Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 33 of 187
Found at i:9569698 original size:19 final size:18
Alignment explanation
Indices: 9569667--9569704 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
9569657 TGATATTCGA
*
9569667 ATAAGCATGTATATATAT
1 ATAAGCATATATATATAT
9569685 ATAATGCATATATATATAT
1 ATAA-GCATATATATATAT
9569704 A
1 A
9569705 AAAGTTATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.47, C:0.05, G:0.08, T:0.39
Consensus pattern (18 bp):
ATAAGCATATATATATAT
Found at i:9570559 original size:41 final size:41
Alignment explanation
Indices: 9570467--9570571 Score: 147
Period size: 41 Copynumber: 2.6 Consensus size: 41
9570457 TTTCAGACTT
*
9570467 TAAGTCTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTA
1 TAAGTCTAGCAGGCTACGTGCCGGTGATCTGAATCAGGCTA
** *
9570508 TAAACCTAGCAGGCTACGTGCCGGTGATCTGAATCATGCTA
1 TAAGTCTAGCAGGCTACGTGCCGGTGATCTGAATCAGGCTA
* * *
9570549 TAAGTTTAGCAGGTTATGTGCCG
1 TAAGTCTAGCAGGCTACGTGCCG
9570572 TTGAATATGT
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 55 1.00
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.28
Consensus pattern (41 bp):
TAAGTCTAGCAGGCTACGTGCCGGTGATCTGAATCAGGCTA
Found at i:9571979 original size:26 final size:26
Alignment explanation
Indices: 9571950--9572000 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
9571940 CAGTAAGACG
* *
9571950 GGGTAGTTCATTGGGACAATAAACAT
1 GGGTAGTCCATCGGGACAATAAACAT
*
9571976 GGGTAGTCCATCGGGACAGTAAACA
1 GGGTAGTCCATCGGGACAATAAACA
9572001 CGGGGAATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.33, C:0.16, G:0.29, T:0.22
Consensus pattern (26 bp):
GGGTAGTCCATCGGGACAATAAACAT
Found at i:9573270 original size:62 final size:63
Alignment explanation
Indices: 9573171--9573376 Score: 198
Period size: 62 Copynumber: 3.3 Consensus size: 63
9573161 TAATATTATT
* * * *
9573171 TTAATAGATTTAATATTAAATTTAATTTGATACTTATCTTGATAGTATTTTATTAATTTAATA
1 TTAATAGATTTAATATTTAATTTAATTTAATATTTATCTTGATAGTATTATATTAATTTAATA
* * *
9573234 TTAATGCGA-TT-AT-TTTAATTTTAATTTAATATTTATCTTG-TAG-ATAAATATT-CTATTAA
1 TTAAT-AGATTTAATATTTAA-TTTAATTTAATATTTATCTTGATAGTAT-TATATTAAT-TTAA
9573293 T-
62 TA
**
9573294 TTAATAGATTTAATATTTAA-TTAAACTAATATTTATCTTGATAAGTATTATATTAATTTAATA
1 TTAATAGATTTAATATTTAATTTAATTTAATATTTATCTTGAT-AGTATTATATTAATTTAATA
*
9573357 TTAAATTGA-TTAA-ATTTAAT
1 TT-AATAGATTTAATATTTAAT
9573377 CATAGTTGAA
Statistics
Matches: 116, Mismatches: 13, Indels: 28
0.74 0.08 0.18
Matches are distributed among these distances:
59 2 0.02
60 28 0.24
61 19 0.16
62 44 0.38
63 16 0.14
64 7 0.06
ACGTcount: A:0.39, C:0.03, G:0.06, T:0.51
Consensus pattern (63 bp):
TTAATAGATTTAATATTTAATTTAATTTAATATTTATCTTGATAGTATTATATTAATTTAATA
Found at i:9579820 original size:21 final size:21
Alignment explanation
Indices: 9579779--9579821 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
9579769 ACTCCAAATT
* *
9579779 CTCAAACCTTTTTACTTTTCC
1 CTCAAAACTTTTTACTCTTCC
9579800 CTCAAAAC-TTTTACTCCTTCC
1 CTCAAAACTTTTTACT-CTTCC
9579821 C
1 C
9579822 ACTTTCCCCC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.21, C:0.37, G:0.00, T:0.42
Consensus pattern (21 bp):
CTCAAAACTTTTTACTCTTCC
Found at i:9580141 original size:20 final size:19
Alignment explanation
Indices: 9580102--9580149 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
9580092 ACTTTCCCTC
9580102 AAACTTTTA--TT-CCCCA
1 AAACTTTTATTTTCCCCCA
*
9580118 AAACTTTTTATTTTCCCCCT
1 AAAC-TTTTATTTTCCCCCA
9580138 AAACTTTTATTT
1 AAACTTTTATTT
9580150 CTCACCATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
16 4 0.15
17 5 0.19
19 10 0.37
20 8 0.30
ACGTcount: A:0.27, C:0.25, G:0.00, T:0.48
Consensus pattern (19 bp):
AAACTTTTATTTTCCCCCA
Found at i:9581330 original size:32 final size:32
Alignment explanation
Indices: 9581260--9581337 Score: 84
Period size: 32 Copynumber: 2.4 Consensus size: 32
9581250 CATGCATGTG
* * *
9581260 CGTAACTTTTCATCTTCAAGGCTCTTCGCATT
1 CGTAACTCTTCATATTCAAGGCTCTTCACATT
** * *
9581292 ATTAACTCTTCTTATTCAAGTCTCTTCACATT
1 CGTAACTCTTCATATTCAAGGCTCTTCACATT
*
9581324 CGTAACTTTTCATA
1 CGTAACTCTTCATA
9581338 ATTTATTTTG
Statistics
Matches: 35, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.23, C:0.26, G:0.08, T:0.44
Consensus pattern (32 bp):
CGTAACTCTTCATATTCAAGGCTCTTCACATT
Found at i:9585800 original size:32 final size:32
Alignment explanation
Indices: 9585758--9585835 Score: 102
Period size: 32 Copynumber: 2.4 Consensus size: 32
9585748 TGCATGTGTG
* * *
9585758 TAACTTTTCATCTTCAAGTCTCTTCGCATTAT
1 TAACTCTTCATATTCAAGTCTCTTCACATTAT
**
9585790 TAACTCTTCATATTCAAGTCTCTTCACATTCG
1 TAACTCTTCATATTCAAGTCTCTTCACATTAT
*
9585822 TAACTTTTCATATT
1 TAACTCTTCATATT
9585836 TTATTTTGTG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.24, C:0.24, G:0.05, T:0.46
Consensus pattern (32 bp):
TAACTCTTCATATTCAAGTCTCTTCACATTAT
Found at i:9597871 original size:15 final size:15
Alignment explanation
Indices: 9597851--9597880 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
9597841 AGACTCTTTA
*
9597851 TTACAAAAGGAAAGT
1 TTACAAAAGAAAAGT
9597866 TTACAAAAGAAAAGT
1 TTACAAAAGAAAAGT
9597881 AAGAAGGAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.17, T:0.20
Consensus pattern (15 bp):
TTACAAAAGAAAAGT
Found at i:9597941 original size:24 final size:24
Alignment explanation
Indices: 9597914--9597959 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
9597904 TACAAGATTT
*
9597914 TATTATTTGGAAATTCTAAGATCC
1 TATTATTTCGAAATTCTAAGATCC
**
9597938 TATTATTTCGTCATTCTAAGAT
1 TATTATTTCGAAATTCTAAGAT
9597960 ACTTTACAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.30, C:0.13, G:0.11, T:0.46
Consensus pattern (24 bp):
TATTATTTCGAAATTCTAAGATCC
Found at i:9600010 original size:22 final size:22
Alignment explanation
Indices: 9599963--9600007 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
9599953 ATGCAATCTT
*
9599963 AGATATGATATGCAATCTTAGA
1 AGATATGATATGCAATATTAGA
* *
9599985 AGATATGATTTTGTAATATTAGA
1 AGATATGA-TATGCAATATTAGA
9600008 GATTTAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.40, C:0.04, G:0.18, T:0.38
Consensus pattern (22 bp):
AGATATGATATGCAATATTAGA
Found at i:9603400 original size:111 final size:111
Alignment explanation
Indices: 9603217--9603442 Score: 452
Period size: 111 Copynumber: 2.0 Consensus size: 111
9603207 TCGGAGATCT
9603217 ATCTTCGAGAACACTGTAGCAGTTTTCAACTGATCAAACAAATAATCAATAAAAGGCAACAAATA
1 ATCTTCGAGAACACTGTAGCAGTTTTCAACTGATCAAACAAATAATCAATAAAAGGCAACAAATA
9603282 TTTATTCTTTATCGTGAATTATTCAACTGCTGATAATCTATATATA
66 TTTATTCTTTATCGTGAATTATTCAACTGCTGATAATCTATATATA
9603328 ATCTTCGAGAACACTGTAGCAGTTTTCAACTGATCAAACAAATAATCAATAAAAGGCAACAAATA
1 ATCTTCGAGAACACTGTAGCAGTTTTCAACTGATCAAACAAATAATCAATAAAAGGCAACAAATA
9603393 TTTATTCTTTATCGTGAATTATTCAACTGCTGATAATCTATATATA
66 TTTATTCTTTATCGTGAATTATTCAACTGCTGATAATCTATATATA
9603439 ATCT
1 ATCT
9603443 CATCAACTCG
Statistics
Matches: 115, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
111 115 1.00
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.34
Consensus pattern (111 bp):
ATCTTCGAGAACACTGTAGCAGTTTTCAACTGATCAAACAAATAATCAATAAAAGGCAACAAATA
TTTATTCTTTATCGTGAATTATTCAACTGCTGATAATCTATATATA
Found at i:9606910 original size:20 final size:20
Alignment explanation
Indices: 9606832--9606930 Score: 74
Period size: 20 Copynumber: 5.0 Consensus size: 20
9606822 GCTTGTACGG
9606832 GTTTGCACTTCGGTGCCTCT
1 GTTTGCACTTCGGTGCCTCT
* *** *
9606852 ATTCATACTTCAGTGCCTCT
1 GTTTGCACTTCGGTGCCTCT
* * * * *
9606872 -ATTGTATTTTGGTGTCTCT
1 GTTTGCACTTCGGTGCCTCT
9606891 GTTTGCACTTCGGTGCCTCT
1 GTTTGCACTTCGGTGCCTCT
* * *
9606911 GTCTGCACTTTGGTGTCTCT
1 GTTTGCACTTCGGTGCCTCT
9606931 ATTACACATC
Statistics
Matches: 58, Mismatches: 20, Indels: 2
0.73 0.25 0.03
Matches are distributed among these distances:
19 12 0.21
20 46 0.79
ACGTcount: A:0.09, C:0.25, G:0.21, T:0.44
Consensus pattern (20 bp):
GTTTGCACTTCGGTGCCTCT
Found at i:9608723 original size:9 final size:9
Alignment explanation
Indices: 9608709--9608757 Score: 80
Period size: 9 Copynumber: 5.4 Consensus size: 9
9608699 TTTGGTTAAA
9608709 AATTAACCG
1 AATTAACCG
9608718 AATTAACCG
1 AATTAACCG
* *
9608727 GATTACCCG
1 AATTAACCG
9608736 AATTAACCG
1 AATTAACCG
9608745 AATTAACCG
1 AATTAACCG
9608754 AATT
1 AATT
9608758 GAATCACTAC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 36 1.00
ACGTcount: A:0.41, C:0.22, G:0.12, T:0.24
Consensus pattern (9 bp):
AATTAACCG
Found at i:9619322 original size:19 final size:19
Alignment explanation
Indices: 9619277--9619316 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
9619267 AGTTCATGTT
* *
9619277 TTCATTTCACATTTTCATA
1 TTCAATTCACATTTTCAAA
9619296 TTCAATTCACATTTTCAAA
1 TTCAATTCACATTTTCAAA
9619315 TT
1 TT
9619317 ATATTCCACA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.30, C:0.20, G:0.00, T:0.50
Consensus pattern (19 bp):
TTCAATTCACATTTTCAAA
Found at i:9619625 original size:45 final size:45
Alignment explanation
Indices: 9619505--9619675 Score: 249
Period size: 45 Copynumber: 3.9 Consensus size: 45
9619495 AACGATAGCA
* * *
9619505 GTAAAAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATCT
1 GTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCG
* *
9619550 GTAACAGT-ACGGTAACAGTGTTCGACACACAAAGTGCCGAATCG
1 GTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCG
*
9619594 GTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATTG
1 GTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCG
* *
9619639 GTAACAGTAACAGTAACAGT-GTCGGCACAC-AAGTGCC
1 GTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCC
9619676 TGATCAGTAA
Statistics
Matches: 115, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
43 7 0.06
44 48 0.42
45 60 0.52
ACGTcount: A:0.39, C:0.22, G:0.21, T:0.19
Consensus pattern (45 bp):
GTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCG
Found at i:9619668 original size:89 final size:88
Alignment explanation
Indices: 9619505--9619675 Score: 265
Period size: 89 Copynumber: 1.9 Consensus size: 88
9619495 AACGATAGCA
*
9619505 GTAAAAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATCTGTAACAGTACGGTAACAGTG
1 GTAAAAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATCTGTAACAGTACAGTAACAGTG
9619570 TTCGACACACAAAGTGCCGAATCG
66 TTCGACACAC-AAGTGCCGAATCG
* *
9619594 GTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAAT-TGGTAACAGTAACAGTAACAG
1 GTAAAAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATCT-GTAACAGT-ACAGTAACAG
*
9619658 TG-TCGGCACACAAGTGCC
64 TGTTCGACACACAAGTGCC
9619676 TGATCAGTAA
Statistics
Matches: 76, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
88 8 0.11
89 57 0.75
90 11 0.14
ACGTcount: A:0.39, C:0.22, G:0.21, T:0.19
Consensus pattern (88 bp):
GTAAAAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATCTGTAACAGTACAGTAACAGTG
TTCGACACACAAGTGCCGAATCG
Found at i:9619904 original size:40 final size:40
Alignment explanation
Indices: 9619858--9619944 Score: 106
Period size: 40 Copynumber: 2.2 Consensus size: 40
9619848 AATTCATTAC
