Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 296 of 313
Found at i:90921632 original size:15 final size:15
Alignment explanation
Indices: 90921584--90921632 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
90921574 ATTATTATTA
90921584 TTATTATTAGTCCTT
1 TTATTATTAGTCCTT
**
90921599 TTATTATTA-TTATT
1 TTATTATTAGTCCTT
90921613 ATTATTATTAGTCCTT
1 -TTATTATTAGTCCTT
90921629 TTAT
1 TTAT
90921633 AAATTTCACT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
14 3 0.11
15 22 0.79
16 3 0.11
ACGTcount: A:0.24, C:0.08, G:0.04, T:0.63
Consensus pattern (15 bp):
TTATTATTAGTCCTT
Found at i:90925277 original size:21 final size:22
Alignment explanation
Indices: 90925234--90925278 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
90925224 ATTAATAAAA
*
90925234 TTTAAATATAAAAAGATTGAAG
1 TTTAAATATAAAAAAATTGAAG
90925256 TTTAAA-ATAATAAAAATT-AAG
1 TTTAAATATAA-AAAAATTGAAG
90925277 TT
1 TT
90925279 ATTATAGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.36
Consensus pattern (22 bp):
TTTAAATATAAAAAAATTGAAG
Found at i:90925888 original size:25 final size:23
Alignment explanation
Indices: 90925859--90925923 Score: 75
Period size: 25 Copynumber: 2.9 Consensus size: 23
90925849 AATAAAAAAC
*
90925859 TTTAAAATATAATAAATCAAATACA
1 TTTAAAACATAA-AAA-CAAATACA
90925884 TTTAAAACATAAAAACAAAT--A
1 TTTAAAACATAAAAACAAATACA
90925905 -TTAAAACA-AAAAACAAATA
1 TTTAAAACATAAAAACAAATA
90925924 AAAAATAAGA
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
19 10 0.26
20 8 0.21
21 1 0.03
23 5 0.13
24 3 0.08
25 11 0.29
ACGTcount: A:0.66, C:0.09, G:0.00, T:0.25
Consensus pattern (23 bp):
TTTAAAACATAAAAACAAATACA
Found at i:90925918 original size:19 final size:20
Alignment explanation
Indices: 90925885--90925923 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
90925875 TCAAATACAT
90925885 TTAAAACATAAAAACAAATA
1 TTAAAACATAAAAACAAATA
90925905 TTAAAACA-AAAAACAAATA
1 TTAAAACATAAAAACAAATA
90925924 AAAAATAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.72, C:0.10, G:0.00, T:0.18
Consensus pattern (20 bp):
TTAAAACATAAAAACAAATA
Found at i:90929003 original size:37 final size:37
Alignment explanation
Indices: 90928953--90929024 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 37
90928943 ATCGTCGTAT
* *
90928953 CTTGAAACATGAGGAAAATTCTAGCGGACTATCATAA
1 CTTGAAACATGAGGAAAAGTCCAGCGGACTATCATAA
* * *
90928990 CTTGAAGCATGAGGACAAGTCCAGCGGACTGTCAT
1 CTTGAAACATGAGGAAAAGTCCAGCGGACTATCAT
90929025 TGTAACAACC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.22
Consensus pattern (37 bp):
CTTGAAACATGAGGAAAAGTCCAGCGGACTATCATAA
Found at i:90936667 original size:13 final size:13
Alignment explanation
Indices: 90936649--90936673 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
90936639 ACTATTATTT
90936649 TATGTGTTTAAAG
1 TATGTGTTTAAAG
90936662 TATGTGTTTAAA
1 TATGTGTTTAAA
90936674 CATGTGTGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.20, T:0.48
Consensus pattern (13 bp):
TATGTGTTTAAAG
Found at i:90937804 original size:43 final size:44
Alignment explanation
Indices: 90937705--90937807 Score: 120
Period size: 43 Copynumber: 2.3 Consensus size: 44
90937695 TTGAATTTGA
* *
90937705 GGCACTAAGTGTGCGAGAAATAAAATAGCTACGGCTATTAAAAAT
1 GGCACTAAGTGTGCGAGAAATAAAACAGCGACGGCTA-TAAAAAT
* * * *
90937750 GGCACTGAGTGTGCGAG-AATATAACAGCGATGGCTGA-ATAAAT
1 GGCACTAAGTGTGCGAGAAATAAAACAGCGACGGCT-ATAAAAAT
90937793 GGCACTAAGTGTGCG
1 GGCACTAAGTGTGCG
90937808 GTACCGATAT
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
43 19 0.38
44 14 0.28
45 17 0.34
ACGTcount: A:0.36, C:0.15, G:0.28, T:0.21
Consensus pattern (44 bp):
GGCACTAAGTGTGCGAGAAATAAAACAGCGACGGCTATAAAAAT
Found at i:90953358 original size:29 final size:29
Alignment explanation
Indices: 90953298--90953376 Score: 76
Period size: 28 Copynumber: 2.8 Consensus size: 29
90953288 GTAAAAATAT
* *
90953298 TTTTTATATTTTTAAAATAATTTTAATGA
1 TTTTTAAAATTTTAAAATAATTTTAATGA
*
90953327 -TTTTAAAATTTTAAAAGTAATTTT-TTGAA
1 TTTTTAAAATTTTAAAA-TAATTTTAATG-A
90953356 TTTTTTAAAA-TTTAAAA-AATT
1 -TTTTTAAAATTTTAAAATAATT
90953377 AATTAAATGT
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
28 20 0.47
29 8 0.19
30 7 0.16
31 8 0.19
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (29 bp):
TTTTTAAAATTTTAAAATAATTTTAATGA
Found at i:90960056 original size:27 final size:27
Alignment explanation
Indices: 90960002--90960059 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
90959992 AAAATAACTA
* *
90960002 AAAATAATTTGTTTAGCAATACGAGAG
1 AAAATAATTGGTTTAGAAATACGAGAG
*
90960029 AAAATAATTGGTTTAAGAAAT-CGGGAG
1 AAAATAATTGGTTT-AGAAATACGAGAG
90960056 AAAA
1 AAAA
90960060 AAATGAGATG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 22 0.81
28 5 0.19
ACGTcount: A:0.48, C:0.05, G:0.21, T:0.26
Consensus pattern (27 bp):
AAAATAATTGGTTTAGAAATACGAGAG
Found at i:90961407 original size:18 final size:18
Alignment explanation
Indices: 90961386--90961420 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
90961376 TAGTTATCCA
90961386 GTAACAGTCAATTATTCG
1 GTAACAGTCAATTATTCG
90961404 GTAACAGTCAATTATTC
1 GTAACAGTCAATTATTC
90961421 AAAAATAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.34
Consensus pattern (18 bp):
GTAACAGTCAATTATTCG
Found at i:90961673 original size:45 final size:45
Alignment explanation
Indices: 90961601--90961709 Score: 157
Period size: 45 Copynumber: 2.4 Consensus size: 45
90961591 ACAAATCCGG
*
90961601 AACAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAATCAAT
1 AACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATCAAT
* **
90961646 AAC-GATAACAGTAACAGTATTCGACACACAAAGTGCCGAATCGGT
1 AACAG-TAACAGTAACAGTATTCAACACACAAAGTGCCGAATCAAT
*
90961691 AACAGTAACGGTAACAGTA
1 AACAGTAACAGTAACAGTA
90961710 ACAGTAGTCG
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
44 1 0.02
45 55 0.96
46 1 0.02
ACGTcount: A:0.44, C:0.20, G:0.17, T:0.18
Consensus pattern (45 bp):
AACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATCAAT
Found at i:90961704 original size:12 final size:12
Alignment explanation
Indices: 90961687--90961711 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
90961677 AGTGCCGAAT
90961687 CGGTAACAGTAA
1 CGGTAACAGTAA
90961699 CGGTAACAGTAA
1 CGGTAACAGTAA
90961711 C
1 C
90961712 AGTAGTCGGC
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:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTAACAGTAA
Found at i:90961843 original size:22 final size:24
Alignment explanation
Indices: 90961821--90961877 Score: 57
Period size: 22 Copynumber: 2.5 Consensus size: 24
90961811 ATAGGGTATT
*
90961821 TAACTCACTTTTCAGTAT-AATTTC
1 TAACTCACTTTTCAGTATCAA-TTA
*
90961845 TATCTCA--TTTCAGTATCAATTA
1 TAACTCACTTTTCAGTATCAATTA
*
90961867 TAATTCACTTT
1 TAACTCACTTT
90961878 CTCAATTCAA
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
22 16 0.62
23 2 0.08
24 8 0.31
ACGTcount: A:0.30, C:0.19, G:0.04, T:0.47
Consensus pattern (24 bp):
TAACTCACTTTTCAGTATCAATTA
Found at i:90969672 original size:6 final size:6
Alignment explanation
Indices: 90969661--90969691 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
90969651 CCCACTACTC
*
90969661 CCTCTT CCTCTT CATCTT CCTCTT CCTCTT C
1 CCTCTT CCTCTT CCTCTT CCTCTT CCTCTT C
90969692 TTCACTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.03, C:0.48, G:0.00, T:0.48
Consensus pattern (6 bp):
CCTCTT
Found at i:90974827 original size:28 final size:28
Alignment explanation
Indices: 90974758--90974828 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
90974748 CCCTTTAGGA
* *
90974758 CCAATCTCATTCACATGGCCCATCAGGC
1 CCAATCACATTCATATGGCCCATCAGGC
* *
90974786 CCAATCACATTCATATGGCCCGTCGGGC
1 CCAATCACATTCATATGGCCCATCAGGC
*
90974814 TCAATCACATTCATA
1 CCAATCACATTCATA
90974829 GTTATGCAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.27, C:0.35, G:0.14, T:0.24
Consensus pattern (28 bp):
CCAATCACATTCATATGGCCCATCAGGC
Found at i:90975048 original size:16 final size:16
Alignment explanation
Indices: 90975027--90975058 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
90975017 GCCAAACTTC
90975027 TGGCTTTTCGGTATTT
1 TGGCTTTTCGGTATTT
90975043 TGGCTTTTCGGTATTT
1 TGGCTTTTCGGTATTT
90975059 CGGGATTTGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.06, C:0.12, G:0.25, T:0.56
Consensus pattern (16 bp):
TGGCTTTTCGGTATTT
Found at i:90976501 original size:69 final size:71
Alignment explanation
Indices: 90976390--90976685 Score: 269
Period size: 69 Copynumber: 4.2 Consensus size: 71
90976380 TTTGCTCACT
* * ** ** * *
90976390 CTAACTGTATTGAAGGCTGCGATTCTTCACCTATGAGCCTTAATATGATAGCTGAGAGCTT-T-G
1 CTAACTGTGTTGGAGGCTGCGGCTCTTCACCTGCGAGCCTTAATATGACAGCTGAGAGCTTGTAA
*
90976453 CTCTCA
66 CTCTCG
* * * * * * * * * *
90976459 CTAAATGTGTTGGAGGTTGCGGCTTTTCAGCTGCAAGCCTTAATGTAATAGTTGGGAGCTTGTAA
1 CTAACTGTGTTGGAGGCTGCGGCTCTTCACCTGCGAGCCTTAATATGACAGCTGAGAGCTTGTAA
90976524 CTCTCG
66 CTCTCG
* ** * *
90976530 CTAACTGTATTGGAGGCTATGGCTCTTCACCTGCGAGCCTTAATATGACAGCTGGGAGCTT-TGC
1 CTAACTGTGTTGGAGGCTGCGGCTCTTCACCTGCGAGCCTTAATATGACAGCTGAGAGCTTGT-A
90976594 ACT-T-G
65 ACTCTCG
* * * * * * *
90976599 CTAACGGTGTTAGAGGCAGCGACTCTTCACCTACGAGCCTTAATATGACAGTTGAAAGCTTGTAA
1 CTAACTGTGTTGGAGGCTGCGGCTCTTCACCTGCGAGCCTTAATATGACAGCTGAGAGCTTGTAA
90976664 CTCTCG
66 CTCTCG
90976670 CTAACTGTGTTGGAGG
1 CTAACTGTGTTGGAGG
90976686 TTGCAGTTTT
Statistics
Matches: 177, Mismatches: 44, Indels: 10
0.77 0.19 0.04
Matches are distributed among these distances:
69 100 0.56
70 5 0.03
71 72 0.41
