Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 136 of 276
Found at i:44108046 original size:12 final size:12
Alignment explanation
Indices: 44108029--44108054 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
44108019 ATACATGTAT
44108029 TTGTCACTTCAA
1 TTGTCACTTCAA
44108041 TTGTCACTTCAA
1 TTGTCACTTCAA
44108053 TT
1 TT
44108055 ATCTTTATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.23, G:0.08, T:0.46
Consensus pattern (12 bp):
TTGTCACTTCAA
Found at i:44110419 original size:13 final size:13
Alignment explanation
Indices: 44110401--44110432 Score: 57
Period size: 12 Copynumber: 2.5 Consensus size: 13
44110391 ATTTTATAGT
44110401 ATTAAAATTTTTA
1 ATTAAAATTTTTA
44110414 ATT-AAATTTTTA
1 ATTAAAATTTTTA
44110426 ATTAAAA
1 ATTAAAA
44110433 GTATAAAGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 12 0.67
13 6 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
ATTAAAATTTTTA
Found at i:44110503 original size:3 final size:3
Alignment explanation
Indices: 44110495--44110534 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
44110485 TTTTCTTTCC
*
44110495 TCT TCT TCT TCT TCT TCT TTT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
44110535 ACACCGAATG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (3 bp):
TCT
Found at i:44110614 original size:13 final size:13
Alignment explanation
Indices: 44110596--44110628 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
44110586 GCTTTGGGTC
44110596 TTCAATTGGTTAG
1 TTCAATTGGTTAG
44110609 TTCAATTGGTTAG
1 TTCAATTGGTTAG
44110622 TTCAATT
1 TTCAATT
44110629 TAGTCATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.24, C:0.09, G:0.18, T:0.48
Consensus pattern (13 bp):
TTCAATTGGTTAG
Found at i:44112378 original size:37 final size:37
Alignment explanation
Indices: 44112337--44112426 Score: 128
Period size: 37 Copynumber: 2.4 Consensus size: 37
44112327 CTATTGATCC
*
44112337 TACTGAATGAAGCTCAATTGAGCAAATCTTA-TCATTA
1 TACTGAATGAAGCTCAATTGAGCAAATCGTACT-ATTA
* *
44112374 TACTGAATGAAGCTAAATTGAGTAAATCGTACTATTA
1 TACTGAATGAAGCTCAATTGAGCAAATCGTACTATTA
*
44112411 TACTGAATGAAACTCA
1 TACTGAATGAAGCTCA
44112427 GGCGAGGGGA
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
37 46 0.98
38 1 0.02
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.31
Consensus pattern (37 bp):
TACTGAATGAAGCTCAATTGAGCAAATCGTACTATTA
Found at i:44129007 original size:6 final size:6
Alignment explanation
Indices: 44128996--44129034 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
44128986 TTTTGTTGTA
* *
44128996 TTTTAT TTTTAT TTTTAT TTTTAT GTTTAT TGTTAT TTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT
44129035 CTTCTATTTA
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:0.15, C:0.00, G:0.05, T:0.79
Consensus pattern (6 bp):
TTTTAT
Found at i:44130549 original size:13 final size:13
Alignment explanation
Indices: 44130520--44130560 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
44130510 CCAATGCATG
44130520 ATTATTTATG-G-
1 ATTATTTATGAGA
44130531 ATTATTT-TGAGA
1 ATTATTTATGAGA
44130543 TATTATTTATGAGA
1 -ATTATTTATGAGA
44130557 ATTA
1 ATTA
44130561 CAAATTGAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
10 2 0.08
11 8 0.31
13 11 0.42
14 5 0.19
ACGTcount: A:0.34, C:0.00, G:0.15, T:0.51
Consensus pattern (13 bp):
ATTATTTATGAGA
Found at i:44130863 original size:30 final size:30
Alignment explanation
Indices: 44130827--44130884 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
44130817 TTTCCAGGTT
*
44130827 CCACACGAGCTGGCCACACACCCGTGTGAG
1 CCACACGAGCTGGCCACACACCCATGTGAG
* *
44130857 CCACACGGGCTGGCCACACGCCCATGTG
1 CCACACGAGCTGGCCACACACCCATGTG
44130885 TTAGCCCGTG
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:0.21, C:0.41, G:0.28, T:0.10
Consensus pattern (30 bp):
CCACACGAGCTGGCCACACACCCATGTGAG
Found at i:44141123 original size:22 final size:21
Alignment explanation
Indices: 44141093--44141150 Score: 80
Period size: 22 Copynumber: 2.7 Consensus size: 21
44141083 GAATGGTATC
44141093 TACAAATCAAATCTCTAAGAT
1 TACAAATCAAATCTCTAAGAT
*
44141114 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCAAATC-TCTAAGAT
*
44141137 TACATATCAAATCT
1 TACAAATCAAATCT
44141151 ACGATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 4 0.12
22 17 0.53
23 11 0.34
ACGTcount: A:0.45, C:0.19, G:0.03, T:0.33
Consensus pattern (21 bp):
TACAAATCAAATCTCTAAGAT
Found at i:44151873 original size:189 final size:186
Alignment explanation
Indices: 44151553--44151931 Score: 686
Period size: 189 Copynumber: 2.0 Consensus size: 186
44151543 GAAAATTTTC
44151553 TACTTGAAACCTTTGTTTAGATGGTTTTTGCACATGAATTATGAGTGTGTGCATGCATGTGAGAA
1 TACTTGAAACCTTTGTTTAGATGGTTTTTGCACATGAATTATGAGTGTGTGCATGCATGTGAGAA
* *
44151618 TTGATGGAATCAAAAGCGGGAATATTTTGTTAGTTGAGCTCTGAATTATTGACTTGCAATTATCA
66 TTGATGGAACCAAAAGCGGGAATATTTTGTTAGTTGAGCTCTGAATTATAGACTTGCAATTATCA
44151683 TTATTGACTTAAGATATAAGTGATATTAAGAAGCCTAACATATTTCTTCTAAGGGTCTT
131 TTATTGACTTAAGATATAAGTGATATTAAGAAGCCTAACATA--T-TTCTAAGGGTCTT
*
44151742 TACTTGAAACCTTTGTTTAGATGGTTTTTGCACATGAATTTTGAGTGTGTGCATGCATGTGAGAA
1 TACTTGAAACCTTTGTTTAGATGGTTTTTGCACATGAATTATGAGTGTGTGCATGCATGTGAGAA
*
44151807 TTGATGGAACCAAAAGGGGGAATATTTTGTTAGTTGAGCTCTGAATTATAGACTTGCAATTATCA
66 TTGATGGAACCAAAAGCGGGAATATTTTGTTAGTTGAGCTCTGAATTATAGACTTGCAATTATCA
*
44151872 TTATTGACTTAAGATATAAGTGATATTAAGAAGCCTGACATATTTCTAAGGGTCTT
131 TTATTGACTTAAGATATAAGTGATATTAAGAAGCCTAACATATTTCTAAGGGTCTT
44151928 TACT
1 TACT
44151932 GTCTAGCTCT
Statistics
Matches: 185, Mismatches: 5, Indels: 3
0.96 0.03 0.02
Matches are distributed among these distances:
186 17 0.09
187 1 0.01
189 167 0.90
ACGTcount: A:0.30, C:0.11, G:0.21, T:0.38
Consensus pattern (186 bp):
TACTTGAAACCTTTGTTTAGATGGTTTTTGCACATGAATTATGAGTGTGTGCATGCATGTGAGAA
TTGATGGAACCAAAAGCGGGAATATTTTGTTAGTTGAGCTCTGAATTATAGACTTGCAATTATCA
TTATTGACTTAAGATATAAGTGATATTAAGAAGCCTAACATATTTCTAAGGGTCTT
Found at i:44165140 original size:79 final size:81
Alignment explanation
Indices: 44165029--44165210 Score: 212
Period size: 79 Copynumber: 2.3 Consensus size: 81
44165019 GCTACTCGTT
* * * *
44165029 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTC-AGATCTTAACCCG
* *
44165093 GATTTAGTAAC-TCGCA
65 GATATAGTAACTTAGCA
* **
44165109 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTCAGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCAGATCTTAACCCG
* *
44165172 GATATGGTCACTTAGCA
65 GATATAGTAACTTAGCA
44165189 CAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
44165211 AGACATCATT
Statistics
Matches: 87, Mismatches: 11, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
78 3 0.03
79 54 0.62
80 30 0.34
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCAGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:44165146 original size:39 final size:40
Alignment explanation
Indices: 44165029--44165210 Score: 210
Period size: 40 Copynumber: 4.6 Consensus size: 40
44165019 GCTACTCGTT
*
44165029 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
44165069 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
44165109 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * * *
44165148 CAAATGCCTTC-AGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
44165189 CAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
44165211 AGACATCATT
Statistics
Matches: 120, Mismatches: 17, Indels: 10
0.82 0.12 0.07
Matches are distributed among these distances:
38 1 0.01
39 33 0.28
40 74 0.62
41 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:44166686 original size:208 final size:206
Alignment explanation
Indices: 44166293--44166706 Score: 810
Period size: 208 Copynumber: 2.0 Consensus size: 206
44166283 CCTCCTTCCT
44166293 TAGAATTTTCGGCCAAATGAAGATGAAAAAGGATGAACAAAATTTTCTCTTTTCTTTTCTTTAAC
1 TAGAATTTTCGGCCAAATGAAGATGAAAAAGGATGAACAAAATTTTCTCTTTTCTTTTCTTTAAC
44166358 TCACGGCAATGGGGGGGAAACAACCACACACTTTTTTTTTGTTTTCATCATATTCCCTTTCATTA
66 TCACGGCAATGGGGGGGAAACAACCACACACTTTTTTTTTGTTTTCATCATATTCCCTTTCATTA
44166423 TTTTATGTCCATGCTCCTTATTTTATTTTTTTCCACCCATGATGCACCAACACAACATGTCTATG
131 TTTTATGTCCATGCTCCTTATTTTATTTTTTTCCACCCATGATGCACCAACACAACATGTCTATG
44166488 ACATGTCTTGC
196 ACATGTCTTGC
44166499 TAGAATTTTCGGCCAAATGAAGATGAAAAAGGATGAACAAAATTTTCTCTTTTCTTTTCTTTAAC
1 TAGAATTTTCGGCCAAATGAAGATGAAAAAGGATGAACAAAATTTTCTCTTTTCTTTTCTTTAAC
44166564 TCACGGCAATGGGGGGGGAAACAACCACACACTTTTTTTTTTGTTTTCATCATATTCCCTTTCAT
66 TCACGGCAAT-GGGGGGGAAACAACCACACAC-TTTTTTTTTGTTTTCATCATATTCCCTTTCAT
44166629 TATTTTATGTCCATGCTCCTTATTTTATTTTTTTCCACCCATGATGCACCAACACAACATGTCTA
129 TATTTTATGTCCATGCTCCTTATTTTATTTTTTTCCACCCATGATGCACCAACACAACATGTCTA
44166694 TGACATGTCTTGC
194 TGACATGTCTTGC
44166707 CCATCACACT
Statistics
Matches: 206, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
206 75 0.36
207 21 0.10
208 110 0.53
ACGTcount: A:0.27, C:0.21, G:0.13, T:0.38
Consensus pattern (206 bp):
TAGAATTTTCGGCCAAATGAAGATGAAAAAGGATGAACAAAATTTTCTCTTTTCTTTTCTTTAAC
TCACGGCAATGGGGGGGAAACAACCACACACTTTTTTTTTGTTTTCATCATATTCCCTTTCATTA
TTTTATGTCCATGCTCCTTATTTTATTTTTTTCCACCCATGATGCACCAACACAACATGTCTATG
ACATGTCTTGC
Found at i:44167447 original size:49 final size:49
Alignment explanation
Indices: 44167390--44167489 Score: 164
Period size: 49 Copynumber: 2.0 Consensus size: 49
44167380 CTCAAACAGC
* *
44167390 ATCTTTCTTCTTCGGAGTCAAAGGTAATCAAGTTACGAAATCCATCGTA
1 ATCTTTCTTCTTCGGAGTCAAAGGTAAGCAAGTTACGAAATCCATCATA
* *
44167439 ATCTTTCTTCTTTGGAGTCAAAGGTAAGCTAGTTACGAAATCCATCATA
1 ATCTTTCTTCTTCGGAGTCAAAGGTAAGCAAGTTACGAAATCCATCATA
44167488 AT
1 AT
44167490 TCTGTCTCAT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (49 bp):
ATCTTTCTTCTTCGGAGTCAAAGGTAAGCAAGTTACGAAATCCATCATA
Found at i:44173473 original size:31 final size:31
Alignment explanation
Indices: 44173435--44173513 Score: 158
Period size: 31 Copynumber: 2.5 Consensus size: 31
44173425 TTTAACGGTT
44173435 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
44173466 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
44173497 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
44173514 ACTGTAAACG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 48 1.00
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.28
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:44173584 original size:42 final size:42
Alignment explanation
Indices: 44173537--44173628 Score: 175
Period size: 42 Copynumber: 2.2 Consensus size: 42
44173527 TGGCCCTTAG
*
44173537 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
44173579 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
44173621 GCCCATTT
1 GCCCATTT
44173629 GGGGAGACTA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.32
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
Found at i:44173804 original size:25 final size:25
Alignment explanation
Indices: 44173776--44173845 Score: 106
Period size: 25 Copynumber: 2.8 Consensus size: 25
44173766 CTCTTTTAAT
*
44173776 AACTGGGGCAAAGCCC-TTTCTGATA
1 AACTGGGGCAGAGCCCTTTTC-GATA
*
44173801 AACTGGGGCAGAGCCCTTTTCGGTA
1 AACTGGGGCAGAGCCCTTTTCGATA
44173826 AACTGGGGCAGAGCCCTTTT
1 AACTGGGGCAGAGCCCTTTT
44173846 AGCACTTCCT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
25 38 0.90
26 4 0.10
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.24
Consensus pattern (25 bp):
AACTGGGGCAGAGCCCTTTTCGATA
Found at i:44177298 original size:31 final size:31
Alignment explanation
Indices: 44177260--44177369 Score: 193
Period size: 31 Copynumber: 3.5 Consensus size: 31
44177250 TTTAACGGTT
44177260 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
44177291 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
44177322 ACTCGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
* *
44177353 ACTAGGCCGAAACCTTT
1 ACTGGGCCGAAGCCTTT
44177370 ACTGTAAACG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 76 1.00