* * *
9619858 TTCAGTAATTTCACAGTTCAA-TGCAGTA-TACATAACAATA
1 TTCAGTAACTTCACAATTCAACT-CAGTACT-CAAAACAATA
*
9619898 TTCAGTAACTTCACAATTTAACTCAGTACTCAAAACAATA
1 TTCAGTAACTTCACAATTCAACTCAGTACTCAAAACAATA
9619938 TTCAGTA
1 TTCAGTA
9619945 TTCCATAATT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
40 39 0.95
41 2 0.05
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (40 bp):
TTCAGTAACTTCACAATTCAACTCAGTACTCAAAACAATA
Found at i:9622280 original size:25 final size:25
Alignment explanation
Indices: 9622246--9622294 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
9622236 ATACACATTG
9622246 GTACCAGCTGATACACCATATTTTT
1 GTACCAGCTGATACACCATATTTTT
9622271 GTACCAGCTGATACACCATATTTT
1 GTACCAGCTGATACACCATATTTT
9622295 GTCTGGTACC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.35
Consensus pattern (25 bp):
GTACCAGCTGATACACCATATTTTT
Found at i:9624886 original size:18 final size:18
Alignment explanation
Indices: 9624863--9624912 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 18
9624853 ATATATAAAA
*
9624863 AAATTCATAAAAAAATAT
1 AAATTCATAAAAAAACAT
9624881 AAATTC-TGGAAAAAAACAT
1 AAATTCAT--AAAAAAACAT
9624900 AAA-TCATAAAAAA
1 AAATTCATAAAAAA
9624913 TTTACAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
17 7 0.25
18 8 0.29
19 13 0.46
ACGTcount: A:0.66, C:0.08, G:0.04, T:0.22
Consensus pattern (18 bp):
AAATTCATAAAAAAACAT
Found at i:9624990 original size:18 final size:18
Alignment explanation
Indices: 9624964--9625000 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
9624954 TAATAATCTT
9624964 ATTACAAAAATTGTAAAA
1 ATTACAAAAATTGTAAAA
*
9624982 ATTATAAAAATTGTAAAA
1 ATTACAAAAATTGTAAAA
9625000 A
1 A
9625001 AAATATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (18 bp):
ATTACAAAAATTGTAAAA
Found at i:9624999 original size:8 final size:9
Alignment explanation
Indices: 9624969--9625000 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
9624959 ATCTTATTAC
9624969 AAAAATTGT
1 AAAAATTGT
*
9624978 AAAAATTAT
1 AAAAATTGT
9624987 AAAAATTGT
1 AAAAATTGT
9624996 AAAAA
1 AAAAA
9625001 AAATATTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (9 bp):
AAAAATTGT
Found at i:9631894 original size:37 final size:37
Alignment explanation
Indices: 9631827--9631954 Score: 125
Period size: 37 Copynumber: 3.4 Consensus size: 37
9631817 TGAGCTTTAT
* * * *
9631827 TTCAGTATATCTA-TAGATTTTACTCGTTTGAGCTCCA
1 TTCAGTATAAC-AGTAGAATTTGCTCGTTTGAGCTACA
* *
9631864 TTCAGTATAACAGTAGAATTTGCTCATTTGAGCTTCA
1 TTCAGTATAACAGTAGAATTTGCTCGTTTGAGCTACA
* * *
9631901 CTCAGTATAACAGT-GAAATTTGCTTGTTTGAGCTACT
1 TTCAGTATAACAGTAG-AATTTGCTCGTTTGAGCTACA
*
9631938 TTCAGTAGAACCAGTAG
1 TTCAGTATAA-CAGTAG
9631955 GTATGGCTCG
Statistics
Matches: 75, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
36 2 0.03
37 68 0.91
38 4 0.05
39 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (37 bp):
TTCAGTATAACAGTAGAATTTGCTCGTTTGAGCTACA
Found at i:9642574 original size:20 final size:21
Alignment explanation
Indices: 9642530--9642576 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
9642520 ACTTAAAAAT
9642530 TAATTTCCAAAAATATCATAG
1 TAATTTCCAAAAATATCATAG
9642551 TAATTTCCAAAAATATCATA-
1 TAATTTCCAAAAATATCATAG
9642571 TAATTT
1 TAATTT
9642577 TAATTAATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 6 0.23
21 20 0.77
ACGTcount: A:0.47, C:0.13, G:0.02, T:0.38
Consensus pattern (21 bp):
TAATTTCCAAAAATATCATAG
Found at i:9643777 original size:15 final size:15
Alignment explanation
Indices: 9643753--9643784 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
9643743 ATGCATACAA
*
9643753 AAATATAAAAGACAT
1 AAATACAAAAGACAT
9643768 AAATACAAAAGACAT
1 AAATACAAAAGACAT
9643783 AA
1 AA
9643785 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.09, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:9648131 original size:21 final size:22
Alignment explanation
Indices: 9648101--9648145 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
9648091 GAGCAAATTG
9648101 TTGATTCTATTTCCTTTTTG-AT
1 TTGATTCTA-TTCCTTTTTGTAT
*
9648123 TTGA-TCTATTCTTTTTTGTAT
1 TTGATTCTATTCCTTTTTGTAT
9648144 TT
1 TT
9648146 CTCTTTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 9 0.43
21 8 0.38
22 4 0.19
ACGTcount: A:0.13, C:0.11, G:0.09, T:0.67
Consensus pattern (22 bp):
TTGATTCTATTCCTTTTTGTAT
Found at i:9652597 original size:13 final size:13
Alignment explanation
Indices: 9652561--9652599 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 13
9652551 GATATATTTG
*
9652561 TAATTTGAAAGCT
1 TAATTTGAAAACT
9652574 TAAGTTTTGAAAACT
1 TAA--TTTGAAAACT
9652589 TAATTTGAAAA
1 TAATTTGAAAA
9652600 TTTGAAAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
13 11 0.48
15 12 0.52
ACGTcount: A:0.44, C:0.05, G:0.13, T:0.38
Consensus pattern (13 bp):
TAATTTGAAAACT
Found at i:9652939 original size:34 final size:34
Alignment explanation
Indices: 9652857--9653056 Score: 231
Period size: 35 Copynumber: 5.8 Consensus size: 34
9652847 TCACTTGTCT
* *
9652857 TTTCTTGCAGGGAATATTTCCTGTTCA-AGCATTA
1 TTTCTTGCAGGGAATCTCTCCTGTTCACA-CATTA
* * *
9652891 TTTTGTTGCAGGGAATCTCTCATGTTCACACATCA
1 -TTTCTTGCAGGGAATCTCTCCTGTTCACACATTA
* *
9652926 TTTCTTGCAGGGAATCTCTCATGTTCACGCATTA
1 TTTCTTGCAGGGAATCTCTCCTGTTCACACATTA
* **
9652960 TTTTATTGCAGGGAATCTCTCCTGTTCACACACCA
1 -TTTCTTGCAGGGAATCTCTCCTGTTCACACATTA
* *
9652995 TTTCCTGCAGGGAATCTCTCCTGTTCACGCATTA
1 TTTCTTGCAGGGAATCTCTCCTGTTCACACATTA
* *
9653029 TGTTGTTGTAGGGAATCTCTCCTGTTCA
1 T-TTCTTGCAGGGAATCTCTCCTGTTCA
9653057 TGTATCATTT
Statistics
Matches: 141, Mismatches: 21, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
34 61 0.43
35 79 0.56
36 1 0.01
ACGTcount: A:0.20, C:0.23, G:0.18, T:0.38
Consensus pattern (34 bp):
TTTCTTGCAGGGAATCTCTCCTGTTCACACATTA
Found at i:9653067 original size:69 final size:69
Alignment explanation
Indices: 9652857--9653056 Score: 310
Period size: 69 Copynumber: 2.9 Consensus size: 69
9652847 TCACTTGTCT
* * * *
9652857 TTTCTTGCAGGGAATATTTCCTGTTCAAGCATTATTTTGTTGCAGGGAATCTCTCATGTTCACAC
1 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACAC
9652922 ATCA
66 ATCA
* *
9652926 TTTCTTGCAGGGAATCTCTCATGTTCACGCATTATTTTATTGCAGGGAATCTCTCCTGTTCACAC
1 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACAC
*
9652991 ACCA
66 ATCA
* * *
9652995 TTTCCTGCAGGGAATCTCTCCTGTTCACGCATTATGTTGTTGTAGGGAATCTCTCCTGTTCA
1 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCA
9653057 TGTATCATTT
Statistics
Matches: 119, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
69 119 1.00
ACGTcount: A:0.20, C:0.23, G:0.18, T:0.38
Consensus pattern (69 bp):
TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACAC
ATCA
Found at i:9656850 original size:14 final size:14
Alignment explanation
Indices: 9656831--9656860 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
9656821 CCTAATAAAG
9656831 GGTTCAGGGTTCAA
1 GGTTCAGGGTTCAA
*
9656845 GGTTCAGGGTTTAA
1 GGTTCAGGGTTCAA
9656859 GG
1 GG
9656861 CTTTTTTACC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.20, C:0.10, G:0.40, T:0.30
Consensus pattern (14 bp):
GGTTCAGGGTTCAA
Found at i:9657877 original size:14 final size:14
Alignment explanation
Indices: 9657858--9657887 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
9657848 AAATAATTTC
9657858 TTGAATTATTGAGT
1 TTGAATTATTGAGT
9657872 TTGAATTATTGAGT
1 TTGAATTATTGAGT
9657886 TT
1 TT
9657888 TCATAGGAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.27, C:0.00, G:0.20, T:0.53
Consensus pattern (14 bp):
TTGAATTATTGAGT
Found at i:9658007 original size:25 final size:24
Alignment explanation
Indices: 9657962--9658014 Score: 61
Period size: 25 Copynumber: 2.2 Consensus size: 24
9657952 GTAAAAACCA
** *
9657962 TTTTATCTTTTAATTTCTTTTATT
1 TTTTATCTTTTAATTAATTTTAAT
*
9657986 TTTTATTTTTTGAATTAATTTTAAT
1 TTTTATCTTTT-AATTAATTTTAAT
9658011 TTTT
1 TTTT
9658015 CTGTAGTAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 10 0.42
25 14 0.58
ACGTcount: A:0.21, C:0.04, G:0.02, T:0.74
Consensus pattern (24 bp):
TTTTATCTTTTAATTAATTTTAAT
Found at i:9662515 original size:15 final size:16
Alignment explanation
Indices: 9662477--9662515 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
9662467 ATATATTTAA
*
9662477 ATAATATTCAAATTAT
1 ATAATATTTAAATTAT
9662493 ATAA-ATTTAAATTAT
1 ATAATATTTAAATTAT
9662508 A-AATATTT
1 ATAATATTT
9662516 TATTAAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 2 0.10
15 15 0.71
16 4 0.19
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (16 bp):
ATAATATTTAAATTAT
Found at i:9662525 original size:16 final size:18
Alignment explanation
Indices: 9662506--9662545 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
9662496 AATTTAAATT
9662506 ATAAATAT-TTTA-TTAA
1 ATAAATATATTTACTTAA
9662522 ATAAATATAATTTACTTAA
1 ATAAATAT-ATTTACTTAA
9662541 ATAAA
1 ATAAA
9662546 GCATCTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 8 0.38
18 4 0.19
19 9 0.43
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (18 bp):
ATAAATATATTTACTTAA
Found at i:9663261 original size:13 final size:14
Alignment explanation
Indices: 9663224--9663253 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
9663214 ACAACGCAAA
9663224 TACAATAAAATTAC
1 TACAATAAAATTAC
9663238 TACAATAAAATTAC
1 TACAATAAAATTAC
9663252 TA
1 TA
9663254 AGTAAAATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.57, C:0.13, G:0.00, T:0.30
Consensus pattern (14 bp):
TACAATAAAATTAC
Found at i:9670683 original size:2 final size:2
Alignment explanation
Indices: 9670676--9670702 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
9670666 GCAAAACAAT
9670676 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
9670703 ATATATATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:9676400 original size:23 final size:22
Alignment explanation
Indices: 9676357--9676400 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
9676347 TTCTAAGTCG
9676357 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
9676380 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
9676401 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:9676557 original size:51 final size:50
Alignment explanation
Indices: 9676499--9676685 Score: 207
Period size: 51 Copynumber: 3.7 Consensus size: 50
9676489 TCAGTTTACA
* * * *
9676499 TAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATCTGATACATG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCA-TACCATCCGGTACACG
** * * * *
9676550 TAGTAGCCTAAACATAGTACTACACACGTGATCGA-AGCTATCCGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATA-CCATCCGGTACACG
* * *
9676601 TAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTCCGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATACCA-TCCGGTACACG
9676651 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
9676686 CACTTTCACT
Statistics
Matches: 110, Mismatches: 21, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
49 1 0.01
50 43 0.39
51 64 0.58
52 2 0.02
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATACCATCCGGTACACG
