Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002844.1 Hibiscus syriacus cultivar Beakdansim tig00005856_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: 1090609
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 5
Found at i:666114 original size:2 final size:2
Alignment explanation
Indices: 666103--666142 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
666093 ATATCATGAT
666103 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
666143 TACTTCATTT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:666634 original size:37 final size:37
Alignment explanation
Indices: 666600--666670 Score: 142
Period size: 37 Copynumber: 1.9 Consensus size: 37
666590 TTTAAAAGAT
666600 GATTTTTAGGTATTCGACCTACCTAACCCAAAAAGTC
1 GATTTTTAGGTATTCGACCTACCTAACCCAAAAAGTC
666637 GATTTTTAGGTATTCGACCTACCTAACCCAAAAA
1 GATTTTTAGGTATTCGACCTACCTAACCCAAAAA
666671 TTTGATTACG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.34, C:0.24, G:0.13, T:0.30
Consensus pattern (37 bp):
GATTTTTAGGTATTCGACCTACCTAACCCAAAAAGTC
Found at i:668848 original size:23 final size:23
Alignment explanation
Indices: 668818--668861 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
668808 AATACACTGA
* *
668818 AGTGCCACGTAGAATTGCACCAT
1 AGTGCCACATAGAAATGCACCAT
668841 AGTGCCACATAGAAATGCACC
1 AGTGCCACATAGAAATGCACC
668862 GAAGTTCCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.34, C:0.27, G:0.20, T:0.18
Consensus pattern (23 bp):
AGTGCCACATAGAAATGCACCAT
Found at i:670035 original size:3 final size:3
Alignment explanation
Indices: 670017--670081 Score: 112
Period size: 3 Copynumber: 21.0 Consensus size: 3
670007 ATGTCCCCTA
670017 ATT ATAT ATAT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT AT-T AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
670064 ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT
670082 TCCTAGAGTC
Statistics
Matches: 61, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 54 0.89
4 7 0.11
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:670747 original size:65 final size:65
Alignment explanation
Indices: 670677--670825 Score: 192
Period size: 67 Copynumber: 2.3 Consensus size: 65
670667 TTTTTCCTTT
* * * *
670677 AGGGGGTATCGATTCC-CTACTGGGGGGAATCGGTACCCCTATGATATTCTGAAATTTTTTGTTC
1 AGGGGGTATCGATACCTCT-CTGGGGGGAATCAGTACCCCTATGACATTCTGAAATTTCTTGTTC
670741 A
65 A
*
670742 AGGGGGGGTATCGATACCTCTCTGGGGGGAATCAGTACCCCTATGACATTCTGGAATTTCTTGTT
1 A--GGGGGTATCGATACCTCTCTGGGGGGAATCAGTACCCCTATGACATTCTGAAATTTCTTGTT
**
670807 TG
64 CA
*
670809 AGAGGGTATCGATACCT
1 AGGGGGTATCGATACCT
670826 ATTGAATGGG
Statistics
Matches: 73, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
65 16 0.22
67 55 0.75
68 2 0.03
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.32
Consensus pattern (65 bp):
AGGGGGTATCGATACCTCTCTGGGGGGAATCAGTACCCCTATGACATTCTGAAATTTCTTGTTCA
Found at i:670767 original size:67 final size:67
Alignment explanation
Indices: 670678--670806 Score: 197
Period size: 67 Copynumber: 1.9 Consensus size: 67
670668 TTTTCCTTTA
* * * *
670678 GGGGGTATCGATTCCCTACTGGGGGGAATCGGTACCCCTATGATATTCTGAAATTTTTTGTTCAA
1 GGGGGTATCGATACCCTACTGGGGGGAATCAGTACCCCTATGACATTCTGAAATTTCTTGTTCAA
670743 GG
66 GG
*
670745 GGGGGTATCGATACCTCT-CTGGGGGGAATCAGTACCCCTATGACATTCTGGAATTTCTTGTT
1 GGGGGTATCGATACC-CTACTGGGGGGAATCAGTACCCCTATGACATTCTGAAATTTCTTGTT
670807 TGAGAGGGTA
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
67 54 0.96
68 2 0.04
ACGTcount: A:0.20, C:0.19, G:0.28, T:0.33
Consensus pattern (67 bp):
GGGGGTATCGATACCCTACTGGGGGGAATCAGTACCCCTATGACATTCTGAAATTTCTTGTTCAA
GG
Found at i:675280 original size:12 final size:12
Alignment explanation
Indices: 675263--675292 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
675253 CATGCATTGG
675263 CATACACATAAA
1 CATACACATAAA
*
675275 CATACACATATA
1 CATACACATAAA
675287 CATACA
1 CATACA
675293 TGATTTTGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.53, C:0.27, G:0.00, T:0.20
Consensus pattern (12 bp):
CATACACATAAA
Found at i:675717 original size:73 final size:73
Alignment explanation
Indices: 675630--675955 Score: 485
Period size: 73 Copynumber: 4.5 Consensus size: 73
675620 TAAATAAAAG
* * *
675630 ATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTATTTCTCGCTAGAGAAAGTTTCACTTG
1 ATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTTTTTCTCGCTTGAGAAAGTTTCACTAG
675695 AAATAGTA
66 AAATAGTA
* * * *
675703 ATTTATCTCACTTGAGATTGTTTTTCTTAGAACATACTTTTTCTCTCTTGAGAAAGTTTCACAAG
1 ATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTTTTTCTCGCTTGAGAAAGTTTCACTAG
**
675768 AAATAAAA
66 AAATAGTA
675776 ATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTTTTTCTCGCTTGAGAAAGTTTCACTAG
1 ATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTTTTTCTCGCTTGAGAAAGTTTCACTAG
675841 AAATA-TCA
66 AAATAGT-A
* * * *
675849 ATTTATCTCACTTGAGATTATTTTTCTTAAAACAAAATGTTTCTCGCTTGAGAAAGTATCACTCA
1 ATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTTTTTCTCGCTTGAGAAAGTTTCACT-A
* *
675914 -CAATAGCA
65 GAAATAGTA
675922 ATTTATCTCACTTGAGATTGTTTTTCTTAAAACA
1 ATTTATCTCACTTGAGATTGTTTTTCTTAAAACA
675956 TTTCCAGAAG
Statistics
Matches: 229, Mismatches: 21, Indels: 6
0.89 0.08 0.02
Matches are distributed among these distances:
73 228 1.00
74 1 0.00
ACGTcount: A:0.33, C:0.16, G:0.11, T:0.40
Consensus pattern (73 bp):
ATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTTTTTCTCGCTTGAGAAAGTTTCACTAG
AAATAGTA
Found at i:675826 original size:36 final size:36
Alignment explanation
Indices: 675590--675955 Score: 193
Period size: 37 Copynumber: 10.0 Consensus size: 36
675580 CTCGAACCAG
* ** **
675590 AAAAATTATCTCACTCAAGATAATTTTTCTTAAATA-
1 AAAATTTATCTCACTTGAGATTGTTTTTCTTAAA-AC
675626 AAAGATTTATCTCACTTGAGATTGTTTTTCTTAAAAC
1 AAA-ATTTATCTCACTTGAGATTGTTTTTCTTAAAAC
* * * ** ** * *
675663 AAACTATT-TCTCGCTAGAGAAAGTTTCACTTGAAAT
1 AAAAT-TTATCTCACTTGAGATTGTTTTTCTTAAAAC
* *
675699 AGTAATTTATCTCACTTGAGATTGTTTTTCTTAGAAC
1 A-AAATTTATCTCACTTGAGATTGTTTTTCTTAAAAC
* * * * ** ** * *
675736 ATACTTTTTCTCTCTTGAGAAAGTTTCAC-AAGAAATA
1 AAAATTTATCTCACTTGAGATTGTTTTTCTTA-AAA-C
675773 AAAATTTATCTCACTTGAGATTGTTTTTCTTAAAAC
1 AAAATTTATCTCACTTGAGATTGTTTTTCTTAAAAC
* * * ** ** *
675809 AAACTTTTTCTCGCTTGAGAAAGTTTCAC-TAGAAAT
1 AAAATTTATCTCACTTGAGATTGTTTTTCTTA-AAAC
* *
675845 ATCAATTTATCTCACTTGAGATTATTTTTCTTAAAAC
1 A-AAATTTATCTCACTTGAGATTGTTTTTCTTAAAAC
* ** * ** * * *
675882 AAAATGTT-TCTCGCTTGAGAAAGTATCACTCACAAT
1 AAAAT-TTATCTCACTTGAGATTGTTTTTCTTAAAAC
*
675918 AGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAAC
1 A-AAATTTATCTCACTTGAGATTGTTTTTCTTAAAAC
675955 A
1 A
675956 TTTCCAGAAG
Statistics
Matches: 232, Mismatches: 84, Indels: 27
0.68 0.24 0.08
Matches are distributed among these distances:
35 3 0.01
36 101 0.44
37 125 0.54
38 3 0.01
ACGTcount: A:0.34, C:0.16, G:0.10, T:0.40
Consensus pattern (36 bp):
AAAATTTATCTCACTTGAGATTGTTTTTCTTAAAAC
Found at i:676184 original size:84 final size:85
Alignment explanation
Indices: 676000--676184 Score: 273
Period size: 85 Copynumber: 2.2 Consensus size: 85
675990 CTAAAGAGGA
* * * *
676000 AGAAGAGGTTCATAATCTGAAGAACTTATTCAACCTTTTGCTCGACTTTATCGGCAGAAGGAGAT
1 AGAAGAAGTTCATAATCTGAAAAACTTATTCAACCTTTTGCTCGACTCTATCGGCAGAAGAAGAT
*
676065 AGAGTAGCATCAACATTTCC
66 AGAGAAGCATCAACATTTCC
* *
676085 AGAAGAAGTTCATAATCTGAAAAACTTGTTCAACCTTTTGCTCGACTCTGTC-GCAGAAGAAGAT
1 AGAAGAAGTTCATAATCTGAAAAACTTATTCAACCTTTTGCTCGACTCTATCGGCAGAAGAAGAT
*
676149 AGAGAAGCATCAACATTTTC
66 AGAGAAGCATCAACATTTCC
* *
676169 GGAAGGAGTTCATAAT
1 AGAAGAAGTTCATAAT
676185 AAGAACTCAT
Statistics
Matches: 90, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
84 43 0.48
85 47 0.52
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.28
Consensus pattern (85 bp):
AGAAGAAGTTCATAATCTGAAAAACTTATTCAACCTTTTGCTCGACTCTATCGGCAGAAGAAGAT
AGAGAAGCATCAACATTTCC
Found at i:677842 original size:43 final size:44
Alignment explanation
Indices: 677795--677883 Score: 103
Period size: 43 Copynumber: 2.0 Consensus size: 44
677785 TTTTATTTTT
677795 ATTATT-GTCATTTATTTT-TCAATACTTTAAATTTAGT-ACTTTA
1 ATTATTAGTC-TTTATTTTATCAATA-TTTAAATTTAGTCACTTTA
* ** *
677838 ATTATTATTCTTTATTTTATCTTTATTTAATTTTAGTCACTTTA
1 ATTATTAGTCTTTATTTTATCAATATTTAAATTTAGTCACTTTA
677882 AT
1 AT
677884 ATATATATAT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
43 25 0.64
44 14 0.36
ACGTcount: A:0.28, C:0.09, G:0.03, T:0.60
Consensus pattern (44 bp):
ATTATTAGTCTTTATTTTATCAATATTTAAATTTAGTCACTTTA
Found at i:677889 original size:2 final size:2
Alignment explanation
Indices: 677882--677909 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
677872 AGTCACTTTA
677882 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
677910 GAAATATTTG
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):
AT
Found at i:679038 original size:54 final size:54
Alignment explanation
Indices: 678964--679146 Score: 267
Period size: 54 Copynumber: 3.4 Consensus size: 54
678954 ACATATATTT
* * *
678964 CCCATACGAAAATTCGTACACTTAGTATGAATCTCTTAGTTCGCACACCTAGTG
1 CCCATACGGAAATTCATACACTTAGTATGAATTTCTTAGTTCGCACACCTAGTG
* *
679018 CCCATATGGAAATTCATACACTTAGTATGAATTTCTTAGTTCGCACACCTAGTT
1 CCCATACGGAAATTCATACACTTAGTATGAATTTCTTAGTTCGCACACCTAGTG
* * * * *
679072 CCCATAAGGAAATTCATACTCTTAGTATGAATTTCTTAGCTTTGCATACATAGTG
1 CCCATACGGAAATTCATACACTTAGTATGAATTTCTTAG-TTCGCACACCTAGTG
679127 CCCATACGGAAATTCATACA
1 CCCATACGGAAATTCATACA
679147 TACGGAAATT
Statistics
Matches: 115, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
54 86 0.75
55 29 0.25
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.32
Consensus pattern (54 bp):
CCCATACGGAAATTCATACACTTAGTATGAATTTCTTAGTTCGCACACCTAGTG
Found at i:679041 original size:109 final size:107
Alignment explanation
Indices: 678894--679146 Score: 276
Period size: 109 Copynumber: 2.3 Consensus size: 107
678884 AACTTACGTG
* * * * * * *
678894 AGTTGCATACCTAGT-ACCATATGGAAATTCACATACTTATTAT-TATCTTCTTATATTTGTACA
1 AGTTGCATACCTAGTGCCCATATGGAAATTCATACACTTAGTATGAAT-TTCTTA-ATTCGCACA
* * * *
