Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 145 of 203
Found at i:46136220 original size:28 final size:29
Alignment explanation
Indices: 46136164--46136223 Score: 95
Period size: 28 Copynumber: 2.1 Consensus size: 29
46136154 AAAATAAAAA
**
46136164 AAAAACAAAAAAAAATCAAAATCAAAATC
1 AAAAACAAAAAAAAAGAAAAATCAAAATC
46136193 AAAAA-AAAAAAAAAGAAAAATCAAAATC
1 AAAAACAAAAAAAAAGAAAAATCAAAATC
46136221 AAA
1 AAA
46136224 GTCAAAATGA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 24 0.83
29 5 0.17
ACGTcount: A:0.80, C:0.10, G:0.02, T:0.08
Consensus pattern (29 bp):
AAAAACAAAAAAAAAGAAAAATCAAAATC
Found at i:46137140 original size:14 final size:15
Alignment explanation
Indices: 46137113--46137147 Score: 63
Period size: 14 Copynumber: 2.4 Consensus size: 15
46137103 CTTCGAGTAA
46137113 AAAAAAGTGAAAAAT
1 AAAAAAGTGAAAAAT
46137128 AAAAAAGTG-AAAAT
1 AAAAAAGTGAAAAAT
46137142 AAAAAA
1 AAAAAA
46137148 TAAAAAATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 11 0.55
15 9 0.45
ACGTcount: A:0.77, C:0.00, G:0.11, T:0.11
Consensus pattern (15 bp):
AAAAAAGTGAAAAAT
Found at i:46137155 original size:14 final size:14
Alignment explanation
Indices: 46137113--46137153 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
46137103 CTTCGAGTAA
46137113 AAAAAAGTGAAAAAT
1 AAAAAAGT-AAAAAT
*
46137128 AAAAAAGTGAAAAT
1 AAAAAAGTAAAAAT
46137142 AAAAAA-TAAAAA
1 AAAAAAGTAAAAA
46137154 ATGATGAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 5 0.21
14 11 0.46
15 8 0.33
ACGTcount: A:0.78, C:0.00, G:0.10, T:0.12
Consensus pattern (14 bp):
AAAAAAGTAAAAAT
Found at i:46138625 original size:129 final size:128
Alignment explanation
Indices: 46138384--46138838 Score: 655
Period size: 129 Copynumber: 3.6 Consensus size: 128
46138374 AAGATAGCAT
46138384 ATCTTGTCTCTCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTAAGG
1 ATCTTGTCTCTCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTAAGG
* * *
46138449 AAGTAGATTTAAGCCACAAGCCCTATATCCTTGACCAACAGTGGAATAGGTTGGGAAATTATAG
66 AAGCAGATTTAAGCCACAAGCCCTATATCCTT-ATCAGCAGTGGAATAGGTTGGGAAATTATAG
* * * *
46138513 ATCTTGTCTCCCTAAGCAGTCGCGGAGCAGATCGAAGACGGTGACTCTTATCTTCAAGTGTAAGG
1 ATCTTGTCTCTCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTAAGG
* *
46138578 AAGCAGATTTAAGCCACAAGCCCTATATCTCTTATCAGCAGTAGAATAGGTTGGGAAATTACAG
66 AAGCAGATTTAAGCCACAAGCCCTATATC-CTTATCAGCAGTGGAATAGGTTGGGAAATTATAG
*
46138642 ATCTTGTCTCTCTAAGCAGTAGCGAAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTAAGG
1 ATCTTGTCTCTCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTAAGG
* **
46138707 AAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTT-GG-----A-A-
66 AAGCAGATTTAAGCCACAAGCCCTATAT-CCTTATCAGCAGTGGAATAGGTTGGGAAATTATAG
* *
46138763 A---T-TCTCTCTAAGCAGTAGCGGAGCAGATCGAAGACAGCGAATCTTATCTTCAAGTGTAATG
1 ATCTTGTCTCTCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTAAGG
*
46138824 AAGCAGATTGAAGCC
66 AAGCAGATTTAAGCC
46138839 GATAATCCTA
Statistics
Matches: 302, Mismatches: 22, Indels: 16
0.89 0.06 0.05
Matches are distributed among these distances:
117 70 0.23
118 1 0.00
121 1 0.00
122 1 0.00
123 1 0.00
128 2 0.01
129 222 0.74
130 4 0.01
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (128 bp):
ATCTTGTCTCTCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTAAGG
AAGCAGATTTAAGCCACAAGCCCTATATCCTTATCAGCAGTGGAATAGGTTGGGAAATTATAG
Found at i:46139319 original size:99 final size:99
Alignment explanation
Indices: 46139180--46139459 Score: 330
Period size: 99 Copynumber: 2.8 Consensus size: 99
46139170 GCAGACTAAG
* * * * * * *
46139180 AACAACGAATCTTATCTCCTAGGCGGTGTAGTGGAACAGATTAAAGCCATAACAACGAATCTTGC
1 AACAGCGAATCTTATCTCC-AGGCGGTGCAGTGGAACAGATTGAAGCTACAACGATGAATCTTGC
* * *
46139245 TTTCCCGATATTGCAGTTAAAAAGATTAAAGCTAC
65 TTCCCCGACATTGCAGTTAAAAAGATTAAAGCCAC
* * * * *
46139280 AACAGTGAATCTTATCTCCAAGCGGTGCAGTGGAGCAGATTGAAGCTACGACGGTGAATCTTGCT
1 AACAGCGAATCTTATCTCCAGGCGGTGCAGTGGAACAGATTGAAGCTACAACGATGAATCTTGCT
* * *
46139345 TCCCCGACATTGCAATTAAAAAGATTGAAGCCGC
66 TCCCCGACATTGCAGTTAAAAAGATTAAAGCCAC
* * *
46139379 AACGGCGAATCTTA-CTTCCCTGGCGGTGCAGTGGAACATATTGAAGCTACAACGATGAATCTTG
1 AACAGCGAATCTTATC-T-CCAGGCGGTGCAGTGGAACAGATTGAAGCTACAACGATGAATCTTG
46139443 -TTCCCCGACATTGCAGT
64 CTTCCCCGACATTGCAGT
46139460 CAATTTGAAA
Statistics
Matches: 151, Mismatches: 27, Indels: 5
0.83 0.15 0.03
Matches are distributed among these distances:
98 1 0.01
99 93 0.62
100 57 0.38
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (99 bp):
AACAGCGAATCTTATCTCCAGGCGGTGCAGTGGAACAGATTGAAGCTACAACGATGAATCTTGCT
TCCCCGACATTGCAGTTAAAAAGATTAAAGCCAC
Found at i:46139432 original size:50 final size:50
Alignment explanation
Indices: 46139267--46139449 Score: 147
Period size: 50 Copynumber: 3.7 Consensus size: 50
46139257 GCAGTTAAAA
* * ** *
46139267 AGATTAAAGCTACAACAGTGAATCTTA--TCTCCAAGCGGTGCAGTGGAGC
1 AGATTGAAGCTACAACGGTGAATCTTACTTC-CCCGGCGGTGCAGTGGAAC
* * * ** * ** *
46139316 AGATTGAAGCTACGACGGTGAATCTTGCTTCCCCGACATTGCAATTAAAA
1 AGATTGAAGCTACAACGGTGAATCTTACTTCCCCGGCGGTGCAGTGGAAC
** * *
46139366 AGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAAC
1 AGATTGAAGCTACAACGGTGAATCTTACTTCCCCGGCGGTGCAGTGGAAC
* * *
46139416 ATATTGAAGCTACAACGATGAATCTT-GTTCCCCG
1 AGATTGAAGCTACAACGGTGAATCTTACTTCCCCG
46139450 ACATTGCAGT
Statistics
Matches: 98, Mismatches: 34, Indels: 4
0.72 0.25 0.03
Matches are distributed among these distances:
49 29 0.30
50 67 0.68
51 2 0.02
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.24
Consensus pattern (50 bp):
AGATTGAAGCTACAACGGTGAATCTTACTTCCCCGGCGGTGCAGTGGAAC
Found at i:46139527 original size:44 final size:43
Alignment explanation
Indices: 46139477--46139721 Score: 137
Period size: 40 Copynumber: 5.7 Consensus size: 43
46139467 AAAGAAATCA
** *
46139477 ATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAG
1 ATCTTATCTCCCT-AAGCAGCAGTGGAGCAGATTAAAACCACAG
* * * *** *
46139521 ATCTTATCTCTCTAAGCAGTAGTGGAGTAGA-TCGCATCA-AG
1 ATCTTATCTCCCTAAGCAGCAGTGGAGCAGATTAAAACCACAG
* * ** *
46139562 -TCTTATCTCCCTCAGCAGTAGTGGAGCATACAGAAAAAGAAAC-CA-
1 ATCTTATCTCCCTAAGCAGCAGTGGAG----CAGATTAA-AACCACAG
* ** *
46139607 ATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAG
1 ATCTTATCTCCCT-AAGCAGCAGTGGAGCAGATTAAAACCACAG
* * * *
46139651 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGA-TCACATCA-AG
1 ATCTTATCTCCCTAAGCAGCAGTGGAGCAGATTAAAACCACAG
* * *
46139692 -TCTTATCTCTCTAAGCAGTAGTGCAGCAGA
1 ATCTTATCTCCCTAAGCAGCAGTGGAGCAGA
46139722 CAAAAGAAAC
Statistics
Matches: 153, Mismatches: 37, Indels: 26
0.71 0.17 0.12
Matches are distributed among these distances:
40 52 0.34
41 4 0.03
42 12 0.08
43 34 0.22
44 27 0.18
46 14 0.09
47 10 0.07
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (43 bp):
ATCTTATCTCCCTAAGCAGCAGTGGAGCAGATTAAAACCACAG
Found at i:46139639 original size:130 final size:127
Alignment explanation
Indices: 46139467--46139774 Score: 499
Period size: 130 Copynumber: 2.4 Consensus size: 127
46139457 AGTCAATTTG
* * *
46139467 AAAGAAATCAATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCT
1 AAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCC
* * * * *
46139532 CTAAGCAGTAGTGGAGTAGATCGCATCAAGTCTTATCTCCCTCAGCAGTAGTGGAGCATACAGAA
66 CTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGTGCAGCAGAC---A
46139597 AAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCC
1 AAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCC
*
46139662 CTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCTCTAAGCAGTAGTGCAGCAGACA
66 CTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGTGCAGCAGACA
*
46139724 AAAGAAACCAATCCTATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAACCA
1 AAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCA
46139775 TGAATCATAT
Statistics
Matches: 168, Mismatches: 10, Indels: 3
0.93 0.06 0.02
Matches are distributed among these distances:
127 51 0.30
130 117 0.70
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (127 bp):
AAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCC
CTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGTGCAGCAGACA
Found at i:46139696 original size:40 final size:41
Alignment explanation
Indices: 46139519--46139721 Score: 142
Period size: 40 Copynumber: 4.8 Consensus size: 41
46139509 TTAAAACCAC
* * *
46139519 AGATCTTATCTCTCTAAGCAGTAGTGGAGTAGATCGCATCA
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCA
* * * **
46139560 AG-TCTTATCTCCCTCAGCAGTAGTGGAGCATA-CAGAAAA
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCA
* ** * * * * *
46139599 AGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCA
1 AG------ATCTTATCTCCCT-AAGCAGTAGTGGAGCAGA-TCACATCA
46139648 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCA
1 -AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCA
* *
46139690 AG-TCTTATCTCTCTAAGCAGTAGTGCAGCAGA
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
46139722 CAAAAGAAAC
Statistics
Matches: 122, Mismatches: 29, Indels: 23
0.70 0.17 0.13
Matches are distributed among these distances:
39 5 0.04
40 54 0.44
41 4 0.03
42 5 0.04
43 14 0.11
44 12 0.10
46 11 0.09
47 12 0.10
49 3 0.02
50 2 0.02
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.25
Consensus pattern (41 bp):
AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCA
Found at i:46144693 original size:18 final size:18
Alignment explanation
Indices: 46144672--46144709 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
46144662 TGAATTTTAC
* *
46144672 AATTTAAATAACTCGAAT
1 AATTCAAATAACTCAAAT
46144690 AATTCAAATAACTCAAAT
1 AATTCAAATAACTCAAAT
46144708 AA
1 AA
46144710 CATATTGGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.55, C:0.13, G:0.03, T:0.29
Consensus pattern (18 bp):
AATTCAAATAACTCAAAT
Found at i:46144699 original size:9 final size:9
Alignment explanation
Indices: 46144677--46144710 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
46144667 TTTACAATTT
46144677 AAATAACTC
1 AAATAACTC
* *
46144686 GAATAATTC
1 AAATAACTC
46144695 AAATAACTC
1 AAATAACTC
46144704 AAATAAC
1 AAATAAC
46144711 ATATTGGTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.56, C:0.18, G:0.03, T:0.24
Consensus pattern (9 bp):
AAATAACTC
Found at i:46144817 original size:18 final size:18
Alignment explanation
Indices: 46144791--46144831 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
46144781 ACTACAAAAT
*
46144791 AATTCAAAATAATTT-TAA
1 AATTTAAAAT-ATTTATAA
46144809 AATTTAAAATATTTATAA
1 AATTTAAAATATTTATAA
46144827 AATTT
1 AATTT
46144832 CCAAAATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 4 0.19
18 17 0.81
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (18 bp):
AATTTAAAATATTTATAA
Found at i:46144840 original size:18 final size:17
Alignment explanation
Indices: 46144801--46144843 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
46144791 AATTCAAAAT
46144801 AATTT-TAAAATTTAAA
1 AATTTATAAAATTTAAA
*
46144817 ATATTTATAAAATTTCCAA
1 A-ATTTATAAAATTT-AAA
46144836 AATTTATA
1 AATTTATA
46144844 TTTAAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 1 0.04
17 4 0.17
18 15 0.65
19 3 0.13
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (17 bp):
AATTTATAAAATTTAAA
Found at i:46148743 original size:9 final size:9
Alignment explanation
Indices: 46148729--46148755 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