Found at i:9676681 original size:101 final size:101
Alignment explanation
Indices: 9676497--9676681 Score: 282
Period size: 101 Copynumber: 1.8 Consensus size: 101
9676487 GTTCAGTTTA
* * *
9676497 CATAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATCTGATACATGTAGTAGCCTAAA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCA-TACCATCCGATACACGTAGTAGCCTAAA
9676562 CATAGTACTACACACGTGATCGAAGCTATCCGGTACG
65 CATAGTACTACACACGTGATCGAAGCTATCCGGTACG
* * **
9676599 CATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTCCGGTACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCATACCA-TCCGATACACGTAGTAGCCTAAA
9676663 CATAGTACTACACACGTGA
65 CATAGTACTACACACGTGA
9676682 CCATCACTTT
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
100 4 0.05
101 37 0.49
102 34 0.45
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (101 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACCATACCATCCGATACACGTAGTAGCCTAAAC
ATAGTACTACACACGTGATCGAAGCTATCCGGTACG
Found at i:9679796 original size:47 final size:48
Alignment explanation
Indices: 9679736--9679846 Score: 161
Period size: 48 Copynumber: 2.3 Consensus size: 48
9679726 GTCACGGTAA
* *
9679736 TGCAGATAAACTGCCACATAATCAAA-TTGTGGACAAGCCACCACTTT
1 TGCAGATAAACTGCCACATAATCAAATTTATGGACAAGCCACCAATTT
* * * *
9679783 TGCAGACATACTGCCACATAATCAAATTTATGGGCAAGCCACTAATTT
1 TGCAGATAAACTGCCACATAATCAAATTTATGGACAAGCCACCAATTT
9679831 TGCAGATAAACTGCCA
1 TGCAGATAAACTGCCA
9679847 TATTCTTCCA
Statistics
Matches: 55, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
47 24 0.44
48 31 0.56
ACGTcount: A:0.36, C:0.24, G:0.15, T:0.24
Consensus pattern (48 bp):
TGCAGATAAACTGCCACATAATCAAATTTATGGACAAGCCACCAATTT
Found at i:9680901 original size:12 final size:12
Alignment explanation
Indices: 9680884--9680910 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
9680874 AAAGAAAAAG
9680884 TAAAATAAATAA
1 TAAAATAAATAA
9680896 TAAAATAAATAA
1 TAAAATAAATAA
9680908 TAA
1 TAA
9680911 CAATGATAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (12 bp):
TAAAATAAATAA
Found at i:9681133 original size:12 final size:12
Alignment explanation
Indices: 9681118--9681143 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
9681108 ATAAATAGTA
9681118 ATAATAATAAAT
1 ATAATAATAAAT
9681130 ATAATAATAAAT
1 ATAATAATAAAT
9681142 AT
1 AT
9681144 GGTAAAAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (12 bp):
ATAATAATAAAT
Found at i:9686344 original size:13 final size:13
Alignment explanation
Indices: 9686328--9686361 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
9686318 GTATTCAATT
9686328 CAATCCAATTACC
1 CAATCCAATTACC
*
9686341 CAATCTAATTACC
1 CAATCCAATTACC
*
9686354 CAACCCAA
1 CAATCCAA
9686362 CCCAATCATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.41, C:0.38, G:0.00, T:0.21
Consensus pattern (13 bp):
CAATCCAATTACC
Found at i:9686483 original size:9 final size:9
Alignment explanation
Indices: 9686463--9686538 Score: 107
Period size: 9 Copynumber: 8.4 Consensus size: 9
9686453 TGTATGATTC
*
9686463 AATTAGGTT
1 AATTCGGTT
*
9686472 AATTCGGGT
1 AATTCGGTT
9686481 AATTCGGTT
1 AATTCGGTT
*
9686490 AATTCAGTT
1 AATTCGGTT
*
9686499 AATTCGGGT
1 AATTCGGTT
9686508 AATTCGGTT
1 AATTCGGTT
*
9686517 AATTTGGTT
1 AATTCGGTT
9686526 AATTCGGTT
1 AATTCGGTT
9686535 AATT
1 AATT
9686539 TTTAACCAAA
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 58 1.00
ACGTcount: A:0.26, C:0.08, G:0.22, T:0.43
Consensus pattern (9 bp):
AATTCGGTT
Found at i:9693635 original size:9 final size:9
Alignment explanation
Indices: 9693621--9693651 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
9693611 GTTAAACGAA
9693621 TCGAGTTAT
1 TCGAGTTAT
*
9693630 TCGAGTTAA
1 TCGAGTTAT
9693639 TCGAGTTAT
1 TCGAGTTAT
9693648 TCGA
1 TCGA
9693652 ATCAACTCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:9693723 original size:9 final size:9
Alignment explanation
Indices: 9693706--9693742 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
9693696 TGAGTTTTCG
9693706 AATTCGAAT
1 AATTCGAAT
*
9693715 AACTCGAAT
1 AATTCGAAT
9693724 AATTCGAAT
1 AATTCGAAT
9693733 AATTCGAAT
1 AATTCGAAT
9693742 A
1 A
9693743 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:9701034 original size:9 final size:10
Alignment explanation
Indices: 9700990--9701044 Score: 51
Period size: 9 Copynumber: 5.6 Consensus size: 10
9700980 TTTAAAAATC
9700990 ATAAAAATAT
1 ATAAAAATAT
* *
9701000 ATGAAAATTT
1 ATAAAAATAT
* *
9701010 ACTTAAAATGT
1 A-TAAAAATAT
9701021 A-AAAAATAT
1 ATAAAAATAT
9701030 -TAAAAATAT
1 ATAAAAATAT
9701039 ATAAAA
1 ATAAAA
9701045 TAATTTTCAC
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
9 14 0.39
10 14 0.39
11 8 0.22
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.31
Consensus pattern (10 bp):
ATAAAAATAT
Found at i:9701330 original size:13 final size:13
Alignment explanation
Indices: 9701312--9701336 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9701302 GAATTAATAT
9701312 GTGTGAAAATTTC
1 GTGTGAAAATTTC
9701325 GTGTGAAAATTT
1 GTGTGAAAATTT
9701337 TATTGTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:9703593 original size:48 final size:47
Alignment explanation
Indices: 9703541--9703664 Score: 151
Period size: 48 Copynumber: 2.6 Consensus size: 47
9703531 TGATTGGGTA
* *
9703541 TATATAAATGCTATCCAATTTGGTGTATAA-ATGCTGTCCAATTTGG
1 TATATAAATGCTGTCCAATTTGGTGTATAATATGCTGTCCAATTGGG
* * * *
9703587 TGTATATATGCTGTCCAATTTGGTATATATATATGTTGTCCAATTGGG
1 TATATAAATGCTGTCCAATTTGGTGTATA-ATATGCTGTCCAATTGGG
* * *
9703635 TGTATAAATGCTGTCCGATTTGATGTATAA
1 TATATAAATGCTGTCCAATTTGGTGTATAA
9703665 GAGTTGTCCA
Statistics
Matches: 66, Mismatches: 10, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
46 25 0.38
47 2 0.03
48 39 0.59
ACGTcount: A:0.28, C:0.11, G:0.19, T:0.41
Consensus pattern (47 bp):
TATATAAATGCTGTCCAATTTGGTGTATAATATGCTGTCCAATTGGG
Found at i:9703614 original size:21 final size:23
Alignment explanation
Indices: 9703543--9703664 Score: 163
Period size: 23 Copynumber: 5.2 Consensus size: 23
9703533 ATTGGGTATA
*
9703543 TATAAATGCTATCCAATTTGGTG
1 TATAAATGCTGTCCAATTTGGTG
9703566 TATAAATGCTGTCCAATTTGGTG
1 TATAAATGCTGTCCAATTTGGTG
* *
9703589 TATATATGCTGTCCAATTTGGTA
1 TATAAATGCTGTCCAATTTGGTG
* *
9703612 TATATATATGTTGTCCAATTGGGTG
1 TATA-A-ATGCTGTCCAATTTGGTG
* *
9703637 TATAAATGCTGTCCGATTTGATG
1 TATAAATGCTGTCCAATTTGGTG
9703660 TATAA
1 TATAA
9703665 GAGTTGTCCA
Statistics
Matches: 86, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
23 66 0.77
24 1 0.01
25 19 0.22
ACGTcount: A:0.28, C:0.11, G:0.20, T:0.41
Consensus pattern (23 bp):
TATAAATGCTGTCCAATTTGGTG
Found at i:9709998 original size:13 final size:13
Alignment explanation
Indices: 9709980--9710006 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
9709970 TGAATTAATA
9709980 TGTGTGAAAATTT
1 TGTGTGAAAATTT
9709993 TGTGTGAAAATTT
1 TGTGTGAAAATTT
9710006 T
1 T
9710007 ATTGTTTGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.22, T:0.48
Consensus pattern (13 bp):
TGTGTGAAAATTT
Found at i:9711239 original size:43 final size:42
Alignment explanation
Indices: 9711114--9711240 Score: 114
Period size: 43 Copynumber: 2.9 Consensus size: 42
9711104 TAGGATTCCG
* * *
9711114 TTATGTGTTATCGTGTAAGACCACGTCTTGGATGTTGGCATCAA
1 TTATGTGTTA-CGTGTAAGACC-CATCTAGGACGTTGGCATCAA
* * **
9711158 CT-TGTGTTTACGTGTAAGACCCTATCTGGGACAATGGCATC-A
1 TTATGTG-TTACGTGTAAGACCC-ATCTAGGACGTTGGCATCAA
*
9711200 TTATGTGATTACATGTAAGACCGCATCTAGGACGTTGGCAT
1 TTATGTG-TTACGTGTAAGACC-CATCTAGGACGTTGGCAT
9711241 TGTACAATAT
Statistics
Matches: 67, Mismatches: 12, Indels: 9
0.76 0.14 0.10
Matches are distributed among these distances:
42 3 0.04
43 59 0.88
44 5 0.07
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.33
Consensus pattern (42 bp):
TTATGTGTTACGTGTAAGACCCATCTAGGACGTTGGCATCAA
Found at i:9712245 original size:23 final size:23
Alignment explanation
Indices: 9712219--9712292 Score: 94
Period size: 23 Copynumber: 3.2 Consensus size: 23
9712209 ATTGGGTAGA
* *
9712219 TATAAATGCTGTCCAATTTGGTT
1 TATAAATGTTGTCCAATTTGGTG
9712242 TATAAATGTTGTCCAATTTGGTG
1 TATAAATGTTGTCCAATTTGGTG
* ** *
9712265 TATATATGTTGTCCGGTTTGATG
1 TATAAATGTTGTCCAATTTGGTG
9712288 TATAA
1 TATAA
9712293 GAGCTGTCCA
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.26, C:0.09, G:0.20, T:0.45
Consensus pattern (23 bp):
TATAAATGTTGTCCAATTTGGTG
Found at i:9719053 original size:13 final size:13
Alignment explanation
Indices: 9719035--9719061 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
9719025 TGAATTAATA
9719035 TGTGTGAAAATTT
1 TGTGTGAAAATTT
9719048 TGTGTGAAAATTT
1 TGTGTGAAAATTT
9719061 T
1 T
9719062 ATTGTTTGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.22, T:0.48
Consensus pattern (13 bp):
TGTGTGAAAATTT
Found at i:9720294 original size:43 final size:42
Alignment explanation
Indices: 9720169--9720295 Score: 114
Period size: 43 Copynumber: 2.9 Consensus size: 42
9720159 TAGGATTCCG
* * *
9720169 TTATGTGTTATCGTGTAAGACCACGTCTTGGATGTTGGCATCAA
1 TTATGTGTTA-CGTGTAAGACC-CATCTAGGACGTTGGCATCAA
* * **
9720213 CT-TGTGTTTACGTGTAAGACCCTATCTGGGACAATGGCATC-A
1 TTATGTG-TTACGTGTAAGACCC-ATCTAGGACGTTGGCATCAA
*
9720255 TTATGTGATTACATGTAAGACCGCATCTAGGACGTTGGCAT
1 TTATGTG-TTACGTGTAAGACC-CATCTAGGACGTTGGCAT
9720296 TGTACAATAT
Statistics
Matches: 67, Mismatches: 12, Indels: 9
0.76 0.14 0.10
Matches are distributed among these distances:
42 3 0.04
43 59 0.88
44 5 0.07
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.33
Consensus pattern (42 bp):
TTATGTGTTACGTGTAAGACCCATCTAGGACGTTGGCATCAA
Found at i:9721300 original size:23 final size:23
Alignment explanation
Indices: 9721274--9721347 Score: 94
Period size: 23 Copynumber: 3.2 Consensus size: 23
9721264 ATTGGGTAGA
* *
9721274 TATAAATGCTGTCCAATTTGGTT
1 TATAAATGTTGTCCAATTTGGTG
9721297 TATAAATGTTGTCCAATTTGGTG
1 TATAAATGTTGTCCAATTTGGTG
* ** *
9721320 TATATATGTTGTCCGGTTTGATG
1 TATAAATGTTGTCCAATTTGGTG
9721343 TATAA
1 TATAA
9721348 GAGCTGTCCA
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.26, C:0.09, G:0.20, T:0.45
Consensus pattern (23 bp):
TATAAATGTTGTCCAATTTGGTG
Found at i:9725284 original size:30 final size:32
Alignment explanation
Indices: 9725250--9725312 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
9725240 TAATAACAAT
*
9725250 AAAATATGT-ATATA-ATATGTATATATATTA
1 AAAATATGTAAAATATATATGTATATATATTA
* *
9725280 AAAATTTTTAAAATATATATGTATATATATTA
1 AAAATATGTAAAATATATATGTATATATATTA
9725312 A
1 A
9725313 CATGCATATG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 7 0.25
31 4 0.14
32 17 0.61
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (32 bp):
AAAATATGTAAAATATATATGTATATATATTA
Found at i:9725348 original size:3 final size:3
Alignment explanation
Indices: 9725340--9725420 Score: 105
Period size: 3 Copynumber: 27.3 Consensus size: 3
9725330 ATATGTAGGT
*
9725340 ATA ATA ATA ATA TATA AT- ATA ATA ATA ATA ATA CTA ATA ATA ATA
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
9725385 ATA ATA ATA ATA ATA AT- ATCA ATA CTA ATA A-A ATA A