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (71 bp):
CTAACTGTGTTGGAGGCTGCGGCTCTTCACCTGCGAGCCTTAATATGACAGCTGAGAGCTTGTAA
CTCTCG
Found at i:90976707 original size:140 final size:140
Alignment explanation
Indices: 90976390--90976685 Score: 340
Period size: 140 Copynumber: 2.1 Consensus size: 140
90976380 TTTGCTCACT
* ** ** * * *
90976390 CTAACTGTATTGAAGGCTGCGATTCTTCACCTATGAGCCTTAATATGATAGCTGAGAGCTTTGCT
1 CTAACTGTATTGGAGGCTATGGCTCTTCACCTACGAGCCTTAATATGACAGCTGAGAGCTTTGCA
* * ** * * * * * * **
90976455 CTCACTAAATGTGTTGGAGGTTGCGGCTTTTCAGCTGCAAGCCTTAATGTAATAGTTGGGAGCTT
66 CTCACTAAAGGTGTTAGAGGCAGCGACTCTTCACCTACAAGCCTTAATATAACAGTTGAAAGCTT
90976520 GTAACTCTCG
131 GTAACTCTCG
* *
90976530 CTAACTGTATTGGAGGCTATGGCTCTTCACCTGCGAGCCTTAATATGACAGCTGGGAGCTTTGCA
1 CTAACTGTATTGGAGGCTATGGCTCTTCACCTACGAGCCTTAATATGACAGCTGAGAGCTTTGCA
** * * *
90976595 CTTGCTAACGGTGTTAGAGGCAGCGACTCTTCACCTACGAGCCTTAATATGACAGTTGAAAGCTT
66 CTCACTAAAGGTGTTAGAGGCAGCGACTCTTCACCTACAAGCCTTAATATAACAGTTGAAAGCTT
90976660 GTAACTCTCG
131 GTAACTCTCG
*
90976670 CTAACTGTGTTGGAGG
1 CTAACTGTATTGGAGG
90976686 TTGCAGTTTT
Statistics
Matches: 128, Mismatches: 28, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
140 128 1.00
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (140 bp):
CTAACTGTATTGGAGGCTATGGCTCTTCACCTACGAGCCTTAATATGACAGCTGAGAGCTTTGCA
CTCACTAAAGGTGTTAGAGGCAGCGACTCTTCACCTACAAGCCTTAATATAACAGTTGAAAGCTT
GTAACTCTCG
Found at i:90978429 original size:24 final size:25
Alignment explanation
Indices: 90978401--90978464 Score: 87
Period size: 24 Copynumber: 2.6 Consensus size: 25
90978391 TCAACCAAAT
* * *
90978401 TCGCACACATAGTGCTA-ATTAAGC
1 TCGCACACATAGTGCCATACTAAAC
90978425 TCGCACACATAGTGCCATACTAAAC
1 TCGCACACATAGTGCCATACTAAAC
90978450 -CGCACACATAGTGCC
1 TCGCACACATAGTGCC
90978465 TGAAATTTTC
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
24 31 0.86
25 5 0.14
ACGTcount: A:0.33, C:0.31, G:0.16, T:0.20
Consensus pattern (25 bp):
TCGCACACATAGTGCCATACTAAAC
Found at i:90978515 original size:24 final size:24
Alignment explanation
Indices: 90978488--90978534 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
90978478 CATGCATCGA
90978488 CATTCAAATCTGCACACATAGTGT
1 CATTCAAATCTGCACACATAGTGT
* *
90978512 CATTTAATTCTGCACACATAGTG
1 CATTCAAATCTGCACACATAGTG
90978535 CCAATGTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.32, C:0.23, G:0.13, T:0.32
Consensus pattern (24 bp):
CATTCAAATCTGCACACATAGTGT
Found at i:90978610 original size:94 final size:94
Alignment explanation
Indices: 90978493--90978868 Score: 689
Period size: 94 Copynumber: 4.0 Consensus size: 94
90978483 ATCGACATTC
* * *
90978493 AAATCTGCACACATAGTGTCATTTAATTCTGCACACATAGTGCCAATGTTAACTCATTATAATAA
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
*
90978558 TGCAATTTACTTAATTCAAATAGCATATA
66 GGCAATTTACTTAATTCAAATAGCATATA
*
90978587 AAATCTACACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
90978652 GGCAATTTACTTAATTCAAATAGCATATA
66 GGCAATTTACTTAATTCAAATAGCATATA
90978681 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
90978746 GGCAATTTACTTAATTCAAATAGCATATA
66 GGCAATTTACTTAATTCAAATAGCATATA
*
90978775 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAT
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
*
90978840 GGCAACTTACTTAATTCAAATAGCATATA
66 GGCAATTTACTTAATTCAAATAGCATATA
90978869 CGGTCACATT
Statistics
Matches: 274, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
94 274 1.00
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (94 bp):
AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
GGCAATTTACTTAATTCAAATAGCATATA
Found at i:90986349 original size:24 final size:25
Alignment explanation
Indices: 90986321--90986384 Score: 87
Period size: 24 Copynumber: 2.6 Consensus size: 25
90986311 TCAACCAAAT
* * *
90986321 TCGCACACATAGTGCTA-ATTAAGC
1 TCGCACACATAGTGCCATACTAAAC
90986345 TCGCACACATAGTGCCATACTAAAC
1 TCGCACACATAGTGCCATACTAAAC
90986370 -CGCACACATAGTGCC
1 TCGCACACATAGTGCC
90986385 TGAAATTTTC
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
24 31 0.86
25 5 0.14
ACGTcount: A:0.33, C:0.31, G:0.16, T:0.20
Consensus pattern (25 bp):
TCGCACACATAGTGCCATACTAAAC
Found at i:90986435 original size:24 final size:24
Alignment explanation
Indices: 90986408--90986457 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
90986398 CATGCATCGA
*
90986408 CATTCAAATCTGCACACATAGTGC
1 CATTCAAATCCGCACACATAGTGC
* *
90986432 CATTTAATTCCGCACACATAGTGC
1 CATTCAAATCCGCACACATAGTGC
90986456 CA
1 CA
90986458 ATGTTAACTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.32, C:0.30, G:0.12, T:0.26
Consensus pattern (24 bp):
CATTCAAATCCGCACACATAGTGC
Found at i:90986530 original size:94 final size:94
Alignment explanation
Indices: 90986413--90986976 Score: 993
Period size: 94 Copynumber: 6.0 Consensus size: 94
90986403 ATCGACATTC
* *
90986413 AAATCTGCACACATAGTGCCATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
90986478 GGCAATTTACTTAATTCAAATAGCATATA
66 GGCAATTTACTTAATTCAAATAGCATATA
90986507 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
90986572 GGCAATTTACTTAATTCAAATAGCATATA
66 GGCAATTTACTTAATTCAAATAGCATATA
90986601 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
**
90986666 GGCAATTTACTTAATTCATTTAGCATATA
66 GGCAATTTACTTAATTCAAATAGCATATA
* *
90986695 AAATTTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTCAACTCATTATAATAA
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
*
90986760 GGCAATTTACTTAATTCAGATAGCATATA
66 GGCAATTTACTTAATTCAAATAGCATATA
* *
90986789 AAATCTGTACACAATGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
*
90986854 GGAAATTTACTTAATTCAAATAGCATATA
66 GGCAATTTACTTAATTCAAATAGCATATA
** * *
90986883 AAATCTGCACACAAAGTGACATTTTTTTCCGCACACATAGTACCAATGTTAACTCATTATAATAT
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
*
90986948 GGCAACTTACTTAATTCAAATAGCATATA
66 GGCAATTTACTTAATTCAAATAGCATATA
90986977 CGGTCACATT
Statistics
Matches: 448, Mismatches: 22, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
94 448 1.00
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.31
Consensus pattern (94 bp):
AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
GGCAATTTACTTAATTCAAATAGCATATA
Found at i:90989564 original size:19 final size:19
Alignment explanation
Indices: 90989540--90989578 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
90989530 CATGTCTCAA
90989540 ATTCGATATTTTAGTTAAT
1 ATTCGATATTTTAGTTAAT
90989559 ATTCGATATTTTAGTTAAT
1 ATTCGATATTTTAGTTAAT
90989578 A
1 A
90989579 GTTCTATCAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.33, C:0.05, G:0.10, T:0.51
Consensus pattern (19 bp):
ATTCGATATTTTAGTTAAT
Found at i:90989683 original size:23 final size:24
Alignment explanation
Indices: 90989628--90989689 Score: 83
Period size: 24 Copynumber: 2.6 Consensus size: 24
90989618 TCAACCAAAT
* *
90989628 TCGCACACATAGTGCTAATTAAGC
1 TCGCACACATAGTGCTAACTAAAC
90989652 TCGCACACATAGTGC-ATACTAAAC
1 TCGCACACATAGTGCTA-ACTAAAC
90989676 -CGCACACATAGTGC
1 TCGCACACATAGTGC
90989690 CTAAAATTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
23 15 0.43
24 20 0.57
ACGTcount: A:0.34, C:0.29, G:0.16, T:0.21
Consensus pattern (24 bp):
TCGCACACATAGTGCTAACTAAAC
Found at i:90989741 original size:24 final size:24
Alignment explanation
Indices: 90989714--90989763 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
90989704 CATGCATCGA
90989714 CATTCAAATCAGCACACATAGTGC
1 CATTCAAATCAGCACACATAGTGC
* * *
90989738 CATTTAATTCCGCACACATAGTGC
1 CATTCAAATCAGCACACATAGTGC
90989762 CA
1 CA
90989764 ATGTTAACTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.34, C:0.30, G:0.12, T:0.24
Consensus pattern (24 bp):
CATTCAAATCAGCACACATAGTGC
Found at i:90989836 original size:94 final size:94
Alignment explanation
Indices: 90989719--90990091 Score: 665
Period size: 94 Copynumber: 4.0 Consensus size: 94
90989709 ATCGACATTC
* * *
90989719 AAATCAGCACACATAGTGCCATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
90989784 AGCAATTTACTTAATTCAAATAGCATTTA
66 AGCAATTTACTTAATTCAAATAGCATTTA
90989813 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
90989878 AGCAATTTACTTAATTCAAATAGCATTTA
66 AGCAATTTACTTAATTCAAATAGCATTTA
*
90989907 AAATCTGCACACAAAGTGACATTTAATTCCACACACATAGTGCCAATGTTAACTCATTATAATAA
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
* *
90989972 GGCAATTTACTTAATTCAAATAGCATATA
66 AGCAATTTACTTAATTCAAATAGCATTTA
*
90990001 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAT
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
* *
90990066 GGCAACTTACTTAATTCAAATAGCAT
66 AGCAATTTACTTAATTCAAATAGCAT
90990092 ATACGGTCAC
Statistics
Matches: 270, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
94 270 1.00
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (94 bp):
AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
AGCAATTTACTTAATTCAAATAGCATTTA
Found at i:90994802 original size:47 final size:47
Alignment explanation
Indices: 90994727--90994857 Score: 154
Period size: 47 Copynumber: 2.8 Consensus size: 47
90994717 CACAATCGAT
* * * * *
90994727 AAGTACCTATACCATAGCCCATAACCAAATCAAGGTAACTTATCCCG
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCCCA
* * *
90994774 GAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCCTCTCA
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCCCA
* * **
90994821 AAATACCTATATCATGGTTCGTAGCCAAATCAAGGTA
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTA
90994858 TTATTTGCAC
Statistics
Matches: 71, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