46148719 ACATAGGGAC
46148729 TAAAATGAA
1 TAAAATGAA
46148738 TAAAATGAA
1 TAAAATGAA
46148747 TAAAATGAA
1 TAAAATGAA
46148756 AAATATGTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.11, T:0.22
Consensus pattern (9 bp):
TAAAATGAA
Found at i:46150842 original size:28 final size:28
Alignment explanation
Indices: 46150794--46150849 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
46150784 ATATAGTTTT
*
46150794 TATATTATTTATAAAGGTTATAATAATA
1 TATATTATTTATAAAGCTTATAATAATA
*
46150822 TATATTATATTATAAA-CTTATTATAATA
1 TATATTAT-TTATAAAGCTTATAATAATA
46150850 AAATACAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 18 0.72
29 7 0.28
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (28 bp):
TATATTATTTATAAAGCTTATAATAATA
Found at i:46151787 original size:41 final size:41
Alignment explanation
Indices: 46151742--46151860 Score: 109
Period size: 41 Copynumber: 2.8 Consensus size: 41
46151732 TTGTGTTTAA
*
46151742 GTGTAAGACCATGTCTGAGACATTGGCATCGTATTTAATT-C
1 GTGTAAGACCATGTCTGAGACA-TGGCATCGTATGTAATTAC
*
46151783 GTGTAAGA-CACTGTCT-AGGACAATGGCATCGATATGTGATTAC
1 GTGTAAGACCA-TGTCTGA-GAC-ATGGCATCG-TATGTAATTAC
* * * *
46151826 ATGTAAGACCACGTCTGGGACGATGGCATTGTATG
1 GTGTAAGACCATGTCTGAGAC-ATGGCATCGTATG
46151861 AGCCTTTCGA
Statistics
Matches: 64, Mismatches: 7, Indels: 13
0.76 0.08 0.15
Matches are distributed among these distances:
40 3 0.05
41 24 0.38
42 12 0.19
43 23 0.36
44 2 0.03
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (41 bp):
GTGTAAGACCATGTCTGAGACATGGCATCGTATGTAATTAC
Found at i:46151852 original size:43 final size:40
Alignment explanation
Indices: 46151743--46151860 Score: 112
Period size: 43 Copynumber: 2.8 Consensus size: 40
46151733 TGTGTTTAAG
* * * *
46151743 TGTAAGACCATGTCTGAGACATTGGCATCGTATTTAATTCG
1 TGTAAGACCACGTCTGGGACA-TGGCATCGTATGTAATTCA
* *
46151784 TGTAAGA-CACTGTCTAGGACAATGGCATCGATATGTGATTACA
1 TGTAAGACCAC-GTCTGGGAC-ATGGCATCG-TATGTAATT-CA
*
46151827 TGTAAGACCACGTCTGGGACGATGGCATTGTATG
1 TGTAAGACCACGTCTGGGAC-ATGGCATCGTATG
46151861 AGCCTTTCGA
Statistics
Matches: 63, Mismatches: 9, Indels: 9
0.78 0.11 0.11
Matches are distributed among these distances:
40 2 0.03
41 22 0.35
42 12 0.19
43 24 0.38
44 3 0.05
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (40 bp):
TGTAAGACCACGTCTGGGACATGGCATCGTATGTAATTCA
Found at i:46159001 original size:49 final size:49
Alignment explanation
Indices: 46158850--46159003 Score: 124
Period size: 49 Copynumber: 3.1 Consensus size: 49
46158840 TTTGATATGA
46158850 TTGAATTTGAAGCATGGTTCGTATTTGTAATATGATTAATAATGCATGT
1 TTGAATTTGAAGCATGGTTCGTATTTGTAATATGATTAATAATGCATGT
* * * * * * * *
46158899 TTGAA-TT--AG-TTGGATCGAAAATTTG--AT-TGAATGGAGGACATTGATATGA
1 TTGAATTTGAAGCATGGTTCG--TATTTGTAATATG-AT-TA--ATAATG-CATGT
46158948 TTGAATTTGAAGCATGGTTCGTATTTGTAATATGATTAATAATGCATGT
1 TTGAATTTGAAGCATGGTTCGTATTTGTAATATGATTAATAATGCATGT
46158997 TTGAATT
1 TTGAATT
46159004 AATTGGTTAT
Statistics
Matches: 75, Mismatches: 16, Indels: 28
0.63 0.13 0.24
Matches are distributed among these distances:
44 2 0.03
45 10 0.13
46 3 0.04
47 5 0.07
48 6 0.08
49 23 0.31
50 6 0.08
51 5 0.07
52 3 0.04
53 10 0.13
54 2 0.03
ACGTcount: A:0.32, C:0.05, G:0.22, T:0.41
Consensus pattern (49 bp):
TTGAATTTGAAGCATGGTTCGTATTTGTAATATGATTAATAATGCATGT
Found at i:46160173 original size:20 final size:19
Alignment explanation
Indices: 46160132--46160173 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
46160122 CTTTCTAAAT
*
46160132 TTTCTTACTTTCATTTGCA
1 TTTCTTACTTTCATTTGAA
46160151 TTTCATTACTTTCCA-TTGAA
1 TTTC-TTACTTT-CATTTGAA
46160171 TTT
1 TTT
46160174 ACTTTTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 4 0.20
20 14 0.70
21 2 0.10
ACGTcount: A:0.19, C:0.19, G:0.05, T:0.57
Consensus pattern (19 bp):
TTTCTTACTTTCATTTGAA
Found at i:46160855 original size:25 final size:25
Alignment explanation
Indices: 46160817--46160886 Score: 131
Period size: 25 Copynumber: 2.8 Consensus size: 25
46160807 TTGTAAATGT
*
46160817 ATGCTCACACGAGCTGTGAATCAAA
1 ATGCTCACATGAGCTGTGAATCAAA
46160842 ATGCTCACATGAGCTGTGAATCAAA
1 ATGCTCACATGAGCTGTGAATCAAA
46160867 ATGCTCACATGAGCTGTGAA
1 ATGCTCACATGAGCTGTGAA
46160887 AATGGGTCTG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.23
Consensus pattern (25 bp):
ATGCTCACATGAGCTGTGAATCAAA
Found at i:46163908 original size:19 final size:18
Alignment explanation
Indices: 46163851--46163921 Score: 72
Period size: 19 Copynumber: 3.8 Consensus size: 18
46163841 TCAATACTTG
* *
46163851 ATTTCATTTCACAATTCAC
1 ATTTCATTTCTC-ATTCAT
*
46163870 ATATCATTTCATCATTTCAT
1 ATTTCATTTC-TCA-TTCAT
46163890 ATTTCATTTCTCATCTCAT
1 ATTTCATTTCTCAT-TCAT
46163909 A-TTCATTTCTCAT
1 ATTTCATTTCTCAT
46163922 ATTTGTCATC
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
18 13 0.29
19 18 0.40
20 14 0.31
ACGTcount: A:0.27, C:0.24, G:0.00, T:0.49
Consensus pattern (18 bp):
ATTTCATTTCTCATTCAT
Found at i:46163915 original size:18 final size:18
Alignment explanation
Indices: 46163869--46163921 Score: 72
Period size: 18 Copynumber: 2.9 Consensus size: 18
46163859 TCACAATTCA
*
46163869 CATA-TCATTTCATCATTT
1 CATATTCATTTC-TCATCT
46163887 CATATTTCATTTCTCATCT
1 CATA-TTCATTTCTCATCT
46163906 CATATTCATTTCTCAT
1 CATATTCATTTCTCAT
46163922 ATTTGTCATC
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
18 16 0.50
19 9 0.28
20 7 0.22
ACGTcount: A:0.25, C:0.25, G:0.00, T:0.51
Consensus pattern (18 bp):
CATATTCATTTCTCATCT
Found at i:46166787 original size:353 final size:353
Alignment explanation
Indices: 46166132--46167646 Score: 2074
Period size: 353 Copynumber: 4.3 Consensus size: 353
46166122 GTTGGAACGA
* *
46166132 TATTTGTAAGGCCTAC-AACAAATGTGCACTTTTTAATCTTCTCATCAGGATACTCTACAAAGAG
1 TATTTGCAAGGCCTACGAA-AAATGTGCACTTCTTAATCTTCTCATCAGGATACTCTACAAAGAG
* * * * * * * **
46166196 TTGTAGTATTATTTGACCATACACAATGATATATCTTTCAATAGCTGTT-GAGTTAGTATTTATA
65 TTGTAGTATTATCTGACCATGCACAACGACATATCTCTCAACAACTGTTGGA-TTAGTAGATATA
* * * * *
46166260 AAAGCATAATCATCTTGGTTCAATTCTCGATCTATATAATAATTCAGTTCGATTTATCAATTTCA
129 AAAGCATGATCATCTTGGTTCAATTCCCGATCTATATAACAATTCAGTTCAATTTATCAATTCCA
* * ** *
46166325 AACATCTTATAACAATCTATTATATATATGTATCAATTCAATTTCATTATTTGTATGCCTCTTAA
194 AACATCTTATAAAAATCTATTATATGTATGTATCAATTCAATTTCATTATTCATATGCCCCTTAA
*
46166390 AGTTTCACATTTTATTCAATTTAGTCCCTAAAATTGAAATAGTCATAACTAGTCCTTTTTAACTA
259 AGTTTCACATTTTATTCAATTTAGTCCCTAAAATCGAAATAGTCATAACTAGTCCTTTTTAACTA
* * * *
46166455 ACCATTTTGTATGGTGTTTCTCTTCTATTT
324 ACCATTTTGCATGGTGTCTCTCCTCCATTT
* * * *
46166485 CATTTGCATGGCCTACGAAAAATGTGTTA-TTCTTAATCTTCTCATCAGGATACTCTACAAAGAC
1 TATTTGCAAGGCCTACGAAAAATGTG-CACTTCTTAATCTTCTCATCAGGATACTCTACAAAGAG
*
46166549 TTGTAGTATTATCTGACCATGCACAACGACATATCTCTCAACAGCTGTTGGATTAGTAGATATAA
65 TTGTAGTATTATCTGACCATGCACAACGACATATCTCTCAACAACTGTTGGATTAGTAGATATAA
* * * ** * *
46166614 AAACATGATAATCTTGGTTAAATTCCCGATCTATATAACAATTCAGTTTGATTTATTAATTACAA
130 AAGCATGATCATCTTGGTTCAATTCCCGATCTATATAACAATTCAGTTCAATTTATCAATTCCAA
* * * **
46166679 ACATCTTAGAAAAATCTATTATAGGTATGTATCAGTTTGATTTCATTATTCATATGCCCCTTAAA
195 ACATCTTATAAAAATCTATTATATGTATGTATCAATTCAATTTCATTATTCATATGCCCCTTAAA
* * **
46166744 GTTTTACATTTTATTCAATTTAATATCTAAAATCGAAATAGTCATAACTAGTCCTTTTTAACTAA
260 GTTTCACATTTTATTCAATTTAGTCCCTAAAATCGAAATAGTCATAACTAGTCCTTTTTAACTAA
* *
46166809 TCATTTTGCATGGTGTATCTCCTCCATTT
325 CCATTTTGCATGGTGTCTCTCCTCCATTT
* ** * * *
46166838 TATTTGCAAGGCCTACGACAGTTGTGCATTTCTTAATCTTC-CATTAAGATACTCTACAAAGAGT
1 TATTTGCAAGGCCTACGAAAAATGTGCACTTCTTAATCTTCTCATCAGGATACTCTACAAAGAGT
* *
46166902 TGTAGTATTATCTGACCATGCACAACAACATATCTCTCAACAACTGTTGGATTAATAGATATAAA
66 TGTAGTATTATCTGACCATGCACAACGACATATCTCTCAACAACTGTTGGATTAGTAGATATAAA
* * *
46166967 AGCATGATCATCTTGGTTCAGTTCTCGATTTATATAACAATTCAGTTCAATTTATCAATTCCAAA
131 AGCATGATCATCTTGGTTCAATTCCCGATCTATATAACAATTCAGTTCAATTTATCAATTCCAAA
* * * * *
46167032 CATCTTATAACAATCCATTATATGTATGTATCAGTTCAATTTTATTATTCATATACCCCTTAAAG
196 CATCTTATAAAAATCTATTATATGTATGTATCAATTCAATTTCATTATTCATATGCCCCTTAAAG
* * * * *
46167097 TTTCACATTTTATTCAATTTAGTCTCTAAAATCAAAATAGTCATAACTTGTTCTTTTTAACTAAT
261 TTTCACATTTTATTCAATTTAGTCCCTAAAATCGAAATAGTCATAACTAGTCCTTTTTAACTAAC
46167162 CATTTTGCATGGTGTCTCTCCTCCATTT
326 CATTTTGCATGGTGTCTCTCCTCCATTT
* *
46167190 TATTTGCAAGGCCTACGAAAAATGTGCACTTCTTAATCTTCTCATCGGGATACTCTACAAAAAGT
1 TATTTGCAAGGCCTACGAAAAATGTGCACTTCTTAATCTTCTCATCAGGATACTCTACAAAGAGT
* * * *
46167255 TGTAATATTATCT-AGCAATGCACAACGACACATCTCTCAACAACTGCTGGATTAGTAGATATAA
66 TGTAGTATTATCTGA-CCATGCACAACGACATATCTCTCAACAACTGTTGGATTAGTAGATATAA
46167319 AAGCATGATCATCTTGGTTCAATTCCCGATCTATATAACAATTCAGTTCAATTTATCAATTCCAA
130 AAGCATGATCATCTTGGTTCAATTCCCGATCTATATAACAATTCAGTTCAATTTATCAATTCCAA
* * * *
46167384 ACATCTTATAAAAATCTATTATATGTATTTATCAATTCAATTTCATTATTCGTCTTCCCCTTAAA
195 ACATCTTATAAAAATCTATTATATGTATGTATCAATTCAATTTCATTATTCATATGCCCCTTAAA
* * * * *
46167449 GTTTTACATTTTATTCAATTTAGTCCTTAAAATTGAAATAGTCATAATTAGTCCTTTTTTAAATA
260 GTTTCACATTTTATTCAATTTAGTCCCTAAAATCGAAATAGTCATAACTAGTCC-TTTTTAACTA
* *
46167514 ACCATTTTGTATGGTGTCTCTCTTCCATTT
324 ACCATTTTGCATGGTGTCTCTCCTCCATTT
* * * * *
46167544 TATGTGCAAGGCCTACGACAAATGTGCACTTCTTAATCTCCTCATCAGGATACTTTGCAAAGAG-
1 TATTTGCAAGGCCTACGAAAAATGTGCACTTCTTAATCTTCTCATCAGGATACTCTACAAAGAGT
* * *
46167608 T-T-GTATTATTTGACCGTGCACAACGACAAATCTCTCAAC
66 TGTAGTATTATCTGACCATGCACAACGACATATCTCTCAAC
46167647 GATTGCTTAT
Statistics
Matches: 1025, Mismatches: 129, Indels: 18
0.87 0.11 0.02
Matches are distributed among these distances:
351 30 0.03
352 321 0.31
353 576 0.56
354 98 0.10
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.39
Consensus pattern (353 bp):
TATTTGCAAGGCCTACGAAAAATGTGCACTTCTTAATCTTCTCATCAGGATACTCTACAAAGAGT
TGTAGTATTATCTGACCATGCACAACGACATATCTCTCAACAACTGTTGGATTAGTAGATATAAA
AGCATGATCATCTTGGTTCAATTCCCGATCTATATAACAATTCAGTTCAATTTATCAATTCCAAA
CATCTTATAAAAATCTATTATATGTATGTATCAATTCAATTTCATTATTCATATGCCCCTTAAAG
TTTCACATTTTATTCAATTTAGTCCCTAAAATCGAAATAGTCATAACTAGTCCTTTTTAACTAAC
CATTTTGCATGGTGTCTCTCCTCCATTT
Found at i:46169319 original size:96 final size:99
Alignment explanation
Indices: 46169157--46169341 Score: 283
Period size: 96 Copynumber: 1.9 Consensus size: 99
46169147 TCTCTAATTA
*
46169157 TCTATTCTGAGTACAGTGCTGATTTTTCCATTGCTTAGTATTCTACTGTCCTGAACTCCCAGTTG
1 TCTATTCTGAGTACAATGCTGATTTTTCCATTGCTTAGTATTCTACTGTCCTGAACTCCCAGTTG
*
46169222 TGTCTTTA-TGCCATCAT-TGCTATCTCTGATTTT
66 TGTCTATATTGCCAT-ATATGCTATCTCTGATTTT
46169255 TCTATTCTGAGTACAATGCTGA-TTTTCCATTGCTT-GTATTCTACTAG-CCTGAACTCCCTA-T
1 TCTATTCTGAGTACAATGCTGATTTTTCCATTGCTTAGTATTCTACT-GTCCTGAACTCCC-AGT
46169316 TGTGTCTATATTGCCATATATGCTAT
64 TGTGTCTATATTGCCATATATGCTAT
46169342 TTCCATAAGA
Statistics
Matches: 81, Mismatches: 2, Indels: 9
0.88 0.02 0.10
Matches are distributed among these distances:
96 33 0.41
97 27 0.33
98 21 0.26
ACGTcount: A:0.19, C:0.22, G:0.15, T:0.44
Consensus pattern (99 bp):
TCTATTCTGAGTACAATGCTGATTTTTCCATTGCTTAGTATTCTACTGTCCTGAACTCCCAGTTG
TGTCTATATTGCCATATATGCTATCTCTGATTTT
Found at i:46179532 original size:2 final size:2
Alignment explanation
Indices: 46179525--46179553 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
46179515 GAAATTTTGA
46179525 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