678957 TATATTTCCCATACGAAAATTCGTACACTTAGTATGAATCTCTT
64 CATAGTTCCCATAAGAAAATTCATACACTTAGTATGAATCTCTT
* *
679001 AGTTCGCACACCTAGTGCCCATATGGAAATTCATACACTTAGTATGAATTTCTTAGTTCGCACAC
1 AGTT-GCATACCTAGTGCCCATATGGAAATTCATACACTTAGTATGAATTTCTTAATTCGCACAC
* * * *
679066 CTAGTTCCCATAAGGAAATTCATACTCTTAGTATGAATTTCTT
65 ATAGTTCCCATAAGAAAATTCATACACTTAGTATGAATCTCTT
* *
679109 AGCTTTGCATACATAGTGCCCATACGGAAATTCATACA
1 AG--TTGCATACCTAGTGCCCATATGGAAATTCATACA
679147 TACGGAAATT
Statistics
Matches: 121, Mismatches: 20, Indels: 8
0.81 0.13 0.05
Matches are distributed among these distances:
107 4 0.03
108 54 0.45
109 59 0.49
110 4 0.03
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.36
Consensus pattern (107 bp):
AGTTGCATACCTAGTGCCCATATGGAAATTCATACACTTAGTATGAATTTCTTAATTCGCACACA
TAGTTCCCATAAGAAAATTCATACACTTAGTATGAATCTCTT
Found at i:679150 original size:16 final size:16
Alignment explanation
Indices: 679129--679162 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
679119 ACATAGTGCC
679129 CATACGGAAATTCATA
1 CATACGGAAATTCATA
679145 CATACGGAAATTCATA
1 CATACGGAAATTCATA
679161 CA
1 CA
679163 CTTAGTATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.44, C:0.21, G:0.12, T:0.24
Consensus pattern (16 bp):
CATACGGAAATTCATA
Found at i:679656 original size:20 final size:20
Alignment explanation
Indices: 679633--679670 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
679623 TCGATACCTT
* *
679633 CCCTTTGGTATCGATACTCC
1 CCCTTCGGTATCAATACTCC
679653 CCCTTCGGTATCAATACT
1 CCCTTCGGTATCAATACT
679671 GATTCAATCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.34, G:0.13, T:0.34
Consensus pattern (20 bp):
CCCTTCGGTATCAATACTCC
Found at i:680589 original size:15 final size:15
Alignment explanation
Indices: 680565--680595 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
680555 TATCTAGGTA
680565 TATTTAATTTTTTAT
1 TATTTAATTTTTTAT
*
680580 TATTTTATTTTTTAT
1 TATTTAATTTTTTAT
680595 T
1 T
680596 TTAATATTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (15 bp):
TATTTAATTTTTTAT
Found at i:681357 original size:25 final size:25
Alignment explanation
Indices: 681325--681372 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
681315 TGGTTATGCA
*
681325 TATAGTATTGTTGAGCATGAAAACC
1 TATAGTATTATTGAGCATGAAAACC
681350 TATAGTATTATTGAGCATGAAAA
1 TATAGTATTATTGAGCATGAAAA
681373 ACTTAGGGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.40, C:0.08, G:0.19, T:0.33
Consensus pattern (25 bp):
TATAGTATTATTGAGCATGAAAACC
Found at i:684048 original size:23 final size:24
Alignment explanation
Indices: 684020--684073 Score: 83
Period size: 23 Copynumber: 2.3 Consensus size: 24
684010 ATTATTTTTC
*
684020 TTTACATAAGTTAAACTATA-TAA
1 TTTACATAAATTAAACTATATTAA
684043 TTTACATAAATTAAACTATATTAA
1 TTTACATAAATTAAACTATATTAA
*
684067 TTCACAT
1 TTTACAT
684074 TTAATCATTG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
23 19 0.68
24 9 0.32
ACGTcount: A:0.46, C:0.11, G:0.02, T:0.41
Consensus pattern (24 bp):
TTTACATAAATTAAACTATATTAA
Found at i:684352 original size:16 final size:16
Alignment explanation
Indices: 684304--684359 Score: 53
Period size: 16 Copynumber: 3.5 Consensus size: 16
684294 TTTCGTCCAT
*
684304 GGTAATATATAAG-TCA
1 GGTAA-ATATCAGATCA
*
684320 GGTAAATGTCA-AGTCA
1 GGTAAATATCAGA-TCA
684336 GGTAAATATCAGATCA
1 GGTAAATATCAGATCA
*
684352 GGTCAATA
1 GGTAAATA
684360 ACAAGTCGAA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
15 4 0.12
16 28 0.85
17 1 0.03
ACGTcount: A:0.41, C:0.11, G:0.21, T:0.27
Consensus pattern (16 bp):
GGTAAATATCAGATCA
Found at i:685047 original size:20 final size:20
Alignment explanation
Indices: 685022--685080 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
685012 AATTTTAGTC
685022 CCCAATGGCTCCAAAACATT
1 CCCAATGGCTCCAAAACATT
*
685042 CCCAATAGCTCCAAAACATT
1 CCCAATGGCTCCAAAACATT
*
685062 CCCAATGACTCCAAAACAT
1 CCCAATGGCTCCAAAACAT
685081 CTCCAACGGC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.39, C:0.36, G:0.07, T:0.19
Consensus pattern (20 bp):
CCCAATGGCTCCAAAACATT
Found at i:696638 original size:23 final size:23
Alignment explanation
Indices: 696604--696678 Score: 93
Period size: 23 Copynumber: 3.4 Consensus size: 23
696594 GCTAGATATC
*
696604 GATACCCACTTTGAATGGGTACT
1 GATACCCCCTTTGAATGGGTACT
*
696627 GATACCCCCTTTGAATGGGTATT
1 GATACCCCCTTTGAATGGGTACT
* *
696650 GATACCCCC-ATG-A-GGGTACC
1 GATACCCCCTTTGAATGGGTACT
696670 GATACCCCC
1 GATACCCCC
696679 ATCGGGTTCT
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
20 14 0.30
21 1 0.02
22 2 0.04
23 30 0.64
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.25
Consensus pattern (23 bp):
GATACCCCCTTTGAATGGGTACT
Found at i:697149 original size:13 final size:13
Alignment explanation
Indices: 697131--697164 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
697121 TACATTTTGA
*
697131 TTTTCAAACATTG
1 TTTTCAAACATAG
697144 TTTTCAAACATAG
1 TTTTCAAACATAG
697157 TTTTCAAA
1 TTTTCAAA
697165 GTTTGCCCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.35, C:0.15, G:0.06, T:0.44
Consensus pattern (13 bp):
TTTTCAAACATAG
Found at i:700625 original size:18 final size:18
Alignment explanation
Indices: 700602--700662 Score: 113
Period size: 18 Copynumber: 3.4 Consensus size: 18
700592 AAGACTCAAG
700602 TGAAGAGGTGGATGAAGA
1 TGAAGAGGTGGATGAAGA
700620 TGAAGAGGTGGATGAAGA
1 TGAAGAGGTGGATGAAGA
*
700638 TGAAGAGGTGGACGAAGA
1 TGAAGAGGTGGATGAAGA
700656 TGAAGAG
1 TGAAGAG
700663 ATGGTAAAGC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
18 42 1.00
ACGTcount: A:0.39, C:0.02, G:0.44, T:0.15
Consensus pattern (18 bp):
TGAAGAGGTGGATGAAGA
Found at i:702412 original size:20 final size:20
Alignment explanation
Indices: 702383--702432 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
702373 CTGGGCAAGA
*
702383 AGTATTGATATTGTACTTAC
1 AGTATCGATATTGTACTTAC
* **
702403 AGTATCGATATTGTTCTTGT
1 AGTATCGATATTGTACTTAC
702423 AGTATCGATA
1 AGTATCGATA
702433 CGAAAGGCAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.28, C:0.10, G:0.18, T:0.44
Consensus pattern (20 bp):
AGTATCGATATTGTACTTAC
Found at i:709594 original size:128 final size:129
Alignment explanation
Indices: 709312--709698 Score: 623
Period size: 129 Copynumber: 3.0 Consensus size: 129
709302 AAATTGATAG
* * *
709312 TAAAAATAATATTTTAGATAATTTTTTATTGATTTAGTTGAAAATAATAATAGCAAAACCATTAA
1 TAAAAATAATATTTTAGATAATTTTTTATTGATTTAGTTAAAAATAATAATAACAAAATCATTAA
*
709377 CACA-TTCTTTAACATTATATTAATTCTTTCCCAATAACATGTGGGCTTAGACAGAGAGAGAAA
66 CACATTTCTTTAACATTATATTAATTCTTCCCCAATAACATGTGGGCTTAGACAGAGAGAGAAA
*
709440 TAAAAATAATATTTTAAATAATTTTTTATTGATTTAGTTAAAAATAATAATAACAAAATCATTAA
1 TAAAAATAATATTTTAGATAATTTTTTATTGATTTAGTTAAAAATAATAATAACAAAATCATTAA
* ** *
709505 TACATTTCTTTAACATTATATTTTTTCTTCCCCAATAACATGTGGGCTTAGACGGAGAGAGAAA
66 CACATTTCTTTAACATTATATTAATTCTTCCCCAATAACATGTGGGCTTAGACAGAGAGAGAAA
* * * *
709569 TAAAAATAATTTTTTAGATAATTTTTTATTAATTTAATTAAAAATAATAATAACAAAATCAATAA
1 TAAAAATAATATTTTAGATAATTTTTTATTGATTTAGTTAAAAATAATAATAACAAAATCATTAA
* *
709634 CACATTTCTTTAACATTATATTAATTCTTCCCCCAATAACATGTGGGCTTAGATAGAAAGAGAAA
66 CACATTTCTTTAACATTATATTAATTCTT-CCCCAATAACATGTGGGCTTAGACAGAGAGAGAAA
709699 GGTGGGAGAT
Statistics
Matches: 237, Mismatches: 20, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
128 64 0.27
129 141 0.59
130 32 0.14
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.37
Consensus pattern (129 bp):
TAAAAATAATATTTTAGATAATTTTTTATTGATTTAGTTAAAAATAATAATAACAAAATCATTAA
CACATTTCTTTAACATTATATTAATTCTTCCCCAATAACATGTGGGCTTAGACAGAGAGAGAAA
Found at i:710425 original size:29 final size:29
Alignment explanation
Indices: 710383--710441 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
710373 ATTTTCACCT
710383 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
710412 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
710441 A
1 A
710442 TTAATTTAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.49, C:0.14, G:0.14, T:0.24
Consensus pattern (29 bp):
AACTAAATTGATGTAAGCAATGACATCAA
Found at i:715145 original size:29 final size:29
Alignment explanation
Indices: 715072--715128 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
715062 ATTTTCACCT
715072 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
715101 AACTAAATTGATGTAAGCAATGACATCA
1 AACTAAATTGATGTAAGCAATGACATCA
715129 TATTAATTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.47, C:0.14, G:0.14, T:0.25
Consensus pattern (29 bp):
AACTAAATTGATGTAAGCAATGACATCAA
Found at i:717336 original size:52 final size:52
Alignment explanation
Indices: 717275--717378 Score: 208
Period size: 52 Copynumber: 2.0 Consensus size: 52
717265 ACAAAAGAAA
717275 GAAAAATCTTTAGATTTTCATGTATGAATTTATACTATTCTTTTAGAAATAT
1 GAAAAATCTTTAGATTTTCATGTATGAATTTATACTATTCTTTTAGAAATAT
717327 GAAAAATCTTTAGATTTTCATGTATGAATTTATACTATTCTTTTAGAAATAT
1 GAAAAATCTTTAGATTTTCATGTATGAATTTATACTATTCTTTTAGAAATAT
717379 TTTACCATTA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.37, C:0.08, G:0.10, T:0.46
Consensus pattern (52 bp):
GAAAAATCTTTAGATTTTCATGTATGAATTTATACTATTCTTTTAGAAATAT
Found at i:717469 original size:10 final size:10
Alignment explanation
Indices: 717454--717509 Score: 51
Period size: 10 Copynumber: 5.6 Consensus size: 10
717444 TCATATATAT
717454 TAAAAATAAA
1 TAAAAATAAA
717464 TAAAAATACAA
1 TAAAAATA-AA
*
717475 TAAAAA-AAT
1 TAAAAATAAA
* *
717484 TAAAAGTTAA
1 TAAAAATAAA
* *
717494 TAAAATTTAA
1 TAAAAATAAA
717504 TAAAAA
1 TAAAAA
717510 AAGAACGTAA
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
9 6 0.16
10 24 0.63
11 8 0.21
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.25
Consensus pattern (10 bp):
TAAAAATAAA
Found at i:717499 original size:29 final size:30
Alignment explanation
Indices: 717452--717511 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
717442 ACTCATATAT
717452 ATTAAAAATAAATAAAAATACAATAAAAAA
1 ATTAAAAATAAATAAAAATACAATAAAAAA
* * **
717482 ATTAAAAGTTAAT-AAAATTTAATAAAAAA
1 ATTAAAAATAAATAAAAATACAATAAAAAA
717511 A
1 A
717512 GAACGTAAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 15 0.58
