6
Alignment explanation
Indices: 75063--75106 Score: 81
Period size: 6 Copynumber: 7.5 Consensus size: 6
75053 GACATGTATT
75063 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC-CG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC
75107 CGAGATGAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 5 0.13
6 33 0.87
ACGTcount: A:0.32, C:0.52, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:75618 original size:6 final size:6
Alignment explanation
Indices: 75607--75642 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
75597 TCTCGTCTCG
75607 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
75643 ACGTGTCTTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.00, C:0.17, G:0.50, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:75767 original size:22 final size:22
Alignment explanation
Indices: 75738--75828 Score: 91
Period size: 22 Copynumber: 4.3 Consensus size: 22
75728 AATTTGGAAA
75738 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
* *
75760 TTCGCAACAACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
* * **
75782 ATCGCAACG--AA-TTTGGAAA
1 ATCGCAACGACAACTGTAGACT
*
75801 ATCGCAACGAC-ATTGTAGACT
1 ATCGCAACGACAACTGTAGACT
75822 ATCGCAA
1 ATCGCAA
75829 TGCGAAATCA
Statistics
Matches: 54, Mismatches: 12, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
19 13 0.24
20 3 0.06
21 11 0.20
22 27 0.50
ACGTcount: A:0.37, C:0.24, G:0.18, T:0.21
Consensus pattern (22 bp):
ATCGCAACGACAACTGTAGACT
Found at i:75844 original size:20 final size:20
Alignment explanation
Indices: 75819--76004 Score: 130
Period size: 20 Copynumber: 9.1 Consensus size: 20
75809 GACATTGTAG
*
75819 ACTATCGCAATGCGAAATCA
1 ACTATCGCAACGCGAAATCA
75839 ACTATCGCAACGCGAAATGGCA
1 ACTATCGCAACGCGAAAT--CA
**
75861 A--ATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGA-AATCA
* *
75880 ACTATAGCAACGCGAAATGGA
1 ACTATCGCAACGCGAAAT-CA
* **
75901 A-AATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGA-AATCA
*
75921 ACTATCGCAACGCGAAATGGA
1 ACTATCGCAACGCGAAAT-CA
* *
75942 A-AATCGCAACGCGAAATGGA
1 ACTATCGCAACGCGAAAT-CA
* **
75962 A-AATCGCAACGCGATTTCCA
1 ACTATCGCAACGCGAAAT-CA
75982 ACTATCGCAACGCGAAATGCA
1 ACTATCGCAACGCGAAAT-CA
76003 AC
1 AC
76005 GCGAATTTAC
Statistics
Matches: 131, Mismatches: 25, Indels: 19
0.75 0.14 0.11
Matches are distributed among these distances:
19 3 0.02
20 79 0.60
21 46 0.35
22 3 0.02
ACGTcount: A:0.38, C:0.25, G:0.19, T:0.17
Consensus pattern (20 bp):
ACTATCGCAACGCGAAATCA
Found at i:75881 original size:41 final size:41
Alignment explanation
Indices: 75836--75955 Score: 222
Period size: 41 Copynumber: 2.9 Consensus size: 41
75826 CAATGCGAAA
*
75836 TCAACTATCGCAACGCGAAATGGCAAATCGCAACGCGATTT
1 TCAACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTT
*
75877 TCAACTATAGCAACGCGAAATGGAAAATCGCAACGCGATTT
1 TCAACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTT
75918 TCAACTATCGCAACGCGAAATGGAAAATCGCAACGCGA
1 TCAACTATCGCAACGCGAAATGGAAAATCGCAACGCGA
75956 AATGGAAAAT
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 76 1.00
ACGTcount: A:0.38, C:0.25, G:0.20, T:0.17
Consensus pattern (41 bp):
TCAACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTT
Found at i:75901 original size:102 final size:102
Alignment explanation
Indices: 75795--76000 Score: 301
Period size: 102 Copynumber: 2.0 Consensus size: 102
75785 GCAACGAATT
* *
75795 TGGAAAATCGCAACGAC-ATTGT-AGACTATCGCAATGCGAAAT-CAACTATCGCAACGCGAAAT
1 TGGAAAATCGCAACG-CGATTGTCA-ACTATCGCAACGCGAAATGCAA-AATCGCAACGCGAAAT
* *
75857 GGCAAATCGCAACGCGATTTTCAACTATAGCAACGCGAAA
63 GGAAAATCGCAACGCGATTTCCAACTATAGCAACGCGAAA
* *
75897 TGGAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAAATCGCAACGCGAAATGGA
1 TGGAAAATCGCAACGCGATTGTCAACTATCGCAACGCGAAATGCAAAATCGCAACGCGAAATGGA
*
75962 AAATCGCAACGCGATTTCCAACTATCGCAACGCGAAA
66 AAATCGCAACGCGATTTCCAACTATAGCAACGCGAAA
75999 TG
1 TG
76001 CAACGCGAAT
Statistics
Matches: 94, Mismatches: 7, Indels: 6
0.88 0.07 0.06
Matches are distributed among these distances:
101 1 0.01
102 90 0.96
103 3 0.03
ACGTcount: A:0.38, C:0.24, G:0.20, T:0.18
Consensus pattern (102 bp):
TGGAAAATCGCAACGCGATTGTCAACTATCGCAACGCGAAATGCAAAATCGCAACGCGAAATGGA
AAATCGCAACGCGATTTCCAACTATAGCAACGCGAAA
Found at i:75951 original size:61 final size:61
Alignment explanation
Indices: 75886--76000 Score: 221
Period size: 61 Copynumber: 1.9 Consensus size: 61
75876 TTCAACTATA
*
75886 GCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAAATC
1 GCAACGCGAAATGGAAAATCGCAACGCGATTTCCAACTATCGCAACGCGAAATGGAAAATC
75947 GCAACGCGAAATGGAAAATCGCAACGCGATTTCCAACTATCGCAACGCGAAATG
1 GCAACGCGAAATGGAAAATCGCAACGCGATTTCCAACTATCGCAACGCGAAATG
76001 CAACGCGAAT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 53 1.00
ACGTcount: A:0.38, C:0.24, G:0.22, T:0.16
Consensus pattern (61 bp):
GCAACGCGAAATGGAAAATCGCAACGCGATTTCCAACTATCGCAACGCGAAATGGAAAATC
Found at i:76786 original size:26 final size:24
Alignment explanation
Indices: 76724--76786 Score: 60
Period size: 24 Copynumber: 2.6 Consensus size: 24
76714 CATTTTAATC
76724 AAAATAT-TAATTATTAAAATATTT
1 AAAATATAT-ATTATTAAAATATTT
*
76748 AAAATATAT-TTATTAATAT-TTCT
1 AAAATATATATTATTAAAATATT-T
76771 AATAATATACTATTAT
1 AA-AATATA-TATTAT
76787 ATTTTTAATA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
22 2 0.06
23 12 0.36
24 13 0.39
25 2 0.06
26 4 0.12
