Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 115 of 235
Found at i:39386750 original size:19 final size:19
Alignment explanation
Indices: 39386702--39386787 Score: 79
Period size: 18 Copynumber: 4.6 Consensus size: 19
39386692 TAAAAAATTC
* *
39386702 AAATATTTAAAATT-AAAA
1 AAATATATAAAATTGTAAA
*
39386720 AAATATA-AAAATCGTAAA
1 AAATATATAAAATTGTAAA
*
39386738 AAATATATAAAATTTTATAA
1 AAATATATAAAATTGTA-AA
* *
39386758 AATTTTATAAAAATTGTAAA
1 AAATATAT-AAAATTGTAAA
39386778 AAAT-TATAAA
1 AAATATATAAA
39386788 TATAAAATTT
Statistics
Matches: 55, Mismatches: 9, Indels: 8
0.76 0.12 0.11
Matches are distributed among these distances:
17 5 0.09
18 19 0.35
19 10 0.18
20 13 0.24
21 8 0.15
ACGTcount: A:0.63, C:0.01, G:0.02, T:0.34
Consensus pattern (19 bp):
AAATATATAAAATTGTAAA
Found at i:39386770 original size:40 final size:35
Alignment explanation
Indices: 39386723--39386803 Score: 108
Period size: 40 Copynumber: 2.2 Consensus size: 35
39386713 ATTAAAAAAA
39386723 TATAAAAATCGTAAAAAATATATAAAATTTTATAAAATTT
1 TATAAAAATCGTAAAAAAT-TAT-AAA---TATAAAATTT
*
39386763 TATAAAAATTGTAAAAAATTATAAATATAAAATTT
1 TATAAAAATCGTAAAAAATTATAAATATAAAATTT
39386798 TATAAA
1 TATAAA
39386804 GTCATAAGAA
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
35 16 0.40
38 3 0.08
39 3 0.08
40 18 0.45
ACGTcount: A:0.59, C:0.01, G:0.02, T:0.37
Consensus pattern (35 bp):
TATAAAAATCGTAAAAAATTATAAATATAAAATTT
Found at i:39386801 original size:10 final size:10
Alignment explanation
Indices: 39386743--39386803 Score: 59
Period size: 10 Copynumber: 5.6 Consensus size: 10
39386733 GTAAAAAATA
39386743 TATAAAATTT
1 TATAAAATTT
39386753 TATAAAATTT
1 TATAAAATTT
*
39386763 TATAAAAATTG
1 TAT-AAAATTT
*
39386774 TAAAAAATTAT
1 TATAAAATT-T
39386785 AAATATAAAATTT
1 ---TATAAAATTT
39386798 TATAAA
1 TATAAA
39386804 GTCATAAGAA
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
10 25 0.60
11 8 0.19
13 1 0.02
14 8 0.19
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (10 bp):
TATAAAATTT
Found at i:39386826 original size:45 final size:47
Alignment explanation
Indices: 39386742--39386852 Score: 113
Period size: 45 Copynumber: 2.4 Consensus size: 47
39386732 CGTAAAAAAT
** **
39386742 ATATAAAATTTTATAAAATTTTATAAAAATTGTAAAAAAT-T-ATAA
1 ATATAAAATTTTATAAAATCATATAAAAATTACAAAAAATGTAATAA
* *
39386787 ATATAAAATTTTATAAAGTCATA-AGAAAATTACATAAAATGTAAATAA
1 ATATAAAATTTTATAAAATCATATA-AAAATTACAAAAAATGT-AATAA
*
39386835 ATAT-AAATTTTGTAAAAT
1 ATATAAAATTTTATAAAAT
39386853 TTTTTTATAA
Statistics
Matches: 54, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
44 1 0.02
45 32 0.59
46 1 0.02
47 12 0.22
48 8 0.15
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.37
Consensus pattern (47 bp):
ATATAAAATTTTATAAAATCATATAAAAATTACAAAAAATGTAATAA
Found at i:39387060 original size:18 final size:19
Alignment explanation
Indices: 39387036--39387122 Score: 72
Period size: 18 Copynumber: 4.7 Consensus size: 19
39387026 AAAAAAATTC
39387036 TAATTTTTAATAAATTTTA
1 TAATTTTTAATAAATTTTA
* *
39387055 -AATTTTTATTAAAATTTAA
1 TAATTTTTAAT-AAATTTTA
* *
39387074 TAATTTTT-CTAAAATTTA
1 TAATTTTTAATAAATTTTA
* * * *
39387092 TTATTTATAAT-TATTTTT
1 TAATTTTTAATAAATTTTA
39387110 TAATTTTTAATAA
1 TAATTTTTAATAA
39387123 GAGCATGGGC
Statistics
Matches: 50, Mismatches: 14, Indels: 8
0.69 0.19 0.11
Matches are distributed among these distances:
18 34 0.68
19 9 0.18
20 7 0.14
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (19 bp):
TAATTTTTAATAAATTTTA
Found at i:39387069 original size:19 final size:20
Alignment explanation
Indices: 39387036--39387091 Score: 64
Period size: 19 Copynumber: 3.0 Consensus size: 20
39387026 AAAAAAATTC
*
39387036 TAATTTTTAAT-AAATTTTA
1 TAATTTTTAATAAAATTTAA
*
39387055 -AATTTTTATTAAAATTTAA
1 TAATTTTTAATAAAATTTAA
*
39387074 TAATTTTT-CTAAAATTTA
1 TAATTTTTAATAAAATTTA
39387092 TTATTTATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
18 9 0.28
19 16 0.50
20 7 0.22
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (20 bp):
TAATTTTTAATAAAATTTAA
Found at i:39406858 original size:12 final size:11
Alignment explanation
Indices: 39406836--39406868 Score: 50
Period size: 12 Copynumber: 3.0 Consensus size: 11
39406826 TTTTTATCTT
39406836 AAATTAAATTA
1 AAATTAAATTA
39406847 AAATTAAAATTA
1 AAATT-AAATTA
39406859 AAA-TAAATTA
1 AAATTAAATTA
39406869 TAATGGTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 6 0.29
11 6 0.29
12 9 0.43
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATTAAATTA
Found at i:39406878 original size:6 final size:6
Alignment explanation
Indices: 39406869--39406896 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
39406859 AAATAAATTA
39406869 TAATGG TAATGG TAATGG TAATGG TAAT
1 TAATGG TAATGG TAATGG TAATGG TAAT
39406897 TTTAAAAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.29, T:0.36
Consensus pattern (6 bp):
TAATGG
Found at i:39408051 original size:21 final size:22
Alignment explanation
Indices: 39407993--39408052 Score: 68
Period size: 21 Copynumber: 2.7 Consensus size: 22
39407983 AATTGATTGT
*
39407993 TTTATAAATGGTTTTTACTATTAA
1 TTTATAAAT-GTTATTA-TATTAA
**
39408017 TTTATAAACATTATT-TATTAA
1 TTTATAAATGTTATTATATTAA
39408038 TTTATAAATGTTATT
1 TTTATAAATGTTATT
39408053 CTGAAAGTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
21 19 0.61
23 4 0.13
24 8 0.26
ACGTcount: A:0.37, C:0.03, G:0.05, T:0.55
Consensus pattern (22 bp):
TTTATAAATGTTATTATATTAA
Found at i:39408503 original size:31 final size:30
Alignment explanation
Indices: 39408439--39408496 Score: 89
Period size: 31 Copynumber: 1.9 Consensus size: 30
39408429 TATAGTAATT
* *
39408439 AAGATAAGTTCTCAATTAAATTAATGTAGG
1 AAGATAAGTTCTCAATCAAATTAATATAGG
39408469 AAGATTAAGTTCTCAATCAAATTAATAT
1 AAGA-TAAGTTCTCAATCAAATTAATAT
39408497 GAGAAGAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 4 0.16
31 21 0.84
ACGTcount: A:0.45, C:0.09, G:0.12, T:0.34
Consensus pattern (30 bp):
AAGATAAGTTCTCAATCAAATTAATATAGG
Found at i:39409402 original size:17 final size:17
Alignment explanation
Indices: 39409362--39409402 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
39409352 ACTTTTCAAA
*
39409362 GAAAAGAGACAATTTAT
1 GAAAAGTGACAATTTAT
39409379 GAAAAGTGACAATTTAT
1 GAAAAGTGACAATTTAT
39409396 GAAAAGT
1 GAAAAGT
39409403 CATTGGTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.51, C:0.05, G:0.20, T:0.24
Consensus pattern (17 bp):
GAAAAGTGACAATTTAT
Found at i:39411452 original size:43 final size:42
Alignment explanation
Indices: 39411405--39411507 Score: 127
Period size: 42 Copynumber: 2.4 Consensus size: 42
39411395 TCCTAGACGT
* * *
39411405 GGTCTTACATGTAATCAAATATTGATGCC-ACTGTCCCAGACAG
1 GGTCTTACACGTAATCAAATA-CGATGCCGA-TGTCCCACACAG
* *
39411448 GGTCTTACACGAAATCAAATACGATGCCGATGTCCCACACAT
1 GGTCTTACACGTAATCAAATACGATGCCGATGTCCCACACAG
39411490 GGTCTTACACGTATATCA
1 GGTCTTACACGTA-ATCA
39411508 TAAGTCGATG
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
42 28 0.54
43 24 0.46
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.26
Consensus pattern (42 bp):
GGTCTTACACGTAATCAAATACGATGCCGATGTCCCACACAG
Found at i:39411494 original size:42 final size:43
Alignment explanation
Indices: 39411404--39411545 Score: 130
Period size: 44 Copynumber: 3.3 Consensus size: 43
39411394 ATCCTAGACG
* * * *
39411404 TGGTCTTACATGTAATCAAATATTGATGCCACTGTCCCAGACA
1 TGGTCTTACACGAAATCAAATATCGATGCCACTGTCCCACACA
*
39411447 GGGTCTTACACGAAATCAAATA-CGATGCCGA-TGTCCCACACA
1 TGGTCTTACACGAAATCAAATATCGATGCC-ACTGTCCCACACA
* * * *
39411489 TGGTCTTACACGTATATCATAA-GTCGATGCCAGC-GTCCCAAACG
1 TGGTCTTACACG-AAATCA-AATATCGATGCCA-CTGTCCCACACA
*
39411533 CGGTCTTACACGA
1 TGGTCTTACACGA
39411546 GAACACATAC
Statistics
Matches: 82, Mismatches: 11, Indels: 12
0.78 0.10 0.11
Matches are distributed among these distances:
42 27 0.33
43 27 0.33
44 28 0.34
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.25
Consensus pattern (43 bp):
TGGTCTTACACGAAATCAAATATCGATGCCACTGTCCCACACA
Found at i:39421160 original size:30 final size:31
Alignment explanation
Indices: 39421124--39421192 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 31
39421114 GGTTTCATTT
* *
39421124 CAGTCACTCAAC-TTTTGAAAAA-TAACAAAA
1 CAGTCACT-AACGTTATAAAAAAGTAACAAAA
*
39421154 CAGTCACTAACGTTATAAAAAAGTGACAAAA
1 CAGTCACTAACGTTATAAAAAAGTAACAAAA
39421185 CAGTCACT
1 CAGTCACT
39421193 GATTAACAGT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 3 0.09
30 16 0.47
31 15 0.44
ACGTcount: A:0.48, C:0.20, G:0.10, T:0.22
Consensus pattern (31 bp):
CAGTCACTAACGTTATAAAAAAGTAACAAAA
Found at i:39421251 original size:21 final size:20
Alignment explanation
Indices: 39421223--39421267 Score: 72
Period size: 21 Copynumber: 2.2 Consensus size: 20
39421213 GTTTCAACAG
39421223 AACTGCTGATGTGGCAAGTT
1 AACTGCTGATGTGGCAAGTT
*
39421243 AACTAGCTGATGTGGCTAGTT
1 AACT-GCTGATGTGGCAAGTT
39421264 AACT
1 AACT
39421268 TTCCACGTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 4 0.17
21 19 0.83
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.31
Consensus pattern (20 bp):
AACTGCTGATGTGGCAAGTT
Found at i:39424071 original size:684 final size:684
Alignment explanation
Indices: 39422764--39424131 Score: 2736
Period size: 684 Copynumber: 2.0 Consensus size: 684
39422754 TGAAGGTCAA
39422764 GCAATCTGAGATGAAGAAAACCGAAGAGGCATCATTTGAGTAGCGTGCTTAAGTATACTGCTTCT
1 GCAATCTGAGATGAAGAAAACCGAAGAGGCATCATTTGAGTAGCGTGCTTAAGTATACTGCTTCT
39422829 TATTGAGAAGATGAACTTTTGATTAAAACATTTCATCTTTGGTACAAATTTGGTTGATTAAATTT
66 TATTGAGAAGATGAACTTTTGATTAAAACATTTCATCTTTGGTACAAATTTGGTTGATTAAATTT
39422894 CAATAAGGAGACGAAAATGCCAAAATTAATCAAATCGAGTAAGCAAATGTAACGCCCCTAACCCG
131 CAATAAGGAGACGAAAATGCCAAAATTAATCAAATCGAGTAAGCAAATGTAACGCCCCTAACCCG
39422959 AATCCGTCACCGAAATAGAGTTACGGAGCATTACCGGAGTTACCGATTCATTTATCAGATATTTC
196 AATCCGTCACCGAAATAGAGTTACGGAGCATTACCGGAGTTACCGATTCATTTATCAGATATTTC
39423024 ATTAATCCAATATCTTTTCTTTTCCACGTTCAAGTCTTGTATTCAAGTCATCCGGATCTTTATAA
261 ATTAATCCAATATCTTTTCTTTTCCACGTTCAAGTCTTGTATTCAAGTCATCCGGATCTTTATAA
39423089 AGAAATTTGATCGTCGTTTTCATTTATTTCATGTTATAATACATTCAACTAATGCTCTAAACAAA
326 AGAAATTTGATCGTCGTTTTCATTTATTTCATGTTATAATACATTCAACTAATGCTCTAAACAAA
39423154 ATTATCGTTTTACCCCTAAACTTTTAATTAATGACGATTTCATCTTTAGGTTAAAATAAAATAAA
