Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005606.1 Hibiscus syriacus cultivar Beakdansim tig00013040_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: 3509357
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 11
Found at i:633098 original size:34 final size:34
Alignment explanation
Indices: 632989--633176 Score: 145
Period size: 34 Copynumber: 5.4 Consensus size: 34
632979 AAAAAAGTTA
* * *
632989 CTTG-AAAATTTTGTCTCACTTGAGAAAATTTCT
1 CTTGAAAAATTTTATCTCACTTGAGATATTTTCT
* *
633022 CTTGAAACAAAAATTTTATTTC-CTTTGAGATATTTTCC
1 CTTG----AAAAATTTTATCTCAC-TTGAGATATTTTCT
** *
633060 CTTGAAATTTTTTGTCTCACTTGAGAT-TGTTTCT
1 CTTGAAAAATTTTATCTCACTTGAGATAT-TTTCT
* *
633094 CTTGAAATAAAATTGTATCTCCCTTGAGATA-TTTC-
1 CTTG--A-AAAATTTTATCTCACTTGAGATATTTTCT
633129 CATTG-AAAATTTTCATCTCACTTGAGATATTTTCT
1 C-TTGAAAAATTTT-ATCTCACTTGAGATATTTTCT
633164 CTTGAAAAATTTT
1 CTTGAAAAATTTT
633177 GTCCTACTCT
Statistics
Matches: 121, Mismatches: 17, Indels: 32
0.71 0.10 0.19
Matches are distributed among these distances:
32 7 0.06
33 19 0.16
34 32 0.26
35 11 0.09
36 8 0.07
37 18 0.15
38 26 0.21
ACGTcount: A:0.29, C:0.15, G:0.11, T:0.45
Consensus pattern (34 bp):
CTTGAAAAATTTTATCTCACTTGAGATATTTTCT
Found at i:633163 original size:70 final size:71
Alignment explanation
Indices: 632990--633170 Score: 233
Period size: 70 Copynumber: 2.5 Consensus size: 71
632980 AAAAAGTTAC
* * * * *
632990 TTGAAAATTTTGTCTCACTTGAGAAAATTTCTCTTGAAACAAAAATTTTATTTCCTTTGAGATAT
1 TTGAAAATTTTGTCTCACTTGAGATATTTTCTCTTGAAACAAAAATTGTATCTCCCTTGAGATAT
*
633055 TTTCCC
66 TTTCCA
* *
633061 TTGAAATTTTTTGTCTCACTTGAGAT-TGTTTCTCTTGAAA-TAAAATTGTATCTCCCTTGAGAT
1 TTGAAA-ATTTTGTCTCACTTGAGATAT-TTTCTCTTGAAACAAAAATTGTATCTCCCTTGAGAT
633124 A-TTTCCA
64 ATTTTCCA
*
633131 TTGAAAATTTTCATCTCACTTGAGATATTTTCTCTTGAAA
1 TTGAAAATTTT-GTCTCACTTGAGATATTTTCTCTTGAAA
633171 AATTTTGTCC
Statistics
Matches: 96, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
69 4 0.04
70 36 0.38
71 27 0.28
72 29 0.30
ACGTcount: A:0.29, C:0.15, G:0.11, T:0.45
Consensus pattern (71 bp):
TTGAAAATTTTGTCTCACTTGAGATATTTTCTCTTGAAACAAAAATTGTATCTCCCTTGAGATAT
TTTCCA
Found at i:636420 original size:34 final size:34
Alignment explanation
Indices: 636358--636468 Score: 150
Period size: 34 Copynumber: 3.2 Consensus size: 34
636348 TTGGGTATAT
* * *
636358 ACTCTAGTGGTTTGCACTATGTGTCTTTGCTATAC
1 ACTCTAGT-GCTTGTACTATGTGTCTTTGCTAGAC
*
636393 ACTCTAGTGCTTGTACTATGTGCCTTTGCTAGAC
1 ACTCTAGTGCTTGTACTATGTGTCTTTGCTAGAC
* * *
636427 ACTCTAGTACATGTACTATGTGTCTTTTCTAGAC
1 ACTCTAGTGCTTGTACTATGTGTCTTTGCTAGAC
636461 ACTCTAGT
1 ACTCTAGT
636469 ACTACCAATT
Statistics
Matches: 68, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
34 60 0.88
35 8 0.12
ACGTcount: A:0.20, C:0.22, G:0.18, T:0.41
Consensus pattern (34 bp):
ACTCTAGTGCTTGTACTATGTGTCTTTGCTAGAC
Found at i:636469 original size:34 final size:34
Alignment explanation
Indices: 636373--636470 Score: 151
Period size: 34 Copynumber: 2.9 Consensus size: 34
636363 AGTGGTTTGC
* * *
636373 ACTATGTGTCTTTGCTATACACTCTAGTGCTTGT
1 ACTATGTGTCTTTGCTAGACACTCTAGTACATGT
*
636407 ACTATGTGCCTTTGCTAGACACTCTAGTACATGT
1 ACTATGTGTCTTTGCTAGACACTCTAGTACATGT
*
636441 ACTATGTGTCTTTTCTAGACACTCTAGTAC
1 ACTATGTGTCTTTGCTAGACACTCTAGTAC
636471 TACCAATTAT
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 58 1.00
ACGTcount: A:0.21, C:0.22, G:0.16, T:0.40
Consensus pattern (34 bp):
ACTATGTGTCTTTGCTAGACACTCTAGTACATGT
Found at i:646146 original size:28 final size:28
Alignment explanation
Indices: 646085--646146 Score: 115
Period size: 28 Copynumber: 2.2 Consensus size: 28
646075 GAAAAAATGC
*
646085 ATGAAACAATTAAGAGTTAGTTTAATAA
1 ATGAACCAATTAAGAGTTAGTTTAATAA
646113 ATGAACCAATTAAGAGTTAGTTTAATAA
1 ATGAACCAATTAAGAGTTAGTTTAATAA
646141 ATGAAC
1 ATGAAC
646147 TAGTTTGATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.48, C:0.06, G:0.15, T:0.31
Consensus pattern (28 bp):
ATGAACCAATTAAGAGTTAGTTTAATAA
Found at i:646191 original size:35 final size:35
Alignment explanation
Indices: 646138--646210 Score: 119
Period size: 35 Copynumber: 2.1 Consensus size: 35
646128 GTTAGTTTAA
**
646138 TAAATGAACTAGTTTGATTATTTATTTATGCAACT
1 TAAATGAACTAGCATGATTATTTATTTATGCAACT
*
646173 TAAATGAAGTAGCATGATTATTTATTTATGCAACT
1 TAAATGAACTAGCATGATTATTTATTTATGCAACT
646208 TAA
1 TAA
646211 TGTCATGCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.37, C:0.08, G:0.12, T:0.42
Consensus pattern (35 bp):
TAAATGAACTAGCATGATTATTTATTTATGCAACT
Found at i:648044 original size:27 final size:28
Alignment explanation
Indices: 647989--648044 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
647979 CTCCCTCTTT
***
647989 AATTTTTTTTCTATTTTTACTTTTTTCG
1 AATTTTTTTTCTATTTTTACTTAACTCG
*
648017 AATTTTTTTTCTTTTTTTAC-TAACTCG
1 AATTTTTTTTCTATTTTTACTTAACTCG
648044 A
1 A
648045 GAGATAGCAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 5 0.21
28 19 0.79
ACGTcount: A:0.18, C:0.12, G:0.04, T:0.66
Consensus pattern (28 bp):
AATTTTTTTTCTATTTTTACTTAACTCG
Found at i:649555 original size:17 final size:17
Alignment explanation
Indices: 649533--649600 Score: 73
Period size: 17 Copynumber: 3.9 Consensus size: 17
649523 AATTAAGAGT
649533 TAGTTTAATAAATGAAC
1 TAGTTTAATAAATGAAC
* **
649550 TAGTTTGATTTATGAAC
1 TAGTTTAATAAATGAAC
*
649567 TAGTTTAATTAATGAAC
1 TAGTTTAATAAATGAAC
* *
649584 TAACTTTATTAAATGAA
1 T-AGTTTAATAAATGAA
649601 ATAGATGCTT
Statistics
Matches: 42, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
17 30 0.71
18 12 0.29
ACGTcount: A:0.41, C:0.06, G:0.12, T:0.41
Consensus pattern (17 bp):
TAGTTTAATAAATGAAC
Found at i:649613 original size:18 final size:17
Alignment explanation
Indices: 649592--649651 Score: 70
Period size: 16 Copynumber: 3.5 Consensus size: 17
649582 ACTAACTTTA
649592 TTAAATGAAATAG-ATGC
1 TTAAATGAAAT-GCATGC
*
649609 TTTAAATGCAATGCATGC
1 -TTAAATGAAATGCATGC
*
649627 TTAAATGAACT-CATGC
1 TTAAATGAAATGCATGC
649643 TTAAATGAA
1 TTAAATGAA
649652 GTAGCATGAT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
16 14 0.37
17 10 0.26
18 14 0.37
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.32
Consensus pattern (17 bp):
TTAAATGAAATGCATGC
Found at i:654163 original size:22 final size:22
Alignment explanation
Indices: 654120--654166 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
654110 ACATGAATTA
**
654120 ATATTCGTAATGAAAATTATAT
1 ATATTCGTAATGAAAACCATAT
654142 ATATTCGTAAT-AAATACCATAT
1 ATATTCGTAATGAAA-ACCATAT
654164 ATA
1 ATA
654167 ATAACCAATG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 3 0.14
22 19 0.86
ACGTcount: A:0.47, C:0.09, G:0.06, T:0.38
Consensus pattern (22 bp):
ATATTCGTAATGAAAACCATAT
Found at i:656729 original size:30 final size:30
Alignment explanation
Indices: 656670--656737 Score: 91
Period size: 30 Copynumber: 2.3 Consensus size: 30
656660 TAAAATCGCG
* **
656670 AAACTTTTGAAAATTATAGTTTTGGTCCCT
1 AAACTTTTGAAAATTACAGTTTTAATCCCT
**
656700 AAACTTTTGAAAATTACCTTTTTAATCCCT
1 AAACTTTTGAAAATTACAGTTTTAATCCCT
656730 AAACTTTT
1 AAACTTTT
656738 CCAAACTTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.32, C:0.16, G:0.07, T:0.44
Consensus pattern (30 bp):
AAACTTTTGAAAATTACAGTTTTAATCCCT
Found at i:664118 original size:59 final size:58
Alignment explanation
Indices: 664019--664185 Score: 235
Period size: 59 Copynumber: 2.8 Consensus size: 58
664009 TATGTACCGA
* **
664019 AGTGCTAAATCAAATATGACACATAAGGTTTTGCCCACCATATGCACTAGATATCCTTT
1 AGTGCT-AATCGAATATGACACATAAGGTCATGCCCACCATATGCACTAGATATCCTTT
* * *
664078 AGTGCTAGATCGAATATGACACATAAGGTCGTGCCTACCATATGCACTAGGTATCCTTT
1 AGTGCTA-ATCGAATATGACACATAAGGTCATGCCCACCATATGCACTAGATATCCTTT
* *
664137 AGTGCTAACTCGAATATGAGACATAAGGTCATGCCCACCATCTGCACTA
1 AGTGCTAA-TCGAATATGACACATAAGGTCATGCCCACCATATGCACTA
664186 TCCTTTAGAG
Statistics
Matches: 97, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
58 2 0.02
59 95 0.98
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (58 bp):
AGTGCTAATCGAATATGACACATAAGGTCATGCCCACCATATGCACTAGATATCCTTT
Found at i:670956 original size:4 final size:4
Alignment explanation
Indices: 670947--670997 Score: 57
Period size: 4 Copynumber: 12.8 Consensus size: 4
670937 AAAACAAGTA
* * * * *
670947 ATAC ATAC ATAC ATAT ATGC ATAC ATAC ATAC ACAT ATGC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
670995 ATA
1 ATA
670998 TAAGCTATGA
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.47, C:0.22, G:0.04, T:0.27
Consensus pattern (4 bp):
ATAC
Found at i:670972 original size:20 final size:20
Alignment explanation
Indices: 670947--670997 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
670937 AAAACAAGTA
*
670947 ATACATACATACATATATGC
1 ATACATACATACACATATGC
670967 ATACATACATACACATATGC
1 ATACATACATACACATATGC
670987 ATACATACATA
1 ATACATACATA
670998 TAAGCTATGA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.47, C:0.22, G:0.04, T:0.27
Consensus pattern (20 bp):
ATACATACATACACATATGC
Found at i:672781 original size:2 final size:2
Alignment explanation
Indices: 672776--672801 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
672766 ATGCAAAGTA
672776 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
672802 TAAAAACAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:673380 original size:13 final size:13
Alignment explanation
Indices: 673362--673386 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
673352 CTAAAAAGTT
673362 GGTATCGATACAA
1 GGTATCGATACAA
673375 GGTATCGATACA
1 GGTATCGATACA
673387 TATAACAATA
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:0.36, C:0.16, G:0.24, T:0.24
Consensus pattern (13 bp):
GGTATCGATACAA
Found at i:681195 original size:15 final size:15
Alignment explanation
Indices: 681177--681218 Score: 68
Period size: 15 Copynumber: 2.8 Consensus size: 15
681167 TAATTAAATG
681177 AATTA-AAATTCATTT
1 AATTAGAAATT-ATTT
681192 AATTAGAAATTATTT
1 AATTAGAAATTATTT
681207 AATTAGAAATTA
1 AATTAGAAATTA
681219 CCAATTTATC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
15 21 0.81
16 5 0.19
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (15 bp):
AATTAGAAATTATTT
Found at i:695762 original size:20 final size:21
Alignment explanation
Indices: 695739--695788 Score: 68
Period size: 20 Copynumber: 2.4 Consensus size: 21
695729 CCTTCAAGGG
695739 GTATCGATACTC-GG-GGTCCA
1 GTATCGATACTCAGGTGGT-CA
695759 GTATCGATACTCAGGTGGTCA
1 GTATCGATACTCAGGTGGTCA
*
695780 ATATCGATA
1 GTATCGATA
695789 TTAAGGCTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 12 0.44
21 12 0.44
22 3 0.11
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (21 bp):
GTATCGATACTCAGGTGGTCA
Found at i:695786 original size:21 final size:20
Alignment explanation
Indices: 695740--695788 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 20
695730 CTTCAAGGGG
*
695740 TATCGATACTCGGGGTCCAG
1 TATCGATACTCGGGGTCCAA
695760 TATCGATACTCAGGTGGT-CAA
1 TATCGATACTC-GG-GGTCCAA
695781 TATCGATA
1 TATCGATA
695789 TTAAGGCTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 11 0.42
21 12 0.46
22 3 0.12
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (20 bp):
TATCGATACTCGGGGTCCAA
Found at i:696279 original size:65 final size:65
Alignment explanation
Indices: 696145--696281 Score: 168
Period size: 65 Copynumber: 2.1 Consensus size: 65
696135 AATAGGTAGA
*** * * *
696145 GTGCATCGATGCATCAAATGCATTCGATGTTTTCTTAAAATCCTCAGTGCATCGGTGCATGGTAT
1 GTGCATCGATGCATCAAATGCATTCGATGTTCAATTAAAATCATCAGTGCATCGATGCATGGAAT
* * * *
696210 GTGCATCGATGCATGAAATGCATTCGATGTTCAATTTAATTCAT-GGTGCATCGATGCATGGAAT
1 GTGCATCGATGCATCAAATGCATTCGATGTTCAATTAAAATCATCAGTGCATCGATGCATGGAAT