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (24 bp):
AAAATATATATTATTAAAATATTT
Found at i:76788 original size:22 final size:23
Alignment explanation
Indices: 76758--76801 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
76748 AAAATATATT
76758 TATTAATATTTCTAATAATATAC
1 TATTAATATTTCTAATAATATAC
* *
76781 TATT-ATATTTTTAATATTATA
1 TATTAATATTTCTAATAATATA
76802 ATAAAATAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.55
Consensus pattern (23 bp):
TATTAATATTTCTAATAATATAC
Found at i:76818 original size:32 final size:32
Alignment explanation
Indices: 76752--76831 Score: 83
Period size: 32 Copynumber: 2.5 Consensus size: 32
76742 ATATTTAAAA
* * *
76752 TATATTTATTAATATTTCTAATAATATACTAT
1 TATATTTATTAATATTTATAATAAAATACAAT
76784 TATATTT-TTAATA-TTATAATAAAATAATCAAT
1 TATATTTATTAATATTTATAATAAAAT-A-CAAT
*
76816 TATATTATAATAATAT
1 TATATT-TATTAATAT
76832 AAGATATTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
30 10 0.26
31 7 0.18
32 16 0.41
33 1 0.03
34 5 0.13
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (32 bp):
TATATTTATTAATATTTATAATAAAATACAAT
Found at i:76964 original size:27 final size:27
Alignment explanation
Indices: 76884--76969 Score: 70
Period size: 27 Copynumber: 3.1 Consensus size: 27
76874 AATAAAATTT
* *
76884 ATATTATTTAT-TAATTTCATAGAAATA
1 ATATTATTTATAT-ATTTAATATAAATA
* *
76911 ATATTA-TTAAAT-TATTAATAATGAATA
1 ATATTATTTATATAT-TTAAT-ATAAATA
76938 ATATTATTTATATATTTAATATTAATATA
1 ATATTATTTATATATTTAATA-TAA-ATA
76967 ATA
1 ATA
76970 GTATAATAAC
Statistics
Matches: 46, Mismatches: 6, Indels: 12
0.72 0.09 0.19
Matches are distributed among these distances:
25 1 0.02
26 7 0.15
27 19 0.41
28 12 0.26
29 7 0.15
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.49
Consensus pattern (27 bp):
ATATTATTTATATATTTAATATAAATA
Found at i:77156 original size:29 final size:30
Alignment explanation
Indices: 77121--77183 Score: 85
Period size: 29 Copynumber: 2.1 Consensus size: 30
77111 TATTAATAAA
*
77121 ATTTTAAAAA-AATTAATAATAAAT-TTATT
1 ATTTTAAAAATAA-TAATAATAAATAATATT
*
77150 ATTTTAAAAATAATAATATTAAATAATATT
1 ATTTTAAAAATAATAATAATAAATAATATT
77180 ATTT
1 ATTT
77184 ATTGTATTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
29 20 0.67
30 10 0.33
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (30 bp):
ATTTTAAAAATAATAATAATAAATAATATT
Found at i:77369 original size:14 final size:14
Alignment explanation
Indices: 77350--77437 Score: 86
Period size: 14 Copynumber: 6.1 Consensus size: 14
77340 TCATAAATGT
77350 AATTCAATTTCCAG
1 AATTCAATTTCCAG
77364 AATTCAATTTCCAG
1 AATTCAATTTCCAG
* * *
77378 TAATTCATTTTTCAT
1 -AATTCAATTTCCAG
* *
77393 AACTCAATTTTCAG
1 AATTCAATTTCCAG
* *
77407 TAATTCATTTTCCAA
1 -AATTCAATTTCCAG
*
77422 AATTCAATTCCCAG
1 AATTCAATTTCCAG
77436 AA
1 AA
77438 AACCAATTAC
Statistics
Matches: 59, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
14 38 0.64
15 21 0.36
ACGTcount: A:0.35, C:0.20, G:0.05, T:0.40
Consensus pattern (14 bp):
AATTCAATTTCCAG
Found at i:77377 original size:48 final size:49
Alignment explanation
Indices: 77273--77377 Score: 122
Period size: 48 Copynumber: 2.1 Consensus size: 49
77263 CGTAAAACGT
* * *
77273 TTTCCAGAAAATGTTTTTCAGAAAAATATAATTCATTTTACGGAAAACAT
1 TTTCCAGAAAATGTTTTTCA-AAAAATATAATTCAATTTACAGAAAACAA
* * * **
77323 TTTCCAGAAAATGTTTTTC-ATAAATGTAATTCAATTTCCAGAATTCAA
1 TTTCCAGAAAATGTTTTTCAAAAAATATAATTCAATTTACAGAAAACAA
77371 TTTCCAG
1 TTTCCAG
77378 TAATTCATTT
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
48 28 0.60
50 19 0.40
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (49 bp):
TTTCCAGAAAATGTTTTTCAAAAAATATAATTCAATTTACAGAAAACAA
Found at i:77381 original size:29 final size:29
Alignment explanation
Indices: 77348--77435 Score: 113
Period size: 29 Copynumber: 3.0 Consensus size: 29
77338 TTTCATAAAT
* *
77348 GTAATTCAATTTCCAGAATTCAATTTCCA
1 GTAATTCATTTTCCAAAATTCAATTTCCA
* * * *
77377 GTAATTCATTTTTCATAACTCAATTTTCA
1 GTAATTCATTTTCCAAAATTCAATTTCCA
*
77406 GTAATTCATTTTCCAAAATTCAATTCCCA
1 GTAATTCATTTTCCAAAATTCAATTTCCA
77435 G
1 G
77436 AAAACCAATT
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 49 1.00
ACGTcount: A:0.33, C:0.20, G:0.06, T:0.41
Consensus pattern (29 bp):
GTAATTCATTTTCCAAAATTCAATTTCCA
Found at i:78489 original size:31 final size:30
Alignment explanation
Indices: 78453--78511 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 30
78443 CTAAAGGGAT
*
78453 AAAGTATAATTAATAATAGAAAATTAAGAAG
1 AAAGTATAATTAATAATA-AAAAATAAGAAG
*
78484 AAAGTATAGTTAATAATAAAAAATAAGA
1 AAAGTATAATTAATAATAAAAAATAAGA
78512 GGTAAAATCA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 9 0.35
31 17 0.65
ACGTcount: A:0.63, C:0.00, G:0.12, T:0.25
Consensus pattern (30 bp):
AAAGTATAATTAATAATAAAAAATAAGAAG
Found at i:78964 original size:60 final size:60
Alignment explanation
Indices: 78900--79046 Score: 161
Period size: 60 Copynumber: 2.5 Consensus size: 60
78890 GAGACTAACA
* ** * *
78900 TAGAATAAGAGTCATAGTTTGAGGATGAAGTTGGAATGTTCAAGAGTTTGTGGACCAATT
1 TAGAATAAGAGTCATAGTTTGAGGATGAAATTAAAATGTTCAAAAGTTTATGGACCAATT
* * * *
78960 TAGAATGAGAGTCATAATTT-ATGGATGAAATTAAAATGTTTAAAAGTTTATGGACTAATT
1 TAGAATAAGAGTCATAGTTTGA-GGATGAAATTAAAATGTTCAAAAGTTTATGGACCAATT
* * * *
79020 TAAAATAATAGTCATAGATTGGGGATG
1 TAGAATAAGAGTCATAGTTTGAGGATG
79047 TATGTTGCAA
Statistics
Matches: 70, Mismatches: 15, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
59 1 0.01