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.28
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:44177445 original size:42 final size:42
Alignment explanation
Indices: 44177393--44177484 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
44177383 TGGCCCTTAG
* * ** *
44177393 GCCCTTTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
44177435 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
44177477 GCCCATTT
1 GCCCATTT
44177485 GGGGAGACTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.30
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:44177660 original size:25 final size:25
Alignment explanation
Indices: 44177632--44177701 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
44177622 CTCTTTTAAT
*
44177632 AACTGGGGCAAAGCCC-TTTCTGATA
1 AACTGGGGCAGAGCCCTTTTC-GATA
* *
44177657 AACTGAGGCAGAGCCCTTTTCGGTA
1 AACTGGGGCAGAGCCCTTTTCGATA
44177682 AACTGGGGCAGAGCCCTTTT
1 AACTGGGGCAGAGCCCTTTT
44177702 AGCACTTCTT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
25 36 0.90
26 4 0.10
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.24
Consensus pattern (25 bp):
AACTGGGGCAGAGCCCTTTTCGATA
Found at i:44178603 original size:27 final size:27
Alignment explanation
Indices: 44178534--44178594 Score: 104
Period size: 27 Copynumber: 2.3 Consensus size: 27
44178524 ATTATGGTCA
44178534 CTTTACCCTACAGGGGCTTTACGATCT
1 CTTTACCCTACAGGGGCTTTACGATCT
*
44178561 CTTTACCCTACAGGGGCTTTACGGTCT
1 CTTTACCCTACAGGGGCTTTACGATCT
*
44178588 TTTTACC
1 CTTTACC
44178595 TAATAGGGGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.16, C:0.30, G:0.18, T:0.36
Consensus pattern (27 bp):
CTTTACCCTACAGGGGCTTTACGATCT
Found at i:44178678 original size:27 final size:27
Alignment explanation
Indices: 44178652--44178782 Score: 102
Period size: 27 Copynumber: 4.7 Consensus size: 27
44178642 ATCTACAAAC
* *
44178652 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTCAGTAATTTTATAAAT
* * *
44178679 CAATGGTATTCCTA-TAATTTTAAAAAAAGT
1 CAAGGGTATTTC-AGTAATTTT--ATAAA-T
* *
44178709 CAAGGGTATTTCTGTAATTTTGTAAAT
1 CAAGGGTATTTCAGTAATTTTATAAAT
* ** *
44178736 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTCAGTAATTTTATAAAT
* *
44178763 TAAGGGTATTTCGGTAATTT
1 CAAGGGTATTTCAGTAATTT
44178783 CTCAAACTAG
Statistics
Matches: 81, Mismatches: 18, Indels: 10
0.74 0.17 0.09
Matches are distributed among these distances:
27 57 0.70
28 4 0.05
29 3 0.04
30 17 0.21
ACGTcount: A:0.33, C:0.08, G:0.18, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTCAGTAATTTTATAAAT
Found at i:44178754 original size:57 final size:53
Alignment explanation
Indices: 44178633--44178808 Score: 149
Period size: 54 Copynumber: 3.2 Consensus size: 53
44178623 TACAAGGGTG
* * * * *
44178633 TTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAACCAATGGTA
1 TTTTGGTAATTTTAAAAATCAAGGGTATTTCAGTAATTTTGTAAA-CAGTGGTA
* * * *
44178687 TTCCT-ATAATTTTAAAAAAAGTCAAGGGTATTTCTGTAATTTTGTAAATCAGGGGTA
1 TT-TTGGTAATTTT--AAAAA-TCAAGGGTATTTCAGTAATTTTGTAAA-CAGTGGTA
* * * *
44178744 TTTTGGTAATTTTACAAATTAAGGGTATTTCGGTAATTTCT-CAAACTAGTGGTA
1 TTTTGGTAATTTTAAAAATCAAGGGTATTTCAGTAATTT-TGTAAAC-AGTGGTA
44178798 TTTTGGTAATT
1 TTTTGGTAATT
44178809 CTATCCTACA
Statistics
Matches: 98, Mismatches: 17, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
53 1 0.01
54 46 0.47
55 6 0.06
56 5 0.05
57 40 0.41
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (53 bp):
TTTTGGTAATTTTAAAAATCAAGGGTATTTCAGTAATTTTGTAAACAGTGGTA
Found at i:44178788 original size:27 final size:27
Alignment explanation
Indices: 44178710--44178808 Score: 94
Period size: 27 Copynumber: 3.7 Consensus size: 27
44178700 AAAAAAAGTC
* ** *
44178710 AAGGGTATTTCTGTAATTTTGTAAATC
1 AAGGGTATTTCGGTAATTTTACAAATT
* *
44178737 AGGGGTATTTTGGTAATTTTACAAATT
1 AAGGGTATTTCGGTAATTTTACAAATT
*
44178764 AAGGGTATTTCGGTAATTTCT-CAAACT
1 AAGGGTATTTCGGTAATTT-TACAAATT
*
44178791 -AGTGGTATTTTGGTAATT
1 AAG-GGTATTTCGGTAATT
44178809 CTATCCTACA
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
26 2 0.03
27 57 0.95
28 1 0.02
ACGTcount: A:0.28, C:0.07, G:0.21, T:0.43
Consensus pattern (27 bp):
AAGGGTATTTCGGTAATTTTACAAATT
Found at i:44179266 original size:27 final size:27
Alignment explanation
Indices: 44178840--44179255 Score: 582
Period size: 27 Copynumber: 15.4 Consensus size: 27
44178830 ATAATTTCAC
* * * *
44178840 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTATA
* *
44178867 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAATGGTAATTCTATA
* * *
44178894 AATCGAGGGTAAAACGATAATTTTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
***
44178921 AATCGAGGGTACTTTGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
*
44178948 AATCGAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTCTATA
* * *
44178975 AATCGAGGGTAAAACGATAATTCCATA
1 AATCGAGGGTAAAATGGTAATTCTATA
44179002 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
* *
44179029 AATCAAGGGTAAAATGGTAATTTTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
* * *
44179056 AATCGAGGGTAAAACGATAATTTTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
44179083 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
44179110 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
*
44179137 AATCGAGGGTAAAATTGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
* *
44179164 AATCGAGGGTAAAACGGTAATTTTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
44179191 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
* *
44179218 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTCTATA
44179245 AATCGAGGGTA
1 AATCGAGGGTA
44179256 CTTTGGTAAT
Statistics
Matches: 349, Mismatches: 38, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
26 1 0.00
27 347 0.99
28 1 0.00
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.30
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTCTATA
Found at i:44190925 original size:19 final size:20
Alignment explanation
Indices: 44190895--44190932 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
44190885 AAAGCACAAA
*
44190895 CCAAATCTGAAATTGAATCC
1 CCAAATCTGAAACTGAATCC
44190915 CCAAATC-GAAACTGAATC
1 CCAAATCTGAAACTGAATC
44190933 TAAAACCCCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.42, C:0.26, G:0.11, T:0.21
Consensus pattern (20 bp):
CCAAATCTGAAACTGAATCC
Found at i:44199754 original size:48 final size:48
Alignment explanation
Indices: 44199683--44200005 Score: 315
Period size: 48 Copynumber: 6.9 Consensus size: 48
44199673 GAATTACCAC
* *
44199683 TGCCATGTCCCAGACATGGTCTTACACGGGCTCACATGTCGAGGCCGA
1 TGCCATGTCCCAGACATGGTCTTACACTGGCTCACATGTCAAGGCCGA
* *
44199731 TGCCATGTCCCAGACATGGTCTTACACGGGCTCACATGTCGAGGCCGA
1 TGCCATGTCCCAGACATGGTCTTACACTGGCTCACATGTCAAGGCCGA
* * * * * *
44199779 TGCCATGTCCCAGACATGGCCTTACACTAGCTCTCGTCTCAATGCCGA
1 TGCCATGTCCCAGACATGGTCTTACACTGGCTCACATGTCAAGGCCGA
* * **
44199827 GGCCATGT-CCA-ACATGGTCTTACACTGGCTCACA-ATCAACACCGA
1 TGCCATGTCCCAGACATGGTCTTACACTGGCTCACATGTCAAGGCCGA
* * ** * * *
44199872 TGCCATGT-CCA-ACAAGGTCTTACAATGGCTCTTATAATCAATGCTGA
1 TGCCATGTCCCAGACATGGTCTTACACTGGCTCACAT-GTCAAGGCCGA
* * *
44199919 TGCCATGT-CCA-ACATGGTCTTACACTAGCATACAAAATGT---GGCCAA
1 TGCCATGTCCCAGACATGGTCTTACACTGGC-T-C-ACATGTCAAGGCCGA
*
44199965 TGCCATGTCCCAGACATGGTCTTACACTAGCTCACATGTCA
1 TGCCATGTCCCAGACATGGTCTTACACTGGCTCACATGTCA
44200006 CCCCAAATGT
Statistics
Matches: 232, Mismatches: 34, Indels: 19
0.81 0.12 0.07
Matches are distributed among these distances:
45 42 0.18
46 31 0.13
47 41 0.18
48 114 0.49
49 2 0.01
50 2 0.01
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.24
Consensus pattern (48 bp):
TGCCATGTCCCAGACATGGTCTTACACTGGCTCACATGTCAAGGCCGA
Found at i:44210870 original size:26 final size:26
Alignment explanation
Indices: 44210811--44210870 Score: 61
Period size: 26 Copynumber: 2.3 Consensus size: 26
44210801 AATGAGGATG
*
44210811 ATAAGA-AAACCCCAGATACAATCTC
1 ATAAGAGAAACCCCAGATACAAACTC
* * *
44210836 ACAACAGAAACCCGAGA-ACATAACTC
1 ATAAGAGAAACCCCAGATACA-AACTC
44210862 ATAAGAGAA
1 ATAAGAGAA
44210871 TAATAATGAA
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
25 7 0.26
26 20 0.74
ACGTcount: A:0.52, C:0.25, G:0.12, T:0.12
Consensus pattern (26 bp):
ATAAGAGAAACCCCAGATACAAACTC
Found at i:44212751 original size:47 final size:50
Alignment explanation
Indices: 44212690--44212816 Score: 161
Period size: 50 Copynumber: 2.6 Consensus size: 50
44212680 TTACAATACA
* * *
44212690 ATGCCAATGTCCCAGACATGGTCTTACATTTA-A-TCACATATCGAGTC-G
1 ATGCC-ATGTCCCAGACATGGTCTTACACTGACACTCACATATCGAGGCTG
**
44212738 ATGCCATGTCCCAGACATGGTCTTACACTGACACTCTTATATCGAGGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGACACTCACATATCGAGGCTG
* *
44212788 ATGCCATATCCCAAACATGGTCTTACACT
1 ATGCCATGTCCCAGACATGGTCTTACACT
44212817 AGCTTTCCTC
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
47 24 0.35
48 6 0.09
49 11 0.16
50 28 0.41
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.28
Consensus pattern (50 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGACACTCACATATCGAGGCTG
Found at i:44212810 original size:50 final size:51
Alignment explanation
Indices: 44212727--44212870 Score: 165
Period size: 50 Copynumber: 2.9 Consensus size: 51
44212717 ATTTAATCAC
* *
44212727 ATATCGAGTC-GATGCCATGTCCCAGACATGGTCTTACACT-GAC-ACTCTT
1 ATATCGAGGCTGATGCCATGTCCCAAACATGGTCTTACACTAG-CTACTCTT
* *
44212776 ATATCGAGGCTGATGCCATATCCCAAACATGGTCTTACACTAGCTTTCCTCTT
1 ATATCGAGGCTGATGCCATGTCCCAAACATGGTCTTACACTAGC--TACTCTT
* *
44212829 -T-TCG-TGCTGATGACATGTCCCAAACATGGTCTTACACTAGCT
1 ATATCGAGGCTGATGCCATGTCCCAAACATGGTCTTACACTAGCT
44212871 CACATGTATT
Statistics
Matches: 83, Mismatches: 7, Indels: 11
0.82 0.07 0.11
Matches are distributed among these distances:
48 1 0.01
49 9 0.11
50 63 0.76
51 4 0.05
52 1 0.01
53 5 0.06
ACGTcount: A:0.24, C:0.28, G:0.17, T:0.31
Consensus pattern (51 bp):
ATATCGAGGCTGATGCCATGTCCCAAACATGGTCTTACACTAGCTACTCTT
Found at i:44214954 original size:39 final size:40
Alignment explanation
Indices: 44214909--44215093 Score: 178
Period size: 40 Copynumber: 4.7 Consensus size: 40
44214899 GCTCCTCGTT
* * *
44214909 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
**
44214949 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
44214988 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * * * * *
44215028 CAAAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CATAACCCGGATTTAGTAAC-TCGCA
* *
44215069 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACATAACCCGGA
44215094 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
39 37 0.30
40 74 0.61
41 11 0.09
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:44215009 original size:40 final size:39
Alignment explanation
Indices: 44214876--44215093 Score: 165
Period size: 40 Copynumber: 5.5 Consensus size: 39
44214866 AAATCACGTA
* * **
44214876 CCTTCGGGATTTAA-CCGGATATAGCTCCTCGTTCA-AATG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCG--CACAATG
* * * * *
44214915 CCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCGCACAATG
* *
44214954 CCTTCGGGACATAACCCGGATTTAACAACTCGCACGAATG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCGCAC-AATG
* * *
44214994 CCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCGCAC-AATG
* * * * *
44215034 CCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCACAAAG
1 CCTTCGGGA-CTTAACCCGGATTTA-GCAAC-TCGCACAATG
*
44215074 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAACCCGGA
44215094 CAGCATTCAA
Statistics
Matches: 143, Mismatches: 29, Indels: 13
0.77 0.16 0.07
Matches are distributed among these distances:
38 2 0.01
39 48 0.34
40 85 0.59
41 8 0.06
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (39 bp):
CCTTCGGGACTTAACCCGGATTTAGCAACTCGCACAATG
Found at i:44222470 original size:39 final size:40
Alignment explanation
Indices: 44222425--44222596 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
44222415 GCTCCTCGTT