46179554 CTGTTTTTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:46179899 original size:13 final size:13
Alignment explanation
Indices: 46179860--46179899 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
46179850 AGTTTGGCAA
46179860 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* * *
46179873 TGCTATGGAGAAG
1 TGCTTTTGAAAAG
46179886 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
46179899 T
1 T
46179900 TTGGTTTAAA
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.30, C:0.07, G:0.28, T:0.35
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:46180397 original size:13 final size:13
Alignment explanation
Indices: 46180381--46180414 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
46180371 AAAGTGCTTT
46180381 TGAAAAGCACTTC
1 TGAAAAGCACTTC
*
46180394 TGAAAAGCACTTT
1 TGAAAAGCACTTC
46180407 TGAAAAGC
1 TGAAAAGC
46180415 CAAAAATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.41, C:0.18, G:0.18, T:0.24
Consensus pattern (13 bp):
TGAAAAGCACTTC
Found at i:46185715 original size:9 final size:9
Alignment explanation
Indices: 46185701--46185737 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
46185691 TATAGTTTGA
46185701 TATTCGAAT
1 TATTCGAAT
46185710 TATTCGAAT
1 TATTCGAAT
*
46185719 TATTCGAGT
1 TATTCGAAT
46185728 TATTCGAAT
1 TATTCGAAT
46185737 T
1 T
46185738 CGAAAACTCA
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:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:46185807 original size:9 final size:9
Alignment explanation
Indices: 46185790--46185820 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
46185780 TCGAGTTGAT
46185790 TCGAATAAC
1 TCGAATAAC
*
46185799 TCGATTAAC
1 TCGAATAAC
46185808 TCGAATAAC
1 TCGAATAAC
46185817 TCGA
1 TCGA
46185821 TTCGTTTAAC
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:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:46186688 original size:9 final size:9
Alignment explanation
Indices: 46186674--46186741 Score: 84
Period size: 9 Copynumber: 7.4 Consensus size: 9
46186664 TTTGGTTAAA
46186674 AATTACCCG
1 AATTACCCG
46186683 AATTACCCG
1 AATTACCCG
*
46186692 AATTAACCG
1 AATTACCCG
*
46186701 AATTAACCG
1 AATTACCCG
46186710 AATTA-CCG
1 AATTACCCG
*
46186718 AAAAATACCCG
1 --AATTACCCG
46186729 AATTACCCG
1 AATTACCCG
46186738 AATT
1 AATT
46186742 TTTTTTATTT
Statistics
Matches: 53, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
8 3 0.06
9 43 0.81
10 4 0.08
11 3 0.06
ACGTcount: A:0.41, C:0.26, G:0.10, T:0.22
Consensus pattern (9 bp):
AATTACCCG
Found at i:46186900 original size:13 final size:13
Alignment explanation
Indices: 46186882--46186910 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
46186872 TTTTAGTTTT
46186882 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
46186895 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
46186908 ATT
1 ATT
46186911 AAGTTTGGGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.00, G:0.41, T:0.41
Consensus pattern (13 bp):
ATTGGGTTGGGTA
Found at i:46195344 original size:28 final size:28
Alignment explanation
Indices: 46195302--46195356 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
46195292 CCGATTTGCT
*
46195302 CCCTCCGTTTCTTTTCTTTTCTTTTCTG
1 CCCTCCGTTTATTTTCTTTTCTTTTCTG
*
46195330 CCCTCTGTTTATTTTCTTTTCTTTTCT
1 CCCTCCGTTTATTTTCTTTTCTTTTCT
46195357 ACCGATTTGC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.02, C:0.29, G:0.05, T:0.64
Consensus pattern (28 bp):
CCCTCCGTTTATTTTCTTTTCTTTTCTG
Found at i:46195377 original size:38 final size:39
Alignment explanation
Indices: 46195330--46195403 Score: 96
Period size: 39 Copynumber: 1.9 Consensus size: 39
46195320 TTCTTTTCTG
*
46195330 CCCTCTGTTTATTTTC-TTTTCTTTTCTACCGATTTGCT
1 CCCTCTGTTTATTCTCATTTTCTTTTCTACCGATTTGCT
* * * *
46195368 CCCTTTGTTTCTTCTCATTTTCTTTTTTGCCGATTT
1 CCCTCTGTTTATTCTCATTTTCTTTTCTACCGATTT
46195404 CTGAGTTAGT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
38 13 0.43
39 17 0.57
ACGTcount: A:0.07, C:0.26, G:0.08, T:0.59
Consensus pattern (39 bp):
CCCTCTGTTTATTCTCATTTTCTTTTCTACCGATTTGCT
Found at i:46198616 original size:16 final size:16
Alignment explanation
Indices: 46198573--46198607 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
46198563 TGGTTCCTTA
*
46198573 TTAATTATAA-TATAT
1 TTAATAATAATTATAT
46198588 TTAATAATAATTATAT
1 TTAATAATAATTATAT
46198604 TTAA
1 TTAA
46198608 ATATGATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
TTAATAATAATTATAT
Found at i:46198738 original size:18 final size:17
Alignment explanation
Indices: 46198710--46198744 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
46198700 ATTATTAAGA
*
46198710 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
46198727 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
46198745 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:46199001 original size:16 final size:16
Alignment explanation
Indices: 46198980--46199047 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
46198970 GATTTGCTAT
46198980 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
46198996 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
46199012 TACACTTCTAATCCAA
1 TACACCTCTAATCCAA
46199028 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
46199044 TACA
1 TACA
46199048 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.38, C:0.35, G:0.00, T:0.26
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:46199608 original size:77 final size:79
Alignment explanation
Indices: 46199496--46199647 Score: 202
Period size: 77 Copynumber: 1.9 Consensus size: 79
46199486 TGAATAGGGT
* *
46199496 TAAAAAACCATTTGAATTGGCCGTTGAAACAATTTTTAT-T-TTCA-ATTTTTTAATAATTTATT
1 TAAAAAACCATTTGAATTGGCAGTAGAAACAATTTTTATATCTT-ATATTTTTTAATAATTTATT
46199558 TGATTTGAACCAAGC
65 TGATTTGAACCAAGC
* * *
46199573 TAAAAAACCATTTGAATTGGTAGTAGAACCAATTTTTATAATCTTATTTTTTTTTAATAATTTAT
1 TAAAAAACCATTTGAATTGGCAGTAGAAACAATTTTTAT-ATCTTA-TATTTTTTAATAATTTAT
*
46199638 TTGTTTTGAA
64 TTGATTTGAA
46199648 TCGGTAACCA
Statistics
Matches: 64, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
77 35 0.55
79 2 0.03
80 2 0.03
81 25 0.39
ACGTcount: A:0.35, C:0.09, G:0.10, T:0.46
Consensus pattern (79 bp):
TAAAAAACCATTTGAATTGGCAGTAGAAACAATTTTTATATCTTATATTTTTTAATAATTTATTT
GATTTGAACCAAGC
Found at i:46199628 original size:18 final size:19
Alignment explanation
Indices: 46199605--46199644 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
46199595 GTAGAACCAA
46199605 TTTTT-ATAATCTTATTT-T
1 TTTTTAATAAT-TTATTTGT
46199623 TTTTTAATAATTTATTTGT
1 TTTTTAATAATTTATTTGT
46199642 TTT
1 TTT
46199645 GAATCGGTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.72
Consensus pattern (19 bp):
TTTTTAATAATTTATTTGT
Found at i:46201483 original size:28 final size:31
Alignment explanation
Indices: 46201419--46201484 Score: 75
Period size: 28 Copynumber: 2.2 Consensus size: 31
46201409 AATTTATACT
*
46201419 TTTAAATTAATAAATTGAAAATTTGTAACCTA
1 TTTAAATTAATAAATT-AAAATTTGTAACCCA
* *
46201451 ATTAAATT-ATAAATT-ATATTT-TAACCCA
1 TTTAAATTAATAAATTAAAATTTGTAACCCA
46201479 TTTAAA
1 TTTAAA
46201485 AATTTATAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
28 11 0.37
29 5 0.17
31 7 0.23
32 7 0.23
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.42
Consensus pattern (31 bp):
TTTAAATTAATAAATTAAAATTTGTAACCCA
Found at i:46201858 original size:20 final size:20
Alignment explanation
Indices: 46201833--46201871 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
46201823 GGACAAACTT
*
46201833 TAAATTTTAA-AATATAAAAC
1 TAAATTATAATAA-ATAAAAC
46201853 TAAATTATAATAAATAAAA
1 TAAATTATAATAAATAAAA
46201872 AATTCCCCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (20 bp):
TAAATTATAATAAATAAAAC
Found at i:46202401 original size:21 final size:21
Alignment explanation
Indices: 46202344--46202412 Score: 70
Period size: 21 Copynumber: 3.2 Consensus size: 21
46202334 CGACCCGAAT
46202344 TATATATTAAATATATA-TTA
1 TATATATTAAATATATATTTA
* * *
46202364 TTTTTAATCAAATATATATTTA
1 TATAT-ATTAAATATATATTTA
46202386 TATATATTAAAAATATATATTTA
1 TATATATT--AAATATATATTTA
46202409 -ATAT
1 TATAT
46202413 GGGCCGGGCC
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
20 3 0.08
21 13 0.33
22 10 0.26
23 13 0.33
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (21 bp):
TATATATTAAATATATATTTA
Found at i:46202703 original size:13 final size:13
Alignment explanation
Indices: 46202687--46202711 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46202677 TATTTAAAAT
46202687 TTATTTAATATTA
1 TTATTTAATATTA
46202700 TTATTTAATATT
1 TTATTTAATATT
46202712 TTAAATATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
TTATTTAATATTA
Found at i:46202738 original size:31 final size:31
Alignment explanation
Indices: 46202665--46202744 Score: 76
Period size: 31 Copynumber: 2.6 Consensus size: 31
46202655 TGTATAATTG
* *
46202665 ATAAATATTTT-ATATTTAAAATTTATTTAAT
1 ATAAATATTTTAATATTTTAAATTTA-TAAAT
* *
46202696 ATTATTA-TTTAATATTTTAAATATTA-AAAT
1 ATAAATATTTTAATATTTTAAAT-TTATAAAT
*
46202726 ATAAATATTTTAAAATTTT
1 ATAAATATTTTAATATTTT
46202745 TAAAATTTTT
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
30 11 0.28
31 25 0.64
32 3 0.08
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (31 bp):
ATAAATATTTTAATATTTTAAATTTATAAAT
Found at i:46202870 original size:29 final size:29
Alignment explanation
Indices: 46202834--46202892 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
46202824 CGCACTCACT
*
46202834 AATGCGGTACTAGTTATCTTGGTACTAAG
1 AATGCGGTACTAGCTATCTTGGTACTAAG
*
46202863 AATGCGGTACTAGCTATCTTGGTCCTAAG
1 AATGCGGTACTAGCTATCTTGGTACTAAG
46202892 A
1 A
46202893 CCTCTCTTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (29 bp):
AATGCGGTACTAGCTATCTTGGTACTAAG
Found at i:46209392 original size:50 final size:50
Alignment explanation
Indices: 46209268--46209516 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
46209258 GATAATAACA
* * ** * *
46209268 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
46209319 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
46209369 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
46209419 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
46209474 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
46209517 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:46209446 original size:100 final size:104
Alignment explanation
Indices: 46209267--46209516 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
46209257 TGATAATAAC
**
46209267 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
46209332 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
46209369 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
46209432 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
46209474 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
46209517 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:46209632 original size:13 final size:13
Alignment explanation
Indices: 46209611--46209642 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
46209601 GCTTGGATCA
*
46209611 TCATCAAATAAAT
1 TCATAAAATAAAT
46209624 TCATAAAATAAAT
1 TCATAAAATAAAT
46209637 TCATAA
1 TCATAA
46209643 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:46209889 original size:30 final size:30
Alignment explanation
Indices: 46209854--46209911 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