60 69 0.99
ACGTcount: A:0.38, C:0.05, G:0.24, T:0.33
Consensus pattern (60 bp):
TAGAATAAGAGTCATAGTTTGAGGATGAAATTAAAATGTTCAAAAGTTTATGGACCAATT
Found at i:81194 original size:7 final size:7
Alignment explanation
Indices: 81182--81211 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
81172 CCCTCATTTT
81182 TTCTTTC
1 TTCTTTC
81189 TTCTTTC
1 TTCTTTC
81196 TTCTTTC
1 TTCTTTC
81203 TTC-TTC
1 TTCTTTC
81209 TTC
1 TTC
81212 CTCTCTCCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 6 0.26
7 17 0.74
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (7 bp):
TTCTTTC
Found at i:82271 original size:109 final size:109
Alignment explanation
Indices: 82134--82331 Score: 274
Period size: 109 Copynumber: 1.8 Consensus size: 109
82124 GCCAAAATGT
* * *
82134 AAAAACACGCTAAACATAGAGGGACTAAAAAGTAAATAACCCTAAATATATATAA-CATGCATAA
1 AAAAACAAGCTAAACATAGAGGGACTAAAAAGCAAATAACCCTAAAAATATA-AAGCATGCATAA
*
82198 AAATAGGTAAATTGTAGAATCGGTCCATACAAATGACTAACAAGC
65 AAATAGGTAAATTGCAGAATCGGTCCATACAAATGACTAACAAGC
* * * *
82243 AAAAACATAGCTAAAC-TAGGGGGACTAAATAGCAAATAACTCTAAAAATATAAAGCATGCATGA
1 AAAAACA-AGCTAAACATAGAGGGACTAAAAAGCAAATAACCCTAAAAATATAAAGCATGCATAA
* *
82307 AAGTGGGTAAATTGCAGAATCGGTC
65 AAATAGGTAAATTGCAGAATCGGTC
82332 ATTACATGTG
Statistics
Matches: 77, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
108 2 0.03
109 68 0.88
110 7 0.09
ACGTcount: A:0.48, C:0.15, G:0.17, T:0.20
Consensus pattern (109 bp):
AAAAACAAGCTAAACATAGAGGGACTAAAAAGCAAATAACCCTAAAAATATAAAGCATGCATAAA
AATAGGTAAATTGCAGAATCGGTCCATACAAATGACTAACAAGC
Found at i:88645 original size:21 final size:20
Alignment explanation
Indices: 88606--88643 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
88596 TTTTGGTGCA
*
88606 GAGGGAATCGATACCCCCAT
1 GAGGGAACCGATACCCCCAT
*
88626 GAGGGAACCGATTCCCCC
1 GAGGGAACCGATACCCCC
88644 CACAGGGGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.34, G:0.26, T:0.13
Consensus pattern (20 bp):
GAGGGAACCGATACCCCCAT
Found at i:99919 original size:20 final size:20
Alignment explanation
Indices: 99894--99938 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
99884 TGACATTCTG
*
99894 AAATGTTCTCTAACCTAGAT
1 AAATGTTCTCTAACCTACAT
*
99914 AAATGTTCTCTAGCCTACAT
1 AAATGTTCTCTAACCTACAT
99934 AAATG
1 AAATG
99939 ATCTGCAACC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.36, C:0.20, G:0.11, T:0.33
Consensus pattern (20 bp):
AAATGTTCTCTAACCTACAT
Found at i:105580 original size:118 final size:117
Alignment explanation
Indices: 105359--105596 Score: 291
Period size: 118 Copynumber: 2.0 Consensus size: 117
105349 TTATAGCTAA
* * * *
105359 AAATGATCTTCTTTTGAAAGCTAAAATAGATTTTGAAAATCAAAATGAAATGTTGAAAAAGGAGA
1 AAATGATATTCTTTTAAAAACTAAAATAGATTTTGAAAATCAAAATGAAATATTGAAAAAGGAGA
* * *
105424 TATGGCTTTCAAAAATGAAAACTAAAAACTTTGAAAAAGAAATTTTCGAATTT
66 TATGACTTTAAAAAATGAAAACTAAAAACTTTGAAAAAGAAAATTTCG-ATTT
* * **
105477 AAATGATATTCTTTTAAAAACTAAAATAGATTTTGAGAATCAAAATGAAATATTGAAGAAGGATT
1 AAATGATATTCTTTTAAAAACTAAAATAGATTTTGAAAATCAAAATGAAATATTGAAAAAGGAGA
* ** * *
105542 TA-GAACTTTAAAAAATG-AAATTTGAAAGTATTGGAAAAGAAAATTTCGATTT
66 TATG-ACTTTAAAAAATGAAAACTAAAAACT-TTGAAAAAGAAAATTTCGATTT
105594 AAA
1 AAA
105597 GGTTAAGCTT
Statistics
Matches: 102, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
117 16 0.16
118 86 0.84
ACGTcount: A:0.49, C:0.06, G:0.14, T:0.31
Consensus pattern (117 bp):
AAATGATATTCTTTTAAAAACTAAAATAGATTTTGAAAATCAAAATGAAATATTGAAAAAGGAGA
TATGACTTTAAAAAATGAAAACTAAAAACTTTGAAAAAGAAAATTTCGATTT
Found at i:109476 original size:14 final size:14
Alignment explanation
Indices: 109457--109483 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
109447 TTGTGCAAAG
109457 TGTATCGATACCCA
1 TGTATCGATACCCA
109471 TGTATCGATACCC
1 TGTATCGATACCC
109484 CTGAAGGGGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.30
Consensus pattern (14 bp):
TGTATCGATACCCA
Found at i:109877 original size:18 final size:18
Alignment explanation
Indices: 109846--109880 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
109836 AAAATCTACA
109846 ACAAATTTCATCAAAAAC
1 ACAAATTTCATCAAAAAC
109864 ACAAGATTTC-TCAAAAA
1 ACAA-ATTTCATCAAAAA
109881 TAAATTTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.54, C:0.20, G:0.03, T:0.23
Consensus pattern (18 bp):
ACAAATTTCATCAAAAAC
Found at i:111330 original size:37 final size:37
Alignment explanation
Indices: 111277--111378 Score: 141
Period size: 37 Copynumber: 2.8 Consensus size: 37
111267 CCTTTTCGTC
111277 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * * *
111314 TTGCTAGGATTCAAACTCCTTAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * *
111351 CTACTATGATTTAAACTCCTAAAGATAG
1 CTACTAGGATTCAAACTCCTAAAAATAG
111379 AATCCACAAG
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 55 1.00
ACGTcount: A:0.39, C:0.16, G:0.15, T:0.30
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:111873 original size:2 final size:2
Alignment explanation
Indices: 111857--111897 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
111847 TTTTTAATAC
*
111857 TA TA TT TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
111898 CTTTTTTTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:112117 original size:18 final size:19
Alignment explanation
Indices: 112091--112126 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
112081 TGGTTTAGTT
*
112091 TTTTTATATTA-TATTATA
1 TTTTCATATTACTATTATA