* * *
44222425 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
44222465 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
44222504 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
44222544 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
44222584 CAAATGCCTTCGG
1 CAAATGCCTTCGG
44222597 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.29
40 80 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:44222525 original size:40 final size:39
Alignment explanation
Indices: 44222427--44222649 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
44222417 TCCTCGTTCA
* * * *
44222427 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
44222466 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
44222505 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
44222545 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
44222585 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
44222626 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
44222650 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 40 0.25
40 105 0.67
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:44222609 original size:80 final size:79
Alignment explanation
Indices: 44222425--44222649 Score: 240
Period size: 80 Copynumber: 2.8 Consensus size: 79
44222415 GCTCCTCGTT
* * * * *
44222425 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
44222489 ATTTAATAACTCGCA
65 ATTTAATAACTCGCA
* * *
44222504 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
* *
44222569 AATTT-GTATCTCGCA
64 AATTTAATAACTCGCA
* * * * *
44222584 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
44222648 GA
63 GA
44222650 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 39 0.32
80 69 0.57
81 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTAATAACTCGCA
Found at i:44222658 original size:41 final size:41
Alignment explanation
Indices: 44222581--44222658 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
44222571 TTTGTATCTC
* * *
44222581 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
44222622 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
44222659 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:44226286 original size:40 final size:39
Alignment explanation
Indices: 44226242--44226325 Score: 105
Period size: 40 Copynumber: 2.1 Consensus size: 39
44226232 TATATATATA
**
44226242 TAGCCAAAGCTATCTCAAATTGCACACCAAGTGCCACTTT
1 TAGCCAAAGCTATCTCAAACCGCACACCAAGTGCCA-TTT
* * * *
44226282 TAGCCGAAGCTATTTCGAACCGCACACTAAGTGCCATTT
1 TAGCCAAAGCTATCTCAAACCGCACACCAAGTGCCATTT
44226321 TAGCC
1 TAGCC
44226326 GATAAGTCGT
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
39 8 0.21
40 30 0.79
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.25
Consensus pattern (39 bp):
TAGCCAAAGCTATCTCAAACCGCACACCAAGTGCCATTT
Found at i:44226554 original size:11 final size:11
Alignment explanation
Indices: 44226538--44226576 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
44226528 AGATATTTCA
44226538 ATTCATATTTT
1 ATTCATATTTT
*
44226549 ATTCAT-TTTAA
1 ATTCATATTT-T
44226560 ATTCATATTTT
1 ATTCATATTTT
44226571 ATTCAT
1 ATTCAT
44226577 TTTAACTCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
10 3 0.12
11 18 0.75
12 3 0.12
ACGTcount: A:0.31, C:0.10, G:0.00, T:0.59
Consensus pattern (11 bp):
ATTCATATTTT
Found at i:44226563 original size:22 final size:22
Alignment explanation
Indices: 44226537--44226581 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
44226527 CAGATATTTC
44226537 AATTCATATTTTATTCATTTTA
1 AATTCATATTTTATTCATTTTA
44226559 AATTCATATTTTATTCATTTTA
1 AATTCATATTTTATTCATTTTA
44226581 A
1 A
44226582 CTCAATTTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.58
Consensus pattern (22 bp):
AATTCATATTTTATTCATTTTA
Found at i:44226591 original size:27 final size:24
Alignment explanation
Indices: 44226535--44226597 Score: 85
Period size: 22 Copynumber: 2.6 Consensus size: 24
44226525 TTCAGATATT
44226535 TCAATTCATATTTTATTCATTTTA
1 TCAATTCATATTTTATTCATTTTA
44226559 --AATTCATATTTTATTCATTTTAA
1 TCAATTCATATTTTATTCATTTT-A
44226582 CTCAATTTCATATTTT
1 -TCAA-TTCATATTTT
44226598 GGTAAAATTA
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
22 21 0.62
23 1 0.03
26 2 0.06
27 10 0.29
ACGTcount: A:0.30, C:0.13, G:0.00, T:0.57
Consensus pattern (24 bp):
TCAATTCATATTTTATTCATTTTA
Found at i:44227903 original size:48 final size:46
Alignment explanation
Indices: 44227832--44228098 Score: 218
Period size: 48 Copynumber: 5.7 Consensus size: 46
44227822 TACTGATGTT
* * **
44227832 ATGTCCCAGACATGGTCTTACACTGGCTCACATGTTGAGGCCGATGCC
1 ATGT-CCA-ACATGGTCTTACACTAGCTCACATATCAAGGCCGATGCC
* * * * * * *
44227880 ATGTCCCAGACATGGCCTTACACTAGCTCTCGTCTCAATGCCAAGGCC
1 ATGT-CCA-ACATGGTCTTACACTAGCTCACATATCAAGGCCGATGCC
** *
44227928 ATGTCCAACATGGTCTTACACT-GACTCACA-ATCAACACAGATGCC
1 ATGTCCAACATGGTCTTACACTAG-CTCACATATCAAGGCCGATGCC
* * * *
44227973 ATGTCCAACATGGTCTTACACTGGCTCTCATAATCAATGTCGATGCC
1 ATGTCCAACATGGTCTTACACTAGCTCACAT-ATCAAGGCCGATGCC
* ** *
44228020 ATGTCCAACATGGTCTTACACTAGCAT-ACAAAAT-GTGGCCAATGCC
1 ATGTCCAACATGGTCTTACACTAGC-TCAC-ATATCAAGGCCGATGCC
44228066 ATGTCCCAGACATGGTCTTACACTAGCTCACAT
1 ATGT-CCA-ACATGGTCTTACACTAGCTCACAT
44228099 GTCACCCCAA
Statistics
Matches: 177, Mismatches: 33, Indels: 19
0.77 0.14 0.08
Matches are distributed among these distances:
45 37 0.21
46 30 0.17
47 46 0.26
48 64 0.36
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (46 bp):
ATGTCCAACATGGTCTTACACTAGCTCACATATCAAGGCCGATGCC
Found at i:44227983 original size:45 final size:47
Alignment explanation
Indices: 44227925--44228041 Score: 168
Period size: 47 Copynumber: 2.5 Consensus size: 47
44227915 CAATGCCAAG
44227925 GCCATGTCCAACATGGTCTTACACT-G-ACTCACAATCAA-CACAGAT
1 GCCATGTCCAACATGGTCTTACACTGGCACTCACAATCAATCAC-GAT
* * **
44227970 GCCATGTCCAACATGGTCTTACACTGGCTCTCATAATCAATGTCGAT
1 GCCATGTCCAACATGGTCTTACACTGGCACTCACAATCAATCACGAT
44228017 GCCATGTCCAACATGGTCTTACACT
1 GCCATGTCCAACATGGTCTTACACT
44228042 AGCATACAAA
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
45 25 0.38
46 1 0.02
47 38 0.58
48 1 0.02
ACGTcount: A:0.28, C:0.30, G:0.15, T:0.26
Consensus pattern (47 bp):
GCCATGTCCAACATGGTCTTACACTGGCACTCACAATCAATCACGAT
Found at i:44229268 original size:54 final size:54
Alignment explanation
Indices: 44229186--44229292 Score: 205
Period size: 54 Copynumber: 2.0 Consensus size: 54
44229176 CCCTCGTAAC
44229186 ATGCTCTATCCATTTCTACCCATATTTCAAGCTAGGGTTCATGTTAGAAATTTT
1 ATGCTCTATCCATTTCTACCCATATTTCAAGCTAGGGTTCATGTTAGAAATTTT
*
44229240 ATGCTCTATCTATTTCTACCCATATTTCAAGCTAGGGTTCATGTTAGAAATTT
1 ATGCTCTATCCATTTCTACCCATATTTCAAGCTAGGGTTCATGTTAGAAATTT
44229293 GAACCAGGCA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.26, C:0.20, G:0.13, T:0.41
Consensus pattern (54 bp):
ATGCTCTATCCATTTCTACCCATATTTCAAGCTAGGGTTCATGTTAGAAATTTT
Found at i:44230879 original size:30 final size:29
Alignment explanation
Indices: 44230845--44230906 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 29
44230835 TCATGAGATA
44230845 TGATGATGAGGTTTATCATGACTGGATGAT
1 TGATGATGAGGTTTATCATGA-TGGATGAT
44230875 TGATGATGAGGTTTATCATGATGGATGAT
1 TGATGATGAGGTTTATCATGATGGATGAT
44230904 TGA
1 TGA
44230907 AATGGAACCT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 11 0.34
30 21 0.66
ACGTcount: A:0.27, C:0.05, G:0.31, T:0.37
Consensus pattern (29 bp):
TGATGATGAGGTTTATCATGATGGATGAT
Found at i:44247123 original size:35 final size:35
Alignment explanation
Indices: 44247083--44247156 Score: 148
Period size: 35 Copynumber: 2.1 Consensus size: 35
44247073 AGGTAAAATG
44247083 ATAACATGGTTTGAGTTGGTTATAATATGATATGT
1 ATAACATGGTTTGAGTTGGTTATAATATGATATGT
44247118 ATAACATGGTTTGAGTTGGTTATAATATGATATGT
1 ATAACATGGTTTGAGTTGGTTATAATATGATATGT
44247153 ATAA
1 ATAA
44247157 GACTTGGTTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.34, C:0.03, G:0.22, T:0.42
Consensus pattern (35 bp):
ATAACATGGTTTGAGTTGGTTATAATATGATATGT
Found at i:44250060 original size:27 final size:28
Alignment explanation
Indices: 44250019--44250085 Score: 77
Period size: 27 Copynumber: 2.4 Consensus size: 28
44250009 AACACCATTT
*
44250019 AAAA-ATAATAGAAAATATAAATT-T-TA
1 AAAATATAATATAAAATA-AAATTATATA
44250045 AAAATATAATATAAAATAAAATTATATA
1 AAAATATAATATAAAATAAAATTATATA
*
44250073 AATAATTTAATAT
1 AA-AATATAATAT
44250086 TTGCAAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
26 9 0.26
27 13 0.37
28 4 0.11
29 9 0.26
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.34
Consensus pattern (28 bp):
AAAATATAATATAAAATAAAATTATATA
Found at i:44250665 original size:14 final size:14
Alignment explanation
Indices: 44250630--44250667 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
44250620 TGTTTCACTA
*
44250630 AAAATGACTTCTGG
1 AAAATGATTTCTGG
44250644 AAAATGATTTCTGG
1 AAAATGATTTCTGG
44250658 AAAATGATTT
1 AAAATGATTT
44250668 ACTTTTCTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.39, C:0.08, G:0.18, T:0.34
Consensus pattern (14 bp):
AAAATGATTTCTGG
Found at i:44251241 original size:15 final size:15
Alignment explanation
Indices: 44251213--44251254 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
44251203 TATGTGAATA
44251213 ATATTATTTAAAATT
1 ATATTATTTAAAATT
* *
44251228 ATATTGTTTTAAATT
1 ATATTATTTAAAATT
44251243 -TATTA-TTAAAAT
1 ATATTATTTAAAAT
44251255 AAAATTACAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
13 6 0.26
14 4 0.17
15 13 0.57
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (15 bp):
ATATTATTTAAAATT
Found at i:44251302 original size:22 final size:22
Alignment explanation
Indices: 44251258--44251317 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
44251248 TTAAAATAAA
* *
44251258 ATTACAATATTAAA-TA-ATTT
1 ATTAAAATAATAAATTATATTT
44251278 ATTAAAATAATAAATTATATTT
1 ATTAAAATAATAAATTATATTT
* * *
44251300 ATTATATTAATAATTTAT
1 ATTAAAATAATAAATTAT
44251318 TATATGACTA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
20 12 0.36
21 2 0.06
22 19 0.58
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (22 bp):
ATTAAAATAATAAATTATATTT
Found at i:44251303 original size:34 final size:32
Alignment explanation
Indices: 44251221--44251303 Score: 80
Period size: 31 Copynumber: 2.5 Consensus size: 32
44251211 TAATATTATT
* *
44251221 TAAAATTATATTGTTTTAAATTTATTATTAAAA
1 TAAAATTATATT-TATTAAATATATTATTAAAA
* *
44251254 TAAAATTACA-ATATTAAATA-ATTTATTAAAA
1 TAAAATTATATTTATTAAATATA-TTATTAAAA
44251285 TAATAAATTATATTTATTA
1 T-A-AAATTATATTTATTA
44251304 TATTAATAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
30 1 0.03
31 17 0.43
32 1 0.03
33 16 0.40
34 5 0.12
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (32 bp):
TAAAATTATATTTATTAAATATATTATTAAAA
Found at i:44253820 original size:42 final size:43
Alignment explanation
Indices: 44253764--44253889 Score: 146
Period size: 42 Copynumber: 3.0 Consensus size: 43
44253754 AGGATTTCCG
* *
44253764 ATATGTGATATCGTGTAAGACCATGTCTGGGACATTGGCATCC
1 ATATCTGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCC
* *
44253807 -TATCTGATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCC
1 ATATCTGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCC
* * * * * * *
44253849 ATGTTTGATTACATGTAAGACCACGTTTGGGACGTTGGCAT
1 ATATCTGATTTCGTGTAAGACCATGTCTGGGACATTGGCAT
44253890 TGTATATGCT
Statistics
Matches: 69, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
42 38 0.55
43 31 0.45
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.32
Consensus pattern (43 bp):
ATATCTGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCC
Found at i:44253880 original size:43 final size:42
Alignment explanation
Indices: 44253777--44253889 Score: 122
Period size: 43 Copynumber: 2.7 Consensus size: 42
44253767 TGTGATATCG
* * * *
44253777 TGTAAGACCATGTCTGGGACATTGGCATCCTATCTGATTTCG
1 TGTAAGACCACGTCTGGGACAGTGGCATCCTATCTGATTACA
* *