46209844 CCTCGACTCT
*
46209854 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
46209884 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
46209912 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:46214056 original size:7 final size:7
Alignment explanation
Indices: 46214044--46214099 Score: 94
Period size: 7 Copynumber: 8.0 Consensus size: 7
46214034 AGAGAGCTGG
46214044 AGAAGAA
1 AGAAGAA
46214051 AGAAGAA
1 AGAAGAA
46214058 AGAAGAA
1 AGAAGAA
46214065 AGAAGAA
1 AGAAGAA
46214072 AGAAGAA
1 AGAAGAA
* *
46214079 ATAATAA
1 AGAAGAA
46214086 AGAAGAA
1 AGAAGAA
46214093 AGAAGAA
1 AGAAGAA
46214100 GAGCGCGACT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 45 1.00
ACGTcount: A:0.71, C:0.00, G:0.25, T:0.04
Consensus pattern (7 bp):
AGAAGAA
Found at i:46218988 original size:44 final size:43
Alignment explanation
Indices: 46218920--46219279 Score: 251
Period size: 44 Copynumber: 8.1 Consensus size: 43
46218910 GTCATTATAG
*
46218920 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAACAA
1 CAAATCTTATCT-CCTGAAGTTGCAGTGGAGAAGATTGAAACAA
* * **
46218964 CAAATCTTATCTCTCTAAAATTGCAGTGGAGAAGATTGAAATGA
1 CAAATCTTATCTC-CTGAAGTTGCAGTGGAGAAGATTGAAACAA
** * *
46219008 CAAATCTTATCTCCCAAAAGTTGCAGTAGAGAAGATT-AAAGCCA
1 CAAATCTTATCT-CCTGAAGTTGCAGTGGAGAAGATTGAAA-CAA
* * * * *
46219052 TAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGATAG
1 CAAATCTTATCT-CCTGAAGTTGCAGTGGAGAAGATTGAA-ACAA
** * * *
46219097 TGAATCTTATCTCCTTGAAGTTGCAGTGGAGCACATT-AAAGCCA
1 CAAATCTTATCTCC-TGAAGTTGCAGTGGAGAAGATTGAAA-CAA
* * * * * *
46219141 CAAATCTTATCTCCCTGAAGTTACACTGAATCAA-ATTGAAGATAG
1 CAAATCTTATCT-CCTGAAGTTGCAGTGGA-GAAGATTGAA-ACAA
* * * *
46219186 TAAATCTTATCTCCTTGAAGTTGTAGTGGAGTAGATT-AAACCCA
1 CAAATCTTATCTCC-TGAAGTTGCAGTGGAGAAGATTGAAA-CAA
* * * * * *
46219230 CAAATCTAATCTCCCTGAAGTTGTAGTAGAGCAGATTGAAGCGA
1 CAAATCTTATCT-CCTGAAGTTGCAGTGGAGAAGATTGAAACAA
46219274 CAAATC
1 CAAATC
46219280 CTATACCTCT
Statistics
Matches: 249, Mismatches: 51, Indels: 32
0.75 0.15 0.10
Matches are distributed among these distances:
43 6 0.02
44 173 0.69
45 68 0.27
46 2 0.01
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (43 bp):
CAAATCTTATCTCCTGAAGTTGCAGTGGAGAAGATTGAAACAA
Found at i:46219136 original size:89 final size:89
Alignment explanation
Indices: 46218916--46219270 Score: 419
Period size: 89 Copynumber: 4.0 Consensus size: 89
46218906 TGAAGTCATT
* * *
46218916 ATAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAA-CAACAAATCTTATCTCTCT
1 ATAGTAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATT-AAAGCCACAAATCTTATCTCCCT
* * * *
46218980 AAAATTGCAGTGGAGAAGATTGAA-
65 GAAGTTACAGTGGAGCAGATTGAAG
* ** * * *
46219004 AT-GACAAATCTTATCTCCCAAAAGTTGCAGTAGAGAAGATTAAAGCCATAAATCTTATCTCCCT
1 ATAG-TAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCACAAATCTTATCTCCCT
46219068 GAAGTTACAGTGGAGCAGATTGAAG
65 GAAGTTACAGTGGAGCAGATTGAAG
* * * *
46219093 ATAGTGAATCTTATCTCCTTGAAGTTGCAGTGGAGCACATTAAAGCCACAAATCTTATCTCCCTG
1 ATAGTAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCACAAATCTTATCTCCCTG
* * * *
46219158 AAGTTACACTGAATCAAATTGAAG
66 AAGTTACAGTGGAGCAGATTGAAG
* * * *
46219182 ATAGTAAATCTTATCTCCTTGAAGTTGTAGTGGAGTAGATTAAACCCACAAATCTAATCTCCCTG
1 ATAGTAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCACAAATCTTATCTCCCTG
** *
46219247 AAGTTGTAGTAGAGCAGATTGAAG
66 AAGTTACAGTGGAGCAGATTGAAG
46219271 CGACAAATCC
Statistics
Matches: 226, Mismatches: 37, Indels: 7
0.84 0.14 0.03
Matches are distributed among these distances:
87 4 0.02
88 71 0.31
89 150 0.66
90 1 0.00
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.28
Consensus pattern (89 bp):
ATAGTAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCACAAATCTTATCTCCCTG
AAGTTACAGTGGAGCAGATTGAAG
Found at i:46219236 original size:133 final size:131
Alignment explanation
Indices: 46218916--46219279 Score: 351
Period size: 133 Copynumber: 2.7 Consensus size: 131
46218906 TGAAGTCATT
*
46218916 ATAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAACAACAAATCTTATCT-CTCT
1 ATAGTAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATT-AAACAACAAATCTTATCTCCT-T
* * * * * *
46218980 AAAATTGCAGTGGAGAAGATTGAAATG-ACAAATCTTATCTCCCAAAAGTTGCAGTAGAGAAGAT
64 GAAGTTGCAGTGGAGCAGATT-AAA-GCACAAATCTTATCTCCCAAAAGTTACACTAGAGAAAAT
46219044 TAAAG
127 TAAAG
** * * * ***
46219049 CCA-TAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGATAGTGAATCTTATCTCCTT
1 ATAGTAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATT-AA-ACAACAAATCTTATCTCCTT
* **
46219113 GAAGTTGCAGTGGAGCACATTAAAGCCACAAATCTTATCTCCCTGAAGTTACACT-GA-ATCAAA
64 GAAGTTGCAGTGGAGCAGATTAAAG-CACAAATCTTATCTCCCAAAAGTTACACTAGAGA--AAA
*
46219176 TTGAAG
126 TTAAAG
* * * * *
46219182 ATAGTAAATCTTATCTCCTTGAAGTTGTAGTGGAGTAGATTAAACCCACAAATCTAATCTCCCTG
1 ATAGTAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAA-CAACAAATCTTATCTCCTTG
* * *
46219247 AAGTTGTAGTAGAGCAGATTGAAGCGACAAATC
65 AAGTTGCAGTGGAGCAGATTAAAGC-ACAAATC
46219280 CTATACCTCT
Statistics
Matches: 186, Mismatches: 36, Indels: 18
0.77 0.15 0.08
Matches are distributed among these distances:
131 2 0.01
132 44 0.24
133 105 0.56
134 35 0.19
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (131 bp):
ATAGTAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAACAACAAATCTTATCTCCTTGA
AGTTGCAGTGGAGCAGATTAAAGCACAAATCTTATCTCCCAAAAGTTACACTAGAGAAAATTAAA
G
Found at i:46222588 original size:16 final size:16
Alignment explanation
Indices: 46222569--46222601 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
46222559 ATTATGAAAG
46222569 AATG-CATTTATTATTT
1 AATGTCATTTA-TATTT
46222585 AATGTCATTTATATTT
1 AATGTCATTTATATTT
46222601 A
1 A
46222602 TTTTTTCAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.55
Consensus pattern (16 bp):
AATGTCATTTATATTT
Found at i:46229234 original size:43 final size:43
Alignment explanation
Indices: 46229158--46229305 Score: 174
Period size: 43 Copynumber: 3.5 Consensus size: 43
46229148 CAATGTCATA
* * * *
46229158 TCCCAGATATGGTCTTACATGTAATCTCGTATCGATGCCAATAG
1 TCCCAGACATGGTCTTACACGAAATCTCATATCGATGCCAAT-G
* *
46229202 -CCCAGCCATGGTCTTACACGAAATCACATATCGATGCCAATG
1 TCCCAGACATGGTCTTACACGAAATCTCATATCGATGCCAATG
* * *
46229244 TCCCAGACATGGTCTTACACGAATTCTCATATCGATGTC-ATA
1 TCCCAGACATGGTCTTACACGAAATCTCATATCGATGCCAATG
* *
46229286 TCCTAGATATGGTCTTACAC
1 TCCCAGACATGGTCTTACAC
46229306 TTAATCTCGG
Statistics
Matches: 90, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
42 21 0.23
43 69 0.77
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.29
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACACGAAATCTCATATCGATGCCAATG
Found at i:46232569 original size:185 final size:185
Alignment explanation
Indices: 46232257--46232626 Score: 670
Period size: 185 Copynumber: 2.0 Consensus size: 185
46232247 TTAAGTTTAT
* *
46232257 AGTGATCGATTATTAAATTTGGATTGAGATGATGTATTATTTTATATATATTTGTTATCTAATCA
1 AGTGATCGATTATTAAATTTGAATTGAGATGATGTATTATTTTATATATATTTGTTATCTAACCA
*
46232322 TAACTTTATACAAGTACGAGATTAGATTGAAGGATCAATCGTGAGAAATGTAGGGTCAAGTACAT
66 TAACTTTATACAAGTACGAGATTAGATTAAAGGATCAATCGTGAGAAATGTAGGGTCAAGTACAT
46232387 TCGTACTACAACTCGTGATGAATTGACAGAAAAGACCATGGTTGGACCATGGCAA
131 TCGTACTACAACTCGTGATGAATTGACAGAAAAGACCATGGTTGGACCATGGCAA
46232442 AGTGATCGATTATTAAATTTGAATTGAGATGATGTATTATTTTATATATATATT-TTATCTAACC
1 AGTGATCGATTATTAAATTTGAATTGAGATGATGTATTATTTTATATATAT-TTGTTATCTAACC
* * *
46232506 ATGACTTTATGCAAGTACGATATTAGATTAAAGGATCAATCGTGAGAAATGTAGGGTCAAGTACA
65 ATAACTTTATACAAGTACGAGATTAGATTAAAGGATCAATCGTGAGAAATGTAGGGTCAAGTACA
46232571 TTCGTACTACAACTCGTGATGAATTGACAGAAAAGACCATGGTTGGACCATGGCAA
130 TTCGTACTACAACTCGTGATGAATTGACAGAAAAGACCATGGTTGGACCATGGCAA
46232627 TGAGTGTGCC
Statistics
Matches: 178, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
185 176 0.99
186 2 0.01
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (185 bp):
AGTGATCGATTATTAAATTTGAATTGAGATGATGTATTATTTTATATATATTTGTTATCTAACCA
TAACTTTATACAAGTACGAGATTAGATTAAAGGATCAATCGTGAGAAATGTAGGGTCAAGTACAT
TCGTACTACAACTCGTGATGAATTGACAGAAAAGACCATGGTTGGACCATGGCAA
Found at i:46232695 original size:50 final size:48
Alignment explanation
Indices: 46232632--46232817 Score: 248
Period size: 50 Copynumber: 3.8 Consensus size: 48
46232622 GGCAATGAGT
46232632 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACCGAGGA
1 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-GA-CGAGGA
* *
46232682 GTGCTAGTCTAAGACCATGTCTGGGACATGGCATCGGCACGAACAGAGGA
1 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACG-AC-GAGGA
* * * ** *
46232732 GAGTCAGTGTAGGACCATGTCTGGGACATGGCATCGGCTTGA-GATGA
1 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGACGAGGA
*
46232779 GTGCCAGTGTAAGACCATGTCTGGGACATGGAATCGGCA
1 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
46232818 TCGATATGTG
Statistics
Matches: 119, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
47 38 0.32
49 3 0.03
50 78 0.66
ACGTcount: A:0.26, C:0.21, G:0.34, T:0.19
Consensus pattern (48 bp):
GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGACGAGGA
Found at i:46232815 original size:97 final size:99
Alignment explanation
Indices: 46232636--46232817 Score: 278
Period size: 97 Copynumber: 1.8 Consensus size: 99
46232626 ATGAGTGTGC
*
46232636 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACCGAGGAGTGCTAGTCTAAGACCATG
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGA-CGAGGAGTGCCAGTCTAAGACCATG
*
46232701 TCTGGGACATGGCATCGGCACGAACAGAGGAGAGT
65 TCTGGGACATGGAATCGGCACGAACAGAGGAGAGT
* ** * *
46232736 CAGTGTAGGACCATGTCTGGGACATGGCATCGGC-TTGA-GATGAGTGCCAGTGTAAGACCATGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACGAGGAGTGCCAGTCTAAGACCATGT
46232799 CTGGGACATGGAATCGGCA
66 CTGGGACATGGAATCGGCA
46232818 TCGATATGTG
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
97 40 0.53
99 2 0.03
100 33 0.44
ACGTcount: A:0.26, C:0.21, G:0.34, T:0.19
Consensus pattern (99 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACGAGGAGTGCCAGTCTAAGACCATGT
CTGGGACATGGAATCGGCACGAACAGAGGAGAGT
Found at i:46233305 original size:45 final size:44
Alignment explanation
Indices: 46233256--46233408 Score: 148
Period size: 45 Copynumber: 3.4 Consensus size: 44
46233246 TAAGTGGATA
** *
46233256 CTATGTGCTGATTCCACCAGATATTAATGAAAATAAAGGTGATTG
1 CTATGTGCTGATT-CACCAGATACCAATGAATATAAAGGTGATTG
* **
46233301 CTATGTGCTGATTTCACCGGATACCAATGGTTATATAA-GTGATTG
1 CTATGTGCTGA-TTCACCAGATACCAATGAATATA-AAGGTGATTG
* * * *
46233346 TTATGTGCTGAATTCACCATG-TACCATTGAGTATAAAGGTGGTTG
1 CTATGTGCTG-ATTCACCA-GATACCAATGAATATAAAGGTGATTG
46233391 CTATGTGCTGATTACACC
1 CTATGTGCTGATT-CACC
46233409 GAGTACTATA
Statistics
Matches: 89, Mismatches: 13, Indels: 12
0.78 0.11 0.11
Matches are distributed among these distances:
44 5 0.06
45 78 0.88
46 6 0.07
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.34
Consensus pattern (44 bp):
CTATGTGCTGATTCACCAGATACCAATGAATATAAAGGTGATTG
Found at i:46235081 original size:42 final size:42
Alignment explanation
Indices: 46235034--46235136 Score: 206
Period size: 42 Copynumber: 2.5 Consensus size: 42
46235024 TTACATAACA
46235034 TTCAATAATGTTATATTTAATTGACTCTTATAATCTAATCAT
1 TTCAATAATGTTATATTTAATTGACTCTTATAATCTAATCAT
46235076 TTCAATAATGTTATATTTAATTGACTCTTATAATCTAATCAT
1 TTCAATAATGTTATATTTAATTGACTCTTATAATCTAATCAT