112109 TTTTCATATTACTATTAT
1 TTTTCATATTACTATTAT
112127 TATTGTTATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.64
Consensus pattern (19 bp):
TTTTCATATTACTATTATA
Found at i:112169 original size:2 final size:2
Alignment explanation
Indices: 112162--112235 Score: 123
Period size: 2 Copynumber: 36.5 Consensus size: 2
112152 TTTACTCATT
112162 TA TA TA TA TA TA CTCA TA TA TA TA TA TA TA TA -A TA TA TA TA TA
1 TA TA TA TA TA TA -T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA
112205 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
112236 TTATTTATTT
Statistics
Matches: 69, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
1 1 0.01
2 65 0.94
3 2 0.03
4 1 0.01
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:112270 original size:24 final size:23
Alignment explanation
Indices: 112235--112301 Score: 71
Period size: 24 Copynumber: 2.8 Consensus size: 23
112225 TATATATATA
* *
112235 TTTATTTATTTATTTATTTTTCCT
1 TTTATTTTTTTATTTATTTTT-AT
*
112259 TTTATTTTTTTACTTATTTTTAT
1 TTTATTTTTTTATTTATTTTTAT
*
112282 TCTTCATTTTTTCATTTATT
1 T-TT-ATTTTTTTATTTATT
112302 CATTTTTCCC
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
23 2 0.06
24 21 0.58
25 13 0.36
ACGTcount: A:0.16, C:0.09, G:0.00, T:0.75
Consensus pattern (23 bp):
TTTATTTTTTTATTTATTTTTAT
Found at i:113398 original size:19 final size:19
Alignment explanation
Indices: 113374--113410 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
113364 ACCTTACTAA
113374 CTCTTTTCATTTT-TTTCCT
1 CTCTTTT-ATTTTATTTCCT
113393 CTCTTTTATTTTATTTCC
1 CTCTTTTATTTTATTTCC
113411 ATCACCTGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.08, C:0.24, G:0.00, T:0.68
Consensus pattern (19 bp):
CTCTTTTATTTTATTTCCT
Found at i:116826 original size:16 final size:15
Alignment explanation
Indices: 116800--116857 Score: 64
Period size: 16 Copynumber: 3.7 Consensus size: 15
116790 AGATCCAATC
116800 AAGAACAAAAAAGAA
1 AAGAACAAAAAAGAA
*
116815 AAGAAGCAAAAAAGCA
1 AAGAA-CAAAAAAGAA
*
116831 AAGAA-AAAAGAGAAA
1 AAGAACAAAAAAG-AA
116846 CAAGAACAAAAA
1 -AAGAACAAAAA
116858 TAAAAAAAAG
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
14 6 0.17
15 6 0.17
16 19 0.54
17 4 0.11
ACGTcount: A:0.76, C:0.09, G:0.16, T:0.00
Consensus pattern (15 bp):
AAGAACAAAAAAGAA
Found at i:117667 original size:22 final size:22
Alignment explanation
Indices: 117642--117762 Score: 197
Period size: 22 Copynumber: 5.5 Consensus size: 22
117632 GCTACCCCGT
* *
117642 CAAACCGTTAAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
*
117664 CAAACCTATGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
117686 CAAACCTTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
*
117708 CAAACCTTTGAGCATCAAATTC
1 CAAACCTTTGAGCATCAAATGC
117730 CAAACCTTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
*
117752 CAAAGCTTTGA
1 CAAACCTTTGA
117763 CCAAACATAA
Statistics
Matches: 92, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 92 1.00
ACGTcount: A:0.38, C:0.26, G:0.13, T:0.22
Consensus pattern (22 bp):
CAAACCTTTGAGCATCAAATGC
Found at i:118756 original size:106 final size:106
Alignment explanation
Indices: 118566--120258 Score: 2621
Period size: 106 Copynumber: 16.0 Consensus size: 106
118556 ATATCGTGCC
* * * * * *
118566 ACTCAAGACAACACAAGTTCAACTTCACAATGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
*
118631 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
** * * *
118672 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGATAGCTGGCTGTCAATAAACAATTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
* *
118737 AATTTTAGAGTCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
118778 ACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAAACGACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
* *
118843 AATTTCAGAGCCAATTTCAACTTTACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * **
118884 ACTCCAGACAACGCAAGTTCAACTTCACGATGAAGGGACCGCTGGTTGTCAATAAACAATTTCTA
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
*
118949 AATTTCAGAGCCAATTTCAACTTCACAGCGTAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
118990 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTTAATAAATAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
119055 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * *
119096 ACTCCAGACAATGCAAGCTCAACTTCACGACGAAGGGACCTCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
*
119161 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
119202 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
119267 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
119308 ACTCAAGATAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
119373 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
119414 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
119479 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
119520 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
*
119585 AATTTCAAAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
*
119626 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAT-AACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
119690 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
119731 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
* *
119796 AATTTTAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
** * * *
119837 ACTCCAGACAACGCAAGTGAAACTTCACGACGAAGGGACCACTGGTTGTCAATAAACAATTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