30 11 0.42
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.25
Consensus pattern (30 bp):
ATTAAAAATAAATAAAAATACAATAAAAAA
Found at i:723567 original size:4 final size:4
Alignment explanation
Indices: 723558--723670 Score: 97
Period size: 4 Copynumber: 28.0 Consensus size: 4
723548 CACTATTTAC
* * *
723558 ATAA ATAA ATAA ATAA ATAA ATAA ATATGA GTAA ATAA ATCA A-AG ATAA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATA--A ATAA ATAA ATAA ATAA ATAA
* * * *
723607 AGGAA ATAA AAAA ATAA AGAGA A-GA A-AA ATAA ATAA ATAA ATAA ATAA
1 A-TAA ATAA ATAA ATAA ATA-A ATAA ATAA ATAA ATAA ATAA ATAA ATAA
*
723655 ATAA AGAA ATAA ATAA
1 ATAA ATAA ATAA ATAA
723671 GATGAGGAAA
Statistics
Matches: 88, Mismatches: 15, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
3 5 0.06
4 75 0.85
5 5 0.06
6 3 0.03
ACGTcount: A:0.72, C:0.01, G:0.08, T:0.19
Consensus pattern (4 bp):
ATAA
Found at i:723704 original size:12 final size:12
Alignment explanation
Indices: 723687--723719 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
723677 GAAAAAAAAG
723687 TATATACATATA
1 TATATACATATA
*
723699 TATATAAATATA
1 TATATACATATA
723711 TATATACAT
1 TATATACAT
723720 CAAAGTACTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (12 bp):
TATATACATATA
Found at i:724077 original size:45 final size:46
Alignment explanation
Indices: 724013--724114 Score: 125
Period size: 45 Copynumber: 2.2 Consensus size: 46
724003 AAAAAAAAGA
* * * *
724013 ATATATGTATACGTTAATAGTAATAAAAAGGAATAAATAAATA-AT
1 ATATATATATACGTAAATAGTAAAAAAAAGGAACAAATAAATATAT
* ** *
724058 ATATTTATATACGTAAATAGTAAAAAAAAGTCACAAATATATATAT
1 ATATATATATACGTAAATAGTAAAAAAAAGGAACAAATAAATATAT
724104 ATATATATATA
1 ATATATATATA
724115 TATATATAAT
Statistics
Matches: 47, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
45 35 0.74
46 12 0.26
ACGTcount: A:0.55, C:0.04, G:0.08, T:0.33
Consensus pattern (46 bp):
ATATATATATACGTAAATAGTAAAAAAAAGGAACAAATAAATATAT
Found at i:724099 original size:2 final size:2
Alignment explanation
Indices: 724094--724122 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
724084 AAAGTCACAA
724094 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
724123 ATGACTTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:725821 original size:13 final size:13
Alignment explanation
Indices: 725805--725829 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
725795 TAAAAAATTA
725805 TAAATAAAATTTT
1 TAAATAAAATTTT
725818 TAAATAAAATTT
1 TAAATAAAATTT
725830 ATGATTAATA
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
TAAATAAAATTTT
Found at i:726373 original size:8 final size:8
Alignment explanation
Indices: 726360--726384 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
726350 TTTGAAAAAC
726360 CTCATCCT
1 CTCATCCT
726368 CTCATCCT
1 CTCATCCT
726376 CTCATCCT
1 CTCATCCT
726384 C
1 C
726385 CTTGTTCTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.52, G:0.00, T:0.36
Consensus pattern (8 bp):
CTCATCCT
Found at i:727392 original size:31 final size:31
Alignment explanation
Indices: 727355--727430 Score: 95
Period size: 30 Copynumber: 2.5 Consensus size: 31
727345 ATGGTTATCA
*
727355 TAAAGTTTATTTTTGGTATC-AAT-AAGGAGCG
1 TAAAGTTTATTTTT--TATCAAATCAAGGAGCC
*
727386 TAAAGTTTA-TTTTTATCAAATCAAGGTGCC
1 TAAAGTTTATTTTTTATCAAATCAAGGAGCC
727416 TAAAGTTTATTTTTT
1 TAAAGTTTATTTTTT
727431 TTGTTGCAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
28 4 0.10
29 3 0.08
30 19 0.47
31 14 0.35
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.45
Consensus pattern (31 bp):
TAAAGTTTATTTTTTATCAAATCAAGGAGCC
Found at i:731614 original size:34 final size:34
Alignment explanation
Indices: 731571--731644 Score: 141
Period size: 34 Copynumber: 2.2 Consensus size: 34
731561 GCCCTCTCTA
731571 CCATTAGCTCAAACGTTCTATTCGGATCAACAAT
1 CCATTAGCTCAAACGTTCTATTCGGATCAACAAT
731605 CCATTAGCTCAAACGTTCTATTCGGATCAACAAT
1 CCATTAGCTCAAACGTTCTATTCGGATCAACAAT
731639 CC-TTAG
1 CCATTAG
731645 TGCAAAGACA
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
33 4 0.10
34 36 0.90
ACGTcount: A:0.31, C:0.27, G:0.12, T:0.30
Consensus pattern (34 bp):
CCATTAGCTCAAACGTTCTATTCGGATCAACAAT
Found at i:732637 original size:20 final size:20
Alignment explanation
Indices: 732610--732656 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
732600 CTGGCAGAAT
* *
732610 CACATAATTACTTCATGTTC
1 CACATAATGACATCATGTTC
*
732630 CGCATAATGACATCATGTTC
1 CACATAATGACATCATGTTC
732650 CACATAA
1 CACATAA
732657 CAGTATGTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.34, C:0.26, G:0.09, T:0.32
Consensus pattern (20 bp):
CACATAATGACATCATGTTC
Found at i:736620 original size:19 final size:20
Alignment explanation
Indices: 736593--736666 Score: 62
Period size: 20 Copynumber: 3.6 Consensus size: 20
736583 ATGTATTTTA
*
736593 TGCACCGATGCAC-ATGTAG
1 TGCATCGATGCACGATGTAG
* *
736612 TGCATCGATGCACCGATAGGAAA
1 TGCATCGATGCA-CGAT--GTAG
*
736635 TGCATCGATACACTG-TGTAG
1 TGCATCGATGCAC-GATGTAG
736655 TGCATCGATGCA
1 TGCATCGATGCA
736667 TACCTTCATT
Statistics
Matches: 43, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
19 11 0.26
20 14 0.33
21 2 0.05
22 2 0.05
23 14 0.33
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (20 bp):
TGCATCGATGCACGATGTAG
Found at i:737620 original size:103 final size:103
Alignment explanation
Indices: 737395--737612 Score: 373
Period size: 103 Copynumber: 2.1 Consensus size: 103
737385 GTCGAGGGTC
* *
737395 TATGTGGTCCTTCGGGATATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCGGGTGAGACACATAC
* *
737460 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
* *
737498 TATATGGTCATTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCGGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCGGGTGAGACACATAC
*
737563 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
737601 TATGTGGTCCTT
1 TATGTGGTCCTT
737613 TTGGACATTA
Statistics
Matches: 106, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
103 106 1.00
ACGTcount: A:0.27, C:0.13, G:0.24, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCGGGTGAGACACATAC
TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
Found at i:737673 original size:23 final size:23
Alignment explanation
Indices: 737640--737694 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 23
737630 GAACTACGGT
* *
737640 GCAATTCTACGCGGTACTCCGGA
1 GCAATTATACGCGGCACTCCGGA
* * *
737663 GCAATTATACGTGGCACTTCGGT
1 GCAATTATACGCGGCACTCCGGA
737686 GCAATTATA
1 GCAATTATA
737695 TGAGTTGTGG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.27
Consensus pattern (23 bp):
GCAATTATACGCGGCACTCCGGA
Found at i:743244 original size:103 final size:103
Alignment explanation
Indices: 743060--743277 Score: 400
Period size: 103 Copynumber: 2.1 Consensus size: 103
743050 GTCGAGGGTC
743060 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
* *
743125 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
*
743163 TATGTGGTCCTTCGGGATATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
743228 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
743266 TATGTGGTCCTT
1 TATGTGGTCCTT
743278 ATGGACATTA
Statistics
Matches: 111, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 111 1.00
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
Found at i:743320 original size:23 final size:23
Alignment explanation
Indices: 743287--743361 Score: 91
Period size: 23 Copynumber: 3.3 Consensus size: 23
743277 TATGGACATT
*
743287 ATTATAT--GGCACTACGATGCA
1 ATTATATGCGGCACTACGGTGCA
* *
743308 ATTCTATGCGGCACTCCGGTGCA
1 ATTATATGCGGCACTACGGTGCA
* *
743331 ATTATATGTGGCACTTCGGTGCA
1 ATTATATGCGGCACTACGGTGCA
743354 ATTATATG
1 ATTATATG
743362 AGCTGTGGTG
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
21 6 0.13
23 40 0.87
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (23 bp):
ATTATATGCGGCACTACGGTGCA
Found at i:755807 original size:2 final size:2
Alignment explanation
Indices: 755794--755866 Score: 137
Period size: 2 Copynumber: 36.5 Consensus size: 2
755784 AACAACTTTC
*
755794 TA TA TC 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
755836 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
755867 GATTTTCATA
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 69 1.00
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:756243 original size:79 final size:78
Alignment explanation
Indices: 756132--756276 Score: 245
Period size: 79 Copynumber: 1.8 Consensus size: 78
756122 GAATTTTAAT
* * *
756132 TATATATATATGAAAATTTTTATTTTATTTTGATTAATATATACTAATTTTAATTTAATTATATA
1 TATATATATATAAAAATTTTGATTTTAGTTTGATTAATATATACTAATTTTAATTTAATTATATA
756197 TATTATGAATATA
66 TATTATGAATATA
*
756210 TATATATATATTAAAAATTTTGATTTTAGTTTGATTAATATATACTAATTTTACTTTAATTATAT
1 TATATATATA-TAAAAATTTTGATTTTAGTTTGATTAATATATACTAATTTTAATTTAATTATAT
756275 AT
65 AT
756277 TTTTTTATGA
Statistics
Matches: 62, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
78 10 0.16
79 52 0.84
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (78 bp):
TATATATATATAAAAATTTTGATTTTAGTTTGATTAATATATACTAATTTTAATTTAATTATATA
TATTATGAATATA
Found at i:759984 original size:13 final size:13
Alignment explanation
Indices: 759968--759992 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
759958 AAAAGGACTA
759968 AAATAAAGAAAAG
1 AAATAAAGAAAAG
759981 AAATAAAGAAAA
1 AAATAAAGAAAA
759993 CATACCTTGC
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:0.80, C:0.00, G:0.12, T:0.08
Consensus pattern (13 bp):
AAATAAAGAAAAG
Found at i:767147 original size:15 final size:15
Alignment explanation
Indices: 767127--767161 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
767117 ATAAAATATA
767127 AAATTTAAATTACAG
1 AAATTTAAATTACAG
* *
767142 AAATTTAGATTACTG
1 AAATTTAAATTACAG
767157 AAATT
1 AAATT
767162 AAGATTAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.49, C:0.06, G:0.09, T:0.37
Consensus pattern (15 bp):
AAATTTAAATTACAG
Found at i:767166 original size:15 final size:15
Alignment explanation
Indices: 767131--767168 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