696274 GGTGCATC
1 -GTGCATC
696282 ACTCTTAAAA
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
64 17 0.28
65 44 0.72
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (65 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTCAATTAAAATCATCAGTGCATCGATGCATGGAAT
Found at i:696757 original size:2 final size:2
Alignment explanation
Indices: 696750--696777 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
696740 ATTAAATAAC
696750 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
696778 GCTTAAGCTG
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:702527 original size:22 final size:21
Alignment explanation
Indices: 702485--702524 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
702475 GAGTTTATTT
*
702485 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
702506 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
702525 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:704601 original size:65 final size:65
Alignment explanation
Indices: 704468--704627 Score: 209
Period size: 65 Copynumber: 2.5 Consensus size: 65
704458 TGCACTAAGA
* * * *
704468 GTGCATCGATGCATCAAGTGCATTCGATG-TTTCAAAATTACCAGAGTGCATTGGTGCATGGCTG
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAAATACCACAGTGCATCGGTGCATGGCTG
*
704532 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAAT-CCTCAGTGCATCGGTGCATGG-T
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTCA-AAAATACCACAGTGCATCGGTGCATGGCT
*
704595 AT
65 -G
* *
704597 GTGCATCGATACATGAAATGCATTCGATGTT
1 GTGCATCGATGCATCAAATGCATTCGATGTT
704628 CAATTTAATA
Statistics
Matches: 85, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
64 29 0.34
65 52 0.61
66 4 0.05
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (65 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAAATACCACAGTGCATCGGTGCATGGCTG
Found at i:711610 original size:18 final size:18
Alignment explanation
Indices: 711587--711643 Score: 69
Period size: 18 Copynumber: 3.0 Consensus size: 18
711577 TATATTTTCC
711587 AACAATTGGTATCTTTTT
1 AACAATTGGTATCTTTTT
*
711605 AACAATTGATATCCTTTTGTT
1 AACAATTGGTAT-C-TTT-TT
*
711626 AACAATTGGCATCTTTTT
1 AACAATTGGTATCTTTTT
711644 CATTAAATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
18 13 0.39
19 4 0.12
20 4 0.12
21 12 0.36
ACGTcount: A:0.28, C:0.14, G:0.11, T:0.47
Consensus pattern (18 bp):
AACAATTGGTATCTTTTT
Found at i:712782 original size:59 final size:60
Alignment explanation
Indices: 712632--713153 Score: 622
Period size: 59 Copynumber: 8.9 Consensus size: 60
712622 TCTCTATACA
* * * * *
712632 GAAATTCATACACTCAGTATGATTTTCTTCTCATTTTAGCACACT-TAGTGCTCTATCTG
1 GAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACTAAAGTGCCCTATCTG
* *
712691 GAAA-TC-TATACTTAGTATGATTTCCTTATCATTTTAGCA-ACTAAAGTGCCCTATTTG
1 GAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACTAAAGTGCCCTATCTG
* * *
712748 GAAATCCATACACTTAGTATGATTTCCTTATCATTTTAGCA-ACCAAAGTGTCCTATCTG
1 GAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACTAAAGTGCCCTATCTG
** *
712807 GAAA-TCTATACACTTAGTATGATTTCCTTCCCATTTTAGCACACT-TAGTGCTCC-ATCTG
1 GAAATTC-ATACACTTAGTATGATTTCCTTATCATTTTAGCACACTAAAGTGC-CCTATCTG
* * * *
712866 GAAATCCATACACTTAGTATGAATTCCTTCTCATTTTAGCACA-TGAAGTGCCCTATCTG
1 GAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACTAAAGTGCCCTATCTG
* * * * * *
712925 GAAATTCATACA-TTTGATATGATTTCCTTACCATTTTAGCACAC-AAAGTTCTCTCTCTA
1 GAAATTCATACACTTAG-TATGATTTCCTTATCATTTTAGCACACTAAAGTGCCCTATCTG
* * * * *
712984 GAAATTCAGACATTTAGTGTGATTTCCTTATCATTTTAGCACAC-AAAGTGCTCTATTTG
1 GAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACTAAAGTGCCCTATCTG
* * *
713043 GAAATTCATACACTTAATATGATTTCCTTATCATTTTAGCACAC-AGAGTGCTCTATCTG
1 GAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACTAAAGTGCCCTATCTG
* *
713102 GAAATTCATACACTTAGTATGATTTCCGTATCATTTTAGCACAC-GAAGTGCC
1 GAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACTAAAGTGCC
713154 ATTTGGTAAT
Statistics
Matches: 400, Mismatches: 51, Indels: 24
0.84 0.11 0.05
Matches are distributed among these distances:
56 3 0.01
57 44 0.11
58 10 0.03
59 335 0.84
60 8 0.02
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.37
Consensus pattern (60 bp):
GAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACTAAAGTGCCCTATCTG
Found at i:712951 original size:177 final size:177
Alignment explanation
Indices: 712621--713150 Score: 691
Period size: 177 Copynumber: 3.0 Consensus size: 177
712611 ATCCCAACAA
* *
712621 TTCTCTATAC-AGAAATTCATACACTCAGTATGATTTTCTTCTCATTTTAGCACACTTAGTGCTC
1 TTCTCTAT-CTAGAAATTCATACACTTAGTATGATTTCCTTCTCATTTTAGCACACTTAGTGCTC
* *
712685 TATCTGGAAATC-TATACTTAGTATGATTTCCTTATCATTTTAGCA-ACTAAAGTGCCCTATTTG
65 TATCTGGAAATCATACACTTAGTATGATTTCCTTATCATTTTAGCACA-TAAAGTGCCCTATCTG
*
712748 GAAATCCATACACTTAGTATGATTTCCTTATCATTTTAGCAAC-CAAAG
129 GAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCAACACAAAG
* *
712796 TGTC-CTATCTGGAAA-TCTATACACTTAGTATGATTTCCTTCCCATTTTAGCACACTTAGTGCT
1 T-TCTCTATCTAGAAATTC-ATACACTTAGTATGATTTCCTTCTCATTTTAGCACACTTAGTGCT
* * * *
712859 CCATCTGGAAATCCATACACTTAGTATGAATTCCTTCTCATTTTAGCACATGAAGTGCCCTATCT
64 CTATCTGGAAAT-CATACACTTAGTATGATTTCCTTATCATTTTAGCACATAAAGTGCCCTATCT
* *
712924 GGAAATTCATACA-TTTGATATGATTTCCTTACCATTTTAGC-ACACAAAG
128 GGAAATTCATACACTTAG-TATGATTTCCTTATCATTTTAGCAACACAAAG
* * * * * **
712973 TTCTCTCTCTAGAAATTCAGACATTTAGTGTGATTTCCTTATCATTTTAGCACACAAAGTGCTCT
1 TTCTCTATCTAGAAATTCATACACTTAGTATGATTTCCTTCTCATTTTAGCACACTTAGTGCTCT
* * * * *
713038 ATTTGGAAATTCATACACTTAATATGATTTCCTTATCATTTTAGCACACAGAGTGCTCTATCTGG
66 ATCTGGAAA-TCATACACTTAGTATGATTTCCTTATCATTTTAGCACATAAAGTGCCCTATCTGG
* *
713103 AAATTCATACACTTAGTATGATTTCCGTATCATTTTAGC-ACACGAAG
130 AAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCAACACAAAG
713150 T
1 T
713151 GCCATTTGGT
Statistics
Matches: 308, Mismatches: 35, Indels: 22
0.84 0.10 0.06
Matches are distributed among these distances:
174 3 0.01
175 62 0.20
176 10 0.03
177 226 0.73
178 7 0.02
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (177 bp):
TTCTCTATCTAGAAATTCATACACTTAGTATGATTTCCTTCTCATTTTAGCACACTTAGTGCTCT
ATCTGGAAATCATACACTTAGTATGATTTCCTTATCATTTTAGCACATAAAGTGCCCTATCTGGA
AATTCATACACTTAGTATGATTTCCTTATCATTTTAGCAACACAAAG
Found at i:713721 original size:20 final size:20
Alignment explanation
Indices: 713674--713728 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 20
713664 TCGATGTTTC
* *
713674 TTGGTATCGATAC-CCCTTA
1 TTGGTATCGATACTACCTCA
713693 TCATGGTATCGATACTACCTCA
1 T--TGGTATCGATACTACCTCA
713715 TTGGTATCGATACT
1 TTGGTATCGATACT
713729 GATTGAATCA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
19 1 0.03
20 13 0.42
21 12 0.39
22 5 0.16
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (20 bp):
TTGGTATCGATACTACCTCA
Found at i:721942 original size:41 final size:40
Alignment explanation
Indices: 721881--722229 Score: 252
Period size: 41 Copynumber: 8.5 Consensus size: 40
721871 GCATGTAACC
* *
721881 AATGGTGAACTATTGTATGCTACCATGATTGATTTGAATTG
1 AATGGTGAACTATTGCATGCTACCATGATTGA-TTCAATTG
* * *
721922 AATGGTGAATTATTGCATGCTACCATGATCGAATCAAGTTG
1 AATGGTGAACTATTGCATGCTACCATGATTGATTCAA-TTG
* * *
721963 AATGATGAACTATTGTATGCTACCATGATTGAATTTAATTG
1 AATGGTGAACTATTGCATGCTACCATGATTG-ATTCAATTG
* * * * *
722004 AATGGT-ATATTACTGCACGCTACCATGATCGAATCAAGTTG
1 AATGGTGA-ACTATTGCATGCTACCATGATTGATTCAA-TTG
* * * * * *
722045 AATGATGAACTATCGTATGCTTCCATGATTGAATTGAGTTG
1 AATGGTGAACTATTGCATGCTACCATGATTG-ATTCAATTG
* * * * *
722086 AATGGTGAATTATTGCATTCTACTATG-TTCGAATCAAGCTG
1 AATGGTGAACTATTGCATGCTACCATGATT-GATTCAA-TTG
* * * * * **
722127 AATGATGAACTATTGTATGTTTCCATGATTGAATTGAATCA
1 AATGGTGAACTATTGCATGCTACCATGATTG-ATTCAATTG
* * * * *
722168 AATGGTGAATTATTGCATGCTACCATGATCGAATAAAGTTT
1 AATGGTGAACTATTGCATGCTACCATGATTGATTCAA-TTG
**
722209 AATGAAGAACTATTGCATGCT
1 AATGGTGAACTATTGCATGCT
722230 TCAAAGAACG
Statistics
Matches: 231, Mismatches: 66, Indels: 22
0.72 0.21 0.07
Matches are distributed among these distances:
40 17 0.07
41 200 0.87
42 14 0.06
ACGTcount: A:0.32, C:0.13, G:0.20, T:0.35
Consensus pattern (40 bp):
AATGGTGAACTATTGCATGCTACCATGATTGATTCAATTG
Found at i:722003 original size:82 final size:82
Alignment explanation
Indices: 721881--722229 Score: 502
Period size: 82 Copynumber: 4.3 Consensus size: 82
721871 GCATGTAACC
* *
721881 AATGGTGAACTATTGTATGCTACCATGATTGATTTGAATTGAATGGTGAATTATTGCATGCTACC
1 AATGATGAACTATTGTATGCTACCATGATTGAATTGAATTGAATGGTGAATTATTGCATGCTACC
721946 ATGATCGAATCAAGTTG
66 ATGATCGAATCAAGTTG
* * *
721963 AATGATGAACTATTGTATGCTACCATGATTGAATTTAATTGAATGGT-ATATTACTGCACGCTAC
1 AATGATGAACTATTGTATGCTACCATGATTGAATTGAATTGAATGGTGA-ATTATTGCATGCTAC
722027 CATGATCGAATCAAGTTG
65 CATGATCGAATCAAGTTG
* * * * *
722045 AATGATGAACTATCGTATGCTTCCATGATTGAATTGAGTTGAATGGTGAATTATTGCATTCTACT
1 AATGATGAACTATTGTATGCTACCATGATTGAATTGAATTGAATGGTGAATTATTGCATGCTACC
* *
722110 ATGTTCGAATCAAGCTG
66 ATGATCGAATCAAGTTG
* * **
722127 AATGATGAACTATTGTATGTTTCCATGATTGAATTGAATCAAATGGTGAATTATTGCATGCTACC
1 AATGATGAACTATTGTATGCTACCATGATTGAATTGAATTGAATGGTGAATTATTGCATGCTACC
* *
722192 ATGATCGAATAAAGTTT
66 ATGATCGAATCAAGTTG
* *
722209 AATGAAGAACTATTGCATGCT
1 AATGATGAACTATTGTATGCT
722230 TCAAAGAACG
Statistics
Matches: 236, Mismatches: 29, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
81 1 0.00
82 234 0.99
83 1 0.00
ACGTcount: A:0.32, C:0.13, G:0.20, T:0.35
Consensus pattern (82 bp):
AATGATGAACTATTGTATGCTACCATGATTGAATTGAATTGAATGGTGAATTATTGCATGCTACC
ATGATCGAATCAAGTTG
Found at i:727347 original size:44 final size:44
Alignment explanation
Indices: 727284--727504 Score: 289
Period size: 44 Copynumber: 5.0 Consensus size: 44
727274 ATACCATGAG
* *
727284 TGGCACCTTTCTGCCAATAATGTACCGTTATGCATTTTCAATTA
1 TGGCACCTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTA
* * *
727328 TGGCACTTTTCTGCCAATAATGCACTGTTATGTATTTTCATTTA
1 TGGCACCTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTA
* **
727372 TGGCACCTTTCTGCCAATAATACACCGTTATATATTTTCATTTA
1 TGGCACCTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTA
* * * * *
727416 TGACACATTTATGCCAATAATACACTGTTATGCATTTTCATTTA
1 TGGCACCTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTA
* * * *
727460 TGGCACCTTTATGCCAGTAATGCACCTTTATGCATTTCCATTTA
1 TGGCACCTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTA
727504 T
1 T
727505 TTTAGAGTGG
Statistics
Matches: 155, Mismatches: 22, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 155 1.00
ACGTcount: A:0.26, C:0.21, G:0.12, T:0.41
Consensus pattern (44 bp):
TGGCACCTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTA
Found at i:737094 original size:24 final size:24
Alignment explanation
Indices: 737067--737115 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
737057 TTGTTTAAGT
737067 ATAATGGTTAGAAAATATTCTAAC
1 ATAATGGTTAGAAAATATTCTAAC
737091 ATAATGGTTAGAAAATATTCTAAC
1 ATAATGGTTAGAAAATATTCTAAC
737115 A
1 A
737116 CTGGATGTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.47, C:0.08, G:0.12, T:0.33
Consensus pattern (24 bp):
ATAATGGTTAGAAAATATTCTAAC
Found at i:738111 original size:81 final size:81
Alignment explanation
Indices: 737883--738422 Score: 765
Period size: 81 Copynumber: 6.7 Consensus size: 81
737873 GTGTCTTTGA
* * * * ***
737883 GGCCTAACTGTCCAATTGGCAGAAATGTGTCAATTATGCTAGTTAGACGAACAGTTAAGTAATAT
1 GGCCTAACTGTGCAATTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCGT
737948 TGAGTAAAAGAATAAT
66 TGAGTAAAAGAATAAT
* * * *
737964 GGCCTCACTGTGCAATTGGCAGAAAAGATGTCAATTATGCTAGTTAGATGAACGGGTAAGTACCG
1 GGCCTAACTGTGCAATTGGCAGAAATG-TGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCG
738029 TTGAGTAAAAGAATAAT
65 TTGAGTAAAAGAATAAT
** *
738046 GGTATAACTGTGCAATTAGCAGAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCGT
1 GGCCTAACTGTGCAATTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCGT
738111 TGAGTAAAAGAATAAT
66 TGAGTAAAAGAATAAT
* * * *
738127 AGCCTAACTGTCCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAATGGTTAAGTACCGT
1 GGCCTAACTGTGCAATTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCGT
738192 TGAGTAAAAGAATAAT
66 TGAGTAAAAGAATAAT
* *
738208 GGCCTAACTGTGCAATTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACGATTAAGTACTGT
1 GGCCTAACTGTGCAATTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCGT
738273 TGAGTAAAAGAATAAT
66 TGAGTAAAAGAATAAT
* * * * * *
738289 GGCCTAACTATGCAATTGGTATATATGTGTCAATTATGCCAGTTAGATGAATGTTTAAGTACCGT
1 GGCCTAACTGTGCAATTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCGT
738354 TGAGTAAAAGAATAAT
66 TGAGTAAAAGAATAAT
* * * * * ** *
738370 GTCTTGACTGTGCAATTGACAGAAAGGTGTCAATTATATCAGTTAGACGAACG
1 GGCCTAACTGTGCAATTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
738423 CTAAACAATG
Statistics
Matches: 409, Mismatches: 49, Indels: 2
0.89 0.11 0.00
Matches are distributed among these distances:
81 339 0.83
82 70 0.17
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.29
Consensus pattern (81 bp):
GGCCTAACTGTGCAATTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCGT
TGAGTAAAAGAATAAT
Found at i:740476 original size:81 final size:81
Alignment explanation
Indices: 740363--740928 Score: 792
Period size: 81 Copynumber: 7.0 Consensus size: 81
740353 AAGCATTTAG
* *
740363 TCTTTTACTCAAAGGGATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTATCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGC
*
740428 ACAACTAGGCAAATAA
66 ACAACTAGGCAATTAA
** * * * *
740444 TCTTTTACTCAAATATATTTAACCTTTCATCTAACTGACATGATTGACACATTTATGTCAAATAC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGC
* *
740509 ACATCTAGACAATTAA
66 ACAACTAGGCAATTAA
* ** *
740525 TCTTTTACTCAAAGGTGTTTAACCTTTCATCTAACTAACATAATTGACACCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGC
* *
740590 ACAGCTAGGTAATTAA
66 ACAACTAGGCAATTAA
*
740606 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGGC-CCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGC
* *
740670 ACAGCTAGGCAAATAA
66 ACAACTAGGCAATTAA
* * * * * * *
740686 TCGTTTACTCAAAGGTATTTAACTTTTCATCTAACTGGCATGATTGGCACATTTTTTTCAATTGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGC
*
740751 ACACCTAGGCAATTAA
66 ACAACTAGGCAATTAA
* * * *
740767 TCTTTTACTCAAAGGTATTTCACCTTTCATCTAACTGGAATGATTGACACCTTTCTATCAAATAC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGC
740832 ACAACTAGGCAATTAA
66 ACAACTAGGCAATTAA
* * * *
740848 TCTTTTACTCAAATGTATTTAACATTTCATCTAGCTGACATGATTGACACCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGC
*
740913 ATAACTAGGCAATTAA
66 ACAACTAGGCAATTAA
740929 ATTTTTATTT
Statistics
Matches: 427, Mismatches: 57, Indels: 2
0.88 0.12 0.00
Matches are distributed among these distances:
80 76 0.18
81 351 0.82
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.36
Consensus pattern (81 bp):
TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGC
ACAACTAGGCAATTAA
Found at i:740767 original size:242 final size:243
Alignment explanation
Indices: 740363--740924 Score: 840
Period size: 242 Copynumber: 2.3 Consensus size: 243
740353 AAGCATTTAG
* *
740363 TCTTTTACTCAAAGGGATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTATCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGC
* *
740428 ACAACTAGGCAAATAATCTTTTACTCAAATATATTTAACCTTTCATCTAACTGACATGATTGACA
66 ACAACTAGGCAAATAATCGTTTACTCAAAGATATTTAACCTTTCATCTAACTGACATGATTGACA
* *
740493 CATTTATGTCAAATACACATCTAGACAATTAATCTTTTACTCAAAGGTGTTTAACCTTTCATCTA
131 CATTTATGTCAAATACACACCTAGACAATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTA
* * * *
740558 ACT-AACATAATTGACACCTTTCTGTCAAATGCACAGCTAGGTAATTAA
196 ACTGAA-ATAATTGACACCTTTCTATCAAATACACAACTAGGCAATTAA
*
740606 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGGC-CCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGC
* * * * *
740670 ACAGCTAGGCAAATAATCGTTTACTCAAAGGTATTTAACTTTTCATCTAACTGGCATGATTGGCA
66 ACAACTAGGCAAATAATCGTTTACTCAAAGATATTTAACCTTTCATCTAACTGACATGATTGACA
* * * * * *
740735 CATTTTTTTCAATTGCACACCTAGGCAATTAATCTTTTACTCAAAGGTATTTCACCTTTCATCTA
131 CATTTATGTCAAATACACACCTAGACAATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTA
* *
740800 ACTGGAATGATTGACACCTTTCTATCAAATACACAACTAGGCAATTAA
196 ACTGAAATAATTGACACCTTTCTATCAAATACACAACTAGGCAATTAA
* * * *
740848 TCTTTTACTCAAATGTATTTAACATTTCATCTAGCTGACATGATTGACACCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGC
*
740913 ATAACTAGGCAA
66 ACAACTAGGCAA
740925 TTAAATTTTT
Statistics
Matches: 286, Mismatches: 31, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
242 213 0.74
243 73 0.26
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (243 bp):
TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGC
ACAACTAGGCAAATAATCGTTTACTCAAAGATATTTAACCTTTCATCTAACTGACATGATTGACA
CATTTATGTCAAATACACACCTAGACAATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTA
ACTGAAATAATTGACACCTTTCTATCAAATACACAACTAGGCAATTAA
Found at i:744171 original size:21 final size:21
Alignment explanation
Indices: 744146--744200 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
744136 TTCCCATATA
744146 AATCATCAACAAAGTTAGATT
1 AATCATCAACAAAGTTAGATT
* * *
744167 CATCATAAATAAAGTTAGATT
1 AATCATCAACAAAGTTAGATT
744188 AATCATCAACAAA
1 AATCATCAACAAA
744201 TTCAATAACG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.51, C:0.15, G:0.07, T:0.27
Consensus pattern (21 bp):
AATCATCAACAAAGTTAGATT
Found at i:748065 original size:16 final size:16
Alignment explanation
Indices: 748040--748070 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
748030 ATAACTCCAG
748040 CCATGATCACATAACT
1 CCATGATCACATAACT
*
748056 CCATGTTCACATAAC
1 CCATGATCACATAAC
748071 CTATTTAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.32, G:0.06, T:0.26
Consensus pattern (16 bp):
CCATGATCACATAACT
Found at i:751650 original size:22 final size:22
Alignment explanation
Indices: 751593--751650 Score: 59
Period size: 21 Copynumber: 2.7 Consensus size: 22
751583 TATAGTTCTC
*
751593 TTGTTTTCACTTGT-TTGTTTT
1 TTGTTTTCACTAGTGTTGTTTT
* *
751614 TTCTTTTGA--AGGTGTTGTTTT
1 TTGTTTTCACTA-GTGTTGTTTT
751635 TTGTTTTCACTAGTGT
1 TTGTTTTCACTAGTGT
751651 ATGTCCTGAA
Statistics
Matches: 28, Mismatches: 5, Indels: 7
0.70 0.12 0.17
Matches are distributed among these distances:
20 2 0.07
21 21 0.75
22 4 0.14
23 1 0.04
ACGTcount: A:0.09, C:0.09, G:0.19, T:0.64
Consensus pattern (22 bp):
TTGTTTTCACTAGTGTTGTTTT
Found at i:754924 original size:11 final size:11
Alignment explanation
Indices: 754908--754954 Score: 58
Period size: 11 Copynumber: 4.1 Consensus size: 11
754898 ATAAATATAA
754908 AAAATGATCCT
1 AAAATGATCCT
754919 AAAATGATCCT
1 AAAATGATCCT
754930 AAATAATGATCCT
1 -AA-AATGATCCT
* *
754943 AATATGACCCT
1 AAAATGATCCT
754954 A
1 A
754955 GGTAAAAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
11 19 0.59
12 4 0.12
13 9 0.28
ACGTcount: A:0.45, C:0.19, G:0.09, T:0.28
Consensus pattern (11 bp):
AAAATGATCCT
Found at i:754937 original size:13 final size:12
Alignment explanation
Indices: 754907--754944 Score: 60
Period size: 11 Copynumber: 3.2 Consensus size: 12
754897 GATAAATATA
754907 AAAAATGATCCT
1 AAAAATGATCCT
754919 -AAAATGATCCT
1 AAAAATGATCCT
754930 AAATAATGATCCT
1 AAA-AATGATCCT
754943 AA
1 AA
754945 TATGACCCTA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.46
12 2 0.08
13 11 0.46
ACGTcount: A:0.50, C:0.16, G:0.08, T:0.26
Consensus pattern (12 bp):
AAAAATGATCCT
Found at i:754937 original size:24 final size:24
Alignment explanation
Indices: 754905--754954 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
754895 ATGATAAATA
*
754905 TAAAAAATGATCCTAAAATGATCC
1 TAAAAAATGATCCTAAAATGACCC
* *
754929 TAAATAATGATCCTAATATGACCC
1 TAAAAAATGATCCTAAAATGACCC
754953 TA
1 TA
754955 GGTAAAAATA
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:0.46, C:0.18, G:0.08, T:0.28
Consensus pattern (24 bp):
TAAAAAATGATCCTAAAATGACCC
Found at i:760375 original size:19 final size:20
Alignment explanation
Indices: 760339--760376 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
760329 AGGTGGCAGC
760339 ATGATGATAACCCAAGGGTA
1 ATGATGATAACCCAAGGGTA
*
760359 ATGATGA-AACCCTAGGGT
1 ATGATGATAACCCAAGGGT
760377 TTCTGCTGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.37, C:0.16, G:0.26, T:0.21
Consensus pattern (20 bp):
ATGATGATAACCCAAGGGTA
Found at i:773002 original size:26 final size:26
Alignment explanation
Indices: 772962--773044 Score: 148
Period size: 26 Copynumber: 3.2 Consensus size: 26
772952 AGGACACTAC
772962 GTGTATTATGGTGGGCACGACCTTAT
1 GTGTATTATGGTGGGCACGACCTTAT
* *
772988 GTGTGTTATGATGGGCACGACCTTAT
1 GTGTATTATGGTGGGCACGACCTTAT
773014 GTGTATTATGGTGGGCACGACCTTAT
1 GTGTATTATGGTGGGCACGACCTTAT
773040 GTGTA
1 GTGTA
773045 GCACTACAGT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.19, C:0.14, G:0.31, T:0.35
Consensus pattern (26 bp):
GTGTATTATGGTGGGCACGACCTTAT
Found at i:775227 original size:28 final size:28
Alignment explanation
Indices: 775193--775258 Score: 132
Period size: 28 Copynumber: 2.4 Consensus size: 28
775183 TAAATACCAG
775193 ATGACGCGCAATTGTGAGTCATAAATCT
1 ATGACGCGCAATTGTGAGTCATAAATCT
775221 ATGACGCGCAATTGTGAGTCATAAATCT
1 ATGACGCGCAATTGTGAGTCATAAATCT
775249 ATGACGCGCA
1 ATGACGCGCA
775259 TTTATGACAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.26
Consensus pattern (28 bp):
ATGACGCGCAATTGTGAGTCATAAATCT
Found at i:775266 original size:13 final size:13
Alignment explanation
Indices: 775248--775299 Score: 77
Period size: 13 Copynumber: 4.0 Consensus size: 13
775238 GTCATAAATC
775248 TATGACGCGCATT
1 TATGACGCGCATT
* *
775261 TATGACACACATT
1 TATGACGCGCATT
775274 TATGACGCGCATT
1 TATGACGCGCATT
*
775287 TATGACGCTCATT
1 TATGACGCGCATT
775300 ACGCGTCATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 34 1.00
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (13 bp):
TATGACGCGCATT
Found at i:775380 original size:2 final size:2
Alignment explanation
Indices: 775373--775427 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
775363 TCGTAAATTT
775373 TA TA TA TA TA 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
775415 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
775428 TGTAGATTGA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:785709 original size:26 final size:25
Alignment explanation
Indices: 785673--785752 Score: 99
Period size: 26 Copynumber: 3.1 Consensus size: 25
785663 AGGATAGTAA
*
785673 GTGTA-TATGGTAGGCATGACCATAT
1 GTGTATTATGGTAGGC-TGACCTTAT
*
785698 GTGTATTATGGTAGGCCCGACCTTAT
1 GTGTATTATGGTAGG-CTGACCTTAT
*
785724 GTGTATTATGGTGGGCTCGACCTTAT
1 GTGTATTATGGTAGGCT-GACCTTAT
785750 GTG
1 GTG
785753 CAGAACTACG
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
25 6 0.12
26 41 0.85
27 1 0.02
ACGTcount: A:0.20, C:0.15, G:0.30, T:0.35
Consensus pattern (25 bp):
GTGTATTATGGTAGGCTGACCTTAT
Found at i:786265 original size:23 final size:22
Alignment explanation
Indices: 786237--786280 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
786227 TTATTTTGAG
786237 TATATGTATTT-AATATACATATA
1 TATATGT-TTTAAATAT-CATATA
786260 TATATGTTTTAAATATCATAT
1 TATATGTTTTAAATATCATAT
786281 GATAGTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.50
Consensus pattern (22 bp):
TATATGTTTTAAATATCATATA
Found at i:795840 original size:17 final size:17