*
119902 AATTTCAGAGCCAATTTCAACTTCACAGCGTAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
*
119943 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
* *
120008 AATTTCAGAGCCAATTTCAACTTCTCAGCGAAGGATCTTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * * * * *
120049 AC-CCAAGACAACACAAGCTCAACTTCACGACAAAGGGGCGGCTGATTGTCAA-CAA-AA-TT-T
1 ACTCC-AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCC
* *
120109 C-A-TTCAGAGTCGATTTCAACTTCACAGCGAAGGATATTGG
65 CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * * * *
120149 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAATAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
** * *
120214 GGTTCCAGAGCCAATTTCAACTTCAC-GACGGAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAG-CGAAGGATATTGG
120255 ACTC
1 ACTC
120259 AGAACAATGC
Statistics
Matches: 1461, Mismatches: 116, Indels: 20
0.91 0.07 0.01
Matches are distributed among these distances:
100 78 0.05
101 4 0.00
102 3 0.00
103 4 0.00
104 3 0.00
105 105 0.07
106 1264 0.87
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.23
Consensus pattern (106 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
Found at i:121052 original size:37 final size:37
Alignment explanation
Indices: 120990--121094 Score: 131
Period size: 37 Copynumber: 2.8 Consensus size: 37
120980 CCTTTTCGTC
* *
120990 CTACTATGATTCAAACTCCTAAAAATAGGATAGAATT
1 CTACTAGGATTCAAACTCCTTAAAATAGGATAGAATT
* * *
121027 TTGCTAGGATTCAAACTCCTTAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTTAAAATAGGATAGAATT
* *
121064 CTACTATGATTTAAACTCC-TAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTTAAA-ATAGGAT
121095 CCACAAGCAC
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
36 4 0.07
37 54 0.93
ACGTcount: A:0.39, C:0.15, G:0.14, T:0.31
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTTAAAATAGGATAGAATT
Found at i:121971 original size:12 final size:13
Alignment explanation
Indices: 121950--122030 Score: 53
Period size: 12 Copynumber: 6.4 Consensus size: 13
121940 TATATATTAA
121950 TATTTCATTTATT
1 TATTTCATTTATT
121963 TATTT-ATTTATT
1 TATTTCATTTATT
* *
121975 T-TTCCTTTTATT
1 TATTTCATTTATT
* *
121987 TATTTTTACTTATT
1 TA-TTTCATTTATT
* *
122001 TTTATTC-TTCATT
1 TAT-TTCATTTATT
122014 T-TTTCATTTATT
1 TATTTCATTTATT
*
122026 CATTT
1 TATTT
122031 TTTCCCTCTG
Statistics
Matches: 50, Mismatches: 12, Indels: 12
0.68 0.16 0.16
Matches are distributed among these distances:
11 5 0.10
12 21 0.42
13 14 0.28
14 10 0.20
ACGTcount: A:0.19, C:0.10, G:0.00, T:0.72
Consensus pattern (13 bp):
TATTTCATTTATT
Found at i:121984 original size:16 final size:16
Alignment explanation
Indices: 121965--122006 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
121955 CATTTATTTA
*
121965 TTTATTTATTTTTCCT
1 TTTATTTATTTTTACT
121981 TTTATTTATTTTTACT
1 TTTATTTATTTTTACT
121997 TATT-TTTATT
1 T-TTATTTATT
122007 CTTCATTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 22 0.92
17 2 0.08
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTATTTATTTTTACT
Found at i:125242 original size:21 final size:21
Alignment explanation
Indices: 125218--125265 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
125208 TTAAATAAAT
*
125218 AGAAATAATTAATATATTTTA
1 AGAAATAATTAATATATGTTA
* *
125239 AG-AATAATTTATTTATGTTA
1 AGAAATAATTAATATATGTTA
*
125259 AAAAATA
1 AGAAATA
125266 TTTTTATAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 16 0.73
21 6 0.27
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (21 bp):
AGAAATAATTAATATATGTTA
Found at i:126347 original size:29 final size:29
Alignment explanation
Indices: 126312--126369 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
126302 GTGTTGACCG
* *
126312 TAGGTCGCCATGCCTTCCGGGCGACCTAC
1 TAGGTCGCCATGCCTTCCCGGCAACCTAC
*
126341 TAGGTCGCCATGTCTTCCCGGCAACCTAC
1 TAGGTCGCCATGCCTTCCCGGCAACCTAC
126370 AAGAGATTGC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.16, C:0.38, G:0.24, T:0.22
Consensus pattern (29 bp):
TAGGTCGCCATGCCTTCCCGGCAACCTAC
Found at i:126431 original size:14 final size:14
Alignment explanation
Indices: 126412--126458 Score: 76
Period size: 14 Copynumber: 3.4 Consensus size: 14
126402 CGCTGGGCAT
*
126412 CCGAGGTCATCCGA
1 CCGAGGCCATCCGA
126426 CCGAGGCCATCCGA
1 CCGAGGCCATCCGA
126440 CCGAGGCCATCCGA
1 CCGAGGCCATCCGA
*
126454 ACGAG
1 CCGAG
126459 CTATGTGAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 31 1.00
ACGTcount: A:0.23, C:0.38, G:0.30, T:0.09
Consensus pattern (14 bp):
CCGAGGCCATCCGA
Found at i:126563 original size:23 final size:23
Alignment explanation
Indices: 126529--126588 Score: 77
Period size: 23 Copynumber: 2.6 Consensus size: 23
126519 CTCGGTTGCC
126529 CTCGGATT-CCCTCGCATAGCTCG
1 CTCGG-TTGCCCTCGCATAGCTCG
126552 CTCGGTTGCCCTCGCATAGCTCG
1 CTCGGTTGCCCTCGCATAGCTCG
* * *
126575 TTCGGATGCTCTCG
1 CTCGGTTGCCCTCG
126589 GATGCTTTCG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
22 2 0.06
23 31 0.94
ACGTcount: A:0.10, C:0.37, G:0.25, T:0.28
Consensus pattern (23 bp):
CTCGGTTGCCCTCGCATAGCTCG
Found at i:126615 original size:14 final size:14
Alignment explanation
Indices: 126596--126623 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
126586 TCGGATGCTT
126596 TCGGATGGCCTCGG
1 TCGGATGGCCTCGG
126610 TCGGATGGCCTCGG
1 TCGGATGGCCTCGG