391 ATTATCGTTTTACCCCTAAACTTTTAATTAATGACGATTTCATCTTTAGGTTAAAATAAAATAAA
39423219 ATTATTGCAATTTAATCCTTATTTCCAGCCGTTATTCTCACACAAATTGATAACAACCTATGAAT
456 ATTATTGCAATTTAATCCTTATTTCCAGCCGTTATTCTCACACAAATTGATAACAACCTATGAAT
39423284 TCTATAAAATGTCAGAATTTTTCATAATTTCAACACTTTTCAATTTAATCCTTAATACATGTTTT
521 TCTATAAAATGTCAGAATTTTTCATAATTTCAACACTTTTCAATTTAATCCTTAATACATGTTTT
39423349 TCCCTGATCTTGAGCTAAATTAATAATTTCATTCAATTTTGTAATTTAAATAATAAAATAATCCA
586 TCCCTGATCTTGAGCTAAATTAATAATTTCATTCAATTTTGTAATTTAAATAATAAAATAATCCA
39423414 TTTAATGCAAATTGGTCATTTTTAACATTTTTAT
651 TTTAATGCAAATTGGTCATTTTTAACATTTTTAT
39423448 GCAATCTGAGATGAAGAAAACCGAAGAGGCATCATTTGAGTAGCGTGCTTAAGTATACTGCTTCT
1 GCAATCTGAGATGAAGAAAACCGAAGAGGCATCATTTGAGTAGCGTGCTTAAGTATACTGCTTCT
39423513 TATTGAGAAGATGAACTTTTGATTAAAACATTTCATCTTTGGTACAAATTTGGTTGATTAAATTT
66 TATTGAGAAGATGAACTTTTGATTAAAACATTTCATCTTTGGTACAAATTTGGTTGATTAAATTT
39423578 CAATAAGGAGACGAAAATGCCAAAATTAATCAAATCGAGTAAGCAAATGTAACGCCCCTAACCCG
131 CAATAAGGAGACGAAAATGCCAAAATTAATCAAATCGAGTAAGCAAATGTAACGCCCCTAACCCG
39423643 AATCCGTCACCGAAATAGAGTTACGGAGCATTACCGGAGTTACCGATTCATTTATCAGATATTTC
196 AATCCGTCACCGAAATAGAGTTACGGAGCATTACCGGAGTTACCGATTCATTTATCAGATATTTC
39423708 ATTAATCCAATATCTTTTCTTTTCCACGTTCAAGTCTTGTATTCAAGTCATCCGGATCTTTATAA
261 ATTAATCCAATATCTTTTCTTTTCCACGTTCAAGTCTTGTATTCAAGTCATCCGGATCTTTATAA
39423773 AGAAATTTGATCGTCGTTTTCATTTATTTCATGTTATAATACATTCAACTAATGCTCTAAACAAA
326 AGAAATTTGATCGTCGTTTTCATTTATTTCATGTTATAATACATTCAACTAATGCTCTAAACAAA
39423838 ATTATCGTTTTACCCCTAAACTTTTAATTAATGACGATTTCATCTTTAGGTTAAAATAAAATAAA
391 ATTATCGTTTTACCCCTAAACTTTTAATTAATGACGATTTCATCTTTAGGTTAAAATAAAATAAA
39423903 ATTATTGCAATTTAATCCTTATTTCCAGCCGTTATTCTCACACAAATTGATAACAACCTATGAAT
456 ATTATTGCAATTTAATCCTTATTTCCAGCCGTTATTCTCACACAAATTGATAACAACCTATGAAT
39423968 TCTATAAAATGTCAGAATTTTTCATAATTTCAACACTTTTCAATTTAATCCTTAATACATGTTTT
521 TCTATAAAATGTCAGAATTTTTCATAATTTCAACACTTTTCAATTTAATCCTTAATACATGTTTT
39424033 TCCCTGATCTTGAGCTAAATTAATAATTTCATTCAATTTTGTAATTTAAATAATAAAATAATCCA
586 TCCCTGATCTTGAGCTAAATTAATAATTTCATTCAATTTTGTAATTTAAATAATAAAATAATCCA
39424098 TTTAATGCAAATTGGTCATTTTTAACATTTTTAT
651 TTTAATGCAAATTGGTCATTTTTAACATTTTTAT
39424132 TTTACAAAAT
Statistics
Matches: 684, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
684 684 1.00
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.37
Consensus pattern (684 bp):
GCAATCTGAGATGAAGAAAACCGAAGAGGCATCATTTGAGTAGCGTGCTTAAGTATACTGCTTCT
TATTGAGAAGATGAACTTTTGATTAAAACATTTCATCTTTGGTACAAATTTGGTTGATTAAATTT
CAATAAGGAGACGAAAATGCCAAAATTAATCAAATCGAGTAAGCAAATGTAACGCCCCTAACCCG
AATCCGTCACCGAAATAGAGTTACGGAGCATTACCGGAGTTACCGATTCATTTATCAGATATTTC
ATTAATCCAATATCTTTTCTTTTCCACGTTCAAGTCTTGTATTCAAGTCATCCGGATCTTTATAA
AGAAATTTGATCGTCGTTTTCATTTATTTCATGTTATAATACATTCAACTAATGCTCTAAACAAA
ATTATCGTTTTACCCCTAAACTTTTAATTAATGACGATTTCATCTTTAGGTTAAAATAAAATAAA
ATTATTGCAATTTAATCCTTATTTCCAGCCGTTATTCTCACACAAATTGATAACAACCTATGAAT
TCTATAAAATGTCAGAATTTTTCATAATTTCAACACTTTTCAATTTAATCCTTAATACATGTTTT
TCCCTGATCTTGAGCTAAATTAATAATTTCATTCAATTTTGTAATTTAAATAATAAAATAATCCA
TTTAATGCAAATTGGTCATTTTTAACATTTTTAT
Found at i:39426341 original size:30 final size:32
Alignment explanation
Indices: 39426274--39426342 Score: 90
Period size: 31 Copynumber: 2.2 Consensus size: 32
39426264 ACTATTAATC
* *
39426274 AGTGACTGTTTTGTCACTTTTTTATAACGTTA
1 AGTGACTGTTTTGTCACTTTTTCATAAAGTTA
*
39426306 A-TGACTGTTTTGTTA-TTTTTCA-AAAGTTA
1 AGTGACTGTTTTGTCACTTTTTCATAAAGTTA
39426335 AGTGACTG
1 AGTGACTG
39426343 AAATGAAACC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 7 0.21
30 12 0.36
31 13 0.39
32 1 0.03
ACGTcount: A:0.25, C:0.10, G:0.17, T:0.48
Consensus pattern (32 bp):
AGTGACTGTTTTGTCACTTTTTCATAAAGTTA
Found at i:39430970 original size:14 final size:14
Alignment explanation
Indices: 39430936--39430971 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
39430926 TTAAATACTT
*
39430936 TCTAGTATACAATA
1 TCTAGTGTACAATA
39430950 TCTAGTGTACAATA
1 TCTAGTGTACAATA
39430964 TCTAGTGT
1 TCTAGTGT
39430972 TTGAATAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (14 bp):
TCTAGTGTACAATA
Found at i:39437964 original size:23 final size:24
Alignment explanation
Indices: 39437938--39437985 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 24
39437928 TGCGTAGTAT
39437938 AAAAATATA-TACGTAAT-ATAATG
1 AAAAATATATTA-GTAATAATAATG
*
39437961 AAAAGTATATTAGTAATAATAATG
1 AAAAATATATTAGTAATAATAATG
39437985 A
1 A
39437986 TAATGATGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 13 0.59
24 9 0.41
ACGTcount: A:0.56, C:0.02, G:0.10, T:0.31
Consensus pattern (24 bp):
AAAAATATATTAGTAATAATAATG
Found at i:39438174 original size:19 final size:18
Alignment explanation
Indices: 39438111--39438206 Score: 88
Period size: 18 Copynumber: 5.3 Consensus size: 18
39438101 AAGGATATAT
*
39438111 AATAATAATAATAAT-AA
1 AATAATAATAATAGTGAA
*
39438128 TAATAATAATAATAAT-AA
1 -AATAATAATAATAGTGAA
*
39438146 TAATAATAATAATAGTGGA
1 -AATAATAATAATAGTGAA
* * *
39438165 TATAAATAATAGTCGTGAA
1 AAT-AATAATAATAGTGAA
*
39438184 AATAATAATAATAGTGAC
1 AATAATAATAATAGTGAA
39438202 AATAA
1 AATAA
39438207 CAGAGATAAC
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
18 51 0.77
19 15 0.23
ACGTcount: A:0.59, C:0.02, G:0.08, T:0.30
Consensus pattern (18 bp):
AATAATAATAATAGTGAA
Found at i:39438175 original size:3 final size:3
Alignment explanation
Indices: 39438109--39438159 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
39438099 AAAAGGATAT
39438109 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
39438157 ATA
1 ATA
39438160 GTGGATATAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:39444315 original size:42 final size:42
Alignment explanation
Indices: 39444250--39444405 Score: 169
Period size: 42 Copynumber: 3.7 Consensus size: 42
39444240 AAATCGTACA
*
39444250 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGAAATCAATATCG
*
39444292 ATGCC-ACTGTCCCAGACAG-GGTCTTACACGAAATCAAATAT-G
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACATGAAATC-AATATCG
* * *
39444334 ATGCCGATGTCCCAGACATGGTCTTATACAT-AAATCTCAA-ATCG
1 ATGCCAACGTCCCAGACGTGGTC-T-TACATGAAA--TCAATATCG
39444378 ATGCCAACGTCCCAGACGTGGTCTTACA
1 ATGCCAACGTCCCAGACGTGGTCTTACA
39444406 CGATAACATA
Statistics
Matches: 96, Mismatches: 8, Indels: 20
0.77 0.06 0.16
Matches are distributed among these distances:
41 2 0.02
42 51 0.53
43 14 0.15
44 27 0.28
45 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGAAATCAATATCG
Found at i:39454659 original size:20 final size:20
Alignment explanation
Indices: 39454623--39454661 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
39454613 AATTTTTATT
*
39454623 TAAAGTATTAATGAATTTTG
1 TAAAGTATTAATAAATTTTG
39454643 TAAA-TATTAAATAAATTTT
1 TAAAGTATT-AATAAATTTT
39454662 TTATTATGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (20 bp):
TAAAGTATTAATAAATTTTG
Found at i:39459350 original size:15 final size:16
Alignment explanation
Indices: 39459330--39459362 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
39459320 TTCTTTATTC
39459330 TTTTTTTT-A-TTAAT
1 TTTTTTTTCATTTAAT
39459344 TTTTTTTTCATTTAAT
1 TTTTTTTTCATTTAAT
39459360 TTT
1 TTT
39459363 ATTTAACACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.47
15 1 0.06
16 8 0.47
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTTTTTTCATTTAAT
Found at i:39465379 original size:25 final size:25
Alignment explanation
Indices: 39465333--39465380 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
39465323 ACTTATATTT
**
39465333 TATTAAAAATATAAAATTAATTTAC
1 TATTAAAAATATAAAAACAATTTAC
39465358 TATT-AAAATATTAAAAACAATTT
1 TATTAAAAATA-TAAAAACAATTT
39465381 CTTTTTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 6 0.30
25 14 0.70
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (25 bp):
TATTAAAAATATAAAAACAATTTAC
Found at i:39465793 original size:18 final size:18
Alignment explanation
Indices: 39465767--39465810 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
39465757 GACTGAGAAA
* *
39465767 AGGAAACATATAAGGGTT
1 AGGATACATATAAGGGCT
39465785 AGGATACATATAAGGGCT
1 AGGATACATATAAGGGCT
39465803 AGGATACA
1 AGGATACA
39465811 CACCTGGCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.43, C:0.09, G:0.27, T:0.20
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:39467411 original size:25 final size:24
Alignment explanation
Indices: 39467362--39467413 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 24
39467352 ACTATTATAA
* *
39467362 AAAATTATAAAATAAAAATTAATT
1 AAAATTACAAAATAAAAAATAATT
39467386 AAAATTACATAAATAAAAAA-ATATT
1 AAAATTACA-AAATAAAAAATA-ATT
39467411 AAA
1 AAA
39467414 TAATATTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 9 0.38
25 15 0.62
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (24 bp):
AAAATTACAAAATAAAAAATAATT
Found at i:39467432 original size:7 final size:7
Alignment explanation
Indices: 39467418--39467446 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
39467408 ATTAAATAAT
39467418 ATTT-AA
1 ATTTAAA
39467424 ATTTAAA
1 ATTTAAA
39467431 ATTTAAA
1 ATTTAAA
39467438 ATTTAAA
1 ATTTAAA
39467445 AT
1 AT
39467447 AATCTGTTGC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.18
7 18 0.82
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (7 bp):
ATTTAAA
Found at i:39467637 original size:21 final size:21
Alignment explanation
Indices: 39467604--39467647 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
39467594 TATAAAGAGC
*
39467604 TTTGAGAAATTTAATGAGAAA
1 TTTGAGAAATTTAAGGAGAAA
** *
39467625 TTTGAGAGCTTTAGGGAGAAA
1 TTTGAGAAATTTAAGGAGAAA
39467646 TT
1 TT
39467648 GTAGAGATTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.39, C:0.02, G:0.25, T:0.34
Consensus pattern (21 bp):
TTTGAGAAATTTAAGGAGAAA
Found at i:39469423 original size:14 final size:13
Alignment explanation
Indices: 39469404--39469441 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
39469394 ATTTAATGTT
39469404 TAATTATATTAGGA
1 TAATTAT-TTAGGA
*
39469418 TAATTATTAAGGA
1 TAATTATTTAGGA
39469431 TAATTATTTAG
1 TAATTATTTAG
39469442 ATTTAAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 15 0.68
14 7 0.32
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.45
Consensus pattern (13 bp):
TAATTATTTAGGA