767121 AATATAAAAT
767131 TTAA-ATTACAGAAA
1 TTAAGATTACAGAAA
* *
767145 TTTAGATTACTGAAA
1 TTAAGATTACAGAAA
767160 TTAAGATTA
1 TTAAGATTA
767169 AATTAAATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 3 0.15
15 17 0.85
ACGTcount: A:0.47, C:0.05, G:0.11, T:0.37
Consensus pattern (15 bp):
TTAAGATTACAGAAA
Found at i:774811 original size:6 final size:6
Alignment explanation
Indices: 774795--774832 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
774785 AATTATCTAC
*
774795 AAAAT- AAAATA AAAATAA AAAATG AAAATA AAAATA AA
1 AAAATA AAAATA AAAAT-A AAAATA AAAATA AAAATA AA
774833 GGAAAAACTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
5 5 0.17
6 18 0.62
7 6 0.21
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:774822 original size:13 final size:13
Alignment explanation
Indices: 774800--774832 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
774790 TCTACAAAAT
774800 AAAATAAAAATAA
1 AAAATAAAAATAA
*
774813 AAAATGAAAAT-A
1 AAAATAAAAATAA
774825 AAAATAAA
1 AAAATAAA
774833 GGAAAAACTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
12 8 0.44
13 10 0.56
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (13 bp):
AAAATAAAAATAA
Found at i:774824 original size:19 final size:18
Alignment explanation
Indices: 774795--774832 Score: 67
Period size: 19 Copynumber: 2.1 Consensus size: 18
774785 AATTATCTAC
774795 AAAATAAAATAAAAATAA
1 AAAATAAAATAAAAATAA
774813 AAAATGAAAATAAAAATAA
1 AAAAT-AAAATAAAAATAA
774832 A
1 A
774833 GGAAAAACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.16
Consensus pattern (18 bp):
AAAATAAAATAAAAATAA
Found at i:783563 original size:9 final size:9
Alignment explanation
Indices: 783549--783575 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
783539 GCTTCCCACT
783549 TCATTTGCA
1 TCATTTGCA
783558 TCATTTGCA
1 TCATTTGCA
783567 TCATTTGCA
1 TCATTTGCA
783576 AACCCTCTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.22, C:0.22, G:0.11, T:0.44
Consensus pattern (9 bp):
TCATTTGCA
Found at i:784342 original size:37 final size:32
Alignment explanation
Indices: 784266--784327 Score: 108
Period size: 32 Copynumber: 1.9 Consensus size: 32
784256 ATGAAAAATG
784266 ACACAATCAAAAGAAAAGAAATACGTTAGTGT
1 ACACAATCAAAAGAAAAGAAATACGTTAGTGT
784298 ACACAATCAAAAGAAAAGAAATTA-GTTAGT
1 ACACAATCAAAAGAAAAGAAA-TACGTTAGT
784328 ACATGTAAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 27 0.93
33 2 0.07
ACGTcount: A:0.55, C:0.11, G:0.15, T:0.19
Consensus pattern (32 bp):
ACACAATCAAAAGAAAAGAAATACGTTAGTGT
Found at i:786597 original size:19 final size:18
Alignment explanation
Indices: 786569--786604 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
786559 TTGTTTGTAT
786569 TTTTACATATAATATTAA
1 TTTTACATATAATATTAA
*
786587 TTTTACAATATTATATTA
1 TTTTAC-ATATAATATTA
786605 TATTATATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.53
Consensus pattern (18 bp):
TTTTACATATAATATTAA
Found at i:786913 original size:5 final size:5
Alignment explanation
Indices: 786594--786903 Score: 449
Period size: 5 Copynumber: 61.6 Consensus size: 5
786584 TAATTTTACA
786594 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATAT ATATT AT-TAT
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATAT-T ATATT ATAT-T
786645 ATATAT ATATT ATATT ATATAT ATATT ATATT ATATT ATA-T -TATT ATATT
1 ATAT-T ATATT ATATT ATAT-T ATATT ATATT ATATT ATATT ATATT ATATT
786695 ATATT ATATT ATATT ATATT ATATT ATATT ATATT -TA-T ATTATT ATATT
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT A-TATT ATATT
786744 ATATT ATATT ATATT AT-TAT ATTATT ATATT ATATT ATATTAT ATATT
1 ATATT ATATT ATATT ATAT-T A-TATT ATATT ATATT ATA-T-T ATATT
786792 ATATT ATATT ATATT ATATT ATATAT ATATT ATATT ATATT ATATT ATATT
1 ATATT ATATT ATATT ATATT ATAT-T ATATT ATATT ATATT ATATT ATATT
*
786843 ATATT ATA-T ATTTAT ATATT ATATT ATATT ATA-T -TATT ATATT ATATT
1 ATATT ATATT ATAT-T ATATT ATATT ATATT ATATT ATATT ATATT ATATT
786891 ATATT ATATT ATA
1 ATATT ATATT ATA
786904 GTTTTATTTT
Statistics
Matches: 284, Mismatches: 2, Indels: 38
0.88 0.01 0.12
Matches are distributed among these distances:
3 5 0.02
4 11 0.04
5 230 0.81
6 33 0.12
7 5 0.02
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATATT
Found at i:789094 original size:155 final size:154
Alignment explanation
Indices: 788831--789122 Score: 521
Period size: 155 Copynumber: 1.9 Consensus size: 154
788821 TATTACTGAA
*
788831 ACTCATTCATAGAATAAATTTTTGATCCGTCAGATACTTGATTCTATATTTTATATTTTTGTTTT
1 ACTCATCCATAGAATAAATTTTTGATCCGTCAGATACTTGATTCTATATTTTATATTTTTGTTTT
* *
788896 AGAATAAATTTTTCATTCCTAATTTTTAAATTAGTTCAGCCTAATATTTTAAATCTCTAATAATG
66 AGAATAAATTTTGCATTCCTAATTTTTAAATTAGTTCACCCTAATATTTTAAATCTCTAATAATG
788961 AATTTTTAAAAGGATAGCACCGAT
131 AATTTTTAAAAGGATAGCACCGAT
* *
788985 ACTCATCCATAGAATAAATTTTTGATCCGTTAGATACTTGATTCTCTATTTTTATATTTTTGTTT
1 ACTCATCCATAGAATAAATTTTTGATCCGTCAGATACTTGATTCTATA-TTTTATATTTTTGTTT
789050 TAGAATAAATTTTGCATTCCTAATTTTTAAATTAGTTCACCCTAATATTTTAAATCTCTAATAAT
65 TAGAATAAATTTTGCATTCCTAATTTTTAAATTAGTTCACCCTAATATTTTAAATCTCTAATAAT
*
789115 GATTTTTT
130 GAATTTTT
789123 TTCTCGAACA
Statistics
Matches: 131, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
154 45 0.34
155 86 0.66
ACGTcount: A:0.32, C:0.13, G:0.08, T:0.47
Consensus pattern (154 bp):
ACTCATCCATAGAATAAATTTTTGATCCGTCAGATACTTGATTCTATATTTTATATTTTTGTTTT
AGAATAAATTTTGCATTCCTAATTTTTAAATTAGTTCACCCTAATATTTTAAATCTCTAATAATG
AATTTTTAAAAGGATAGCACCGAT
Found at i:791978 original size:14 final size:14
Alignment explanation
Indices: 791961--792010 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
791951 TTTTATATTT
791961 TTTTAAATATATAA
1 TTTTAAATATATAA
* * *
791975 TTTTAATTTTTTAA
1 TTTTAAATATATAA
791989 TTTTAAATA-A-AA
1 TTTTAAATATATAA
*
792001 TTTTTAATAT
1 TTTTAAATAT
792011 TACCAGATTG
Statistics
Matches: 28, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
12 10 0.36
14 18 0.64
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
TTTTAAATATATAA
Found at i:794400 original size:3 final size:3
Alignment explanation
Indices: 794392--794444 Score: 61
Period size: 3 Copynumber: 17.7 Consensus size: 3
794382 ATCTATATAT
* * * *
794392 TAA TAA TAA TAG TGA TAA TAA TAA TAA TCA TAA TAA TAA AAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
794440 GAA TA
1 TAA TA
794445 GGACGAAAAT
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:794655 original size:35 final size:35
Alignment explanation
Indices: 794608--794708 Score: 105
Period size: 35 Copynumber: 2.9 Consensus size: 35
794598 GATCTATTCC
* *
794608 TGCTTCATTACTCTTTCGTGAAGGCTGGATTGCA-T
1 TGCTTCACTACTCTTCCGTGAAGGCTGGATTG-ATT
* * ** *
794643 TGCTTCACTACTCTTCCGTGATGGTTAAAATGATT
1 TGCTTCACTACTCTTCCGTGAAGGCTGGATTGATT
*
794678 TTCTTCACTACTCTTCCGTGAAGGCTAGGAT
1 TGCTTCACTACTCTTCCGTGAAGGCT-GGAT
794709 GGAATCAAGA
Statistics
Matches: 51, Mismatches: 13, Indels: 3
0.76 0.19 0.04
Matches are distributed among these distances:
34 1 0.02
35 49 0.96
36 1 0.02
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.39
Consensus pattern (35 bp):
TGCTTCACTACTCTTCCGTGAAGGCTGGATTGATT
Found at i:803538 original size:64 final size:62
Alignment explanation
Indices: 803467--803647 Score: 172
Period size: 65 Copynumber: 2.8 Consensus size: 62
803457 GTTGGAATCT
*
803467 CAGTGCATCAGTGCACTAAGAGTGCATCGATGCATCAAGTGCATTCGATGTTT-CA-AAATAACC
1 CAGTGCATC-GTGCACT--GAGTGCATCGATGCATCAAATGCATTCGATGTTTCCATAAA-AACC
803530 A
62 A
* * *
803531 GAGTGCATCGATGCATGGCTG-GTGCATCGATGCATCAAATGCATTCGATCTTTCCATAAAATCC
1 CAGTGCATCG-TGCA---CTGAGTGCATCGATGCATCAAATGCATTCGATGTTTCCATAAAAACC
*
803595 T
62 A
*
803596 CAGTGCATCGGTGCA-TGGTACGTGCATCGATGCATGAAATGCATTCGATGTT
1 CAGTGCATC-GTGCACT-G-A-GTGCATCGATGCATCAAATGCATTCGATGTT
803648 CAATTTAATT
Statistics
Matches: 98, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
61 1 0.01
62 1 0.01
63 1 0.01
64 42 0.43
65 47 0.48
66 4 0.04
67 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.28
Consensus pattern (62 bp):
CAGTGCATCGTGCACTGAGTGCATCGATGCATCAAATGCATTCGATGTTTCCATAAAAACCA
Found at i:803627 original size:65 final size:64
Alignment explanation
Indices: 803488--803644 Score: 201
Period size: 65 Copynumber: 2.4 Consensus size: 64
803478 TGCACTAAGA
* * * *
803488 GTGCATCGATGCATCAAGTGCATTCGATGTTTCAAAATAACCAGAGTGCATCGATGCATGGCTG
1 GTGCATCGATGCATCAAATGCATTCGATCTTTCAAAATAACCACAGTGCATCGATGCATGGCTC
* * *
803552 GTGCATCGATGCATCAAATGCATTCGATCTTTCCATAAA-ATCCTCAGTGCATCGGTGCATGG-T
1 GTGCATCGATGCATCAAATGCATTCGATCTTT-CA-AAATAACCACAGTGCATCGATGCATGGCT
803615 AC
64 -C
*
803617 GTGCATCGATGCATGAAATGCATTCGAT
1 GTGCATCGATGCATCAAATGCATTCGAT
803645 GTTCAATTTA
Statistics
Matches: 82, Mismatches: 8, Indels: 5
0.86 0.08 0.05
Matches are distributed among these distances:
64 31 0.38
65 48 0.59
66 3 0.04
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (64 bp):
GTGCATCGATGCATCAAATGCATTCGATCTTTCAAAATAACCACAGTGCATCGATGCATGGCTC
Found at i:803689 original size:65 final size:63
Alignment explanation
Indices: 803488--803697 Score: 217
Period size: 64 Copynumber: 3.3 Consensus size: 63
803478 TGCACTAAGA
* * * *
803488 GTGCATCGATGCATCAAGTGCATTCGATGTTTCAAAATAA-CCAGAGTGCATCGATGCATGGCTG
1 GTGCATCGATGCATCAAATGCATTCGATG-TTCAATATAATTCAG-GTGCATCGATGCATGGTTG
* * * * *
803552 GTGCATCGATGCATCAAATGCATTCGATCTTTCCATAAAATCCTCA-GTGCATCGGTGCATGGTA
1 GTGCATCGATGCATCAAATGCATTCGAT-GTTCAATATAAT--TCAGGTGCATCGATGCATGGTT
*
803616 C
63 G
* *
803617 GTGCATCGATGCATGAAATGCATTCGATGTTCAATTTAATTCATGGTGCATCGATGCATGGATTG
1 GTGCATCGATGCATCAAATGCATTCGATGTTCAATATAATTCA-GGTGCATCGATGCATGG-TTG
* *
803682 GTACATCGGTGCATCA
1 GTGCATCGATGCATCA
803698 TTCTAAAAAA
Statistics
Matches: 118, Mismatches: 21, Indels: 13
0.78 0.14 0.09
Matches are distributed among these distances:
62 3 0.03
64 57 0.48
65 56 0.47
67 2 0.02
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (63 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTCAATATAATTCAGGTGCATCGATGCATGGTTG
Found at i:806356 original size:23 final size:22
Alignment explanation
Indices: 806330--806393 Score: 60