46235118 TTCAATAATGTTATATTTA
1 TTCAATAATGTTATATTTA
46235137 TATGAACTAG
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 61 1.00
ACGTcount: A:0.36, C:0.11, G:0.05, T:0.49
Consensus pattern (42 bp):
TTCAATAATGTTATATTTAATTGACTCTTATAATCTAATCAT
Found at i:46235230 original size:19 final size:19
Alignment explanation
Indices: 46235192--46235230 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
46235182 TGGAGAATAT
*
46235192 TCATAAGCATGCATGGTGA
1 TCATAAGCATGCATGATGA
* *
46235211 TCATAAGTATGTATGATGA
1 TCATAAGCATGCATGATGA
46235230 T
1 T
46235231 TACATGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.33
Consensus pattern (19 bp):
TCATAAGCATGCATGATGA
Found at i:46237657 original size:13 final size:15
Alignment explanation
Indices: 46237621--46237661 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
46237611 ATTTCTCAAA
*
46237621 ATTAGAAAATAATTAT
1 ATTA-AAAATAAATAT
46237637 ATTAAAAATAAATAT
1 ATTAAAAATAAATAT
*
46237652 ATAAAAAATA
1 ATTAAAAATA
46237662 TTCAATATGG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 19 0.83
16 4 0.17
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (15 bp):
ATTAAAAATAAATAT
Found at i:46238265 original size:3 final size:3
Alignment explanation
Indices: 46238257--46238281 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
46238247 TTAACTATAG
46238257 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
46238282 CTTGCTGCGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:46241148 original size:11 final size:12
Alignment explanation
Indices: 46241121--46241162 Score: 52
Period size: 11 Copynumber: 3.7 Consensus size: 12
46241111 ATGAATATAG
*
46241121 ATATATACTTGT
1 ATATATACTTTT
46241133 ATATATA-TTTT
1 ATATATACTTTT
*
46241144 ATATATAGTTTT
1 ATATATACTTTT
46241156 -TATATAC
1 ATATATAC
46241163 ATATACGTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
11 16 0.59
12 11 0.41
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.55
Consensus pattern (12 bp):
ATATATACTTTT
Found at i:46245619 original size:18 final size:18
Alignment explanation
Indices: 46245598--46245639 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
46245588 AAAGAATGTT
46245598 AAAAAAACAAAAAAAAAG
1 AAAAAAACAAAAAAAAAG
* * *
46245616 AAAAGAATAAAAGAAAAG
1 AAAAAAACAAAAAAAAAG
46245634 AAAAAA
1 AAAAAA
46245640 GAGAAGAGAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.86, C:0.02, G:0.10, T:0.02
Consensus pattern (18 bp):
AAAAAAACAAAAAAAAAG
Found at i:46245644 original size:14 final size:14
Alignment explanation
Indices: 46245607--46245666 Score: 86
Period size: 14 Copynumber: 4.4 Consensus size: 14
46245597 TAAAAAAACA
46245607 AAAAAAAAGAAAAG
1 AAAAAAAAGAAAAG
*
46245621 -AATAAAAGAAAAG
1 AAAAAAAAGAAAAG
* *
46245634 AAAAAAGAGAAGAG
1 AAAAAAAAGAAAAG
46245648 AAAAAAAAGAAAAG
1 AAAAAAAAGAAAAG
46245662 AAAAA
1 AAAAA
46245667 GAAAAAGTAG
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
13 12 0.31
14 27 0.69
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.02
Consensus pattern (14 bp):
AAAAAAAAGAAAAG
Found at i:46245667 original size:27 final size:24
Alignment explanation
Indices: 46245598--46245671 Score: 87
Period size: 28 Copynumber: 3.0 Consensus size: 24
46245588 AAAGAATGTT
*
46245598 AAAAAAACAAAA-AAAAAGAAAAG
1 AAAAAAAGAAAAGAAAAAGAAAAG
*
46245621 AATAAAAGAAAAGAAAAAAGAGAAGAG
1 AAAAAAAGAAAAG-AAAAAGA-AA-AG
46245648 AAAAAAAAGAAAAGAAAAAGAAAA
1 -AAAAAAAGAAAAGAAAAAGAAAA
46245672 AGTAGAGGCC
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
23 10 0.23
25 8 0.19
26 4 0.09
27 9 0.21
28 12 0.28
ACGTcount: A:0.82, C:0.01, G:0.15, T:0.01
Consensus pattern (24 bp):
AAAAAAAGAAAAGAAAAAGAAAAG
Found at i:46246009 original size:45 final size:45
Alignment explanation
Indices: 46245951--46246037 Score: 120
Period size: 45 Copynumber: 1.9 Consensus size: 45
46245941 TTTTATTCGT
* *
46245951 TTTCGTATTTTGGAAAAATATGCCATCTTGATCAATTTATTCTCA
1 TTTCGTATCTTGGAAAAATATGCCATCTTCATCAATTTATTCTCA
* ** *
46245996 TTTCGTATCTTGGAAAAATTTGTTATCTTCATTAATTTATTC
1 TTTCGTATCTTGGAAAAATATGCCATCTTCATCAATTTATTC
46246038 ATTTCGAACT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 36 1.00
ACGTcount: A:0.28, C:0.14, G:0.10, T:0.48
Consensus pattern (45 bp):
TTTCGTATCTTGGAAAAATATGCCATCTTCATCAATTTATTCTCA
Found at i:46247214 original size:85 final size:85
Alignment explanation
Indices: 46247101--46247394 Score: 284
Period size: 85 Copynumber: 3.3 Consensus size: 85
46247091 AAATTACAGA
* *
46247101 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATATCAAACCTCATCTTCTTAAAGTTGTAGTG
1 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATATCAAACCTCATCTTCCTAAAGTTGCAGTG
46247166 GGGCAGGTTGAAAATACAAG
66 GGGCAGGTTGAAAATACAAG
* * * * * * * * *
46247186 TCTCACCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGGAAGCGAATCTTAT-TTCCCTAAAGTTG
1 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-T-CA--TATCAAACCTCATCTT-CCTAAAGTTG
** * *
46247250 CAGTGGAACAGATTGAAGCTATAAATTACAGG
61 CAGTGGGGCAGGTT---G--A-AAA-TACAAG
* *
46247282 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATATCAAACCTCATCTCCCTGAAGTTGCAGTG
1 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATATCAAACCTCATCTTCCTAAAGTTGCAGTG
* *
46247347 GGGCAGGTTGAAATTACGAG
66 GGGCAGGTTGAAAATACAAG
* *
46247367 TCTTATCTCTCTGAAGTTTCAGTGGAGC
1 TCTTATCTCTCTGAAGTTGCAGTAGAGC
46247395 CGATTAAAAT
Statistics
Matches: 162, Mismatches: 34, Indels: 26
0.73 0.15 0.12
Matches are distributed among these distances:
85 58 0.36
86 3 0.02
87 2 0.01
88 2 0.01
89 28 0.17
92 29 0.18
93 1 0.01
94 2 0.01
95 4 0.02
96 33 0.20
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (85 bp):
TCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATATCAAACCTCATCTTCCTAAAGTTGCAGTG
GGGCAGGTTGAAAATACAAG
Found at i:46247325 original size:181 final size:181
Alignment explanation
Indices: 46247021--46247394 Score: 588
Period size: 181 Copynumber: 2.1 Consensus size: 181
46247011 CTCCCTAAGT
* * *
46247021 TTGCAGTGGAGCAGGCAGCAGATAGCGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAA
1 TTGCAGTGGAGCAGACAGAAGATAGCGAATCTTATTTCCCTAAAGTTGCAGTGGAACAGATTAAA
*
46247086 GCGATAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATATCAAACCTCATCTT
66 GCGATAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATATCAAACCTCATCTC
* *
46247151 CTTAAAGTTGTAGTGGGGCAGGTTGAAAATACAAGTCTCACCTCTCTGAAG
131 CCTAAAGTTGCAGTGGGGCAGGTTGAAAATACAAGTCTCACCTCTCTGAAG
* *
46247202 TTGCAGTGGAGCAGACTGAAGGA-AGCGAATCTTATTTCCCTAAAGTTGCAGTGGAACAGATTGA
1 TTGCAGTGGAGCAGACAGAA-GATAGCGAATCTTATTTCCCTAAAGTTGCAGTGGAACAGATTAA
* *
46247266 AGCTATAAATTACAGGTCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATATCAAACCTCATCT
65 AGCGATAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATATCAAACCTCATCT
* * * * *
46247331 CCCTGAAGTTGCAGTGGGGCAGGTTGAAATTACGAGTCTTATCTCTCTGAAG
130 CCCTAAAGTTGCAGTGGGGCAGGTTGAAAATACAAGTCTCACCTCTCTGAAG
*
46247383 TTTCAGTGGAGC
1 TTGCAGTGGAGC
46247395 CGATTAAAAT
Statistics
Matches: 176, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
181 174 0.99
182 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.28
Consensus pattern (181 bp):
TTGCAGTGGAGCAGACAGAAGATAGCGAATCTTATTTCCCTAAAGTTGCAGTGGAACAGATTAAA
GCGATAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATATCAAACCTCATCTC
CCTAAAGTTGCAGTGGGGCAGGTTGAAAATACAAGTCTCACCTCTCTGAAG
Found at i:46247384 original size:44 final size:44
Alignment explanation
Indices: 46247282--46247442 Score: 123
Period size: 44 Copynumber: 3.7 Consensus size: 44
46247272 AAATTACAGG
* * * **
46247282 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-TCATAT--CAAA
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAATGACGGA
* * * * * * *
46247323 CCTCATCTCCCTGAAGTTGCAGTGGGGCAGGTTGAAATTAC-GA
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAATGACGGA
* * *
46247366 GTCTTATCTCTCTGAAGTTTCAGTGGAGCCGATTAAAATGATGGA
1 -TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAATGACGGA
* * *
46247411 TCTTATCTCTCTGAAGTGGTAGTAGAGCAGAT
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGAT
46247443 CGCATTAGAC
Statistics
Matches: 91, Mismatches: 24, Indels: 7
0.75 0.20 0.06
Matches are distributed among these distances:
41 25 0.27
42 4 0.04
43 1 0.01
44 59 0.65
45 2 0.02
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.31
Consensus pattern (44 bp):
TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAATGACGGA
Found at i:46247663 original size:44 final size:43
Alignment explanation
Indices: 46247603--46247704 Score: 116
Period size: 44 Copynumber: 2.3 Consensus size: 43
46247593 ATCTCTCTGT
*
46247603 AGTTGCAGTAGAGCAGGTTGAAGTAAT-AAACCTTATCCCCCTGA
1 AGTTGCAGTGGAGCAGGTTG-AG-AATCAAACCTTATCCCCCTGA
* * ** *
46247647 AGTTGCAGTGGGGCAGGTTGAGCATGCAAGTCTTATCTCCCTGA
1 AGTTGCAGTGGAGCAGGTTGAGAAT-CAAACCTTATCCCCCTGA
46247691 AGTTGCAGTGGAGC
1 AGTTGCAGTGGAGC
46247705 GGACCAAAAT
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
42 2 0.04
43 2 0.04
44 45 0.92
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.25
Consensus pattern (43 bp):
AGTTGCAGTGGAGCAGGTTGAGAATCAAACCTTATCCCCCTGA
Found at i:46247889 original size:41 final size:43
Alignment explanation
Indices: 46247844--46247990 Score: 124
Period size: 44 Copynumber: 3.4 Consensus size: 43
46247834 TATATCTCCG
* *
46247844 AAGTTGCAGTAGAGCA-GAT-AATATCAAACCTTATCTCTCTA
1 AAGTTGCAGTAGAGCAGGATAAATAACAAACCTTATCCCTCTA
* * *
46247885 AAGTTGCAGTAGAGTAGGTTGAAATAACAAACCTTATCCCTCTG
1 AAGTTGCAGTAGAGCAGGAT-AAATAACAAACCTTATCCCTCTA
* * * *
46247929 AAGTTGCAGTGGGGCAGGTTGAAGAT-ACAATTCC-TATCTCC-CTA
1 AAGTTGCAGTAGAGCAGGAT-AA-ATAACAA-ACCTTATC-CCTCTA
*
46247973 AAGTTGCAGTGGAGCAGG
1 AAGTTGCAGTAGAGCAGG
46247991 CTGAAGCTAC
Statistics
Matches: 89, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
41 15 0.17
42 2 0.02
44 66 0.74
45 6 0.07
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (43 bp):
AAGTTGCAGTAGAGCAGGATAAATAACAAACCTTATCCCTCTA
Found at i:46247996 original size:44 final size:43
Alignment explanation
Indices: 46247875--46248032 Score: 176
Period size: 44 Copynumber: 3.6 Consensus size: 43
46247865 TATCAAACCT
* * * *
46247875 TATCTCTCTAAAGTTGCAGTAGAGTAGGTTGAA-ATAACAAACC
1 TATCTCCCTAAAGTTGCAGTGGAGCAGGTTGAAGAT-ACAATCC
* *
46247918 TTATC-CCTCTGAAGTTGCAGTGGGGCAGGTTGAAGATACAATTCC
1 -TATCTCC-CTAAAGTTGCAGTGGAGCAGGTTGAAGATACAA-TCC
* *
46247963 TATCTCCCTAAAGTTGCAGTGGAGCAGGCTGAAGCTACTAATCC
1 TATCTCCCTAAAGTTGCAGTGGAGCAGGTTGAAGATAC-AATCC
*
46248007 TATCTCCCTAAAGTTGCAGTGAAGCA
1 TATCTCCCTAAAGTTGCAGTGGAGCA
46248033 AATTAAAGTG
Statistics
Matches: 98, Mismatches: 11, Indels: 10
0.82 0.09 0.08
Matches are distributed among these distances:
43 1 0.01
44 89 0.91
45 8 0.08
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (43 bp):
TATCTCCCTAAAGTTGCAGTGGAGCAGGTTGAAGATACAATCC
Found at i:46248049 original size:327 final size:329
Alignment explanation
Indices: 46247534--46248128 Score: 760
Period size: 327 Copynumber: 1.8 Consensus size: 329
46247524 TAGATTGAAG
* *
46247534 ATATCAAACCTTATCTCTCTAAAGTTGCAGTTGAGCAAGTCACACCATAACAAAATCCTATCTCT
1 ATATCAAACCTTATCTCTCTAAAGTTGCAGTAGAGCAAGTCACA-CATAACAAAATCCTATCCCT
* * *
46247599 CTGTAGTTGCAGTAGAGCAGGTTGAAGTAATAAACCTTATCCCCCTGAAGTTGCAGTGGGGCAGG
65 CTGAAGTTGCAGTAGAGCAGGTTGAAG-AATAAACCTTATCCCCCTAAAGTTGCAGTGGAGCAGG
* * * * * **