Found at i:39469470 original size:10 final size:10
Alignment explanation
Indices: 39469455--39469506 Score: 50
Period size: 10 Copynumber: 5.1 Consensus size: 10
39469445 TAAATTTAGG
39469455 ATTTATTTTT
1 ATTTATTTTT
*
39469465 ATTTATCTTT
1 ATTTATTTTT
* *
39469475 AATTATCTTT
1 ATTTATTTTT
* *
39469485 AATTATTTGT
1 ATTTATTTTT
39469495 ATTTATCTTTT
1 ATTTAT-TTTT
39469506 A
1 A
39469507 GAATTTAATT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
10 31 0.89
11 4 0.11
ACGTcount: A:0.25, C:0.06, G:0.02, T:0.67
Consensus pattern (10 bp):
ATTTATTTTT
Found at i:39469485 original size:20 final size:20
Alignment explanation
Indices: 39469455--39469504 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
39469445 TAAATTTAGG
* *
39469455 ATTTATTTTTATTTATCTT-T
1 ATTTATCTTTAATTAT-TTGT
*
39469475 AATTATCTTTAATTATTTGT
1 ATTTATCTTTAATTATTTGT
39469495 ATTTATCTTT
1 ATTTATCTTT
39469505 TAGAATTTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 2 0.08
20 23 0.92
ACGTcount: A:0.24, C:0.06, G:0.02, T:0.68
Consensus pattern (20 bp):
ATTTATCTTTAATTATTTGT
Found at i:39471430 original size:20 final size:20
Alignment explanation
Indices: 39471366--39471431 Score: 66
Period size: 20 Copynumber: 3.3 Consensus size: 20
39471356 ATGACATACA
39471366 AAAAATTATAAAAAATATTTT
1 AAAAATTATAAAAAATA-TTT
* *
39471387 GAAAAA-T-TAAAAATTA-TC
1 -AAAAATTATAAAAAATATTT
39471405 ATAAAATTATAAAAAATATTT
1 A-AAAATTATAAAAAATATTT
39471426 AAAAAT
1 AAAAAT
39471432 ATTTTTATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
17 1 0.03
18 5 0.14
19 1 0.03
20 21 0.58
21 3 0.08
22 5 0.14
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.33
Consensus pattern (20 bp):
AAAAATTATAAAAAATATTT
Found at i:39471929 original size:15 final size:15
Alignment explanation
Indices: 39471906--39471945 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
39471896 TTTAAAATTT
*
39471906 AAATTTAAATTTGAA
1 AAATATAAATTTGAA
*
39471921 AAATATAAATTTTAA
1 AAATATAAATTTGAA
*
39471936 AAATAAAAAT
1 AAATATAAAT
39471946 AAAAATAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (15 bp):
AAATATAAATTTGAA
Found at i:39471942 original size:6 final size:6
Alignment explanation
Indices: 39471933--39471963 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
39471923 ATATAAATTT
39471933 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA T
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA T
39471964 TTATTTAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
TAAAAA
Found at i:39475445 original size:22 final size:23
Alignment explanation
Indices: 39475415--39475468 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
39475405 GCATATTTAG
*
39475415 TATATATTAATCTA-ATTTTATT
1 TATAAATTAATCTATATTTTATT
*
39475437 TATAAATTAATCTATTTTTTATT
1 TATAAATTAATCTATATTTTATT
39475460 T-TAATATTA
1 TATAA-ATTA
39475469 TACATATATT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 16 0.57
23 12 0.43
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (23 bp):
TATAAATTAATCTATATTTTATT
Found at i:39480630 original size:22 final size:22
Alignment explanation
Indices: 39480605--39480650 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
39480595 TAATAAGATA
* *
39480605 TGTTCCGATATATGTTGAGCTT
1 TGTTACGATATATGTTAAGCTT
* *
39480627 TGTTATGATTTATGTTAAGCTT
1 TGTTACGATATATGTTAAGCTT
39480649 TG
1 TG
39480651 ATATGTAGTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.20, C:0.09, G:0.22, T:0.50
Consensus pattern (22 bp):
TGTTACGATATATGTTAAGCTT
Found at i:39481370 original size:94 final size:94
Alignment explanation
Indices: 39481209--39481393 Score: 280
Period size: 94 Copynumber: 2.0 Consensus size: 94
39481199 GTAAGAGTTC
* ** *
39481209 TGCAAGTTTTATGTTTTTGTAATGCTCAACTAAGTTGCTTAAAACAAGAGTTTTTAAACAAACTA
1 TGCAAGTTTTATGTTTTTCTAACACACAACTAAGTTGCTTAAAACAAGAGTTTTTAAACAAACTA
*
39481274 ATGTAACTCTTCCAAATTTGGCCATATTA
66 ATGTAACTCTTCCAAATTCGGCCATATTA
* * * *
39481303 TGCAAGTTTTATGTTTTTCTAACACACAATTAAGTTGGTTAAAACAAGAGTTTTTAAATAAATTA
1 TGCAAGTTTTATGTTTTTCTAACACACAACTAAGTTGCTTAAAACAAGAGTTTTTAAACAAACTA
*
39481368 ATGTAACTCTTCCAGATTCGGCCATA
66 ATGTAACTCTTCCAAATTCGGCCATA
39481394 ACGTTTAGGC
Statistics
Matches: 81, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
94 81 1.00
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.38
Consensus pattern (94 bp):
TGCAAGTTTTATGTTTTTCTAACACACAACTAAGTTGCTTAAAACAAGAGTTTTTAAACAAACTA
ATGTAACTCTTCCAAATTCGGCCATATTA
Found at i:39485531 original size:21 final size:20
Alignment explanation
Indices: 39485507--39485546 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
39485497 TCATGTTGAT
39485507 TTCGTACTTTGGCCCATTTTC
1 TTCGT-CTTTGGCCCATTTTC
* *
39485528 TTCGTTTTTGGCCCGTTTT
1 TTCGTCTTTGGCCCATTTT
39485547 TTGTTCCTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.05, C:0.25, G:0.17, T:0.53
Consensus pattern (20 bp):
TTCGTCTTTGGCCCATTTTC
Found at i:39494417 original size:19 final size:19
Alignment explanation
Indices: 39494395--39494446 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
39494385 ATATATATTT
39494395 TTTTATAATTTTTAATAAA
1 TTTTATAATTTTTAATAAA
*
39494414 TTTTA-AATTTTATAATAAC
1 TTTTATAATTTT-TAATAAA
*
39494433 TTTTTTGAATTTTT
1 TTTTAT-AATTTTT
39494447 TAAAATTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
18 6 0.21
19 15 0.54
20 1 0.04
21 6 0.21
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (19 bp):
TTTTATAATTTTTAATAAA
Found at i:39496450 original size:32 final size:30
Alignment explanation
Indices: 39496412--39496472 Score: 79
Period size: 32 Copynumber: 2.0 Consensus size: 30
39496402 ATAATATTAA
*
39496412 AATTATAATTAAAA-TAATATAAAGTATAAAAT
1 AATTATAA-TAAAACAAATA-AAAGT-TAAAAT
39496444 AATTATAATAAAACAAATAAAAGTTAAAA
1 AATTATAATAAAACAAATAAAAGTTAAAA
39496473 AGTATAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
30 5 0.19
31 10 0.37
32 12 0.44
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.30
Consensus pattern (30 bp):
AATTATAATAAAACAAATAAAAGTTAAAAT
Found at i:39496481 original size:39 final size:39
Alignment explanation
Indices: 39496432--39496513 Score: 146
Period size: 39 Copynumber: 2.1 Consensus size: 39
39496422 AAAATAATAT
39496432 AAAGTATAAAATAATTATAATAAAACAAATAAAAGTTAA
1 AAAGTATAAAATAATTATAATAAAACAAATAAAAGTTAA
* *
39496471 AAAGTATAAAATAATTATAATAAAACAAATAAAATTTAG
1 AAAGTATAAAATAATTATAATAAAACAAATAAAAGTTAA
39496510 AAAG
1 AAAG
39496514 ATGAATTCAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.66, C:0.02, G:0.06, T:0.26
Consensus pattern (39 bp):
AAAGTATAAAATAATTATAATAAAACAAATAAAAGTTAA
Found at i:39500127 original size:11 final size:11
Alignment explanation
Indices: 39500111--39500171 Score: 54
Period size: 11 Copynumber: 5.5 Consensus size: 11
39500101 CTCAATAACT
39500111 TTAATATTAAA
1 TTAATATTAAA
*
39500122 TTAATATCAATA
1 TTAATATTAA-A
*
39500134 TT-AGATTAAA
1 TTAATATTAAA
39500144 TTTAATATTAAA
1 -TTAATATTAAA
* *
39500156 -TATTATTTAA
1 TTAATATTAAA
39500166 TTAATA
1 TTAATA
39500172 GAATATTATC
Statistics
Matches: 39, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
10 9 0.23
11 20 0.51
12 10 0.26
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.48
Consensus pattern (11 bp):
TTAATATTAAA
Found at i:39500135 original size:17 final size:17
Alignment explanation
Indices: 39500113--39500156 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
39500103 CAATAACTTT
39500113 AATATTAAATT-AATATC
1 AATATTAAATTAAAT-TC
* *
39500130 AATATTAGATTAAATTT
1 AATATTAAATTAAATTC
39500147 AATATTAAAT
1 AATATTAAAT
39500157 ATTATTTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 20 0.87
18 3 0.13
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (17 bp):
AATATTAAATTAAATTC
Found at i:39500165 original size:23 final size:22
Alignment explanation
Indices: 39500116--39500160 Score: 63
Period size: 24 Copynumber: 2.0 Consensus size: 22
39500106 TAACTTTAAT
*
39500116 ATTAAATTAATATCAATATTAG
1 ATTAAATTAATATAAATATTAG
39500138 ATTAAATTTAATATTAAATATTA
1 ATTAAA-TTAATA-TAAATATTA
39500161 TTTAATTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 6 0.30
23 6 0.30
24 8 0.40
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (22 bp):
ATTAAATTAATATAAATATTAG
Found at i:39500241 original size:20 final size:18
Alignment explanation
Indices: 39500194--39500242 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
39500184 CAAGATAAAC
39500194 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
39500211 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
39500231 ATTAAATTAATA
1 ATTAAATTAATA
39500243 AAACACTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 3 0.11
20 15 0.56
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:39501774 original size:21 final size:21
Alignment explanation
Indices: 39501748--39501793 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
39501738 TTTTAGATAT
*
39501748 TTATGTATTT-TTGTTTTTATC
1 TTATGTATTTATT-TATTTATC
39501769 TTATGTATTTATTTATTTATC
1 TTATGTATTTATTTATTTATC
39501790 TTAT
1 TTAT
39501794 TTTAGTTAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 21 0.91
22 2 0.09
ACGTcount: A:0.20, C:0.04, G:0.07, T:0.70
Consensus pattern (21 bp):
TTATGTATTTATTTATTTATC
Found at i:39502577 original size:21 final size:20
Alignment explanation
Indices: 39502559--39502595 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
39502549 ACACGGGCAT
39502559 GTGT-GACCTTCACATGGGC
1 GTGTAGACCTTCACATGGGC
*
39502578 GTGTAGACCTCCACATGG
1 GTGTAGACCTTCACATGG
39502596 CCTGCGCATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.19, C:0.27, G:0.30, T:0.24
Consensus pattern (20 bp):
GTGTAGACCTTCACATGGGC
Found at i:39506094 original size:20 final size:20
Alignment explanation
Indices: 39506071--39506119 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
39506061 GAACCACTCT
*
39506071 ATTTACTTTCTTACCATTCC
1 ATTTACTTACTTACCATTCC
* * *
39506091 ATTTACTTACTTTCTATTTC
1 ATTTACTTACTTACCATTCC
39506111 ATTTACTTA
1 ATTTACTTA
39506120 GCATAAACTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.22, C:0.22, G:0.00, T:0.55
Consensus pattern (20 bp):
ATTTACTTACTTACCATTCC
Found at i:39506990 original size:40 final size:40
Alignment explanation
Indices: 39506776--39506986 Score: 244