Period size: 21 Copynumber: 2.9 Consensus size: 22
806320 TGTACATCGA
806330 TGCACATTCAACGCGTGCATCAG
1 TGCACATTCAACG-GTGCATCAG
* * * *
806353 TGCACCTT-TATGGTGTATCAG
1 TGCACATTCAACGGTGCATCAG
806374 TGCACATTCAA-GGATGCATC
1 TGCACATTCAACGG-TGCATC
806394 GATGCACTGT
Statistics
Matches: 32, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
21 17 0.53
22 8 0.25
23 7 0.22
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.28
Consensus pattern (22 bp):
TGCACATTCAACGGTGCATCAG
Found at i:806392 original size:43 final size:43
Alignment explanation
Indices: 806330--806413 Score: 104
Period size: 43 Copynumber: 2.0 Consensus size: 43
806320 TGTACATCGA
806330 TGCACATTCAACGCGTGCATC-AGTGCACCT-TTATGGTGTATCAG
1 TGCACATTCAACGCGTGCATCGA-TGCA-CTGTTA-GGTGTATCAG
806374 TGCACATTCAA-G-GATGCATCGATGCACTGTTAGGTGTATC
1 TGCACATTCAACGCG-TGCATCGATGCACTGTTAGGTGTATC
806414 GATGCATGAA
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
42 11 0.30
43 14 0.38
44 12 0.32
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.30
Consensus pattern (43 bp):
TGCACATTCAACGCGTGCATCGATGCACTGTTAGGTGTATCAG
Found at i:812351 original size:65 final size:64
Alignment explanation
Indices: 812218--812377 Score: 180
Period size: 65 Copynumber: 2.5 Consensus size: 64
812208 TGCACTAAGA
* * *
812218 GTGCAACGATGCATCAAGTGCATTCGATGTTTCAAAATAGCCAGAGTGCATCGATGCATGGCTG
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCAAAATAGCCACAGTGCATCGATGCATGGCTG
* * * *
812282 GTGCATCGATGCATCAAATGCATTCGATATTTTCATAAA-ATCCTCAGTGCATCGGTGCATGG-T
1 GTGCATCGATGCATCAAATGCATTCGAT-GTTTCA-AAATAGCCACAGTGCATCGATGCATGGCT
*
812345 AT
64 -G
* * *
812347 GTGCATCAATGCATGAAATACATTCGATGTT
1 GTGCATCGATGCATCAAATGCATTCGATGTT
812378 CAATTTAATT
Statistics
Matches: 81, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
64 29 0.36
65 49 0.60
66 3 0.04
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (64 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTCAAAATAGCCACAGTGCATCGATGCATGGCTG
Found at i:817033 original size:6 final size:6
Alignment explanation
Indices: 817022--817056 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
817012 TAATAATAAA
*
817022 TAATAT TAATAT TAATAT ATTATAT TAATAT TAAT
1 TAATAT TAATAT TAATAT -TAATAT TAATAT TAAT
817057 TATAATTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
6 21 0.81
7 5 0.19
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (6 bp):
TAATAT
Found at i:817046 original size:13 final size:13
Alignment explanation
Indices: 816994--817052 Score: 50
Period size: 13 Copynumber: 4.5 Consensus size: 13
816984 GATGTAATTT
816994 TTAATATATT-TA
1 TTAATATATTATA
* * *
817006 TTTATTTAATA-A
1 TTAATATATTATA
*
817018 TAAATAATATTAATA
1 TTAAT-ATATT-ATA
817033 TTAATATATTATA
1 TTAATATATTATA
817046 TTAATAT
1 TTAATAT
817053 TAATTATAAT
Statistics
Matches: 35, Mismatches: 8, Indels: 7
0.70 0.16 0.14
Matches are distributed among these distances:
12 11 0.31
13 13 0.37
14 6 0.17
15 5 0.14
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
TTAATATATTATA
Found at i:817046 original size:19 final size:20
Alignment explanation
Indices: 816994--817066 Score: 73
Period size: 19 Copynumber: 3.7 Consensus size: 20
816984 GATGTAATTT
*
816994 TTAATAT-ATT-TATTTAT-
1 TTAATATAATTATATTAATA
*
817011 TTAATAATAAATAATATTAATA
1 TTAAT-AT-AATTATATTAATA
817033 TTAATAT-ATTATATTAATA
1 TTAATATAATTATATTAATA
817052 TTAATTATAATTATA
1 TTAA-TATAATTATA
817067 ATTATGAAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
17 5 0.11
18 2 0.04
19 15 0.33
20 5 0.11
21 14 0.30
22 5 0.11
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
TTAATATAATTATATTAATA
Found at i:818625 original size:15 final size:15
Alignment explanation
Indices: 818591--818630 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
818581 AAATTATTCA
*
818591 GATTAAAATATAACT
1 GATTAAAATATAACG
* *
818606 TATTAAAATATAAGG
1 GATTAAAATATAACG
818621 GATTAAAATA
1 GATTAAAATA
818631 AATATTTTAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.55, C:0.03, G:0.10, T:0.33
Consensus pattern (15 bp):
GATTAAAATATAACG
Found at i:819845 original size:3 final size:3
Alignment explanation
Indices: 819837--819889 Score: 52
Period size: 3 Copynumber: 17.7 Consensus size: 3
819827 GTATATTTAT
* * * * *
819837 TAA TAA TAA TAG TGA TAA TAG TAA TAA TCA TAA TAA TAA AAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
819885 GAA TA
1 TAA TA
819890 TGACGAAAAT
Statistics
Matches: 38, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.60, C:0.02, G:0.08, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:820051 original size:2 final size:2
Alignment explanation
Indices: 820044--820129 Score: 172
Period size: 2 Copynumber: 43.0 Consensus size: 2
820034 TATAGTTCCA
820044 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
820086 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
820128 AT
1 AT
820130 GGTTTGGAGT
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 84 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:823109 original size:23 final size:23
Alignment explanation
Indices: 823083--823163 Score: 81
Period size: 24 Copynumber: 3.4 Consensus size: 23
823073 ACTTGGTTTA
823083 GGGCTTGGTTGGGTATTAATTTG
1 GGGCTTGGTTGGGTATTAATTTG
* *
823106 GGGCCTGGTTCGAGTATTAATTTG
1 GGGCTTGGTT-GGGTATTAATTTG
* * * * *
823130 GGGCCTAGTTTTGGTTTTGATTTG
1 GGG-CTTGGTTGGGTATTAATTTG
823154 GGGCTTGGTT
1 GGGCTTGGTT
823164 TAGGATTTAG
Statistics
Matches: 45, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
23 14 0.31
24 27 0.60
25 4 0.09
ACGTcount: A:0.11, C:0.09, G:0.37, T:0.43
Consensus pattern (23 bp):
GGGCTTGGTTGGGTATTAATTTG
Found at i:823293 original size:14 final size:14
Alignment explanation
Indices: 823274--823301 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
823264 TATTTAGTCA
823274 ATATGATATAATTG
1 ATATGATATAATTG
823288 ATATGATATAATTG
1 ATATGATATAATTG
823302 GATAAAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (14 bp):
ATATGATATAATTG
Found at i:826381 original size:13 final size:13
Alignment explanation
Indices: 826340--826381 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
826330 CCATAATCTC
* *
826340 ATTTTAAATTAAC
1 ATTTTAAATTTAT
826353 ATTTT-AATTT-T
1 ATTTTAAATTTAT
826364 ATTTTAAATTTAT
1 ATTTTAAATTTAT
826377 ATTTT
1 ATTTT
826382 CCTTTTCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
11 5 0.20
12 9 0.36
13 11 0.44
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (13 bp):
ATTTTAAATTTAT
Found at i:831478 original size:71 final size:70
Alignment explanation
Indices: 831154--831722 Score: 389
Period size: 71 Copynumber: 8.0 Consensus size: 70
831144 CTTTAAACAT
* * * *
831154 AAATTTTGTCTTACAT-AAGACAATTTTATCATGAAATAAAAATTTCATCTCAGC-TGAGATATT
1 AAATTTTGTCTCAC-TCAAGACAA-TTTCTCTTGAAA-CAAAATTTCATCTCA-CTTGAGATATT
*
831217 TTCTCTTGA
62 TTCCCTTGA
* * * ** * * *
831226 AAATTCCTGTCTCACTCAAGACATTTTCTCTTGAAATAAAAATCGCATCTTATTTAAGATATTTT
1 AAATT-TTGTCTCACTCAAGACAATTTCTCTTGAAA-CAAAATTTCATCTCACTTGAGATATTTT
831291 CCCTTGA
64 CCCTTGA
* ** ** * * *
831298 AAATTTTCGTCTCACTCAAGACAGTTTCAGTCAAAACAAAAATTAATCTCACTTGAGATATTTTG
1 AAATTTT-GTCTCACTCAAGACAATTTCTCTTGAAACAAAATTTCATCTCACTTGAGATATTTTC
831363 CCTT-A
65 CCTTGA
** * * * * *
831368 AATATTTTGTCTCACTTGAGACAGTTTCGCTCT-ATACAAAATTTCATTTCACTTGAGATATCTT
1 AA-ATTTTGTCTCACTCAAGACAATTTCTCT-TGAAACAAAATTTCATCTCACTTGAGATATTTT
831432 CCCTTGA
64 CCCTTGA
** * *
831439 AAAGTTTTGTCTCACTCAAGACAATTTCTCTTGAAACAAAATCGCATCTCACCTGAGATATTTGC
1 AAA-TTTTGTCTCACTCAAGACAATTTCTCTTGAAACAAAATTTCATCTCACTTGAGATATTTTC
*
831504 CCTTAA
65 CCTTGA
* * * * * **** * * *
831510 AAATTTTCGTATTACTCGAGACAA-TTCAC-TCAAA-TTTTTTTTATCTCACTTCAAATATTTTC
1 AAATTTT-GTCTCACTCAAGACAATTTCTCTTGAAACAAAATTTCATCTCACTTGAGATATTTTC
*
831572 TCTTGA
65 CCTTGA
* ** * * **
831578 AATTTTTTGTCTCACTTGAGATAGTTT-TGCTCAAAACAAAATTTCATCTCACTTGAGATATTTT
1 AA-ATTTTGTCTCACTCAAGACAATTTCT-CTTGAAACAAAATTTCATCTCACTTGAGATATTTT
831642 CCCTTGA
64 CCCTTGA
* ** * * * * *
831649 AATTTTTTGTCTCACTTGAGACAATTTCTCATGAAACAAAATTTTATCTCAATTGATAGATTTTC
1 AA-ATTTTGTCTCACTCAAGACAATTTCTCTTGAAACAAAATTTCATCTCACTTGAGATATTTTC
* *
831714 TCTTAA
65 CCTTGA
831720 AAA
1 AAA
831723 ATTTCATTTC
Statistics
Matches: 385, Mismatches: 96, Indels: 34
0.75 0.19 0.07
Matches are distributed among these distances:
68 34 0.09
69 11 0.03
70 65 0.17
71 188 0.49
72 74 0.19
73 13 0.03
ACGTcount: A:0.32, C:0.19, G:0.09, T:0.40
Consensus pattern (70 bp):
AAATTTTGTCTCACTCAAGACAATTTCTCTTGAAACAAAATTTCATCTCACTTGAGATATTTTCC
CTTGA
Found at i:831591 original size:34 final size:34
Alignment explanation
Indices: 831546--831684 Score: 125
Period size: 34 Copynumber: 4.0 Consensus size: 34
831536 CACTCAAATT
* *
831546 TTTTTTATCTCACTTCAAATATTTTCTCTTGAAA
1 TTTTTTATCTCACTTGAGATATTTTCTCTTGAAA
* ***
831580 TTTTTTGTCTCACTTGAGATAGTTTTGCTCAAAACAA
1 TTTTTTATCTCACTTGAGATA-TTTT-CTCTTGA-AA
** * *
831617 AATTTCATCTCACTTGAGATATTTTCCCTTGAAA
1 TTTTTTATCTCACTTGAGATATTTTCTCTTGAAA
* * * *
831651 TTTTTTGTCTCACTTGAGACAATTTCTCATGAAA
1 TTTTTTATCTCACTTGAGATATTTTCTCTTGAAA
831685 CAAAATTTTA
Statistics
Matches: 80, Mismatches: 22, Indels: 6
0.74 0.20 0.06
Matches are distributed among these distances:
34 46 0.57
35 7 0.09
36 8 0.10
37 19 0.24
ACGTcount: A:0.27, C:0.18, G:0.09, T:0.45
Consensus pattern (34 bp):
TTTTTTATCTCACTTGAGATATTTTCTCTTGAAA
Found at i:831646 original size:210 final size:211
Alignment explanation
Indices: 831192--831690 Score: 594
Period size: 210 Copynumber: 2.4 Consensus size: 211
831182 TCATGAAATA
* * *
831192 AAAATTTCATCTCAGC-TGAGATATTTTCTCTTGAAAATTCCTGTCTCACTCAAGACATTTTCTC
1 AAAATTTCATCTCA-CTTGAGATATTTTCCCTTGAAAATT-TTGTCTCACTCAAGACAATTTCTC
* * ** * * *
831256 TTGAAATAAAAATCGCATCTTATTTAAGATATTTTCCCTTGAAAATTTTCGTCTCACTCAAGACA
64 TTGAAA-CAAAATCGCATCTCACCTAAGATATTTGCCCTTAAAAATTTTCGTATCACTCAAGACA
* * * *
831321 GTTTCAGTCAAAACAAAAATTAATCTCACTTGAGATATTTTGCCTTAAATATTTTGTCTCACTTG
128 GATTCACTCAAAACAAAAATTAATCTCACTTCAAATATTTTGCCTTAAATATTTTGTCTCACTTG
* *
831386 AGACAGTTTCGCTCTATAC
193 AGACAGTTTCGCTCAAAAC