44253819 TGTAAGACC-CTGTCTGGGACAGTGGCATCCATGTTTGATTACA
1 TGTAAGACCAC-GTCTGGGACAGTGGCATCC-TATCTGATTACA
*
44253862 TGTAAGACCACGTTTGGGAC-GTTGGCAT
1 TGTAAGACCACGTCTGGGACAG-TGGCAT
44253890 TGTATATGCT
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
42 28 0.47
43 31 0.52
44 1 0.02
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACAGTGGCATCCTATCTGATTACA
Found at i:44259056 original size:38 final size:38
Alignment explanation
Indices: 44258996--44259237 Score: 259
Period size: 38 Copynumber: 5.9 Consensus size: 38
44258986 TTCATTAATA
*
44258996 TGGTGCTAAGTGGATATACCACGGTTAAACATGTAACG
1 TGGTGCTAAGTGGATATGCCACGGTTAAACATGTAACG
* *
44259034 TGGTGCTAAGTGCATATGCCACGGTTACATATATTGATTCATTAACG
1 TGGTGCTAAGTGGATATGCCACGGTTA-A-ACA-TG------TAACG
*
44259081 TGGTGCTAAGTGGATATTCCACGGTTAAACATGTAACG
1 TGGTGCTAAGTGGATATGCCACGGTTAAACATGTAACG
*
44259119 TGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACG
1 TGGTGCTAAGTGGATATGCCACGGTTA-A-ACA-TG------TAACG
*
44259166 TGGTGCTAAGTGGATATACCACGGTTAAACATGTAACG
1 TGGTGCTAAGTGGATATGCCACGGTTAAACATGTAACG
*
44259204 TGGTGCTAAGTGGATATGCCACGGTTATACATGT
1 TGGTGCTAAGTGGATATGCCACGGTTAAACATGT
44259238 TAATTTGAAA
Statistics
Matches: 174, Mismatches: 12, Indels: 36
0.78 0.05 0.16
Matches are distributed among these distances:
38 93 0.53
39 2 0.01
40 4 0.02
41 4 0.02
44 4 0.02
45 4 0.02
46 2 0.01
47 61 0.35
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.31
Consensus pattern (38 bp):
TGGTGCTAAGTGGATATGCCACGGTTAAACATGTAACG
Found at i:44259076 original size:85 final size:85
Alignment explanation
Indices: 44258933--44259230 Score: 533
Period size: 85 Copynumber: 3.5 Consensus size: 85
44258923 CTCATGAGTA
* * * **
44258933 GGTTAAACATGTAACGTGGTGTTAAGTGGATATGCCGCGATTACATATATTGATTCATTAATATG
1 GGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTG
44258998 GTGCTAAGTGGATATACCAC
66 GTGCTAAGTGGATATACCAC
*
44259018 GGTTAAACATGTAACGTGGTGCTAAGTGCATATGCCACGGTTACATATATTGATTCATTAACGTG
1 GGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTG
*
44259083 GTGCTAAGTGGATATTCCAC
66 GTGCTAAGTGGATATACCAC
44259103 GGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTG
1 GGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTG
44259168 GTGCTAAGTGGATATACCAC
66 GTGCTAAGTGGATATACCAC
44259188 GGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTA
1 GGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTA
44259231 TACATGTTAA
Statistics
Matches: 204, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
85 204 1.00
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (85 bp):
GGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTG
GTGCTAAGTGGATATACCAC
Found at i:44265958 original size:42 final size:42
Alignment explanation
Indices: 44265910--44266029 Score: 123
Period size: 43 Copynumber: 2.8 Consensus size: 42
44265900 TATGTGATAT
* *
44265910 CATGTAAGACCATATCTGGGACATTGGCATCGTATCTGATTT
1 CATGTAAGACCATGTCTGGGACATTGGCATCGTATCTGATTA
** * * * * *
44265952 TGTGTAAGACCTTGTCTGGGATAGTGGCATCGATGTTTGATTA
1 CATGTAAGACCATGTCTGGGACATTGGCATCG-TATCTGATTA
* * *
44265995 CATGTAAGACCACGTCTGGGACGTTGGCATTGTAT
1 CATGTAAGACCATGTCTGGGACATTGGCATCGTAT
44266030 ATGCTTTCCG
Statistics
Matches: 59, Mismatches: 18, Indels: 2
0.75 0.23 0.03
Matches are distributed among these distances:
42 28 0.47
43 31 0.53
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (42 bp):
CATGTAAGACCATGTCTGGGACATTGGCATCGTATCTGATTA
Found at i:44272514 original size:38 final size:38
Alignment explanation
Indices: 44272463--44272535 Score: 137
Period size: 38 Copynumber: 1.9 Consensus size: 38
44272453 GGACCTGAGT
*
44272463 TGGTGGCAGATACTGAGGATAAGGTCAAGTTGATTAGC
1 TGGTGGCAGATACTGAGGATAAAGTCAAGTTGATTAGC
44272501 TGGTGGCAGATACTGAGGATAAAGTCAAGTTGATT
1 TGGTGGCAGATACTGAGGATAAAGTCAAGTTGATT
44272536 GGAGATCGGT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.30, C:0.10, G:0.33, T:0.27
Consensus pattern (38 bp):
TGGTGGCAGATACTGAGGATAAAGTCAAGTTGATTAGC
Found at i:44274344 original size:27 final size:26
Alignment explanation
Indices: 44274300--44274351 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
44274290 CTCGCTGCAA
*
44274300 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
44274327 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
44274352 GCAGCTTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:44288975 original size:27 final size:27
Alignment explanation
Indices: 44288920--44289236 Score: 375
Period size: 27 Copynumber: 11.7 Consensus size: 27
44288910 TACTGAAATG
* * ***
44288920 CCCTCGAATTGTAAAATTACCAAAGTA
1 CCCTCGATTTATAAAATTACCATTTTA
* *
44288947 CCCTCGATTTACAAAATTACCGTTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
* * *
44288974 CCCTCAATTTATAGAATTACCGTTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
* *
44289001 CCC-CTAATTTACAAAATTACCATTTTA
1 CCCTC-GATTTATAAAATTACCATTTTA
44289028 CCCTCGATTTATAAAATTACCATTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
44289055 CCCTCGATTTATAAAATTACCATTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
* * *
44289082 CCCTTGATTTATAGAATTATCATTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
* *
44289109 CCCTCGATTTACAGAATTACCATTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
* *
44289136 CCCTCGATTTATAGAATTACTATTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
* * *
44289163 CCCTCGACTTATAGAATTACCGTTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
* * *
44289190 CCCTCAATTTATAGAATTACCGTTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
* *
44289217 CCCTCAATTTACAAAATTAC
1 CCCTCGATTTATAAAATTAC
44289237 TGAAATACCC
Statistics
Matches: 258, Mismatches: 30, Indels: 4
0.88 0.10 0.01
Matches are distributed among these distances:
26 1 0.00
27 256 0.99
28 1 0.00
ACGTcount: A:0.32, C:0.23, G:0.06, T:0.38
Consensus pattern (27 bp):
CCCTCGATTTATAAAATTACCATTTTA
Found at i:44289245 original size:27 final size:27
Alignment explanation
Indices: 44289188--44289300 Score: 84
Period size: 27 Copynumber: 4.2 Consensus size: 27
44289178 ATTACCGTTT
* * ***
44289188 TACCCTCAATTTATAGAATTACCGTTT
1 TACCCTCAATTTACAAAATTACCGAAA
*
44289215 TACCCTCAATTTACAAAATTACTGAAA
1 TACCCTCAATTTACAAAATTACCGAAA
*** *
44289242 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCAATTTACAAAATTACCGAAA
* * * *
44289269 TACCTTCAA-TCAGTAAAATTACCAAAA
1 TACCCTCAATTTA-CAAAATTACCGAAA
44289296 TACCC
1 TACCC
44289301 CTAGTTTGTA
Statistics
Matches: 67, Mismatches: 18, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
26 2 0.03
27 65 0.97
ACGTcount: A:0.40, C:0.24, G:0.05, T:0.31
Consensus pattern (27 bp):
TACCCTCAATTTACAAAATTACCGAAA
Found at i:44289246 original size:81 final size:81
Alignment explanation
Indices: 44288906--44289265 Score: 348
Period size: 81 Copynumber: 4.4 Consensus size: 81
44288896 TTAGTTTACC
** * * * *** *
44288906 AAATTACTGAAATGCCCTCGAATTGTAAAATTACCAAAGTACCCTCGATTTACAAAATTACCGTT
1 AAATTACTGATTTACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTACAAAATTACCATT
44288971 TTACCCTCAATTTATA
66 TTACCCTCAATTTATA
* * * * * *
44288987 GAATTACCGTTTTACCC-CTAATTTACAAAATTACCATTTTACCCTCGATTTATAAAATTACCAT
1 AAATTACTGATTTACCCTC-GATTTATAAAATTACCATTTTACCCTCGATTTACAAAATTACCAT
*
44289051 TTTACCCTCGATTTATA
65 TTTACCCTCAATTTATA
* * * * *
44289068 AAATTAC-CATTTTACCCTTGATTTATAGAATTATCATTTTACCCTCGATTTACAGAATTACCAT
1 AAATTACTGA-TTTACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTACAAAATTACCAT
*
44289132 TTTACCCTCGATTTATA
65 TTTACCCTCAATTTATA
* * * * * * * *
44289149 GAATTACT-ATTTTACCCTCGACTTATAGAATTACCGTTTTACCCTCAATTTATAGAATTACCGT
1 AAATTACTGA-TTTACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTACAAAATTACCAT
*
44289213 TTTACCCTCAATTTACA
65 TTTACCCTCAATTTATA
** * * *
44289230 AAATTACTGAAATACCCTTGGTTTACAAAATTACCA
1 AAATTACTGATTTACCCTCGATTTATAAAATTACCA
44289266 AAATACCTTC
Statistics
Matches: 229, Mismatches: 45, Indels: 10
0.81 0.16 0.04
Matches are distributed among these distances:
80 1 0.00
81 227 0.99
82 1 0.00
ACGTcount: A:0.33, C:0.22, G:0.07, T:0.38
Consensus pattern (81 bp):
AAATTACTGATTTACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTACAAAATTACCATT
TTACCCTCAATTTATA
Found at i:44289278 original size:81 final size:81
Alignment explanation
Indices: 44288906--44289354 Score: 321
Period size: 81 Copynumber: 5.5 Consensus size: 81
44288896 TTAGTTTACC
* * * * * * *
44288906 AAATTACTGAAATGCCCTCGAATTGTAAAATTACCAAAGTACCCTCGATTTACAAAATTACCGTT
1 AAATTACTGAAATACCCTTGATTTATAAAATTACCAAATTACCCTCGATTTATAAAATTACCATT
44288971 TTACCCTCAATTTATA
66 TTACCCTCAATTTATA
* * *** * * * **
44288987 GAATTACCGTTTTACCCCTAATTTACAAAATTACCATTTTACCCTCGATTTATAAAATTACCATT
1 AAATTACTGAAATACCCTTGATTTATAAAATTACCAAATTACCCTCGATTTATAAAATTACCATT
*
44289052 TTACCCTCGATTTATA
66 TTACCCTCAATTTATA
* ** * * ** * *
44289068 AAATTAC-CATTTTACCCTTGATTTATAGAATTATCATTTTACCCTCGATTTACAGAATTACCAT
1 AAATTACTGA-AATACCCTTGATTTATAAAATTACCAAATTACCCTCGATTTATAAAATTACCAT
*
44289132 TTTACCCTCGATTTATA
65 TTTACCCTCAATTTATA
* ** * * * *** * * *
44289149 GAATTACT-ATTTTACCCTCGACTTATAGAATTACCGTTTTACCCTCAATTTATAGAATTACCGT
1 AAATTACTGA-AATACCCTTGATTTATAAAATTACCAAATTACCCTCGATTTATAAAATTACCAT
*
44289213 TTTACCCTCAATTTACA
65 TTTACCCTCAATTTATA
* * * * * * *
44289230 AAATTACTGAAATACCCTTGGTTTACAAAATTACCAAAATACCTTC-AATCAGTAAAATTACCAA
1 AAATTACTGAAATACCCTTGATTTATAAAATTACCAAATTACCCTCGATTTA-TAAAATTACCAT
** * *
44289294 AATACCC-CTAGTTTGTA
65 TTTACCCTC-AATTTATA
* * * * *
44289311 AAATTACTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCC
1 AAATTACTGAAATACCCTTGATTTATAAAATTACCAAATTACCC
44289355 CTGGCTTGTA
Statistics
Matches: 297, Mismatches: 66, Indels: 10
0.80 0.18 0.03
Matches are distributed among these distances:
80 4 0.01
81 292 0.98
82 1 0.00
ACGTcount: A:0.35, C:0.22, G:0.07, T:0.36
Consensus pattern (81 bp):
AAATTACTGAAATACCCTTGATTTATAAAATTACCAAATTACCCTCGATTTATAAAATTACCATT
TTACCCTCAATTTATA
Found at i:44289311 original size:27 final size:27
Alignment explanation
Indices: 44289281--44289397 Score: 180
Period size: 27 Copynumber: 4.3 Consensus size: 27
44289271 CCTTCAATCA
*
44289281 GTAAAATTACCAAAATACCCCTAGTTT
1 GTAAAATTACCAAAATACCCCTGGTTT
*
44289308 GTAAAATTACTAAAATACCCCTGGTTT
1 GTAAAATTACCAAAATACCCCTGGTTT
*
44289335 GTAAAATTACCAAAATACCCCTGGCTT
1 GTAAAATTACCAAAATACCCCTGGTTT
* *
44289362 GTAAAATTACCAAAATACTCCTGATTT
1 GTAAAATTACCAAAATACCCCTGGTTT
*
44289389 GTGAAATTA
1 GTAAAATTA
44289398 TCGAAATGCT
Statistics
Matches: 82, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 82 1.00
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (27 bp):
GTAAAATTACCAAAATACCCCTGGTTT
Found at i:44289366 original size:81 final size:81
Alignment explanation
Indices: 44289229--44289397 Score: 207
Period size: 81 Copynumber: 2.1 Consensus size: 81
44289219 CTCAATTTAC
* * *
44289229 AAAATTACTGAAATACCCTTGGTTTACAAAATTACCAAAATACCTTCAATCAGTAAAATTACCAA
1 AAAATTACTAAAATACCCCTGGTTTACAAAATTACCAAAATACCCTCAATCAGTAAAATTACCAA
44289294 AATACCCCT-AGTTTGT
66 AATACCCCTGA-TTTGT
** *** *
44289310 AAAATTACTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCC-CTGGCTTGTAAAATTACCA
1 AAAATTACTAAAATACCCCTGGTTTACAAAATTACCAAAATACCCTCAATC-AGTAAAATTACCA
*
44289374 AAATACTCCTGATTTGT
65 AAATACCCCTGATTTGT
*
44289391 GAAATTA
1 AAAATTA
44289398 TCGAAATGCT
Statistics
Matches: 75, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
80 2 0.03
81 72 0.96
82 1 0.01
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (81 bp):
AAAATTACTAAAATACCCCTGGTTTACAAAATTACCAAAATACCCTCAATCAGTAAAATTACCAA
AATACCCCTGATTTGT
Found at i:44289404 original size:27 final size:27
Alignment explanation
Indices: 44289281--44289436 Score: 165
Period size: 27 Copynumber: 5.8 Consensus size: 27
44289271 CCTTCAATCA
44289281 GTAAAATTACCAAAATACCCCT-AGTTT
1 GTAAAATTACCAAAATACCCCTGA-TTT
* *
44289308 GTAAAATTACTAAAATACCCCTGGTTT
1 GTAAAATTACCAAAATACCCCTGATTT