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA A
9725421 ACTAAAAAAA
Statistics
Matches: 69, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
2 6 0.09
3 58 0.84
4 5 0.07
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:9737630 original size:51 final size:52
Alignment explanation
Indices: 9737532--9737630 Score: 146
Period size: 51 Copynumber: 1.9 Consensus size: 52
9737522 ACGATACAAC
*
9737532 TGTTACATGAGAAAAGGCACCAGTTACTAGGGTTAACAATAGGAGTAGTTGG
1 TGTTACATGAGAAAAAGCACCAGTTACTAGGGTTAACAATAGGAGTAGTTGG
* * * *
9737584 TGTTACATGAGAAAAAGCATCAG-TACTATGGTTGACAATAGTAGTAG
1 TGTTACATGAGAAAAAGCACCAGTTACTAGGGTTAACAATAGGAGTAG
9737631 AACTGGTATT
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
51 21 0.50
52 21 0.50
ACGTcount: A:0.36, C:0.11, G:0.26, T:0.26
Consensus pattern (52 bp):
TGTTACATGAGAAAAAGCACCAGTTACTAGGGTTAACAATAGGAGTAGTTGG
Found at i:9742517 original size:6 final size:7
Alignment explanation
Indices: 9742501--9742525 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
9742491 TTTGTTTTTT
9742501 AAAAAGA
1 AAAAAGA
9742508 AAAAAGA
1 AAAAAGA
9742515 AAAAAGA
1 AAAAAGA
9742522 AAAA
1 AAAA
9742526 TATATATGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAAGA
Found at i:9743344 original size:29 final size:29
Alignment explanation
Indices: 9743311--9743391 Score: 83
Period size: 29 Copynumber: 2.7 Consensus size: 29
9743301 AATAAAAATG
9743311 AATAAAAGTTATAAAAACTATTAAA-TTTT
1 AATAAAAG-TATAAAAACTATTAAATTTTT
** *
9743340 AATAAAAAAATAAAAAATATTTAAATTTTT
1 AATAAAAGTATAAAAACTA-TTAAATTTTT
*
9743370 ATTAAAAAGTATAAAAAACTAT
1 AAT-AAAAGTAT-AAAAACTAT
9743392 AAAAAATTGT
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
28 9 0.22
29 12 0.29
30 6 0.15
31 7 0.17
32 7 0.17
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (29 bp):
AATAAAAGTATAAAAACTATTAAATTTTT
Found at i:9743376 original size:28 final size:28
Alignment explanation
Indices: 9743321--9743387 Score: 80
Period size: 30 Copynumber: 2.3 Consensus size: 28
9743311 AATAAAAGTT
*
9743321 ATAAAAACTATTAAATTTTAATAAAAAA
1 ATAAAAAATATTAAATTTTAATAAAAAA
* *
9743349 ATAAAAAATATTTAAATTTTTATTAAAAAGT
1 ATAAAAAATA-TTAAA-TTTTAATAAAAA-A
9743380 ATAAAAAA
1 ATAAAAAA
9743388 CTATAAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
28 9 0.27
29 5 0.15
30 11 0.33
31 8 0.24
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.34
Consensus pattern (28 bp):
ATAAAAAATATTAAATTTTAATAAAAAA
Found at i:9743384 original size:39 final size:38
Alignment explanation
Indices: 9743341--9743425 Score: 102
Period size: 39 Copynumber: 2.2 Consensus size: 38
9743331 TTAAATTTTA
* *
9743341 ATAAAAAA-ATAAAAAATATTTAAATTTTTATTAAAAAGT-
1 ATAAAAAACATAAAAAAT-TGTAAAATTTTA-TAAAAA-TC
9743380 ATAAAAAACTATAAAAAATTGTAAAATTTTATAAAAATC
1 ATAAAAAAC-ATAAAAAATTGTAAAATTTTATAAAAATC
9743419 ATAAAAA
1 ATAAAAA
9743426 TTATAAAATG
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
38 1 0.02
39 21 0.51
40 10 0.24
41 9 0.22
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (38 bp):
ATAAAAAACATAAAAAATTGTAAAATTTTATAAAAATC
Found at i:9743654 original size:19 final size:19
Alignment explanation
Indices: 9743623--9743686 Score: 69
Period size: 19 Copynumber: 3.4 Consensus size: 19
9743613 GTACGATGTC
9743623 TTTTATAATTTTTTTACTAA
1 TTTTATAATTTTTTTAC-AA
*
9743643 TTTTAT-A-TTTTTTACAT
1 TTTTATAATTTTTTTACAA
* *
9743660 TTTTATAATTTTCTTACGA
1 TTTTATAATTTTTTTACAA
*
9743679 CTTTATAA
1 TTTTATAA
9743687 AAATTTATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
17 7 0.19
18 9 0.24
19 15 0.41
20 6 0.16
ACGTcount: A:0.28, C:0.08, G:0.02, T:0.62
Consensus pattern (19 bp):
TTTTATAATTTTTTTACAA
Found at i:9743655 original size:18 final size:18
Alignment explanation
Indices: 9743623--9743686 Score: 67
Period size: 18 Copynumber: 3.4 Consensus size: 18
9743613 GTACGATGTC
9743623 TTTTATAATTTTTTTACTAA
1 TTTTATAA-TTTTTTAC-AA
*
9743643 TTTTAT-ATTTTTTACAT
1 TTTTATAATTTTTTACAA
*
9743660 TTTTATAATTTTCTTACGA
1 TTTTATAATTTT-TTACAA
*
9743679 CTTTATAA
1 TTTTATAA
9743687 AAATTTATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
17 7 0.18
18 13 0.34
19 12 0.32
20 6 0.16
ACGTcount: A:0.28, C:0.08, G:0.02, T:0.62
Consensus pattern (18 bp):
TTTTATAATTTTTTACAA
Found at i:9743805 original size:12 final size:10
Alignment explanation
Indices: 9743747--9743801 Score: 58
Period size: 10 Copynumber: 5.6 Consensus size: 10
9743737 ATTTTTTACG
9743747 ATTTTTA-TA
1 ATTTTTATTA
*
9743756 TTTTTTATTA
1 ATTTTTATTA
*** *
9743766 AAAATTAATA
1 ATTTTTATTA
9743776 ATTTTTATTA
1 ATTTTTATTA
9743786 ATTTTTATTA
1 ATTTTTATTA
9743796 ATTTTT
1 ATTTTT
9743802 TTATCATTTT
Statistics
Matches: 35, Mismatches: 10, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
9 6 0.17
10 29 0.83
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (10 bp):
ATTTTTATTA
Found at i:9744028 original size:86 final size:85
Alignment explanation
Indices: 9743917--9744181 Score: 284
Period size: 85 Copynumber: 3.1 Consensus size: 85
9743907 GTTAAAGGGT
* *** *
9743917 CTTTTTGATGCATTATGGCAGTTTAAATACCCAATTGAGTAAAAAAAAGTAAGGACTTAATTGCT
1 CTTTTTGATGCATTTTAAAAGTTTAAATACACAATTGAGTAAAAAAAA--AAGGACTTAATTGCT
*
9743982 TATTTT-AAAAAGTTTG-AGAAC
64 TTTTTTGAAAAAGTTTGAAG-AC
* ** * * *
9744003 CTTTTTGATGTATTTTAAAAGTTTAAATACACAATTGAGTGCAAAAAAAATGTCTTTATTGCTTT
1 CTTTTTGATGCATTTTAAAAGTTTAAATACACAATTGAGTAAAAAAAAAAGGACTTAATTGCTTT
*
9744068 TTTTGAAAAAGTTTGAAGGC
66 TTTTGAAAAAGTTTGAAGAC
* * * *
9744088 CTTTTTTATGCATTTTAAAAGTTCAAGTACACAATTGAGTGCAAAAAAAAACAGAGACTTAATTA
1 CTTTTTGATGCATTTTAAAAGTTTAAATACACAATTGAGT--AAAAAAAAA-AG-GACTTAATTG
*
9744153 CTTTTTTTGAAAAAGTTTGACGA-
62 CTTTTTTTGAAAAAGTTTGAAGAC
9744176 CTTTTT
1 CTTTTT
9744182 ACACAATTCT
Statistics
Matches: 148, Mismatches: 25, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
84 17 0.11
85 47 0.32
86 42 0.28
87 7 0.05
88 7 0.05
89 28 0.19
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.38
Consensus pattern (85 bp):
CTTTTTGATGCATTTTAAAAGTTTAAATACACAATTGAGTAAAAAAAAAAGGACTTAATTGCTTT
TTTTGAAAAAGTTTGAAGAC
Found at i:9749960 original size:42 final size:43
Alignment explanation
Indices: 9749862--9750056 Score: 191
Period size: 42 Copynumber: 4.6 Consensus size: 43
9749852 TTTATGTGAA
* * *
9749862 AAACACCGCTAAAGATCATAACCTTTAGCGGCGCTTTTAACAC
1 AAACGCCGCTAAAGAACATAACCTTTAGCGGCGCTTTTATCAC
* * * * *
9749905 AAACGCCACTAAAGATCTTGACCTTTAGC-GCTCTTTTATCAC
1 AAACGCCGCTAAAGAACATAACCTTTAGCGGCGCTTTTATCAC
* * *
9749947 AAACGCCGTTAAAGAACA-AATCTTTAGCGGCGCTTTTATTAC
1 AAACGCCGCTAAAGAACATAACCTTTAGCGGCGCTTTTATCAC
* * * * *
9749989 AAACGCCGCTAAAGAACATGACCTTTAGCAGTGCTTCTCA-CAA
1 AAACGCCGCTAAAGAACATAACCTTTAGCGGCGCTT-TTATCAC
* *
9750032 AAACACCGCTAAA-AACATTACCTTT
1 AAACGCCGCTAAAGAACATAACCTTT
9750057 GAAAAAATTA
Statistics
Matches: 125, Mismatches: 24, Indels: 7
0.80 0.15 0.04
Matches are distributed among these distances:
41 8 0.06
42 64 0.51
43 51 0.41
44 2 0.02
ACGTcount: A:0.34, C:0.27, G:0.13, T:0.26
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATAACCTTTAGCGGCGCTTTTATCAC
Found at i:9750471 original size:43 final size:43
Alignment explanation
Indices: 9750405--9750491 Score: 129
Period size: 43 Copynumber: 2.0 Consensus size: 43
9750395 CACATTGCAA
* * *
9750405 GGTAATAAAAAATACAATGCATTTTCTTAATCAAGTAAATCTT
1 GGTAATAAAAAATACAATACATTTACTTAATCAAGGAAATCTT
* *
9750448 GGTAATAAAAGATATAATACATTTACTTAATCAAGGAAATCTT
1 GGTAATAAAAAATACAATACATTTACTTAATCAAGGAAATCTT
9750491 G
1 G
9750492 TAAAGAACTC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.45, C:0.10, G:0.11, T:0.33
Consensus pattern (43 bp):
GGTAATAAAAAATACAATACATTTACTTAATCAAGGAAATCTT
Found at i:9754879 original size:41 final size:41
Alignment explanation
Indices: 9754829--9755175 Score: 552
Period size: 41 Copynumber: 8.5 Consensus size: 41
9754819 TGAGCTTTAC
* * * *
9754829 CAAAAACGCCGCTAAAACACTGAGCATTAGTGGTGCTTTCT
1 CAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCT
* *
9754870 CAAAAACGCCGCTAAAGCCCTAAGTATTAGCGGCGCTTTCT
1 CAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCT
9754911 CAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCT
1 CAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCT
9754952 CAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCT
1 CAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCT
* * **
9754993 CAAAATCACCGCTAAAGCATTGAGCATTAGCGGCGCTTTCT
1 CAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCT
9755034 CAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCT
1 CAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCT
9755075 CAAAAACGCCGCTAAAGCCCTGAGCATTAGC-GCGCTTTCT
1 CAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCT
* * *
9755115 CAAAAACGCCGCTAAATCCCTAAGCATTAGTGGCGCTTTCT
1 CAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCT
* *
9755156 TAAAAACACCGCTAAAGCCC
1 CAAAAACGCCGCTAAAGCCC
9755176 CGAAAGCTCA
Statistics
Matches: 283, Mismatches: 22, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
40 37 0.13
41 246 0.87
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (41 bp):
CAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCT
Found at i:9759249 original size:18 final size:18
Alignment explanation
Indices: 9759226--9759268 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
9759216 TGCCAGGTGC
* *
9759226 GTATCCTAGCCCTTTTAT
1 GTATCCTAACCCTTATAT
9759244 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
9759262 GTTTCCT
1 GTATCCT
9759269 TTTTCTAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.09, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:9759543 original size:21 final size:21
Alignment explanation
Indices: 9759509--9759563 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
9759499 CCAACATCGA
*
9759509 CAACCAG-ATCCCCTATCGGAG
1 CAACCAGAAT-CCCTACCGGAG
* *
9759530 GAACCAGAATCCCTGCCGGAG
1 CAACCAGAATCCCTACCGGAG
*
9759551 CAACCACAATCCC
1 CAACCAGAATCCC
9759564 CGCCGGAAGC
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
21 26 0.93
22 2 0.07
ACGTcount: A:0.31, C:0.40, G:0.18, T:0.11
Consensus pattern (21 bp):
CAACCAGAATCCCTACCGGAG
Found at i:9759568 original size:21 final size:21
Alignment explanation
Indices: 9759525--9759570 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
9759515 GATCCCCTAT
* * *
9759525 CGGAGGAACCAGAATCCCTGC
1 CGGAGCAACCACAATCCCCGC
9759546 CGGAGCAACCACAATCCCCGC
1 CGGAGCAACCACAATCCCCGC
9759567 CGGA
1 CGGA
9759571 AGCTGGACAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.39, G:0.26, T:0.07
Consensus pattern (21 bp):
CGGAGCAACCACAATCCCCGC
Found at i:9763074 original size:126 final size:126
Alignment explanation
Indices: 9762849--9763263 Score: 659
Period size: 126 Copynumber: 3.3 Consensus size: 126
9762839 AAACATGCGT
* * * *
9762849 TACTGTAGCAAAAGCGCGTCCATGTGGTAGCTTCTTTCAGTATTTCTACTGACAAAGCATCCTAC
1 TACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCCTAC
* * *
9762914 TTAAAGCATTTTTGACACTAATTGCTCAGAAACGTCTTCTCGAAATTATTTTTTCAGGAGC
66 TTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTTCAGGAGC
* * *
9762975 TACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTTTTTCAGTACTTCTGCTGACAAAGCATCTTGC
1 TACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCCTAC
*
9763040 TTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTTTAGGAGC
66 TTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTTCAGGAGC
* * * *
9763101 TACTGTAGCAAAAGCGCGTCCACATAGGAGCTTCTTTCAGTACTTCTGCTGAGAAAACATCCTAC
1 TACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCCTAC
* * *
9763166 TTAAAGCGTTTTTGACACTATTTACTCAGAAACGTCAACTCAAAATTATTTTTTCAGGAGC
66 TTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTTCAGGAGC
*
9763227 TACTGTAGCAAAAGTGCGTCCACGTGGGAGCTTCTTT
1 TACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTT
9763264 AAATTAACAA
Statistics
Matches: 264, Mismatches: 25, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
126 264 1.00
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.33
Consensus pattern (126 bp):
TACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCCTAC
TTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTTCAGGAGC
Found at i:9763448 original size:96 final size:95
Alignment explanation
Indices: 9763302--9763575 Score: 345
Period size: 96 Copynumber: 2.9 Consensus size: 95
9763292 CCTAAACCTC
* *
9763302 AAACCCTAATTTATTTGAGTTTTTACTTAAAAAACCTAAACACTAAACCCTAATCTAATTTTATA
1 AAACCCTAATTTATTTGA-TTTTTTCTTAAAAACCCTAAACACTAAACCCTAATCTAATTTT-TA
* *
9763367 AAAATTTATAATTAATTTACTCAAGTAACCCT
64 AAATTTTATAATTAATTTACTAAAGTAACCCT
* * * *
9763399 GAACCCTAATTTATTTGATTTTTTCTTAAAAACCCTTAACTCTAAACCCTAATCTGATTTTTAAA
1 AAACCCTAATTTATTTGATTTTTTCTTAAAAACCCTAAACACTAAACCCTAATCTAATTTTTAAA
* * *
9763464 ATTTTTTAAATCAAATTACTAAAGTAACCCT
66 ATTTTAT-AATTAATTTACTAAAGTAACCCT
* ** * * *
9763495 AAACCCTAATTTAATTGA-TTTTTCTTAAAAAACAATAAACACGAAA-CCTAATCCAATTTTGAA
1 AAACCCTAATTTATTTGATTTTTTCTT-AAAAACCCTAAACACTAAACCCTAATCTAATTTTTAA
9763558 AATTTTATAATTAATTTA
65 AATTTTATAATTAATTTA
9763576 ATTGACAAAT
Statistics
Matches: 151, Mismatches: 24, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
94 8 0.05
95 38 0.25
96 88 0.58
97 17 0.11
ACGTcount: A:0.41, C:0.17, G:0.04, T:0.38
Consensus pattern (95 bp):
AAACCCTAATTTATTTGATTTTTTCTTAAAAACCCTAAACACTAAACCCTAATCTAATTTTTAAA
ATTTTATAATTAATTTACTAAAGTAACCCT
Found at i:9763658 original size:6 final size:6
Alignment explanation
Indices: 9763649--9763686 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
9763639 AAAATACCAA
*
9763649 AACCCT AACCTT AACCCT AACCCT AACCCT AACCCT AA
1 AACCCT AACCCT AACCCT AACCCT AACCCT AACCCT AA
9763687 ACCAATAACC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.37, C:0.45, G:0.00, T:0.18
Consensus pattern (6 bp):
AACCCT
Found at i:9771237 original size:414 final size:414
Alignment explanation
Indices: 9770467--9771700 Score: 2348
Period size: 414 Copynumber: 3.0 Consensus size: 414
9770457 TTTATTTCAA
*
9770467 AAAGTTTTAAGATATATATTGGATGTAATCGATCGATAAAATAACCCACACAACAGGAAGGATTA
1 AAAGTTTTAAGATATATATTGGATGTAATCGATCGATAAAATAACCCACACAACGGGAAGGATTA
9770532 ATAATTCACCTCTAAAAATATATTTATATAACTTAGTTTTATAATAATTTATTATCATTTAGCTC
66 ATAATTCACCTCTAAAAATATATTTATATAACTTAGTTTTATAATAATTTATTATCATTTAGCTC
9770597 GAAATAAATTTAAGATTTATATATTCACGATGTATCGATACTATAATAATTTATTTGGTATCGAC
131 GAAATAAATTTAAGATTTATATATTCACGATGTATCGATACTATAATAATTTATTTGGTATCGAC
9770662 ATTATTGCTAAAATAAAATGATGTAGATTTGAACATCATTTAAAGGTAAAAAAAATTATAAGTAA
196 ATTATTGCTAAAATAAAATGATGTAGATTTGAACATCATTTAAAGGTAAAAAAAATTATAAGTAA
9770727 TTTTAAACAACTGTATAAAAAAACTATCCCGGTAAGCTTTTACTCGATTCTAATTTAGGTTAATA
261 TTTTAAACAACTGTATAAAAAAACTATCCCGGTAAGCTTTTACTCGATTCTAATTTAGGTTAATA
9770792 CATACAAAAGATGTTAATGGCAGTGTTGTGCTAAACCTATCCCGTTAAGCCTTCCTTAAACTTTC
326 CATACAAAAGATGTTAATGGCAGTGTTGTGCTAAACCTATCCCGTTAAGCCTTCCTTAAACTTTC
9770857 TTGCTTGAACAAAAGGGGGTTTTG
391 TTGCTTGAACAAAAGGGGGTTTTG
9770881 AAAGTTTTAAGATATATATTGGATGTAATCGATCGATAAAATAACCCACACAACGGGAAGGATTA
1 AAAGTTTTAAGATATATATTGGATGTAATCGATCGATAAAATAACCCACACAACGGGAAGGATTA
9770946 ATAATTCACCTCTAAAAATATATTTATATAACTTAGTTTTATAATAATTTATTATCATTTAGCTC
66 ATAATTCACCTCTAAAAATATATTTATATAACTTAGTTTTATAATAATTTATTATCATTTAGCTC
9771011 GAAATAAATTTAAGATTTATATATTCACGATGTATCGATACTATAATAATTTATTTGGTATCGAC
131 GAAATAAATTTAAGATTTATATATTCACGATGTATCGATACTATAATAATTTATTTGGTATCGAC
9771076 ATTATTGCTAAAATAAAATGATGTAGATTTGAACATCATTTAAAGGTAAAAAAAATTATAAGTAA
196 ATTATTGCTAAAATAAAATGATGTAGATTTGAACATCATTTAAAGGTAAAAAAAATTATAAGTAA
9771141 TTTTAAACAACTGTATAAAAAAACTATCCCGGTAAGCTTTTACTCGATTCTAATTTAGGTTAATA
261 TTTTAAACAACTGTATAAAAAAACTATCCCGGTAAGCTTTTACTCGATTCTAATTTAGGTTAATA
9771206 CATACAAAAGATGTTAATGGCAGTGTTGTGCTAAACCTATCCCGTTAAGCCTTCCTTAAACTTTC
326 CATACAAAAGATGTTAATGGCAGTGTTGTGCTAAACCTATCCCGTTAAGCCTTCCTTAAACTTTC
9771271 TTGCTTGAACAAAAGGGGGTTTTG
391 TTGCTTGAACAAAAGGGGGTTTTG
9771295 AAAGTTTTAAGATATATATTGGATGTAATCGATCGATAAAATAACCCACACAACGGGAAGGATTA
1 AAAGTTTTAAGATATATATTGGATGTAATCGATCGATAAAATAACCCACACAACGGGAAGGATTA
9771360 ATAATTCACCTCTAAAAATATATTTATATAACTTAGTTTTATAATAATTTATTATCATTTAGCTC
66 ATAATTCACCTCTAAAAATATATTTATATAACTTAGTTTTATAATAATTTATTATCATTTAGCTC
9771425 GAAATAAATTTAAGATTTATATATTCACGATGTATCGATACTATAATAATTTATTTGGTATCGAC
131 GAAATAAATTTAAGATTTATATATTCACGATGTATCGATACTATAATAATTTATTTGGTATCGAC
*
9771490 ATTATTGCTAAAATAAAAGGATGTAGATTTG---A--A--T--A---AAAAAAAATTATAAGTAA
196 ATTATTGCTAAAATAAAATGATGTAGATTTGAACATCATTTAAAGGTAAAAAAAATTATAAGTAA
9771543 TTTTAAACAACTGTATAAAAAAACCTATCCCGGTAAGCTTTTACTCGATTCTAATTTAGGTTAAT
261 TTTTAAACAACTGTATAAAAAAA-CTATCCCGGTAAGCTTTTACTCGATTCTAATTTAGGTTAAT
*
9771608 ACATACAAAAGATGTTAATGTCAGTGTTGTGCTAAACCTATCCCGTTAAGCCTTCCTTAAACTTT
325 ACATACAAAAGATGTTAATGGCAGTGTTGTGCTAAACCTATCCCGTTAAGCCTTCCTTAAACTTT
9771673 CTTGCTTGAACAAAAGGGGGTTTTG
390 CTTGCTTGAACAAAAGGGGGTTTTG
9771698 AAA
1 AAA
9771701 ATTAGAAGGA
Statistics
Matches: 816, Mismatches: 3, Indels: 13
0.98 0.00 0.02
Matches are distributed among these distances:
402 41 0.05
403 133 0.16
405 1 0.00
407 1 0.00
409 1 0.00
411 1 0.00
414 638 0.78
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (414 bp):
AAAGTTTTAAGATATATATTGGATGTAATCGATCGATAAAATAACCCACACAACGGGAAGGATTA
ATAATTCACCTCTAAAAATATATTTATATAACTTAGTTTTATAATAATTTATTATCATTTAGCTC
GAAATAAATTTAAGATTTATATATTCACGATGTATCGATACTATAATAATTTATTTGGTATCGAC
ATTATTGCTAAAATAAAATGATGTAGATTTGAACATCATTTAAAGGTAAAAAAAATTATAAGTAA
TTTTAAACAACTGTATAAAAAAACTATCCCGGTAAGCTTTTACTCGATTCTAATTTAGGTTAATA
CATACAAAAGATGTTAATGGCAGTGTTGTGCTAAACCTATCCCGTTAAGCCTTCCTTAAACTTTC
TTGCTTGAACAAAAGGGGGTTTTG
Found at i:9775445 original size:40 final size:41
Alignment explanation
Indices: 9775337--9775475 Score: 137
Period size: 40 Copynumber: 3.5 Consensus size: 41
9775327 GACTTTGAGT
* *
9775337 CGATGAGACACT-AGTGTCAAATTATTACTTCAGATATATT
1 CGATGAGACACTGAGTGTCAAATTATTACTTCAGATTTATC
* * * *
9775377 CGATGAGGCATTGAGTG-CCAA-T-TTACTTCAG-TTTAGC
1 CGATGAGACACTGAGTGTCAAATTATTACTTCAGATTTATC
* *
9775414 CGATGAGACACTGGGTGTCAAATTATTACTTC-GAATTATC
1 CGATGAGACACTGAGTGTCAAATTATTACTTCAGATTTATC
* * *
9775454 CGATGAGGCACTGGGTGCCAAA
1 CGATGAGACACTGAGTGTCAAA
9775476 CTAGTGCGTT
Statistics
Matches: 80, Mismatches: 14, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
37 17 0.21
38 12 0.15
39 3 0.04
40 44 0.55
41 4 0.05
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.30
Consensus pattern (41 bp):
CGATGAGACACTGAGTGTCAAATTATTACTTCAGATTTATC
Found at i:9780901 original size:202 final size:202
Alignment explanation
Indices: 9780555--9781161 Score: 1106
Period size: 202 Copynumber: 3.0 Consensus size: 202
9780545 TATAATCAAA
9780555 TAAACCATTATCATTATTAACATGAGACTACCAAATCCCAAAAGACCTAAGTACATGCCACATAG
1 TAAACCATTATCATTATTAACATGAGACTACCAAATCCCAAAAGACCTAAGTACATGCCACATAG
*
9780620 TCTAAACTCAAAATGAACTTATAACTACCATCTTGTGATAGTGTGTGCTCCTCCGCTGATCCGGC
66 TCTAAACTCAAAATGAACTTATAACTACCATCTTGTGATAGTGTGTGCTCCTCCGTTGATCCGGC
9780685 TCAGCAGTTCCACAAGGTTAAAATCTACATATAAGGAAAACAACCAGAGTAAGCATTCAAAAGGA
131 TCAGCAGTTCCACAAGGTTAAAATCTACATATAAGGAAAACAACCAGAGTAAGCATTCAAAAGGA
9780750 AGTAAGT
196 AGTAAGT
9780757 TAAACCATTATCATTATTAACATGAGACTACCAAATCCCAAAAGACCTAAGTACATGCCACATAG
1 TAAACCATTATCATTATTAACATGAGACTACCAAATCCCAAAAGACCTAAGTACATGCCACATAG
9780822 TCTAAACTCAAAATGAACTTATAACTACCATCTTGTGATAGTGTGTGCTCCTCCGTTGATCCGGC
66 TCTAAACTCAAAATGAACTTATAACTACCATCTTGTGATAGTGTGTGCTCCTCCGTTGATCCGGC
*
9780887 TCAGCAGTTCCACAAGGTTAAAATCTACATATAAGGAAAACAACCAAAGTAAGCATTCAAAAGGA
131 TCAGCAGTTCCACAAGGTTAAAATCTACATATAAGGAAAACAACCAGAGTAAGCATTCAAAAGGA
9780952 AGTAAGT
196 AGTAAGT
*
9780959 TAAACCATTATCATTATTAACATGAGACTACCAAATCCCAAAACACCTAAGTACATGCCACATAG
1 TAAACCATTATCATTATTAACATGAGACTACCAAATCCCAAAAGACCTAAGTACATGCCACATAG
*
9781024 TCTAAACTCAAAATGAACTTATAACTACCATCTTGTGATAGTGTGTGCTCCTCCGTTGATCCAGC
66 TCTAAACTCAAAATGAACTTATAACTACCATCTTGTGATAGTGTGTGCTCCTCCGTTGATCCGGC
* * * * * ** *
9781089 TCGGCAGTTTCATAGGGTTAAAATCTACATATAGGGAAAACAATAAGAGTAAGCTTTCAAAAGGA
131 TCAGCAGTTCCACAAGGTTAAAATCTACATATAAGGAAAACAACCAGAGTAAGCATTCAAAAGGA
9781154 AGTAAGT
196 AGTAAGT
9781161 T
1 T
9781162 CAAATGGAAC
Statistics
Matches: 392, Mismatches: 13, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
202 392 1.00
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.25
Consensus pattern (202 bp):
TAAACCATTATCATTATTAACATGAGACTACCAAATCCCAAAAGACCTAAGTACATGCCACATAG
TCTAAACTCAAAATGAACTTATAACTACCATCTTGTGATAGTGTGTGCTCCTCCGTTGATCCGGC
TCAGCAGTTCCACAAGGTTAAAATCTACATATAAGGAAAACAACCAGAGTAAGCATTCAAAAGGA
AGTAAGT
Found at i:9783126 original size:18 final size:18
Alignment explanation
Indices: 9783103--9783144 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
9783093 ACCCAATCTA
**
9783103 AACCCAAGTATTCAACCC
1 AACCCAAGTACCCAACCC
*
9783121 AACCCAATTACCCAACCC
1 AACCCAAGTACCCAACCC
9783139 AACCCA
1 AACCCA
9783145 GTCATAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.40, C:0.45, G:0.02, T:0.12
Consensus pattern (18 bp):
AACCCAAGTACCCAACCC
Found at i:9783287 original size:27 final size:27
Alignment explanation
Indices: 9783249--9783344 Score: 138
Period size: 27 Copynumber: 3.6 Consensus size: 27
9783239 GTAGTGATTC
* * * *
9783249 AATTTGGTTAATTCAGTTAATTTGAGT
1 AATTCGGTTAATTCGGGTAATTCGAGT
*
9783276 AATTCGGGTAATTCGGGTAATTCGAGT
1 AATTCGGTTAATTCGGGTAATTCGAGT
*
9783303 AATTCGGTTAATTCGGGTAATTCGATT
1 AATTCGGTTAATTCGGGTAATTCGAGT
9783330 AATTCGGTTAATTCG
1 AATTCGGTTAATTCG
9783345 ATTAATTTGG
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 62 1.00
ACGTcount: A:0.27, C:0.09, G:0.23, T:0.41
Consensus pattern (27 bp):
AATTCGGTTAATTCGGGTAATTCGAGT
Found at i:9783361 original size:9 final size:9
Alignment explanation
Indices: 9783249--9783360 Score: 111
Period size: 9 Copynumber: 12.4 Consensus size: 9
9783239 GTAGTGATTC
*
9783249 AATTTGGTT
1 AATTCGGTT
*
9783258 AATTCAGTT
1 AATTCGGTT
*
9783267 AATTTGAG-T
1 AATTCG-GTT
*
9783276 AATTCGGGT
1 AATTCGGTT
*
9783285 AATTCGGGT
1 AATTCGGTT
9783294 AATTCGAG-T
1 AATTCG-GTT
9783303 AATTCGGTT
1 AATTCGGTT
*
9783312 AATTCGGGT
1 AATTCGGTT
*
9783321 AATTCGATT
1 AATTCGGTT