Period size: 40 Copynumber: 5.3 Consensus size: 40
39506766 AGATCAACTG
* * *
39506776 AACAAACCAGACAAAAGCTCATAGGAGCTAATCCAACTAA
1 AACACACCAGACAGAAGCTCATAAGAGCTAATCCAACTAA
* * *
39506816 AACACACCAAACAGAAGCTCAAAAGAGCTAATCCAACCAA
1 AACACACCAGACAGAAGCTCATAAGAGCTAATCCAACTAA
* **
39506856 AACACACCATACAGAAGCTCATAAGAGCTAATCCAACCGA
1 AACACACCAGACAGAAGCTCATAAGAGCTAATCCAACTAA
** * *
39506896 AACATGCTAGACAGAATCTCATAAGAGCTAATCCAA-TCAA
1 AACACACCAGACAGAAGCTCATAAGAGCTAATCCAACT-AA
* * * *
39506936 AGCACACTAGATAGAAACTCATAAGAGCTAATCCAACTAA
1 AACACACCAGACAGAAGCTCATAAGAGCTAATCCAACTAA
*
39506976 AACACGCCAGA
1 AACACACCAGA
39506987 TAGAGAGTAT
Statistics
Matches: 145, Mismatches: 24, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
40 144 0.99
41 1 0.01
ACGTcount: A:0.48, C:0.27, G:0.12, T:0.13
Consensus pattern (40 bp):
AACACACCAGACAGAAGCTCATAAGAGCTAATCCAACTAA
Found at i:39510792 original size:18 final size:18
Alignment explanation
Indices: 39510769--39510807 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
39510759 CAACTATTGA
39510769 CTTAGTTAATAATTAGGG
1 CTTAGTTAATAATTAGGG
39510787 CTTAGTTAATAATTAGGG
1 CTTAGTTAATAATTAGGG
39510805 CTT
1 CTT
39510808 CAATTGATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.41
Consensus pattern (18 bp):
CTTAGTTAATAATTAGGG
Found at i:39513563 original size:18 final size:18
Alignment explanation
Indices: 39513534--39513585 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 18
39513524 TTATTATGGC
*
39513534 GAACTGTGTTAATTTGGT
1 GAACTGTATTAATTTGGT
* * *
39513552 TATCTGTATTAATATGGT
1 GAACTGTATTAATTTGGT
*
39513570 GAACTGTACTAATTTG
1 GAACTGTATTAATTTG
39513586 CCAAACTGTG
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.27, C:0.08, G:0.21, T:0.44
Consensus pattern (18 bp):
GAACTGTATTAATTTGGT
Found at i:39513814 original size:22 final size:21
Alignment explanation
Indices: 39513789--39513837 Score: 53
Period size: 22 Copynumber: 2.3 Consensus size: 21
39513779 ATATGAGTAA
*
39513789 TATGTACTGCAAATTGTGATAT
1 TATGTACTACAAATTGTG-TAT
* **
39513811 TATGAACTATGAATTGTGTAT
1 TATGTACTACAAATTGTGTAT
39513832 TATGTA
1 TATGTA
39513838 ATAATGTATG
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.33, C:0.06, G:0.18, T:0.43
Consensus pattern (21 bp):
TATGTACTACAAATTGTGTAT
Found at i:39515888 original size:92 final size:92
Alignment explanation
Indices: 39515731--39515927 Score: 322
Period size: 92 Copynumber: 2.1 Consensus size: 92
39515721 GTATCCTATG
* * *
39515731 TTCATCGGTTCAGGGCATTCTATTACAGAACAATACGTAAATATCTCACTATCTCGTATTCCTTA
1 TTCATCGGTTCAGGGCATTCCATCACAGAACAATACGTAAATATCTCACTATCTCATATTCCTTA
*
39515796 TGCAAGAATTAGTTCAACAACCAAACA
66 TCCAAGAATTAGTTCAACAACCAAACA
* *
39515823 TTCATCGGTTCAGGGCATTCCATCGCAGAACAATATGTAAATATCTCACTATCTCATATTCCTTA
1 TTCATCGGTTCAGGGCATTCCATCACAGAACAATACGTAAATATCTCACTATCTCATATTCCTTA
*
39515888 TCCAAGCATTAGTTCAACAACCAAACA
66 TCCAAGAATTAGTTCAACAACCAAACA
*
39515915 TTCATCGGCTCAG
1 TTCATCGGTTCAG
39515928 AATATCTCAA
Statistics
Matches: 97, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
92 97 1.00
ACGTcount: A:0.33, C:0.25, G:0.12, T:0.30
Consensus pattern (92 bp):
TTCATCGGTTCAGGGCATTCCATCACAGAACAATACGTAAATATCTCACTATCTCATATTCCTTA
TCCAAGAATTAGTTCAACAACCAAACA
Found at i:39517623 original size:17 final size:17
Alignment explanation
Indices: 39517603--39517641 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
39517593 ATGATGTGGT
*
39517603 ATGAATTG-TCATTTTGC
1 ATGAATTGAT-ATTTTAC
39517620 ATGAATTGATATTTTAC
1 ATGAATTGATATTTTAC
39517637 ATGAA
1 ATGAA
39517642 CAACTTACTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 19 0.95
18 1 0.05
ACGTcount: A:0.33, C:0.08, G:0.15, T:0.44
Consensus pattern (17 bp):
ATGAATTGATATTTTAC
Found at i:39526032 original size:12 final size:11
Alignment explanation
Indices: 39526010--39526065 Score: 60
Period size: 12 Copynumber: 5.0 Consensus size: 11
39526000 TTTTAAAATT
*
39526010 TATACATAATA
1 TATAAATAATA
39526021 TAATAAATAATA
1 T-ATAAATAATA
* *
39526033 TA-CAATAAAA
1 TATAAATAATA
39526043 TATAAATAATA
1 TATAAATAATA
39526054 TAATAAATAATA
1 T-ATAAATAATA
39526066 CAAATAAAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
10 8 0.22
11 9 0.24
12 20 0.54
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (11 bp):
TATAAATAATA
Found at i:39526034 original size:21 final size:20
Alignment explanation
Indices: 39526010--39526065 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 20
39526000 TTTTAAAATT
39526010 TATACATAATATAATAAATAA
1 TATACATAA-ATAATAAATAA
39526031 TATACAATAAA-ATATAAATAA
1 TATAC-ATAAATA-ATAAATAA
39526052 TATA-ATAAATAATA
1 TATACATAAATAATA
39526066 CAAATAAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
19 8 0.25
20 2 0.06
21 18 0.56
22 4 0.12
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (20 bp):
TATACATAAATAATAAATAA
Found at i:39526041 original size:14 final size:13
Alignment explanation
Indices: 39526015--39526080 Score: 52
Period size: 12 Copynumber: 5.2 Consensus size: 13
39526005 AAATTTATAC
39526015 ATAATAT-AATAA
1 ATAATATAAATAA
39526027 ATAATATACAAT-A
1 ATAATATA-AATAA
39526040 A-AATATAAATAA
1 ATAATATAAATAA
* *
39526052 TATAATAAATAATAC
1 -ATAATATA-AATAA
39526067 A-AATA-AAATAA
1 ATAATATAAATAA
39526078 ATA
1 ATA
39526081 TTTTTTTACA
Statistics
Matches: 44, Mismatches: 3, Indels: 14
0.72 0.05 0.23
Matches are distributed among these distances:
11 8 0.18
12 16 0.36
13 7 0.16
14 9 0.20
15 4 0.09
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (13 bp):
ATAATATAAATAA
Found at i:39526052 original size:33 final size:32
Alignment explanation
Indices: 39526010--39526076 Score: 107
Period size: 33 Copynumber: 2.1 Consensus size: 32
39526000 TTTTAAAATT
* *
39526010 TATACATAATATAATAAATAATATACAATAAAA
1 TATAAATAATATAATAAATAATACA-AATAAAA
39526043 TATAAATAATATAATAAATAATACAAATAAAA
1 TATAAATAATATAATAAATAATACAAATAAAA
39526075 TA
1 TA
39526077 AATATTTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 9 0.28
33 23 0.72
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (32 bp):
TATAAATAATATAATAAATAATACAAATAAAA
Found at i:39526061 original size:18 final size:18
Alignment explanation
Indices: 39526023--39526081 Score: 57
Period size: 18 Copynumber: 3.1 Consensus size: 18
39526013 ACATAATATA
39526023 ATAAATAATATACAATAAAAT
1 ATAAATAATAT--AAT-AAAT
39526044 ATAAATAATATAATAAAT
1 ATAAATAATATAATAAAT
* *
39526062 AATACA-AATAAAATAAAT
1 -ATAAATAATATAATAAAT
39526080 AT
1 AT
39526082 TTTTTTACAT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
17 2 0.06
18 15 0.43
19 7 0.20
21 11 0.31
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (18 bp):
ATAAATAATATAATAAAT
Found at i:39526137 original size:25 final size:26
Alignment explanation
Indices: 39526109--39526159 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
39526099 AGGTTTAAAG
39526109 TAAAATAAATAA-TATACAAAATATT
1 TAAAATAAATAACTATACAAAATATT
*
39526134 TAAAATAAATAACTTATATAAAATAT
1 TAAAATAAATAAC-TATACAAAATAT
39526160 ATATATATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 12 0.52
27 11 0.48
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (26 bp):
TAAAATAAATAACTATACAAAATATT
Found at i:39526153 original size:29 final size:30
Alignment explanation
Indices: 39526102--39526161 Score: 70
Period size: 29 Copynumber: 2.0 Consensus size: 30
39526092 ATAAATAAGG
*
39526102 TTTAAAGTAAAATAAATAATATACAAA-ATA
1 TTTAAAATAAAATAAATAATATA-AAATATA
* *
39526132 TTTAAAAT-AAATAACTTATATAAAATATA
1 TTTAAAATAAAATAAATAATATAAAATATA
39526161 T
1 T
39526162 ATATATAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
28 3 0.12
29 16 0.62
30 7 0.27
ACGTcount: A:0.60, C:0.03, G:0.02, T:0.35
Consensus pattern (30 bp):
TTTAAAATAAAATAAATAATATAAAATATA
Found at i:39526976 original size:12 final size:11
Alignment explanation
Indices: 39526954--39527009 Score: 60
Period size: 12 Copynumber: 5.0 Consensus size: 11
39526944 TCTCTTACAT
*
39526954 TATACATAATA
1 TATAAATAATA
39526965 TAATAAATAATA
1 T-ATAAATAATA
* *
39526977 TA-CAATAAAA
1 TATAAATAATA
39526987 TATAAATAATA
1 TATAAATAATA
39526998 TAATAAATAATA
1 T-ATAAATAATA
39527010 CAAATAAAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
10 8 0.22
11 9 0.24
12 20 0.54
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (11 bp):
TATAAATAATA
Found at i:39526980 original size:21 final size:20
Alignment explanation
Indices: 39526954--39527009 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 20
39526944 TCTCTTACAT
39526954 TATACATAATATAATAAATAA
1 TATACATAA-ATAATAAATAA
39526975 TATACAATAAA-ATATAAATAA
1 TATAC-ATAAATA-ATAAATAA
39526996 TATA-ATAAATAATA
1 TATACATAAATAATA
39527010 CAAATAAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
19 8 0.25
20 2 0.06
21 18 0.56
22 4 0.12
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (20 bp):
TATACATAAATAATAAATAA
Found at i:39526985 original size:14 final size:13
Alignment explanation
Indices: 39526959--39527024 Score: 52
Period size: 12 Copynumber: 5.2 Consensus size: 13
39526949 TACATTATAC
39526959 ATAATAT-AATAA
1 ATAATATAAATAA
39526971 ATAATATACAAT-A
1 ATAATATA-AATAA
39526984 A-AATATAAATAA
1 ATAATATAAATAA
* *
39526996 TATAATAAATAATAC
1 -ATAATATA-AATAA
39527011 A-AATA-AAATAA
1 ATAATATAAATAA
39527022 ATA
1 ATA
39527025 TTTTTTTACA
Statistics
Matches: 44, Mismatches: 3, Indels: 14
0.72 0.05 0.23
Matches are distributed among these distances:
11 8 0.18
12 16 0.36
13 7 0.16
14 9 0.20
15 4 0.09
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (13 bp):
ATAATATAAATAA
Found at i:39526997 original size:33 final size:32
Alignment explanation
Indices: 39526954--39527020 Score: 107
Period size: 33 Copynumber: 2.1 Consensus size: 32
39526944 TCTCTTACAT
* *
39526954 TATACATAATATAATAAATAATATACAATAAAA
1 TATAAATAATATAATAAATAATACA-AATAAAA
39526987 TATAAATAATATAATAAATAATACAAATAAAA
1 TATAAATAATATAATAAATAATACAAATAAAA
39527019 TA
1 TA
39527021 AATATTTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 9 0.28
33 23 0.72
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (32 bp):
TATAAATAATATAATAAATAATACAAATAAAA
Found at i:39527005 original size:18 final size:18
Alignment explanation
Indices: 39526967--39527025 Score: 57
Period size: 18 Copynumber: 3.1 Consensus size: 18
39526957 ACATAATATA