126624 ATGCCCAGCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.07, C:0.29, G:0.43, T:0.21
Consensus pattern (14 bp):
TCGGATGGCCTCGG
Found at i:131062 original size:12 final size:11
Alignment explanation
Indices: 131031--131066 Score: 56
Period size: 12 Copynumber: 3.3 Consensus size: 11
131021 AAGGATGATG
131031 GATCT-TATTT
1 GATCTATATTT
131041 GATCTATATTT
1 GATCTATATTT
131052 GATCATATATTT
1 GATC-TATATTT
131064 GAT
1 GAT
131067 GAAAAGAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 5 0.21
11 9 0.38
12 10 0.42
ACGTcount: A:0.28, C:0.08, G:0.11, T:0.53
Consensus pattern (11 bp):
GATCTATATTT
Found at i:132668 original size:81 final size:81
Alignment explanation
Indices: 132533--133189 Score: 994
Period size: 81 Copynumber: 8.1 Consensus size: 81
132523 TTTTGCTTAT
* *
132533 TTCCACAAAACCTCTGATTTTCAAAATCATGACAAAGATAAGAAGGTGAAGAGTTAGGAAGATAA
1 TTCCACAAAACCTCTGATTTTCAAAATCATGACAAAGATAAGAAGGTGAAGAGTTTGGAAGACAA
*
132598 GAATGTTGTTCCATAC
66 GTATGTTGTTCCATAC
* * * * *
132614 TTCCACAAAACCTCTTATTTTCAAAATCATGGCAAAGATGAGAAGGTGGAGAGTTTGAAAGACAA
1 TTCCACAAAACCTCTGATTTTCAAAATCATGACAAAGATAAGAAGGTGAAGAGTTTGGAAGACAA
132679 GTATGTTGTTCCATAC
66 GTATGTTGTTCCATAC
* * *
132695 TTCCACAGAACCTCTGATTTTCAAAATCATGACAAAGATAAGAATGTGAAGAATTTGGAAGACAA
1 TTCCACAAAACCTCTGATTTTCAAAATCATGACAAAGATAAGAAGGTGAAGAGTTTGGAAGACAA
132760 GTATGTTGTTCCATAC
66 GTATGTTGTTCCATAC
* *
132776 TTCCACAGAACCTCTGATTTTCAAAATCATGACAAAGATAAGAAGGTGAAGAATTTGGAAGACAA
1 TTCCACAAAACCTCTGATTTTCAAAATCATGACAAAGATAAGAAGGTGAAGAGTTTGGAAGACAA
*
132841 GTATGTTGTTCTATAC
66 GTATGTTGTTCCATAC
* * *
132857 TTCCACATAACCTCT-AGTTTTCAAAATCATGACAAAGATGAGAAGGTGAAGAATTTGGAAGACA
1 TTCCACAAAACCTCTGA-TTTTCAAAATCATGACAAAGATAAGAAGGTGAAGAGTTTGGAAGACA
132921 AGTATGTTGTTCCATAC
65 AGTATGTTGTTCCATAC
* * * * *
132938 TCCCATAAAACCTCTGA-TTTCAAAATCATGGCAAAGATGAGAAGGTGAAGAGTTTGGAAGATAA
1 TTCCACAAAACCTCTGATTTTCAAAATCATGACAAAGATAAGAAGGTGAAGAGTTTGGAAGACAA
*
133002 GTATGGTGTTCCATAC
66 GTATGTTGTTCCATAC
* * * *
133018 TTACACAAAACCTCTTATTTTTAAAATCATGGCAAAGATAAGAAGGTGAAGAGTTTGGAAGACAA
1 TTCCACAAAACCTCTGATTTTCAAAATCATGACAAAGATAAGAAGGTGAAGAGTTTGGAAGACAA
* *
133083 GTATGATGTTCTATAC
66 GTATGTTGTTCCATAC
* * * *
133099 TTCCACAAAACCTCTGATTTTTAAAATCATGACAGAGATGAGAAGGTAAAGAGTTTGGAAGACAA
1 TTCCACAAAACCTCTGATTTTCAAAATCATGACAAAGATAAGAAGGTGAAGAGTTTGGAAGACAA
133164 GTATGTTGTTCCATAC
66 GTATGTTGTTCCATAC
133180 TTCCACAAAA
1 TTCCACAAAA
133190 TCAAGCTCTC
Statistics
Matches: 528, Mismatches: 45, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
80 73 0.14
81 454 0.86
82 1 0.00
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (81 bp):
TTCCACAAAACCTCTGATTTTCAAAATCATGACAAAGATAAGAAGGTGAAGAGTTTGGAAGACAA
GTATGTTGTTCCATAC
Found at i:133855 original size:44 final size:44
Alignment explanation
Indices: 133792--133879 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
133782 CTCACCATCA
133792 AGGATGAAGATCTATTTATCATGCTTGAAGACCTTCGATGGTCT
1 AGGATGAAGATCTATTTATCATGCTTGAAGACCTTCGATGGTCT
133836 AGGATGAAGATCTATTTATCATGCTTGAAGACCTTCGATGGTCT
1 AGGATGAAGATCTATTTATCATGCTTGAAGACCTTCGATGGTCT
133880 TACTTAAAGG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.34
Consensus pattern (44 bp):
AGGATGAAGATCTATTTATCATGCTTGAAGACCTTCGATGGTCT
Found at i:136153 original size:81 final size:81
Alignment explanation
Indices: 136018--136246 Score: 379
Period size: 81 Copynumber: 2.8 Consensus size: 81
136008 TATAAAAAAA
*
136018 ATACTTCCACAAAACCTCTGATTTTCAAAATCATGGCAAAGATGAGAAGGTGAAGAGTTTGGAGG
1 ATACTTCCACAAAACCTCTGATTTTCAAAATCATGGCAAAGATGAGAAGGTGAAGAGTTTGGAAG
* *
136083 ATAAGTATGATGTTCC
66 ACAAATATGATGTTCC
* * *
136099 ATACTTCCACAAAACCTCTTATTTTTAAAATCATGGTAAAGATGAGAAGGTGAAGAGTTTGGAAG
1 ATACTTCCACAAAACCTCTGATTTTCAAAATCATGGCAAAGATGAGAAGGTGAAGAGTTTGGAAG
136164 ACAAATATGATGTTCC
66 ACAAATATGATGTTCC
*
136180 ATACTTCCACAAAACTTCTGATTTTCAAAAT-ATTGGCAAAGATGAGAAGGTGAAGAGTTTGGAA
1 ATACTTCCACAAAACCTCTGATTTTCAAAATCA-TGGCAAAGATGAGAAGGTGAAGAGTTTGGAA
136244 GAC
65 GAC
136247 TAGTATGCAT
Statistics
Matches: 137, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
80 1 0.01
81 136 0.99
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.28
Consensus pattern (81 bp):
ATACTTCCACAAAACCTCTGATTTTCAAAATCATGGCAAAGATGAGAAGGTGAAGAGTTTGGAAG
ACAAATATGATGTTCC
Found at i:136332 original size:162 final size:161
Alignment explanation
Indices: 136018--136333 Score: 367
Period size: 162 Copynumber: 2.0 Consensus size: 161
136008 TATAAAAAAA
*
136018 ATACTTCCACAAAACCTCTGATTTTCAAAATCATGGCAAAGATGAGAAGGTGAAGAGTTTGGAGG
1 ATACTTCCACAAAACCTCTGATTTTCAAAATCATGGCAAAGATGAGAAGGTGAAGAGTTTGGAAG
* * * * * *
136083 ATAAGTATGATGTTCCATACTTCCACAAAACCTCTTATTTTTAAAATCATGGTAAAGATGAGAAG
66 ATAAGTATGATCTTCCATACTTCCACAAAACCTATGATTCTGAAAACCATGGTAAAGAT-AGAAG
* *
136148 GTGAAGAGTTTGGAAGACAAATATGATGTTCC
130 GTGAAGAGTCTGGAAAACAAATATGATGTTCC
*
136180 ATACTTCCACAAAACTTCTGATTTTCAAAAT-ATTGGCAAAGATGAGAAGGTGAAGAGTTTGGAA
1 ATACTTCCACAAAACCTCTGATTTTCAAAATCA-TGGCAAAGATGAGAAGGTGAAGAGTTTGGAA
* * * *
136244 GACT-AGTATGCATCTGT-C-TACTTTCACAAAGCTTATGATTCTGCAAACCATGCCG-AAAGCA
65 GA-TAAGTATG-ATCT-TCCATACTTCCACAAAACCTATGATTCTGAAAACCATG--GTAAAG-A
*
136305 -ATGAA-GTGGAGAGTCTGGAAAACAAATAT
124 TA-GAAGGTGAAGAGTCTGGAAAACAAATAT
136334 TCCACGGCCT
Statistics
Matches: 131, Mismatches: 15, Indels: 16
0.81 0.09 0.10
Matches are distributed among these distances:
161 1 0.01
162 115 0.88
163 12 0.09
164 3 0.02