**
44289335 GTAAAATTACCAAAATACCCCTGGCTT
1 GTAAAATTACCAAAATACCCCTGATTT
*
44289362 GTAAAATTACCAAAATACTCCTGATTT
1 GTAAAATTACCAAAATACCCCTGATTT
* * * * *
44289389 GTGAAATTATCGAAAT-GCTCTCGATTT
1 GTAAAATTACCAAAATACCCCT-GATTT
* *
44289416 GTAAAA-TATCGAAATACCCCT
1 GTAAAATTACCAAAATACCCCT
44289437 ATAGGGTAGA
Statistics
Matches: 110, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
26 11 0.10
27 99 0.90
ACGTcount: A:0.38, C:0.21, G:0.11, T:0.31
Consensus pattern (27 bp):
GTAAAATTACCAAAATACCCCTGATTT
Found at i:44289417 original size:81 final size:80
Alignment explanation
Indices: 44289281--44289436 Score: 183
Period size: 81 Copynumber: 1.9 Consensus size: 80
44289271 CCTTCAATCA
*
44289281 GTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCCTGGTTTGTAAAATTACC
1 GTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCCTGATTTGTAAAA-TACC
44289346 AAAATACCCCTGGCTT
65 AAAATACCCCTGGCTT
* * * * *
44289362 GTAAAATTACCAAAATACTCCT-GATTTGTGAAATTA-TCGAAAT-GCTCTCGATTTGTAAAATA
1 GTAAAATTACCAAAATACCCCTAG-TTTGTAAAATTACT-AAAATACCCCT-GATTTGTAAAATA
* *
44289424 TCGAAATACCCCT
63 CCAAAATACCCCT
44289437 ATAGGGTAGA
Statistics
Matches: 64, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
80 18 0.28
81 46 0.72
ACGTcount: A:0.38, C:0.21, G:0.11, T:0.31
Consensus pattern (80 bp):
GTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCCTGATTTGTAAAATACCA
AAATACCCCTGGCTT
Found at i:44289486 original size:54 final size:54
Alignment explanation
Indices: 44289419--44289559 Score: 201
Period size: 54 Copynumber: 2.6 Consensus size: 54
44289409 TCGATTTGTA
* * * *
44289419 AAATATCGAAATACCCCTATAGGGTAGAATTACTGATATAACTCTGTAGGGTAG
1 AAATATCGAAATACCCCTGTAGGGTAGAATTACTAAAATAACCCTGTAGGGTAG
* * *
44289473 AATTATCGAAATACCCTTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAG
1 AAATATCGAAATACCCCTGTAGGGTAGAATTACTAAAATAACCCTGTAGGGTAG
* *
44289527 AAATACCGAAATAACCCTGTAGGGTAGAATTAC
1 AAATATCGAAATACCCCTGTAGGGTAGAATTAC
44289560 CGAGATTCTC
Statistics
Matches: 76, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 76 1.00
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.26
Consensus pattern (54 bp):
AAATATCGAAATACCCCTGTAGGGTAGAATTACTAAAATAACCCTGTAGGGTAG
Found at i:44289526 original size:81 final size:81
Alignment explanation
Indices: 44289427--44289586 Score: 221
Period size: 81 Copynumber: 2.0 Consensus size: 81
44289417 TAAAATATCG
* * * * *
44289427 AAATACCCCTATAGGGTAGAATTACTGATATAACTCTGTAGGGTAGAATTATCGAAATACCCTTG
1 AAATACCCCTATAGGGTAGAAATACCGAAATAACCCTGTAGGGTAGAATTACCGAAATACCCTTG
*
44289492 TAGGGTAGAATTACTA
66 TAGGGTAAAATTACTA
* * * *
44289508 AAATACCCCTGTAGGGTAGAAATACCGAAATAACCCTGTAGGGTAGAATTACCGAGATTCTCTTG
1 AAATACCCCTATAGGGTAGAAATACCGAAATAACCCTGTAGGGTAGAATTACCGAAATACCCTTG
*
44289573 TGGGGTAAAATTAC
66 TAGGGTAAAATTAC
44289587 CATTTTTCCC
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
81 68 1.00
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.28
Consensus pattern (81 bp):
AAATACCCCTATAGGGTAGAAATACCGAAATAACCCTGTAGGGTAGAATTACCGAAATACCCTTG
TAGGGTAAAATTACTA
Found at i:44289560 original size:27 final size:27
Alignment explanation
Indices: 44289425--44289562 Score: 170
Period size: 27 Copynumber: 5.1 Consensus size: 27
44289415 TGTAAAATAT
* *
44289425 CGAAATACCCCTATAGGGTAGAATTAC
1 CGAAATAACCCTGTAGGGTAGAATTAC
* * * *
44289452 TGATATAACTCTGTAGGGTAGAATTAT
1 CGAAATAACCCTGTAGGGTAGAATTAC
44289479 CGAAAT-ACCCTTGTAGGGTAGAATTAC
1 CGAAATAACCC-TGTAGGGTAGAATTAC
** * *
44289506 TAAAATACCCCTGTAGGGTAGAAATAC
1 CGAAATAACCCTGTAGGGTAGAATTAC
44289533 CGAAATAACCCTGTAGGGTAGAATTAC
1 CGAAATAACCCTGTAGGGTAGAATTAC
44289560 CGA
1 CGA
44289563 GATTCTCTTG
Statistics
Matches: 91, Mismatches: 18, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
26 3 0.03
27 85 0.93
28 3 0.03
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.25
Consensus pattern (27 bp):
CGAAATAACCCTGTAGGGTAGAATTAC
Found at i:44289828 original size:25 final size:25
Alignment explanation
Indices: 44289790--44289859 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
44289780 AGGAAGTGCT
*
44289790 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
* *
44289815 AAAAGGGCTTTGCCCTAATTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
44289840 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
44289860 ATTAAAAGAG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:44296889 original size:280 final size:280
Alignment explanation
Indices: 44296388--44296937 Score: 1100
Period size: 280 Copynumber: 2.0 Consensus size: 280
44296378 GNNNNNNNNN
44296388 ACACGCCGGGGCTGACCGTATGTCACACACGGCCTAGACACATGCCCGTGTGTCTACCCGTGTAG
1 ACACGCCGGGGCTGACCGTATGTCACACACGGCCTAGACACATGCCCGTGTGTCTACCCGTGTAG
44296453 ACAACTTTGAGGCTATTTTCCAAGCCCTTTTCTCATCCTCACTAACACATGCACACCCTCATATA
66 ACAACTTTGAGGCTATTTTCCAAGCCCTTTTCTCATCCTCACTAACACATGCACACCCTCATATA
44296518 CCAATGGTGAATATCATGGCATAAATGGTTTACTTAAACATCCATAGTTTAACTCATGCATGGCA
131 CCAATGGTGAATATCATGGCATAAATGGTTTACTTAAACATCCATAGTTTAACTCATGCATGGCA
44296583 ATTACATGCCAAAGTATACATATTTGGGTTTCTATAACTTACTAGAATCATTCAAAACATTTCCT
196 ATTACATGCCAAAGTATACATATTTGGGTTTCTATAACTTACTAGAATCATTCAAAACATTTCCT
44296648 TACTTTAAACTGTCCGGACA
261 TACTTTAAACTGTCCGGACA
44296668 ACACGCCGGGGCTGACCGTATGTCACACACGGCCTAGACACATGCCCGTGTGTCTACCCGTGTAG
1 ACACGCCGGGGCTGACCGTATGTCACACACGGCCTAGACACATGCCCGTGTGTCTACCCGTGTAG
44296733 ACAACTTTGAGGCTATTTTCCAAGCCCTTTTCTCATCCTCACTAACACATGCACACCCTCATATA
66 ACAACTTTGAGGCTATTTTCCAAGCCCTTTTCTCATCCTCACTAACACATGCACACCCTCATATA
44296798 CCAATGGTGAATATCATGGCATAAATGGTTTACTTAAACATCCATAGTTTAACTCATGCATGGCA
131 CCAATGGTGAATATCATGGCATAAATGGTTTACTTAAACATCCATAGTTTAACTCATGCATGGCA
44296863 ATTACATGCCAAAGTATACATATTTGGGTTTCTATAACTTACTAGAATCATTCAAAACATTTCCT
196 ATTACATGCCAAAGTATACATATTTGGGTTTCTATAACTTACTAGAATCATTCAAAACATTTCCT
44296928 TACTTTAAAC
261 TACTTTAAAC
44296938 CATGCTATAA
Statistics
Matches: 270, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
280 270 1.00
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.29
Consensus pattern (280 bp):
ACACGCCGGGGCTGACCGTATGTCACACACGGCCTAGACACATGCCCGTGTGTCTACCCGTGTAG
ACAACTTTGAGGCTATTTTCCAAGCCCTTTTCTCATCCTCACTAACACATGCACACCCTCATATA
CCAATGGTGAATATCATGGCATAAATGGTTTACTTAAACATCCATAGTTTAACTCATGCATGGCA
ATTACATGCCAAAGTATACATATTTGGGTTTCTATAACTTACTAGAATCATTCAAAACATTTCCT
TACTTTAAACTGTCCGGACA
Found at i:44308710 original size:29 final size:26
Alignment explanation
Indices: 44308674--44308726 Score: 79
Period size: 29 Copynumber: 1.9 Consensus size: 26
44308664 TACACTTTAT
44308674 TTAAATAAGTCCTTATAGTATTTTTATAG
1 TTAAATAAGTCC-TATA--ATTTTTATAG
44308703 TTAAATAAGTCCTATAATTTTTAT
1 TTAAATAAGTCCTATAATTTTTAT
44308727 TCATGAAAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
26 8 0.33
28 4 0.17
29 12 0.50
ACGTcount: A:0.36, C:0.08, G:0.08, T:0.49
Consensus pattern (26 bp):
TTAAATAAGTCCTATAATTTTTATAG
Found at i:44309616 original size:7 final size:8
Alignment explanation
Indices: 44309585--44309613 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
44309575 TTGATAAAAT
44309585 ATTTTTAA
1 ATTTTTAA
44309593 ATTTTTAA
1 ATTTTTAA
44309601 ATTTTTAA
1 ATTTTTAA
44309609 ATTTT
1 ATTTT
44309614 AAAAGCAGGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (8 bp):
ATTTTTAA
Found at i:44310268 original size:38 final size:38
Alignment explanation
Indices: 44310188--44310276 Score: 101
Period size: 38 Copynumber: 2.4 Consensus size: 38
44310178 AAAAATTATA
* * * *
44310188 TTTAATACAATAAAACATTTATTACATTTATTTGTGTT
1 TTTAATATAATAAAACATATATTACATTTATTAGTGTG
*
44310226 TTTAATATAATAAAACATATATTATATTTA-TAGTAGTG
1 TTTAATATAATAAAACATATATTACATTTATTAGT-GTG
*
44310264 TTTAAAAT-ATAAA
1 TTTAATATAATAAA
44310277 TACTTTTTAA
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
37 8 0.18
38 36 0.82
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.46
Consensus pattern (38 bp):
TTTAATATAATAAAACATATATTACATTTATTAGTGTG
Found at i:44314077 original size:145 final size:147
Alignment explanation
Indices: 44313814--44314112 Score: 469
Period size: 145 Copynumber: 2.0 Consensus size: 147
44313804 AATGCCCCGA
*
44313814 CAACCTCTATGAGATGTATGACGACTATTTTTACTGACATGCTAGAAGAAGGCTTGGATGTATTT
1 CAACCTTTATGAGATGTATGACGACTATTTTTACTGACATGCTAGAAGAAGGCTTGGATGTATTT
* *
44313879 ATGGATGATTTCTCAGTATAAGGAGATTCATTTCAAGAATTTTGGAAAATCTT-AAAAAGTCTTG
66 ATGGATGATTTCTCAGTATAAGAAGATTCATTTCAAGAATTTAGGAAAATCTTAAAAAAGTCTTG
*
44313943 CAGAGATGCG-AGAAAC
131 CAGAGATGAGAAGAAAC
* * *
44313959 CAACCTTTATGAGATGTATGACGGCTATTTTTGCTGACATGTTAGAAGAAGGCTTGGATGTATTT
1 CAACCTTTATGAGATGTATGACGACTATTTTTACTGACATGCTAGAAGAAGGCTTGGATGTATTT
* * *
44314024 ATGGATGATTTTTCAGTATATGAAG-TTCATTTCAAGAATGTTAGGACAATCTTAAAAAAGTCTT
66 ATGGATGATTTCTCAGTATAAGAAGATTCATTTCAAGAAT-TTAGGAAAATCTTAAAAAAGTCTT
*
44314088 GTAGAGATGAGAAGAAAC
130 GCAGAGATGAGAAGAAAC
44314106 CAACCTT
1 CAACCTT
44314113 GTATTAAACT
Statistics
Matches: 140, Mismatches: 11, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
144 14 0.10
145 94 0.67
146 19 0.14
147 13 0.09
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.33
Consensus pattern (147 bp):
CAACCTTTATGAGATGTATGACGACTATTTTTACTGACATGCTAGAAGAAGGCTTGGATGTATTT
ATGGATGATTTCTCAGTATAAGAAGATTCATTTCAAGAATTTAGGAAAATCTTAAAAAAGTCTTG
CAGAGATGAGAAGAAAC
Found at i:44318491 original size:40 final size:40
Alignment explanation
Indices: 44318445--44318669 Score: 281
Period size: 40 Copynumber: 5.6 Consensus size: 40
44318435 CTTGCACAAG
* * *
44318445 GCCTTCGGGTCTTAGCCCGGATGTGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
44318485 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
44318525 GCCTTCGGGTTTTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
44318565 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * * *
44318605 GCCTTCGGATCTTAGTCTGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAAT
*
44318646 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
44318670 CATTCGAATA
Statistics
Matches: 157, Mismatches: 25, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
39 1 0.01
40 128 0.82
41 28 0.18
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:44318540 original size:80 final size:80
Alignment explanation
Indices: 44318409--44318669 Score: 303
Period size: 80 Copynumber: 3.3 Consensus size: 80
44318399 CTCAAGTAAT
* * * * * * *
44318409 CTTCGGGATTTAG-CCGGATATAACTACTTGCAC-AAGGCCTTCGGGTCTTAGCCCGGATGTGGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
*
44318472 CACTAGCATAAATGC
66 CACTAGCACAAATGC
* * *
44318487 CTTCGGGACTTAGCCCGGATATAGTC-GCTAGCACAAATGCCTTCGGGTTTTAGCCCGGATATAA
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
*
44318551 TCGCTAGCACAAATGC
65 TCACTAGCACAAATGC
* * * * * * *
44318567 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACGAATGCCTTCGGATCTTAGTCTGGTTATAGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
*
44318632 CACCTAGCACAAAAGC
66 CA-CTAGCACAAATGC
44318648 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
44318670 CATTCGAATA
Statistics
Matches: 154, Mismatches: 24, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
78 12 0.08
79 16 0.10
80 93 0.60
81 33 0.21
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:44333054 original size:38 final size:38
Alignment explanation
Indices: 44332997--44333104 Score: 153
Period size: 38 Copynumber: 2.8 Consensus size: 38
44332987 AACGTAATGT
* *
44332997 TATTCGGGCTCTGTCCCTAGCAGGCTTTGTGCTGGTGA
1 TATTCCGGCTCTGTGCCTAGCAGGCTTTGTGCTGGTGA
* *
44333035 TATTCCTGCTTTGTGCCTAGCAGGCTTTGTGCTGGTGA
1 TATTCCGGCTCTGTGCCTAGCAGGCTTTGTGCTGGTGA
* * *
44333073 TATTCGGGCTCTGTGCCTAGTAGGCTTCGTGC
1 TATTCCGGCTCTGTGCCTAGCAGGCTTTGTGC
44333105 CAGTGTATTA
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 61 1.00
ACGTcount: A:0.10, C:0.23, G:0.31, T:0.36
Consensus pattern (38 bp):
TATTCCGGCTCTGTGCCTAGCAGGCTTTGTGCTGGTGA
Found at i:44333590 original size:21 final size:21