Alignment explanation
Indices: 795794--795840 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
795784 TTTATGTACT
*
795794 AAAATATAAATATAATA
1 AAAATAAAAATATAATA
* *
795811 ATAATAATAATATAA-A
1 AAAATAAAAATATAATA
795827 AAAATAAAAGATAT
1 AAAATAAAA-ATAT
795841 TAGAGTAGGG
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
16 8 0.33
17 16 0.67
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (17 bp):
AAAATAAAAATATAATA
Found at i:796020 original size:18 final size:18
Alignment explanation
Indices: 795999--796037 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
795989 AATTTTACCC
*
795999 TAAATATATA-TAAATATA
1 TAAATATAGACTAAA-ATA
796017 TAAATATAGACTAAAATA
1 TAAATATAGACTAAAATA
796035 TAA
1 TAA
796038 CAAAATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (18 bp):
TAAATATAGACTAAAATA
Found at i:797167 original size:3 final size:3
Alignment explanation
Indices: 797161--797215 Score: 58
Period size: 3 Copynumber: 17.7 Consensus size: 3
797151 TAATATTATT
* *
797161 TAA TAA TAA TAA TAT TAA TAA TAA TATA TAA TAA TAA -CA TATA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TA-A TAA
797207 TAAA TAA TA
1 T-AA TAA TA
797216 GAAACAGACA
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
2 1 0.02
3 34 0.77
4 9 0.20
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:797174 original size:19 final size:19
Alignment explanation
Indices: 797149--797193 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
797139 TATTGGGCTT
*
797149 TATAATATTATTTAATAATA
1 TATAATATTA-ATAATAATA
797169 -ATAATATTAATAATAATA
1 TATAATATTAATAATAATA
797187 TATAATA
1 TATAATA
797194 ATAACATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 8 0.35
19 15 0.65
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
TATAATATTAATAATAATA
Found at i:797191 original size:25 final size:29
Alignment explanation
Indices: 797152--797215 Score: 78
Period size: 28 Copynumber: 2.2 Consensus size: 29
797142 TGGGCTTTAT
* * *
797152 AATATTATTTAATAATAATA-ATATTAAT-
1 AATAATATATAATAATAACATATA-TAATA
797180 AATAATATATAATAATAACATATATAATA
1 AATAATATATAATAATAACATATATAATA
797209 AATAATA
1 AATAATA
797216 GAAACAGACA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
28 21 0.68
29 10 0.32
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (29 bp):
AATAATATATAATAATAACATATATAATA
Found at i:797812 original size:204 final size:203
Alignment explanation
Indices: 797445--797830 Score: 576
Period size: 204 Copynumber: 1.9 Consensus size: 203
797435 AAATAAAGAG
* *
797445 TGTAAACATCCTACCCCAAAGTTTTGAAGGATGTCCCTAAAGACTTATCATCTTACTCAAAAGAC
1 TGTAAACATCCTACCCCAAAGGTTTGAAGGATGGCCCTAAAGACTTATCATCTTACTCAAAAGAC
* * * * *
797510 TAACAGATGACCCGAATGATTTAAGCATCATGCTTGAAAGACTGACAGATGACCCGAAGGATTTA
66 TAAAAAATGACCCGAAAGATTTAAACATCATGCTCGAAAGACTGACAGATGACCCGAAGGATTTA
* * *
797575 CAAATTCATGGGAAATTATTTGCTGGGTAAGAAACTTTGAAAAAATCACTTTCTCATTTTCATGT
131 AAAATTCATGGGAAATTATTTACTGGCTAAGAAACTTTG--AAAATCACTTTCTCATTTTCATGT
797640 GAAAATCATA
194 GAAAATCATA
* * * * **
797650 TGTAAACATCCTA-CCCAAAGGTTTGATGGATGGCCTTAAGGACTTATCATCTTGCTTGAAAGAC
1 TGTAAACATCCTACCCCAAAGGTTTGAAGGATGGCCCTAAAGACTTATCATCTTACTCAAAAGAC
* *
797714 TAAAAAATGACCCGAAAGATTTAAACATTATGCTCGAAAGACTGACAGATGACCTGAAGGATTTA
66 TAAAAAATGACCCGAAAGATTTAAACATCATGCTCGAAAGACTGACAGATGACCCGAAGGATTTA
*
797779 AAAATTCCTGGGAAATTATTTACTGGCTAAGAAACTTTGAAAATCACTTTCT
131 AAAATTCATGGGAAATTATTTACTGGCTAAGAAACTTTGAAAATCACTTTCT
797831 TTCTTTTCAA
Statistics
Matches: 162, Mismatches: 19, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
202 13 0.08
204 136 0.84
205 13 0.08
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.29
Consensus pattern (203 bp):
TGTAAACATCCTACCCCAAAGGTTTGAAGGATGGCCCTAAAGACTTATCATCTTACTCAAAAGAC
TAAAAAATGACCCGAAAGATTTAAACATCATGCTCGAAAGACTGACAGATGACCCGAAGGATTTA
AAAATTCATGGGAAATTATTTACTGGCTAAGAAACTTTGAAAATCACTTTCTCATTTTCATGTGA
AAATCATA
Found at i:800597 original size:12 final size:12
Alignment explanation
Indices: 800579--800603 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
800569 AGGTGGAATA
800579 GGAGGTTGGTTT
1 GGAGGTTGGTTT
800591 GGAGGTTGGTTT
1 GGAGGTTGGTTT
800603 G
1 G
800604 ACCTACTAGA
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:0.08, C:0.00, G:0.52, T:0.40
Consensus pattern (12 bp):
GGAGGTTGGTTT
Found at i:801348 original size:14 final size:14
Alignment explanation
Indices: 801304--801355 Score: 54
Period size: 14 Copynumber: 3.7 Consensus size: 14
801294 CAATCAGGAT
801304 GTATCGATACCTAG
1 GTATCGATACCTAG
* *
801318 GTA-C-ATAGCAAGGG
1 GTATCGATACCTA--G
801332 GTATCGATACCTAG
1 GTATCGATACCTAG
801346 GTATCGATAC
1 GTATCGATAC
801356 ACTTTGCACA
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
12 5 0.17
13 1 0.03
14 18 0.60
15 1 0.03
16 5 0.17
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (14 bp):
GTATCGATACCTAG
Found at i:803262 original size:47 final size:48
Alignment explanation
Indices: 803203--803304 Score: 190
Period size: 47 Copynumber: 2.2 Consensus size: 48
803193 TGAATATCGA
803203 GTAGTT-TCCCCTTTGGATGGATCACCTATAATTTCACCATCCTTGAC
1 GTAGTTGTCCCCTTTGGATGGATCACCTATAATTTCACCATCCTTGAC
803250 GTAGTTGT-CCCTTTGGATGGATCACCTATAATTTCACCATCCTTGAC
1 GTAGTTGTCCCCTTTGGATGGATCACCTATAATTTCACCATCCTTGAC
803297 GTAGTTGT
1 GTAGTTGT
803305 ATTCTCTTGG
Statistics
Matches: 54, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
47 53 0.98
48 1 0.02
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.37
Consensus pattern (48 bp):
GTAGTTGTCCCCTTTGGATGGATCACCTATAATTTCACCATCCTTGAC
Found at i:808036 original size:263 final size:261
Alignment explanation
Indices: 807532--808017 Score: 758
Period size: 263 Copynumber: 1.9 Consensus size: 261
807522 AAATGTTTTC
* * *
807532 AACACCTACCCAAAGGTTTGATGGATGGCCCTAAGGACTTATCATCTTGCTCGAAAGACTAATAG
1 AACACCTACCCAAAGGTTTGACGGATGGCCCTAAGGACTTATAATCTTGCTCGAAAGACTAACAG
* * *
807597 ATGACCCTAAGGATTTAAGCATTATGCTCGAAATACTGGAAGATAACCCAAAGGATTTACAAATT
66 ATGACCCGAAGAATTTAAGCATTATGCTCGAAAGACTGGAAGATAACCCAAAGGATTTACAAATT
** * * *
807662 CGTGGGAAATTATTTGTTGGGTAAGAAACTTTTAAAATCGTTTTCTTACTTTTTAATAATTTCAT
131 CGTGGGAAATTATTTACTGGGTAAGAAACTTTGAAAATCGCTTTCTTACTTTTCAATAATTTCAT
*
807727 TTTCTATAACATTAAATGAGAAACTTTGAAAAAAAAATTCTCATTTTCATGCGAAAATCATATGT
196 TTTCTATAACATTAAATGAAAAACTTTGAAAAAAAAATTCTCATTTTCATGCGAAAATCATATGT
807792 A
261 A
* * * *
807793 AACATCCTACCCAAAGGTTTTGACGGATGGCCCTAAGGATTTGTAATTTTGCTCTAAAGACTAAC
1 AACA-CCTACCCAAAGG-TTTGACGGATGGCCCTAAGGACTTATAATCTTGCTCGAAAGACTAAC
*
807858 AGATGACCCGAAGAATTTAAGCATTATGCTCGAAAGACT-GACAGATAACCCGAAGGATTTACAA
64 AGATGACCCGAAGAATTTAAGCATTATGCTCGAAAGACTGGA-AGATAACCCAAAGGATTTACAA
* * *
807922 ATTCTTGGGAAATTATTTACTGGGTAAGAAACTTTGAAAATGGCTTTCTTTCTTTTCAATAATTT
128 ATTCGTGGGAAATTATTTACTGGGTAAGAAACTTTGAAAATCGCTTTCTTACTTTTCAATAATTT
807987 CATTTTCTATAACATTAAATGAAAAACTTTG
193 CATTTTCTATAACATTAAATGAAAAACTTTG
808018 GTAATCGTTT
Statistics
Matches: 202, Mismatches: 20, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
261 4 0.02
262 14 0.07
263 184 0.91
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.33
Consensus pattern (261 bp):
AACACCTACCCAAAGGTTTGACGGATGGCCCTAAGGACTTATAATCTTGCTCGAAAGACTAACAG
ATGACCCGAAGAATTTAAGCATTATGCTCGAAAGACTGGAAGATAACCCAAAGGATTTACAAATT
CGTGGGAAATTATTTACTGGGTAAGAAACTTTGAAAATCGCTTTCTTACTTTTCAATAATTTCAT
TTTCTATAACATTAAATGAAAAACTTTGAAAAAAAAATTCTCATTTTCATGCGAAAATCATATGT
A
Found at i:809323 original size:37 final size:37
Alignment explanation
Indices: 809282--809353 Score: 108
Period size: 37 Copynumber: 1.9 Consensus size: 37
809272 TGCTTCTTAT
*
809282 TGATGTGAGCCTTCAAAATGCCCTACATGGATCATAC
1 TGATGTGAGCCTTCAAAATACCCTACATGGATCATAC
* * *
809319 TGATGTGATCGTTCAAAATACCCTACTTGGATCAT
1 TGATGTGAGCCTTCAAAATACCCTACATGGATCAT
809354 TTTTGCCTGA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (37 bp):
TGATGTGAGCCTTCAAAATACCCTACATGGATCATAC
Found at i:817079 original size:9 final size:9
Alignment explanation
Indices: 817061--817105 Score: 54
Period size: 9 Copynumber: 5.0 Consensus size: 9
817051 ACTCCTCGCT
817061 GTCATCGTC
1 GTCATCGTC
*
817070 GTCGTCGTC
1 GTCATCGTC
817079 GTCATCGTC
1 GTCATCGTC
* *
817088 ATCATTGTC
1 GTCATCGTC
*
817097 GTCGTCGTC
1 GTCATCGTC
817106 TTGAGCAGGT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.09, C:0.31, G:0.24, T:0.36
Consensus pattern (9 bp):
GTCATCGTC
Found at i:817468 original size:18 final size:18
Alignment explanation
Indices: 817445--817484 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
817435 AAAGACGGTG
817445 GCGGCATCATATATGGTT
1 GCGGCATCATATATGGTT
817463 GCGGCATCATATATGGTT
1 GCGGCATCATATATGGTT
817481 GCGG
1 GCGG
817485 TGGTTGCGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.20, C:0.17, G:0.33, T:0.30
Consensus pattern (18 bp):
GCGGCATCATATATGGTT
Found at i:818635 original size:111 final size:111
Alignment explanation
Indices: 818412--818739 Score: 576
Period size: 111 Copynumber: 3.0 Consensus size: 111
818402 ATTACAAAAA
*
818412 TTAATTCTTACTCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAA--T---TTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
818472 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
818518 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
818583 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
*
818629 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAAATATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
* * *
818694 AATTAAAATGTTAAAATGTTCCCGTATCAGCAAAGTGTAGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
818740 ATGATTTTCA
Statistics
Matches: 212, Mismatches: 5, Indels: 5
0.95 0.02 0.02
Matches are distributed among these distances:
106 55 0.26
108 1 0.00
111 156 0.74
ACGTcount: A:0.44, C:0.12, G:0.08, T:0.36
Consensus pattern (111 bp):
TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
Found at i:818887 original size:10 final size:10
Alignment explanation
Indices: 818864--818902 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
818854 CCTTAAAAAT
*
818864 AGAGTATTTG
1 AGAGAATTTG
818874 AGAGAAGTTT-
1 AGAGAA-TTTG
818884 AGAGAATTTG
1 AGAGAATTTG
818894 AGAGAATTT
1 AGAGAATTT
818903 TGTATGATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
9 3 0.12
10 20 0.77
11 3 0.12
ACGTcount: A:0.38, C:0.00, G:0.28, T:0.33
Consensus pattern (10 bp):
AGAGAATTTG
Found at i:819145 original size:50 final size:50
Alignment explanation
Indices: 819026--819134 Score: 146
Period size: 50 Copynumber: 2.2 Consensus size: 50
819016 AGATACCCAG
* * * *
819026 GTATAGCGCGGATCAGGGGGCGTGTTATACCCACGTGGTGCCAGATCACC
1 GTATAGCGCGGATCAGGGGGCGCGCTATACCCACGTGGCGCCAAATCACC
* ** *
819076 GTATATCGCGGGGCAGGGGGCGCGCTATACCCACGTGGCGCCAAATCAGC
1 GTATAGCGCGGATCAGGGGGCGCGCTATACCCACGTGGCGCCAAATCACC
819126 GTATAGCGC
1 GTATAGCGC
819135 AGTTTAGGGG
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.20, C:0.28, G:0.35, T:0.17
Consensus pattern (50 bp):
GTATAGCGCGGATCAGGGGGCGCGCTATACCCACGTGGCGCCAAATCACC
Found at i:819224 original size:30 final size:29
Alignment explanation
Indices: 819162--819224 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 29
819152 TACTGCTACG
* *
819162 GGTGTTAGATCGAGAAATATAATCTGACC
1 GGTGTTAGATCGAGAAATATAACCTCACC
*
819191 GGTGTTAGATCG-GTAAATATACCCATCACC
1 GGTGTTAGATCGAG-AAATATAACC-TCACC
819221 GGTG
1 GGTG
819225 ATTTATTGGG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
28 1 0.03
29 20 0.69
30 8 0.28
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.27
Consensus pattern (29 bp):
GGTGTTAGATCGAGAAATATAACCTCACC
Found at i:822499 original size:18 final size:18
Alignment explanation