9783330 AATTCGGTT
1 AATTCGGTT
*
9783339 AATTCGATT
1 AATTCGGTT
*
9783348 AATTTGGTT
1 AATTCGGTT
9783357 AATT
1 AATT
9783361 TTTAACCAAA
Statistics
Matches: 87, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
8 2 0.02
9 83 0.95
10 2 0.02
ACGTcount: A:0.28, C:0.08, G:0.21, T:0.43
Consensus pattern (9 bp):
AATTCGGTT
Found at i:9788085 original size:68 final size:68
Alignment explanation
Indices: 9787962--9788238 Score: 342
Period size: 68 Copynumber: 4.1 Consensus size: 68
9787952 CATCTTGGTG
* * *
9787962 GACTTCATATGTTGCCATAGCCTACCTATGGTCTTACACAATATGATTCCATGTTTATTGTCCTG
1 GACTTCATATGTTGCCATAGCCGAGCTATGGTCTTACACAATATGATCCCATGTTTATTGTCCTG
*
9788027 GAA
66 GCA
* * * * * *
9788030 GA-TTCCATATGTTGCCATAGTCGAGCTATAGTTTTACACAATATGTTCCCTTGTTTATTGTCTT
1 GACTT-CATATGTTGCCATAGCCGAGCTATGGTCTTACACAATATGATCCCATGTTTATTGTCCT
9788094 GGCA
65 GGCA
** * * * *
9788098 GACTTCATATGTTGCTGTAGTCGAGCTATGATCTTATACAATATGATCTCATGTTTATTGTCCTG
1 GACTTCATATGTTGCCATAGCCGAGCTATGGTCTTACACAATATGATCCCATGTTTATTGTCCTG
9788163 GCA
66 GCA
* * * *
9788166 GACTTCATATGTTGCCATAGCCAAACTGTGGTCTTACACAATATGATCCCATGTTTATT-TTCTA
1 GACTTCATATGTTGCCATAGCCGAGCTATGGTCTTACACAATATGATCCCATGTTTATTGTCCT-
9788230 GGCA
65 GGCA
9788234 GACTT
1 GACTT
9788239 TCAATTTTGA
Statistics
Matches: 176, Mismatches: 30, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
67 5 0.03
68 169 0.96
69 2 0.01
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.38
Consensus pattern (68 bp):
GACTTCATATGTTGCCATAGCCGAGCTATGGTCTTACACAATATGATCCCATGTTTATTGTCCTG
GCA
Found at i:9792701 original size:27 final size:26
Alignment explanation
Indices: 9792671--9792721 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 26
9792661 TTGATTTAAT
9792671 AAAATTCTAT-TTGATCTTTTCTTTTCA
1 AAAATT-TATCTTGA-CTTTTCTTTTCA
*
9792698 AAAATTTATCTTGAGTTTTCTTTT
1 AAAATTTATCTTGACTTTTCTTTT
9792722 AGAAGAGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 12 0.55
27 10 0.45
ACGTcount: A:0.25, C:0.12, G:0.06, T:0.57
Consensus pattern (26 bp):
AAAATTTATCTTGACTTTTCTTTTCA
Found at i:9794387 original size:19 final size:19
Alignment explanation
Indices: 9794350--9794390 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
9794340 TAGATTTTAC
**
9794350 TCAAATCCAAAAGTTTTGA
1 TCAAATCCAAAAGCCTTGA
*
9794369 TCAAATTCAAAAGCCTTGA
1 TCAAATCCAAAAGCCTTGA
9794388 TCA
1 TCA
9794391 CTTGATCAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.29
Consensus pattern (19 bp):
TCAAATCCAAAAGCCTTGA
Found at i:9798393 original size:15 final size:15
Alignment explanation
Indices: 9798365--9798404 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
9798355 TTACTTATTA
*
9798365 AATTAA-TTTAAATT
1 AATTAATTTTCAATT
9798379 AATTAATTTTCAATT
1 AATTAATTTTCAATT
*
9798394 AAATAATTTTC
1 AATTAATTTTC
9798405 TCAACTCAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 6 0.26
15 17 0.74
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (15 bp):
AATTAATTTTCAATT
Found at i:9804768 original size:25 final size:24
Alignment explanation
Indices: 9804731--9804785 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 24
9804721 GCTGAAATAA
* * * *
9804731 CGGTAAGCTCATACGAGTTGAGTAT
1 CGGTAAGCCCATAAGAGCT-AGAAT
9804756 CGGTAAGCCCATAAGAGCTAGAAT
1 CGGTAAGCCCATAAGAGCTAGAAT
9804780 CGGTAA
1 CGGTAA
9804786 CCTTAATGAC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
24 10 0.38
25 16 0.62
ACGTcount: A:0.33, C:0.18, G:0.27, T:0.22
Consensus pattern (24 bp):
CGGTAAGCCCATAAGAGCTAGAAT
Found at i:9810414 original size:43 final size:43
Alignment explanation
Indices: 9810362--9810652 Score: 316
Period size: 43 Copynumber: 6.8 Consensus size: 43
9810352 CTTTGATAAG
* * *
9810362 CGCCGCTAAATACCAAGACCTTTAGCGGCACTTTTCCTACAAA
1 CGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAA
*
9810405 CGCCGCTAAAGACCAAGACCTTTAGCGGTGCCTTTT-CCACAAA
1 CGCCGCTAAAGACCAAGACCTTTAGCGGCG-CTTTTCCCACAAA
*
9810448 CGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTCCCACAAA
1 CGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAA
* * * * * *** *
9810491 AGCAGTTAAAGACTAAGACCTTTAGCGGCGTTTTTGGGAAAAA
1 CGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAA
* * ** *
9810534 CGCCGCTAAAGACCAAGACCTTTGGCGGTGCTTTTCTAAAAAA
1 CGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAA
* * * *
9810577 CGCCGCTAAAAAACAAGACCTTTAGCGACGTTTTTCCCACAAA
1 CGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAA
* * *
9810620 CGCCGTTAAAG-CTCATGACCTTTAGCGTCGCTT
1 CGCCGCTAAAGAC-CAAGACCTTTAGCGGCGCTT
9810653 CTATTAAAAA
Statistics
Matches: 204, Mismatches: 41, Indels: 6
0.81 0.16 0.02
Matches are distributed among these distances:
42 5 0.02
43 194 0.95
44 5 0.02
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (43 bp):
CGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAA
Found at i:9810612 original size:129 final size:129
Alignment explanation
Indices: 9810375--9810646 Score: 359
Period size: 129 Copynumber: 2.1 Consensus size: 129
9810365 CGCTAAATAC
** *** *
9810375 CAAGACCTTTAGCGGCACTTTTCCTACAAACGCCGCTAAAGACCAAGACCTTTAGCGGTGCCTTT
1 CAAGACCTTTAGCGGCGTTTTTGGGAAAAACGCCGCTAAAGACCAAGACCTTTAGCGGTGCCTTT
* * * * * *
9810440 TCCACAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTCCCACAAAAGCAGTTAAAGACT
66 TCAAAAAACGCCGCTAAAAAACAAGACCTTTAGCGACGCTTTTCCCACAAAAGCAGTTAAAG-CT
*
9810505 -AAGACCTTTAGCGGCGTTTTTGGGAAAAACGCCGCTAAAGACCAAGACCTTTGGCGGTG-CTTT
1 CAAGACCTTTAGCGGCGTTTTTGGGAAAAACGCCGCTAAAGACCAAGACCTTTAGCGGTGCCTTT
* * *
9810568 TCTAAAAAACGCCGCTAAAAAACAAGACCTTTAGCGACGTTTTTCCCACAAACGCCGTTAAAGCT
66 TC-AAAAAACGCCGCTAAAAAACAAGACCTTTAGCGACGCTTTTCCCACAAAAGCAGTTAAAGCT
*
9810633 CATGACCTTTAGCG
1 CAAGACCTTTAGCG
9810647 TCGCTTCTAT
Statistics
Matches: 123, Mismatches: 17, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
128 8 0.07
129 115 0.93
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (129 bp):
CAAGACCTTTAGCGGCGTTTTTGGGAAAAACGCCGCTAAAGACCAAGACCTTTAGCGGTGCCTTT
TCAAAAAACGCCGCTAAAAAACAAGACCTTTAGCGACGCTTTTCCCACAAAAGCAGTTAAAGCT
Found at i:9811555 original size:2 final size:2
Alignment explanation
Indices: 9811548--9811572 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
9811538 CATAAAACTG
9811548 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
9811573 TATATGACAA
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:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:9816454 original size:41 final size:41
Alignment explanation
Indices: 9816392--9816686 Score: 218
Period size: 41 Copynumber: 7.2 Consensus size: 41
9816382 TCAATTTGGG
* * *
9816392 ATTAGCGGCGCTTTTTCAAAAAAGCCGCTAAAGACCCGGGC
1 ATTAGCGGCGTTTTTTAAAAAAAGCCGCTAAAGACCCGAGC
* * *
9816433 ATTAGCGGC-TTTTTTTAAAAAAGCGTCGCTAAAAACCCAAGC
1 ATTAGCGGCGTTTTTTAAAAAAAGC--CGCTAAAGACCCGAGC
* * *
9816475 ATTAGCGGCG-TTTTTAAAAAAGTGCCGCTAAATACCCGAGT
1 ATTAGCGGCGTTTTTTAAAAAA-AGCCGCTAAAGACCCGAGC
* * * ** * *
9816516 AATAGCGGCATTTTTGAAAAAGCGCCGCTAAAAACCCAAGC
1 ATTAGCGGCGTTTTTTAAAAAAAGCCGCTAAAGACCCGAGC
** * * * *
9816557 ATTAATGCCGTTTTTGAAAAAGCA-CCGCTAAAGACCCGACC
1 ATTAGCGGCGTTTTTTAAAAA-AAGCCGCTAAAGACCCGAGC
* * ** * * *
9816598 ATTAGCGGCATTTTTGAAAAAGCGCCGCCAAAGGCTCGAGC
1 ATTAGCGGCGTTTTTTAAAAAAAGCCGCTAAAGACCCGAGC
* * * * * *
9816639 ATTAGCGGCGCTTTTTCAAAAATGCTGCTAAAGCCCCCAGC
1 ATTAGCGGCGTTTTTTAAAAAAAGCCGCTAAAGACCCGAGC
9816680 ATTAGCG
1 ATTAGCG
9816687 ATGCTTTTCC
Statistics
Matches: 198, Mismatches: 49, Indels: 14
0.76 0.19 0.05
Matches are distributed among these distances:
40 13 0.07
41 142 0.72
42 41 0.21
43 2 0.01
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.22
Consensus pattern (41 bp):
ATTAGCGGCGTTTTTTAAAAAAAGCCGCTAAAGACCCGAGC
Found at i:9816547 original size:82 final size:82
Alignment explanation
Indices: 9816392--9816686 Score: 328
Period size: 82 Copynumber: 3.6 Consensus size: 82
9816382 TCAATTTGGG
* * *
9816392 ATTAGCGGCGCTTTTTCAAAAAA-GCCGCTAAAGACCCGGGCATTAGCGGCTTTTTTTAAAAAAG
1 ATTAGCGGCGCTTTTT-AAAAAATGCCGCTAAAGACCCGAGCATTAGCGGC-ATTTTTGAAAAAG
*
9816456 CGTCGCTAAAAACCCAAGC
64 CGCCGCTAAAAACCCAAGC
* * *
9816475 ATTAGCGGCG-TTTTTAAAAAAGTGCCGCTAAATACCCGAGTAATAGCGGCATTTTTGAAAAAGC
1 ATTAGCGGCGCTTTTTAAAAAA-TGCCGCTAAAGACCCGAGCATTAGCGGCATTTTTGAAAAAGC
9816539 GCCGCTAAAAACCCAAGC
65 GCCGCTAAAAACCCAAGC
** * * *
9816557 ATTAATGCCG-TTTTTGAAAAA-GCACCGCTAAAGACCCGACCATTAGCGGCATTTTTGAAAAAG
1 ATTAGCGGCGCTTTTTAAAAAATG--CCGCTAAAGACCCGAGCATTAGCGGCATTTTTGAAAAAG
* ** * *
9816620 CGCCGCCAAAGGCTCGAGC
64 CGCCGCTAAAAACCCAAGC
* * * *
9816639 ATTAGCGGCGCTTTTTCAAAAATGCTGCTAAAGCCCCCAGCATTAGCG
1 ATTAGCGGCGCTTTTTAAAAAATGCCGCTAAAGACCCGAGCATTAGCG
9816687 ATGCTTTTCC
Statistics
Matches: 178, Mismatches: 28, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
80 1 0.01
81 6 0.03
82 127 0.71
83 43 0.24
84 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.22
Consensus pattern (82 bp):
ATTAGCGGCGCTTTTTAAAAAATGCCGCTAAAGACCCGAGCATTAGCGGCATTTTTGAAAAAGCG
CCGCTAAAAACCCAAGC
Found at i:9816669 original size:123 final size:124
Alignment explanation
Indices: 9816392--9816684 Score: 293
Period size: 123 Copynumber: 2.4 Consensus size: 124
9816382 TCAATTTGGG
* ** * **
9816392 ATTAGCGGCGCTTTTTCAAAAAAGCCGCTAAAGACCCGGGCATTAGCGGCTTTTTTTAAAAAAGC
1 ATTAGCGGCGCTTTTTCAAAAAAGCCGCTAAAAACCCAAGCATTAGAGGCCGTTTTTAAAAAAGC
** * * * * * *
9816457 GTCGCTAAAAACCCAAGCATTAGCGGCGTTTTTAAAAAAGTGCCGCTAAATACCCGAGT
66 ACCGCTAAAAACCCAACCATTAGCGGCATTTTTAAAAAAGCGCCGCCAAAGACCCGAGC
* * * * * *
9816516 AATAGCGGC-ATTTTTGAAAAAGCGCCGCTAAAAACCCAAGCATTA-ATGCCGTTTTTGAAAAAG
1 ATTAGCGGCGCTTTTTCAAAAA-AGCCGCTAAAAACCCAAGCATTAGAGGCCGTTTTTAAAAAAG
* * * * *
9816579 CACCGCTAAAGACCCGACCATTAGCGGCATTTTTGAAAAAGCGCCGCCAAAGGCTCGAGC
65 CACCGCTAAAAACCCAACCATTAGCGGCATTTTTAAAAAAGCGCCGCCAAAGACCCGAGC
* * ** *
9816639 ATTAGCGGCGCTTTTTCAAAAATGCTGCTAAAGCCCCCAGCATTAG
1 ATTAGCGGCGCTTTTTCAAAAAAGCCGCTAAAAACCCAAGCATTAG
9816685 CGATGCTTTT
Statistics
Matches: 133, Mismatches: 33, Indels: 6
0.77 0.19 0.03
Matches are distributed among these distances:
123 96 0.72
124 37 0.28
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.23
Consensus pattern (124 bp):
ATTAGCGGCGCTTTTTCAAAAAAGCCGCTAAAAACCCAAGCATTAGAGGCCGTTTTTAAAAAAGC
ACCGCTAAAAACCCAACCATTAGCGGCATTTTTAAAAAAGCGCCGCCAAAGACCCGAGC
Found at i:9816693 original size:41 final size:41
Alignment explanation
Indices: 9816636--9816716 Score: 108
Period size: 41 Copynumber: 2.0 Consensus size: 41
9816626 CAAAGGCTCG
* * * *
9816636 AGCATTAGCGGCGCTTTTTCAAAAATGCTGCTAAAGCCCCC
1 AGCATTAGCGACGCTTTTCCAAAAACGCCGCTAAAGCCCCC
* *
9816677 AGCATTAGCGATGCTTTTCCAAAAACGCCGTTAAAGCCCC
1 AGCATTAGCGACGCTTTTCCAAAAACGCCGCTAAAGCCCC
9816717 GAAATGTCAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (41 bp):
AGCATTAGCGACGCTTTTCCAAAAACGCCGCTAAAGCCCCC
Found at i:9816858 original size:40 final size:39
Alignment explanation
Indices: 9816771--9816859 Score: 90
Period size: 40 Copynumber: 2.3 Consensus size: 39
9816761 GTTTTTCCAA
* * *
9816771 AAAACGCCGCTAATGCTCATTTTTCGCGGCGCTTTCCTG
1 AAAACGCCGCTAATGCTCATTTTTAGCAGCGCTTTCATG
* * * *