Alignment explanation
Indices: 44333564--44333604 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
44333554 ATATGTGAGA
44333564 AATTTA-CTTAAGTTATGGATG
1 AATTTATC-TAAGTTATGGATG
*
44333585 AATTTATCTAGGTTATGGAT
1 AATTTATCTAAGTTATGGAT
44333605 AAATACCCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.32, C:0.05, G:0.20, T:0.44
Consensus pattern (21 bp):
AATTTATCTAAGTTATGGATG
Found at i:44340657 original size:20 final size:20
Alignment explanation
Indices: 44340634--44340672 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
44340624 TTTTTTGTCC
*
44340634 ATTTTTTATATTTATATTTA
1 ATTTTTAATATTTATATTTA
*
44340654 ATTTTTAATTTTTATATTT
1 ATTTTTAATATTTATATTT
44340673 TAGCTTTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (20 bp):
ATTTTTAATATTTATATTTA
Found at i:44348217 original size:25 final size:25
Alignment explanation
Indices: 44348189--44348237 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
44348179 CTAGAAGACC
*
44348189 AATCACATAACTCATGATAATGATT
1 AATCACATAACTCATCATAATGATT
* * *
44348214 AATCACGTAATTCTTCATAATGAT
1 AATCACATAACTCATCATAATGAT
44348238 AATAATAAAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.41, C:0.16, G:0.08, T:0.35
Consensus pattern (25 bp):
AATCACATAACTCATCATAATGATT
Found at i:44359021 original size:18 final size:17
Alignment explanation
Indices: 44358994--44359027 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
44358984 TAAATTGGAA
44358994 ATGAAAATAATTAAAAG
1 ATGAAAATAATTAAAAG
44359011 ATGATAAATAATTAAAA
1 ATGA-AAATAATTAAAA
44359028 AAATATCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.65, C:0.00, G:0.09, T:0.26
Consensus pattern (17 bp):
ATGAAAATAATTAAAAG
Found at i:44359370 original size:19 final size:19
Alignment explanation
Indices: 44359326--44359372 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
44359316 AATTTTCATG
* *
44359326 AAATTGTGATTTAAGGATT
1 AAATTGTAATTTAAGGACT
44359345 AAATTGTAATTTAAGGACT
1 AAATTGTAATTTAAGGACT
*
44359364 AATTTGTAA
1 AAATTGTAA
44359373 ATATGTAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.40, C:0.02, G:0.17, T:0.40
Consensus pattern (19 bp):
AAATTGTAATTTAAGGACT
Found at i:44360977 original size:23 final size:22
Alignment explanation
Indices: 44360934--44360977 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 22
44360924 ATGTGTTTTG
* *
44360934 ATATGATTAAGTAGTAGATGAT
1 ATATGATTAAATAGTAAATGAT
*
44360956 ATATGTATTAAATGGTAAATGA
1 ATATG-ATTAAATAGTAAATGA
44360978 ATTTGAGTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.43, C:0.00, G:0.20, T:0.36
Consensus pattern (22 bp):
ATATGATTAAATAGTAAATGAT
Found at i:44375568 original size:28 final size:28
Alignment explanation
Indices: 44375528--44375737 Score: 341
Period size: 28 Copynumber: 7.5 Consensus size: 28
44375518 TAAATTGTAC
44375528 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
* *
44375556 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
44375584 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
* *
44375612 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
44375640 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
* *
44375668 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
*
44375696 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
*
44375723 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
44375738 GACTTAATAA
Statistics
Matches: 171, Mismatches: 11, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
27 24 0.14
28 147 0.86
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.32
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGCTTGATTATGT
Found at i:44375597 original size:56 final size:56
Alignment explanation
Indices: 44375500--44375737 Score: 381
Period size: 56 Copynumber: 4.2 Consensus size: 56
44375490 CATGAGATTG
* * *
44375500 GCACTAAGTGTGCGGGTTTAAAT-TGTACAGCACTAAGTGTGCGAGCTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGACTATGT--AGCACTAAGTGTGCGAGCTTGATTATGTA
44375557 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGCTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGCTTGATTATGTA
44375613 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGCTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGCTTGATTATGTA
* * *
44375669 GCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGCTTGATTATGTA
*
44375724 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
44375738 GACTTAATAA
Statistics
Matches: 173, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
55 23 0.13
56 127 0.73
57 20 0.12
58 3 0.02
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.32
Consensus pattern (56 bp):
GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGCTTGATTATGTA
Found at i:44375642 original size:84 final size:83
Alignment explanation
Indices: 44375500--44375737 Score: 341
Period size: 84 Copynumber: 2.8 Consensus size: 83
44375490 CATGAGATTG
* * * * *
44375500 GCACTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGCTTGATTATGTAGCACTAAG
1 GCACTAAGTGTGCGAGCTT-GATTATATAGCACTAAGTGTGCGAG-TTGATTATGTAGCACTAAG
*
44375565 TGTGCGAGTTTGACTATGTA
64 TGTGCGAGCTTGACTATGTA
* *
44375585 GCACTAAGTGTGCGAGCTTGATTATGTAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGT
1 GCACTAAGTGTGCGAGCTTGATTATATAGCACTAAGTGTGCGAG-TTGATTATGTAGCACTAAGT
*
44375650 GTGCGAGCTTGATTATGTA
65 GTGCGAGCTTGACTATGTA
* * *
44375669 GCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTG
1 GCACTAAGTGTGCGAGCTTGATTATATAGCACTAAGTGTGCGAGTTGATTATGTAGCACTAAGTG
44375734 TGCG
66 TGCG
44375738 GACTTAATAA
Statistics
Matches: 138, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
83 22 0.16
84 99 0.72
85 17 0.12
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.32
Consensus pattern (83 bp):
GCACTAAGTGTGCGAGCTTGATTATATAGCACTAAGTGTGCGAGTTGATTATGTAGCACTAAGTG
TGCGAGCTTGACTATGTA
Found at i:44383119 original size:18 final size:18
Alignment explanation
Indices: 44383077--44383119 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
44383067 GCCCATTCCG
* *
44383077 AAGTATATATATATACAT
1 AAGTATGTATATATACAC
44383095 ATA-TATGTATATATACAC
1 A-AGTATGTATATATACAC
44383113 AAGTATG
1 AAGTATG
44383120 CCCATTCGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
17 1 0.05
18 19 0.90
19 1 0.05
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.37
Consensus pattern (18 bp):
AAGTATGTATATATACAC
Found at i:44383648 original size:28 final size:28
Alignment explanation
Indices: 44383566--44383799 Score: 346
Period size: 28 Copynumber: 8.4 Consensus size: 28
44383556 GAGATTGGCG
* * * *
44383566 CTAAGTGTGCGGGTTTAAATTGTGCAGCA
1 CTAAGTGTGCGAGTTT-GATTATGTAGCA
* *
44383595 CTAAGTGTGCGA-ATTGACTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
44383622 CTAAGTGTGCGAGTTTGACTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
44383650 CTAAGTGTGCGAGTTTGACTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
44383678 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
44383706 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
44383734 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
44383762 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
44383789 CTGAGTGTGCG
1 CTAAGTGTGCG
44383800 GACTTATTAT
Statistics
Matches: 194, Mismatches: 10, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
27 44 0.23
28 139 0.72
29 11 0.06
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATGTAGCA
Found at i:44389530 original size:88 final size:87
Alignment explanation
Indices: 44389261--44389530 Score: 194
Period size: 88 Copynumber: 3.1 Consensus size: 87
44389251 AAGTTGTAGT
* *
44389261 AGAGCAAATCGAAAATGGTGAATCTTATCTCCATGTATCGGAAATGGAGCAGATTTTACCACCAA
1 AGAGCAGATCGAAAATGGTGAATCTTATCTACATGTATCGG-AATGGAGCAGATTTTACCACCAA
* * *
44389326 CCTCATCTCTCTGAGGTTGTAAG
65 TCTCATCTCTCTAAGGTTGCAAG
* * ** * * * * * * * **
44389349 AGAGCAGGTTGAAGAATGAGTCTTATCTT-TCTA-AGGTAGCAAGAAAGTAAACTAAAGATTA--
1 AGAGCAGATCGAA-AATG-GT-GAATCTTATCTACATGTATC-GGAATG-GAGC-AGATTTTACC
* * *
44389410 A-AAATCTTATCTCCCTGAA-GTTGC-AG
60 ACCAATCTCATCTCTCT-AAGGTTGCAAG
*
44389436 TGGAGCAGATCGAAAATGGTGAATCTTATCTACATGTATCGGCAATGGAGCAGATTTTACCACCA
1 -AGAGCAGATCGAAAATGGTGAATCTTATCTACATGTATCGG-AATGGAGCAGATTTTACCACCA
*
44389501 ATCTCATCTCTCTAAGGTAGCAAG
64 ATCTCATCTCTCTAAGGTTGCAAG
44389525 AGAGCA
1 AGAGCA
44389531 AGTTGAAGAA
Statistics
Matches: 126, Mismatches: 40, Indels: 32
0.64 0.20 0.16
Matches are distributed among these distances:
85 10 0.08
86 9 0.07
87 17 0.13
88 56 0.44
89 16 0.13
90 8 0.06
91 10 0.08
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (87 bp):
AGAGCAGATCGAAAATGGTGAATCTTATCTACATGTATCGGAATGGAGCAGATTTTACCACCAAT
CTCATCTCTCTAAGGTTGCAAG
Found at i:44389848 original size:177 final size:177
Alignment explanation
Indices: 44389225--44389957 Score: 861
Period size: 176 Copynumber: 4.1 Consensus size: 177
44389215 GCGACATTGG
* * ** * *
44389225 TGAAGATTGAAGATCTTATCTCCATGAAGTTGTAGTAGAGCAAATCGAAAATGGTGAATCTTATC
1 TGAAGATTGAAGATCTTATCTCCCTGAAGTTGCAGCGGAGCAGATCGAAAATGGCGAATCTTATC
* * * *
44389290 TCCATGTATCGGAAATGGAGCAGATTTTACCACCAACCTCATCTCTCTGAGGTTGTAAGAGAGCA
66 TCCATGTATCGGCAATGGAGCAGATTTTACCACCAACCTCATCTCTCTAAGGTAGCAAGAGAGCA
* * * *
44389355 GGTTGAAGA--ATGAGTCTTATCTTTCTAAGGTAGCAAGAAAGTAAAC
131 GGTTGAAGATGAT-AGTCTTATCTTCCTGAGGTAGCAAGAAAGCAGAC
* * * * *
44389401 TAAAGATTAAAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAAATGGTGAATCTTATC
1 TGAAGATTGAAGATCTTATCTCCCTGAAGTTGCAGCGGAGCAGATCGAAAATGGCGAATCTTATC
* *
44389466 TACATGTATCGGCAATGGAGCAGATTTTACCACCAATCTCATCTCTCTAAGGTAGCAAGAGAGCA
66 TCCATGTATCGGCAATGGAGCAGATTTTACCACCAACCTCATCTCTCTAAGGTAGCAAGAGAGCA
* * *
44389531 AGTTGAAGAATG-T-GTCTTATCTTTCTGAGGTAGCAAGAAAGCAGAT
131 GGTTGAAG-ATGATAGTCTTATCTTCCTGAGGTAGCAAGAAAGCAGAC
* * * * * *
44389577 TG-AGAATTGAAGATTTTGTCTCCCTGAAGTTGCAGCGGAGTAGATTTTCGCAGATGGCTAATCT
1 TGAAG-ATTGAAGATCTTATCTCCCTGAAGTTGCAGCGGAGCAGA---TCGAAAATGGCGAATCT
* * * * * *
44389641 TATCTCCATGTATCGGCAATGGGGCAGATTTAAGCCACCAGCCTTATCTATCTAAGGTAGCAAAA
62 TATCTCCATGTATCGGCAATGGAGCAGATTTTA-CCACCAACCTCATCTCTCTAAGGTAGCAAGA
* *
44389706 GAGTAGGTTGAAGATGATAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGAC
126 GAGCAGGTTGAAGATGATAGTCTTATCTTCCTGAGGTAGCAAGAAAGCAGAC
* * * * *
44389758 TGAAGATTGAAAATCTTATCTCCCT-AAATAGTAGCGGAGCGGATC-AAAGATGGCGAATCTTAT
1 TGAAGATTGAAGATCTTATCTCCCTGAAGTTGCAGCGGAGCAGATCGAAA-ATGGCGAATCTTAT
* ** * * * *
44389821 CTCCATGTATCGGCAATGGAACAGATTTTAGCCACTGACTTTATCTCTCTGAGGTAGCACGAGAG
65 CTCCATGTATCGGCAATGGAGCAGATTTTA-CCACCAACCTCATCTCTCTAAGGTAGCAAGAGAG
*
44389886 CCA-GTTGAAGATGATAGTCTTATCTTCCTGAGGTAGCAAAAAAGCAGAC
129 -CAGGTTGAAGATGATAGTCTTATCTTCCTGAGGTAGCAAGAAAGCAGAC
44389935 TGAAGATTGAAGATCTTATCTCC
1 TGAAGATTGAAGATCTTATCTCC
44389958 TCATGTAATT
Statistics
Matches: 476, Mismatches: 68, Indels: 25
0.84 0.12 0.04
Matches are distributed among these distances:
175 2 0.00
176 188 0.39
177 136 0.29
178 2 0.00
179 46 0.10
180 51 0.11
181 49 0.10
182 2 0.00
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (177 bp):
TGAAGATTGAAGATCTTATCTCCCTGAAGTTGCAGCGGAGCAGATCGAAAATGGCGAATCTTATC
TCCATGTATCGGCAATGGAGCAGATTTTACCACCAACCTCATCTCTCTAAGGTAGCAAGAGAGCA
GGTTGAAGATGATAGTCTTATCTTCCTGAGGTAGCAAGAAAGCAGAC
Found at i:44393963 original size:12 final size:12
Alignment explanation
Indices: 44393946--44393984 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
44393936 ATGACACAAA
44393946 AATAATAATAAC
1 AATAATAATAAC
*
44393958 AATAATAAGAAC
1 AATAATAATAAC
* *
44393970 AACAATGATAAC
1 AATAATAATAAC
44393982 AAT
1 AAT
44393985 GTGTAGAGGC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.64, C:0.10, G:0.05, T:0.21
Consensus pattern (12 bp):
AATAATAATAAC
Found at i:44395435 original size:3 final size:3
Alignment explanation
Indices: 44395429--44395474 Score: 51
Period size: 3 Copynumber: 15.7 Consensus size: 3
44395419 TTAATCCTCC
* *
44395429 TAT TAT TAT TA- TAGC TAT TAT TAT TAT TAT TAT T-T TGT TAT TAT