46247664 TTGAGCATGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCGGACCAAAATAATGAATCCTATAC
129 CTGAGCATACAAGTCCTATCTCCCTAAAGTTGCAGTGAAGCAAACCAAAATAATGAATCCTATAC
* *
46247729 CTCTGAAGTTGCAGTA-GGTTGGATTAAAT-TTACCATAACAAGTCTTATCTCCCTAAAGTTGTA
194 CTCTGAAGTTGCAG-AGGGTTGGATTAAATCTTACCATAACAAATCTTATCTCCCTAAAGTCGTA
*
46247792 GTGGAGTAGACTGTAGATAGCGGATCTTATCAAATCGAATCTTATATCTCCGAAGTTGCAGTAGA
258 ATGGAGTAGACTGTAGATAGCGGATCTTATCAAATCGAATCTTATATCTCCGAAGTTGCAGTAGA
46247857 GCAGATA
323 GCAGATA
* * *
46247864 ATATCAAACCTTATCTCTCTAAAGTTGCAGTAGAGTAGGTTGA-A-ATAAC-AAA-CCTTATCCC
1 ATATCAAACCTTATCTCTCTAAAGTTGCAGTAGAGCAAG-TCACACATAACAAAATCC-TATCCC
* * *
46247925 TCTGAAGTTGCAGTGGGGCAGGTTGAAG-ATACAATTCC-TATCTCCCTAAAGTTGCAGTGGAGC
64 TCTGAAGTTGCAGTAGAGCAGGTTGAAGAATA-AA--CCTTATCCCCCTAAAGTTGCAGTGGAGC
** * *
46247988 AGGCTGAAGC-TACTAA-TCCTATCTCCCTAAAGTTGCAGTGAAGCAAATTAAAGTGATGAATCC
126 AGGCTG-AGCATAC-AAGTCCTATCTCCCTAAAGTTGCAGTGAAGCAAACCAAAATAATGAATCC
* * * * *
46248051 TATACCTTTGAAGTTGCAGAGGGTTGGATTAAATCTTATCATATCAAATCTTATCTCCCTGAGGT
189 TATACCTCTGAAGTTGCAGAGGGTTGGATTAAATCTTACCATAACAAATCTTATCTCCCTAAAGT
46248116 CGTAATGGAGTAG
254 CGTAATGGAGTAG
46248129 GTTGAAGCAA
Statistics
Matches: 226, Mismatches: 30, Indels: 20
0.82 0.11 0.07
Matches are distributed among these distances:
325 3 0.01
326 5 0.02
327 131 0.58
328 48 0.21
330 37 0.16
331 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (329 bp):
ATATCAAACCTTATCTCTCTAAAGTTGCAGTAGAGCAAGTCACACATAACAAAATCCTATCCCTC
TGAAGTTGCAGTAGAGCAGGTTGAAGAATAAACCTTATCCCCCTAAAGTTGCAGTGGAGCAGGCT
GAGCATACAAGTCCTATCTCCCTAAAGTTGCAGTGAAGCAAACCAAAATAATGAATCCTATACCT
CTGAAGTTGCAGAGGGTTGGATTAAATCTTACCATAACAAATCTTATCTCCCTAAAGTCGTAATG
GAGTAGACTGTAGATAGCGGATCTTATCAAATCGAATCTTATATCTCCGAAGTTGCAGTAGAGCA
GATA
Found at i:46248169 original size:44 final size:44
Alignment explanation
Indices: 46248143--46248231 Score: 133
Period size: 45 Copynumber: 2.0 Consensus size: 44
46248133 AAGCAATAAG
46248143 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAACATCAAAA
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAACAT-AAAA
* **
46248188 TCTTATCTCCCTAACGTTGCAGTGGAGCAGGCTAAAACCATAAA
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAA-CATAAA
46248232 TCTCGTCCCC
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
45 37 0.93
46 3 0.08
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.26
Consensus pattern (44 bp):
TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAACATAAAA
Found at i:46250037 original size:15 final size:15
Alignment explanation
Indices: 46250017--46250054 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
46250007 TATATACTTG
46250017 TATATATATTTTATA
1 TATATATATTTTATA
46250032 TATATAGT-TTTTATA
1 TATATA-TATTTTATA
*
46250047 TACATATA
1 TATATATA
46250055 CGTATATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
14 1 0.05
15 18 0.90
16 1 0.05
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (15 bp):
TATATATATTTTATA
Found at i:46251026 original size:251 final size:251
Alignment explanation
Indices: 46250578--46251084 Score: 1005
Period size: 251 Copynumber: 2.0 Consensus size: 251
46250568 AAATAAAAAC
*
46250578 TCATTATCGGGAATTCAATCGTTGTGTCCTAACGCATTGGATATGACACGTTGTTTTCTCAAAAC
1 TCATGATCGGGAATTCAATCGTTGTGTCCTAACGCATTGGATATGACACGTTGTTTTCTCAAAAC
46250643 AAGAATTTTTTTTAAAACACAATAAATAAATAAATAAAAGCAATATTTAATGTTTAGAATTTTGA
66 AAGAATTTTTTTTAAAACACAATAAATAAATAAATAAAAGCAATATTTAATGTTTAGAATTTTGA
46250708 GAAATTGTGCCCTAACGTATTGGGCTGCGATTTCTTCATCTGACTTAAACAATTGAATATCCTTT
131 GAAATTGTGCCCTAACGTATTGGGCTGCGATTTCTTCATCTGACTTAAACAATTGAATATCCTTT
46250773 TAAATTTTATTGCATGTGTTTTTTAAGGACAAGCTCATCTTTGAGGATGTAAAATA
196 TAAATTTTATTGCATGTGTTTTTTAAGGACAAGCTCATCTTTGAGGATGTAAAATA
46250829 TCATGATCGGGAATTCAATCGTTGTGTCCTAACGCATTGGATATGACACGTTGTTTTCTCAAAAC
1 TCATGATCGGGAATTCAATCGTTGTGTCCTAACGCATTGGATATGACACGTTGTTTTCTCAAAAC
46250894 AAGAATTTTTTTTAAAACACAATAAATAAATAAATAAAAGCAATATTTAATGTTTAGAATTTTGA
66 AAGAATTTTTTTTAAAACACAATAAATAAATAAATAAAAGCAATATTTAATGTTTAGAATTTTGA
46250959 GAAATTGTGCCCTAACGTATTGGGCTGCGATTTCTTCATCTGACTTAAACAATTGAATATCCTTT
131 GAAATTGTGCCCTAACGTATTGGGCTGCGATTTCTTCATCTGACTTAAACAATTGAATATCCTTT
46251024 TAAATTTTATTGCATGTGTTTTTTAAGGACAAGCTCATCTTTGAGGATGTAAAATA
196 TAAATTTTATTGCATGTGTTTTTTAAGGACAAGCTCATCTTTGAGGATGTAAAATA
46251080 TCATG
1 TCATG
46251085 CCCTAACTCA
Statistics
Matches: 255, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
251 255 1.00
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.37
Consensus pattern (251 bp):
TCATGATCGGGAATTCAATCGTTGTGTCCTAACGCATTGGATATGACACGTTGTTTTCTCAAAAC
AAGAATTTTTTTTAAAACACAATAAATAAATAAATAAAAGCAATATTTAATGTTTAGAATTTTGA
GAAATTGTGCCCTAACGTATTGGGCTGCGATTTCTTCATCTGACTTAAACAATTGAATATCCTTT
TAAATTTTATTGCATGTGTTTTTTAAGGACAAGCTCATCTTTGAGGATGTAAAATA
Found at i:46252779 original size:184 final size:184
Alignment explanation
Indices: 46252444--46252779 Score: 512
Period size: 184 Copynumber: 1.8 Consensus size: 184
46252434 CTTCCCATCA
*
46252444 ATTTCTTTCATGTACAATAACCAAACAATAATCATGCACTTTAATCCAAAACAATATCATGCACA
1 ATTTCTGTCATGTACAATAACCAAACAATAATCATGCACTTTAATCCAAAACAATATCATGCACA
* * * *
46252509 TGGCATACAATAACCAAACAATAATCCAAAACAAGAATTGATTTGTCTCTTTCTTAAGGCAATTA
66 TGGCAGAAAATAACCAAACAATAATCCAAAACAAGAACTGATTTGTCTCTTTCCTAAGGCAATTA
*
46252574 ATATGCAAATGGTAGACAATAACCAATACAAAAACAATTTAACACAAAAAATCC
131 ATATGCAAATGGGAGACAATAACCAATACAAAAACAATTTAACACAAAAAATCC
* * * ***
46252628 ATTTCTGTCATTTACAATAACCAAACAATAATCATGTACTTTAATCTAAAATTGTATCATGCACA
1 ATTTCTGTCATGTACAATAACCAAACAATAATCATGCACTTTAATCCAAAACAATATCATGCACA
* * *
46252693 TGGTAGAAAATAACCAAACAATAATCCAAAATAGGAACTGATTTGTCTCTTTCCTAAGGCAATTA
66 TGGCAGAAAATAACCAAACAATAATCCAAAACAAGAACTGATTTGTCTCTTTCCTAAGGCAATTA
*
46252758 GTATGCAAATGGCGA-ACAATAA
131 ATATGCAAATGG-GAGACAATAA
46252780 GTTTACATAA
Statistics
Matches: 135, Mismatches: 16, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
184 134 0.99
185 1 0.01
ACGTcount: A:0.44, C:0.19, G:0.10, T:0.28
Consensus pattern (184 bp):
ATTTCTGTCATGTACAATAACCAAACAATAATCATGCACTTTAATCCAAAACAATATCATGCACA
TGGCAGAAAATAACCAAACAATAATCCAAAACAAGAACTGATTTGTCTCTTTCCTAAGGCAATTA
ATATGCAAATGGGAGACAATAACCAATACAAAAACAATTTAACACAAAAAATCC
Found at i:46253110 original size:184 final size:183
Alignment explanation
Indices: 46252776--46253135 Score: 598
Period size: 186 Copynumber: 2.0 Consensus size: 183
46252766 ATGGCGAACA
* *
46252776 ATAAGTTTACATAAATCCAAACCTGCAATTCAGTTTGATACAAACAATAATCATATTTCAATCAA
1 ATAAGTTTACAAAAATCCAAACCTACAATTCAGTTTGATACAAACAATAATCATATTTCAATCAA
46252841 CATTTAAAATACTCATAAATCATATTTGAATAATTCAATGACATACACAGTTTCAAATAATTCAA
66 CATTTAAAATACTCATAAATCATATTTGAATAATTCAATGACATACACAGTTTCAAATAATTCAA
*
46252906 TAAAAAATGATTTATCACTAAACCCTAATGCTATCTGTATGCACATGGTAGACC
131 TAAAAAATGA-TTATCACTAAACCCTAAGGCTATCTGTATGCACATGGTAGACC
46252960 ATAAGTTTACAAAAATCCAAACCTACAATTCAGTTTGATACAAACAATAAAATCATATTTCAATC
1 ATAAGTTTACAAAAATCCAAACCTACAATTCAGTTTGATACAAACAAT--AATCATATTTCAATC
** **
46253025 AACATTTAAAAATA-TTTTGTATCATATTTGAATAATTCAATGACATACACAGTTTCAAATAATT
64 AACATTT-AAAATACTCATAAATCATATTTGAATAATTCAATGACATACACAGTTTCAAATAATT
*
46253089 CAATAAAAAATGA-TGTCACTAAACCCTAAGGCTATCTGTATGCACAT
128 CAATAAAAAATGATTATCACTAAACCCTAAGGCTATCTGTATGCACAT
46253136 AGCAGGCCAT
Statistics
Matches: 165, Mismatches: 8, Indels: 6
0.92 0.04 0.03
Matches are distributed among these distances:
184 78 0.47
186 81 0.49
187 6 0.04
ACGTcount: A:0.44, C:0.17, G:0.07, T:0.32
Consensus pattern (183 bp):
ATAAGTTTACAAAAATCCAAACCTACAATTCAGTTTGATACAAACAATAATCATATTTCAATCAA
CATTTAAAATACTCATAAATCATATTTGAATAATTCAATGACATACACAGTTTCAAATAATTCAA
TAAAAAATGATTATCACTAAACCCTAAGGCTATCTGTATGCACATGGTAGACC
Found at i:46253160 original size:184 final size:183
Alignment explanation
Indices: 46252776--46253169 Score: 585
Period size: 184 Copynumber: 2.1 Consensus size: 183
46252766 ATGGCGAACA
* * *
46252776 ATAAGTTTACATAAATCCAAACCTGCAATTCAGTTTGATACAAACAATAATCATATTTCAATCAA
1 ATAACTTTACAAAAATCCAAACCTACAATTCAGTTTGATACAAACAATAATCATATTTCAATCAA
46252841 CATTTAAAATACTCATAAATCATATTTGAATAATTCAATGACATACACAGTTTCAAATAATTCAA
66 CATTTAAAATACTCATAAATCATATTTGAATAATTCAATGACATACACAGTTTCAAATAATTCAA
* * *
46252906 TAAAAAATGATTTATCACTAAACCCTAATGCTATCTGTATGCACATGGTAGACC
131 TAAAAAATGA-TTATCACTAAACCCTAAGGCTATCTGTATGCACATAGCAGACC
*
46252960 ATAAGTTTACAAAAATCCAAACCTACAATTCAGTTTGATACAAACAATAAAATCATATTTCAATC
1 ATAACTTTACAAAAATCCAAACCTACAATTCAGTTTGATACAAACAAT--AATCATATTTCAATC
** **
46253025 AACATTTAAAAATA-TTTTGTATCATATTTGAATAATTCAATGACATACACAGTTTCAAATAATT
64 AACATTT-AAAATACTCATAAATCATATTTGAATAATTCAATGACATACACAGTTTCAAATAATT
* *
46253089 CAATAAAAAATGA-TGTCACTAAACCCTAAGGCTATCTGTATGCACATAGCAGGCC
128 CAATAAAAAATGATTATCACTAAACCCTAAGGCTATCTGTATGCACATAGCAGACC
** * *
46253144 ATAACTTTGGAAAAATCTAAATCTAC
1 ATAACTTTACAAAAATCCAAACCTAC
46253170 CATACACTTT
Statistics
Matches: 191, Mismatches: 16, Indels: 6
0.90 0.08 0.03
Matches are distributed among these distances:
184 104 0.54
186 81 0.42
187 6 0.03
ACGTcount: A:0.43, C:0.18, G:0.08, T:0.31
Consensus pattern (183 bp):
ATAACTTTACAAAAATCCAAACCTACAATTCAGTTTGATACAAACAATAATCATATTTCAATCAA
CATTTAAAATACTCATAAATCATATTTGAATAATTCAATGACATACACAGTTTCAAATAATTCAA
TAAAAAATGATTATCACTAAACCCTAAGGCTATCTGTATGCACATAGCAGACC
Found at i:46255121 original size:75 final size:75
Alignment explanation
Indices: 46255034--46255184 Score: 230
Period size: 75 Copynumber: 2.0 Consensus size: 75
46255024 AATTGGCAAA
* * * *
46255034 TTTTAAAATAAAAGCAATGGGCTATCTGTTTTTGAGATATTTGGATAAGTTAAAACCCAAAATAT
1 TTTTAAAATAAAAGCAATGGGCTATCTGTTTTGGAGATATTTGGACAAGATAAAACCCAAAACAT
46255099 GAAAATTAAT
66 GAAAATTAAT
* * * *
46255109 TTTTAAAGTAAAAGCATTGTGCTATCTGTTTTGGAGATATTTGGACAAGATAAAGCCCAAAACAT
1 TTTTAAAATAAAAGCAATGGGCTATCTGTTTTGGAGATATTTGGACAAGATAAAACCCAAAACAT
46255174 GAAAATTAAT
66 GAAAATTAAT
46255184 T
1 T
46255185 GAGTTAAAAT
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
75 68 1.00
ACGTcount: A:0.41, C:0.09, G:0.16, T:0.34
Consensus pattern (75 bp):
TTTTAAAATAAAAGCAATGGGCTATCTGTTTTGGAGATATTTGGACAAGATAAAACCCAAAACAT
GAAAATTAAT
Found at i:46267639 original size:10 final size:10
Alignment explanation
Indices: 46267626--46267658 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
46267616 GTATAGATAA
46267626 ATATAATTAT
1 ATATAATTAT
46267636 ATATAATTAT
1 ATATAATTAT
*
46267646 ATATATTTAT
1 ATATAATTAT
46267656 ATA
1 ATA
46267659 ACTTGTGATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (10 bp):
ATATAATTAT
Found at i:46267977 original size:20 final size:20
Alignment explanation
Indices: 46267952--46267991 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
46267942 GTTTGTACAG
* *
46267952 GTTTGCACTTTGGTGCCTCT
1 GTTTGCACTTCGATGCCTCT
46267972 GTTTGCACTTCGATGCCTCT
1 GTTTGCACTTCGATGCCTCT
46267992 ACTATGCATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.07, C:0.28, G:0.23, T:0.42
Consensus pattern (20 bp):
GTTTGCACTTCGATGCCTCT
Found at i:46272332 original size:26 final size:24
Alignment explanation
Indices: 46272273--46272332 Score: 68
Period size: 23 Copynumber: 2.5 Consensus size: 24
46272263 ATCAACTCTT
*
46272273 ATGAGCTTACCGTTTCAGCTAGAT
1 ATGAGCTTACCGTTTCAGCTAGAA
* *
46272297 A-GAGCTTACCGTTCTTTAGCTCGAA
1 ATGAGCTTACCG-T-TTCAGCTAGAA
46272322 ATGAGCTTACC
1 ATGAGCTTACC