* *
831405 AAAATTTCATTTCACTTGAGATATCTTCCCTTGAAAAGTTTTGTCTCACTCAAGACAATTTCTCT
1 AAAATTTCATCTCACTTGAGATATTTTCCCTTGAAAA-TTTTGTCTCACTCAAGACAATTTCTCT
* * *
831470 TGAAACAAAATCGCATCTCACCTGAGATATTTGCCCTTAAAAATTTTCGTATTACTCGAGACA-A
65 TGAAACAAAATCGCATCTCACCTAAGATATTTGCCCTTAAAAATTTTCGTATCACTCAAGACAGA
***** * *
831534 TTCACTC-AAA-TTTTTTTTATCTCACTTCAAATATTTT-CTCTTGAAATTTTTTGTCTCACTTG
130 TTCACTCAAAACAAAAATTAATCTCACTTCAAATATTTTGC-CTT-AAATATTTTGTCTCACTTG
* *
831596 AGATAGTTTTGCTCAAAAC
193 AGACAGTTTCGCTCAAAAC
* ** *
831615 AAAATTTCATCTCACTTGAGATATTTTCCCTTGAAATTTTTTGTCTCACTTGAGACAATTTCTCA
1 AAAATTTCATCTCACTTGAGATATTTTCCCTTGAAA-ATTTTGTCTCACTCAAGACAATTTCTCT
831680 TGAAACAAAAT
65 TGAAACAAAAT
831691 TTTATCTCAA
Statistics
Matches: 245, Mismatches: 36, Indels: 13
0.83 0.12 0.04
Matches are distributed among these distances:
208 1 0.00
209 22 0.09
210 105 0.43
211 6 0.02
212 49 0.20
213 60 0.24
214 2 0.01
ACGTcount: A:0.31, C:0.20, G:0.10, T:0.39
Consensus pattern (211 bp):
AAAATTTCATCTCACTTGAGATATTTTCCCTTGAAAATTTTGTCTCACTCAAGACAATTTCTCTT
GAAACAAAATCGCATCTCACCTAAGATATTTGCCCTTAAAAATTTTCGTATCACTCAAGACAGAT
TCACTCAAAACAAAAATTAATCTCACTTCAAATATTTTGCCTTAAATATTTTGTCTCACTTGAGA
CAGTTTCGCTCAAAAC
Found at i:833628 original size:13 final size:11
Alignment explanation
Indices: 833598--833644 Score: 58
Period size: 11 Copynumber: 4.1 Consensus size: 11
833588 CACCATAATC
833598 TCATTTTAAAT
1 TCATTTTAAAT
833609 TCATTTTAAAT
1 TCATTTTAAAT
*
833620 TAACATTTTAATT
1 T--CATTTTAAAT
*
833633 TTATTTTAAAT
1 TCATTTTAAAT
833644 T
1 T
833645 TGTATTTTCC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
11 21 0.68
13 10 0.32
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.57
Consensus pattern (11 bp):
TCATTTTAAAT
Found at i:833652 original size:24 final size:24
Alignment explanation
Indices: 833599--833644 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
833589 ACCATAATCT
833599 CATTTTAAATTCATTTTAAATTAA
1 CATTTTAAATTCATTTTAAATTAA
* *
833623 CATTTTAATTTTATTTTAAATT
1 CATTTTAAATTCATTTTAAATT
833645 TGTATTTTCC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.57
Consensus pattern (24 bp):
CATTTTAAATTCATTTTAAATTAA
Found at i:834578 original size:31 final size:31
Alignment explanation
Indices: 834543--834610 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
834533 TAATATTTGA
* *
834543 TCACTTTCGTTTTCAATTAATTAAGATTTAG
1 TCACTATCGTTTTCAATTAATTAAGATGTAG
* * *
834574 TCACTATCGTTTTTATTTAATTAAGATGTGG
1 TCACTATCGTTTTCAATTAATTAAGATGTAG
834605 TCACTA
1 TCACTA
834611 AAGGTTAACT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.28, C:0.13, G:0.12, T:0.47
Consensus pattern (31 bp):
TCACTATCGTTTTCAATTAATTAAGATGTAG
Found at i:845636 original size:43 final size:43
Alignment explanation
Indices: 845573--845699 Score: 157
Period size: 43 Copynumber: 3.0 Consensus size: 43
845563 AAAGGGGAGA
845573 ACAATAGGTGTTGATG-TTTAGCGGCGTTTTTCCCACAAACGCC
1 ACAATAGGTGTTGA-GATTTAGCGGCGTTTTTCCCACAAACGCC
* ** * *
845616 ACAATAGGTGTTGAGATTTAGCGGCGTTTCTCTAAAAAATGCC
1 ACAATAGGTGTTGAGATTTAGCGGCGTTTTTCCCACAAACGCC
* * **
845659 GCAATAGGTGTTCAGATTTAAAGGCGTTTTTCCCACAAACG
1 ACAATAGGTGTTGAGATTTAGCGGCGTTTTTCCCACAAACG
845700 TCGTAAAATG
Statistics
Matches: 69, Mismatches: 14, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
42 1 0.01
43 68 0.99
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.30
Consensus pattern (43 bp):
ACAATAGGTGTTGAGATTTAGCGGCGTTTTTCCCACAAACGCC
Found at i:845860 original size:44 final size:43
Alignment explanation
Indices: 845795--845922 Score: 114
Period size: 44 Copynumber: 3.0 Consensus size: 43
845785 CCACAAAAGA
* *
845795 TCTGGTATATAGGATCATTTTTTAGATACAAATGCCGCTAAACG
1 TCTGGTATATAGCAGC-TTTTTTAGATACAAATGCCGCTAAACG
* * * *** *
845839 TCTGGTATATAGTAGCGTTTTTAGGATACAAACGCCAAAAAATG
1 TCTGGTATATAGCAGCTTTTTTA-GATACAAATGCCGCTAAACG
* * * *
845883 TATGGTATATAGCGGCTTTTTT-GTTACAAATGCAGCTAAA
1 TCTGGTATATAGCAGCTTTTTTAGATACAAATGCCGCTAAA
845923 GAACACATAA
Statistics
Matches: 65, Mismatches: 18, Indels: 4
0.75 0.21 0.05
Matches are distributed among these distances:
42 12 0.18
43 6 0.09
44 47 0.72
ACGTcount: A:0.33, C:0.14, G:0.20, T:0.34
Consensus pattern (43 bp):
TCTGGTATATAGCAGCTTTTTTAGATACAAATGCCGCTAAACG
Found at i:846257 original size:21 final size:21
Alignment explanation
Indices: 846233--846288 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 21
846223 TGATATGCTG
* *
846233 CTTCTCTTTGTGTTGCCGCTA
1 CTTCTCTCTGTGCTGCCGCTA
* *
846254 CTTCTCTCTGTGCTGTCGCTG
1 CTTCTCTCTGTGCTGCCGCTA
*
846275 CTTCTCTCTATGCT
1 CTTCTCTCTGTGCT
846289 TCCCTTGCTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.04, C:0.32, G:0.18, T:0.46
Consensus pattern (21 bp):
CTTCTCTCTGTGCTGCCGCTA
Found at i:846297 original size:21 final size:21
Alignment explanation
Indices: 846254--846298 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
846244 GTTGCCGCTA
* *
846254 CTTCTCTCTGTGCTGTCGCTG
1 CTTCTCTCTATGCTGTCCCTG
846275 CTTCTCTCTATGCT-TCCCTTG
1 CTTCTCTCTATGCTGTCCC-TG
846296 CTT
1 CTT
846299 TATTTTTCGG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 3 0.14
21 18 0.86
ACGTcount: A:0.02, C:0.36, G:0.16, T:0.47
Consensus pattern (21 bp):
CTTCTCTCTATGCTGTCCCTG
Found at i:850657 original size:2 final size:2
Alignment explanation
Indices: 850650--850690 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
850640 ACATCCACGC
850650 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
850691 AAGCTATAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:852272 original size:11 final size:11
Alignment explanation
Indices: 852242--852275 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
852232 GGCCTGATAA
*
852242 AAAATAAACAT
1 AAAATAAATAT
852253 AAAATAAATAT
1 AAAATAAATAT
*
852264 AATATAAATAT
1 AAAATAAATAT
852275 A
1 A
852276 TGTATCATAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (11 bp):
AAAATAAATAT
Found at i:858131 original size:27 final size:26
Alignment explanation
Indices: 858079--858133 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
858069 TGAAATTACT
* *
858079 ATTGAAAAAGTAAAAAAGAATGTTAA
1 ATTGAAAAAGTAAAAAAAAATATTAA
858105 ATTGAAAAA-TAAAAAAATAAATATTAA
1 ATTGAAAAAGT-AAAAAA-AAATATTAA
858132 AT
1 AT
858134 AAAAAAAGGG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 1 0.04
26 15 0.60
27 9 0.36
ACGTcount: A:0.65, C:0.00, G:0.09, T:0.25
Consensus pattern (26 bp):
ATTGAAAAAGTAAAAAAAAATATTAA
Found at i:858323 original size:2 final size:2
Alignment explanation
Indices: 858318--858342 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
858308 GCACGCGCGC
858318 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
858343 AGCTATAGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:860332 original size:2 final size:2
Alignment explanation
Indices: 860327--860354 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
860317 AAAATCATCT
860327 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
860355 CAAAGCCTAA
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:864321 original size:17 final size:17
Alignment explanation
Indices: 864294--864344 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 17
864284 TTAATATTTT
864294 AATACAAAATATAATTAA
1 AATA-AAAATATAATTAA
864312 AATAAAAATA-AATTTAAA
1 AATAAAAATATAA-TT-AA
*
864330 AATTAAAAT-TAATTA
1 AATAAAAATATAATTA
864345 TATGCCAAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
16 3 0.10
17 10 0.34
18 16 0.55
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (17 bp):
AATAAAAATATAATTAA
Found at i:866894 original size:4 final size:4
Alignment explanation
Indices: 866885--866911 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
866875 TTTTATGCAT
866885 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
866912 TTGATGTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:868262 original size:23 final size:21
Alignment explanation
Indices: 868232--868279 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
868222 TATAATGACT
*
868232 AAAATAAAAATATATAAAATATG
1 AAAAT-AAAAT-TACAAAATATG
*
868255 AAAATAAAATTACAAGATATG
1 AAAATAAAATTACAAAATATG
868276 AAAA
1 AAAA
868280 ACCTGATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 13 0.57
22 5 0.22
23 5 0.22
ACGTcount: A:0.69, C:0.02, G:0.06, T:0.23
Consensus pattern (21 bp):
AAAATAAAATTACAAAATATG
Found at i:869407 original size:17 final size:17
Alignment explanation
Indices: 869374--869420 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
869364 CCTTCGGGCT
869374 TTTATAA-A-AATAATA
1 TTTATAATATAATAATA
*
869389 TTTATAATATAATATTA
1 TTTATAATATAATAATA
869406 -TTATATATATAATAA
1 TTTATA-ATATAATAA
869421 CATATATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 7 0.26
16 6 0.22
17 14 0.52
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TTTATAATATAATAATA
Found at i:870034 original size:20 final size:20
Alignment explanation
Indices: 870006--870079 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 20
869996 CTGACATATG
* * *
870006 ACCCAAAGGATTTACAGATT
1 ACCCGAAGGCTTTACAAATT
*
870026 ACCCGAAGGCTTTACAAATG
1 ACCCGAAGGCTTTACAAATT
* *
870046 AGCCGAAGGCTTTAAAAATT
1 ACCCGAAGGCTTTACAAATT
*
870066 ACCCGAATGCTTTA
1 ACCCGAAGGCTTTA
870080 ATTTTCTAGA
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.24
Consensus pattern (20 bp):
ACCCGAAGGCTTTACAAATT
Found at i:878334 original size:12 final size:12
Alignment explanation
Indices: 878312--878370 Score: 61
Period size: 12 Copynumber: 5.2 Consensus size: 12
878302 TTCGGGCTTT
*
878312 TATAAATAATAA
1 TATATATAATAA
*
878324 TATTTATAAT-A
1 TATATATAATAA
*
878335 TA-ATATAATTA
1 TATATATAATAA
878346 TATATATAATAA
1 TATATATAATAA
*
878358 CATATAT-ATAA
1 TATATATAATAA
878369 TA
1 TA
878371 CTCATCACTC
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
10 6 0.15
11 11 0.28
12 22 0.56
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (12 bp):
TATATATAATAA
Found at i:878339 original size:17 final size:17
Alignment explanation
Indices: 878310--878357 Score: 64
Period size: 16 Copynumber: 2.9 Consensus size: 17
878300 CTTTCGGGCT