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.28
Consensus pattern (161 bp):
ATACTTCCACAAAACCTCTGATTTTCAAAATCATGGCAAAGATGAGAAGGTGAAGAGTTTGGAAG
ATAAGTATGATCTTCCATACTTCCACAAAACCTATGATTCTGAAAACCATGGTAAAGATAGAAGG
TGAAGAGTCTGGAAAACAAATATGATGTTCC
Found at i:138842 original size:40 final size:40
Alignment explanation
Indices: 138798--138898 Score: 202
Period size: 40 Copynumber: 2.5 Consensus size: 40
138788 GTCCTTTCAA
138798 AGAGTATGTCCCCTTTGATAGGGGTAGTTTAGAACAGTGT
1 AGAGTATGTCCCCTTTGATAGGGGTAGTTTAGAACAGTGT
138838 AGAGTATGTCCCCTTTGATAGGGGTAGTTTAGAACAGTGT
1 AGAGTATGTCCCCTTTGATAGGGGTAGTTTAGAACAGTGT
138878 AGAGTATGTCCCCTTTGATAG
1 AGAGTATGTCCCCTTTGATAG
138899 AACAGTGCAA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 61 1.00
ACGTcount: A:0.25, C:0.14, G:0.29, T:0.33
Consensus pattern (40 bp):
AGAGTATGTCCCCTTTGATAGGGGTAGTTTAGAACAGTGT
Found at i:139196 original size:40 final size:40
Alignment explanation
Indices: 139152--139252 Score: 202
Period size: 40 Copynumber: 2.5 Consensus size: 40
139142 GTCCTTTCAA
139152 AGAGTATGTCCCCTTTGATAGGGGTAGTTTAGAACAGTGT
1 AGAGTATGTCCCCTTTGATAGGGGTAGTTTAGAACAGTGT
139192 AGAGTATGTCCCCTTTGATAGGGGTAGTTTAGAACAGTGT
1 AGAGTATGTCCCCTTTGATAGGGGTAGTTTAGAACAGTGT
139232 AGAGTATGTCCCCTTTGATAG
1 AGAGTATGTCCCCTTTGATAG
139253 AACAGTGCAA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 61 1.00
ACGTcount: A:0.25, C:0.14, G:0.29, T:0.33
Consensus pattern (40 bp):
AGAGTATGTCCCCTTTGATAGGGGTAGTTTAGAACAGTGT
Found at i:139196 original size:354 final size:354
Alignment explanation
Indices: 138547--139608 Score: 2079
Period size: 354 Copynumber: 3.0 Consensus size: 354
138537 GCTTTCCTAT
138547 CAGTGCAATGAGACAGATATGTGTAGTCAGGAAGGAGAAAGGAAGTGGAGAAAGATTCCAAAAAG
1 CAGTGCAATGAGACAGATATGTGTAGTCAGGAAGGAGAAAGGAAGTGGAGAAAGATTCCAAAAAG
138612 AAACAAAACTCTGAAACCCCAAATTAAATATGAAGAAAGGAACCTTTATCCATCCTTCATTAGTG
66 AAACAAAACTCTGAAACCCCAAATTAAATATGAAGAAAGGAACCTTTATCCATCCTTCATTAGTG
138677 TATTAAATAATCACACAGAGAGAGATCTGCAAACAATCAATCACCCCAAATTGCTTAACAATGAT
131 TATTAAATAATCACACAGAGAGAGATCTGCAAACAATCAATCACCCCAAATTGCTTAACAATGAT
138742 TTGTATATCTTTTCTAACTAGTAAATTATGCAACAAAATCTTTAGTGTCCTTTCAAAGAGTATGT
196 TTGTATATCTTTTCTAACTAGTAAATTATGCAACAAAATCTTTAGTGTCCTTTCAAAGAGTATGT
138807 CCCCTTTGATAGGGGTAGTTTAGAACAGTGTAGAGTATGTCCCCTTTGATAGGGGTAGTTTAGAA
261 CCCCTTTGATAGGGGTAGTTTAGAACAGTGTAGAGTATGTCCCCTTTGATAGGGGTAGTTTAGAA
138872 CAGTGTAGAGTATGTCCCCTTTGATAGAA
326 CAGTGTAGAGTATGTCCCCTTTGATAGAA
138901 CAGTGCAATGAGACAGATATGTGTAGTCAGGAAGGAGAAAGGAAGTGGAGAAAGATTCCAAAAAG
1 CAGTGCAATGAGACAGATATGTGTAGTCAGGAAGGAGAAAGGAAGTGGAGAAAGATTCCAAAAAG
*
138966 AAACAAAACTCTGAAACCCCAAATTAAATATGAAGAAAGGAACCTTTATCCATCCTTCATTAGTT
66 AAACAAAACTCTGAAACCCCAAATTAAATATGAAGAAAGGAACCTTTATCCATCCTTCATTAGTG
139031 TATTAAATAATCACACAGAGAGAGATCTGCAAACAATCAATCACCCCAAATTGCTTAACAATGAT
131 TATTAAATAATCACACAGAGAGAGATCTGCAAACAATCAATCACCCCAAATTGCTTAACAATGAT
139096 TTGTATATCTTTTCTAACTAGTAAATTATGCAACAAAATCTTTAGTGTCCTTTCAAAGAGTATGT
196 TTGTATATCTTTTCTAACTAGTAAATTATGCAACAAAATCTTTAGTGTCCTTTCAAAGAGTATGT
139161 CCCCTTTGATAGGGGTAGTTTAGAACAGTGTAGAGTATGTCCCCTTTGATAGGGGTAGTTTAGAA
261 CCCCTTTGATAGGGGTAGTTTAGAACAGTGTAGAGTATGTCCCCTTTGATAGGGGTAGTTTAGAA
139226 CAGTGTAGAGTATGTCCCCTTTGATAGAA
326 CAGTGTAGAGTATGTCCCCTTTGATAGAA
139255 CAGTGCAATGAGACAGATATGTGTAGTCAGGAAGGAGAAAGGAAGTGGAGAAAGATTCCAAAAAG
1 CAGTGCAATGAGACAGATATGTGTAGTCAGGAAGGAGAAAGGAAGTGGAGAAAGATTCCAAAAAG
*
139320 AAACAAAACTCTGAAACCCCAAATTAAATATGAAGAAAGGAACCTTTATCCATCCTTCAGTAGTG
66 AAACAAAACTCTGAAACCCCAAATTAAATATGAAGAAAGGAACCTTTATCCATCCTTCATTAGTG
139385 TATTAAATAATCACACAGAGAAAGAGATCTGCAAACAATCAATCACCCCAAATTGCTTAACAATG
131 TATTAAATAATCACACAGAG--AGAGATCTGCAAACAATCAATCACCCCAAATTGCTTAACAATG
139450 ATTTGTATATCTTTTCTAACTAGTAAATTATGCAACAAAATCTTTAGTGTCCTTTCAAAGAGTAT
194 ATTTGTATATCTTTTCTAACTAGTAAATTATGCAACAAAATCTTTAGTGTCCTTTCAAAGAGTAT
139515 GTCCCCTTTGATAGGGGTAGTTTAGAACAGTGTAGAGTATGTCCCCTTTGATAGGGGTAGTTTAG
259 GTCCCCTTTGATAGGGGTAGTTTAGAACAGTGTAGAGTATGTCCCCTTTGATAGGGGTAGTTTAG
*
139580 AACAGTGTAGAATATGTCCCCTTTGATAG
324 AACAGTGTAGAGTATGTCCCCTTTGATAG
139609 GGGTAGTTTA
Statistics
Matches: 702, Mismatches: 4, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
354 501 0.71
356 201 0.29
ACGTcount: A:0.37, C:0.16, G:0.19, T:0.28
Consensus pattern (354 bp):
CAGTGCAATGAGACAGATATGTGTAGTCAGGAAGGAGAAAGGAAGTGGAGAAAGATTCCAAAAAG
AAACAAAACTCTGAAACCCCAAATTAAATATGAAGAAAGGAACCTTTATCCATCCTTCATTAGTG
TATTAAATAATCACACAGAGAGAGATCTGCAAACAATCAATCACCCCAAATTGCTTAACAATGAT
TTGTATATCTTTTCTAACTAGTAAATTATGCAACAAAATCTTTAGTGTCCTTTCAAAGAGTATGT
CCCCTTTGATAGGGGTAGTTTAGAACAGTGTAGAGTATGTCCCCTTTGATAGGGGTAGTTTAGAA
CAGTGTAGAGTATGTCCCCTTTGATAGAA
Found at i:139552 original size:40 final size:40
Alignment explanation
Indices: 139508--139709 Score: 377
Period size: 40 Copynumber: 5.0 Consensus size: 40
139498 GTCCTTTCAA
139508 AGAGTATGTCCCCTTTGATAGGGGTAGTTTAGAACAGTGT
1 AGAGTATGTCCCCTTTGATAGGGGTAGTTTAGAACAGTGT
139548 AGAGTATGTCCCCTTTGATAGGGGTAGTTTAGAACAGTGT
1 AGAGTATGTCCCCTTTGATAGGGGTAGTTTAGAACAGTGT
* *
139588 AGAATATGTCCCCTTTGATAGGGGTAGTTTAGAACACTGT
1 AGAGTATGTCCCCTTTGATAGGGGTAGTTTAGAACAGTGT
139628 AGAGTATGTCCCCTTTGATAGGGGTAGTTTAGAACAGTGT
1 AGAGTATGTCCCCTTTGATAGGGGTAGTTTAGAACAGTGT
*
139668 AGAGTATGTCCCCTTTGATAGTGGTAGTTTAGAACAGTGT
1 AGAGTATGTCCCCTTTGATAGGGGTAGTTTAGAACAGTGT
139708 AG
1 AG
139710 TGTCCTATTT
Statistics