47 71 1.00
ACGTcount: A:0.35, C:0.27, G:0.15, T:0.23
Consensus pattern (47 bp):
AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCCCA
Found at i:90997493 original size:19 final size:19
Alignment explanation
Indices: 90997469--90997508 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
90997459 AAAATTCATT
90997469 TTAATTTTAATTTATACAC
1 TTAATTTTAATTTATACAC
*
90997488 TTAATTTTTATTTATACAC
1 TTAATTTTAATTTATACAC
90997507 TT
1 TT
90997509 GATTAAGATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.57
Consensus pattern (19 bp):
TTAATTTTAATTTATACAC
Found at i:90999308 original size:48 final size:46
Alignment explanation
Indices: 90999149--90999314 Score: 151
Period size: 46 Copynumber: 3.6 Consensus size: 46
90999139 TGATATGTGT
* * * * *
90999149 GCTAGTGTAAGACATGTATGGGACATGCACCAGCCA--CAGCATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATC-GGCATTGAG-ACGAGA
* *
90999195 GCCAGTGTAAGACATGTCTGGGTCATGCATCGGCATTGAGACGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGACGAGA
* * *
90999241 GCTAGTGTAAAACATGTCTGGGACATGCATCGGCCTCGTGATATAC-A-A
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCAT--TG--AGACGAGA
*
90999289 GCTAGTGTAAGACCTGTCTGGGACAT
1 GCTAGTGTAAGACATGTCTGGGACAT
90999315 AGCGTCAGCT
Statistics
Matches: 100, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
45 3 0.03
46 64 0.64
47 2 0.02
48 27 0.27
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.22
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGACGAGA
Found at i:90999429 original size:49 final size:49
Alignment explanation
Indices: 90999337--90999444 Score: 137
Period size: 49 Copynumber: 2.2 Consensus size: 49
90999327 TGGTGTGTCT
*
90999337 GTGTAAGACCTATCTGGGACATGGCGTCGACATCGATAGATGAAAG-TCA
1 GTGTAAGACCTATCTGGGACATGGCATCGACATCGATAGATGAAAGCT-A
* * * * * *
90999386 GTGTAAGATCTATCTGGGACATGGCATCGGCCTTGCTATATGAAAGCTA
1 GTGTAAGACCTATCTGGGACATGGCATCGACATCGATAGATGAAAGCTA
90999435 GTGTAAGACC
1 GTGTAAGACC
90999445 ATGTCTGGAA
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
49 49 0.98
50 1 0.02
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.25
Consensus pattern (49 bp):
GTGTAAGACCTATCTGGGACATGGCATCGACATCGATAGATGAAAGCTA
Found at i:91000589 original size:13 final size:13
Alignment explanation
Indices: 91000571--91000607 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
91000561 AATTTAGTTC
91000571 ACACGGGCATGAG
1 ACACGGGCATGAG
*
91000584 ACACGGGCATGGG
1 ACACGGGCATGAG
*
91000597 ACACGGACATG
1 ACACGGGCATG
91000608 TCCCTTGATG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.30, C:0.24, G:0.38, T:0.08
Consensus pattern (13 bp):
ACACGGGCATGAG
Found at i:91002147 original size:15 final size:15
Alignment explanation
Indices: 91002129--91002160 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
91002119 CATTTCACTA
*
91002129 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
91002144 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
91002159 TT
1 TT
91002161 TACATGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:91004741 original size:18 final size:18
Alignment explanation
Indices: 91004718--91004755 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
91004708 AGTGTCCCTC
91004718 CACCTTGATGGTGCCTAA
1 CACCTTGATGGTGCCTAA
*
91004736 CACCTTGGTGGTGCCTAA
1 CACCTTGATGGTGCCTAA
91004754 CA
1 CA
91004756 AGTTTCCTCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (18 bp):
CACCTTGATGGTGCCTAA
Found at i:91012288 original size:12 final size:12
Alignment explanation
Indices: 91012273--91012311 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
91012263 AACCTAAACT
91012273 AAAAATGAAAAG
1 AAAAATGAAAAG
*
91012285 AAAAAAGAAAAG
1 AAAAATGAAAAG
*
91012297 AAAAAT-AAAAT
1 AAAAATGAAAAG
91012308 AAAA
1 AAAA
91012312 CCTAACCCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
11 8 0.33
12 16 0.67
ACGTcount: A:0.82, C:0.00, G:0.10, T:0.08
Consensus pattern (12 bp):
AAAAATGAAAAG
Found at i:91014091 original size:35 final size:35
Alignment explanation
Indices: 91013922--91014092 Score: 175
Period size: 35 Copynumber: 4.9 Consensus size: 35
91013912 CTCTGTTTGT
* * *
91013922 CGTGTTTCAGTTGGATTAGCTCTTATGAGTATTGA
1 CGTGTTACAGTTGGATTAGCTCTTATGAGCATTGG
* * * * *
91013957 TGTGTTTCGGTTGGATTAGCTCTTAAGAGAATTGG
1 CGTGTTACAGTTGGATTAGCTCTTATGAGCATTGG
* * *
91013992 CGTATTACGGTTGGATTAGTTCTTATGAGCATTGG
1 CGTGTTACAGTTGGATTAGCTCTTATGAGCATTGG
* *
91014027 CGTGTTATGCA--TGGATTGGCTCTAATGAGCATTGG
1 CGTGTTA--CAGTTGGATTAGCTCTTATGAGCATTGG
* *
91014062 CGTGTTACAGTAGGACTAGCTCTTATGAGCA
1 CGTGTTACAGTTGGATTAGCTCTTATGAGCA
91014093 CCGGTGTGTT
Statistics
Matches: 112, Mismatches: 20, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
33 2 0.02
35 109 0.97
37 1 0.01
ACGTcount: A:0.21, C:0.13, G:0.29, T:0.37
Consensus pattern (35 bp):
CGTGTTACAGTTGGATTAGCTCTTATGAGCATTGG
Found at i:91015909 original size:37 final size:37
Alignment explanation
Indices: 91015851--91015921 Score: 106
Period size: 37 Copynumber: 1.9 Consensus size: 37
91015841 TACCTCGAAT
* *
91015851 AATCCCCACACGTAGTTATCGGGTCTCACCCGGACAA
1 AATCCCCACACATAGTCATCGGGTCTCACCCGGACAA
* *
91015888 AATCTCCACACATAGTCATCGGGTCTTACCCGGA
1 AATCCCCACACATAGTCATCGGGTCTCACCCGGA
91015922 ATATATTTCT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.27, C:0.34, G:0.18, T:0.21
Consensus pattern (37 bp):
AATCCCCACACATAGTCATCGGGTCTCACCCGGACAA
Found at i:91016120 original size:48 final size:48
Alignment explanation
Indices: 91016062--91016261 Score: 337
Period size: 48 Copynumber: 4.2 Consensus size: 48
91016052 ATATACACAC
* * * *
91016062 ATCTCCTACATATTGCTCATTAGCCATTCGGATTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
91016110 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
91016158 ATCTCATACATATTTCATATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
91016206 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACTT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
91016254 ATCTCATA
1 ATCTCATA
91016262 AAAACTCCAA
Statistics
Matches: 143, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 143 1.00
ACGTcount: A:0.30, C:0.26, G:0.07, T:0.37
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:91020382 original size:8 final size:9
Alignment explanation
Indices: 91020351--91020382 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
91020341 ACCCCTAATT
91020351 GACTGAAAG
1 GACTGAAAG
91020360 GACTGAAAG
1 GACTGAAAG
91020369 GACTGAAA-
1 GACTGAAAG
91020377 GACTGA
1 GACTGA
91020383 TATATGCCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 6 0.26
9 17 0.74
ACGTcount: A:0.44, C:0.12, G:0.31, T:0.12
Consensus pattern (9 bp):
GACTGAAAG
Found at i:91021993 original size:42 final size:43
Alignment explanation
Indices: 91021935--91022038 Score: 140
Period size: 42 Copynumber: 2.4 Consensus size: 43
91021925 TCAACACCAT
* * * *
91021935 TGTCCCAAACAAGGTCTTACACGAAAT-TGATTAACAATGCC-A
1 TGTCCCAGACATGGTCTTACACGAAATCTCAAT-ACAATGCCAA
*
91021977 TGTCCCAGACATGGTCTTACACGTAATCTCAATACAATGCCAA
1 TGTCCCAGACATGGTCTTACACGAAATCTCAATACAATGCCAA
91022020 TGTCCCAGACATGGTCTTA
1 TGTCCCAGACATGGTCTTA
91022039 TATGTAATCA
Statistics
Matches: 55, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
42 32 0.58
43 23 0.42
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.26
Consensus pattern (43 bp):
TGTCCCAGACATGGTCTTACACGAAATCTCAATACAATGCCAA
Found at i:91022036 original size:85 final size:85
Alignment explanation
Indices: 91021882--91022038 Score: 190
Period size: 85 Copynumber: 1.8 Consensus size: 85
91021872 CATATGCTCG
* * * * * *
91021882 AACAATGCCATATCTCATATATGGTCTTACATGTTATCACATATCAACACCATTGTCCCAAACAA
1 AACAATGCCATATCCCAGACATGGTCTTACACGTAATCACATATCAACACCAATGTCCCAAACAA
91021947 GGTCTTACACGAAATTGATT
66 GGTCTTACACGAAATTGATT
* * ** *
91021967 AACAATGCCATGTCCCAGACATGGTCTTACACGTAATCTCA-ATACAATGCCAATGTCCCAGACA
1 AACAATGCCATATCCCAGACATGGTCTTACACGTAATCACATAT-CAACACCAATGTCCCAAACA
*
91022031 TGGTCTTA
65 AGGTCTTA
91022039 TATGTAATCA
Statistics
Matches: 59, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
84 2 0.03
85 57 0.97
ACGTcount: A:0.34, C:0.25, G:0.13, T:0.28
Consensus pattern (85 bp):
AACAATGCCATATCCCAGACATGGTCTTACACGTAATCACATATCAACACCAATGTCCCAAACAA
GGTCTTACACGAAATTGATT
Found at i:91022037 original size:43 final size:43
Alignment explanation
Indices: 91021882--91022047 Score: 140
Period size: 43 Copynumber: 3.9 Consensus size: 43
91021872 CATATGCTCG
* * * * * * *
91021882 AACAATGCCATATCTCATATATGGTCTTACATGTTATCAC-AT
1 AACAATGCCATGTCCCAGACATGGTCTTACACGTAATCTCAAT
* ** * * * * *
91021924 ATCAACACCATTGTCCCAAACAAGGTCTTACACGAAAT-TGATT
1 AACAATGCCA-TGTCCCAGACATGGTCTTACACGTAATCTCAAT
91021967 AACAATGCCATGTCCCAGACATGGTCTTACACGTAATCTCAAT
1 AACAATGCCATGTCCCAGACATGGTCTTACACGTAATCTCAAT
* *
91022010 -ACAATGCCAATGTCCCAGACATGGTCTTATATGTAATC
1 AACAATGCC-ATGTCCCAGACATGGTCTTACACGTAATC
91022048 ACATCTCAGT
Statistics
Matches: 96, Mismatches: 24, Indels: 7
0.76 0.19 0.06
Matches are distributed among these distances:
42 39 0.41
43 57 0.59
ACGTcount: A:0.34, C:0.25, G:0.13, T:0.29
Consensus pattern (43 bp):
AACAATGCCATGTCCCAGACATGGTCTTACACGTAATCTCAAT
Found at i:91030617 original size:27 final size:27
Alignment explanation
Indices: 91030577--91030628 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
91030567 GTATGGATGA
91030577 TAAATAGAAAGGTATCAATACAGGTGG
1 TAAATAGAAAGGTATCAATACAGGTGG
* *
91030604 TAAATAGAATGGTATCAGTACAGGT
1 TAAATAGAAAGGTATCAATACAGGT