9816810 GAAGCGCCGCTAATGCTTGATTTTTAGCAGCG-TTTTATG
1 AAAACGCCGCTAATGC-TCATTTTTAGCAGCGCTTTCATG
9816849 TAAAACGCCGC
1 -AAAACGCCGC
9816860 CCGCTAATGC
Statistics
Matches: 39, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
39 19 0.49
40 20 0.51
ACGTcount: A:0.21, C:0.26, G:0.22, T:0.30
Consensus pattern (39 bp):
AAAACGCCGCTAATGCTCATTTTTAGCAGCGCTTTCATG
Found at i:9816913 original size:12 final size:12
Alignment explanation
Indices: 9816896--9816921 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
9816886 TTTTTTATCC
9816896 AAACGCCGCTAA
1 AAACGCCGCTAA
9816908 AAACGCCGCTAA
1 AAACGCCGCTAA
9816920 AA
1 AA
9816922 GTCTGTTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAACGCCGCTAA
Found at i:9822229 original size:208 final size:211
Alignment explanation
Indices: 9821867--9822287 Score: 794
Period size: 208 Copynumber: 2.0 Consensus size: 211
9821857 AAGTGGCTGC
9821867 TTTTGGTGGACCTACGATACCCACCATCAAATTTGAATCGTATCATGCATGCTTCCATGAAATTA
1 TTTTGGTGGACCTACGATACCCACCATCAAATTTGAATCG-ATCATGCATGCTTCCATGAAATTA
9821932 ATTTCATCTACATATGAATGAGGTCCCCATACACCCACCATGTGAATCACAATCATCTGCGGGAC
65 ATTTCATCTACATATGAATGAGGTCCCCATACACCCACCATGTGAATCACAATCATCTGCGGGAC
9821997 TCACTACATCTGGCTGAGTGATAGCTTGGGTCCAAACCCTGATTCTACCTAAACTCTGCACTTCC
130 TCACTACATCTGGCTGAGTGATAGCTTGGGTCCAAACCCTGATTCTACCTAAACTCTGCACTTCC
9822062 TACGAATTGGTACTTCA
195 TACGAATTGGTACTTCA
*
9822079 TTTTGGTGGACCTACGATACCCACCATCAAATTTGAGTCG-T-AT-CATGCTTCCATGAAATTAA
1 TTTTGGTGGACCTACGATACCCACCATCAAATTTGAATCGATCATGCATGCTTCCATGAAATTAA
*
9822141 TTTCATCTACATATGAATGAGGTCCCCATACACCCACCATGTGAATCACAATCATCTGCTGGACT
66 TTTCATCTACATATGAATGAGGTCCCCATACACCCACCATGTGAATCACAATCATCTGCGGGACT
9822206 CACTACATCTGGCTGAGTGATAGCTTGGGTCCAAACCCTGATTCTACCTAAACTCTGCACTTCCT
131 CACTACATCTGGCTGAGTGATAGCTTGGGTCCAAACCCTGATTCTACCTAAACTCTGCACTTCCT
9822271 ACGAATTGGTACTTCA
196 ACGAATTGGTACTTCA
9822287 T
1 T
9822288 AACCTACACC
Statistics
Matches: 207, Mismatches: 2, Indels: 4
0.97 0.01 0.02
Matches are distributed among these distances:
208 165 0.80
209 2 0.01
210 1 0.00
212 39 0.19
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.30
Consensus pattern (211 bp):
TTTTGGTGGACCTACGATACCCACCATCAAATTTGAATCGATCATGCATGCTTCCATGAAATTAA
TTTCATCTACATATGAATGAGGTCCCCATACACCCACCATGTGAATCACAATCATCTGCGGGACT
CACTACATCTGGCTGAGTGATAGCTTGGGTCCAAACCCTGATTCTACCTAAACTCTGCACTTCCT
ACGAATTGGTACTTCA
Found at i:9833363 original size:45 final size:46
Alignment explanation
Indices: 9833297--9833387 Score: 148
Period size: 45 Copynumber: 2.0 Consensus size: 46
9833287 ATGTATTTTG
*
9833297 AAATTAAAAAATATATTAAATAT-AAAAAATATGATTTTTTAATAA
1 AAATTAAAAAATATATGAAATATAAAAAAATATGATTTTTTAATAA
* *
9833342 AAATTTAAAAATATATGAAATATAAAAAAATGTGATTTTTTAATAA
1 AAATTAAAAAATATATGAAATATAAAAAAATATGATTTTTTAATAA
9833388 GATGTATCTT
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
45 21 0.50
46 21 0.50
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.37
Consensus pattern (46 bp):
AAATTAAAAAATATATGAAATATAAAAAAATATGATTTTTTAATAA
Found at i:9844851 original size:23 final size:23
Alignment explanation
Indices: 9844821--9844894 Score: 105
Period size: 23 Copynumber: 3.2 Consensus size: 23
9844811 TGTTATTGAC
9844821 CAGTGGTAGCTATGGCTACATAT
1 CAGTGGTAGCTATGGCTACATAT
* **
9844844 CAGTGGTAGCTACGGCTATGTAT
1 CAGTGGTAGCTATGGCTACATAT
9844867 CAGTGGTAGCT-TCGGCTACATAT
1 CAGTGGTAGCTAT-GGCTACATAT
9844890 CAGTG
1 CAGTG
9844895 TGGCACTTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (23 bp):
CAGTGGTAGCTATGGCTACATAT
Found at i:9846131 original size:49 final size:49
Alignment explanation
Indices: 9846072--9846211 Score: 217
Period size: 49 Copynumber: 2.9 Consensus size: 49
9846062 CAATAAGTGA
* *
9846072 TATGTGATTCCGTGTAAAACCATAGCTGGGCTATGGCATCGGTATATGT
1 TATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGATATATGT
*
9846121 TATGTGATTCCGTGTAAGACCATAGCTGGGCTATTGCATCGATATATGT
1 TATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGATATATGT
* * * *
9846170 TATGTGATTACATGTAAGACCATAGTTGGACTATGGCATCGA
1 TATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGA
9846212 GAAAATAAGT
Statistics
Matches: 83, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 83 1.00
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (49 bp):
TATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGATATATGT
Found at i:9849644 original size:20 final size:20
Alignment explanation
Indices: 9849619--9849656 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
9849609 TAAAAATGCT
9849619 AACAGAGACATCGAAGTGCA
1 AACAGAGACATCGAAGTGCA
*
9849639 AACAGAGGCATCGAAGTG
1 AACAGAGACATCGAAGTG
9849657 TAATCCCGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.18, G:0.29, T:0.11
Consensus pattern (20 bp):
AACAGAGACATCGAAGTGCA
Found at i:9852039 original size:29 final size:29
Alignment explanation
Indices: 9852001--9852293 Score: 299
Period size: 29 Copynumber: 9.9 Consensus size: 29
9851991 TCAACTATCG
* *
9852001 AATTATGAAAAAGGATGGTGACGACCATC
1 AATTATGAAAAGGGATGGTGATGACCATC
* *
9852030 AACTATGAAAAGGGATGGTGATGACCATTG
1 AATTATGAAAAGGGATGGTGATGACCA-TC
* * *
9852060 AATTATGAAAAAGGATAGCTTCGATTG-TCA--
1 AATTATGAAAAGGGAT-G-GT-GA-TGACCATC
9852090 AATTATGAAAAGGGATGGTGATGACCATC
1 AATTATGAAAAGGGATGGTGATGACCATC
*
9852119 AACTATGAAAAGGGATGGTGATGACCATC
1 AATTATGAAAAGGGATGGTGATGACCATC
* *
9852148 AACTATGAAAAGGGATGGTGATGACCATTG
1 AATTATGAAAAGGGATGGTGATGACCA-TC
* * *
9852178 AATTATGAAAAGGGATAGCT--TCAGCTATC
1 AATTATGAAAAGGGAT-GGTGATGA-CCATC
* **
9852207 GAATTATGAAAAAGGATGGTGACAACCATC
1 -AATTATGAAAAGGGATGGTGATGACCATC
*
9852237 AATTATGAAAAGGGATGGTGATGACCATTG
1 AATTATGAAAAGGGATGGTGATGACCA-TC
*
9852267 AATTATGAAAAGGGATGGTGATAACCA
1 AATTATGAAAAGGGATGGTGATGACCA
9852294 CCGTGATTTT
Statistics
Matches: 221, Mismatches: 28, Indels: 29
0.79 0.10 0.10
Matches are distributed among these distances:
26 2 0.01
27 4 0.02
28 1 0.00
29 109 0.49
30 94 0.43
31 4 0.02
32 1 0.00
33 4 0.02
34 2 0.01
ACGTcount: A:0.39, C:0.11, G:0.26, T:0.24
Consensus pattern (29 bp):
AATTATGAAAAGGGATGGTGATGACCATC
Found at i:9852134 original size:89 final size:88
Alignment explanation
Indices: 9851973--9852163 Score: 276
Period size: 89 Copynumber: 2.2 Consensus size: 88
9851963 AAATAGCATT
*
9851973 TTAT-AAAAAGGGATAGCTTCAACTATCGAATTATGAAAAAGGATGGTGACGACCATCAACTATG
1 TTATGAAAAA-GGATAGCTTCAACTATCAAATTATGAAAAAGGATGGTGACGACCATCAACTATG
*
9852037 AAAAGGGATGGTGATGACCATTGAA
65 AAAAGGGATGGTGATGACCA-TCAA
* * * * *
9852062 TTATGAAAAAGGATAGCTTCGATTGTCAAATTATGAAAAGGGATGGTGATGACCATCAACTATGA
1 TTATGAAAAAGGATAGCTTCAACTATCAAATTATGAAAAAGGATGGTGACGACCATCAACTATGA
9852127 AAAGGGATGGTGATGACCATCAA
66 AAAGGGATGGTGATGACCATCAA
* *
9852150 CTATGAAAAGGGAT
1 TTATGAAAAAGGAT
9852164 GGTGATGACC
Statistics
Matches: 92, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
88 15 0.16
89 72 0.78
90 5 0.05
ACGTcount: A:0.40, C:0.12, G:0.25, T:0.24
Consensus pattern (88 bp):
TTATGAAAAAGGATAGCTTCAACTATCAAATTATGAAAAAGGATGGTGACGACCATCAACTATGA
AAAGGGATGGTGATGACCATCAA
Found at i:9852212 original size:118 final size:118
Alignment explanation
Indices: 9852004--9852293 Score: 438
Period size: 118 Copynumber: 2.4 Consensus size: 118
9851994 ACTATCGAAT
* *
9852004 TATGAAAAAGGATGGTGACGACCATCAACTATGAAAAGGGATGGTGATGACCATTGAATTATGAA
1 TATGAAAAGGGATGGTGATGACCATCAACTATGAAAAGGGATGGTGATGACCATTGAATTATGAA
* * * **
9852069 AAAGGATAGCTTCGATTGTCAAATTATGAAAAGGGATGGTGATGACCATCAAC
66 AAAGGATAGCTTCGACTATCAAATTATGAAAAAGGATGGTGACAACCATCAAC
9852122 TATGAAAAGGGATGGTGATGACCATCAACTATGAAAAGGGATGGTGATGACCATTGAATTATGAA
1 TATGAAAAGGGATGGTGATGACCATCAACTATGAAAAGGGATGGTGATGACCATTGAATTATGAA
* * *
9852187 AAGGGATAGCTTC-AGCTATCGAATTATGAAAAAGGATGGTGACAACCATCAAT
66 AAAGGATAGCTTCGA-CTATCAAATTATGAAAAAGGATGGTGACAACCATCAAC
* * *
9852240 TATGAAAAGGGATGGTGATGACCATTGAATTATGAAAAGGGATGGTGATAACCA
1 TATGAAAAGGGATGGTGATGACCA-TCAACTATGAAAAGGGATGGTGATGACCA
9852294 CCGTGATTTT
Statistics
Matches: 157, Mismatches: 13, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
117 1 0.01
118 130 0.83
119 26 0.17
ACGTcount: A:0.39, C:0.11, G:0.26, T:0.24
Consensus pattern (118 bp):
TATGAAAAGGGATGGTGATGACCATCAACTATGAAAAGGGATGGTGATGACCATTGAATTATGAA
AAAGGATAGCTTCGACTATCAAATTATGAAAAAGGATGGTGACAACCATCAAC
Found at i:9854908 original size:19 final size:19
Alignment explanation
Indices: 9854857--9854910 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
9854847 AATCTTCAAG
*
9854857 GATATGCAATCTTAGATAT
1 GATATGCAATCTTGGATAT
9854876 GATATGCAATCTTGGATAT
1 GATATGCAATCTTGGATAT
9854895 GATATGCAATCTTGGA
1 GATATGCAATCTTGGA
9854911 AGATATGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.33, C:0.11, G:0.20, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTGGATAT
Found at i:9854936 original size:22 final size:20
Alignment explanation
Indices: 9854857--9854919 Score: 94
Period size: 19 Copynumber: 3.1 Consensus size: 20
9854847 AATCTTCAAG
9854857 GATATGCAATCTT-AGATAT
1 GATATGCAATCTTGAGATAT
9854876 GATATGCAATCTTG-GATAT
1 GATATGCAATCTTGAGATAT
9854895 GATATGCAATCTTGGAAGATAT
1 GATATGCAATCTT-G-AGATAT
9854917 GAT
1 GAT
9854920 TTTGTAATCT
Statistics
Matches: 40, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
19 31 0.77
20 1 0.03
22 8 0.20
ACGTcount: A:0.35, C:0.10, G:0.21, T:0.35
Consensus pattern (20 bp):
GATATGCAATCTTGAGATAT
Found at i:9857384 original size:12 final size:12
Alignment explanation
Indices: 9857367--9857394 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
9857357 GAGAGAAAGG
9857367 CGATAGCTTGGC
1 CGATAGCTTGGC
9857379 CGATAGCTTGGC
1 CGATAGCTTGGC
9857391 CGAT
1 CGAT
9857395 GGATATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.18, C:0.25, G:0.32, T:0.25
Consensus pattern (12 bp):
CGATAGCTTGGC
Found at i:9863193 original size:88 final size:88
Alignment explanation
Indices: 9863039--9863671 Score: 1005
Period size: 88 Copynumber: 7.2 Consensus size: 88
9863029 GAGCAGTCAG
** * * * *
9863039 TGAAGATAATAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAGATACCAGCCTTACCT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACCGACAGTGAAGCAGATCGAAGATACCAGCCTTGCCT
*
9863104 CCATGGGTTGTAGTGGAGCAGGT
66 CCCTGGGTTGTAGTGGAGCAGGT
* * *
9863127 TGAAGATAGCAGATCTTGCCTTCCTGTACCGACAATGAAGCAGATCGAAGATACCGGTCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACCGACAGTGAAGCAGATCGAAGATACCAGCCTTGCCT
*
9863192 CCCTGGGTCGTAGTGGAGCAGGT
66 CCCTGGGTTGTAGTGGAGCAGGT
*
9863215 TGAAGATAGCAGATCTTGCCTTCCTGTACCGGCAGTGAAGCAGATCGAAGATACCAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACCGACAGTGAAGCAGATCGAAGATACCAGCCTTGCCT
* * *
9863280 CCCTAGGTCGTAGTGGAACAGGT
66 CCCTGGGTTGTAGTGGAGCAGGT
9863303 TGAAGATAGCAGATCTTGCCTTCCTGTACCGACAGTGAAGCAGATCGAAGATACCAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACCGACAGTGAAGCAGATCGAAGATACCAGCCTTGCCT
9863368 CCCTGGGTTGTAGTGGAGCAGGT
66 CCCTGGGTTGTAGTGGAGCAGGT
* * *
9863391 TAAAGATAACAGATCTTGCCTTCCTGTACCGACAATGAAGCAGATCGAAGATACCAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACCGACAGTGAAGCAGATCGAAGATACCAGCCTTGCCT