Indices: 822455--822499 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
822445 TTTCTTTTCT
822455 TTTTATTTTACTTTAAAA
1 TTTTATTTTACTTTAAAA
*
822473 ATTTATTTTACTTTAAAA
1 TTTTATTTTACTTTAAAA
*
822491 TTTTCTTTT
1 TTTTATTTT
822500 GATTGTTGTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.64
Consensus pattern (18 bp):
TTTTATTTTACTTTAAAA
Found at i:827075 original size:123 final size:123
Alignment explanation
Indices: 826856--827558 Score: 971
Period size: 123 Copynumber: 5.7 Consensus size: 123
826846 CACTCGAGGG
* * *
826856 ATCAATATTTCCTA-AAGAAGTTCGTAATAAGTAGAACTTATCTGAAGAGGAATAAGAAGTTCAT
1 ATCAACATTTCC-AGAAGAAGTTCGTAATAAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCAT
* ** * **
826920 AATCTGAATAACTTATTCAACCTTTTGCTCGACTCTATCGTAGAAGGAGATAGAGCATT
65 AATCTGAAGAACTTATTCAACCTTTTGCTCGACTCTATCACAGAAGAAGATAGAGCAGC
* * * *
826979 ATCAACATTTCTAGAAGAACTTCGTAATAAGAATAACTTATCTGAAGAGGACGAAGAAGTTCATA
1 ATCAACATTTCCAGAAGAAGTTCGTAATAAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATA
* *
827044 ATCTGAAGAACTTATTCAACATTTTGCTCGACTCTATCACAAAAGAAGATAGAGCAGC
66 ATCTGAAGAACTTATTCAACCTTTTGCTCGACTCTATCACAGAAGAAGATAGAGCAGC
*
827102 ATCGACATTTCCAGAAGAAGTTCGTAATAAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCA-A
1 ATCAACATTTCCAGAAGAAGTTCGTAATAAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATA
* * ** *
827166 ATTTTGAAGAACATATTCAACCTTTTGCTCGACTCTATTGCAGAAGTAGATAGAGCAGC
66 A-TCTGAAGAACTTATTCAACCTTTTGCTCGACTCTATCACAGAAGAAGATAGAGCAGC
* * * *
827225 ATCAATATTTCCAAAAGAAGTTAC-TAATAAGAAGAACTTATCTGAGGAGGAAGAAGAAGTTTAT
1 ATCAACATTTCCAGAAGAAGTT-CGTAATAAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCAT
* * *
827289 AATCTGAAGAACTTATTCAGCCTTTTGCTCGACTCTATCATAGAAGCAGATAGAGCAGC
65 AATCTGAAGAACTTATTCAACCTTTTGCTCGACTCTATCACAGAAGAAGATAGAGCAGC
* *
827348 ATCAACATTTCCAAAAGAAGTTCGTAATACGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATA
1 ATCAACATTTCCAGAAGAAGTTCGTAATAAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATA
* * * *
827413 ATCTGAAGAACTTATTTAACCTTTTGCTCGATTCTATCACAAAAGAAGATAGAGCAAC
66 ATCTGAAGAACTTATTCAACCTTTTGCTCGACTCTATCACAGAAGAAGATAGAGCAGC
** * ** * *
827471 ATCAATGTTTCCAGAAGGAGTTCGTAATAAGAATCACTCATCTGAAGAGGAAGAATAAGTTCATA
1 ATCAACATTTCCAGAAGAAGTTCGTAATAAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATA
* *
827536 ATCTGAAAAACTTGTTCAACCTT
66 ATCTGAAGAACTTATTCAACCTT
827559 AGCTCGATTC
Statistics
Matches: 513, Mismatches: 62, Indels: 10
0.88 0.11 0.02
Matches are distributed among these distances:
122 4 0.01
123 506 0.99
124 3 0.01
ACGTcount: A:0.39, C:0.16, G:0.18, T:0.27
Consensus pattern (123 bp):
ATCAACATTTCCAGAAGAAGTTCGTAATAAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATA
ATCTGAAGAACTTATTCAACCTTTTGCTCGACTCTATCACAGAAGAAGATAGAGCAGC
Found at i:827556 original size:369 final size:369
Alignment explanation
Indices: 826856--827558 Score: 1077
Period size: 369 Copynumber: 1.9 Consensus size: 369
826846 CACTCGAGGG
* * *
826856 ATCAATATTTCCTAAAGAAGTTCGTAATAAGTAGAACTTATCTGAAGAGGAATAAGAAGTTCATA
1 ATCAATATTTCCAAAAGAAGTTCGTAATAAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATA
* * * **
826921 ATCTGAATAACTTATTCAACCTTTTGCTCGACTCTATCGTAGAAGGAGATAGAGCATTATCAACA
66 ATCTGAAGAACTTATTCAACCTTTTGCTCGACTCTATCATAGAAGCAGATAGAGCAGCATCAACA
* * * *
826986 TTTCTAGAAGAACTTCGTAATAAGAATAACTTATCTGAAGAGGACGAAGAAGTTCATAATCTGAA
131 TTTCCAAAAGAACTTCGTAATAAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATCTGAA
* *
827051 GAACTTATTCAACATTTTGCTCGACTCTATCACAAAAGAAGATAGAGCAGCATCGACATTTCCAG
196 GAACTTATTCAACATTTTGCTCGACTCTATCACAAAAGAAGATAGAGCAACATCAACATTTCCAG
* * *
827116 AAGAAGTTCGTAATAAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCAAATTTTGAAGAACATA
261 AAGAAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCAAATTCTGAAAAACATA
827181 TTCAACCTTTTGCTCGACTCTATTGCAGAAGTAGATAGAGCAGC
326 TTCAACCTTTTGCTCGACTCTATTGCAGAAGTAGATAGAGCAGC
* *
827225 ATCAATATTTCCAAAAGAAGTTAC-TAATAAGAAGAACTTATCTGAGGAGGAAGAAGAAGTTTAT
1 ATCAATATTTCCAAAAGAAGTT-CGTAATAAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCAT
*
827289 AATCTGAAGAACTTATTCAGCCTTTTGCTCGACTCTATCATAGAAGCAGATAGAGCAGCATCAAC
65 AATCTGAAGAACTTATTCAACCTTTTGCTCGACTCTATCATAGAAGCAGATAGAGCAGCATCAAC
* *
827354 ATTTCCAAAAGAAGTTCGTAATACGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATCTGA
130 ATTTCCAAAAGAACTTCGTAATAAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATCTGA
* * * **
827419 AGAACTTATTTAACCTTTTGCTCGATTCTATCACAAAAGAAGATAGAGCAACATCAATGTTTCCA
195 AGAACTTATTCAACATTTTGCTCGACTCTATCACAAAAGAAGATAGAGCAACATCAACATTTCCA
* ** * *
827484 GAAGGAGTTCGTAATAAGAATCACTCATCTGAAGAGGAAGAATAAGTTCATAA-TCTGAAAAACT
260 GAAGAAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCA-AATTCTGAAAAACA
*
827548 TGTTCAACCTT
324 TATTCAACCTT
827559 AGCTCGATTC
Statistics
Matches: 299, Mismatches: 33, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
369 296 0.99
370 3 0.01
ACGTcount: A:0.39, C:0.16, G:0.18, T:0.27
Consensus pattern (369 bp):
ATCAATATTTCCAAAAGAAGTTCGTAATAAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATA
ATCTGAAGAACTTATTCAACCTTTTGCTCGACTCTATCATAGAAGCAGATAGAGCAGCATCAACA
TTTCCAAAAGAACTTCGTAATAAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATCTGAA
GAACTTATTCAACATTTTGCTCGACTCTATCACAAAAGAAGATAGAGCAACATCAACATTTCCAG
AAGAAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCAAATTCTGAAAAACATA
TTCAACCTTTTGCTCGACTCTATTGCAGAAGTAGATAGAGCAGC
Found at i:827772 original size:6 final size:6
Alignment explanation
Indices: 827729--827785 Score: 51
Period size: 6 Copynumber: 9.2 Consensus size: 6
827719 TCCATTTAAT
* * * *
827729 TTTTTA TTTTTG TTTATA TTATCA TTTTTA TTTCTTTA TTTTTA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA -TT-TTTA TTTTTA TTTTTA
*
827779 TTATTA T
1 TTTTTA T
827786 ATTATTATTA
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
6 32 0.80
7 4 0.10
8 4 0.10
ACGTcount: A:0.19, C:0.04, G:0.02, T:0.75
Consensus pattern (6 bp):
TTTTTA
Found at i:829042 original size:2 final size:2
Alignment explanation
Indices: 829035--829060 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
829025 TGTTATATTA
829035 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
829061 GAAAGATTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:837720 original size:123 final size:123
Alignment explanation
Indices: 837498--838121 Score: 912
Period size: 123 Copynumber: 5.1 Consensus size: 123
837488 AATTGAGAGG
* ** * * * *
837498 TCAACATTTCTAGAAGAAGTTTGTATTAAAAAGAAATTATCTGAAGATGAAGAAGAAGTTCATAA
1 TCAACATTTCCAGAAGAAGTTCATAATAAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAA
* * * *
837563 TCTGAAGAACTTATTCAACCTTTTTCTCGTCTCTATCGCAGAAGAAGATAGAGCAACA
66 TCTGAAGAACTTATTCAACCTTTTGCTCGACTCTATCGCAGAAGGAGATAGAGCAGCA
* *
837621 TCAACATTTCTAGAAGAAGTTCATAATAAGAAGAACTTATCTGAAGGGGAAGAAGAAGTTCATAA
1 TCAACATTTCCAGAAGAAGTTCATAATAAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAA
* * *
837686 TCTGAATAACTTATTCAACCTTTTGCTCGACTCTATCACAGAAGGAGATAAAGCAGCA
66 TCTGAAGAACTTATTCAACCTTTTGCTCGACTCTATCGCAGAAGGAGATAGAGCAGCA
* *
837744 TCAACATTTCCAGAAGAAGTTCGTAATAAGAAGAACTTATCTGAATAGGAAGAAGAAGTTCATAA
1 TCAACATTTCCAGAAGAAGTTCATAATAAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAA
* ** *
837809 TCTGAAGAACTTATTCAACCTTTTGCTCAACTCTATCATAGAAGGAGATAGAGCGGCA
66 TCTGAAGAACTTATTCAACCTTTTGCTCGACTCTATCGCAGAAGGAGATAGAGCAGCA
** * *
837867 TCAACATTTCCAGAAGAAGTTTTTAGTAAGAAGAACTTATCTAAAGAGGAAGAAGAAGTTCATAA
1 TCAACATTTCCAGAAGAAGTTCATAATAAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAA
* * *
837932 TCTGAAGAACTTATTCAACCTTTTGCTCAACTCTATCGTAAAAGGAGATAGAGCAGCA
66 TCTGAAGAACTTATTCAACCTTTTGCTCGACTCTATCGCAGAAGGAGATAGAGCAGCA
* * *
837990 TCAACATTTCCATAAGAACTTCATAAT---AAGAACTTATCTGAAGAGGAAGAAAAAGTTCATAA
1 TCAACATTTCCAGAAGAAGTTCATAATAAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAA
* * *
838052 TCTAAAGAACTTATTCAACCTTTTTCTCGGCTCTATCGCAGAAGGAGATAGAGCAGCA
66 TCTGAAGAACTTATTCAACCTTTTGCTCGACTCTATCGCAGAAGGAGATAGAGCAGCA
838110 TCAACATTTCCA
1 TCAACATTTCCA
838122 CGTTGAAGCC
Statistics
Matches: 457, Mismatches: 44, Indels: 3
0.91 0.09 0.01
Matches are distributed among these distances:
120 97 0.21
123 360 0.79
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.27
Consensus pattern (123 bp):
TCAACATTTCCAGAAGAAGTTCATAATAAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAA
TCTGAAGAACTTATTCAACCTTTTGCTCGACTCTATCGCAGAAGGAGATAGAGCAGCA
Found at i:843341 original size:28 final size:28
Alignment explanation
Indices: 843301--843396 Score: 99
Period size: 28 Copynumber: 3.5 Consensus size: 28
843291 AGTTGCAGAT
843301 TAATTATTGTAGTTTAATTATAACTAAA
1 TAATTATTGTAGTTTAATTATAACTAAA
* * * * *
843329 TAATTATTTTAG--TAAGTAGATGC-ATAT
1 TAATTATTGTAGTTTAATTATA-ACTA-AA
843356 TAATTATTGTAGTTTAATTATAACTAAA
1 TAATTATTGTAGTTTAATTATAACTAAA
*
843384 TAATTATTTTAGT
1 TAATTATTGTAGT
843397 AAGTAGATGC
Statistics
Matches: 52, Mismatches: 11, Indels: 10
0.71 0.15 0.14
Matches are distributed among these distances:
26 7 0.13
27 13 0.25
28 25 0.48
29 7 0.13
ACGTcount: A:0.40, C:0.03, G:0.09, T:0.48
Consensus pattern (28 bp):
TAATTATTGTAGTTTAATTATAACTAAA
Found at i:843383 original size:55 final size:55
Alignment explanation
Indices: 843294--843414 Score: 233
Period size: 55 Copynumber: 2.2 Consensus size: 55
843284 AATTGTTAGT
*
843294 TGCAGATTAATTATTGTAGTTTAATTATAACTAAATAATTATTTTAGTAAGTAGA
1 TGCATATTAATTATTGTAGTTTAATTATAACTAAATAATTATTTTAGTAAGTAGA
843349 TGCATATTAATTATTGTAGTTTAATTATAACTAAATAATTATTTTAGTAAGTAGA
1 TGCATATTAATTATTGTAGTTTAATTATAACTAAATAATTATTTTAGTAAGTAGA
843404 TGCATATTAAT
1 TGCATATTAAT
843415 ATTAAAATAT
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 65 1.00
ACGTcount: A:0.40, C:0.04, G:0.12, T:0.45
Consensus pattern (55 bp):
TGCATATTAATTATTGTAGTTTAATTATAACTAAATAATTATTTTAGTAAGTAGA
Found at i:847069 original size:20 final size:20
Alignment explanation
Indices: 847046--847091 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
847036 CCAAAGTATC
847046 GAAACT-TTAATGAAAGTTTT
1 GAAACTCTTAAT-AAAGTTTT
* *
847066 GAAACTCTTGATATAGTTTT
1 GAAACTCTTAATAAAGTTTT
847086 GAAACT
1 GAAACT
847092 ATAGGAAAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 19 0.83
21 4 0.17
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.39
Consensus pattern (20 bp):
GAAACTCTTAATAAAGTTTT
Found at i:848209 original size:103 final size:103
Alignment explanation
Indices: 848030--848237 Score: 353
Period size: 103 Copynumber: 2.0 Consensus size: 103
848020 GCAACAATCC
* * * *
848030 TGTTAGGATTTTCGGAAGCTCGAATCAACAACCGGAACGGTTTACAAAGAGGGGTCGGAACGGTT
1 TGTTAGGATTTTCGGAAGCTCAAATCAACAACCAGAACGATTTACAAAGAGGGGTCGGAACGGTA
848095 TTGTGTTTAGGGAGTAAGGAGATTGAAAGATAGAGAAT
66 TTGTGTTTAGGGAGTAAGGAGATTGAAAGATAGAGAAT
* * *
848133 TGTTAGGATTTTCGGAAGCTCAAATCGACAACCAGAATGATTTGCAAAGAGGGGTCGGAACGGTA
1 TGTTAGGATTTTCGGAAGCTCAAATCAACAACCAGAACGATTTACAAAGAGGGGTCGGAACGGTA
848198 TTGTGTTTAGGGAGTAAGGAGATTGAAAGATAGAGAAT
66 TTGTGTTTAGGGAGTAAGGAGATTGAAAGATAGAGAAT
848236 TG
1 TG
848238 CACAGCGATT
Statistics
Matches: 98, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
103 98 1.00
ACGTcount: A:0.33, C:0.10, G:0.32, T:0.25
Consensus pattern (103 bp):
TGTTAGGATTTTCGGAAGCTCAAATCAACAACCAGAACGATTTACAAAGAGGGGTCGGAACGGTA
TTGTGTTTAGGGAGTAAGGAGATTGAAAGATAGAGAAT
Found at i:851664 original size:21 final size:21
Alignment explanation
Indices: 851638--851679 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
851628 CCAGAATGGG
*
851638 GGGAATCGGTACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