91030629 ATGTACAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.42, C:0.08, G:0.25, T:0.25
Consensus pattern (27 bp):
TAAATAGAAAGGTATCAATACAGGTGG
Found at i:91036690 original size:40 final size:40
Alignment explanation
Indices: 91036635--91036739 Score: 133
Period size: 40 Copynumber: 2.6 Consensus size: 40
91036625 TGATGACATA
*
91036635 TCGGCTAAATATGGCACTTAGTGTGCGATTCG-GTATAGCT
1 TCGGCTAAATATGGCACTTAGTGTGCAATTCGAG-ATAGCT
*
91036675 TCGGCTAAACT-TGGCACTTAGTGTGCAATTTGAGATAGCT
1 TCGGCTAAA-TATGGCACTTAGTGTGCAATTCGAGATAGCT
** *
91036715 TCGGCTATGTATAGCACTTAGTGTG
1 TCGGCTAAATATGGCACTTAGTGTG
91036740 AGAGATATTG
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
39 1 0.02
40 54 0.95
41 2 0.04
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (40 bp):
TCGGCTAAATATGGCACTTAGTGTGCAATTCGAGATAGCT
Found at i:91041282 original size:19 final size:19
Alignment explanation
Indices: 91041258--91041296 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
91041248 ATTTCCAACA
91041258 TCACGTTCAAGACCCACTT
1 TCACGTTCAAGACCCACTT
91041277 TCACGTTCAAGACCCACTT
1 TCACGTTCAAGACCCACTT
91041296 T
1 T
91041297 GCACAACTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.26, C:0.36, G:0.10, T:0.28
Consensus pattern (19 bp):
TCACGTTCAAGACCCACTT
Found at i:91042757 original size:25 final size:26
Alignment explanation
Indices: 91042716--91042770 Score: 94
Period size: 25 Copynumber: 2.2 Consensus size: 26
91042706 ATTTTTAGAA
*
91042716 AAATATATTTTTCAAGAATAACCAAT
1 AAATATATTTTTCAAGAATAACAAAT
91042742 AAATAT-TTTTTCAAGAATAACAAAT
1 AAATATATTTTTCAAGAATAACAAAT
91042767 AAAT
1 AAAT
91042771 CAAAAGGCTT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
25 22 0.79
26 6 0.21
ACGTcount: A:0.53, C:0.09, G:0.04, T:0.35
Consensus pattern (26 bp):
AAATATATTTTTCAAGAATAACAAAT
Found at i:91046700 original size:32 final size:32
Alignment explanation
Indices: 91046632--91046702 Score: 88
Period size: 32 Copynumber: 2.2 Consensus size: 32
91046622 ACACATGCCC
* * * * *
91046632 GTGTTGCCCGCATGGCCCCATTGGCACAGACC
1 GTGTGGCCCACATGGCCCAATTGGCACAAACA
*
91046664 GTGTGGCCCACATGGCCCAATTGGCCCAAACA
1 GTGTGGCCCACATGGCCCAATTGGCACAAACA
91046696 GTGTGGC
1 GTGTGGC
91046703 TTACACGGTC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.18, C:0.34, G:0.30, T:0.18
Consensus pattern (32 bp):
GTGTGGCCCACATGGCCCAATTGGCACAAACA
Found at i:91046732 original size:24 final size:24
Alignment explanation
Indices: 91046705--91046762 Score: 107
Period size: 24 Copynumber: 2.4 Consensus size: 24
91046695 AGTGTGGCTT
*
91046705 ACACGGTCTAGCAAATGACCTGTC
1 ACACGGCCTAGCAAATGACCTGTC
91046729 ACACGGCCTAGCAAATGACCTGTC
1 ACACGGCCTAGCAAATGACCTGTC
91046753 ACACGGCCTA
1 ACACGGCCTA
91046763 CTACACTGTC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.29, C:0.33, G:0.21, T:0.17
Consensus pattern (24 bp):
ACACGGCCTAGCAAATGACCTGTC
Found at i:91054685 original size:23 final size:23
Alignment explanation
Indices: 91054659--91054705 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
91054649 AATATAAAAA
**
91054659 TAAAAATAAATTAATTTAAATTT
1 TAAAAATAAATTAAACTAAATTT
* *
91054682 TAAAATTAAGTTAAACTAAATTT
1 TAAAAATAAATTAAACTAAATTT
91054705 T
1 T
91054706 TAAACCGGTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (23 bp):
TAAAAATAAATTAAACTAAATTT
Found at i:91055234 original size:21 final size:22
Alignment explanation
Indices: 91055194--91055235 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
91055184 AACGTTTCAC
91055194 AAGTATCAAATCGAAAAAAATT
1 AAGTATCAAATCGAAAAAAATT
**
91055216 AAGTATCAAATTTAAAAAAA
1 AAGTATCAAATCGAAAAAAA
91055236 AAGTCAAGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.62, C:0.07, G:0.07, T:0.24
Consensus pattern (22 bp):
AAGTATCAAATCGAAAAAAATT
Found at i:91060803 original size:20 final size:19
Alignment explanation
Indices: 91060778--91060826 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
91060768 GAATGAAGAA
**
91060778 AATTTACATTTTGTTTTATT
1 AATTTACATTTTG-TTTAAC
91060798 AATTTA-ACTTTTGTTTAAC
1 AATTTACA-TTTTGTTTAAC
91060817 AATTTACATT
1 AATTTACATT
91060827 ATTAACCTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
19 13 0.52
20 12 0.48
ACGTcount: A:0.31, C:0.08, G:0.04, T:0.57
Consensus pattern (19 bp):
AATTTACATTTTGTTTAAC
Found at i:91063206 original size:131 final size:129
Alignment explanation
Indices: 91062978--91063341 Score: 343
Period size: 131 Copynumber: 2.8 Consensus size: 129
91062968 AGGGATCTTC
* * * * * * **
91062978 GATTGTTTTGAGCAGATGAAAAAGCGCAACCCAGCACGATAGGGC-TCGATTTTCAAACCGCCAA
1 GATTGTTTTGAGCAAACGAGAAATCGCAACCCAGCACGATAGGGCAT-GATTCTCGAATTGCCAA
* *
91063042 ACATCGGACATCGCCTTCGTTTTGAAAGGTTTTTAATAAACATGAATGAAAACCTAAAGGAATAT
65 ACATCGAACATCGCCTTCGTTTT-AAAGATTTTTAA-AAACATGAATGAAAACCTAAAGGAATAT
91063107 TA
128 TA
* *
91063109 GATTGTTTTGAGCAAACGAGAAATCACAACCCAGCACGATAGGGCATGATTCTCGAATTGTCAAA
1 GATTGTTTTGAGCAAACGAGAAATCGCAACCCAGCACGATAGGGCATGATTCTCGAATTGCCAAA
** * * ** ** *** * *
91063174 CGCCGAATATTGCCTTCGTTTTAAATGATTTTTAGAAAGTATGCGTGAAATTTTGAAGGGATATT
66 CATCGAACATCGCCTTCGTTTTAAA-GATTTTTA-AAAACATGAATGAAAACCTAAAGGAATATT
*
91063239 T
129 A
* * * * * * *
91063240 GATTATTTTAAGCAAACGAGAAATTGTAACCCAGCACGTTAGGGCACGATTCCGCGAATTGCCAA
1 GATTGTTTTGAGCAAACGAGAAATCGCAACCCAGCACGATAGGGCATGATT-CTCGAATTGCCAA
* *
91063305 ATATCGCACATCGCCTTCGTTTTAAAGAATTTTTAAA
65 ACATCGAACATCGCCTTCGTTTTAAAG-ATTTTTAAA
91063342 TGATTGATTA
Statistics
Matches: 187, Mismatches: 41, Indels: 10
0.79 0.17 0.04
Matches are distributed among these distances:
130 3 0.02
131 144 0.77
132 40 0.21
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (129 bp):
GATTGTTTTGAGCAAACGAGAAATCGCAACCCAGCACGATAGGGCATGATTCTCGAATTGCCAAA
CATCGAACATCGCCTTCGTTTTAAAGATTTTTAAAAACATGAATGAAAACCTAAAGGAATATTA
Found at i:91068386 original size:39 final size:39
Alignment explanation
Indices: 91068343--91068420 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
91068333 AAATCGAAAG
91068343 AAAAATGAGAATCAAATCACCTTGTGAAGACTTTTTTGT
1 AAAAATGAGAATCAAATCACCTTGTGAAGACTTTTTTGT
91068382 AAAAATGAGAATCAAATCACCTTGTGAAGACTTTTTTGT
1 AAAAATGAGAATCAAATCACCTTGTGAAGACTTTTTTGT
91068421 TCAAGCTTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.33
Consensus pattern (39 bp):
AAAAATGAGAATCAAATCACCTTGTGAAGACTTTTTTGT
Found at i:91071126 original size:22 final size:22
Alignment explanation
Indices: 91071098--91071144 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
91071088 TTAATTATTC
91071098 ATAGTCCCTCCTCAA-CTCATAA
1 ATAGTCCCTCCTCAACCT-ATAA
*
91071120 ATAGTCCCTCCTTAACCTATAA
1 ATAGTCCCTCCTCAACCTATAA
91071142 ATA
1 ATA
91071145 ATTTCTACCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 21 0.91
23 2 0.09
ACGTcount: A:0.34, C:0.32, G:0.04, T:0.30
Consensus pattern (22 bp):
ATAGTCCCTCCTCAACCTATAA
Found at i:91071476 original size:5 final size:5
Alignment explanation
Indices: 91071466--91071491 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
91071456 AAAGCACCAA
91071466 ATATT ATATT ATATT ATATT ATATT A
1 ATATT ATATT ATATT ATATT ATATT A
91071492 AGCGTAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
ATATT
Found at i:91075579 original size:6 final size:7
Alignment explanation
Indices: 91075558--91075582 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
91075548 AAAAATATAA
91075558 TTAATTT
1 TTAATTT
91075565 TTAATTT
1 TTAATTT
91075572 TTAATTT
1 TTAATTT
91075579 TTAA
1 TTAA
91075583 AAATAGATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (7 bp):
TTAATTT
Found at i:91075884 original size:10 final size:10
Alignment explanation
Indices: 91075849--91075887 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
91075839 TAAAGTTTTA
*
91075849 ATATTTATTT
1 ATATTTAATT
*
91075859 ATAATTAATT
1 ATATTTAATT
91075869 ATTATTTAATT
1 A-TATTTAATT
91075880 ATATTTAA
1 ATATTTAA
91075888 ATAAAATTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
10 16 0.64
11 9 0.36
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (10 bp):
ATATTTAATT
Found at i:91076080 original size:3 final size:3
Alignment explanation
Indices: 91076072--91076105 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
91076062 GGATACTCCC
91076072 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
91076106 AAGCACTTTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:91078250 original size:25 final size:24
Alignment explanation
Indices: 91078220--91078269 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 24
91078210 AAATAAAAAA
* *
91078220 ATTTTAAAATATAATAAATCAAATAT
1 ATTTAAAAACATAA-AAA-CAAATAT
91078246 ATTTAAAAACATAAAAACAAATAT
1 ATTTAAAAACATAAAAACAAATAT
91078270 TAAAACAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 7 0.32
25 3 0.14
26 12 0.55
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAT
Found at i:91078281 original size:22 final size:21
Alignment explanation
Indices: 91078210--91078298 Score: 65
Period size: 21 Copynumber: 4.1 Consensus size: 21
91078200 TTATTTTATT
* *
91078210 AAAT-AAAAAAATTTTAAAAT
1 AAATAAAAAAAATATTAAAAC
*
91078230 ATAATAAATCAAATATATTTAAAA-
1 A-AATAAA--AAAAATA-TTAAAAC
*
91078254 ACATAAAAACAAATATTAAAAC
1 AAATAAAAA-AAATATTAAAAC
* *
91078276 AAATAAAAATAATACTAAAAC
1 AAATAAAAAAAATATTAAAAC
91078297 AA
1 AA
91078299 TTCTTAAAAC
Statistics
Matches: 55, Mismatches: 7, Indels: 13
0.73 0.09 0.17
Matches are distributed among these distances:
20 1 0.02
21 23 0.42
22 14 0.25
23 5 0.09
24 6 0.11
25 6 0.11
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.25
Consensus pattern (21 bp):
AAATAAAAAAAATATTAAAAC