9863456 CCCTGGGTTGTAGTGGAGCAGGT
66 CCCTGGGTTGTAGTGGAGCAGGT
*
9863479 TGAAGATAGCAGATCTTGCCTTCCTGTACCGACAGTGAAGCACATCGAAGATACCAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACCGACAGTGAAGCAGATCGAAGATACCAGCCTTGCCT
* *
9863544 CCTTGGGTCGTAGTGGAGCAGGT
66 CCCTGGGTTGTAGTGGAGCAGGT
* *
9863567 TGAAGATAGCAGATCTTGTCTTCCTGTACCGACAGTGAAGCAGATCGAAGATACCAGCCTTACCT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACCGACAGTGAAGCAGATCGAAGATACCAGCCTTGCCT
* * * *
9863632 CCCTGGGTTGTCGTGAAGTAGAT
66 CCCTGGGTTGTAGTGGAGCAGGT
* *
9863655 CGAAGAAAGCAGATCTT
1 TGAAGATAGCAGATCTT
9863672 ATCTTTATGT
Statistics
Matches: 504, Mismatches: 41, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
88 504 1.00
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.24
Consensus pattern (88 bp):
TGAAGATAGCAGATCTTGCCTTCCTGTACCGACAGTGAAGCAGATCGAAGATACCAGCCTTGCCT
CCCTGGGTTGTAGTGGAGCAGGT
Found at i:9863696 original size:44 final size:44
Alignment explanation
Indices: 9863643--9864056 Score: 512
Period size: 44 Copynumber: 9.4 Consensus size: 44
9863633 CCTGGGTTGT
* *
9863643 CGTGAAGTAGATCGAAGAAAGCAGATCTTATCTTTATGTATTGG
1 CGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG
* *
9863687 CGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTGG
1 CGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG
9863731 CGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG
1 CGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG
* * * *
9863775 CGTAAAGTAGATCAAAGATAGCAGATATTGTCTTCATGTATTGG
1 CGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG
* * * * *
9863819 CGTGAAATAGATCAAATATAGCAGATATTGTCTTCATGTATTGG
1 CGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG
* *
9863863 CGTGAAGTAGATCGAA-AATAGCAGATCTTGTCTTC-TCATACTGG
1 CGTGAAGTAGATCGAAGAA-AGCAGATCTTGTCTTCAT-GTATTGG
* * *
9863907 TGGCGAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTATTGG
1 -CGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG
*
9863952 C--GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTAG
1 CGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG
* * * ** ***
9863994 CATGAAATAGATCAAAGGTAGCAGATCTTGTCTTCCCATATTGG
1 CGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG
*
9864038 TGGTGAAGTAGATCGAAGA
1 -CGTGAAGTAGATCGAAGA
9864057 TACAAGTCTT
Statistics
Matches: 322, Mismatches: 40, Indels: 15
0.85 0.11 0.04
Matches are distributed among these distances:
42 40 0.12
43 2 0.01
44 230 0.71
45 47 0.15
46 3 0.01
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.30
Consensus pattern (44 bp):
CGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG
Found at i:9864447 original size:19 final size:19
Alignment explanation
Indices: 9864401--9864456 Score: 85
Period size: 21 Copynumber: 2.8 Consensus size: 19
9864391 AATCTTTAAG
9864401 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
9864420 GATATATGCAATCTTGGATAT
1 G--ATATGCAATCTTAGATAT
9864441 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
9864457 AGATATGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 15 0.45
21 18 0.55
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:9870775 original size:26 final size:25
Alignment explanation
Indices: 9870702--9870775 Score: 87
Period size: 27 Copynumber: 2.8 Consensus size: 25
9870692 CCAAATATAT
*
9870702 GGCTCTTCAGAGCTTCTCGATTAAA
1 GGCTCTTCAGAGCTTCCCGATTAAA
*
9870727 GGCTCTTTCATAAGCTTCCCGATTAATTA
1 GGCTC-TTCA-GAGCTTCCCGATTAA--A
9870756 -GCTCTTCAGAGCTTCCCGAT
1 GGCTCTTCAGAGCTTCCCGAT
9870776 ATTGGCTCGC
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
25 5 0.12
26 15 0.36
27 17 0.40
28 4 0.10
29 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.18, T:0.34
Consensus pattern (25 bp):
GGCTCTTCAGAGCTTCCCGATTAAA
Found at i:9874902 original size:5 final size:5
Alignment explanation
Indices: 9874892--9874922 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
9874882 CTTCTTCCCC
9874892 TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT T
1 TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT T
9874923 TACTTGCTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TCTTT
Found at i:9882680 original size:41 final size:40
Alignment explanation
Indices: 9882650--9882747 Score: 160
Period size: 41 Copynumber: 2.4 Consensus size: 40
9882640 AGCTCTAGGC
9882650 CTAGCAGGCTTAATGCCAGTGAAATAATTCAGACTTTACGT
1 CTAGCAGGCTTAATGCCAGTGAAAT-ATTCAGACTTTACGT
* *
9882691 CTAGCAGGCTTAATGCCGGTGAAATATTTTAGACTTTACGT
1 CTAGCAGGCTTAATGCCAGTGAAATA-TTCAGACTTTACGT
9882732 CTAGCAGGCTTAATGC
1 CTAGCAGGCTTAATGC
9882748 TGGTGTTCTG
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
40 1 0.02
41 53 0.98
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (40 bp):
CTAGCAGGCTTAATGCCAGTGAAATATTCAGACTTTACGT
Found at i:9882769 original size:41 final size:41
Alignment explanation
Indices: 9882650--9882795 Score: 154
Period size: 41 Copynumber: 3.6 Consensus size: 41
9882640 AGCTCTAGGC
*
9882650 CTAGCAGGCTTAATGCCAGTGAAATA-ATTCAGACTTTACGT
1 CTAGCAGGCTTAATGCCGGTGAAATATA-TCAGACTTTACGT
* *
9882691 CTAGCAGGCTTAATGCCGGTGAAATATTTTAGACTTTACGT
1 CTAGCAGGCTTAATGCCGGTGAAATATATCAGACTTTACGT
* *** * * *
9882732 CTAGCAGGCTTAATGCTGGTGTTCTGA-ATCAGGCTTTAAGC
1 CTAGCAGGCTTAATGCCGGTGAAAT-ATATCAGACTTTACGT
9882773 CTAGCAGGC-TACATGCCGGTGAA
1 CTAGCAGGCTTA-ATGCCGGTGAA
9882796 TCATTTTAAA
Statistics
Matches: 87, Mismatches: 15, Indels: 6
0.81 0.14 0.06
Matches are distributed among these distances:
40 2 0.02
41 84 0.97
42 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (41 bp):
CTAGCAGGCTTAATGCCGGTGAAATATATCAGACTTTACGT
Found at i:9893352 original size:20 final size:20
Alignment explanation
Indices: 9893314--9893357 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
9893304 ACTCTGTTCG
9893314 CACTTCAGTGCCTCTATTTA
1 CACTTCAGTGCCTCTATTTA
* *
9893334 CACTTCAGTGTCTCTATTTG
1 CACTTCAGTGCCTCTATTTA
9893354 CACT
1 CACT
9893358 ATGGTACCTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.18, C:0.30, G:0.11, T:0.41
Consensus pattern (20 bp):
CACTTCAGTGCCTCTATTTA
Found at i:9893368 original size:20 final size:20
Alignment explanation
Indices: 9893345--9893408 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
9893335 ACTTCAGTGT
9893345 CTCTATTTGCACTATGGTAC
1 CTCTATTTGCACTATGGTAC
* * *
9893365 CTCTGA-TTGCACAATCGTGC
1 CTCT-ATTTGCACTATGGTAC
*
9893385 TTCTATTTGCACT-TCGGTAC
1 CTCTATTTGCACTAT-GGTAC
9893405 CTCT
1 CTCT
9893409 GTTACACATT
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
19 2 0.06
20 30 0.91
21 1 0.03
ACGTcount: A:0.17, C:0.28, G:0.16, T:0.39
Consensus pattern (20 bp):
CTCTATTTGCACTATGGTAC
Found at i:9898865 original size:334 final size:334
Alignment explanation
Indices: 9898256--9898927 Score: 1281
Period size: 334 Copynumber: 2.0 Consensus size: 334
9898246 ATTAAAAATA
9898256 TTGATTTTTGTGATATATTTGATGATTTAGCTTGCTGATTGGATTGAATTAATAGCCAAATAATT
1 TTGATTTTTGTGATATATTTGATGATTTAGCTTGCTGATTGGATTGAATTAATAGCCAAATAATT
9898321 AATTTTGTAAGTGGCCGAGCCAGGTACGTTTCGAGTCCGAAAAGATTAATGTGTTAGCAAAGTTG
66 AATTTTGTAAGTGGCCGAGCCAGGTACGTTTCGAGTCCGAAAAGATTAATGTGTTAGCAAAGTTG
* *
9898386 CTAGTTTGACAGTGTGGTTATGTGATTGATGTTGTGATTCATGATTGTGTTATTTGGTATGATAT
131 CTAGTTTGACAGTGTGGTTATGTGATTGACGTTGTGATTCATGATTGTGTTATTTGGTATGAGAT
*
9898451 TGGTTGTATATATAGCATGATTTTTTGAAATATGAGCTTATGCATGATATAATTGCATGGAAAAT
196 TGGTTGTATATATAGCATGATTTTTTGAAATATGAGCTTATGCATGATATAATGGCATGGAAAAT
9898516 ATGTTATGTTATATTGAAAAGGTTGCTATACATGCACATTGGAAATTCGTAAAAGTATTTGAAAT
261 ATGTTATGTTATATTGAAAAGGTTGCTATACATGCACATTGGAAATTCGTAAAAGTATTTGAAAT
9898581 TGTGTAATG
326 TGTGTAATG
9898590 TTGATTTTTGTGATATATTTGATGATTTAGCTTGCTGATTGGATTGAATTAATAGCCAAATAATT
1 TTGATTTTTGTGATATATTTGATGATTTAGCTTGCTGATTGGATTGAATTAATAGCCAAATAATT
*
9898655 AATTTTGTAAGTGGCCGAGCCAGGTACGTTTCGAGTCCTAAAAGATTAATGTGTTAGCAAAGTTG
66 AATTTTGTAAGTGGCCGAGCCAGGTACGTTTCGAGTCCGAAAAGATTAATGTGTTAGCAAAGTTG
*
9898720 CTAGTTTGACAGTGTGGTTATGTGATTGACGTTGTGGTTCATGATTGTGTTATTTGGTATGAGAT
131 CTAGTTTGACAGTGTGGTTATGTGATTGACGTTGTGATTCATGATTGTGTTATTTGGTATGAGAT
9898785 TGGTTGTATATATAGCATGATTTTTTGAAATATGAGCTTATGCATGATATAATGGCATGGAAAAT
196 TGGTTGTATATATAGCATGATTTTTTGAAATATGAGCTTATGCATGATATAATGGCATGGAAAAT
* *
9898850 ATGTTATGTTATATTGAAAAGGTTGCTATACATGCACATTGGAAATTGGTAAAAGTGTTTGAAAT
261 ATGTTATGTTATATTGAAAAGGTTGCTATACATGCACATTGGAAATTCGTAAAAGTATTTGAAAT
9898915 TGTGTAATG
326 TGTGTAATG
9898924 TTGA
1 TTGA
9898928 ATGATACCAT
Statistics
Matches: 331, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
334 331 1.00
ACGTcount: A:0.29, C:0.07, G:0.23, T:0.40
Consensus pattern (334 bp):
TTGATTTTTGTGATATATTTGATGATTTAGCTTGCTGATTGGATTGAATTAATAGCCAAATAATT
AATTTTGTAAGTGGCCGAGCCAGGTACGTTTCGAGTCCGAAAAGATTAATGTGTTAGCAAAGTTG
CTAGTTTGACAGTGTGGTTATGTGATTGACGTTGTGATTCATGATTGTGTTATTTGGTATGAGAT
TGGTTGTATATATAGCATGATTTTTTGAAATATGAGCTTATGCATGATATAATGGCATGGAAAAT
ATGTTATGTTATATTGAAAAGGTTGCTATACATGCACATTGGAAATTCGTAAAAGTATTTGAAAT
TGTGTAATG
Found at i:9901882 original size:12 final size:12
Alignment explanation
Indices: 9901865--9901890 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
9901855 CAAAACAGGC
9901865 TTTTAGCGGCGT
1 TTTTAGCGGCGT
9901877 TTTTAGCGGCGT
1 TTTTAGCGGCGT
9901889 TT
1 TT
9901891 GGATAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTTAGCGGCGT
Found at i:9901945 original size:40 final size:40
Alignment explanation
Indices: 9901879--9902006 Score: 145
Period size: 40 Copynumber: 3.2 Consensus size: 40
9901869 AGCGGCGTTT
* *
9901879 TTAGCGGCG-TTTGGATAAAAAACGCCGCTAAAGATCGAGCA
1 TTAGCGGCGCTTT--ATGAAAAACGCCGCTAAAGATCAAGCA
* * *
9901920 TTAGCGGCGCTTTATGGAAAACGCCGCTAAAGGTCTAGCA
1 TTAGCGGCGCTTTATGAAAAACGCCGCTAAAGATCAAGCA
* *
9901960 TTAGCGGCGCTTTATTAAAAACGCCACTAGAA-AT-AAGCA
1 TTAGCGGCGCTTTATGAAAAACGCCGCTA-AAGATCAAGCA
9901999 TTAGCGGC
1 TTAGCGGC
9902007 ATTTTTCACA
Statistics
Matches: 76, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
39 12 0.16
40 50 0.66
41 11 0.14
42 3 0.04
ACGTcount: A:0.32, C:0.21, G:0.25, T:0.22
Consensus pattern (40 bp):
TTAGCGGCGCTTTATGAAAAACGCCGCTAAAGATCAAGCA
Found at i:9902130 original size:41 final size:41
Alignment explanation
Indices: 9902070--9902273 Score: 300
Period size: 41 Copynumber: 5.0 Consensus size: 41
9902060 TTTTCGGGGG
**
9902070 CTTTAGCGATGTTTTTGAGGAAGCGCCGCTAATGCTCAGGC
1 CTTTAGCGGCGTTTTTGAGGAAGCGCCGCTAATGCTCAGGC
* **
9902111 CTTTAGCGGCGTTTATGAGGAAGCGTTGCTAATGCTCAGGC
1 CTTTAGCGGCGTTTTTGAGGAAGCGCCGCTAATGCTCAGGC
* * *
9902152 CTTTAGCGGCGTTTTTGAGGAAGCGTCACTAATGCTCATGC
1 CTTTAGCGGCGTTTTTGAGGAAGCGCCGCTAATGCTCAGGC
* **
9902193 CTTTAGCGGCATTTTTGATAAAGCGCCGCTAATGCTCAGGC
1 CTTTAGCGGCGTTTTTGAGGAAGCGCCGCTAATGCTCAGGC
*
9902234 CTTTAGCGGCGTTTTTGAGTAAGCGCCGCTAATGCTCAGG
1 CTTTAGCGGCGTTTTTGAGGAAGCGCCGCTAATGCTCAGG
9902274 GATTTAAAAT
Statistics
Matches: 145, Mismatches: 18, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 145 1.00
ACGTcount: A:0.20, C:0.22, G:0.28, T:0.30
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTGAGGAAGCGCCGCTAATGCTCAGGC
Done.