39526967 ATAAATAATATACAATAAAAT
1 ATAAATAATAT--AAT-AAAT
39526988 ATAAATAATATAATAAAT
1 ATAAATAATATAATAAAT
* *
39527006 AATACA-AATAAAATAAAT
1 -ATAAATAATATAATAAAT
39527024 AT
1 AT
39527026 TTTTTTACAT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
17 2 0.06
18 15 0.43
19 7 0.20
21 11 0.31
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (18 bp):
ATAAATAATATAATAAAT
Found at i:39527081 original size:25 final size:26
Alignment explanation
Indices: 39527053--39527103 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
39527043 AGGTTTAAAG
39527053 TAAAATAAATAA-TATACAAAATATT
1 TAAAATAAATAACTATACAAAATATT
*
39527078 TAAAATAAATAACTTATATAAAATAT
1 TAAAATAAATAAC-TATACAAAATAT
39527104 ATATATAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 12 0.52
27 11 0.48
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (26 bp):
TAAAATAAATAACTATACAAAATATT
Found at i:39527097 original size:29 final size:30
Alignment explanation
Indices: 39527046--39527105 Score: 70
Period size: 29 Copynumber: 2.0 Consensus size: 30
39527036 ATAAATAAGG
*
39527046 TTTAAAGTAAAATAAATAATATACAAA-ATA
1 TTTAAAATAAAATAAATAATATA-AAATATA
* *
39527076 TTTAAAAT-AAATAACTTATATAAAATATA
1 TTTAAAATAAAATAAATAATATAAAATATA
39527105 T
1 T
39527106 ATATAAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
28 3 0.12
29 16 0.62
30 7 0.27
ACGTcount: A:0.60, C:0.03, G:0.02, T:0.35
Consensus pattern (30 bp):
TTTAAAATAAAATAAATAATATAAAATATA
Found at i:39528685 original size:90 final size:90
Alignment explanation
Indices: 39528532--39528949 Score: 578
Period size: 90 Copynumber: 4.7 Consensus size: 90
39528522 TATAACTAAG
* * * * * * **
39528532 GAATGTCAAATCTTCTATCTTCGATCTGCTCCCCATCTAATATAGAGACGTCGAATCCATCATCT
1 GAATGTCAGATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCT
39528597 TCGATCTGCTTCGATGTAAACACAC
66 TCGATCTGCTTCGATGTAAACACAC
* * *
39528622 GAATGTTAGATCTCCTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTCATCT
1 GAATGTCAGATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCT
*
39528687 TTGATCTGCTTCGA--T----ACAC
66 TCGATCTGCTTCGATGTAAACACAC
* * *
39528706 GAATGTCAGATCTGCTATCTACGATCTGCTCCCCGTCTAATACAGAGACGTCAAATTTGTCATCT
1 GAATGTCAGATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCT
* *
39528771 CCGATCTGCTTCGATGTAAATACAC
66 TCGATCTGCTTCGATGTAAACACAC
* * *
39528796 AAATGTCAGATCTGCTATCTTCGATCCGCTCCCCGTCTAATACAGAGACGCCAAATCTATCATCT
1 GAATGTCAGATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCT
* * *
39528861 TCAATCCGCTTCGATGTAAACACAT
66 TCGATCTGCTTCGATGTAAACACAC
*
39528886 GAATGTCAGATCTACTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATC
1 GAATGTCAGATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATC
39528950 GGTGATCTAC
Statistics
Matches: 288, Mismatches: 34, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
84 75 0.26
86 1 0.00
88 1 0.00
90 211 0.73
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.30
Consensus pattern (90 bp):
GAATGTCAGATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCT
TCGATCTGCTTCGATGTAAACACAC
Found at i:39528687 original size:45 final size:45
Alignment explanation
Indices: 39528534--39528949 Score: 224
Period size: 45 Copynumber: 9.4 Consensus size: 45
39528524 TAACTAAGGA
* *
39528534 ATGTCAAATCT-TCTATCTTCGATCTGCTCCCCATCTAATATAGAG
1 ATGTCAAATCTGTC-ATCTTCGATCTGCTCCCCGTCTAATACAGAG
* * ** * * *
39528579 ACGTCGAATCCATCATCTTCGATCTGCT--TCGATGTAA-ACACACG
1 ATGTCAAATCTGTCATCTTCGATCTGCTCCCCG-TCTAATACAGA-G
* * *
39528623 AATGTTAGATCT-CCTATCTTCGATCTGCTCCCCGTCTAATACAGAG
1 -ATGTCAAATCTGTC-ATCTTCGATCTGCTCCCCGTCTAATACAGAG
* * *
39528669 ATGCCAAATCTGTCATCTTTGATCTGCT-----TC-GATACACGA-
1 ATGTCAAATCTGTCATCTTCGATCTGCTCCCCGTCTAATACA-GAG
* *
39528708 ATGTCAGATCTG-CTATCTACGATCTGCTCCCCGTCTAATACAGAG
1 ATGTCAAATCTGTC-ATCTTCGATCTGCTCCCCGTCTAATACAGAG
* * * * * * *
39528753 ACGTCAAATTTGTCATCTCCGATCTGCT--TCGATGTAAATACACAA
1 ATGTCAAATCTGTCATCTTCGATCTGCTCCCCG-TCT-AATACAGAG
* *
39528798 ATGTCAGATCTG-CTATCTTCGATCCGCTCCCCGTCTAATACAGAG
1 ATGTCAAATCTGTC-ATCTTCGATCTGCTCCCCGTCTAATACAGAG
* * * * * * * *
39528843 ACGCCAAATCTATCATCTTCAATCCGCT--TCGATGTAA-ACACATG
1 ATGTCAAATCTGTCATCTTCGATCTGCTCCCCG-TCTAATACAGA-G
* *
39528887 AATGTCAGATCT-ACTATCTTCGATCTGCTCCCCGTCTAATACAGAG
1 -ATGTCAAATCTGTC-ATCTTCGATCTGCTCCCCGTCTAATACAGAG
* *
39528933 ACGCCAAATCTGTCATC
1 ATGTCAAATCTGTCATC
39528950 GGTGATCTAC
Statistics
Matches: 272, Mismatches: 66, Indels: 66
0.67 0.16 0.16
Matches are distributed among these distances:
38 1 0.00
39 27 0.10
40 4 0.01
43 12 0.04
44 19 0.07
45 177 0.65
46 18 0.07
47 14 0.05
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.30
Consensus pattern (45 bp):
ATGTCAAATCTGTCATCTTCGATCTGCTCCCCGTCTAATACAGAG
Found at i:39528829 original size:174 final size:177
Alignment explanation
Indices: 39528532--39528949 Score: 590
Period size: 174 Copynumber: 2.4 Consensus size: 177
39528522 TATAACTAAG
* * * * * **
39528532 GAATGTCAAATCTTCTATCTTCGATCTGCTCCCCATCTAATATAGAGACGTCGAATCCATCATCT
1 GAATGTCAGATCTACTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGTCAAATCTGTCATCT
* * * *
39528597 TCGATCTGCTTCGATGTAAACACACGAATGTTAGATCTCCTATCTTCGATCTGCTCCCCGTCTAA
66 CCGATCTGCTTCGATGTAAACACACAAATGTCAGATCTCCTATCTTCGATCCGCTCCCCGTCTAA
* * ** *
39528662 TACAGAGATGCCAAATCTGTCATCTTTGATCTGCTTCGA-T-ACAC-
131 TACAGAGACGCCAAATCTATCATCTTCAATCCGCTTCGAGTAACACA
* * *
39528706 GAATGTCAGATCTGCTATCTACGATCTGCTCCCCGTCTAATACAGAGACGTCAAATTTGTCATCT
1 GAATGTCAGATCTACTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGTCAAATCTGTCATCT
* *
39528771 CCGATCTGCTTCGATGTAAATACACAAATGTCAGATCTGCTATCTTCGATCCGCTCCCCGTCTAA
66 CCGATCTGCTTCGATGTAAACACACAAATGTCAGATCTCCTATCTTCGATCCGCTCCCCGTCTAA
39528836 TACAGAGACGCCAAATCTATCATCTTCAATCCGCTTCGATGTAAACACA
131 TACAGAGACGCCAAATCTATCATCTTCAATCCGCTTCGA-GT-AACACA
*
39528885 TGAATGTCAGATCTACTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATC
1 -GAATGTCAGATCTACTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGTCAAATCTGTCATC
39528950 GGTGATCTAC
Statistics
Matches: 214, Mismatches: 24, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
174 149 0.70
176 1 0.00
178 4 0.02
180 60 0.28
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.30
Consensus pattern (177 bp):
GAATGTCAGATCTACTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGTCAAATCTGTCATCT
CCGATCTGCTTCGATGTAAACACACAAATGTCAGATCTCCTATCTTCGATCCGCTCCCCGTCTAA
TACAGAGACGCCAAATCTATCATCTTCAATCCGCTTCGAGTAACACA
Found at i:39540521 original size:118 final size:112
Alignment explanation
Indices: 39540301--39540512 Score: 246
Period size: 118 Copynumber: 1.8 Consensus size: 112
39540291 AACTACATGA
* * * * **
39540301 TACATACTTTAACATTTCAATCAAATATAATATAGAAAATGATAAATAATGACATAAATTACATA
1 TACATACATTAACATTTCAATCAAATACAACATAGAAAATAATAAATAACAACATAAATTACATA
* * *
39540366 ATATACATTAACATTTCATGCAGATATAATCATAAATAACATAAAGG
66 ATATACAATAACATTTCATGCAAAAATAATCATAAATAACATAAAGG
* *
39540413 TACATACATTAACATTTC-ATGCAAAATACAACATAGAAAATAATGAATTAACAATATAAATTAC
1 TACATACATTAACATTTCAAT-C-AAATACAACATAGAAAATAAT-AAATAACAACATAAATTAC
*
39540477 ATAATATATATACAATAATATTTCATGCAAAAATAA
63 ---ATA-ATATACAATAACATTTCATGCAAAAATAA
39540513 CTTAAAATAT
Statistics
Matches: 81, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
111 2 0.02
112 18 0.22
113 18 0.22
114 15 0.19
117 3 0.04
118 25 0.31
ACGTcount: A:0.52, C:0.12, G:0.05, T:0.31
Consensus pattern (112 bp):
TACATACATTAACATTTCAATCAAATACAACATAGAAAATAATAAATAACAACATAAATTACATA
ATATACAATAACATTTCATGCAAAAATAATCATAAATAACATAAAGG
Found at i:39540975 original size:12 final size:11
Alignment explanation
Indices: 39540953--39541008 Score: 60
Period size: 12 Copynumber: 5.0 Consensus size: 11
39540943 TTTTTAAAAT
*
39540953 TATACATAATA
1 TATAAATAATA
39540964 TAATAAATAATA
1 T-ATAAATAATA
* *
39540976 TA-CAATAAAA
1 TATAAATAATA
39540986 TATAAATAATA
1 TATAAATAATA
39540997 TAATAAATAATA
1 T-ATAAATAATA
39541009 CAAATAAAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
10 8 0.22
11 9 0.24
12 20 0.54
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (11 bp):
TATAAATAATA
Found at i:39540978 original size:21 final size:20
Alignment explanation
Indices: 39540953--39541008 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 20
39540943 TTTTTAAAAT
39540953 TATACATAATATAATAAATAA
1 TATACATAA-ATAATAAATAA
39540974 TATACAATAAA-ATATAAATAA
1 TATAC-ATAAATA-ATAAATAA
39540995 TATA-ATAAATAATA
1 TATACATAAATAATA
39541009 CAAATAAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
19 8 0.25
20 2 0.06
21 18 0.56
22 4 0.12
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (20 bp):
TATACATAAATAATAAATAA
Found at i:39540984 original size:14 final size:13
Alignment explanation
Indices: 39540958--39541023 Score: 52
Period size: 12 Copynumber: 5.2 Consensus size: 13
39540948 AAAATTATAC
39540958 ATAATAT-AATAA
1 ATAATATAAATAA
39540970 ATAATATACAAT-A
1 ATAATATA-AATAA
39540983 A-AATATAAATAA
1 ATAATATAAATAA
* *
39540995 TATAATAAATAATAC
1 -ATAATATA-AATAA
39541010 A-AATA-AAATAA
1 ATAATATAAATAA
39541021 ATA
1 ATA
39541024 TTTTTTTACA
Statistics
Matches: 44, Mismatches: 3, Indels: 14
0.72 0.05 0.23
Matches are distributed among these distances:
11 8 0.18
12 16 0.36
13 7 0.16
14 9 0.20
15 4 0.09
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (13 bp):
ATAATATAAATAA
Found at i:39540995 original size:33 final size:32
Alignment explanation
Indices: 39540947--39541019 Score: 110
Period size: 33 Copynumber: 2.2 Consensus size: 32
39540937 ACAAATTTTT
* *
39540947 TAAAATTATACATAATATAATAAATAATATACAA
1 TAAAA-TATAAATAATATAATAAATAATACA-AA
39540981 TAAAATATAAATAATATAATAAATAATACAAA
1 TAAAATATAAATAATATAATAAATAATACAAA
39541013 TAAAATA
1 TAAAATA
39541020 AATATTTTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
32 9 0.24
33 23 0.62
34 5 0.14
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (32 bp):
TAAAATATAAATAATATAATAAATAATACAAA
Found at i:39541004 original size:18 final size:18
Alignment explanation
Indices: 39540966--39541024 Score: 57
Period size: 18 Copynumber: 3.1 Consensus size: 18
39540956 ACATAATATA
39540966 ATAAATAATATACAATAAAAT
1 ATAAATAATAT--AAT-AAAT
39540987 ATAAATAATATAATAAAT
1 ATAAATAATATAATAAAT
* *
39541005 AATACA-AATAAAATAAAT