Found at i:91080158 original size:19 final size:19
Alignment explanation
Indices: 91080111--91080159 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
91080101 TTATTTCCAT
*
91080111 TTTCTTTTCATTTTTTCTTA
1 TTTCCTTTC-TTTTTTCTTA
91080131 TTTCC-TTCTTTTTTCTGTA
1 TTTCCTTTCTTTTTTCT-TA
91080150 -TTCCTTTCTT
1 TTTCCTTTCTT
91080160 CTTCCTCTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 12 0.46
19 10 0.38
20 4 0.15
ACGTcount: A:0.06, C:0.20, G:0.02, T:0.71
Consensus pattern (19 bp):
TTTCCTTTCTTTTTTCTTA
Found at i:91082213 original size:18 final size:18
Alignment explanation
Indices: 91082190--91082233 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 18
91082180 ATTTTGTAAA
91082190 TGTTTCATGCTTAATTTT
1 TGTTTCATGCTTAATTTT
91082208 TG-TT--T-CTTAATTTT
1 TGTTTCATGCTTAATTTT
*
91082222 TATTTCATGCTT
1 TGTTTCATGCTT
91082234 TAAGTGGCTG
Statistics
Matches: 21, Mismatches: 1, Indels: 8
0.70 0.03 0.27
Matches are distributed among these distances:
14 10 0.48
15 3 0.14
17 3 0.14
18 5 0.24
ACGTcount: A:0.16, C:0.11, G:0.09, T:0.64
Consensus pattern (18 bp):
TGTTTCATGCTTAATTTT
Found at i:91084060 original size:5 final size:5
Alignment explanation
Indices: 91084052--91084077 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
91084042 ATTAAAAAAT
91084052 ATATA ATATA ATATA ATATA ATATA A
1 ATATA ATATA ATATA ATATA ATATA A
91084078 GGAGGTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
ATATA
Found at i:91084619 original size:51 final size:51
Alignment explanation
Indices: 91084555--91084690 Score: 146
Period size: 51 Copynumber: 2.7 Consensus size: 51
91084545 TGGAAACATG
*
91084555 ATCTTAAAAGATATGATATTATAATCTTAGAGATCTTAGATATGATATGGA
1 ATCTTAAAAGATATGATATTATAATCTTAGAGATCTTAGATAAGATATGGA
* * * ** * * ** *
91084606 ATCTTATAAGATATTATTTTATAAGATTACATATCTTATCTAAGATATGTA
1 ATCTTAAAAGATATGATATTATAATCTTAGAGATCTTAGATAAGATATGGA
* * *
91084657 ATATTAGAAGATATGATATTATATTCTTAGAGAT
1 ATCTTAAAAGATATGATATTATAATCTTAGAGAT
91084691 TTGATGGTAG
Statistics
Matches: 65, Mismatches: 20, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
51 65 1.00
ACGTcount: A:0.40, C:0.06, G:0.12, T:0.41
Consensus pattern (51 bp):
ATCTTAAAAGATATGATATTATAATCTTAGAGATCTTAGATAAGATATGGA
Found at i:91086540 original size:96 final size:96
Alignment explanation
Indices: 91086374--91086659 Score: 484
Period size: 96 Copynumber: 3.0 Consensus size: 96
91086364 GTGTCCGAGG
* * * * *
91086374 AAGTCTGTTATCG-ATGGGAATGATCGAACAGATACGGAGCCCAAGAAGCTTGGTTCGAGCAAGG
1 AAGTCTGTTATCGTA-GGGAACGATGGAGCAGACAAGGAGCCCAAGAAGCTTGGTTCGAGCAAGG
*
91086438 GAAAAGCCGAAGCCAAGAGGGCAAAGAGGAGC
65 GTAAAGCCGAAGCCAAGAGGGCAAAGAGGAGC
91086470 AAGTCTGTTATCGTAGGGAACGATGGAGCAGACAAGGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
1 AAGTCTGTTATCGTAGGGAACGATGGAGCAGACAAGGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
91086535 TAAAGCCGAAGCCAAGAGGGCAAAGAGGAGC
66 TAAAGCCGAAGCCAAGAGGGCAAAGAGGAGC
91086566 AAGTCTGTTATCGTAGGGAACGATGGAGCAGACAAGGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
1 AAGTCTGTTATCGTAGGGAACGATGGAGCAGACAAGGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
* *
91086631 TAAAGCCGAAACCAAGAGGGCTAAGAGGA
66 TAAAGCCGAAGCCAAGAGGGCAAAGAGGA
91086660 AAGTGCTTCT
Statistics
Matches: 181, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
96 180 0.99
97 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.34, T:0.13
Consensus pattern (96 bp):
AAGTCTGTTATCGTAGGGAACGATGGAGCAGACAAGGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
TAAAGCCGAAGCCAAGAGGGCAAAGAGGAGC
Found at i:91087597 original size:51 final size:51
Alignment explanation
Indices: 91087535--91087670 Score: 146
Period size: 51 Copynumber: 2.7 Consensus size: 51
91087525 TTGAAACATG
*
91087535 ATCTTAAAAGATATGATATTATAATCTTAGAGATCTTAGATATGATATGGA
1 ATCTTAAAAGATATGATATTATAATCTTAGAGATCTTAGATAAGATATGGA
* * * ** * * ** *
91087586 ATCTTATAAGATATTATTTTATAAGATTACATATCTTATCTAAGATATGTA
1 ATCTTAAAAGATATGATATTATAATCTTAGAGATCTTAGATAAGATATGGA
* * *
91087637 ATATTAGAAGATATGATATTATATTCTTAGAGAT
1 ATCTTAAAAGATATGATATTATAATCTTAGAGAT
91087671 TTGATGGTAG
Statistics
Matches: 65, Mismatches: 20, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
51 65 1.00
ACGTcount: A:0.40, C:0.06, G:0.12, T:0.41
Consensus pattern (51 bp):
ATCTTAAAAGATATGATATTATAATCTTAGAGATCTTAGATAAGATATGGA
Found at i:91089169 original size:40 final size:40
Alignment explanation
Indices: 91089111--91089187 Score: 93
Period size: 40 Copynumber: 1.9 Consensus size: 40
91089101 ACATACCATG
*
91089111 TGGGGATAGAATCGACCCA-CCTAACCCTACACACCAAGTA
1 TGGGGATAGAATCAACCCATCC-AACCCTACACACCAAGTA
* * **
91089151 TGGGGATATAGTCAACCCATCCAGGCCTACACACCAA
1 TGGGGATAGAATCAACCCATCCAACCCTACACACCAA
91089188 AAGGTACCGT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
40 29 0.94
41 2 0.06
ACGTcount: A:0.34, C:0.32, G:0.18, T:0.16
Consensus pattern (40 bp):
TGGGGATAGAATCAACCCATCCAACCCTACACACCAAGTA
Found at i:91090021 original size:29 final size:29
Alignment explanation
Indices: 91089989--91090047 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
91089979 AAACTAACAA
* *
91089989 CAGTCTACCTTTAACGAAAAACGGCAGTT
1 CAGTCTACCTTTAAAGAAAAACGACAGTT
*
91090018 CAGTCTACCTTTAAAGAACAACGACAGTT
1 CAGTCTACCTTTAAAGAAAAACGACAGTT
91090047 C
1 C
91090048 CTTACTGATT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.36, C:0.25, G:0.15, T:0.24
Consensus pattern (29 bp):
CAGTCTACCTTTAAAGAAAAACGACAGTT
Found at i:91091576 original size:19 final size:18
Alignment explanation
Indices: 91091545--91091580 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
91091535 TATATATATG
91091545 CATGTATTAAAAAATAAC
1 CATGTATTAAAAAATAAC
*
91091563 CATGATATTTAAAAATAA
1 CATG-TATTAAAAAATAA
91091581 TTATTAACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.56, C:0.08, G:0.06, T:0.31
Consensus pattern (18 bp):
CATGTATTAAAAAATAAC
Found at i:91091801 original size:18 final size:18
Alignment explanation
Indices: 91091757--91091801 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
91091747 AAAGTACTAC
91091757 TAAATATAACAATAATGA
1 TAAATATAACAATAATGA
**
91091775 T-AATAATAAGTATAATGA
1 TAAAT-ATAACAATAATGA
91091793 TAAATATAA
1 TAAATATAA
91091802 TGATATACAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
17 3 0.13
18 17 0.74
19 3 0.13
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.31
Consensus pattern (18 bp):
TAAATATAACAATAATGA
Found at i:91091842 original size:17 final size:17
Alignment explanation
Indices: 91091794--91091847 Score: 63
Period size: 19 Copynumber: 2.9 Consensus size: 17
91091784 GTATAATGAT
*
91091794 AAATATAATGATATACAAA
1 AAATAT-AT-ATATACACA
91091813 AAATAATACTATATACACA
1 AAAT-ATA-TATATACACA
91091832 AAATATATATATACAC
1 AAATATATATATACAC
91091848 GTATAGTAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
17 9 0.28
18 3 0.09
19 17 0.53
20 3 0.09
ACGTcount: A:0.59, C:0.11, G:0.02, T:0.28
Consensus pattern (17 bp):
AAATATATATATACACA
Found at i:91091917 original size:21 final size:21
Alignment explanation
Indices: 91091868--91091917 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
91091858 ATATATGTAT
* *
91091868 TAATATTAACAATAAATATAA
1 TAATAATAAAAATAAATATAA
**
91091889 TAGGAATAAAAATAAATATAA
1 TAATAATAAAAATAAATATAA
91091910 TAATAATA
1 TAATAATA
91091918 TATACACAAT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (21 bp):
TAATAATAAAAATAAATATAA
Found at i:91092014 original size:33 final size:34
Alignment explanation
Indices: 91091976--91092068 Score: 93
Period size: 33 Copynumber: 2.7 Consensus size: 34
91091966 GAATATGTTC
*
91091976 ATAAGATAATATA-AAATATATACATGAAATAAT
1 ATAAGATAATATACAAATATATACATGAAAAAAT
* *
91092009 ATAAGA-AATATACAACTA-ATAACATTAAAAAAT
1 ATAAGATAATATACAAATATAT-ACATGAAAAAAT
* *
91092042 ATATACATAATATATATAATATATACA
1 ATA-AGATAATATACA-AATATATACA
91092069 ATATATACAT
Statistics
Matches: 48, Mismatches: 6, Indels: 9
0.76 0.10 0.14
Matches are distributed among these distances:
32 8 0.17
33 23 0.48
34 2 0.04
35 7 0.15
36 6 0.12
37 2 0.04
ACGTcount: A:0.60, C:0.06, G:0.03, T:0.30
Consensus pattern (34 bp):
ATAAGATAATATACAAATATATACATGAAAAAAT
Found at i:91092029 original size:23 final size:22
Alignment explanation
Indices: 91091981--91092069 Score: 56
Period size: 23 Copynumber: 3.9 Consensus size: 22
91091971 TGTTCATAAG
**
91091981 ATAATATAAAATATATACATGAA
1 ATAATATAAAA-ATATACAACAA
*
91092004 ATAATATAAGAAATATACAACTA
1 ATAATATAA-AAATATACAACAA
* *
91092027 ATAACATTAAAAAATATA-TACATA
1 ATAATA-T-AAAAATATACAACA-A
*
91092051 AT-ATATATAATATATACAA
1 ATAATATA-AAAATATACAA
91092070 TATATACATT
Statistics
Matches: 51, Mismatches: 9, Indels: 12
0.71 0.12 0.17
Matches are distributed among these distances:
21 1 0.02
22 8 0.16
23 27 0.53
24 13 0.25
25 2 0.04
ACGTcount: A:0.61, C:0.07, G:0.02, T:0.30
Consensus pattern (22 bp):
ATAATATAAAAATATACAACAA
Found at i:91092076 original size:9 final size:9
Alignment explanation
Indices: 91092039--91092077 Score: 51
Period size: 9 Copynumber: 4.1 Consensus size: 9
91092029 AACATTAAAA
91092039 AATATATAC
1 AATATATAC
*
91092048 ATAATATATAT
1 --AATATATAC
91092059 AATATATAC
1 AATATATAC
91092068 AATATATAC
1 AATATATAC
91092077 A
1 A
91092078 TTTGATATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
9 18 0.69
11 8 0.31
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (9 bp):
AATATATAC
Found at i:91092160 original size:12 final size:12
Alignment explanation
Indices: 91092145--91092179 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