46272333 AATCATGGCT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
23 10 0.33
24 2 0.07
25 9 0.30
26 9 0.30
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (24 bp):
ATGAGCTTACCGTTTCAGCTAGAA
Found at i:46284690 original size:30 final size:30
Alignment explanation
Indices: 46284654--46284717 Score: 78
Period size: 30 Copynumber: 2.1 Consensus size: 30
46284644 CAGCAAAAAT
*
46284654 AAAAAGAAAAG-AA-GAATAATGAAGAAGAAG
1 AAAAAGAAAAGTAACGAAGAA-GAAG-AGAAG
*
46284684 AAAAAGAAAGGTAACGAAGAAGAAGAGAAG
1 AAAAAGAAAAGTAACGAAGAAGAAGAGAAG
46284714 AAAA
1 AAAA
46284718 CTAAAGAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
30 19 0.63
31 6 0.20
32 5 0.17
ACGTcount: A:0.69, C:0.02, G:0.25, T:0.05
Consensus pattern (30 bp):
AAAAAGAAAAGTAACGAAGAAGAAGAGAAG
Found at i:46284691 original size:25 final size:25
Alignment explanation
Indices: 46284660--46284709 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
46284650 AAATAAAAAG
*
46284660 AAAAG-AAGAATAATGAAGAAGAAGA
1 AAAAGAAAG-ATAACGAAGAAGAAGA
*
46284685 AAAAGAAAGGTAACGAAGAAGAAGA
1 AAAAGAAAGATAACGAAGAAGAAGA
46284710 GAAGAAAACT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 19 0.86
26 3 0.14
ACGTcount: A:0.66, C:0.02, G:0.26, T:0.06
Consensus pattern (25 bp):
AAAAGAAAGATAACGAAGAAGAAGA
Found at i:46285443 original size:9 final size:9
Alignment explanation
Indices: 46285431--46285460 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
46285421 ACATTTAATT
46285431 AATTTTTAA
1 AATTTTTAA
46285440 AATTTTTAA
1 AATTTTTAA
*
46285449 AAATTTTAA
1 AATTTTTAA
46285458 AAT
1 AAT
46285461 ATTAATTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (9 bp):
AATTTTTAA
Found at i:46285508 original size:20 final size:20
Alignment explanation
Indices: 46285463--46285538 Score: 52
Period size: 19 Copynumber: 3.9 Consensus size: 20
46285453 TTTAAAATAT
* * *
46285463 TAATTTTTT-TTAATTCTCA
1 TAATTTTTTAATAATTTTAA
*
46285482 TATTTTTTTAATAATTTTAA
1 TAATTTTTTAATAATTTTAA
46285502 TAA-TTTTTAAT--TTTTAAA
1 TAATTTTTTAATAATTTT-AA
* *
46285520 AATATTTTTTTATAATTTT
1 TA-ATTTTTTAATAATTTT
46285539 TTAAATTTTA
Statistics
Matches: 44, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
17 4 0.09
18 3 0.07
19 17 0.39
20 16 0.36
22 4 0.09
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (20 bp):
TAATTTTTTAATAATTTTAA
Found at i:46287747 original size:21 final size:22
Alignment explanation
Indices: 46287721--46287763 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
46287711 AATAAATGTA
*
46287721 ATATTTTTT-ATTTTTAAAAAT
1 ATATTTTTTGAATTTTAAAAAT
46287742 ATATTTTTTGAATTTTAAAAAT
1 ATATTTTTTGAATTTTAAAAAT
46287764 TAAAAATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (22 bp):
ATATTTTTTGAATTTTAAAAAT
Found at i:46288450 original size:27 final size:27
Alignment explanation
Indices: 46288402--46288459 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
46288392 AAACTTGTTA
* **
46288402 ATTTTGTTCATTATTTTTAAAT-ATATT
1 ATTTTGTTCAATATTTAAAAATGATA-T
*
46288429 ATTTTGTTTAATATTTAAAAATGATAT
1 ATTTTGTTCAATATTTAAAAATGATAT
46288456 ATTT
1 ATTT
46288460 ATATTTCTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
27 23 0.88
28 3 0.12
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.59
Consensus pattern (27 bp):
ATTTTGTTCAATATTTAAAAATGATAT
Found at i:46290491 original size:22 final size:22
Alignment explanation
Indices: 46290463--46290509 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
46290453 ACAAATCCTA
46290463 TCTCAATTTCCTTCCAAAATCC
1 TCTCAATTTCCTTCCAAAATCC
* *
46290485 TCTCAATTTCCTTTCAAAATTC
1 TCTCAATTTCCTTCCAAAATCC
46290507 TCT
1 TCT
46290510 TAAACGCTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.26, C:0.32, G:0.00, T:0.43
Consensus pattern (22 bp):
TCTCAATTTCCTTCCAAAATCC
Found at i:46290632 original size:30 final size:31
Alignment explanation
Indices: 46290598--46290663 Score: 98
Period size: 31 Copynumber: 2.2 Consensus size: 31
46290588 TCTCAATTTC
** *
46290598 ATTTTTTTTAAATAA-TTTCAATTTTTTTAT
1 ATTTTTTAAAAATAATTTTAAATTTTTTTAT
46290628 ATTTTTTAAAAATAATTTTAAATTTTTTTAT
1 ATTTTTTAAAAATAATTTTAAATTTTTTTAT
46290659 ATTTT
1 ATTTT
46290664 CATCAATGGC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
30 13 0.41
31 19 0.59
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (31 bp):
ATTTTTTAAAAATAATTTTAAATTTTTTTAT
Found at i:46295934 original size:123 final size:124
Alignment explanation
Indices: 46295699--46295965 Score: 448
Period size: 123 Copynumber: 2.2 Consensus size: 124
46295689 CGTCGAGCCA
*
46295699 TATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGACCAACTGTAGCGAAAGCGCATCCA
1 TATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGACCAACTGTAGCAAAAGCGCATCCA
* *
46295764 CGAGGGCACGATTTCACAATTTCTTCTTAATTAGCATCCACGAGGGCGCGATTTTATAC
66 CGAGGGCACGATTTCACAATTTCTTCTCAATTAACATCCACGAGGGCGCGATTTTATAC
* *
46295823 TATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGACCAACTGTAG-AAAATCGCGTCCA
1 TATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGACCAACTGTAGCAAAAGCGCATCCA
* *
46295887 TGAGGGCACGATTTCACAATTTCTTCTCAATTAACATCCTCGAGGGCGCGATTTTATAC
66 CGAGGGCACGATTTCACAATTTCTTCTCAATTAACATCCACGAGGGCGCGATTTTATAC
46295946 TATTTGAC-CAGAAACGTCAA
1 TATTTG-CTCAGAAACGTCAA
46295966 CTCGAAATAA
Statistics
Matches: 135, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
123 83 0.61
124 52 0.39
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (124 bp):
TATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGACCAACTGTAGCAAAAGCGCATCCA
CGAGGGCACGATTTCACAATTTCTTCTCAATTAACATCCACGAGGGCGCGATTTTATAC
Found at i:46297539 original size:19 final size:19
Alignment explanation
Indices: 46297493--46297539 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
46297483 AAAAATATAA
*
46297493 ATTTTGAAATTTTTATAAAT
1 ATTTTG-AATTTTTAAAAAT
*
46297513 ATTATGAA-TTTTAAAAATT
1 ATTTTGAATTTTTAAAAA-T
46297532 ATTTTGAA
1 ATTTTGAA
46297540 CTTGTTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
18 8 0.35
19 10 0.43
20 5 0.22
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (19 bp):
ATTTTGAATTTTTAAAAAT
Found at i:46300280 original size:6 final size:6
Alignment explanation
Indices: 46300269--46300294 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
46300259 AATTTTGGGG
46300269 AAACAA AAACAA AAACAA AAACAA AA
1 AAACAA AAACAA AAACAA AAACAA AA
46300295 TAATATCCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (6 bp):
AAACAA
Found at i:46350514 original size:30 final size:30
Alignment explanation
Indices: 46350244--46350503 Score: 405
Period size: 30 Copynumber: 8.7 Consensus size: 30
46350234 TCCAATGCTT
* *
46350244 AAATCAATTCGGCAATATATATACATATAC
1 AAATCAATTCGGCAATGTATATCCATATAC
*
46350274 AAATCAATTCGGCAATGTATATCTATATAC
1 AAATCAATTCGGCAATGTATATCCATATAC
* *
46350304 AAATCAATTCGGCAATCTATATCGATATAC
1 AAATCAATTCGGCAATGTATATCCATATAC
*
46350334 AAATCAATTCAGCAATGTATATCCATATAC
1 AAATCAATTCGGCAATGTATATCCATATAC
*
46350364 AAATTAATTCGGCAATGTATATCCATATAC
1 AAATCAATTCGGCAATGTATATCCATATAC
46350394 AAATCAATTCGGCAATGTATATCCATATAC
1 AAATCAATTCGGCAATGTATATCCATATAC
* *
46350424 AAATCAATTTGACAATGTATATCCATATAC
1 AAATCAATTCGGCAATGTATATCCATATAC
*
46350454 AAATCAATTCGGCAATGTATACCCATATAC
1 AAATCAATTCGGCAATGTATATCCATATAC
* *
46350484 -AATCAATTCGGAAATATATA
1 AAATCAATTCGGCAATGTATA
46350504 AAACATATAC
Statistics
Matches: 212, Mismatches: 18, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
29 18 0.08
30 194 0.92
ACGTcount: A:0.42, C:0.18, G:0.09, T:0.31
Consensus pattern (30 bp):
AAATCAATTCGGCAATGTATATCCATATAC
Found at i:46354700 original size:6 final size:6
Alignment explanation
Indices: 46354689--46354727 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
46354679 AGGTTTCCAA
* * *
46354689 AAATGG AAATGG AAATGA AAATGA AAATAG AAATGG AAA
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG AAA
46354728 CTTGCAATCC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.62, C:0.00, G:0.23, T:0.15
Consensus pattern (6 bp):
AAATGG
Found at i:46356244 original size:21 final size:19
Alignment explanation
Indices: 46356215--46356266 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 19
46356205 TTTAGTACTT
46356215 TTCAT-AATTTAAGCTC-AA
1 TTCATCAATTTAAGC-CAAA
46356233 TATCTATCAATTTCAAGCCAAA
1 T-TC-ATCAATTT-AAGCCAAA
46356255 TTCATCAATTTA
1 TTCATCAATTTA
46356267 TCAACAATGA
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
18 1 0.03
19 3 0.10
20 10 0.34
21 8 0.28
22 7 0.24
ACGTcount: A:0.38, C:0.19, G:0.04, T:0.38
Consensus pattern (19 bp):
TTCATCAATTTAAGCCAAA
Found at i:46356561 original size:19 final size:18
Alignment explanation
Indices: 46356533--46356601 Score: 50
Period size: 19 Copynumber: 3.6 Consensus size: 18
46356523 TGATTAAGAC
46356533 TTAA-TTAATCTAACTTAA
1 TTAACTTAATC-AACTTAA
**
46356551 TTAACTTAATCATTGTTAA
1 TTAACTTAATCA-ACTTAA
*
46356570 TTAACATAATCCAACCATTAA
1 TTAACTTAAT-CAA-C-TTAA
46356591 TTACACTTAAT
1 TTA-ACTTAAT
46356602 GGAAATTGTC
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
18 5 0.13
19 19 0.49
20 2 0.05
21 7 0.18
22 6 0.15
ACGTcount: A:0.42, C:0.16, G:0.01, T:0.41
Consensus pattern (18 bp):
TTAACTTAATCAACTTAA
Found at i:46357856 original size:13 final size:13
Alignment explanation
Indices: 46357838--46357879 Score: 52
Period size: 12 Copynumber: 3.4 Consensus size: 13
46357828 GGTTAATTTA
46357838 AAATAAAAATATT
1 AAATAAAAATATT
*
46357851 AAATAAAAAT-TA
1 AAATAAAAATATT
*
46357863 AAAT-ATAATATT
1 AAATAAAAATATT
46357875 AAATA
1 AAATA
46357880 TTTAAATATA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
11 4 0.17
12 10 0.42
13 10 0.42
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AAATAAAAATATT
Found at i:46357877 original size:20 final size:18
Alignment explanation
Indices: 46357837--46357891 Score: 56
Period size: 20 Copynumber: 2.9 Consensus size: 18
46357827 AGGTTAATTT
*
46357837 AAAATAAAAATATTAAATA
1 AAAATTAAAATA-TAAATA
46357856 AAAATTAAAATATAATATTA
1 AAAATTAAAATATAA-A-TA
* *
46357876 AATATTTAAATATAAA
1 AAAATTAAAATATAAA
46357892 GAACTTTTGA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
18 3 0.10
19 13 0.42
20 15 0.48
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
AAAATTAAAATATAAATA
Found at i:46358066 original size:24 final size:26
Alignment explanation
Indices: 46358028--46358091 Score: 80
Period size: 25 Copynumber: 2.5 Consensus size: 26
46358018 AAATCTTATA
46358028 TAAAATATAAATTTTTTA-AAAAGTT-
1 TAAAATATAAATTTTTTATAAAA-TTC
*
46358053 TAAAA-ATAATTTTTTTATAAAATTC
1 TAAAATATAAATTTTTTATAAAATTC
46358078 TAAAATATATAATT
1 TAAAATATA-AATT
46358092 ATAAAATTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
24 13 0.39
25 14 0.42
26 3 0.09
27 3 0.09
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (26 bp):
TAAAATATAAATTTTTTATAAAATTC
Found at i:46358086 original size:15 final size:15
Alignment explanation
Indices: 46358068--46358114 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
46358058 ATAATTTTTT
46358068 TATAAAATTCTAAAA
1 TATAAAATTCTAAAA
* *
46358083 TATATAATTATAAAA
1 TATAAAATTCTAAAA
*
46358098 TTTGAAAATTC-AAAA
1 TAT-AAAATTCTAAAA
46358113 TA
1 TA
46358115 ATATATAAAA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
15 20 0.80
16 5 0.20
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.36
Consensus pattern (15 bp):
TATAAAATTCTAAAA