1 -ATAAATAATATAATAAAT
39541023 AT
1 AT
39541025 TTTTTTACAT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
17 2 0.06
18 15 0.43
19 7 0.20
21 11 0.31
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (18 bp):
ATAAATAATATAATAAAT
Found at i:39541080 original size:25 final size:27
Alignment explanation
Indices: 39541052--39541102 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
39541042 AGGTTTAAAG
39541052 TAAAATAAAT-AA-TATACAAAATATT
1 TAAAATAAATAAATTATACAAAATATT
*
39541077 TAAAATAAATAAATTATATAAAATAT
1 TAAAATAAATAAATTATACAAAATAT
39541103 ATATATAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 10 0.43
26 2 0.09
27 11 0.48
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (27 bp):
TAAAATAAATAAATTATACAAAATATT
Found at i:39541081 original size:9 final size:9
Alignment explanation
Indices: 39541062--39541105 Score: 52
Period size: 9 Copynumber: 4.9 Consensus size: 9
39541052 TAAAATAAAT
*
39541062 AATATACAA
1 AATATATAA
*
39541071 AATATTTAA
1 AATATATAA
*
39541080 AATAAATAA
1 AATATATAA
*
39541089 ATTATATAA
1 AATATATAA
39541098 AATATATA
1 AATATATA
39541106 TATAAAAGGA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (9 bp):
AATATATAA
Found at i:39541095 original size:29 final size:30
Alignment explanation
Indices: 39541045--39541104 Score: 79
Period size: 29 Copynumber: 2.0 Consensus size: 30
39541035 ATAAATAAGG
*
39541045 TTTAAAGTAAAATAAATAATATACAAA-ATA
1 TTTAAAATAAAATAAATAATATA-AAATATA
*
39541075 TTTAAAAT-AAATAAATTATATAAAATATA
1 TTTAAAATAAAATAAATAATATAAAATATA
39541104 T
1 T
39541105 ATATAAAAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 3 0.11
29 17 0.63
30 7 0.26
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (30 bp):
TTTAAAATAAAATAAATAATATAAAATATA
Found at i:39545096 original size:118 final size:112
Alignment explanation
Indices: 39544876--39545087 Score: 246
Period size: 118 Copynumber: 1.8 Consensus size: 112
39544866 AACTACATGA
* * * * **
39544876 TACATACTTTAACATTTCAATCAAATATAATATAGAAAATGATAAATAATGACATAAATTACATA
1 TACATACATTAACATTTCAATCAAATACAACATAGAAAATAATAAATAACAACATAAATTACATA
* * *
39544941 ATATACATTAACATTTCATGCAGATATAATCATAAATAACATAAAGG
66 ATATACAATAACATTTCATGCAAAAATAATCATAAATAACATAAAGG
* *
39544988 TACATACATTAACATTTC-ATGCAAAATACAACATAGAAAATAATGAATTAACAATATAAATTAC
1 TACATACATTAACATTTCAAT-C-AAATACAACATAGAAAATAAT-AAATAACAACATAAATTAC
*
39545052 ATAATATATATACAATAATATTTCATGCAAAAATAA
63 ---ATA-ATATACAATAACATTTCATGCAAAAATAA
39545088 CTTAAAATAT
Statistics
Matches: 81, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
111 2 0.02
112 18 0.22
113 18 0.22
114 15 0.19
117 3 0.04
118 25 0.31
ACGTcount: A:0.52, C:0.12, G:0.05, T:0.31
Consensus pattern (112 bp):
TACATACATTAACATTTCAATCAAATACAACATAGAAAATAATAAATAACAACATAAATTACATA
ATATACAATAACATTTCATGCAAAAATAATCATAAATAACATAAAGG
Found at i:39545550 original size:12 final size:11
Alignment explanation
Indices: 39545528--39545583 Score: 60
Period size: 12 Copynumber: 5.0 Consensus size: 11
39545518 TTTTTAAAAT
*
39545528 TATACATAATA
1 TATAAATAATA
39545539 TAATAAATAATA
1 T-ATAAATAATA
* *
39545551 TA-CAATAAAA
1 TATAAATAATA
39545561 TATAAATAATA
1 TATAAATAATA
39545572 TAATAAATAATA
1 T-ATAAATAATA
39545584 CAAATAAAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
10 8 0.22
11 9 0.24
12 20 0.54
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (11 bp):
TATAAATAATA
Found at i:39545553 original size:21 final size:20
Alignment explanation
Indices: 39545528--39545583 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 20
39545518 TTTTTAAAAT
39545528 TATACATAATATAATAAATAA
1 TATACATAA-ATAATAAATAA
39545549 TATACAATAAA-ATATAAATAA
1 TATAC-ATAAATA-ATAAATAA
39545570 TATA-ATAAATAATA
1 TATACATAAATAATA
39545584 CAAATAAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
19 8 0.25
20 2 0.06
21 18 0.56
22 4 0.12
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (20 bp):
TATACATAAATAATAAATAA
Found at i:39545559 original size:14 final size:13
Alignment explanation
Indices: 39545533--39545598 Score: 52
Period size: 12 Copynumber: 5.2 Consensus size: 13
39545523 AAAATTATAC
39545533 ATAATAT-AATAA
1 ATAATATAAATAA
39545545 ATAATATACAAT-A
1 ATAATATA-AATAA
39545558 A-AATATAAATAA
1 ATAATATAAATAA
* *
39545570 TATAATAAATAATAC
1 -ATAATATA-AATAA
39545585 A-AATA-AAATAA
1 ATAATATAAATAA
39545596 ATA
1 ATA
39545599 TTTTTTTACA
Statistics
Matches: 44, Mismatches: 3, Indels: 14
0.72 0.05 0.23
Matches are distributed among these distances:
11 8 0.18
12 16 0.36
13 7 0.16
14 9 0.20
15 4 0.09
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (13 bp):
ATAATATAAATAA
Found at i:39545570 original size:33 final size:32
Alignment explanation
Indices: 39545522--39545594 Score: 110
Period size: 33 Copynumber: 2.2 Consensus size: 32
39545512 ACAAATTTTT
* *
39545522 TAAAATTATACATAATATAATAAATAATATACAA
1 TAAAA-TATAAATAATATAATAAATAATACA-AA
39545556 TAAAATATAAATAATATAATAAATAATACAAA
1 TAAAATATAAATAATATAATAAATAATACAAA
39545588 TAAAATA
1 TAAAATA
39545595 AATATTTTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
32 9 0.24
33 23 0.62
34 5 0.14
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (32 bp):
TAAAATATAAATAATATAATAAATAATACAAA
Found at i:39545579 original size:18 final size:18
Alignment explanation
Indices: 39545541--39545599 Score: 57
Period size: 18 Copynumber: 3.1 Consensus size: 18
39545531 ACATAATATA
39545541 ATAAATAATATACAATAAAAT
1 ATAAATAATAT--AAT-AAAT
39545562 ATAAATAATATAATAAAT
1 ATAAATAATATAATAAAT
* *
39545580 AATACA-AATAAAATAAAT
1 -ATAAATAATATAATAAAT
39545598 AT
1 AT
39545600 TTTTTTACAT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
17 2 0.06
18 15 0.43
19 7 0.20
21 11 0.31
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (18 bp):
ATAAATAATATAATAAAT
Found at i:39545655 original size:25 final size:27
Alignment explanation
Indices: 39545627--39545677 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
39545617 AGGTTTAAAG
39545627 TAAAATAAAT-AA-TATACAAAATATT
1 TAAAATAAATAAATTATACAAAATATT
*
39545652 TAAAATAAATAAATTATATAAAATAT
1 TAAAATAAATAAATTATACAAAATAT
39545678 ATATATAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 10 0.43
26 2 0.09
27 11 0.48
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (27 bp):
TAAAATAAATAAATTATACAAAATATT
Found at i:39545656 original size:9 final size:9
Alignment explanation
Indices: 39545637--39545680 Score: 52
Period size: 9 Copynumber: 4.9 Consensus size: 9
39545627 TAAAATAAAT
*
39545637 AATATACAA
1 AATATATAA
*
39545646 AATATTTAA
1 AATATATAA
*
39545655 AATAAATAA
1 AATATATAA
*
39545664 ATTATATAA
1 AATATATAA
39545673 AATATATA
1 AATATATA
39545681 TATAAAAGGA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (9 bp):
AATATATAA
Found at i:39545670 original size:29 final size:30
Alignment explanation
Indices: 39545620--39545679 Score: 79
Period size: 29 Copynumber: 2.0 Consensus size: 30
39545610 ATAAATAAGG
*
39545620 TTTAAAGTAAAATAAATAATATACAAA-ATA
1 TTTAAAATAAAATAAATAATATA-AAATATA
*
39545650 TTTAAAAT-AAATAAATTATATAAAATATA
1 TTTAAAATAAAATAAATAATATAAAATATA
39545679 T
1 T
39545680 ATATAAAAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 3 0.11
29 17 0.63
30 7 0.26
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (30 bp):
TTTAAAATAAAATAAATAATATAAAATATA
Found at i:39547266 original size:90 final size:90
Alignment explanation
Indices: 39547105--39547522 Score: 535
Period size: 90 Copynumber: 4.7 Consensus size: 90
39547095 TGTAACTCAA
* * * * *
39547105 GAATGTCAAATCTGCTATCTTCGATCTGCTCCCCATCTAATATAGAGACGCCAAATCCGTCATTT
1 GAATGTCAGATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCT
39547170 TCGATCTACTTCGATGTAAACACAC
66 TCGATCTACTTCGATGTAAACACAC
* * * * * *
39547195 GAATGTTAGATCTACTATCTTCGATCTACTCCCTGTCTAATACAGAGACACCAAATCTGTCATAT
1 GAATGTCAGATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCT
* *
39547260 TTGATCTAC-T---T-T-AATACAC
66 TCGATCTACTTCGATGTAAACACAC
* * * * *
39547279 GAATGTCAGATCTGCTATCTACGATCTGCTCCCCGTCTAATATAGAGACGTCAAATTTTTCATCT
1 GAATGTCAGATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCT
* * * *
39547344 CCGATCTGCTTCGATGTAAATATAC
66 TCGATCTACTTCGATGTAAACACAC
* *
39547369 GAATGTCAGATCTGCTATCTGT-GATCCGCTCCCCGTCTAATACAGAGACGCCAAATCTATCATC
1 GAATGTCAGATCTGCTATCT-TCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATC
39547433 TTCGATCTACTTCGATGTAAACACAC
65 TTCGATCTACTTCGATGTAAACACAC
* * *
39547459 GAATGTCAGATCTACTATCTTCGATCTACTCCCTGTCTAATACAGAGACGCCAAATCTGTCATC
1 GAATGTCAGATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATC
39547523 GGTGATCTAT
Statistics
Matches: 278, Mismatches: 42, Indels: 16
0.83 0.12 0.05
Matches are distributed among these distances:
84 66 0.24
85 2 0.01
86 1 0.00
88 1 0.00
89 3 0.01
90 205 0.74
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (90 bp):
GAATGTCAGATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCT
TCGATCTACTTCGATGTAAACACAC
Found at i:39547409 original size:174 final size:178
Alignment explanation
Indices: 39547105--39547522 Score: 531
Period size: 174 Copynumber: 2.4 Consensus size: 178
39547095 TGTAACTCAA
* * *
39547105 GAATGTCAAATCTGCTATCTTCGATCTGCTCCCCATCTAATATAGAGACGCCAAATCCGTCATTT
1 GAATGTCAGATCTGCTATCTTCGATCTGCTCCCCGTCTAATATAGAGACGCCAAATCCGTCATCT
* * * *
39547170 TCGATCTACTTCGATGTAAACACACGAATGTTAGATCTACTATCTTCGATCTACTCCCTGTCTAA
66 CCGATCTACTTCGATGTAAACACACGAATGTCAGATCTACTATCTTCGATCCACTCCCCGTCTAA
* * *
39547235 TACAGAGACACCAAATCTGTCATATTTGATCTAC-T-T-T-AATACAC
131 TACAGAGACACCAAATCTATCATATTCGATCTACTTATGTAAACACAC
* * ***
39547279 GAATGTCAGATCTGCTATCTACGATCTGCTCCCCGTCTAATATAGAGACGTCAAATTTTTCATCT
1 GAATGTCAGATCTGCTATCTTCGATCTGCTCCCCGTCTAATATAGAGACGCCAAATCCGTCATCT
* * * * *
39547344 CCGATCTGCTTCGATGTAAATATACGAATGTCAGATCTGCTATCTGT-GATCCGCTCCCCGTCTA
66 CCGATCTACTTCGATGTAAACACACGAATGTCAGATCTACTATCT-TCGATCCACTCCCCGTCTA
* *
39547408 ATACAGAGACGCCAAATCTATCATCTTCGATCTACTTCGATGTAAACACAC
130 ATACAGAGACACCAAATCTATCATATTCGATCTACTT--ATGTAAACACAC
* * * * *
39547459 GAATGTCAGATCTACTATCTTCGATCTACTCCCTGTCTAATACAGAGACGCCAAATCTGTCATC
1 GAATGTCAGATCTGCTATCTTCGATCTGCTCCCCGTCTAATATAGAGACGCCAAATCCGTCATC
39547523 GGTGATCTAT
Statistics
Matches: 207, Mismatches: 30, Indels: 8
0.84 0.12 0.03