91092135 ATACTAATGC
91092145 TAAT-AATATTAA
1 TAATAAATA-TAA
91092157 TAATAAATATAA
1 TAATAAATATAA
91092169 TAATAAATATA
1 TAATAAATATA
91092180 TATGCATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 18 0.82
13 4 0.18
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (12 bp):
TAATAAATATAA
Found at i:91092242 original size:13 final size:13
Alignment explanation
Indices: 91092220--91092271 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
91092210 TATATAGCTA
*
91092220 AATATAATATAAT
1 AATATTATATAAT
*
91092233 AATATTATATAAA
1 AATATTATATAAT
*
91092246 AATAATACTGATAAT
1 AATATTA-T-ATAAT
*
91092261 AATACTATATA
1 AATATTATATA
91092272 TAACATGATT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
13 20 0.62
14 2 0.06
15 10 0.31
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.37
Consensus pattern (13 bp):
AATATTATATAAT
Found at i:91092274 original size:15 final size:14
Alignment explanation
Indices: 91092145--91092274 Score: 62
Period size: 15 Copynumber: 9.2 Consensus size: 14
91092135 ATACTAATGC
91092145 TAATAATAT-TA-A
1 TAATAATATATATA
91092157 TAATAA-ATATA-A
1 TAATAATATATATA
91092169 TAATAA-ATATATA
1 TAATAATATATATA
*
91092182 TGCATATAATAGTA-AGA
1 T--A-ATAATA-TATATA
* *
91092199 AACAAAATATATATA
1 TA-ATAATATATATA
*
91092214 TAGCTAA-ATATAATA
1 TA-ATAATATAT-ATA
91092229 TAATAATAT-TATA
1 TAATAATATATATA
*
91092242 TAAAAATA-ATACTGA
1 TAATAATATATA-T-A
91092257 TAATAATACTATATA
1 TAATAATA-TATATA
91092272 TAA
1 TAA
91092275 CATGATTAAT
Statistics
Matches: 91, Mismatches: 12, Indels: 27
0.70 0.09 0.21
Matches are distributed among these distances:
11 2 0.02
12 20 0.22
13 14 0.15
14 11 0.12
15 31 0.34
16 5 0.05
17 6 0.07
18 2 0.02
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.35
Consensus pattern (14 bp):
TAATAATATATATA
Found at i:91092913 original size:12 final size:12
Alignment explanation
Indices: 91092896--91092925 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
91092886 TTTCTTGTTT
91092896 TTTTTAATTATA
1 TTTTTAATTATA
91092908 TTTTTAATTATA
1 TTTTTAATTATA
91092920 TTTTTA
1 TTTTTA
91092926 TATGTTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
TTTTTAATTATA
Found at i:91092928 original size:20 final size:22
Alignment explanation
Indices: 91092903--91092942 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
91092893 TTTTTTTTAA
91092903 TTATAT-TTTTAAT-TATATTT
1 TTATATGTTTTAATATATATTT
91092923 TTATATGTTTTAATATATAT
1 TTATATGTTTTAATATATAT
91092943 ATAGGTGAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.33
21 7 0.39
22 5 0.28
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.65
Consensus pattern (22 bp):
TTATATGTTTTAATATATATTT
Found at i:91096879 original size:16 final size:16
Alignment explanation
Indices: 91096858--91096928 Score: 88
Period size: 16 Copynumber: 4.4 Consensus size: 16
91096848 TGAATTACTT
*
91096858 ATTACAGTTCTATTCC
1 ATTACAGCTCTATTCC
*
91096874 ATTACAACTCTATTCC
1 ATTACAGCTCTATTCC
*
91096890 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCC
* * *
91096906 ATTACAACCCTATTCT
1 ATTACAGCTCTATTCC
91096922 ATTACAG
1 ATTACAG
91096929 TGAACCAAAT
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.31, C:0.27, G:0.04, T:0.38
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:91096902 original size:32 final size:32
Alignment explanation
Indices: 91096858--91096928 Score: 106
Period size: 32 Copynumber: 2.2 Consensus size: 32
91096848 TGAATTACTT
* * *
91096858 ATTACAGTTCTATTCCATTACAACTCTATTCC
1 ATTACAGCTCTATTCAATTACAACCCTATTCC
*
91096890 ATTACAGCTCTATTCAATTACAACCCTATTCT
1 ATTACAGCTCTATTCAATTACAACCCTATTCC
91096922 ATTACAG
1 ATTACAG
91096929 TGAACCAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.31, C:0.27, G:0.04, T:0.38
Consensus pattern (32 bp):
ATTACAGCTCTATTCAATTACAACCCTATTCC
Found at i:91098242 original size:16 final size:16
Alignment explanation
Indices: 91098218--91098269 Score: 79
Period size: 16 Copynumber: 3.2 Consensus size: 16
91098208 TGGTTTACTA
91098218 TAATGGAATAG-GACTG
1 TAATGGAATAGAG-CTG
*
91098234 TAATTGAATAGAGCTG
1 TAATGGAATAGAGCTG
91098250 TAATGGAATAGAGCTG
1 TAATGGAATAGAGCTG
91098266 TAAT
1 TAAT
91098270 AAGTAATCCA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
16 32 0.97
17 1 0.03
ACGTcount: A:0.38, C:0.06, G:0.27, T:0.29
Consensus pattern (16 bp):
TAATGGAATAGAGCTG
Found at i:91103356 original size:13 final size:13
Alignment explanation
Indices: 91103338--91103363 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
91103328 AGACAAACGC
91103338 TCATACTTAAATT
1 TCATACTTAAATT
91103351 TCATACTTAAATT
1 TCATACTTAAATT
91103364 ACCCAACTGC
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:0.38, C:0.15, G:0.00, T:0.46
Consensus pattern (13 bp):
TCATACTTAAATT
Found at i:91110299 original size:40 final size:40
Alignment explanation
Indices: 91110255--91110359 Score: 176
Period size: 40 Copynumber: 2.6 Consensus size: 40
91110245 AATTAGGTGA
*
91110255 AAAAGAGGGAGAATGGTGGAACGAAATGGGAATCAGACTG
1 AAAAGAGGGAGAAGGGTGGAACGAAATGGGAATCAGACTG
*
91110295 AAAAGAGGGAGAAGGGTGGAATGAAATGGGAATCAGACTG
1 AAAAGAGGGAGAAGGGTGGAACGAAATGGGAATCAGACTG
*
91110335 AAAAGA-GGAGAAGGGTAGAACGAAA
1 AAAAGAGGGAGAAGGGTGGAACGAAA
91110360 GAAGGAGAAA
Statistics
Matches: 61, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
39 17 0.28
40 44 0.72
ACGTcount: A:0.46, C:0.06, G:0.38, T:0.10
Consensus pattern (40 bp):
AAAAGAGGGAGAAGGGTGGAACGAAATGGGAATCAGACTG
Found at i:91114679 original size:13 final size:13
Alignment explanation
Indices: 91114663--91114692 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
91114653 GCTTTTGAGG
*
91114663 AGTGCTTTAAAAA
1 AGTGCTATAAAAA
91114676 AGTGCTATAAAAA
1 AGTGCTATAAAAA
91114689 AGTG
1 AGTG
91114693 ATTTGAGAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.47, C:0.07, G:0.20, T:0.27
Consensus pattern (13 bp):
AGTGCTATAAAAA
Found at i:91114976 original size:20 final size:21
Alignment explanation
Indices: 91114951--91115001 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
91114941 ATCAATTATT
*
91114951 TATAAAATT-TAATTTGAATA
1 TATAAAATTATAATTTAAATA
*
91114971 TAT-AAATTATATTTTAAATA
1 TATAAAATTATAATTTAAATA
91114991 T-TAAAA-TATAA
1 TATAAAATTATAA
91115002 CCAATAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
19 10 0.38
20 16 0.62
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (21 bp):
TATAAAATTATAATTTAAATA
Found at i:91134463 original size:21 final size:21
Alignment explanation
Indices: 91134434--91134484 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
91134424 TTATGCCACA
91134434 TCAGTATTTTTATCCTGAATT
1 TCAGTATTTTTATCCTGAATT
* *
91134455 TCAGGA-TTTTATTCTGAATT
1 TCAGTATTTTTATCCTGAATT
*
91134475 TTAGTATTTT
1 TCAGTATTTT
91134485 AATTTGGATT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 17 0.68
21 8 0.32
ACGTcount: A:0.24, C:0.10, G:0.12, T:0.55
Consensus pattern (21 bp):
TCAGTATTTTTATCCTGAATT
Found at i:91135120 original size:3 final size:3
Alignment explanation
Indices: 91135112--91135149 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
91135102 CTTCATTCTT
91135112 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
91135150 TTGGTTTCAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:91135946 original size:33 final size:33
Alignment explanation
Indices: 91135909--91135976 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
91135899 CTTTAGCCGC
91135909 CGCATACCCCTCAGCCTTGGC-CACCACGCCCCA
1 CGCATACCCCTCAGCCTT-GCTCACCACGCCCCA
* *
91135942 CGCATGCCCCTCAGCCTTGCTCACCACGCTCCA
1 CGCATACCCCTCAGCCTTGCTCACCACGCCCCA
91135975 CG
1 CG
91135977 TGTCTGACAC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
32 2 0.06
33 30 0.94
ACGTcount: A:0.16, C:0.53, G:0.16, T:0.15
Consensus pattern (33 bp):
CGCATACCCCTCAGCCTTGCTCACCACGCCCCA
Found at i:91137056 original size:12 final size:12
Alignment explanation
Indices: 91137039--91137064 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
91137029 TTTTTTGTTG
91137039 TTTATATTTTTA
1 TTTATATTTTTA
91137051 TTTATATTTTTA
1 TTTATATTTTTA
91137063 TT
1 TT
91137065 AGTATCATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTATATTTTTA
Found at i:91137079 original size:3 final size:3
Alignment explanation
Indices: 91137055--91137118 Score: 65
Period size: 3 Copynumber: 20.3 Consensus size: 3
91137045 TTTTTATTTA
* * * *
91137055 TAT TTT TAT TAG TAT CAT TAT TAT TAT TAT TAT TAT CTCCAT TAC TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -T--AT TAT TAT
91137103 TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT T
91137119 CTCTTGTTAT
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
3 46 0.92
4 1 0.02
5 1 0.02
6 2 0.04
ACGTcount: A:0.30, C:0.08, G:0.02, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:91137473 original size:15 final size:15
Alignment explanation
Indices: 91137453--91137483 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
91137443 TATTATTTTC
91137453 TATTTATTACTATTA
1 TATTTATTACTATTA
91137468 TATTTATTACTATTA
1 TATTTATTACTATTA
91137483 T
1 T
91137484 TAATATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.61
Consensus pattern (15 bp):
TATTTATTACTATTA
Found at i:91137585 original size:15 final size:15
Alignment explanation
Indices: 91137567--91137603 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
91137557 CCCACTTAGC
91137567 TATTATTACTATTAT
1 TATTATTACTATTAT
*
91137582 TATTTTTACTATTAT
1 TATTATTACTATTAT
*
91137597 AATTATT
1 TATTATT
91137604 NNNNNNNNNN
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.62