1 TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
44395473 TA
1 TA
44395475 ATTTTAATTC
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
2 4 0.11
3 32 0.84
4 2 0.05
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:44397154 original size:18 final size:18
Alignment explanation
Indices: 44397131--44397191 Score: 70
Period size: 18 Copynumber: 3.4 Consensus size: 18
44397121 CGAATTAGAT
44397131 ACAATATTAATGAATGTC
1 ACAATATTAATGAATGTC
* ** *
44397149 ACAATATGAA-GATAAATA
1 ACAATATTAATGA-ATGTC
44397167 ACAATATTAATGAATGTC
1 ACAATATTAATGAATGTC
44397185 ACAATAT
1 ACAATAT
44397192 GAAGATAAAT
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
17 2 0.06
18 29 0.88
19 2 0.06
ACGTcount: A:0.51, C:0.10, G:0.10, T:0.30
Consensus pattern (18 bp):
ACAATATTAATGAATGTC
Found at i:44397178 original size:36 final size:36
Alignment explanation
Indices: 44397131--44397203 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
44397121 CGAATTAGAT
44397131 ACAATATTAATGAATGTCACAATATGAAGATAAATA
1 ACAATATTAATGAATGTCACAATATGAAGATAAATA
44397167 ACAATATTAATGAATGTCACAATATGAAGATAAATA
1 ACAATATTAATGAATGTCACAATATGAAGATAAATA
44397203 A
1 A
44397204 TTTCTAGTAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.53, C:0.08, G:0.11, T:0.27
Consensus pattern (36 bp):
ACAATATTAATGAATGTCACAATATGAAGATAAATA
Found at i:44397461 original size:27 final size:27
Alignment explanation
Indices: 44397405--44397466 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
44397395 ATTTAACATG
* *
44397405 AATAACATATAAAACAATTTGAAATAA
1 AATAATATATAAAACAATTTCAAATAA
*
44397432 AATAATATATAAAGCAAATTTCAAAT-A
1 AATAATATATAAAAC-AATTTCAAATAA
44397459 AATAATAT
1 AATAATAT
44397467 GTTAAATAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
27 22 0.71
28 9 0.29
ACGTcount: A:0.61, C:0.06, G:0.03, T:0.29
Consensus pattern (27 bp):
AATAATATATAAAACAATTTCAAATAA
Found at i:44397478 original size:27 final size:26
Alignment explanation
Indices: 44397395--44397466 Score: 74
Period size: 27 Copynumber: 2.7 Consensus size: 26
44397385 TATGAAAAAG
* * *
44397395 ATTTAACATGAATAACATATAAAAC-A
1 ATTTAA-ATAAATAATATATAAAGCAA
44397421 ATTTGAAATAAAATAATATATAAAGCAA
1 ATTT-AAAT-AAATAATATATAAAGCAA
44397449 ATTTCAAATAAATAATAT
1 ATTT-AAATAAATAATAT
44397467 GTTAAATAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
26 6 0.15
27 24 0.62
28 9 0.23
ACGTcount: A:0.58, C:0.07, G:0.04, T:0.31
Consensus pattern (26 bp):
ATTTAAATAAATAATATATAAAGCAA
Found at i:44397652 original size:15 final size:15
Alignment explanation
Indices: 44397632--44397661 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
44397622 AATCCAAAGT
*
44397632 AAAATTTTAAGATAA
1 AAAATTTTAAAATAA
44397647 AAAATTTTAAAATAA
1 AAAATTTTAAAATAA
44397662 GTAATATATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (15 bp):
AAAATTTTAAAATAA
Found at i:44398135 original size:3 final size:3
Alignment explanation
Indices: 44398124--44398268 Score: 57
Period size: 3 Copynumber: 48.3 Consensus size: 3
44398114 TGATGATAGC
* * *
44398124 AAT AGT AAT AAT -AT AAT AAT AAT AAT -GT AGAG AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT
* * ** * * * * *
44398168 ACATT AAT AAG AAC AAT AAT CGT -GT ATT GAT AAT AAC AAT AAT AGAA
1 A-A-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT
* * * * *
44398215 AAT AAT GAT AA- AGT AAT AAT AAT AAT AA- ACT AAGG AAT AAT GAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT
44398259 AAT AAT AAT A
1 AAT AAT AAT A
44398269 CGATAAAAAT
Statistics
Matches: 103, Mismatches: 29, Indels: 20
0.68 0.19 0.13
Matches are distributed among these distances:
2 7 0.07
3 87 0.84
4 7 0.07
5 2 0.02
ACGTcount: A:0.58, C:0.03, G:0.10, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:44420752 original size:22 final size:22
Alignment explanation
Indices: 44420727--44420771 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
44420717 TTTAATAAAG
44420727 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
44420749 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
44420771 A
1 A
44420772 CAGTCTTGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:44422516 original size:9 final size:9
Alignment explanation
Indices: 44422499--44422535 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
44422489 TGAGTTTTCG
44422499 AATTCGAAT
1 AATTCGAAT
*
44422508 AACTCGAAT
1 AATTCGAAT
44422517 AATTCGAAT
1 AATTCGAAT
44422526 AATTCGAAT
1 AATTCGAAT
44422535 A
1 A
44422536 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:44426981 original size:31 final size:31
Alignment explanation
Indices: 44426943--44427002 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
44426933 TCATATTCTC
*
44426943 GAATGATATCTTGAACCACTCTAGCCCCTCT
1 GAATGATATCCTGAACCACTCTAGCCCCTCT
*
44426974 GAATGATATCCTGGACCACTCTAGCCCCT
1 GAATGATATCCTGAACCACTCTAGCCCCT
44427003 TCACACGAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.25, C:0.33, G:0.15, T:0.27
Consensus pattern (31 bp):
GAATGATATCCTGAACCACTCTAGCCCCTCT
Found at i:44427670 original size:31 final size:31
Alignment explanation
Indices: 44427635--44427694 Score: 120
Period size: 31 Copynumber: 1.9 Consensus size: 31
44427625 CTCATATTCC
44427635 TGAATGATATCTTGGACCACTCTAGCCCCTT
1 TGAATGATATCTTGGACCACTCTAGCCCCTT
44427666 TGAATGATATCTTGGACCACTCTAGCCCC
1 TGAATGATATCTTGGACCACTCTAGCCCC
44427695 CTCACACGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.23, C:0.30, G:0.17, T:0.30
Consensus pattern (31 bp):
TGAATGATATCTTGGACCACTCTAGCCCCTT
Found at i:44432751 original size:20 final size:20
Alignment explanation
Indices: 44432727--44432776 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
44432717 GTGGATAGGC
44432727 CACCAGTGTTGTAGACAAGT
1 CACCAGTGTTGTAGACAAGT
* ** *
44432747 TACCAGTAATGTGGACAAGT
1 CACCAGTGTTGTAGACAAGT
*
44432767 CACTAGTGTT
1 CACCAGTGTT
44432777 ACAGACAAGC
Statistics
Matches: 22, Mismatches: 8, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (20 bp):
CACCAGTGTTGTAGACAAGT
Found at i:44432753 original size:40 final size:40
Alignment explanation
Indices: 44432709--44432813 Score: 120
Period size: 40 Copynumber: 2.6 Consensus size: 40
44432699 AGAGAAACTG
* * ** *
44432709 CCAGTAATGTGGATAGGCCACCAGTGTTGTAGACAAGTTA
1 CCAGTAATGTGGAAAAGCCACCAGTGTTACAGACAAGCTA
* * * *
44432749 CCAGTAATGTGGACAAGTCACTAGTGTTACAGACAAGCTG
1 CCAGTAATGTGGAAAAGCCACCAGTGTTACAGACAAGCTA
*
44432789 CCAATAATGTGGAAAAGCCACCAGT
1 CCAGTAATGTGGAAAAGCCACCAGT
44432814 AATGCAGATA
Statistics
Matches: 53, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 53 1.00
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.22
Consensus pattern (40 bp):
CCAGTAATGTGGAAAAGCCACCAGTGTTACAGACAAGCTA
Found at i:44432834 original size:20 final size:19
Alignment explanation
Indices: 44432811--44432853 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
44432801 AAAAGCCACC
*
44432811 AGTAATGCAGATAAACTGTT
1 AGTAATGCA-ACAAACTGTT
* *
44432831 AGTATTGCAACAAGCTGTT
1 AGTAATGCAACAAACTGTT
44432850 AGTA
1 AGTA
44432854 TTGTGAACAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.30
Consensus pattern (19 bp):
AGTAATGCAACAAACTGTT
Found at i:44446549 original size:38 final size:38
Alignment explanation
Indices: 44446498--44446574 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
44446488 GTCTAGGCGC
44446498 GCAAACAACTCCGCTTAATTATGAAAAATATACTCTTA
1 GCAAACAACTCCGCTTAATTATGAAAAATATACTCTTA
*
44446536 GCAAACAACTCCGCTTAATTATGAAAAATGTACTCTTA
1 GCAAACAACTCCGCTTAATTATGAAAAATATACTCTTA
44446574 G
1 G
44446575 ACAGGGTCTA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (38 bp):
GCAAACAACTCCGCTTAATTATGAAAAATATACTCTTA
Found at i:44468259 original size:47 final size:47
Alignment explanation
Indices: 44468190--44468608 Score: 325
Period size: 49 Copynumber: 8.8 Consensus size: 47
44468180 GGTATAATGC
44468190 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTTATCCATCAAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTTATCCATCAAGT
* * * * * * *
44468237 CGATGCCTTGTCCGAGACATGGTCTTACACTGAC-TATCGAAATTGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTTATC--CA-TCAAGT
*
44468286 CGACGCCATGTCCCAGACATGGTCTTACACTGGCTTATCCATCAAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTTATCCATCAAGT
* * * * * * * *
44468333 TGATGCCATGTCCGAGACATGATCTTACACTGAC-TATCAAAATTGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTTATC--CA-TCAAGT
*
44468382 CGACGCCATGTCCCAGACATGGTCTTACACTGGCTTATCCATCAAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTTATCCATCAAGT
* * * * * * * *
44468429 TGATGCCATGTCCGAGACATGATCTTACACTGAC-TATCAAAATTGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTTATC--CA-TCAAGT
* ** * *
44468478 CGACGCCATGTCCCAGACATGGTCTTACACTATC-TCTCACAT-ATTCGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTTATC-CATCA--AGT
* * ** *
44468526 ACCGATGCCATGTCCCAGAAATGGTCTTACACTGACACAT-C-TCATAGC
1 --CGATGCCATGTCCCAGACATGGTCTTACACTGGCTTATCCATCA-AGT
44468574 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTTA
44468609 CATCTTGAGG
Statistics
Matches: 291, Mismatches: 64, Indels: 37
0.74 0.16 0.09
Matches are distributed among these distances:
44 13 0.04
45 13 0.04
46 18 0.06
47 96 0.33
48 11 0.04
49 101 0.35
50 38 0.13
51 1 0.00
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.26
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTTATCCATCAAGT
Found at i:44468352 original size:96 final size:96
Alignment explanation
Indices: 44468188--44468508 Score: 597
Period size: 96 Copynumber: 3.3 Consensus size: 96
44468178 AGGGTATAAT
* * *
44468188 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTATCCATCAAGTCGATGCCTTGTCCGAG
1 GCCGACGCCATGTCCCAGACATGGTCTTACACTGGCTTATCCATCAAGTTGATGCCATGTCCGAG
* *
44468253 ACATGGTCTTACACTGACTATCGAAATTGAG
66 ACATGATCTTACACTGACTATCAAAATTGAG
44468284 GCCGACGCCATGTCCCAGACATGGTCTTACACTGGCTTATCCATCAAGTTGATGCCATGTCCGAG
1 GCCGACGCCATGTCCCAGACATGGTCTTACACTGGCTTATCCATCAAGTTGATGCCATGTCCGAG
44468349 ACATGATCTTACACTGACTATCAAAATTGAG
66 ACATGATCTTACACTGACTATCAAAATTGAG
44468380 GCCGACGCCATGTCCCAGACATGGTCTTACACTGGCTTATCCATCAAGTTGATGCCATGTCCGAG
1 GCCGACGCCATGTCCCAGACATGGTCTTACACTGGCTTATCCATCAAGTTGATGCCATGTCCGAG
44468445 ACATGATCTTACACTGACTATCAAAATTGAG
66 ACATGATCTTACACTGACTATCAAAATTGAG
44468476 GCCGACGCCATGTCCCAGACATGGTCTTACACT
1 GCCGACGCCATGTCCCAGACATGGTCTTACACT
44468509 ATCTCTCACA
Statistics
Matches: 220, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
96 220 1.00
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (96 bp):
GCCGACGCCATGTCCCAGACATGGTCTTACACTGGCTTATCCATCAAGTTGATGCCATGTCCGAG
ACATGATCTTACACTGACTATCAAAATTGAG
Found at i:44468558 original size:146 final size:140
Alignment explanation
Indices: 44468381--44468655 Score: 329
Period size: 146 Copynumber: 1.9 Consensus size: 140
44468371 AAAATTGAGG
* * ** ** *
44468381 CCGACGCCATGTCCCAGACATGGTCTTACACTGGCTTATC-CATCAAGTTGATGCCATGTCCGAG
1 CCGACGCCATGTCCCAGAAATGGTCTTACACTGACACATCTCAT--AGCCGATG-CATGTCCCAG
*
44468445 ACATGATCTTACACTGAC-TATCAAAATTGAGGCCGACGCCATGTCCCAGACATGGTCTTACACT
63 ACATG-TCTTACACTGACTTA-C-AAATTGAGGCCCACG-CATGTCCCAGACAT-GTCTTACACT
*
44468509 ATCTCTCACATATTCGTA
123 AGCTCTCACATATTCGTA
*
44468527 CCGATGCCATGTCCCAGAAATGGTCTTACACTGACACATCTCATAGCCGATGCATGTCCCAGACA
1 CCGACGCCATGTCCCAGAAATGGTCTTACACTGACACATCTCATAGCCGATGCATGTCCCAGACA
* ** * *
44468592 TGTCTTACACTGGCTTACATCTTGAGGCCCATGCATGTCCCGGACATGTCTTACACTAGCTCTC
66 TGTCTTACACTGACTTACAAATTGAGGCCCACGCATGTCCCAGACATGTCTTACACTAGCTCTC
44468656 GTCTCAATAC
Statistics
Matches: 112, Mismatches: 15, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
140 16 0.14
141 13 0.12
142 11 0.10
143 12 0.11
144 16 0.14
145 6 0.05
146 35 0.31
147 3 0.03
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.27
Consensus pattern (140 bp):
CCGACGCCATGTCCCAGAAATGGTCTTACACTGACACATCTCATAGCCGATGCATGTCCCAGACA