851659 GGGAATCGATACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
851680 ATATTCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (21 bp):
GGGAATCGATACCCCTTCATA
Found at i:854996 original size:348 final size:349
Alignment explanation
Indices: 854358--855034 Score: 1009
Period size: 348 Copynumber: 1.9 Consensus size: 349
854348 TAGTATTGTC
*
854358 ACACTTAATTGGAATTGTACCAACATCAATTCCATAGTCTAAAAGTTATTGTTTCATCCATAAAA
1 ACACTTAATTGGAATGGTACCAACATCAATTCCATAGTCTAAAAGTTATTGTTTCATCCATAAAA
* *
854423 CTTATGCACAACAACTACCGACCGAAATGTATTCCACCTTGGTGGTTGATAATGCAAAATTATTT
66 CTTATGCACAACAACTACCGACCGAAATGTATTCCACCTCGGTGGTTGATAATGCAAAACTATTT
* *
854488 TATTTCTTAGAAAACCATGAAATTAGCATATTTCCTAGGAATTGACATATACCAAATGTTATTTT
131 TATTTCTTAGAAAACCATGAAATTAGCATATTTCCTAGGAATTGACATATACCAAAGGTGATTTT
854553 TCTATCACATTTGCAACCTCCAAAATCCGCATCCAAGAAGGCATGCAAGCTAAAGTTTGAGACTC
196 TCTATCACATTTGCAACCTCCAAAATCCGCATCCAAGAAGGCATGCAAGCTAAAGTTTGAGACTC
*
854618 TAGGATACCAAAGTCCTAAACTAGGAGTGTC-TCTAAGGAATATAAAGATCCTCTTAATGGCATG
261 TAGGATACCAAAGTCCTAAACTAGGAGTGTCTTC-AAGGAATATAAAGATCCTATTAATGGCATG
854682 TAAATAAGACTCCTTAAGACACTAA
325 TAAATAAGACTCCTTAAGACACTAA
* *
854707 ACACTTAATTGGAATGGTACCAACATCAATTCCATAGTCTAAAAGTTGTTGTTTCATTCATAAAA
1 ACACTTAATTGGAATGGTACCAACATCAATTCCATAGTCTAAAAGTTATTGTTTCATCCATAAAA
* * * * **
854772 CTTGTGCACAATAACTACCGGCCGAAA-GTATTCCTCCTCGGTGGTTGATAATGCAGCACTATTT
66 CTTATGCACAACAACTACCGACCGAAATGTATTCCACCTCGGTGGTTGATAATGCAAAACTATTT
* * * * * * ** *
854836 TGTTTCTTAGAAAATCTTGAAATTATCATATTTCTTAGGAATTGACATGTACCGGAGGTGCTTTT
131 TATTTCTTAGAAAACCATGAAATTAGCATATTTCCTAGGAATTGACATATACCAAAGGTGATTTT
* * * * *
854901 TCTATC-CAATTTTCAACCTCCAAAATCTGTATCCGAGAAGGCATGCAAGCTAAAGTTTGAGTCT
196 TCTATCAC-ATTTGCAACCTCCAAAATCCGCATCCAAGAAGGCATGCAAGCTAAAGTTTGAGACT
* ** * * *
854965 CTGGGATATTAAAGTCTTAAACTAGGAGTGTCTTCAAGGTATCTAAAGATCCTATTAATGGCATG
260 CTAGGATACCAAAGTCCTAAACTAGGAGTGTCTTCAAGGAATATAAAGATCCTATTAATGGCATG
855030 TAAAT
325 TAAAT
855035 GAGATTCTTT
Statistics
Matches: 292, Mismatches: 34, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
347 1 0.00
348 203 0.70
349 88 0.30
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.32
Consensus pattern (349 bp):
ACACTTAATTGGAATGGTACCAACATCAATTCCATAGTCTAAAAGTTATTGTTTCATCCATAAAA
CTTATGCACAACAACTACCGACCGAAATGTATTCCACCTCGGTGGTTGATAATGCAAAACTATTT
TATTTCTTAGAAAACCATGAAATTAGCATATTTCCTAGGAATTGACATATACCAAAGGTGATTTT
TCTATCACATTTGCAACCTCCAAAATCCGCATCCAAGAAGGCATGCAAGCTAAAGTTTGAGACTC
TAGGATACCAAAGTCCTAAACTAGGAGTGTCTTCAAGGAATATAAAGATCCTATTAATGGCATGT
AAATAAGACTCCTTAAGACACTAA
Found at i:863032 original size:61 final size:60
Alignment explanation
Indices: 862967--863119 Score: 189
Period size: 61 Copynumber: 2.5 Consensus size: 60
862957 CATCTTAAGG
* * * *
862967 ACTAGATAGGGGGTTTCAAAACCAACTAGGGCATTTCCAAACCATAGTGAAATCTTTACAT
1 ACTAGATAAGGGGTTTCAAAACCAACTAGGG-ATTTCAAAAACATAGCGAAATCTTTACAT
* * * * *
863028 ACTAGACAAGGGGCTTCAAAACTAACTAGGTGGTTTCAAAAACATAGCGAAATCTTTATAT
1 ACTAGATAAGGGGTTTCAAAACCAACTAGG-GATTTCAAAAACATAGCGAAATCTTTACAT
* *
863089 ACTGGATAAGGGGTTTAAAAACCAACTAGGG
1 ACTAGATAAGGGGTTTCAAAACCAACTAGGG
863120 GCTTTCGAAA
Statistics
Matches: 77, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
60 1 0.01
61 75 0.97
62 1 0.01
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.25
Consensus pattern (60 bp):
ACTAGATAAGGGGTTTCAAAACCAACTAGGGATTTCAAAAACATAGCGAAATCTTTACAT
Found at i:863496 original size:46 final size:46
Alignment explanation
Indices: 863439--863642 Score: 318
Period size: 46 Copynumber: 4.4 Consensus size: 46
863429 CCAATGACCT
* * *
863439 CGTTATGCATTTTCATTTGTTGCATCTTTTCATGCCAATAATGCAC
1 CGTTATGCATTTTCATTTGTGGCATCCTTTCATGCCGATAATGCAC
* **
863485 CGTTATACATTTTCATTAATGGCATCCTTTCATGCCGATAATGCAC
1 CGTTATGCATTTTCATTTGTGGCATCCTTTCATGCCGATAATGCAC
*
863531 CGTTATGCATTTTCATTTGTGGCATCCTTTCATGCCGATAATGTAC
1 CGTTATGCATTTTCATTTGTGGCATCCTTTCATGCCGATAATGCAC
* * *
863577 CGTTATGCATTTTCATCTGTGGCATCCTTTCATGCCGATAATGTAT
1 CGTTATGCATTTTCATTTGTGGCATCCTTTCATGCCGATAATGCAC
863623 CGTTATGCATTTTCATTTGT
1 CGTTATGCATTTTCATTTGT
863643 TCATTCATTT
Statistics
Matches: 145, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 145 1.00
ACGTcount: A:0.21, C:0.22, G:0.15, T:0.42
Consensus pattern (46 bp):
CGTTATGCATTTTCATTTGTGGCATCCTTTCATGCCGATAATGCAC
Found at i:870820 original size:14 final size:15
Alignment explanation
Indices: 870781--870826 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 15
870771 AATGCATGCC
*
870781 ATGAGCTAAGTATATG
1 ATGAGCTAA-TATATA
870797 ATGATG-TAATAT-TA
1 ATGA-GCTAATATATA
870811 ATGAGCTAATATATA
1 ATGAGCTAATATATA
870826 A
1 A
870827 GCCTTAGGAG
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
13 1 0.04
14 11 0.42
15 6 0.23
16 7 0.27
17 1 0.04
ACGTcount: A:0.43, C:0.04, G:0.17, T:0.35
Consensus pattern (15 bp):
ATGAGCTAATATATA
Found at i:871934 original size:21 final size:21
Alignment explanation
Indices: 871909--871948 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
871899 CTTCATTTTA
* *
871909 TATTCCTTTGTTATTGATTCT
1 TATTCATTTCTTATTGATTCT
*
871930 TATTCATTTCTTCTTGATT
1 TATTCATTTCTTATTGATT
871949 TTCTCTCTTC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.15, C:0.15, G:0.07, T:0.62
Consensus pattern (21 bp):
TATTCATTTCTTATTGATTCT
Found at i:872243 original size:22 final size:22
Alignment explanation
Indices: 872201--872243 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
872191 AGCCAATTTT
* *
872201 CTTGATGTGATTATGAGGTTTC
1 CTTGATGTAATTAAGAGGTTTC
*
872223 CTTGATGTAATTAAGATGTTT
1 CTTGATGTAATTAAGAGGTTT
872244 TTTGGGGTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.23, C:0.07, G:0.23, T:0.47
Consensus pattern (22 bp):
CTTGATGTAATTAAGAGGTTTC
Found at i:873154 original size:108 final size:108
Alignment explanation
Indices: 872960--873173 Score: 347
Period size: 108 Copynumber: 2.0 Consensus size: 108
872950 TCGAGGTGAG
* *
872960 TGGTTATCCATTCGCTTATGTTGAACGTGTTCAATATTGAATGAAGGTTTAGTTATATGTGAACT
1 TGGTTATCCATTCGCTTATGATGAACGTGTTCAATATTAAATGAAGGTTTAGTTATATGTGAACT
*
873025 CTGAATTTTAAGTTCTAAATTTTGTAGACTTGTTGTTGATAAC
66 CTGAATTTTAAGTTCTAAATTTTGTAGACTTGCTGTTGATAAC
* * *
873068 TGGTTGTCCATTCGCTTATGATGAACGTGTTCAATGTTAAATGAAGGTTTAGTTATGTGTGAACT
1 TGGTTATCCATTCGCTTATGATGAACGTGTTCAATATTAAATGAAGGTTTAGTTATATGTGAACT
* * *
873133 CTGAATTTTAGGTTCTTAATTTTGTATACTTGCTGTTGATA
66 CTGAATTTTAAGTTCTAAATTTTGTAGACTTGCTGTTGATA
873174 TTTGATTGTG
Statistics
Matches: 97, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
108 97 1.00
ACGTcount: A:0.25, C:0.10, G:0.21, T:0.44
Consensus pattern (108 bp):
TGGTTATCCATTCGCTTATGATGAACGTGTTCAATATTAAATGAAGGTTTAGTTATATGTGAACT
CTGAATTTTAAGTTCTAAATTTTGTAGACTTGCTGTTGATAAC
Found at i:874936 original size:21 final size:21
Alignment explanation
Indices: 874910--874949 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
874900 CTTTTTTTTA
*
874910 TAAAAATGATTGATCTCTTGC
1 TAAAAATGATCGATCTCTTGC
874931 TAAAAATGATCGATCTCTT
1 TAAAAATGATCGATCTCTT
874950 TAGGCAAAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (21 bp):
TAAAAATGATCGATCTCTTGC
Found at i:877131 original size:19 final size:19
Alignment explanation
Indices: 877107--877143 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
877097 AAATTTGATG
877107 CTTCAAAATCTCGAGGACA
1 CTTCAAAATCTCGAGGACA
* *
877126 CTTCAAATTCTCGCGGAC
1 CTTCAAAATCTCGAGGAC
877144 CTTGAGTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.24
Consensus pattern (19 bp):
CTTCAAAATCTCGAGGACA
Found at i:887883 original size:21 final size:21
Alignment explanation
Indices: 887857--887896 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
887847 CAGAACCCCA
*
887857 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
887878 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
887897 TCAAAGGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:887928 original size:21 final size:23
Alignment explanation
Indices: 887877--887928 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
887867 GATTCCCCTG
887877 TGGGGGGAATCGGTTCCCCTTCA
1 TGGGGGGAATCGGTTCCCCTTCA
**
887900 AAGGGGGAATCGGTT-CCC-TCA
1 TGGGGGGAATCGGTTCCCCTTCA
887921 TGGGGGGA
1 TGGGGGGA
887929 TCAATTCCCT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 9 0.36
22 3 0.12
23 13 0.52
ACGTcount: A:0.17, C:0.21, G:0.40, T:0.21
Consensus pattern (23 bp):
TGGGGGGAATCGGTTCCCCTTCA
Found at i:896610 original size:356 final size:356
Alignment explanation
Indices: 895957--896669 Score: 1372
Period size: 356 Copynumber: 2.0 Consensus size: 356
895947 TTAGATAACT
*
895957 AATGAATAAAATAATAATAAATTAAACATGTCTTAACTCTAATTCCTAATAAAATAATAATAACT
1 AATGAATAAAATAATAATAAACTAAACATGTCTTAACTCTAATTCCTAATAAAATAATAATAACT
896022 AAAGATAATATTTTAACCCAACCTTAATTCCTAATAAAATAATAAATCTAATCCTAAAAGATAAT
66 AAAGATAATATTTTAACCCAACCTTAATTCCTAATAAAATAATAAATCTAATCCTAAAAGATAAT
*
896087 GCATCATCCTATATTAAGTTATATTACAAATAATCAATAAAAATATTGAAAATTCGTAATATTTA
131 GCATCATCCTATATTAAGTTATATTACAAATAATCAAAAAAAATATTGAAAATTCGTAATATTTA
*
896152 CAAAATCCCGTATTAATCCCGTATAAGATTTTCTGCATGCACCGTCTTCAGAAAAATGGATATAT
196 CAAAATCCCGTATTAATCCCGTATAAGATTTTCTGCATGCACCATCTTCAGAAAAATGGATATAT
896217 CTTGAGTTCCCGATATCAGATTGATGCGATTCAAGAACCGTTGGAAAGATAAGGGACAGACGGTT
261 CTTGAGTTCCCGATATCAGATTGATGCGATTCAAGAACCGTTGGAAAGATAAGGGACAGACGGTT
*
896282 TTATCTCCAGAATACATGTTGACGAAATAAG
326 TTATCTCCAGAAGACATGTTGACGAAATAAG
896313 AATGAATAAAATAATAATAAACTAAACATGTCTTAACTCTAATTCCTAATAAAATAATAATAACT
1 AATGAATAAAATAATAATAAACTAAACATGTCTTAACTCTAATTCCTAATAAAATAATAATAACT
896378 AAAGATAATATTTTAACCCAACCTTAATTCCTAATAAAATAATAAATCTAATCCTAAAAGATAAT
66 AAAGATAATATTTTAACCCAACCTTAATTCCTAATAAAATAATAAATCTAATCCTAAAAGATAAT
896443 GCATCATCCTATATTAAGTTATATTACAAATAATCAAAAAAAATATTGAAAATTCGTAATATTTA
131 GCATCATCCTATATTAAGTTATATTACAAATAATCAAAAAAAATATTGAAAATTCGTAATATTTA
896508 CAAAATCCCGTATTAATCCCGTATAAGATTTTCTGCATGCACCATCTTCAGAAAAATGGATATAT
196 CAAAATCCCGTATTAATCCCGTATAAGATTTTCTGCATGCACCATCTTCAGAAAAATGGATATAT
* *
896573 CTTGAGTTTCCGATATCGGATTGATGCGATTCAAGAACCGTTGGAAAGATAAGGGACAGACGGTT
261 CTTGAGTTCCCGATATCAGATTGATGCGATTCAAGAACCGTTGGAAAGATAAGGGACAGACGGTT
896638 TTATCTCCAGAAGACATGTTGACGAAATAAG
326 TTATCTCCAGAAGACATGTTGACGAAATAAG
896669 A
1 A
896670 TCAGGATACC
Statistics
Matches: 351, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
356 351 1.00
ACGTcount: A:0.43, C:0.15, G:0.11, T:0.31
Consensus pattern (356 bp):
AATGAATAAAATAATAATAAACTAAACATGTCTTAACTCTAATTCCTAATAAAATAATAATAACT
AAAGATAATATTTTAACCCAACCTTAATTCCTAATAAAATAATAAATCTAATCCTAAAAGATAAT
GCATCATCCTATATTAAGTTATATTACAAATAATCAAAAAAAATATTGAAAATTCGTAATATTTA
CAAAATCCCGTATTAATCCCGTATAAGATTTTCTGCATGCACCATCTTCAGAAAAATGGATATAT
CTTGAGTTCCCGATATCAGATTGATGCGATTCAAGAACCGTTGGAAAGATAAGGGACAGACGGTT
TTATCTCCAGAAGACATGTTGACGAAATAAG
Found at i:899356 original size:6 final size:5
Alignment explanation
Indices: 899339--899373 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
899329 AAGAAAATTT
*
899339 TAAAG TAAAA TAAAAA TAAAA TAAAA TAAAA TAAA
1 TAAAA TAAAA T-AAAA TAAAA TAAAA TAAAA TAAA
899374 TTTAACAAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
5 23 0.82
6 5 0.18
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:899363 original size:16 final size:15
Alignment explanation
Indices: 899339--899373 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
899329 AAGAAAATTT
*
899339 TAAAGTAAAATAAAAA
1 TAAAATAAAAT-AAAA
899355 TAAAATAAAATAAAA
1 TAAAATAAAATAAAA
899370 TAAA
1 TAAA
899374 TTTAACAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (15 bp):
TAAAATAAAATAAAA
Found at i:902009 original size:3 final size:3