Consensus pattern (15 bp):
TATTATTACTATTAT
Found at i:91139683 original size:44 final size:43
Alignment explanation
Indices: 91139565--91140118 Score: 588
Period size: 44 Copynumber: 12.5 Consensus size: 43
91139555 ACTTCCTACA
** * * *
91139565 AATATAGGAAGGTAGGATCTGCTATCTTTGATCTACTTCACGCC
1 AATATAGGAAGACAAGATCTGC-ATCTTCGATCTACTTCACACC
* * * * * *
91139609 AATACATGAAGACAAGACCTGCTTTCTTCGATCCACTTCGCCACC
1 AATATAGGAAGACAAGATCTGC-ATCTTCGATCTACTTC-ACACC
* *
91139654 AATATGGGAAGACAAGATCTGCATCTTCGATCCACTTC-CTACC
1 AATATAGGAAGACAAGATCTGCATCTTCGATCTACTTCAC-ACC
* * * * *
91139697 AATATAGGAAGATAGGACCTGATATCTTCGATCTACTTCACGCC
1 AATATAGGAAGACAAGATCTG-CATCTTCGATCTACTTCACACC
* * *
91139741 AATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGACACC
1 AATATAGGAAGACAAGATCTGC-ATCTTCGATCTACTTC-ACACC
* *
91139786 AATATAGGAAGACAAGATCTGATATCTTCGATCTACTTCACGCC
1 AATATAGGAAGACAAGATCTG-CATCTTCGATCTACTTCACACC
* * *
91139830 AATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGACACC
1 AATATAGGAAGACAAGATCTGC-ATCTTCGATCTACTTC-ACACC
* *
91139875 AATATAGGAAGACAAGATCTGATATCTTCGATCTACTTCACGCC
1 AATATAGGAAGACAAGATCTG-CATCTTCGATCTACTTCACACC
* * *
91139919 AATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGACACC
1 AATATAGGAAGACAAGATCTGC-ATCTTCGATCTACTTC-ACACC
* *
91139964 AATATAGGAAGACAAGATCTGATATCTTCGATCTACTTCACGCC
1 AATATAGGAAGACAAGATCTG-CATCTTCGATCTACTTCACACC
* * *
91140008 AATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGACACC
1 AATATAGGAAGACAAGATCTGC-ATCTTCGATCTACTTC-ACACC
* *
91140053 AATATAGGAAGACAAGATCTGATATCTTCGATCTACTTCACGCC
1 AATATAGGAAGACAAGATCTG-CATCTTCGATCTACTTCACACC
* *
91140097 AATACATGAAGACAAGATCTGC
1 AATATAGGAAGACAAGATCTGC
91140119 TTTAATGACT
Statistics
Matches: 425, Mismatches: 69, Indels: 33
0.81 0.13 0.06
Matches are distributed among these distances:
42 1 0.00
43 20 0.05
44 230 0.54
45 174 0.41
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (43 bp):
AATATAGGAAGACAAGATCTGCATCTTCGATCTACTTCACACC
Found at i:91139816 original size:89 final size:89
Alignment explanation
Indices: 91139580--91140121 Score: 867
Period size: 89 Copynumber: 6.1 Consensus size: 89
91139570 AGGAAGGTAG
* * * * * * * * *
91139580 GATCTGCTATCTTTGATCTACTTC-ACGCCAATACATGAAGACAAGACCTGCTTTCTTCGATCCA
1 GATCTGCTTTCTTCGATCTACTTCGACACCAATATAGGAAGACAAGATCTGATATCTTCGATCTA
* * ***
91139644 CTTCGCCACCAATATGGGAAGACAA
66 CTTC-ACGCCAATACATGAAGACAA
* * * * *
91139669 GATCTGC-ATCTTCGATCCACTTC--CTACCAATATAGGAAGATAGGACCTGATATCTTCGATCT
1 GATCTGCTTTCTTCGATCTACTTCGAC-ACCAATATAGGAAGACAAGATCTGATATCTTCGATCT
91139731 ACTTCACGCCAATACATGAAGACAA
65 ACTTCACGCCAATACATGAAGACAA
91139756 GATCTGCTTTCTTCGATCTACTTCGACACCAATATAGGAAGACAAGATCTGATATCTTCGATCTA
1 GATCTGCTTTCTTCGATCTACTTCGACACCAATATAGGAAGACAAGATCTGATATCTTCGATCTA
91139821 CTTCACGCCAATACATGAAGACAA
66 CTTCACGCCAATACATGAAGACAA
91139845 GATCTGCTTTCTTCGATCTACTTCGACACCAATATAGGAAGACAAGATCTGATATCTTCGATCTA
1 GATCTGCTTTCTTCGATCTACTTCGACACCAATATAGGAAGACAAGATCTGATATCTTCGATCTA
91139910 CTTCACGCCAATACATGAAGACAA
66 CTTCACGCCAATACATGAAGACAA
91139934 GATCTGCTTTCTTCGATCTACTTCGACACCAATATAGGAAGACAAGATCTGATATCTTCGATCTA
1 GATCTGCTTTCTTCGATCTACTTCGACACCAATATAGGAAGACAAGATCTGATATCTTCGATCTA
91139999 CTTCACGCCAATACATGAAGACAA
66 CTTCACGCCAATACATGAAGACAA
91140023 GATCTGCTTTCTTCGATCTACTTCGACACCAATATAGGAAGACAAGATCTGATATCTTCGATCTA
1 GATCTGCTTTCTTCGATCTACTTCGACACCAATATAGGAAGACAAGATCTGATATCTTCGATCTA
91140088 CTTCACGCCAATACATGAAGACAA
66 CTTCACGCCAATACATGAAGACAA
91140112 GATCTGCTTT
1 GATCTGCTTT
91140122 AATGACTTCA
Statistics
Matches: 429, Mismatches: 20, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
87 23 0.05
88 62 0.14
89 343 0.80
90 1 0.00
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (89 bp):
GATCTGCTTTCTTCGATCTACTTCGACACCAATATAGGAAGACAAGATCTGATATCTTCGATCTA
CTTCACGCCAATACATGAAGACAA
Found at i:91141603 original size:37 final size:37
Alignment explanation
Indices: 91141553--91141627 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
91141543 TCTCAGTCAT
91141553 TTTCCCCACAATCTTTTTGATATTTTTATTGGCTGCC
1 TTTCCCCACAATCTTTTTGATATTTTTATTGGCTGCC
*
91141590 TTTCCCTACAATCTTTTTGATATTTTTATTGGCTGCC
1 TTTCCCCACAATCTTTTTGATATTTTTATTGGCTGCC
91141627 T
1 T
91141628 CCACCGCACC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.16, C:0.23, G:0.11, T:0.51
Consensus pattern (37 bp):
TTTCCCCACAATCTTTTTGATATTTTTATTGGCTGCC
Found at i:91170260 original size:18 final size:18
Alignment explanation
Indices: 91170237--91170271 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
91170227 GAATTGAGTC
*
91170237 GATAAAATAATTTAATTA
1 GATAAAATAATTAAATTA
*
91170255 GATAAATTAATTAAATT
1 GATAAAATAATTAAATT
91170272 TATTTGAAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (18 bp):
GATAAAATAATTAAATTA
Found at i:91170296 original size:24 final size:24
Alignment explanation
Indices: 91170256--91170322 Score: 61
Period size: 23 Copynumber: 2.9 Consensus size: 24
91170246 ATTTAATTAG
* *
91170256 ATAAATTAATTAA-ATTTATTTGAA
1 ATAAA-TAAATAATATTTATTGGAA
*
91170280 ATAAATAAATAATATTT-TGGGAA
1 ATAAATAAATAATATTTATTGGAA
*
91170303 ATAGA-AAA-AATATTTATTGG
1 ATAAATAAATAATATTTATTGG
91170323 GTTGGATGAA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
21 7 0.19
22 6 0.17
23 14 0.39
24 9 0.25
ACGTcount: A:0.51, C:0.00, G:0.10, T:0.39
Consensus pattern (24 bp):
ATAAATAAATAATATTTATTGGAA
Found at i:91171437 original size:33 final size:33
Alignment explanation
Indices: 91171398--91171463 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
91171388 ACACAAAAAA
91171398 CATAGAATGCTATTTAGGGCCTCTTAGTGTTTT
1 CATAGAATGCTATTTAGGGCCTCTTAGTGTTTT
91171431 CATAGAATGCTATTTAGGGCCTCTTAGTGTTTT
1 CATAGAATGCTATTTAGGGCCTCTTAGTGTTTT
91171464 AGGCAAGGCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.21, C:0.15, G:0.21, T:0.42
Consensus pattern (33 bp):
CATAGAATGCTATTTAGGGCCTCTTAGTGTTTT
Found at i:91174337 original size:198 final size:198
Alignment explanation
Indices: 91173999--91174398 Score: 800
Period size: 198 Copynumber: 2.0 Consensus size: 198
91173989 AACTAAATCC
91173999 CCTAAATACCTAAGGGGGATGAAACCTAAGACGGATCTTGTTACTATTTTCTGAATTATATGATA
1 CCTAAATACCTAAGGGGGATGAAACCTAAGACGGATCTTGTTACTATTTTCTGAATTATATGATA
91174064 AATACTTGATTTGTTCTTAATTCTTGCTTTAATATTCCAGAATATTGATTCAAGTGTTGATGTGC
66 AATACTTGATTTGTTCTTAATTCTTGCTTTAATATTCCAGAATATTGATTCAAGTGTTGATGTGC
91174129 TTATTCAGAGGAGCAAAAGTCCCGGTCTAAGAGTAGATCTAGCATAATTAAGCGGAGTTGATTGC
131 TTATTCAGAGGAGCAAAAGTCCCGGTCTAAGAGTAGATCTAGCATAATTAAGCGGAGTTGATTGC
91174194 ACT
196 ACT
91174197 CCTAAATACCTAAGGGGGATGAAACCTAAGACGGATCTTGTTACTATTTTCTGAATTATATGATA
1 CCTAAATACCTAAGGGGGATGAAACCTAAGACGGATCTTGTTACTATTTTCTGAATTATATGATA
91174262 AATACTTGATTTGTTCTTAATTCTTGCTTTAATATTCCAGAATATTGATTCAAGTGTTGATGTGC
66 AATACTTGATTTGTTCTTAATTCTTGCTTTAATATTCCAGAATATTGATTCAAGTGTTGATGTGC
91174327 TTATTCAGAGGAGCAAAAGTCCCGGTCTAAGAGTAGATCTAGCATAATTAAGCGGAGTTGATTGC
131 TTATTCAGAGGAGCAAAAGTCCCGGTCTAAGAGTAGATCTAGCATAATTAAGCGGAGTTGATTGC
91174392 ACT
196 ACT
91174395 CCTA
1 CCTA
91174399 GACATAGGAC
Statistics
Matches: 202, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
198 202 1.00
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.35
Consensus pattern (198 bp):
CCTAAATACCTAAGGGGGATGAAACCTAAGACGGATCTTGTTACTATTTTCTGAATTATATGATA
AATACTTGATTTGTTCTTAATTCTTGCTTTAATATTCCAGAATATTGATTCAAGTGTTGATGTGC
TTATTCAGAGGAGCAAAAGTCCCGGTCTAAGAGTAGATCTAGCATAATTAAGCGGAGTTGATTGC
ACT
Found at i:91180116 original size:25 final size:26
Alignment explanation
Indices: 91180067--91180118 Score: 72
Period size: 25 Copynumber: 2.0 Consensus size: 26
91180057 ATTTTTGAAG
*
91180067 ACTTTTATTTATTATTTATTATTTTT
1 ACTTTTATCTATTATTTATTATTTTT
91180093 ACTTTTATCT-TTATTTATCT-TTTTT
1 ACTTTTATCTATTATTTAT-TATTTTT
91180118 A
1 A
91180119 AATTACTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
25 14 0.58
26 10 0.42
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.71
Consensus pattern (26 bp):
ACTTTTATCTATTATTTATTATTTTT
Found at i:91185322 original size:23 final size:23
Alignment explanation
Indices: 91185246--91185322 Score: 86
Period size: 22 Copynumber: 3.3 Consensus size: 23
91185236 TTGATAAACA
* *
91185246 GTAAGCTCTATTGAGCAGAAAACG
1 GTAAGCTCTATTGAGCTG-AATCG
*
91185270 GTAAGCTCTATTGAGCTGAAT-A
1 GTAAGCTCTATTGAGCTGAATCG
*
91185292 GTAAGCTCT-TTCGAGTTGAATCG
1 GTAAGCTCTATT-GAGCTGAATCG
91185315 GTAAGCTC
1 GTAAGCTC
91185323 CGATGAGCTG
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
21 2 0.04
22 17 0.37
23 10 0.22
24 17 0.37
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.29
Consensus pattern (23 bp):
GTAAGCTCTATTGAGCTGAATCG
Found at i:91187537 original size:36 final size:36
Alignment explanation
Indices: 91187490--91187562 Score: 112
Period size: 36 Copynumber: 2.0 Consensus size: 36
91187480 TATTTCCCAT
* *
91187490 CTTTCTTACCTTTCA-CCAGGAGCTTTCACTATTCAC
1 CTTTCTTACCTTTCAGCAAGGA-CTTTCACTATCCAC
91187526 CTTTCTTACCTTTCAGCAAGGACTTTCACTATCCAC
1 CTTTCTTACCTTTCAGCAAGGACTTTCACTATCCAC
91187562 C
1 C
91187563 ACTTTTCTTG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
36 29 0.85
37 5 0.15
ACGTcount: A:0.21, C:0.34, G:0.08, T:0.37
Consensus pattern (36 bp):
CTTTCTTACCTTTCAGCAAGGACTTTCACTATCCAC
Found at i:91193877 original size:9 final size:9
Alignment explanation
Indices: 91193865--91193919 Score: 65
Period size: 9 Copynumber: 5.7 Consensus size: 9
91193855 ATAAGAAAAG
91193865 TAAATTAAA
1 TAAATTAAA
*
91193874 TAAATTTAA
1 TAAATTAAA
91193883 TAAATTTTATCAA
1 TAAA--TTA--AA