TGTCTTACACTGACTTACAAATTGAGGCCCACGCATGTCCCAGACATGTCTTACACTAGCTCTCA
CATATTCGTA
Found at i:44468612 original size:46 final size:49
Alignment explanation
Indices: 44468188--44468694 Score: 291
Period size: 49 Copynumber: 10.7 Consensus size: 49
44468178 AGGGTATAAT
*
44468188 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTATCCA--TCA-A
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC-TATACATCTCATA
* * * * * * *
44468235 GTCGATGCCTTGTCCGAGACATGGTCTTACACTGACTATCGAAAT-TGA-G
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTAT--ACATCTCATA
* *
44468284 GCCGACGCCATGTCCCAGACATGGTCTTACACTGGCTTATCCA--TCA-A
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC-TATACATCTCATA
** * * * * * *
44468331 GTTGATGCCATGTCCGAGACATGATCTTACACTGACTATCAAAAT-TGA-G
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTAT--ACATCTCATA
* *
44468380 GCCGACGCCATGTCCCAGACATGGTCTTACACTGGCTTATCCA--TCA-A
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC-TATACATCTCATA
** * * * * * *
44468427 GTTGATGCCATGTCCGAGACATGATCTTACACTGACTATCAAAAT-TGA-G
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTAT--ACATCTCATA
* ** * * *
44468476 GCCGACGCCATGTCCCAGACATGGTCTTACACTATCTCTCACATATTCGTA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTAT-ACAT-CTCATA
* *
44468527 -CCGATGCCATGTCCCAGAAATGGTCTTACACT-G--ACACATCTCATA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATACATCTCATA
44468572 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TACATCT--TGA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATACATCTCAT-A
* * * * *
44468617 GGCCCATG-CATGTCCCGGACAT-GTCTTACACTAGCTCT-CGTCTCAATA
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATACATCTC-ATA
* *
44468665 -CTGATG-CATGTCCTAGACAT-GTCTTACACT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT
44468695 AGCACACAAA
Statistics
Matches: 359, Mismatches: 77, Indels: 49
0.74 0.16 0.10
Matches are distributed among these distances:
44 11 0.03
45 19 0.05
46 87 0.24
47 97 0.27
48 9 0.03
49 99 0.28
50 37 0.10
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (49 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATACATCTCATA
Found at i:44469960 original size:43 final size:44
Alignment explanation
Indices: 44469881--44470001 Score: 138
Period size: 44 Copynumber: 2.8 Consensus size: 44
44469871 TTACACACAT
* * *
44469881 CCATAATGAACTTGGA-CAACTCAACGAGATCGGATG-CTCGTAC
1 CCATAATGAACTCGGACCAACTCAATGAGATC-GATGCCTCATAC
*
44469924 CCATAATGAACTCGGACCAACTCAATGAGCTCGATGCCTCATAC
1 CCATAATGAACTCGGACCAACTCAATGAGATCGATGCCTCATAC
** * * *
44469968 ATATCATGAACCCGGACCAACTCAATGAGGTCGA
1 CCATAATGAACTCGGACCAACTCAATGAGATCGA
44470002 ATTTCAAAAT
Statistics
Matches: 67, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
43 19 0.28
44 48 0.72
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.20
Consensus pattern (44 bp):
CCATAATGAACTCGGACCAACTCAATGAGATCGATGCCTCATAC
Found at i:44470710 original size:23 final size:23
Alignment explanation
Indices: 44470683--44470731 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
44470673 CATGAAAAAT
44470683 TACCTAGGAAAAGTTGTTAAACA
1 TACCTAGGAAAAGTTGTTAAACA
44470706 TACCTAGGAAAAGTTGTTAAACA
1 TACCTAGGAAAAGTTGTTAAACA
44470729 TAC
1 TAC
44470732 TTCAATCTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.27
Consensus pattern (23 bp):
TACCTAGGAAAAGTTGTTAAACA
Found at i:44486568 original size:18 final size:17
Alignment explanation
Indices: 44486485--44486613 Score: 61
Period size: 18 Copynumber: 7.4 Consensus size: 17
44486475 GGAACAAGAA
*
44486485 ATTGAAAAAGAGAGTGAG
1 ATTGAAAAAGA-AATGAG
*
44486503 ATTGAAGAAAGAAACGAG
1 ATTGAA-AAAGAAATGAG
* * *
44486521 AGTGTAAAAGAAACGAGTG
1 ATTGAAAAAGAAATGA--G
*
44486540 TCATGGAAAAAGAAATTGAG
1 --ATTGAAAAAGAAA-TGAG
*
44486560 ATTGAAAAAG-GAT--G
1 ATTGAAAAAGAAATGAG
*
44486574 --TGAAAAAGAGAAAGAG
1 ATTGAAAAAGA-AATGAG
*
44486590 ATCGAAAAAGAAATTGAG
1 ATTGAAAAAGAAA-TGAG
44486608 ATTGAA
1 ATTGAA
44486614 CAAAAGTGTA
Statistics
Matches: 83, Mismatches: 15, Indels: 26
0.67 0.12 0.21
Matches are distributed among these distances:
12 8 0.10
14 2 0.02
16 2 0.02
17 13 0.16
18 39 0.47
19 6 0.07
20 1 0.01
21 10 0.12
22 2 0.02
ACGTcount: A:0.53, C:0.03, G:0.28, T:0.16
Consensus pattern (17 bp):
ATTGAAAAAGAAATGAG
Found at i:44488367 original size:20 final size:20
Alignment explanation
Indices: 44488321--44488367 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
44488311 AGCTCGTTTC
*
44488321 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* *
44488341 CAACTCACTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
44488361 CAGCTCA
1 CAGCTCA
44488368 ATCTTAACCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.36, G:0.13, T:0.21
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:44490734 original size:29 final size:29
Alignment explanation
Indices: 44490695--44490773 Score: 97
Period size: 29 Copynumber: 2.7 Consensus size: 29
44490685 CTTAATAATC
*
44490695 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
44490725 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
* *
44490754 AGCCCGCACATTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
44490774 ATCTCACAAC
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
28 3 0.07
29 37 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.32, G:0.15, T:0.25
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:44494637 original size:44 final size:45
Alignment explanation
Indices: 44494571--44494678 Score: 157
Period size: 45 Copynumber: 2.4 Consensus size: 45
44494561 GGGCGTTACA
* *
44494571 CTAGCAGGCTATAATGCTGGTGAAATGA-TA-TCGGGCCTTTGAGC
1 CTAGCAGGCTATAATGCCGGTGAAAT-ACTATTCGGGCCTTCGAGC
*
44494615 CTAGCAGGCTATAATGCCGGTGAGATACTATTCGGGCCTTCGAGC
1 CTAGCAGGCTATAATGCCGGTGAAATACTATTCGGGCCTTCGAGC
*
44494660 CTAGTAGGCTATAATGCCG
1 CTAGCAGGCTATAATGCCG
44494679 ATGGATGAAT
Statistics
Matches: 58, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
43 1 0.02
44 26 0.45
45 31 0.53
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (45 bp):
CTAGCAGGCTATAATGCCGGTGAAATACTATTCGGGCCTTCGAGC
Found at i:44497671 original size:48 final size:48
Alignment explanation
Indices: 44497607--44498758 Score: 2124
Period size: 48 Copynumber: 24.0 Consensus size: 48
44497597 CAAGATAAAT
* * *
44497607 ATATATATGTGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCAAATGGCTAATATGAAATATGTATGAG
* *
44497655 ATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCAAATGGCTAATATGAAATATGTATGAG
*
44497703 GTATATATATGTGGTAAAGCCAAATGGCTAATATGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCAAATGGCTAATATGAAATATGTATGAG
44497751 ATATATATATGTGGTAAAGCCAAATGGCTAATATGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCAAATGGCTAATATGAAATATGTATGAG
44497799 ATATATATATGTGGTAAAGCCAAATGGCTAATATGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCAAATGGCTAATATGAAATATGTATGAG
44497847 ATATATATATGTGGTAAAGCCAAATGGCTAATATGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCAAATGGCTAATATGAAATATGTATGAG
44497895 ATATATATATGTGGTAAAGCCAAATGGCTAATATGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCAAATGGCTAATATGAAATATGTATGAG
44497943 ATATATATATGTGGTAAAGCCAAATGGCTAATATGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCAAATGGCTAATATGAAATATGTATGAG
44497991 ATATATATATGTGGTAAAGCCAAATGGCTAATATGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCAAATGGCTAATATGAAATATGTATGAG
44498039 ATATATATATGTGGTAAAGCCAAATGGCTAATATGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCAAATGGCTAATATGAAATATGTATGAG
44498087 ATATATATATGTGGTAAAGCCAAATGGCTAATATGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCAAATGGCTAATATGAAATATGTATGAG
44498135 ATATATATATGTGGTAAAGCCAAATGGCTAATATGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCAAATGGCTAATATGAAATATGTATGAG
44498183 ATATATATATGTGGTAAAGCCAAATGGCTAATATGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCAAATGGCTAATATGAAATATGTATGAG
44498231 ATATATATATGTGGTAAAGCCAAATGGCTAATATGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCAAATGGCTAATATGAAATATGTATGAG
44498279 ATATATATATGTGGTAAAGCCAAATGGCTAATATGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCAAATGGCTAATATGAAATATGTATGAG
44498327 ATATATATATGTGGTAAAGCCAAATGGCTAATATGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCAAATGGCTAATATGAAATATGTATGAG
44498375 ATATATATATGTGGTAAAGCCAAATGGCTAATATGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCAAATGGCTAATATGAAATATGTATGAG
44498423 ATATATATATGTGGTAAAGCCAAATGGCTAATATGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCAAATGGCTAATATGAAATATGTATGAG
44498471 ATATATATATGTGGTAAAGCCAAATGGCTAATATGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCAAATGGCTAATATGAAATATGTATGAG
44498519 ATATATATATGTGGTAAAGCCAAATGGCTAATATGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCAAATGGCTAATATGAAATATGTATGAG
** * *
44498567 ATATATATATGCAGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCAAATGGCTAATATGAAATATGTATGAG
* * *
44498615 ATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATAGGTATGAG
1 ATATATATATGTGGTAAAGCCAAATGGCTAATATGAAATATGTATGAG
** * * *
44498663 ATATATATATGCAGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAG
1 ATATATATATGTGGTAAAGCCAAATGGCTAATATGAAATATGTATGAG
* *
44498711 ATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCAAATGGCTAATATGAAATATGTATGAG
44498759 CAATATGTAG
Statistics
Matches: 1077, Mismatches: 27, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 1077 1.00
ACGTcount: A:0.41, C:0.06, G:0.22, T:0.31
Consensus pattern (48 bp):
ATATATATATGTGGTAAAGCCAAATGGCTAATATGAAATATGTATGAG
Found at i:44507215 original size:45 final size:44
Alignment explanation
Indices: 44507102--44507301 Score: 278
Period size: 44 Copynumber: 4.5 Consensus size: 44
44507092 TACGGTACTA
*
44507102 ATCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAATGAT
1 ATCGGGCCTTCGAGCCTAGCAGGCTATAATGCTGGTGAAATGAT
* *
44507146 ATCGGGCCTTTGAGCCTAGCAGGCTATAATGCTGGTGAGAT-ACT
1 ATCGGGCCTTCGAGCCTAGCAGGCTATAATGCTGGTGAAATGA-T
*
44507190 ATTCGGGCCTTCGAGCCTAGTAGGCTATAATGCTGGTGAAATGAT
1 A-TCGGGCCTTCGAGCCTAGCAGGCTATAATGCTGGTGAAATGAT
* * * **
44507235 ATCGTGCCTTTGAGCCTAGCAGGCTATAATACCAGTGAAATGAT
1 ATCGGGCCTTCGAGCCTAGCAGGCTATAATGCTGGTGAAATGAT
*
44507279 ATCGAG-CTTCGAGCCTAGCAGGC
1 ATCGGGCCTTCGAGCCTAGCAGGC
44507302 GAAATGCCAA
Statistics
Matches: 139, Mismatches: 14, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
43 17 0.12
44 82 0.59
45 39 0.28
46 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (44 bp):
ATCGGGCCTTCGAGCCTAGCAGGCTATAATGCTGGTGAAATGAT
Found at i:44507248 original size:89 final size:89
Alignment explanation
Indices: 44507097--44507264 Score: 300
Period size: 89 Copynumber: 1.9 Consensus size: 89
44507087 TATCGTACGG
44507097 TACTAATCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAATGATATCGGGCCTTTGAGCC
1 TACTAATCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAATGATATCGGGCCTTTGAGCC
44507162 TAGCAGGCTATAATGCTGGTGAGA
66 TAGCAGGCTATAATGCTGGTGAGA
* * * *
44507186 TACTATTCGGGCCTTCGAGCCTAGTAGGCTATAATGCTGGTGAAATGATATCGTGCCTTTGAGCC
1 TACTAATCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAATGATATCGGGCCTTTGAGCC
44507251 TAGCAGGCTATAAT
66 TAGCAGGCTATAAT
44507265 ACCAGTGAAA
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
89 75 1.00
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (89 bp):
TACTAATCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAATGATATCGGGCCTTTGAGCC
TAGCAGGCTATAATGCTGGTGAGA
Found at i:44514063 original size:17 final size:17
Alignment explanation
Indices: 44514043--44514076 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
44514033 ACTAAAATGT
44514043 AGAAAGAACAAAAAAGA
1 AGAAAGAACAAAAAAGA
* *
44514060 AGAAATAACTAAAAAGA
1 AGAAAGAACAAAAAAGA
44514077 TTTAGAAATC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.74, C:0.06, G:0.15, T:0.06
Consensus pattern (17 bp):
AGAAAGAACAAAAAAGA
Done.