Alignment explanation
Indices: 902003--902038 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
901993 TTTACTCATT
902003 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
902039 AAAAATAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:907433 original size:15 final size:15
Alignment explanation
Indices: 907413--907444 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
907403 ATCAATACCT
907413 TTTTGCATACATACA
1 TTTTGCATACATACA
*
907428 TTTTGCATACATTCA
1 TTTTGCATACATACA
907443 TT
1 TT
907445 ATTCATTTCA
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:0.28, C:0.19, G:0.06, T:0.47
Consensus pattern (15 bp):
TTTTGCATACATACA
Found at i:914779 original size:20 final size:20
Alignment explanation
Indices: 914754--914844 Score: 82
Period size: 20 Copynumber: 4.6 Consensus size: 20
914744 GCTTGAAGAA
* *
914754 AAAAAATAAGAAAGAAAAGG
1 AAAAAAGAAAAAAGAAAAGG
*
914774 AAAAAAGAAAAAAGAAAA-A
1 AAAAAAGAAAAAAGAAAAGG
914793 AGAAAAAGAAAAAGAGAAAA--
1 A-AAAAAGAAAAA-AGAAAAGG
* *
914813 AAGAAAGAAAAAAGAGAAAAG
1 AAAAAAGAAAAAAGA-AAAGG
914834 -AAAAAGAAAAA
1 AAAAAAGAAAAA
914845 GGGGGGTCAA
Statistics
Matches: 61, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
18 3 0.05
19 14 0.23
20 38 0.62
21 6 0.10
ACGTcount: A:0.81, C:0.00, G:0.18, T:0.01
Consensus pattern (20 bp):
AAAAAAGAAAAAAGAAAAGG
Found at i:914783 original size:7 final size:7
Alignment explanation
Indices: 914749--914844 Score: 96
Period size: 7 Copynumber: 14.1 Consensus size: 7
914739 ATTATGCTTG
914749 AAGAAAA
1 AAGAAAA
*
914756 AAAATAAGA
1 AAGA-AA-A
914765 AAG-AAA
1 AAGAAAA
*
914771 AGGAAAA
1 AAGAAAA
914778 AAGAAAA
1 AAGAAAA
914785 AAGAAAA
1 AAGAAAA
914792 AAG-AAA
1 AAGAAAA
914798 AAGAAAA
1 AAGAAAA
914805 AGAGAAAA
1 A-AGAAAA
914813 AAG---A
1 AAGAAAA
914817 AAGAAAA
1 AAGAAAA
*
914824 AAGAGAA
1 AAGAAAA
914831 AAG-AAA
1 AAGAAAA
914837 AAGAAAA
1 AAGAAAA
914844 A
1 A
914845 GGGGGGTCAA
Statistics
Matches: 74, Mismatches: 6, Indels: 18
0.76 0.06 0.18
Matches are distributed among these distances:
4 4 0.05
6 14 0.19
7 44 0.59
8 9 0.12
9 3 0.04
ACGTcount: A:0.81, C:0.00, G:0.18, T:0.01
Consensus pattern (7 bp):
AAGAAAA
Found at i:916261 original size:92 final size:92
Alignment explanation
Indices: 916104--916822 Score: 1294
Period size: 92 Copynumber: 7.8 Consensus size: 92
916094 ATAAGACCCA
**
916104 ATAGCATCTTCTACAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACCAAT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACCAAT
916169 CATTGAATTTGGAAGATGAATGTGCTC
66 CATTGAATTTGGAAGATGAATGTGCTC
*
916196 ATAGCATTTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACCAAT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACCAAT
916261 CATTGAATTTGGAAGATGAATGTGCTC
66 CATTGAATTTGGAAGATGAATGTGCTC
916288 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACCAAT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACCAAT
916353 CATTGAATTTGGAAGATGAATGTGCTC
66 CATTGAATTTGGAAGATGAATGTGCTC
916380 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACCAAT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACCAAT
*
916445 CATTGAATTTGGAAGATAAATGTGCTC
66 CATTGAATTTGGAAGATGAATGTGCTC
916472 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACCAAT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACCAAT
*
916537 CATTGAATTTGGAAGATAAATGTGCTC
66 CATTGAATTTGGAAGATGAATGTGCTC
*
916564 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGATCCACAGAACCAAT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACCAAT
*
916629 CATTGAATTTGGAAGATAAATGTGCTC
66 CATTGAATTTGGAAGATGAATGTGCTC
** *
916656 ATAATATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACCAGT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACCAAT
* * *
916721 TATTGAATTTGGAAGAGGAATGTGCTA
66 CATTGAATTTGGAAGATGAATGTGCTC
* *
916748 ATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTGATCTGGTTTGGTAGGAACCACAGAACCAAT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACCAAT
916813 CATTGGAATT
66 CATT-GAATT
916823 AAAAGATGAA
Statistics
Matches: 606, Mismatches: 20, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
92 601 0.99
93 5 0.01
ACGTcount: A:0.28, C:0.15, G:0.22, T:0.35
Consensus pattern (92 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACCAAT
CATTGAATTTGGAAGATGAATGTGCTC
Found at i:917706 original size:24 final size:23
Alignment explanation
Indices: 917663--917707 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
917653 GTTCATAATG
*
917663 AGAAGAATTCATCTGAAGAAGGA
1 AGAAGAATTCATATGAAGAAGGA
917686 AGAAGAAATTCATAATG-AGAAG
1 AGAAG-AATTCAT-ATGAAGAAG
917708 AATTTGTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 5 0.26
24 12 0.63
25 2 0.11
ACGTcount: A:0.51, C:0.07, G:0.24, T:0.18
Consensus pattern (23 bp):
AGAAGAATTCATATGAAGAAGGA
Found at i:917725 original size:113 final size:113
Alignment explanation
Indices: 917497--917873 Score: 558
Period size: 113 Copynumber: 3.3 Consensus size: 113
917487 TAGCAAAGAT
* * * *
917497 TCAAATCCATCATTTAATGGATTAGCATTTTCCAATTCGAGTTCATAATGAGAAGAACTCATCAT
1 TCAAATCCATCACTTGATGGATCAGC-TTTTCCAGTTCGAGTTCATAATGAGAAGAA-T--TCAT
* *
917562 TTGAAGAAGGAAGAAGAAATTCATAATAAGAAGAATTTGTTTAACCTTTTGC
62 CTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTTAACCTTTTGC
*
917614 TCAAATCCATCACTTGATGGACCAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAATTCATCTGA
1 TCAAATCCATCACTTGATGGATCAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAATTCATCTGA
*
917679 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTTAACATTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTTAACCTTTTGC
* *
917727 TCAAATTCATCACTTGATAGATCAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAATTCATCTGA
1 TCAAATCCATCACTTGATGGATCAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAATTCATCTGA
* **
917792 AGAAGGAAGAA-AAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTAT
66 AGAAGGAAGAAGAAA-TTCATAATGAGAAGAATTTGTTTAACCTTTTGC
* * *
917840 TCAAATTCATCACTTGATGGATCAACATTTCCAG
1 TCAAATCCATCACTTGATGGATCAGCTTTTCCAG
917874 AGAAAGTTCA
Statistics
Matches: 241, Mismatches: 18, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
112 3 0.01
113 186 0.77
115 1 0.00
116 29 0.12
117 22 0.09
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.32
Consensus pattern (113 bp):
TCAAATCCATCACTTGATGGATCAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAATTCATCTGA
AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTTAACCTTTTGC
Found at i:917882 original size:113 final size:113
Alignment explanation
Indices: 917536--918061 Score: 516
Period size: 113 Copynumber: 4.6 Consensus size: 113
917526 TTCCAATTCG
* * *
917536 AGTTCATAATGAGAAGAACTCATCATTTGAAGAAGGAAGAAGAAA-TTCATAATAAGAAGAATTT
1 AGTTCATAATGAGAAGAA-T--TCATCTGAAGAAGGAAGAA-AAAGTTCATAATGAGAAGAACTT
* * * * ****
917600 GTTTAACCTTTTGCTCAAATCCATCACTTGATGGACCAGCTTTTCCAGTTCG
62 GTTTAACCTTTTACTCAAATTCATCACTTGATGGATCAACTTTTCCAGAGAA
*
917652 AGTTCATAATGAGAAGAATTCATCTGAAGAAGGAAGAAGAAA-TTCATAATGAGAAGAATTTGTT
1 AGTTCATAATGAGAAGAATTCATCTGAAGAAGGAAGAA-AAAGTTCATAATGAGAAGAACTTGTT
* * * * ****
917716 TAACATTTTGCTCAAATTCATCACTTGATAGATCAGCTTTTCCAGTTCG
65 TAACCTTTTACTCAAATTCATCACTTGATGGATCAACTTTTCCAGAGAA
917765 AGTTCATAATGAGAAGAATTCATCTGAAGAAGGAAGAAAAAGTTCATAATGAGAAGAACTTGTTT
1 AGTTCATAATGAGAAGAATTCATCTGAAGAAGGAAGAAAAAGTTCATAATGAGAAGAACTTGTTT
* *
917830 AACCTTTTATTCAAATTCATCACTTGATGGATCAACATTTCCAGAGAA
66 AACCTTTTACTCAAATTCATCACTTGATGGATCAACTTTTCCAGAGAA
* * * * * * *
917878 AGTTCATAATAAGAA-ACTT-ATCT---G-AGGAAGAAGAAGTTCACAATGAGAAGAGCCTGTTC
1 AGTTCATAATGAGAAGAATTCATCTGAAGAAGGAAGAAAAAGTTCATAATGAGAAGAACTTGTTT
* * *
917937 AACCTTTTACAT-AATTTTATCACATAT-ATGTTAGCATCAACCTTTCCAGAGAA
66 AACCTTTTAC-TCAAATTCATCAC-T-TGATG---G-ATCAACTTTTCCAGAGAA
* * * * *
917990 AGTTCATAATGAGAAGAACTT-ATCTGAAAAAGAAAGAAGAAGTTCATAATGAGAAGAGCTTATT
1 AGTTCATAATGAGAAGAA-TTCATCTGAAGAAGGAAGAAAAAGTTCATAATGAGAAGAACTTGTT
*
918054 CAACCTTT
65 TAACCTTT
918062 GGAATGACTC
Statistics
Matches: 361, Mismatches: 35, Indels: 26
0.86 0.08 0.06
Matches are distributed among these distances:
107 48 0.13
108 6 0.02
109 1 0.00
111 5 0.01
112 37 0.10
113 201 0.56
114 6 0.02
115 1 0.00
116 18 0.05
118 38 0.11
ACGTcount: A:0.39, C:0.14, G:0.17, T:0.30
Consensus pattern (113 bp):
AGTTCATAATGAGAAGAATTCATCTGAAGAAGGAAGAAAAAGTTCATAATGAGAAGAACTTGTTT
AACCTTTTACTCAAATTCATCACTTGATGGATCAACTTTTCCAGAGAA
Found at i:918095 original size:118 final size:118
Alignment explanation
Indices: 917860--918151 Score: 287
Period size: 118 Copynumber: 2.5 Consensus size: 118
917850 CACTTGATGG
* * *
917860 ATCAACATTTCCAGAGAAAGTTCATAATAAG-A-AACTTATCTG----AGGAAGAAGAAGTTCAC
1 ATCAACCTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAAAAGAAAGAAGAAGTTCAC
* * * * * * *
917919 AATGAGAAGAGCCTGTTCAACCTTTTACATAATTTTATCACATATATGTTAGC
66 AATGAGAAGAGCCTATTCAACCTTTGACATAACTCTATCACAGATAGGATAGC
*
917972 ATCAACCTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAAAAGAAAGAAGAAGTTCAT
1 ATCAACCTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAAAAGAAAGAAGAAGTTCAC
* *
918037 AATGAGAAGAGCTTATTCAACCTTTGGA-ATGACTCTATCACAGA-AGGAAATAG-
66 AATGAGAAGAGCCTATTCAACCTTT-GACATAACTCTATCACAGATAGG--ATAGC
* ** *
918090 GTCAACATCATCCCCAGCGGAAAGTTCATAATGAGAAGAACTTATCTGAAGAAAGAGAAGAA
1 ATCAAC--C-TTTCCAG-AGAAAGTTCATAATGAGAAGAACTTATCTGAA-AAAGA-AAGAA
918152 TTTATTTAAC
Statistics
Matches: 148, Mismatches: 17, Indels: 18
0.81 0.09 0.10
Matches are distributed among these distances:
112 29 0.20
113 1 0.01
114 10 0.07
117 2 0.01
118 55 0.37
119 4 0.03
120 1 0.01
121 5 0.03
122 31 0.21
123 5 0.03
124 5 0.03
ACGTcount: A:0.42, C:0.16, G:0.18, T:0.25
Consensus pattern (118 bp):
ATCAACCTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAAAAGAAAGAAGAAGTTCAC
AATGAGAAGAGCCTATTCAACCTTTGACATAACTCTATCACAGATAGGATAGC
Found at i:918298 original size:3 final size:3
Alignment explanation
Indices: 918287--918348 Score: 108
Period size: 3 Copynumber: 21.0 Consensus size: 3
918277 TTTTTTTTAC
918287 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
918334 TAA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA
918349 AAAAATAATT
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
2 2 0.04
3 54 0.96
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:919863 original size:22 final size:21
Alignment explanation
Indices: 919838--919880 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
919828 AAATTAAATA
*
919838 TTATAAAAAATTATTATTTAAT
1 TTAT-AAAAATTAATATTTAAT
**
919860 TTATTCAAATTAATATTTAAT
1 TTATAAAAATTAATATTTAAT
919881 ATCAAAGAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (21 bp):
TTATAAAAATTAATATTTAAT
Found at i:926866 original size:6 final size:5
Alignment explanation
Indices: 926849--926883 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
926839 AAGAAAATTT
*
926849 TAAAG TAAAA TAAAAA TAAAA TAAAA TAAAA TAAA
1 TAAAA TAAAA T-AAAA TAAAA TAAAA TAAAA TAAA
926884 TTTAAAAAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
5 23 0.82
6 5 0.18
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:926890 original size:16 final size:16
Alignment explanation
Indices: 926849--926883 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
926839 AAGAAAATTT
*
926849 TAAAGTAAAATAAAAA
1 TAAAATAAAATAAAAA
926865 TAAAATAAAAT-AAAA
1 TAAAATAAAATAAAAA
926880 TAAA
1 TAAA
926884 TTTAAAAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (16 bp):
TAAAATAAAATAAAAA
Found at i:933624 original size:31 final size:32
Alignment explanation
Indices: 933586--933645 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
933576 AATTTAATTT
*