91193896 TAAATTAAA
1 TAAATTAAA
91193905 TAAATTAAA
1 TAAATTAAA
91193914 TAAATT
1 TAAATT
91193920 TTATCCCTCC
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
9 29 0.73
11 5 0.12
13 6 0.15
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (9 bp):
TAAATTAAA
Found at i:91193900 original size:31 final size:31
Alignment explanation
Indices: 91193865--91193924 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
91193855 ATAAGAAAAG
*
91193865 TAAATTAAATAAATTTAATAAATTTTATCAA
1 TAAATTAAATAAATTAAATAAATTTTATCAA
91193896 TAAATTAAATAAATTAAATAAATTTTATC
1 TAAATTAAATAAATTAAATAAATTTTATC
91193925 CCTCCAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (31 bp):
TAAATTAAATAAATTAAATAAATTTTATCAA
Found at i:91212357 original size:47 final size:47
Alignment explanation
Indices: 91212276--91212439 Score: 167
Period size: 47 Copynumber: 3.5 Consensus size: 47
91212266 GCCGATGCCG
* * * *
91212276 TGTCCCAGACACGGTCTTACACAGGCTTAT-ATCTCAAGTTGAAGCCA
1 TGTCCCAGACATGGTCTTACACTGAC-TATCATCTCAAGTCGAAGCCA
* *
91212323 TGTCCAAGACATGGTCTTACACTGACTATCATCTCATAGTCGACG-CA
1 TGTCCCAGACATGGTCTTACACTGACTATCATCTCA-AGTCGAAGCCA
* *
91212370 TGTCCCAGACAT-GTCTTACACT-AGC-ACTCGTCTCAATGTCGATGCCA
1 TGTCCCAGACATGGTCTTACACTGA-CTA-TCATCTCAA-GTCGAAGCCA
*
91212417 TGTCCTAGACATGGTCTTACACT
1 TGTCCCAGACATGGTCTTACACT
91212440 AGCTCTCACA
Statistics
Matches: 100, Mismatches: 10, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
45 3 0.03
46 27 0.27
47 54 0.54
48 16 0.16
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.28
Consensus pattern (47 bp):
TGTCCCAGACATGGTCTTACACTGACTATCATCTCAAGTCGAAGCCA
Found at i:91223314 original size:37 final size:37
Alignment explanation
Indices: 91223264--91223346 Score: 148
Period size: 37 Copynumber: 2.2 Consensus size: 37
91223254 CAGCCACAAT
*
91223264 AAACAACATTCCATTTGTGTATTTTACTCATCTATGA
1 AAACAACATTCCATTTGTGCATTTTACTCATCTATGA
91223301 AAACAACATTCCATTTGTGCATTTTACTCATCTATGA
1 AAACAACATTCCATTTGTGCATTTTACTCATCTATGA
*
91223338 AAATAACAT
1 AAACAACAT
91223347 CTTGGTATAT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 44 1.00
ACGTcount: A:0.36, C:0.19, G:0.07, T:0.37
Consensus pattern (37 bp):
AAACAACATTCCATTTGTGCATTTTACTCATCTATGA
Found at i:91226149 original size:72 final size:72
Alignment explanation
Indices: 91226057--91226221 Score: 330
Period size: 72 Copynumber: 2.3 Consensus size: 72
91226047 AATTTATCTT
91226057 GTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACACATGCGACCTAGCTACATTTATC
1 GTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACACATGCGACCTAGCTACATTTATC
91226122 CTCTCCC
66 CTCTCCC
91226129 GTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACACATGCGACCTAGCTACATTTATC
1 GTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACACATGCGACCTAGCTACATTTATC
91226194 CTCTCCC
66 CTCTCCC
91226201 GTAGCTCTCTTGTCTACATGG
1 GTAGCTCTCTTGTCTACATGG
91226222 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 93 1.00
ACGTcount: A:0.19, C:0.31, G:0.16, T:0.34
Consensus pattern (72 bp):
GTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACACATGCGACCTAGCTACATTTATC
CTCTCCC
Found at i:91226260 original size:72 final size:71
Alignment explanation
Indices: 91226057--91226255 Score: 287
Period size: 72 Copynumber: 2.8 Consensus size: 71
91226047 AATTTATCTT
* * *
91226057 GTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACACATGCGACCTAGCTACATTTATC
1 GTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTATC
91226122 CTCTCCC
65 CTCTCCC
* * *
91226129 GTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACACATGCGACCTAGCTACATTTATC
1 GTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTATC
91226194 CTCTCCC
65 CTCTCCC
*
91226201 GTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGCGACCTAGCTAC
1 GTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
91226256 TACATAGTAT
Statistics
Matches: 122, Mismatches: 4, Indels: 5
0.93 0.03 0.04
Matches are distributed among these distances:
69 24 0.20
70 1 0.01
71 1 0.01
72 96 0.79
ACGTcount: A:0.21, C:0.31, G:0.16, T:0.32
Consensus pattern (71 bp):
GTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATCC
TCTCCC
Found at i:91233766 original size:72 final size:71
Alignment explanation
Indices: 91233630--91233788 Score: 171
Period size: 72 Copynumber: 2.3 Consensus size: 71
91233620 CTAGCCAATT
* * * * * *
91233630 TATCTCGTAGCTCTCTTGTCTACATGGTATCCTTCACTTGGAATCACACATGTGACCTAGCTACA
1 TATCCCGTAGCTCTCTTGTCTACATGGGATACATCAC-TCGAATCACACATGCGACCTAGCTACA
91233695 TTTATCC
65 TTTATCC
* *
91233702 TATCCCGTAGCTCTCTTGTCTACATGGGATACATC-C-CGTATCTCACATGCGACCTAGCTAC-T
1 TATCCCGTAGCTCTCTTGTCTACATGGGATACATCACTCGAATCACACATGCGACCTAGCTACAT
** **
91233764 ACATAG
66 TTATCC
*
91233770 TATCTCGTAGCTCTCTTGT
1 TATCCCGTAGCTCTCTTGT
91233789 ACACATGATG
Statistics
Matches: 74, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
68 21 0.28
69 21 0.28
71 1 0.01
72 31 0.42
ACGTcount: A:0.21, C:0.29, G:0.15, T:0.35
Consensus pattern (71 bp):
TATCCCGTAGCTCTCTTGTCTACATGGGATACATCACTCGAATCACACATGCGACCTAGCTACAT
TTATCC
Found at i:91234435 original size:77 final size:77
Alignment explanation
Indices: 91234308--91234461 Score: 299
Period size: 77 Copynumber: 2.0 Consensus size: 77
91234298 AACATGCACT
91234308 TATGACCATTAGGTATTTTTACCGATTATACTGTTTTGCTCGTTTTCGCTAAAAATAGCTTAGAA
1 TATGACCATTAGGTATTTTTACCGATTATACTGTTTTGCTCGTTTTCGCTAAAAATAGCTTAGAA
91234373 AAGATCGTTCTC
66 AAGATCGTTCTC
*
91234385 TATGACCATTAGGTATTTTTACCGATTATACTGTTTTGCTCGTTTTCGCTAAAAATCGCTTAGAA
1 TATGACCATTAGGTATTTTTACCGATTATACTGTTTTGCTCGTTTTCGCTAAAAATAGCTTAGAA
91234450 AAGATCGTTCTC
66 AAGATCGTTCTC
91234462 CTAACCTCAA
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
77 76 1.00
ACGTcount: A:0.27, C:0.18, G:0.16, T:0.40
Consensus pattern (77 bp):
TATGACCATTAGGTATTTTTACCGATTATACTGTTTTGCTCGTTTTCGCTAAAAATAGCTTAGAA
AAGATCGTTCTC
Found at i:91245788 original size:42 final size:43
Alignment explanation
Indices: 91245692--91245790 Score: 121
Period size: 42 Copynumber: 2.3 Consensus size: 43
91245682 GCCAACTTCT
* * *
91245692 CAGACGTGGTCTTACATGTAATCAAACATCGATACCACTGTCC
1 CAGACATGGTCTTACATGAAATCAAACATCGATACCAATGTCC
* * *
91245735 CAGACAAGGTCTTACATGAAATCATATA-CGA-AGCCAATGTCC
1 CAGACATGGTCTTACATGAAATCAAACATCGATA-CCAATGTCC
91245777 CAGACATGGTCTTA
1 CAGACATGGTCTTA
91245791 TATGTAAAAT
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
41 1 0.02
42 24 0.50
43 23 0.48
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.24
Consensus pattern (43 bp):
CAGACATGGTCTTACATGAAATCAAACATCGATACCAATGTCC
Found at i:91248366 original size:12 final size:12
Alignment explanation
Indices: 91248343--91248383 Score: 66
Period size: 12 Copynumber: 3.5 Consensus size: 12
91248333 GTCAGGCTTT
91248343 ACACGG-CTAGC
1 ACACGGCCTAGC
91248354 ACACGGCCTAGC
1 ACACGGCCTAGC
*
91248366 ACACGGCCTAAC
1 ACACGGCCTAGC
91248378 ACACGG
1 ACACGG
91248384 GAGTGTGAGG
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
11 6 0.21
12 22 0.79
ACGTcount: A:0.29, C:0.39, G:0.24, T:0.07
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:91257215 original size:2 final size:2
Alignment explanation
Indices: 91257208--91257235 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
91257198 AGCTTTCTTT
91257208 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
91257236 AAGTCATCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:91257584 original size:29 final size:29
Alignment explanation
Indices: 91257550--91257624 Score: 132
Period size: 29 Copynumber: 2.6 Consensus size: 29
91257540 TCATATTACA
91257550 TTTTAGTCACTTATGTTTGAAATGCTATG
1 TTTTAGTCACTTATGTTTGAAATGCTATG
*
91257579 TTTTAGTCACTTATGTTTGAAATGTTATG
1 TTTTAGTCACTTATGTTTGAAATGCTATG
*
91257608 ATTTAGTCACTTATGTT
1 TTTTAGTCACTTATGTT
91257625 ATCGTTTTAT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.24, C:0.09, G:0.16, T:0.51
Consensus pattern (29 bp):
TTTTAGTCACTTATGTTTGAAATGCTATG
Found at i:91262089 original size:12 final size:13
Alignment explanation
Indices: 91262072--91262100 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
91262062 TTGTGAAAAT
91262072 AAAAT-AAAATAA
1 AAAATAAAAATAA
91262084 AAAATAAAAATAA
1 AAAATAAAAATAA
91262097 AAAA
1 AAAA
91262101 CACAAAGATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.31
13 11 0.69
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (13 bp):
AAAATAAAAATAA
Found at i:91270844 original size:23 final size:23
Alignment explanation
Indices: 91270818--91270862 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
91270808 TGGGTATGTG
* * *
91270818 ATGACGTTATTTTATAAATATGC
1 ATGAAGTTATCTTAAAAATATGC
*
91270841 ATGAATTTATCTTAAAAATATG
1 ATGAAGTTATCTTAAAAATATG
91270863 TTGAATTGGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.40, C:0.07, G:0.11, T:0.42
Consensus pattern (23 bp):
ATGAAGTTATCTTAAAAATATGC
Found at i:91273901 original size:40 final size:37
Alignment explanation
Indices: 91273817--91273908 Score: 103
Period size: 40 Copynumber: 2.4 Consensus size: 37
91273807 ACCAGCTCCG
* * * *
91273817 ACCAACCCAACACACCATGTGGGGATAGAATCGACTC
1 ACCAACCCTACACACCATATGGGGATAGAATCAACCC
*
91273854 ACTCAACCCTACACACCAAGTATGGGGATATAATCAACCC
1 AC-CAACCCTACACACC-A-TATGGGGATAGAATCAACCC
91273894 ATCCAACCCTACACA
1 A-CCAACCCTACACA
91273909 TCAAAAGGTA
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
37 2 0.04
38 13 0.28
39 1 0.02
40 29 0.63
41 1 0.02
ACGTcount: A:0.37, C:0.35, G:0.13, T:0.15
Consensus pattern (37 bp):
ACCAACCCTACACACCATATGGGGATAGAATCAACCC
Done.