Matches: 157, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 157 1.00
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.33
Consensus pattern (40 bp):
AGAGTATGTCCCCTTTGATAGGGGTAGTTTAGAACAGTGT
Found at i:143295 original size:19 final size:22
Alignment explanation
Indices: 143273--143317 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
143263 TTATAGTACT
143273 GATACT-CAA-GGTT-AGTATC
1 GATACTCCAACGGTTGAGTATC
143292 GATA-TCCAACGGTTGAGTATC
1 GATACTCCAACGGTTGAGTATC
143313 GATAC
1 GATAC
143318 CCTATGTCTG
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
18 1 0.05
19 7 0.32
20 4 0.18
21 10 0.45
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (22 bp):
GATACTCCAACGGTTGAGTATC
Found at i:144334 original size:20 final size:20
Alignment explanation
Indices: 144306--144344 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
144296 TTTTCAAGAA
144306 TTATCTTTAGGAATTATCTC
1 TTATCTTTAGGAATTATCTC
*
144326 TTATTTTTAGGAATTATCT
1 TTATCTTTAGGAATTATCT
144345 TTTCATTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.26, C:0.10, G:0.10, T:0.54
Consensus pattern (20 bp):
TTATCTTTAGGAATTATCTC
Found at i:145166 original size:29 final size:29
Alignment explanation
Indices: 145133--145191 Score: 68
Period size: 29 Copynumber: 2.0 Consensus size: 29
145123 AAACAACTTA
145133 AAATCCCCATTT-TAATT-TTATCTTTATCC
1 AAATCCCCATTTGT--TTCTTATCTTTATCC
* *
145162 AAATCTCTATTTGTTTCTTATCTTTATCC
1 AAATCCCCATTTGTTTCTTATCTTTATCC
145191 A
1 A
145192 GATCTAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
28 2 0.08
29 23 0.88
30 1 0.04
ACGTcount: A:0.25, C:0.22, G:0.02, T:0.51
Consensus pattern (29 bp):
AAATCCCCATTTGTTTCTTATCTTTATCC
Found at i:146089 original size:26 final size:26
Alignment explanation
Indices: 146060--146110 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
146050 TCTGACGTGT
*
146060 CAGTTTCTAAAAGGTCCAGTCAGCGA
1 CAGTTTCTAAAAGATCCAGTCAGCGA
* *
146086 CAGTTTCTAGAAGATCTAGTCAGCG
1 CAGTTTCTAAAAGATCCAGTCAGCG
146111 CGCCTTCTGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (26 bp):
CAGTTTCTAAAAGATCCAGTCAGCGA
Found at i:146347 original size:13 final size:13
Alignment explanation
Indices: 146325--146371 Score: 53
Period size: 13 Copynumber: 3.8 Consensus size: 13
146315 CTTTCTTTTC
*
146325 TTTTCCTTTTAAG
1 TTTTCATTTTAAG
*
146338 TTTTCATTTTTA-
1 TTTTCATTTTAAG
146350 TTTT-ATTTTAAG
1 TTTTCATTTTAAG
*
146362 TTTTTATTTT
1 TTTTCATTTT
146372 TTTAATGCTA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 6 0.21
12 8 0.28
13 15 0.52
ACGTcount: A:0.17, C:0.06, G:0.04, T:0.72
Consensus pattern (13 bp):
TTTTCATTTTAAG
Found at i:151657 original size:16 final size:16
Alignment explanation
Indices: 151633--151692 Score: 61
Period size: 16 Copynumber: 3.8 Consensus size: 16
151623 GAAACAACCC
*
151633 ATTTTATTTTATTTTT
1 ATTTCATTTTATTTTT
*
151649 ATTTCATTTAATTTTT
1 ATTTCATTTTATTTTT
* *
151665 -TGTAATTTTATTTTT
1 ATTTCATTTTATTTTT
151680 AATTTC-TTTTATT
1 -ATTTCATTTTATT
151693 GGGTACTTAT
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
15 12 0.34
16 21 0.60
17 2 0.06
ACGTcount: A:0.22, C:0.03, G:0.02, T:0.73
Consensus pattern (16 bp):
ATTTCATTTTATTTTT
Found at i:153588 original size:19 final size:18
Alignment explanation
Indices: 153554--153596 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 18
153544 TTGGAATTGT
153554 GAAAATAAAATAATGAAA
1 GAAAATAAAATAATGAAA
153572 GAAAAGTAAAA-AGATGAAA
1 GAAAA-TAAAATA-ATGAAA
153591 GAAAAT
1 GAAAAT
153597 TAGAACTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 7 0.30
19 16 0.70
ACGTcount: A:0.70, C:0.00, G:0.16, T:0.14
Consensus pattern (18 bp):
GAAAATAAAATAATGAAA
Found at i:154409 original size:9 final size:9
Alignment explanation
Indices: 154395--154455 Score: 58
Period size: 9 Copynumber: 6.9 Consensus size: 9
154385 AGCATATTTC
154395 CATTTTTTT
1 CATTTTTTT
154404 CA--TTTTT
1 CATTTTTTT
154411 CATTTTTTT
1 CATTTTTTT
154420 CATTTTTTT
1 CATTTTTTT
154429 C-TTTCATTTT
1 CATTT--TTTT
*
154439 -TTTGTTTTT
1 CATT-TTTTT
154448 CATTTTTT
1 CATTTTTT
154456 AAAATTCTTC
Statistics
Matches: 44, Mismatches: 1, Indels: 14
0.75 0.02 0.24
Matches are distributed among these distances:
7 7 0.16
8 3 0.07
9 25 0.57
10 8 0.18
11 1 0.02
ACGTcount: A:0.10, C:0.11, G:0.02, T:0.77
Consensus pattern (9 bp):
CATTTTTTT
Found at i:154416 original size:16 final size:14
Alignment explanation
Indices: 154397--154455 Score: 75
Period size: 15 Copynumber: 4.1 Consensus size: 14
154387 CATATTTCCA
154397 TTTTTTTCATTTTT
1 TTTTTTTCATTTTT
154411 CATTTTTTTCA-TTTT
1 --TTTTTTTCATTTTT
*
154426 TTTCTTTCATTTTT
1 TTTTTTTCATTTTT
154440 TTGTTTTTCATTTTT
1 TT-TTTTTCATTTTT
154455 T
1 T
154456 AAAATTCTTC
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
13 8 0.21
14 6 0.15
15 16 0.41
16 9 0.23
ACGTcount: A:0.08, C:0.10, G:0.02, T:0.80
Consensus pattern (14 bp):
TTTTTTTCATTTTT
Found at i:154433 original size:13 final size:12
Alignment explanation
Indices: 154413--154455 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 12
154403 TCATTTTTCA
154413 TTTTTTTCATTT
1 TTTTTTTCATTT
154425 TTTTCTTTCATTTTT
1 TTTT-TTTCA--TTT
154440 TTGTTTTTCATTT
1 TT-TTTTTCATTT
154453 TTT
1 TTT
154456 AAAATTCTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
12 5 0.19
13 10 0.37
15 10 0.37
16 2 0.07
ACGTcount: A:0.07, C:0.09, G:0.02, T:0.81
Consensus pattern (12 bp):
TTTTTTTCATTT
Done.