933586 TACTTTTAAT-AAAATTATAATTAATTTATAA
1 TACTTTTAATAAAAATAATAATTAATTTATAA
* *
933617 TACTTTTATTAAAAATAATATTTAATTTA
1 TACTTTTAATAAAAATAATAATTAATTTA
933646 AGTAATTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 9 0.36
32 16 0.64
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (32 bp):
TACTTTTAATAAAAATAATAATTAATTTATAA
Found at i:935425 original size:31 final size:32
Alignment explanation
Indices: 935369--935428 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 32
935359 TCTAAAAAAT
* *
935369 TAAATTAATTATTATTTTTAATAAAAGTATTA
1 TAAACTAATTATTAATTTTAATAAAAGTATTA
*
935401 TAAACTAATTA-TAATTTTATTAAAAGTA
1 TAAACTAATTATTAATTTTAATAAAAGTA
935429 AAATTAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 15 0.60
32 10 0.40
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.47
Consensus pattern (32 bp):
TAAACTAATTATTAATTTTAATAAAAGTATTA
Found at i:935945 original size:60 final size:59
Alignment explanation
Indices: 935800--935946 Score: 179
Period size: 60 Copynumber: 2.5 Consensus size: 59
935790 ATTGGATTTT
* * * * *
935800 AAACTTTTGAATATTCTGATCTCATCCTTAAACTTGACTCTCATTTTAAGTTAGTCCTT
1 AAACTTTTGAATATTCTAATTTCATCCCTAAACTTGACCCTCATTTTAAGTTAGTCCTC
* * * *
935859 AAAATTTTGAACATTCTAATTCCATCCCTAAACTATGACCCTC-TTTCTAATTTAGTCCTC
1 AAACTTTTGAATATTCTAATTTCATCCCTAAACT-TGACCCTCATTT-TAAGTTAGTCCTC
*
935919 AAACTTTTGAATATTCCAATTTCATCCC
1 AAACTTTTGAATATTCTAATTTCATCCC
935947 CAAATTCATC
Statistics
Matches: 73, Mismatches: 13, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
59 31 0.42
60 42 0.58
ACGTcount: A:0.29, C:0.24, G:0.06, T:0.41
Consensus pattern (59 bp):
AAACTTTTGAATATTCTAATTTCATCCCTAAACTTGACCCTCATTTTAAGTTAGTCCTC
Found at i:936459 original size:21 final size:21
Alignment explanation
Indices: 936435--936478 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
936425 CAAGCAAAAC
*
936435 TTTATAAAATTACAAGTCAAA
1 TTTATAAAATTACAAATCAAA
*
936456 TTTATAAAATTATAAATCAAA
1 TTTATAAAATTACAAATCAAA
936477 TT
1 TT
936479 AAATCAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.52, C:0.07, G:0.02, T:0.39
Consensus pattern (21 bp):
TTTATAAAATTACAAATCAAA
Found at i:936510 original size:20 final size:20
Alignment explanation
Indices: 936487--936525 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
936477 TTAAATCAAA
*
936487 TTAATTCAAATAAAATATTT
1 TTAAATCAAATAAAATATTT
*
936507 TTAAATCAAATCAAATATT
1 TTAAATCAAATAAAATATT
936526 ACTCAATCGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (20 bp):
TTAAATCAAATAAAATATTT
Found at i:936522 original size:10 final size:10
Alignment explanation
Indices: 936468--936502 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
936458 TATAAAATTA
936468 TAAATCAAAT
1 TAAATCAAAT
936478 TAAATCAAAT
1 TAAATCAAAT
*
936488 TAATTCAAAT
1 TAAATCAAAT
*
936498 AAAAT
1 TAAAT
936503 ATTTTTAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.60, C:0.09, G:0.00, T:0.31
Consensus pattern (10 bp):
TAAATCAAAT
Found at i:939230 original size:2 final size:2
Alignment explanation
Indices: 939223--939252 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
939213 GATTCAAAAC
939223 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
939253 TAGTCTCAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:947673 original size:67 final size:67
Alignment explanation
Indices: 947597--947732 Score: 254
Period size: 67 Copynumber: 2.0 Consensus size: 67
947587 TTGTACTTAA
* *
947597 ATGTTTTATGATTCTATGTATGCGCATTTAACAAATGAATTTGAAATCTTAAGTGGCTTTTAATC
1 ATGTTTTATGATTCTATGTATGCGCATATAACAAATGAATTTGAAAGCTTAAGTGGCTTTTAATC
947662 TT
66 TT
947664 ATGTTTTATGATTCTATGTATGCGCATATAACAAATGAATTTGAAAGCTTAAGTGGCTTTTAATC
1 ATGTTTTATGATTCTATGTATGCGCATATAACAAATGAATTTGAAAGCTTAAGTGGCTTTTAATC
947729 TT
66 TT
947731 AT
1 AT
947733 AAGGGCTCAT
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 67 1.00
ACGTcount: A:0.31, C:0.10, G:0.15, T:0.43
Consensus pattern (67 bp):
ATGTTTTATGATTCTATGTATGCGCATATAACAAATGAATTTGAAAGCTTAAGTGGCTTTTAATC
TT
Found at i:951326 original size:131 final size:134
Alignment explanation
Indices: 951113--951518 Score: 429
Period size: 131 Copynumber: 3.1 Consensus size: 134
951103 CGAGTTCTAG
** *
951113 CCATCTTT-AGGAAGGGCGATAACATGATTCCTACGCGATGAGGACGATTA-GTTATCTAGGGGT
1 CCATCTTTAAGG-AGGATGATAACACGATTCCTACGCGATGAGGAC-ATTATGTTATCTAGGGGT
* * * * *
951176 GACACGACTCCTACATGATGAGGAGTTCTGATCAGGGGATGTCATAATTCCTACGTGATGAGGAT
64 GACACGACTCCTACGTGATGAGGAGGTCTGATCAGGGGATGACATGATTCCTACATGATGAGGAT
* *
951241 AATATA
129 AACAGA
* * * * *
951247 CCATCTTT-A-G-GGATGATAACACGGTTCCTACGTGATGAGGACATCATGTTATCTAAGGTTGA
1 CCATCTTTAAGGAGGATGATAACACGATTCCTACGCGATGAGGACATTATGTTATCTAGGGGTGA
* * * *
951309 -AGCGGCTCCTACGTGATGAGGAGGTC-CAGTCAAGGGATGACACGATTCCTACATGATGAGGAT
66 CA-CGACTCCTACGTGATGAGGAGGTCTGA-TCAGGGGATGACATGATTCCTACATGATGAGGAT
**
951372 GGCAGA
129 AACAGA
* * *
951378 CCATCTTTAAGGAGGGTGATAACACGTTTCCTACGCGATAAGG--ATTACTGGTTATC-AGGGGT
1 CCATCTTTAAGGAGGATGATAACACGATTCCTACGCGATGAGGACATTA-T-GTTATCTAGGGGT
*
951440 GACACGACTCCTACGTGATGAGGAGGTCTGGTC-GGGGATGACATGATTCCTACATGATGAGGAT
64 GACACGACTCCTACGTGATGAGGAGGTCTGATCAGGGGATGACATGATTCCTACATGATGAGGAT
** *
951504 GGCAGG
129 AACAGA
951510 CCATCTTTA
1 CCATCTTTA
951519 GGGAATATGG
Statistics
Matches: 228, Mismatches: 34, Indels: 22
0.80 0.12 0.08
Matches are distributed among these distances:
130 5 0.02
131 100 0.44
132 47 0.21
133 34 0.15
134 42 0.18
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (134 bp):
CCATCTTTAAGGAGGATGATAACACGATTCCTACGCGATGAGGACATTATGTTATCTAGGGGTGA
CACGACTCCTACGTGATGAGGAGGTCTGATCAGGGGATGACATGATTCCTACATGATGAGGATAA
CAGA
Found at i:951705 original size:65 final size:63
Alignment explanation
Indices: 951636--951827 Score: 178
Period size: 65 Copynumber: 3.0 Consensus size: 63
951626 TTGTTTTATG
* * *
951636 GGAAACAATTCAAAGATAGGTGTTTTCAAAAGAAACTGTCTCGAGAGACAAAATTTTGTTTCAAA
1 GGAAACAACTCAAAGATA-GTTTTTTCAAAAGAAACTATCTCGAGAGACAAAA-TTTGTTTCAAA
* * *
951701 GGAAACAAACTCAAAG--AGTTTTTTCTCAAAAGAAATTTTCTCAAGAGAGACAAAAATGTGTTT
1 GGAAAC-AACTCAAAGATAG-TTTTT-TCAAAAGAAACTATCTC--GAGAGAC-AAAATTTGTTT
*
951764 -ATA
60 CAAA
* *
951767 GAGAAACAGACTCAAAGAT--TTTTTTTAAAAGAAACTATCTTGAGAGACAAAATTTGTTTCA
1 G-GAAACA-ACTCAAAGATAGTTTTTTCAAAAGAAACTATCTCGAGAGACAAAATTTGTTTCA
951828 TGAGAGAAAA
Statistics
Matches: 105, Mismatches: 11, Indels: 24
0.75 0.08 0.17
Matches are distributed among these distances:
62 10 0.10
63 9 0.09
64 5 0.05
65 34 0.32
66 17 0.16
67 26 0.25
68 4 0.04
ACGTcount: A:0.43, C:0.12, G:0.16, T:0.29
Consensus pattern (63 bp):
GGAAACAACTCAAAGATAGTTTTTTCAAAAGAAACTATCTCGAGAGACAAAATTTGTTTCAAA
Found at i:951773 original size:67 final size:63
Alignment explanation
Indices: 951658--951827 Score: 191
Period size: 67 Copynumber: 2.7 Consensus size: 63
951648 AAGATAGGTG
* *
951658 TTTTCAAAAGAAACTGTCTCGAGAGACAAAATTTTGTTTCAAAGGAAACAAACTCAAAGAGTTT
1 TTTTCAAAAGAAACTGTCTCGAGAGACAAAAATGTGTTTCAAAGGAAACAAACTCAAAGA-TTT
* * * *
951722 TTTCTCAAAAGAAATTTTCTCAAGAGAGACAAAAATGTGTTT-ATAGAGAAACAGACTCAAAGAT
1 TTT-TCAAAAGAAACTGTCTC--GAGAGACAAAAATGTGTTTCAAAG-GAAACAAACTCAAAGAT
951786 TT
62 TT
* * * *
951788 TTTTTAAAAGAAACTATCTTGAGAGAC-AAAATTTGTTTCA
1 TTTTCAAAAGAAACTGTCTCGAGAGACAAAAATGTGTTTCA
951828 TGAGAGAAAA
Statistics
Matches: 90, Mismatches: 11, Indels: 11
0.80 0.10 0.10
Matches are distributed among these distances:
62 10 0.11
63 8 0.09
64 3 0.03
65 28 0.31
66 9 0.10
67 32 0.36
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (63 bp):
TTTTCAAAAGAAACTGTCTCGAGAGACAAAAATGTGTTTCAAAGGAAACAAACTCAAAGATTT
Found at i:951831 original size:21 final size:21
Alignment explanation
Indices: 951807--951853 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
951797 GAAACTATCT
* *
951807 TGAGAGACAAAATTTGTTTCA
1 TGAGAGAAAAAAATTGTTTCA
951828 TGAGAGAAAAAAATTGTTTCA
1 TGAGAGAAAAAAATTGTTTCA
*
951849 AGAGA
1 TGAGA
951854 AATAACTCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.45, C:0.06, G:0.21, T:0.28
Consensus pattern (21 bp):
TGAGAGAAAAAAATTGTTTCA
Found at i:951976 original size:32 final size:32
Alignment explanation
Indices: 951935--952004 Score: 104
Period size: 32 Copynumber: 2.2 Consensus size: 32
951925 TTCACATCGG
* *
951935 GATGTTGAATCCCCAAAGATGCCTTAACATTT
1 GATGTTGAATCCCCAAAGATGCCCTAACATTC
**
951967 GATGTTGAATCTTCAAAGATGCCCTAACATTC
1 GATGTTGAATCCCCAAAGATGCCCTAACATTC
951999 GATGTT
1 GATGTT
952005 TCTTGCTTCA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (32 bp):
GATGTTGAATCCCCAAAGATGCCCTAACATTC
Found at i:953086 original size:15 final size:14
Alignment explanation
Indices: 953064--953100 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 14
953054 CGCTATTTGC
*
953064 TTTTTCTTTTATTT
1 TTTTTCTTTAATTT
953078 TTTTCTCTTTAATTT
1 TTTT-TCTTTAATTT
953093 TTTTTCTT
1 TTTTTCTT
953101 CTCTCTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.08, C:0.11, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTTTCTTTAATTT
Found at i:957698 original size:3 final size:3
Alignment explanation
Indices: 957690--957775 Score: 124
Period size: 3 Copynumber: 28.7 Consensus size: 3
957680 ACATATTAAT
957690 TAA TAA TAA T-A TAA TATA TAA TAA TAA TAA TTAA -AA TAA TAA TAA
1 TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA -TAA TAA TAA TAA TAA
957735 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAAA TAA -AA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TA
957776 TTTTTAGTAG
Statistics
Matches: 77, Mismatches: 0, Indels: 12
0.87 0.00 0.13
Matches are distributed among these distances:
2 6 0.08
3 62 0.81
4 9 0.12
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:967978 original size:47 final size:45
Alignment explanation
Indices: 967912--968021 Score: 150
Period size: 47 Copynumber: 2.4 Consensus size: 45
967902 TGGTATATGG
* *
967912 TTATGGAAT-AATGGCAAGTATATTGATAAAATAAGCTTATGAGC
1 TTATGGAATAAATGGTAAGTATATTGATAAAATAAGCTTACGAGC
* *
967956 TTATGGAATTTAAATGGTAAGTATTTTGGTAAAATAAGCTTACGAGC
1 TTATGGAA--TAAATGGTAAGTATATTGATAAAATAAGCTTACGAGC
*
968003 TTATGGGATAAATGGTAAG
1 TTATGGAATAAATGGTAAG
968022 GGATTTTATA
Statistics
Matches: 58, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
44 8 0.14
45 11 0.19
46 1 0.02
47 38 0.66
ACGTcount: A:0.38, C:0.05, G:0.23, T:0.34
Consensus pattern (45 bp):
TTATGGAATAAATGGTAAGTATATTGATAAAATAAGCTTACGAGC
Found at i:974669 original size:59 final size:59
Alignment explanation
Indices: 974570--974695 Score: 171
Period size: 59 Copynumber: 2.1 Consensus size: 59
974560 CAGTAGGATG
** * *
974570 CATATTCGGGAATACACTAAAGGATACCTAGTGTATATGGTGGGCACAACCTTATGTGT
1 CATATTCGGGAATACACTAAAGGATACCTAGTACAGATGGTGGACACAACCTTATGTGT
* ** * *
974629 CATATTCGGGACTGTACTTAAGGATACCTAGTACAGATGGTGGACACGACCTTATGTGT
1 CATATTCGGGAATACACTAAAGGATACCTAGTACAGATGGTGGACACAACCTTATGTGT
974688 CATATTCG
1 CATATTCG
974696 AGATAGCACT
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
59 58 1.00
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (59 bp):
CATATTCGGGAATACACTAAAGGATACCTAGTACAGATGGTGGACACAACCTTATGTGT
Found at i:976456 original size:34 final size:34
Alignment explanation
Indices: 976418--976494 Score: 102
Period size: 34 Copynumber: 2.3 Consensus size: 34
976408 CCATAGCTGA
* *
976418 AATGCATATGGGTGTATTATA-AGCATAAAAGAAT
1 AATGCATATGGGAGCATTATAGA-CATAAAAGAAT
* *
976452 AATGCACATGGGAGCATTATCGACATAAAAGAAT
1 AATGCATATGGGAGCATTATAGACATAAAAGAAT
976486 AATGCATAT
1 AATGCATAT
976495 ACGTGCATTA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
34 36 0.97
35 1 0.03
ACGTcount: A:0.44, C:0.10, G:0.19, T:0.26
Consensus pattern (34 bp):
AATGCATATGGGAGCATTATAGACATAAAAGAAT
Done.