Matches are distributed among these distances:
174 141 0.68
175 2 0.01
178 1 0.00
179 1 0.00
180 62 0.30
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (178 bp):
GAATGTCAGATCTGCTATCTTCGATCTGCTCCCCGTCTAATATAGAGACGCCAAATCCGTCATCT
CCGATCTACTTCGATGTAAACACACGAATGTCAGATCTACTATCTTCGATCCACTCCCCGTCTAA
TACAGAGACACCAAATCTATCATATTCGATCTACTTATGTAAACACAC
Found at i:39551130 original size:12 final size:11
Alignment explanation
Indices: 39551095--39551193 Score: 83
Period size: 12 Copynumber: 8.4 Consensus size: 11
39551085 TATGTTTTTC
39551095 AAAATAAAATAAT
1 AAAAT-AAA-AAT
**
39551108 AAAATTGAAAT
1 AAAATAAAAAT
39551119 GAAAATAAAAAT
1 -AAAATAAAAAT
*
39551131 CAAAAGAAAAAT
1 -AAAATAAAAAT
*
39551143 AAAAATAAAACT
1 -AAAATAAAAAT
39551155 AAAATAAATAA-
1 AAAATAAA-AAT
39551166 AAAATAAAAAT
1 AAAATAAAAAT
39551177 AAGAATAAATAAT
1 AA-AATAAA-AAT
39551190 AAAA
1 AAAA
39551194 AATAGGAAGA
Statistics
Matches: 71, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
10 2 0.03
11 21 0.30
12 38 0.54
13 10 0.14
ACGTcount: A:0.76, C:0.02, G:0.04, T:0.18
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:39551139 original size:17 final size:16
Alignment explanation
Indices: 39551105--39551185 Score: 56
Period size: 17 Copynumber: 4.8 Consensus size: 16
39551095 AAAATAAAAT
* *
39551105 AATAAAATTGAAATGAA
1 AATAAAAAT-AAAAGAA
39551122 AATAAAAATCAAAAGAAA
1 AATAAAAAT-AAAAG-AA
*
39551140 AATAAAAATAAAACTAA
1 AATAAAAATAAAA-GAA
*
39551157 AATAAATAA-AAAATAAA
1 AATAAA-AATAAAA-GAA
*
39551174 AATAAGAATAAA
1 AATAAAAATAAA
39551186 TAATAAAAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
16 2 0.04
17 38 0.72
18 13 0.25
ACGTcount: A:0.75, C:0.02, G:0.05, T:0.17
Consensus pattern (16 bp):
AATAAAAATAAAAGAA
Found at i:39551141 original size:6 final size:6
Alignment explanation
Indices: 39551115--39551194 Score: 83
Period size: 6 Copynumber: 13.5 Consensus size: 6
39551105 AATAAAATTG
* * * *
39551115 AAATGA AAATAA AAATCA AAAGAA AAATAA AAATAA AACT-A AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
* *
39551162 ATA-AA AAATAA AAATAA GAATAA ATAATAA AAA
1 AAATAA AAATAA AAATAA AAATAA A-AATAA AAA
39551195 ATAGGAAGAT
Statistics
Matches: 60, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
5 8 0.13
6 46 0.77
7 6 0.10
ACGTcount: A:0.78, C:0.03, G:0.04, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:39551141 original size:18 final size:17
Alignment explanation
Indices: 39551120--39551185 Score: 71
Period size: 17 Copynumber: 3.8 Consensus size: 17
39551110 AATTGAAATG
*
39551120 AAAATAAAAATCAAAAGA
1 AAAATAAAAAT-AAAACA
*
39551138 AAAATAAAAATAAAACT
1 AAAATAAAAATAAAACA
*
39551155 AAAATAAATAA-AAAATA
1 AAAATAAA-AATAAAACA
*
39551172 AAAATAAGAATAAA
1 AAAATAAAAATAAA
39551186 TAATAAAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
16 2 0.05
17 26 0.63
18 13 0.32
ACGTcount: A:0.79, C:0.03, G:0.03, T:0.15
Consensus pattern (17 bp):
AAAATAAAAATAAAACA
Found at i:39551175 original size:23 final size:22
Alignment explanation
Indices: 39551120--39551193 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 22
39551110 AATTGAAATG
* *
39551120 AAAATAAAAATCAAAAGAAAAATA
1 AAAATAAAAAT-AAAATAAATA-A
*
39551144 AAAATAAAACTAAAATAAATAA
1 AAAATAAAAATAAAATAAATAA
39551166 AAAATAAAAATAAGAATAAATAA
1 AAAATAAAAATAA-AATAAATAA
39551189 TAAAA
1 -AAAA
39551194 AATAGGAAGA
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
22 13 0.30
23 17 0.39
24 14 0.32
ACGTcount: A:0.78, C:0.03, G:0.03, T:0.16
Consensus pattern (22 bp):
AAAATAAAAATAAAATAAATAA
Found at i:39551177 original size:28 final size:26
Alignment explanation
Indices: 39551137--39551197 Score: 88
Period size: 28 Copynumber: 2.3 Consensus size: 26
39551127 AAATCAAAAG
39551137 AAAAATAAAAATAA-AACTAAAATAAATA
1 AAAAATAAAAATAAGAA-T-AAAT-AATA
39551165 AAAAATAAAAATAAGAATAAATAATA
1 AAAAATAAAAATAAGAATAAATAATA
39551191 AAAAATA
1 AAAAATA
39551198 GGAAGATTCA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
26 11 0.34
27 4 0.12
28 15 0.47
29 2 0.06
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.18
Consensus pattern (26 bp):
AAAAATAAAAATAAGAATAAATAATA
Found at i:39552902 original size:25 final size:26
Alignment explanation
Indices: 39552830--39552925 Score: 117
Period size: 26 Copynumber: 3.8 Consensus size: 26
39552820 TTCTTTTAAT
* *
39552830 AACTGGGGCAAAAGCCCTTTTTGATA
1 AACTGGGGCAAAAGCCCTTTTCGGTA
*
39552856 AAATGGGGCAAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAAGCCCTTTTCGGTA
*
39552882 AACTAGGGC-AAAGCCCTTTTCGGTA
1 AACTGGGGCAAAAGCCCTTTTCGGTA
* *
39552907 ATC-GGGGC-ATAGCCCTTTT
1 AACTGGGGCAAAAGCCCTTTT
39552926 GCACTTCTTC
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
24 14 0.23
25 18 0.29
26 30 0.48
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.26
Consensus pattern (26 bp):
AACTGGGGCAAAAGCCCTTTTCGGTA
Found at i:39553097 original size:25 final size:25
Alignment explanation
Indices: 39553060--39553108 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
39553050 ATAATTAAAC
* **
39553060 CCTAGGGGTAAAATGGTCATTTTTA
1 CCTAGGGGCAAAACAGTCATTTTTA
39553085 CCTAGGGGCAAAACAGTCATTTTT
1 CCTAGGGGCAAAACAGTCATTTTT
39553109 CGTATTATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACAGTCATTTTTA
Found at i:39556152 original size:22 final size:23
Alignment explanation
Indices: 39556116--39556158 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
39556106 TTGTCCCTGG
39556116 CACGCCCGTGGTTTT-CTATCCT
1 CACGCCCGTGGTTTTCCTATCCT
* *
39556138 CACGCCTGTGTTTTTCCTATC
1 CACGCCCGTGGTTTTCCTATC
39556159 AAGTTCACCC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.09, C:0.35, G:0.16, T:0.40
Consensus pattern (23 bp):
CACGCCCGTGGTTTTCCTATCCT
Found at i:39566376 original size:22 final size:23
Alignment explanation
Indices: 39566340--39566382 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
39566330 TTGTCCCTGG
39566340 CACGCCCGTGGTTTT-CTATCCT
1 CACGCCCGTGGTTTTCCTATCCT
* *
39566362 CACGCCTGTGTTTTTCCTATC
1 CACGCCCGTGGTTTTCCTATC
39566383 AAGTTCACCC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.09, C:0.35, G:0.16, T:0.40
Consensus pattern (23 bp):
CACGCCCGTGGTTTTCCTATCCT
Found at i:39567722 original size:162 final size:162
Alignment explanation
Indices: 39567455--39567777 Score: 583
Period size: 162 Copynumber: 2.0 Consensus size: 162
39567445 AAGCATCTCT
* * * *
39567455 TCAAGGTTTGGTTTCTCCTCTTGTTGATAAAGTGGCTGTTGAAAACCGTAAGGATTTTGTGGCTT
1 TCAAGGTTCGGTTTCTCATCTTGTTGAGAAAGTGGCTGTTGAAAACCCTAAGGATTTTGTGGCTT
39567520 TTGATTCCCTTGACCACCCCAGGAGAAATTTAGGTGGTTCCTCCAACCTGCATTATAGGTATTAC
66 TTGATTCCCTTGACCACCCCAGGAGAAATTTAGGTGGTTCCTCCAACCTGCATTATAGGTATTAC
39567585 TATATGGGTTATTTTGAGATCGGAAGTTATTC
131 TATATGGGTTATTTTGAGATCGGAAGTTATTC
* * *
39567617 TCAAGGTTCGGTTTCTTATCTTGTTGAGAAGGTGGCTGTTGAAAACCCTGAGGATTTTGTGGCTT
1 TCAAGGTTCGGTTTCTCATCTTGTTGAGAAAGTGGCTGTTGAAAACCCTAAGGATTTTGTGGCTT
39567682 TTGATTCCCTTGACCACCCCAGGAGAAATTTAGGTGGTTCCTCCAACCTGCATTATAGGTATTAC
66 TTGATTCCCTTGACCACCCCAGGAGAAATTTAGGTGGTTCCTCCAACCTGCATTATAGGTATTAC
39567747 TATATGGGTTATTTTGAGATCGGAAGTTATT
131 TATATGGGTTATTTTGAGATCGGAAGTTATT
39567778 GTTACCCATA
Statistics
Matches: 154, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
162 154 1.00
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.37
Consensus pattern (162 bp):
TCAAGGTTCGGTTTCTCATCTTGTTGAGAAAGTGGCTGTTGAAAACCCTAAGGATTTTGTGGCTT
TTGATTCCCTTGACCACCCCAGGAGAAATTTAGGTGGTTCCTCCAACCTGCATTATAGGTATTAC
TATATGGGTTATTTTGAGATCGGAAGTTATTC
Found at i:39573426 original size:25 final size:25
Alignment explanation
Indices: 39573370--39573482 Score: 84
Period size: 25 Copynumber: 4.4 Consensus size: 25
39573360 TATGCCTCTT
* * *
39573370 ATGAGCTTCCCATTATACAGCCCGG
1 ATGAGCTTCCCATTATATAGCTCAG
* *
39573395 ATAAGCTTCCCATTATATAGCTCAC
1 ATGAGCTTCCCATTATATAGCTCAG
** *
39573420 ATGAGCTTCCTGTTATATGGCTCGAG
1 ATGAGCTTCCCATTATATAGCTC-AG
* * * *
39573446 AGAGAGCTTCCCGTT-TATTGCTCAT
1 A-TGAGCTTCCCATTATATAGCTCAG
39573471 ATGAGCATTCCC
1 ATGAGC-TTCCC
39573483 GAATATGAAT
Statistics
Matches: 70, Mismatches: 15, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
24 4 0.06
25 46 0.66
26 9 0.13
27 11 0.16
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.31
Consensus pattern (25 bp):
ATGAGCTTCCCATTATATAGCTCAG
Found at i:39573671 original size:24 final size:26
Alignment explanation
Indices: 39573625--39573672 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
39573615 AATGTATTGT
*
39573625 TATATTAATATATGATGTGGAAAACA
1 TATATTAATATATGATATGGAAAACA
*
39573651 TATATTTATATAT-ATAT-GAAAA
1 TATATTAATATATGATATGGAAAA
39573673 TTGTTACATG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 5 0.25
25 3 0.15
26 12 0.60
ACGTcount: A:0.48, C:0.02, G:0.10, T:0.40
Consensus pattern (26 bp):
TATATTAATATATGATATGGAAAACA
Found at i:39577087 original size:35 final size:35
Alignment explanation
Indices: 39577041--39577110 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
39577031 TCGAGGGTCA
*
39577041 GACATTAGGCATATAAGTTACAATTTGTGTAACTT
1 GACATTAGGCATATAAGTGACAATTTGTGTAACTT
39577076 GACATTAGGCATATAAGTGACAATTTGTGTAACTT
1 GACATTAGGCATATAAGTGACAATTTGTGTAACTT
39577111 CTTTTTCTGG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.34, C:0.11, G:0.19, T:0.36
Consensus pattern (35 bp):
GACATTAGGCATATAAGTGACAATTTGTGTAACTT
Found at i:39586857 original size:26 final size:26
Alignment explanation
Indices: 39586826--39586933 Score: 173
Period size: 26 Copynumber: 4.2 Consensus size: 26
39586816 TGAAATGCCC
39586826 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
39586852 ATCATGGAACATTTACCT-AACCTATT
1 ATCATGGAACATTTACCTAAACC-ATT
* *
39586878 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
39586904 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
39586930 ATCA
1 ATCA
39586934 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
25 4 0.05
26 69 0.91
27 3 0.04
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:39587585 original size:43 final size:43
Alignment explanation
Indices: 39587537--39587618 Score: 164
Period size: 43 Copynumber: 1.9 Consensus size: 43
39587527 CCTAACAACT
39587537 CCCGGTTGTAAGTCATCCAAGACAGGTACTACAAAATCTCGTA
1 CCCGGTTGTAAGTCATCCAAGACAGGTACTACAAAATCTCGTA