Found at i:46358375 original size:9 final size:9
Alignment explanation
Indices: 46358350--46358414 Score: 53
Period size: 9 Copynumber: 7.1 Consensus size: 9
46358340 TTTTATGATA
46358350 TATATTTTT
1 TATATTTTT
* *
46358359 TAGATTTTA
1 TATATTTTT
46358368 TAT-TTTTT
1 TATATTTTT
46358376 TGA-ATTTTT
1 T-ATATTTTT
*
46358385 ATATATTCATT
1 -TATATT-TTT
*
46358396 TCTATTTTT
1 TATATTTTT
46358405 TATATTTTT
1 TATATTTTT
46358414 T
1 T
46358415 TAATGTGTAT
Statistics
Matches: 43, Mismatches: 8, Indels: 10
0.70 0.13 0.16
Matches are distributed among these distances:
8 5 0.12
9 27 0.63
10 9 0.21
11 2 0.05
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.71
Consensus pattern (9 bp):
TATATTTTT
Found at i:46358389 original size:20 final size:19
Alignment explanation
Indices: 46358363--46358415 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
46358353 ATTTTTTAGA
*
46358363 TTTTATATTTTTTTGAATT
1 TTTTATATTTTTTTCAATT
** *
46358382 TTTATATATTCATTTCTATT
1 TTT-TATATTTTTTTCAATT
46358402 TTTTATATTTTTTT
1 TTTTATATTTTTTT
46358416 AATGTGTATA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
19 12 0.44
20 15 0.56
ACGTcount: A:0.21, C:0.04, G:0.02, T:0.74
Consensus pattern (19 bp):
TTTTATATTTTTTTCAATT
Found at i:46360563 original size:23 final size:22
Alignment explanation
Indices: 46360528--46360570 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
46360518 CGGTTCAATA
46360528 AAAATAAATTATTATAAAATTAT
1 AAAATAAATTATTA-AAAATTAT
46360551 AAAATAAGA-TATTAAAAATT
1 AAAATAA-ATTATTAAAAATT
46360571 CAATTCAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 6 0.32
23 12 0.63
24 1 0.05
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (22 bp):
AAAATAAATTATTAAAAATTAT
Found at i:46360882 original size:11 final size:10
Alignment explanation
Indices: 46360867--46360898 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
46360857 AATAAATTAT
46360867 TAAAAATTTA
1 TAAAAATTTA
46360877 TAAAAATTTA
1 TAAAAATTTA
46360887 -AAAAA-TTA
1 TAAAAATTTA
46360895 TAAA
1 TAAA
46360899 CTTTAATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 3 0.14
9 8 0.38
10 10 0.48
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (10 bp):
TAAAAATTTA
Found at i:46370065 original size:48 final size:48
Alignment explanation
Indices: 46369878--46370076 Score: 236
Period size: 48 Copynumber: 4.1 Consensus size: 48
46369868 GTACCGATAT
* * * *
46369878 TCTGTTATGACACAAGGGTGGCATGGACTGTGTGCAGGCCACCAATAT
1 TCTGTTATGATACAAGGGTGGCACGGACTGTGTGCAGGCCACCAAGAA
* * *
46369926 TTTGTTATGATATAAGGGTGGCACGGACTGTGTGCAGGCCACCAACAA
1 TCTGTTATGATACAAGGGTGGCACGGACTGTGTGCAGGCCACCAAGAA
* * * *
46369974 CCTGTTAAGATACAAGGGTGGCACGGACTATGTGCAGGCCACCGAGAA
1 TCTGTTATGATACAAGGGTGGCACGGACTGTGTGCAGGCCACCAAGAA
* * * * * *
46370022 TCTATTATTATACAAAGGTGGTATGGACTGTGTGCAGGCCACCGAGAAA
1 TCTGTTATGATACAAGGGTGGCACGGACTGTGTGCAGGCCACCAAG-AA
46370071 TCTGTT
1 TCTGTT
46370077 TTTATTTCGA
Statistics
Matches: 128, Mismatches: 22, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
48 121 0.95
49 7 0.05
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.25
Consensus pattern (48 bp):
TCTGTTATGATACAAGGGTGGCACGGACTGTGTGCAGGCCACCAAGAA
Found at i:46375562 original size:25 final size:25
Alignment explanation
Indices: 46375425--46375564 Score: 115
Period size: 25 Copynumber: 5.6 Consensus size: 25
46375415 AAAAGGTCTA
* *
46375425 TGTGGCATA-TTATTTGGGAAGCCTT
1 TGTGGCA-AGTTATCTGGAAAGCCTT
* *
46375450 AGTGGCAAAGTTATTTGGAAAGCCTT
1 TGTGGC-AAGTTATCTGGAAAGCCTT
* * * *
46375476 TGCGACAAGTCATTTGGAAAGCCTT
1 TGTGGCAAGTTATCTGGAAAGCCTT
* * * *
46375501 TATGGCGAGTTATCT-GAAGGCCTA
1 TGTGGCAAGTTATCTGGAAAGCCTT
46375525 TGTGGCATA-TTATCTGGAAAGCCTT
1 TGTGGCA-AGTTATCTGGAAAGCCTT
*
46375550 TGTGGCGAGTTATCT
1 TGTGGCAAGTTATCT
46375565 AAAAAGCCCA
Statistics
Matches: 91, Mismatches: 19, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
24 19 0.21
25 53 0.58
26 19 0.21
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.34
Consensus pattern (25 bp):
TGTGGCAAGTTATCTGGAAAGCCTT
Found at i:46396652 original size:21 final size:21
Alignment explanation
Indices: 46396620--46396660 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
46396610 AGGCTCGAGG
46396620 GGCCTGTTTTAGGCC-ATACAA
1 GGCCTGTTTTA-GCCTATACAA
46396641 GGCCT-TTCTTAGCCTATACA
1 GGCCTGTT-TTAGCCTATACA
46396661 CCAAATGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.32
Consensus pattern (21 bp):
GGCCTGTTTTAGCCTATACAA
Found at i:46404487 original size:11 final size:11
Alignment explanation
Indices: 46404473--46404516 Score: 52
Period size: 11 Copynumber: 3.7 Consensus size: 11
46404463 AAAAAGAAAA
46404473 GAAAAATAATC
1 GAAAAATAATC
*
46404484 GAAAAATAGAGC
1 GAAAAATA-ATC
46404496 TGAAAAACTAATC
1 -GAAAAA-TAATC
46404509 GAAAAATA
1 GAAAAATA
46404517 TACTGAAAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
11 10 0.36
12 8 0.29
13 8 0.29
14 2 0.07
ACGTcount: A:0.61, C:0.09, G:0.14, T:0.16
Consensus pattern (11 bp):
GAAAAATAATC
Found at i:46404522 original size:24 final size:24
Alignment explanation
Indices: 46404473--46404525 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 24
46404463 AAAAAGAAAA
46404473 GAAAAATAATCGAAAAATAGAGCT
1 GAAAAATAATCGAAAAATAGAGCT
*
46404497 GAAAAACTAATCGAAAAATATA-CT
1 GAAAAA-TAATCGAAAAATAGAGCT
46404521 GAAAA
1 GAAAA
46404526 GAAACATGTG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 13 0.48
25 14 0.52
ACGTcount: A:0.60, C:0.09, G:0.13, T:0.17
Consensus pattern (24 bp):
GAAAAATAATCGAAAAATAGAGCT
Found at i:46405546 original size:87 final size:87
Alignment explanation
Indices: 46405387--46405549 Score: 238
Period size: 87 Copynumber: 1.9 Consensus size: 87
46405377 TTTAAATTCA
* * *
46405387 GTGAATTCATCAAGTACGTCTCAATAGGACCACCCAAACTCTGGGATATGAACTCATTAAGAGTA
1 GTGAATTCATCAAGTACGTCTCAATAGGACCACCAAAACTCGGGGATATGAACTCATCAAGAGTA
46405452 AGAAACTCAACCTCACATGTCG
66 AGAAACTCAACCTCACATGTCG
* * * * *
46405474 GTGAATTCATCAAGTTCGTTTCAATAGGATCACCAAAACTCGGGGGCTATGAATTCATCAAGAGT
1 GTGAATTCATCAAGTACGTCTCAATAGGACCACCAAAACTC-GGGGATATGAACTCATCAAGAGT
46405539 AAG-AACTCAAC
65 AAGAAACTCAAC
46405550 GTTATGCATG
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
87 45 0.67
88 22 0.33
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.24
Consensus pattern (87 bp):
GTGAATTCATCAAGTACGTCTCAATAGGACCACCAAAACTCGGGGATATGAACTCATCAAGAGTA
AGAAACTCAACCTCACATGTCG
Found at i:46421137 original size:36 final size:36
Alignment explanation
Indices: 46421090--46421165 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
46421080 GTGTTAGAGT
46421090 ATACCCAAAAACTAATCATGAGATGATTGTAATAAC
1 ATACCCAAAAACTAATCATGAGATGATTGTAATAAC
*
46421126 ATACCCAAAAACTAATCATGAGATGATTGTAATAAT
1 ATACCCAAAAACTAATCATGAGATGATTGTAATAAC
46421162 ATAC
1 ATAC
46421166 TTATTTTACC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.47, C:0.16, G:0.11, T:0.26
Consensus pattern (36 bp):
ATACCCAAAAACTAATCATGAGATGATTGTAATAAC
Found at i:46430159 original size:40 final size:39
Alignment explanation
Indices: 46430128--46430337 Score: 242
Period size: 40 Copynumber: 5.3 Consensus size: 39
46430118 GGACTAAGAT
* *
46430128 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
46430168 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
46430208 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * *
46430248 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
46430288 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
46430327 CCGAAGGCATT
1 CCGAAGGCATT
46430338 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 34 0.22
40 119 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:46430291 original size:120 final size:120
Alignment explanation
Indices: 46430075--46430337 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 120
46430065 TTGAATGCTG
* *
46430075 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
46430139 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
46430195 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * * *
46430258 TCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
46430314 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
46430338 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 38 0.31
120 74 0.61
121 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:46430357 original size:79 final size:80
Alignment explanation
Indices: 46430076--46430372 Score: 230
Period size: 80 Copynumber: 3.7 Consensus size: 80
46430066 TGAATGCTGT
* ** * * * **
46430076 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
46430139 TGTGCGAGATAC-AAATT
64 CGTGCGAGTTACTAAA-A
* * * * **
46430156 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
46430220 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * * *
46430236 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
46430300 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
46430315 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
46430373 TACGTGATTT
Statistics
Matches: 183, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
78 15 0.08
79 47 0.26
80 110 0.60
81 11 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:46438109 original size:40 final size:39
Alignment explanation
Indices: 46438078--46438287 Score: 242
Period size: 40 Copynumber: 5.3 Consensus size: 39
46438068 GGACTAAGAT
* *
46438078 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
46438118 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
46438158 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * *
46438198 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
46438238 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
46438277 CCGAAGGCATT
1 CCGAAGGCATT
46438288 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 34 0.22
40 119 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:46438241 original size:120 final size:120
Alignment explanation
Indices: 46438025--46438287 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 120
46438015 TTGAATGCTG
* *
46438025 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
46438089 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
46438145 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * * *
46438208 TCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
46438264 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
46438288 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 38 0.31
120 74 0.61
121 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:46438307 original size:79 final size:80
Alignment explanation
Indices: 46438026--46438322 Score: 230
Period size: 80 Copynumber: 3.7 Consensus size: 80
46438016 TGAATGCTGT
* ** * * * **
46438026 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
46438089 TGTGCGAGATAC-AAATT
64 CGTGCGAGTTACTAAA-A
* * * * **
46438106 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
46438170 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * * *
46438186 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
46438250 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
46438265 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
46438323 TACGTGATTT
Statistics
Matches: 183, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
78 15 0.08
79 47 0.26
80 110 0.60
81 11 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Done.