878310 TTTATAA-ATAATAATA
1 TTTATAATATAATAATA
878326 TTTATAATATAAT-ATA
1 TTTATAATATAATAATA
*
878342 ATTATATATATAATAA
1 TTTATA-ATATAATAA
878358 CATATATATA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
16 15 0.54
17 12 0.43
18 1 0.04
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
TTTATAATATAATAATA
Found at i:881733 original size:20 final size:20
Alignment explanation
Indices: 881708--881753 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
881698 AACTCAGAAA
881708 TTTTGCTTTTAGATCAATAT
1 TTTTGCTTTTAGATCAATAT
881728 TTTTGCTTTTAGATCAATAT
1 TTTTGCTTTTAGATCAATAT
881748 TTTTGC
1 TTTTGC
881754 ATTGTCTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.22, C:0.11, G:0.11, T:0.57
Consensus pattern (20 bp):
TTTTGCTTTTAGATCAATAT
Found at i:882858 original size:37 final size:36
Alignment explanation
Indices: 882817--882998 Score: 113
Period size: 37 Copynumber: 5.0 Consensus size: 36
882807 TTTGTCTAAA
*
882817 TCAAGATAGTTTCTCTCGAAACATAATTTCATCTCAC
1 TCAAGATAATTTCTCTCGAAACA-AATTTCATCTCAC
* * * *
882854 TCAAGATAGCTTT-GCTCAAGAACAAATTTCGTCTCAC
1 TCAAGATA-ATTTCTCTCGA-AACAAATTTCATCTCAC
** * *
882891 TTGAGACAATCTTCT-T-GAAACAAAAATTACATCTCAC
1 TCAAGATAAT-TTCTCTCGAAAC--AAATTTCATCTCAC
* * * *
882928 TTAAGATATTTTCTCTTG-AA-AAATTCCATCTCAC
1 TCAAGATAATTTCTCTCGAAACAAATTTCATCTCAC
* * *
882962 TCGAGATAATTTATCTTGAAACAAAATTTTCATCTCA
1 TCAAGATAATTTCTCTCGAAAC-AAA-TTTCATCTCA
882999 ATTGAGAAAT
Statistics
Matches: 112, Mismatches: 21, Indels: 23
0.72 0.13 0.15
Matches are distributed among these distances:
34 27 0.24
35 5 0.04
36 6 0.05
37 57 0.51
38 17 0.15
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (36 bp):
TCAAGATAATTTCTCTCGAAACAAATTTCATCTCAC
Found at i:882996 original size:72 final size:71
Alignment explanation
Indices: 882820--883265 Score: 289
Period size: 71 Copynumber: 6.2 Consensus size: 71
882810 GTCTAAATCA
* * * * * * **
882820 AGATAGTTTCTCTCGAAACATAATTTCATCTCACTCAAGATAGCTTTGCTCAAGAACAAATTTCG
1 AGATAATTTATCTTGAAACAAAATTTCATCTCACTTAAGATA--TTTTCTCTTGAA-AAATTTCG
882885 TCTCACTTG
63 TCTCACTTG
* * * * *
882894 AGACAATCT-TCTTGAAACAAAAATTACATCTCACTTAAGATATTTTCTCTTGAAAAATTCCATC
1 AGATAATTTATCTTGAAAC-AAAATTTCATCTCACTTAAGATATTTTCTCTTGAAAAATTTCGTC
*
882958 TCACTCG
65 TCACTTG
* * * *
882965 AGATAATTTATCTTGAAACAAAATTTTCATCTCAATTGAGAAATTTTC-CTTTAAAAATTTTCGT
1 AGATAATTTATCTTGAAACAAAA-TTTCATCTCACTTAAGATATTTTCTCTTGAAAAA-TTTCGT
*
883029 CTCAGTTG
64 CTCACTTG
* * * *** * *
883037 AGACT-GTTTCA-CATAAAACAAAATTTCATCTCAGACAAGATATTTTCCCTTGAAAATTTTCGT
1 AGA-TAATTT-ATCTTGAAACAAAATTTCATCTCACTTAAGATATTTTCTCTTGAAAAATTTCGT
883100 CTCACTTG
64 CTCACTTG
* * * * * * *
883108 AGA-AAGTTTCA-CTCGAAACGAAATTTCATCTCACTTGAGATAGTTTCCCTTGAAAATTTTTCA
1 AGATAA-TTT-ATCTTGAAACAAAATTTCATCTCACTTAAGATATTTTCTCTTGAAAA-ATTTCG
* *
883171 TCTCAATCG
63 TCTCACTTG
* * * * * * * ** *
883180 ATATAGTTTCTCTTGTAACAAAAATTGCATCTCACTTGAGATATGTTCTCTT-AAATTTTTTTGT
1 AGATAATTTATCTTGAAAC-AAAATTTCATCTCACTTAAGATATTTTCTCTTGAAA-AATTTCGT
*
883244 CTCACTCG
64 CTCACTTG
883252 AGAT-ATTT-TCTTGA
1 AGATAATTTATCTTGA
883266 CATGACTCAA
Statistics
Matches: 293, Mismatches: 65, Indels: 32
0.75 0.17 0.08
Matches are distributed among these distances:
70 5 0.02
71 112 0.38
72 112 0.38
73 38 0.13
74 26 0.09
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.38
Consensus pattern (71 bp):
AGATAATTTATCTTGAAACAAAATTTCATCTCACTTAAGATATTTTCTCTTGAAAAATTTCGTCT
CACTTG
Found at i:883026 original size:34 final size:34
Alignment explanation
Indices: 882912--883177 Score: 112
Period size: 34 Copynumber: 7.5 Consensus size: 34
882902 TTCTTGAAAC
* * * *
882912 AAAAA-TTACATCTCACTTAAGATATTTTCTCTTG
1 AAAAATTTTCATCTCAATTGAGAAATTTTC-CTTG
* * *
882946 AAAAA-TTCCATCTCACTCGAGATAATTTAT-CTTG
1 AAAAATTTTCATCTCAATTGAGA-AATTT-TCCTTG
*
882980 AAACAAAATTTTCATCTCAATTGAGAAATTTTCCTTT
1 --A-AAAATTTTCATCTCAATTGAGAAATTTTCCTTG
* * * **
883017 AAAAATTTTCGTCTCAGTTGAG-ACTGTTTCACATAA
1 AAAAATTTTCATCTCAATTGAGAAAT-TTTC-C-TTG
* ** *
883053 AACAAAATTTCATCTCAGA-CAAGATATTTTCCCTTG
1 AA-AAATTTTCATCTCA-ATTGAGAAATTTT-CCTTG
* * * *
883089 -AAAATTTTCGTCTCACTTGAGAAAGTTTCACTCG
1 AAAAATTTTCATCTCAATTGAGAAATTTTC-CTTG
* * * *
883123 AAACGAAATTTCATCTCACTTGAGATAGTTTCCCTTG
1 AAA--AATTTTCATCTCAATTGAGA-AATTTTCCTTG
*
883160 AAAATTTTTCATCTCAAT
1 AAAAATTTTCATCTCAAT
883178 CGATATAGTT
Statistics
Matches: 173, Mismatches: 39, Indels: 39
0.69 0.16 0.16
Matches are distributed among these distances:
33 3 0.02
34 68 0.39
35 21 0.12
36 7 0.04
37 54 0.31
38 20 0.12
ACGTcount: A:0.34, C:0.19, G:0.09, T:0.37
Consensus pattern (34 bp):
AAAAATTTTCATCTCAATTGAGAAATTTTCCTTG
Found at i:883200 original size:143 final size:144
Alignment explanation
Indices: 882903--883214 Score: 328
Period size: 143 Copynumber: 2.2 Consensus size: 144
882893 GAGACAATCT
** *
882903 TCTTGAAACAAAAATTACATCTCACTTAAGATATTTTCTCTTGAAAAATTCCATCTCACTCGAGA
1 TCTTGAAACAAAAATTACATCTCACACAAGATATTTTCCCTTGAAAAATTCCATCTCACTCGAGA
* * * *
882968 TAATTTATCTTGAAACAAAATTTTCATCTCAATTGAGAAATTTTCCTTTAAAAATTTTCGTCTCA
66 TAATTTATCTCGAAACAAAATTTTCATCTCAATTGAGAAATTTCCCTTGAAAAATTTTCATCTCA
* *
883033 GTTGAGACTGTTTC
131 ATCGAGACTGTTTC
* * * * * * * * *
883047 ACATAAAAC-AAAATTTCATCTCAGACAAGATATTTTCCCTTGAAAATTTTCGTCTCACTTGAGA
1 TCTTGAAACAAAAATTACATCTCACACAAGATATTTTCCCTTGAAAAATTCCATCTCACTCGAGA
* * * *
883111 -AAGTTTCA-CTCGAAACGAAA-TTTCATCTCACTTGAGATAGTTTCCCTTGAAAATTTTTCATC
66 TAA-TTT-ATCTCGAAACAAAATTTTCATCTCAATTGAGA-AATTTCCCTTGAAAAATTTTCATC
*
883173 TCAATCGATA-TAGTTTC
128 TCAATCGAGACT-GTTTC
* *
883190 TCTTGTAACAAAAATTGCATCTCAC
1 TCTTGAAACAAAAATTACATCTCAC
883215 TTGAGATATG
Statistics
Matches: 134, Mismatches: 29, Indels: 10
0.77 0.17 0.06
Matches are distributed among these distances:
142 19 0.14
143 95 0.71
144 20 0.15
ACGTcount: A:0.34, C:0.20, G:0.10, T:0.37
Consensus pattern (144 bp):
TCTTGAAACAAAAATTACATCTCACACAAGATATTTTCCCTTGAAAAATTCCATCTCACTCGAGA
TAATTTATCTCGAAACAAAATTTTCATCTCAATTGAGAAATTTCCCTTGAAAAATTTTCATCTCA
ATCGAGACTGTTTC
Found at i:883965 original size:199 final size:198
Alignment explanation
Indices: 883584--883969 Score: 460
Period size: 198 Copynumber: 1.9 Consensus size: 198
883574 AGCTACATGT
* * * * ** *
883584 TCAAGAGTGCATTGATCGTATGATAGCAACAAGGAACTACTTTTTGGTCAAAATTCAAACCGAGG
1 TCAAGAGTGCATTGACCGCACGATAGCAACAAAGAACTACTTCCTGGTCAAAATTCAAACCAAGG
* * *
883649 CCCTTAAGTCAAGAAAATTACCCAAATTATTTGCGATTAGCAAAAACGAACTACTTCCCAACCCA
66 CCCTTAAGTCAAGAAAAATACCCAAATTAGTTGAGATTAGCAAAAACGAACTACTTCCCAACCCA
* ** *
883714 GATTTTGACATAGCATAAGGTGAGAAGAGCTATCTGTCAACTAAAGCTTTCAAGTTCGACCACTC
131 GATTTTGACATAGCATAAGGTGAGAAGAGCTACCCATCAACTAAAACTTTCAAGTTCGACCACTC
883779 AAC
196 AAC
*
883782 TCAAGAGTGCATTGACCGCACGGTAGCAACAAAGAACTACTCTCCT-GTCAAAATTCAAACCAAG
1 TCAAGAGTGCATTGACCGCACGATAGCAACAAAGAACTACT-TCCTGGTCAAAATTCAAACCAAG
* ** * * *
883846 G-TCTTCAAGTCTTGAAAAATACCCATATTGGTTGAGATTTAGCAACAA-GTAACTACTTCCCAA
65 GCCCTT-AAGTCAAGAAAAATACCCAAATTAGTTGAGA-TTAGCAAAAACG-AACTACTTCCCAA
* *
883909 CCTAGATTTTGATATAGC-TCAA-GTCGAGAAGAGCTACCCATCGAA-TAAAACTTTCAAGTTC
127 CCCAGATTTTGACATAGCAT-AAGGT-GAGAAGAGCTACCCATC-AACTAAAACTTTCAAGTTC
883970 AATTCCACTC
Statistics
Matches: 158, Mismatches: 23, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
197 3 0.02
198 82 0.52
199 71 0.45
200 2 0.01
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.25
Consensus pattern (198 bp):
TCAAGAGTGCATTGACCGCACGATAGCAACAAAGAACTACTTCCTGGTCAAAATTCAAACCAAGG
CCCTTAAGTCAAGAAAAATACCCAAATTAGTTGAGATTAGCAAAAACGAACTACTTCCCAACCCA
GATTTTGACATAGCATAAGGTGAGAAGAGCTACCCATCAACTAAAACTTTCAAGTTCGACCACTC
AAC
Found at i:885026 original size:45 final size:46
Alignment explanation
Indices: 884975--885092 Score: 150
Period size: 45 Copynumber: 2.6 Consensus size: 46
884965 TCCATTTTGT
* * *
884975 ATTTTCATTTGTGGCATCCTCTCATACCACTTATGCACTATT-TAC
1 ATTTTCATTTATGGCATCCTTTCATACCAATTATGCACTATTGTAC
* * *
885020 ATTTTCATTTATTGCATCCTTTCATACCAATTATGCATTGTTGTAC
1 ATTTTCATTTATGGCATCCTTTCATACCAATTATGCACTATTGTAC
* *
885066 ACTTT-ATATATGGCATCCTTTCATACC
1 ATTTTCATTTATGGCATCCTTTCATACC
885093 GTTAATGCGC
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
45 56 0.89
46 7 0.11
ACGTcount: A:0.24, C:0.24, G:0.08, T:0.44
Consensus pattern (46 bp):
ATTTTCATTTATGGCATCCTTTCATACCAATTATGCACTATTGTAC
Found at i:885223 original size:81 final size:81
Alignment explanation
Indices: 885136--885711 Score: 830
Period size: 81 Copynumber: 7.1 Consensus size: 81
885126 AATCCTTTAT
* * * * * *
885136 TCTTTTACCCAAAGGCATTTAGCCTTTCATCTAACTTGCATGATTGACACCTTTATGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
885201 ACAGCTAGGCTATTAA
66 ACAGCTAGGCTATTAA
* * *
885217 TTTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGTCATAATTTACACCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
885282 ACAGCTAGGCTATTAA
66 ACAGCTAGGCTATTAA
* * * * * * * *
885298 TGTTTTACTCAAAGGTATTCAACATTTTATCTAACTGGCATAGTTGACACATTTTTTTTCAAATG
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACAC-CTTTCTGTCAAATG
* *
885363 CACAGGTAGACTATTAA
65 CACAGCTAGGCTATTAA
* *
885380 TCTTTTACTAAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATAC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
*
885445 ACA-TTAGGCTATTAA
66 ACAGCTAGGCTATTAA
* *
885460 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAATTGGCATAATTGACACCTTTTTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
*
885525 ACAACTAGGCTATTAA
66 ACAGCTAGGCTATTAA
* * * *
885541 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGAATAATTGACACATTTCTGTCAATTGT
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
*
885606 ACAACTAGGCTATTAA
66 ACAGCTAGGCTATTAA
* * *
885622 TCTTTTACTCAAAGGTATTTAACCTTTAATCTAAGTGGCATAATTGACACCTTTTTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
*
885687 ACATCTAGGCTATTAA
66 ACAGCTAGGCTATTAA
885703 TCTTTTACT
1 TCTTTTACT
885712 TTAAACAATT
Statistics
Matches: 441, Mismatches: 52, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
80 74 0.17
81 297 0.67
82 70 0.16
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (81 bp):
TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
ACAGCTAGGCTATTAA
Found at i:886290 original size:17 final size:17
Alignment explanation
Indices: 886268--886322 Score: 101
Period size: 17 Copynumber: 3.2 Consensus size: 17
886258 TTTTAGTATC
886268 GATACACCATCAATATT
1 GATACACCATCAATATT
886285 GATACACCATCAATATT
1 GATACACCATCAATATT
*
886302 GATACCCCATCAATATT
1 GATACACCATCAATATT
886319 GATA
1 GATA
886323 TCACTTGCAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 37 1.00
ACGTcount: A:0.40, C:0.24, G:0.07, T:0.29
Consensus pattern (17 bp):
GATACACCATCAATATT
Found at i:889644 original size:18 final size:18
Alignment explanation
Indices: 889621--889655 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
889611 AGTCGGCTTT
889621 CATAAGACCTTCACCCTC
1 CATAAGACCTTCACCCTC
889639 CATAAGACCTTCACCCT
1 CATAAGACCTTCACCCT
889656 ATTCTCCCCG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.29, C:0.43, G:0.06, T:0.23
Consensus pattern (18 bp):
CATAAGACCTTCACCCTC
Found at i:890847 original size:45 final size:46
Alignment explanation
Indices: 890796--890887 Score: 132
Period size: 45 Copynumber: 2.0 Consensus size: 46
890786 GCCGTTTTGT
*
890796 ATTTTCATTTATAGCATCCTCTCATACCACTTATGCACTATT-TAC
1 ATTTTCATTTATAGCATCCTCTCATACCAATTATGCACTATTGTAC
* * * *
890841 ATTTTCATTTATTGTATCCTTTCATACCAATTATGCATTATTGTAC
1 ATTTTCATTTATAGCATCCTCTCATACCAATTATGCACTATTGTAC
890887 A
1 A
890888 CCTATATATG
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
45 37 0.90
46 4 0.10
ACGTcount: A:0.27, C:0.22, G:0.05, T:0.46
Consensus pattern (46 bp):
ATTTTCATTTATAGCATCCTCTCATACCAATTATGCACTATTGTAC
Found at i:891069 original size:81 final size:81
Alignment explanation
Indices: 890949--891530 Score: 790
Period size: 81 Copynumber: 7.2 Consensus size: 81
890939 CAGTATAAAT
* * * * * * * **
890949 CTATTATTCTTTTACCCAAAGGCATTTAGCCTTTCATCTAACTTGCATGATTGACATCTTTCTAC
1 CTATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGT
* *
891014 CAAATGCATAGCTAGG
66 CAAATGCACAGCTAGA
* * *
891030 CTATTAATCTTTTACTCAAAGGTATTTAACATTTCATCTAACTGTCATAATTTACACCTTTCTGT
1 CTATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGT
* * *
891095 CATATGCACAACTAGG
66 CAAATGCACAGCTAGA
* * * * **
891111 CTATTAATATTTTACACAAAGGTATTAAACCTTTCATCTAACTGGCATAGTTGACATATTTCTGT
1 CTATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGT
891176 CAAATGCACAGCTAGA
66 CAAATGCACAGCTAGA
* *
891192 CTATTAATCTTTTACTCAAAGGTATTTAACATTTCATCTATCTGGCATAATTGACACCTTTCTGT
1 CTATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGT
* *
891257 CAAATGCATAACTA-A
66 CAAATGCACAGCTAGA
891272 TCTATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACA-CTTTCTG
1 -CTATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTG
* *
891336 TCAAATGCACAGTTAGG
65 TCAAATGCACAGCTAGA
* * * *
891353 CTATTAATCTTTTACTCAAAGGTATTTAACCTTTCGTCTTACTGGAATAATTGACACCTTTCTAT
1 CTATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGT
*
891418 CAATTGCACAGCTAGA
66 CAAATGCACAGCTAGA
* * *
891434 CTATTAATCTTTTACTCAAAGGTATTTAACCTTTAATCTAACTGGCATAATTGGCACCTTTATGT
1 CTATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGT
**
891499 CAAATGCACATATAGA
66 CAAATGCACAGCTAGA
891515 CTATTAATCTTTTACT
1 CTATTAATCTTTTACT
891531 TTAAAAAATA
Statistics
Matches: 438, Mismatches: 60, Indels: 6
0.87 0.12 0.01
Matches are distributed among these distances:
80 73 0.17
81 365 0.83
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (81 bp):
CTATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGT
CAAATGCACAGCTAGA
Found at i:891450 original size:242 final size:242
Alignment explanation
Indices: 890949--891530 Score: 808
Period size: 242 Copynumber: 2.4 Consensus size: 242
890939 CAGTATAAAT
* * * * * * * **
890949 CTATTATTCTTTTACCCAAAGGCATTTAGCCTTTCATCTAACTTGCATGATTGACATCTTTCTAC
1 CTATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGT
* * *
891014 CAAATGCATAGCTAGGCTATTAATCTTTTACTCAAAGGTATTTAACATTTCATCTAACTGTCATA
66 CAAATGCATAACTA-ACTATTAATCTTTTACTCAAAGGTATTTAACATTTCATCTAACTGGCATA
* *
891079 ATTTACACCTTTCTGTCATATGCACAACTAGGCTATTAATATTTTACACAAAGGTATTAAACCTT
130 ATTGACACCTTTCTGTCAAATGCACAACTAGGCTATTAATATTTTACACAAAGGTATTAAACCTT
* * * *
891144 TCATCTAACTGGCATAGTTGACATATTTCTGTCAAATGCACAGCTAGA
195 TCATCTAACTGGAATAATTGACACATTTCTATCAAATGCACAGCTAGA
* *
891192 CTATTAATCTTTTACTCAAAGGTATTTAACATTTCATCTATCTGGCATAATTGACACCTTTCTGT
1 CTATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGT
*
891257 CAAATGCATAACTAATCTATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATA
66 CAAATGCATAACTAA-CTATTAATCTTTTACTCAAAGGTATTTAACATTTCATCTAACTGGCATA
** * * *
891322 ATTGACA-CTTTCTGTCAAATGCACAGTTAGGCTATTAATCTTTTACTCAAAGGTATTTAACCTT
130 ATTGACACCTTTCTGTCAAATGCACAACTAGGCTATTAATATTTTACACAAAGGTATTAAACCTT
* * * *
891386 TCGTCTTACTGGAATAATTGACACCTTTCTATCAATTGCACAGCTAGA
195 TCATCTAACTGGAATAATTGACACATTTCTATCAAATGCACAGCTAGA
* * *
891434 CTATTAATCTTTTACTCAAAGGTATTTAACCTTTAATCTAACTGGCATAATTGGCACCTTTATGT
1 CTATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGT
*
891499 CAAATGCACATA-TAGACTATTAATCTTTTACT
66 CAAATGCATA-ACTA-ACTATTAATCTTTTACT
891531 TTAAAAAATA
Statistics
Matches: 300, Mismatches: 36, Indels: 7
0.87 0.10 0.02
Matches are distributed among these distances:
242 178 0.59
243 122 0.41
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (242 bp):
CTATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGT
CAAATGCATAACTAACTATTAATCTTTTACTCAAAGGTATTTAACATTTCATCTAACTGGCATAA
TTGACACCTTTCTGTCAAATGCACAACTAGGCTATTAATATTTTACACAAAGGTATTAAACCTTT
CATCTAACTGGAATAATTGACACATTTCTATCAAATGCACAGCTAGA
Found at i:892846 original size:13 final size:13
Alignment explanation
Indices: 892828--892853 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
892818 TCATTTAATC
892828 AAATAAATCCTCA
1 AAATAAATCCTCA
892841 AAATAAATCCTCA
1 AAATAAATCCTCA
892854 CATTTTAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.23, G:0.00, T:0.23
Consensus pattern (13 bp):
AAATAAATCCTCA
Found at i:895718 original size:20 final size:21
Alignment explanation
Indices: 895669--895718 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
895659 AATACCTCAG
*
895669 TATCGATACTAACCCTCTAAT
1 TATCGATACTAACCCTCGAAT
*
895690 TATCCATACTAGACCC-CGAA-
1 TATCGATACTA-ACCCTCGAAT
895710 TATCGATAC
1 TATCGATAC
895719 CCTTTGATAG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 8 0.32
21 13 0.52
22 4 0.16
ACGTcount: A:0.34, C:0.30, G:0.08, T:0.28
Consensus pattern (21 bp):
TATCGATACTAACCCTCGAAT
Found at i:903229 original size:15 final size:16
Alignment explanation
Indices: 903200--903229 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
903190 CGAGGAGAGT
903200 CATCCCATCACTCTAC
1 CATCCCATCACTCTAC
903216 CATCCCAT-ACTCTA
1 CATCCCATCACTCTA
903230 GATGAAAGGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.27, C:0.47, G:0.00, T:0.27
Consensus pattern (16 bp):
CATCCCATCACTCTAC
Found at i:914926 original size:20 final size:20
Alignment explanation
Indices: 914898--914975 Score: 87
Period size: 20 Copynumber: 4.2 Consensus size: 20
914888 ATATTGTCCA
*
914898 GGGGTACAGATTCCCCCCAG
1 GGGGAACAGATTCCCCCCAG
914918 GGGGAACAGATTCCCCCCAG
1 GGGGAACAGATTCCCCCCAG
*
914938 GGGGTATC-GATT--CCCC--
1 GGGG-AACAGATTCCCCCCAG
914954 -GGGAACAGATTCCCCCCAG
1 GGGGAACAGATTCCCCCCAG
914973 GGG
1 GGG
914976 TATCGATTCC
Statistics
Matches: 48, Mismatches: 3, Indels: 14
0.74 0.05 0.22
Matches are distributed among these distances:
14 2 0.04
15 7 0.15
17 4 0.08
18 4 0.08
20 29 0.60
21 2 0.04
ACGTcount: A:0.21, C:0.33, G:0.32, T:0.14
Consensus pattern (20 bp):
GGGGAACAGATTCCCCCCAG
Found at i:914976 original size:34 final size:35
Alignment explanation
Indices: 914919--915003 Score: 154
Period size: 34 Copynumber: 2.5 Consensus size: 35
914909 TCCCCCCAGG
914919 GGGAACAGATTCCCCCCAGGGGGTATCGATTCCCC
1 GGGAACAGATTCCCCCCAGGGGGTATCGATTCCCC
914954 GGGAACAGATTCCCCCCA-GGGGTATCGATTCCCC
1 GGGAACAGATTCCCCCCAGGGGGTATCGATTCCCC
*
914988 GGGTACAGATTCCCCC
1 GGGAACAGATTCCCCC
915004 TGCATGGTTT
Statistics
Matches: 49, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
34 31 0.63
35 18 0.37
ACGTcount: A:0.20, C:0.35, G:0.27, T:0.18
Consensus pattern (35 bp):
GGGAACAGATTCCCCCCAGGGGGTATCGATTCCCC
Found at i:914998 original size:15 final size:15
Alignment explanation
Indices: 914946--915002 Score: 53
Period size: 15 Copynumber: 3.5 Consensus size: 15
914936 AGGGGGTATC
*
914946 GATTCCCCGGGAACA
1 GATTCCCCGGGTACA
914961 GATTCCCCCCAGGGGTATC-
1 GATT--CCCC--GGGTA-CA
914980 GATTCCCCGGGTACA
1 GATTCCCCGGGTACA
914995 GATTCCCC
1 GATTCCCC
915003 CTGCATGGTT
Statistics
Matches: 35, Mismatches: 1, Indels: 12
0.73 0.02 0.25
Matches are distributed among these distances:
14 1 0.03
15 17 0.49
17 8 0.23
19 8 0.23
20 1 0.03
ACGTcount: A:0.19, C:0.37, G:0.25, T:0.19
Consensus pattern (15 bp):
GATTCCCCGGGTACA
Found at i:915141 original size:21 final size:21
Alignment explanation
Indices: 915115--915156 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
915105 ATTTGAATAT
*
915115 TATGAAGGGGTATCGATTCCC
1 TATGAAGGGGTACCGATTCCC
915136 TATGAAGGGGTACCGATTCCC
1 TATGAAGGGGTACCGATTCCC
915157 CCCATTCTTG
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:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (21 bp):
TATGAAGGGGTACCGATTCCC
Found at i:915218 original size:21 final size:21
Alignment explanation
Indices: 915185--915224 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
915175 TTTTTACAGA
*
915185 AAAATCATTCCCAAACGGCTCC
1 AAAATCA-TCCCCAACGGCTCC
915207 AAAA-CATCCCCAACGGCT
1 AAAATCATCCCCAACGGCT
915225 AGATATGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 2 0.12
22 4 0.24
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.15
Consensus pattern (21 bp):
AAAATCATCCCCAACGGCTCC
Found at i:927983 original size:2 final size:2
Alignment explanation
Indices: 927976--928007 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
927966 ATTAATATTA
927976 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
928008 GAAAATAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.