39587580 CCCGGTTGTAAGTCATCCAAGACAGGTACTACAAAATCT
1 CCCGGTTGTAAGTCATCCAAGACAGGTACTACAAAATCT
39587619 TGTATAGGGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (43 bp):
CCCGGTTGTAAGTCATCCAAGACAGGTACTACAAAATCTCGTA
Found at i:39590077 original size:67 final size:67
Alignment explanation
Indices: 39589964--39590099 Score: 236
Period size: 67 Copynumber: 2.0 Consensus size: 67
39589954 ATTTGAACCA
* * *
39589964 TTCAAACATGAATTCATTTATATGCCAATTGCACATTTTTCGTTTCTATACACACACGTTTCAAA
1 TTCAAACATGAATTCATTTATATGCCAATTGCACATCTTTCATTTCTATAAACACACGTTTCAAA
39590029 GG
66 GG
*
39590031 TTCAAACATGCATTCATTTATATGCCAATTGCACATCTTTCATTTCTATAAACACACGTTTCAAA
1 TTCAAACATGAATTCATTTATATGCCAATTGCACATCTTTCATTTCTATAAACACACGTTTCAAA
39590096 GG
66 GG
39590098 TT
1 TT
39590100 AGAAAAAGAA
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
67 65 1.00
ACGTcount: A:0.32, C:0.21, G:0.10, T:0.38
Consensus pattern (67 bp):
TTCAAACATGAATTCATTTATATGCCAATTGCACATCTTTCATTTCTATAAACACACGTTTCAAA
GG
Found at i:39590766 original size:36 final size:36
Alignment explanation
Indices: 39590725--39590793 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 36
39590715 TGATGAAAGG
* *
39590725 TGTGCCCTACACTAGTCGAATAAATCGACAATGTTT
1 TGTGCCCGACACTAGTCGAATAAACCGACAATGTTT
* * *
39590761 TGTGCCCGGCGCTAGTCGGATAAACCGACAATG
1 TGTGCCCGACACTAGTCGAATAAACCGACAATG
39590794 AGTTACACCC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 28 1.00
ACGTcount: A:0.28, C:0.25, G:0.23, T:0.25
Consensus pattern (36 bp):
TGTGCCCGACACTAGTCGAATAAACCGACAATGTTT
Found at i:39596578 original size:19 final size:21
Alignment explanation
Indices: 39596556--39596607 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 21
39596546 TAGTTAATTT
39596556 TTCTTTCTTTCTTTTT-C-TT
1 TTCTTTCTTTCTTTTTGCATT
39596575 TTC-TT-TTTCTTTTTGCATT
1 TTCTTTCTTTCTTTTTGCATT
* *
39596594 TTCTATCCTTCTTT
1 TTCTTTCTTTCTTT
39596608 CCCTGTTTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
17 9 0.33
18 3 0.11
19 8 0.30
20 1 0.04
21 6 0.22
ACGTcount: A:0.04, C:0.21, G:0.02, T:0.73
Consensus pattern (21 bp):
TTCTTTCTTTCTTTTTGCATT
Found at i:39596579 original size:11 final size:11
Alignment explanation
Indices: 39596559--39596587 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
39596549 TTAATTTTTC
39596559 TTTC-TTTCTT
1 TTTCTTTTCTT
39596569 TTTCTTTTCTT
1 TTTCTTTTCTT
39596580 TTTCTTTT
1 TTTCTTTT
39596588 TGCATTTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.22
11 14 0.78
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTCTTTTCTT
Found at i:39597320 original size:63 final size:63
Alignment explanation
Indices: 39597157--39597331 Score: 183
Period size: 63 Copynumber: 2.8 Consensus size: 63
39597147 TGTAACCTAT
* * * * *
39597157 TGTTTGTGAATTAGAGTCACACGGGCTACG-GACACGGACGTGTGTCCAAGCCATGTAACTCAC
1 TGTTTGTGAATTAGAGTCACACAGGCCA-GAGACACGGGCGTGTGTCCAGGCCATGTAACACAC
* * * * **
39597220 TGTTTATGAATTAGGGTTACACAAGCCA-AGGACACGGGCGTGTGTCCAGGCTGTGTAACACAC
1 TGTTTGTGAATTAGAGTCACACAGGCCAGA-GACACGGGCGTGTGTCCAGGCCATGTAACACAC
* * **
39597283 TGTTTGTGAATTAGTGTCATACAGGCCAGAGACACGGGTATGTGTCCAG
1 TGTTTGTGAATTAGAGTCACACAGGCCAGAGACACGGGCGTGTGTCCAG
39597332 ACCGTGTGAG
Statistics
Matches: 91, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
63 90 0.99
64 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.25
Consensus pattern (63 bp):
TGTTTGTGAATTAGAGTCACACAGGCCAGAGACACGGGCGTGTGTCCAGGCCATGTAACACAC
Found at i:39598068 original size:22 final size:21
Alignment explanation
Indices: 39598034--39598080 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 21
39598024 GCATCTGATC
*
39598034 CTGATATGTTTTGTATTTGTAT
1 CTGATATGCTTTGTATTT-TAT
*
39598056 CTGATCTGCTTTGTATTTTAT
1 CTGATATGCTTTGTATTTTAT
39598077 CTGA
1 CTGA
39598081 ACTGTTACGC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 7 0.30
22 16 0.70
ACGTcount: A:0.17, C:0.11, G:0.17, T:0.55
Consensus pattern (21 bp):
CTGATATGCTTTGTATTTTAT
Found at i:39601461 original size:2 final size:2
Alignment explanation
Indices: 39601454--39601496 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
39601444 TGATTATCAA
* *
39601454 CT CT CT CT CT CT CT CT CG CT CT CT CT CT AT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
39601496 C
1 C
39601497 ATGGAAGGAG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.02, C:0.49, G:0.02, T:0.47
Consensus pattern (2 bp):
CT
Found at i:39601929 original size:17 final size:18
Alignment explanation
Indices: 39601894--39601931 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
39601884 CCCGGCGCAG
39601894 AGGAACAAAACACGAACA
1 AGGAACAAAACACGAACA
39601912 AGGAAGCAAAA-A-GAACA
1 AGGAA-CAAAACACGAACA
39601929 AGG
1 AGG
39601932 CTAACAGTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 8 0.42
18 6 0.32
19 5 0.26
ACGTcount: A:0.61, C:0.16, G:0.24, T:0.00
Consensus pattern (18 bp):
AGGAACAAAACACGAACA
Found at i:39602364 original size:3 final size:3
Alignment explanation
Indices: 39602356--39602390 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
39602346 TATTTGAAGC
39602356 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
39602391 ACTCATTTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:39614949 original size:19 final size:19
Alignment explanation
Indices: 39614925--39614977 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 19
39614915 ACTAGCGTGC
39614925 AAAATGCATCCTGGTACAA
1 AAAATGCATCCTGGTACAA
* * *
39614944 AAAATGCATACTGGCACAC
1 AAAATGCATCCTGGTACAA
* *
39614963 AAAGTACATCCTGGT
1 AAAATGCATCCTGGT
39614978 GCACGAAGCG
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.40, C:0.23, G:0.17, T:0.21
Consensus pattern (19 bp):
AAAATGCATCCTGGTACAA
Found at i:39615099 original size:77 final size:77
Alignment explanation
Indices: 39614948--39615106 Score: 192
Period size: 77 Copynumber: 2.1 Consensus size: 77
39614938 GTACAAAAAA
* * * *
39614948 TGCATACTGGCACACAAAGTACATCCTGGTGCACGAAGCGCGTATCTGGAACACGATGTGCATCT
1 TGCATACTAGCACACAAAGTACATCCTGGTGCACAAAGCGCATATCTGGAACAAGATGTGCATCT
**
39615013 CAGTGCACGAAG
66 CAGAACACGAAG
* ** * * *
39615025 TGCATACTAGTACACAAAGTGTATCCTGGTGCACAAAGCGTATATCTGGCACAAGATGTGTATCT
1 TGCATACTAGCACACAAAGTACATCCTGGTGCACAAAGCGCATATCTGGAACAAGATGTGCATCT
**
39615090 TGGAACACGAAG
66 CAGAACACGAAG
39615102 TGCAT
1 TGCAT
39615107 TGTGACGGAT
Statistics
Matches: 68, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
77 68 1.00
ACGTcount: A:0.30, C:0.23, G:0.25, T:0.23
Consensus pattern (77 bp):
TGCATACTAGCACACAAAGTACATCCTGGTGCACAAAGCGCATATCTGGAACAAGATGTGCATCT
CAGAACACGAAG
Found at i:39620706 original size:573 final size:573
Alignment explanation
Indices: 39619618--39620769 Score: 2250
Period size: 573 Copynumber: 2.0 Consensus size: 573
39619608 TCAAGATGTC
39619618 CCTTAAAAAGAGCTTACAAGGCCCATATCATGCTTTAATTCAACCACACACATAGGCAAGCATGC
1 CCTTAAAAAGAGCTTACAAGGCCCATATCATGCTTTAATTCAACCACACACATAGGCAAGCATGC
39619683 ACATTCATAAATTGCATCATTTAATTAATAGCATAATCAAGACTATCTACATTAAATGACTTTAT
66 ACATTCATAAATTGCATCATTTAATTAATAGCATAATCAAGACTATCTACATTAAATGACTTTAT
39619748 ACAATAGAGACCTTCATACATGCCAAAGACTTAAAATACTAGACTCATTAAGGATTTTAAGCATA
131 ACAATAGAGACCTTCATACATGCCAAAGACTTAAAATACTAGACTCATTAAGGATTTTAAGCATA
39619813 TAATTATATCCCATAATTATTTTTTTACAATTTTTAATGATTTTTCCAAGTCAGAACAGGGGATC
196 TAATTATATCCCATAATTATTTTTTTACAATTTTTAATGATTTTTCCAAGTCAGAACAGGGGATC
39619878 ACGTAGTCATTCTGAACCAGTCTCTCAAAAACTTAAATATCTCATAATATAGAATTCCTTTGCTT
261 ACGTAGTCATTCTGAACCAGTCTCTCAAAAACTTAAATATCTCATAATATAGAATTCCTTTGCTT
*
39619943 GCTCTGTTTTTGTTATATGAAAATAGACTCATTAAGCTCTAATTTGATATCTCATTAAGTCTCTG
326 GCTCTGTTTCTGTTATATGAAAATAGACTCATTAAGCTCTAATTTGATATCTCATTAAGTCTCTG
39620008 ATTCAATTTCTACTATTTTTGGTAAATTTTTAGATTCACGTCACTGCAACTATCCAGAACAGTTT
391 ATTCAATTTCTACTATTTTTGGTAAATTTTTAGATTCACGTCACTGCAACTATCCAGAACAGTTT
39620073 TATTGTCAATTTTGATCTTTCACACTTCAATTGTATTCATCACTTTCCCATAACAATCTTTCCAA
456 TATTGTCAATTTTGATCTTTCACACTTCAATTGTATTCATCACTTTCCCATAACAATCTTTCCAA
*
39620138 TTTCCAATCACACATCGATCATATTGCTCATAAGTTACACACATATATACTTA
521 TTTCCAATCACACATCGAGCATATTGCTCATAAGTTACACACATATATACTTA
39620191 CCTTAAAAAGAGCTTACAAGGCCCATATCATGCTTTAATTCAACCACACACATAGGCAAGCATGC
1 CCTTAAAAAGAGCTTACAAGGCCCATATCATGCTTTAATTCAACCACACACATAGGCAAGCATGC
39620256 ACATTCATAAATTGCATCATTTAATTAATAGCATAATCAAGACTATCTACATTAAATGACTTTAT
66 ACATTCATAAATTGCATCATTTAATTAATAGCATAATCAAGACTATCTACATTAAATGACTTTAT
39620321 ACAATAGAGACCTTCATACATGCCAAAGACTTAAAATACTAGACTCATTAAGGATTTTAAGCATA
131 ACAATAGAGACCTTCATACATGCCAAAGACTTAAAATACTAGACTCATTAAGGATTTTAAGCATA
39620386 TAATTATATCCCATAATTATTTTTTTACAATTTTTAATGATTTTTCCAAGTCAGAACAGGGGATC
196 TAATTATATCCCATAATTATTTTTTTACAATTTTTAATGATTTTTCCAAGTCAGAACAGGGGATC
39620451 ACGTAGTCATTCTGAACCAGTCTCTCAAAAACTTAAATATCTCATAATATAGAATTCCTTTGCTT
261 ACGTAGTCATTCTGAACCAGTCTCTCAAAAACTTAAATATCTCATAATATAGAATTCCTTTGCTT
*
39620516 GCTCTGTTTCTGTTATATGAAAATAGACTCATTAAGCTCTAATTTGATATCTCATTCAGTCTCTG
326 GCTCTGTTTCTGTTATATGAAAATAGACTCATTAAGCTCTAATTTGATATCTCATTAAGTCTCTG
39620581 ATTCAATTTCTACTATTTTTGGTAAATTTTTAGATTCACGTCACTGCAACTATCCAGAACAGTTT
391 ATTCAATTTCTACTATTTTTGGTAAATTTTTAGATTCACGTCACTGCAACTATCCAGAACAGTTT
39620646 TATTGTCAATTTTGATCTTTCACACTTCAATTGTATTCATCACTTTCCCATAACAATCTTTCCAA
456 TATTGTCAATTTTGATCTTTCACACTTCAATTGTATTCATCACTTTCCCATAACAATCTTTCCAA
* *
39620711 TTTCCAATCACATATCGAGCATATTGCTCATAAGTTACACACGTATATACTTA
521 TTTCCAATCACACATCGAGCATATTGCTCATAAGTTACACACATATATACTTA
39620764 CACTTA
1 C-CTTA
39620770 TCATCACAAA
Statistics
Matches: 573, Mismatches: 5, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
573 569 0.99
574 4 0.01
ACGTcount: A:0.34, C:0.20, G:0.10, T:0.36
Consensus pattern (573 bp):
CCTTAAAAAGAGCTTACAAGGCCCATATCATGCTTTAATTCAACCACACACATAGGCAAGCATGC
ACATTCATAAATTGCATCATTTAATTAATAGCATAATCAAGACTATCTACATTAAATGACTTTAT
ACAATAGAGACCTTCATACATGCCAAAGACTTAAAATACTAGACTCATTAAGGATTTTAAGCATA
TAATTATATCCCATAATTATTTTTTTACAATTTTTAATGATTTTTCCAAGTCAGAACAGGGGATC
ACGTAGTCATTCTGAACCAGTCTCTCAAAAACTTAAATATCTCATAATATAGAATTCCTTTGCTT
GCTCTGTTTCTGTTATATGAAAATAGACTCATTAAGCTCTAATTTGATATCTCATTAAGTCTCTG
ATTCAATTTCTACTATTTTTGGTAAATTTTTAGATTCACGTCACTGCAACTATCCAGAACAGTTT
TATTGTCAATTTTGATCTTTCACACTTCAATTGTATTCATCACTTTCCCATAACAATCTTTCCAA
TTTCCAATCACACATCGAGCATATTGCTCATAAGTTACACACATATATACTTA
Done.