Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 175 of 325
Found at i:53816598 original size:29 final size:29
Alignment explanation
Indices: 53816566--53816643 Score: 93
Period size: 29 Copynumber: 2.7 Consensus size: 29
53816556 ATACCCTCCG
** * *
53816566 AGCTCGCACACCCAGTGCCGTATTTTTTC
1 AGCTCGCACACTTAGTGCCGTATATTTCC
* *
53816595 AGCTTGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCGTATATTTCC
*
53816624 AGCACGCACACTTAGTGCCG
1 AGCTCGCACACTTAGTGCCG
53816644 ATCTCGTCAC
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.22, C:0.32, G:0.18, T:0.28
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCGTATATTTCC
Found at i:53821148 original size:79 final size:80
Alignment explanation
Indices: 53821047--53821231 Score: 209
Period size: 79 Copynumber: 2.3 Consensus size: 80
53821037 ACGACTCGCT
* ** * *
53821047 CAAATGCCTTCAGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAA-CC
1 CAAATGCCTTC-GGGCTTAGCCCGGATT-TAGTAACTCGCACGAATGCCTTC-GGATCCTAATCC
* *
53821109 TGGGTTTAGTAACTT-GCA
63 -GGATATAGTAACTTAGCA
*
53821127 CAAATGCCTTCGGGCTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAATCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAATCCGGA
*
53821192 TATAGTCACTTAGCA
66 TATAGTAACTTAGCA
53821207 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
53821232 CATCATTCGA
Statistics
Matches: 91, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 33 0.36
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGCTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAATCCGGA
TATAGTAACTTAGCA
Found at i:53821172 original size:39 final size:40
Alignment explanation
Indices: 53821040--53821231 Score: 151
Period size: 40 Copynumber: 4.8 Consensus size: 40
53821030 GGATATAACG
* * * * *
53821040 ACTCGCTCAAATGCCTTCAGGAC-GAAGCCCGG-TTATAGTG
1 ACTCGCACGAATGCCTTCGGGACTTAA-CCCGGATT-TAGTA
* *
53821080 ACTCGCACGAATGCCTTCGGGACTTAACCTGGGTTTAGTA
1 ACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAGTA
* * * *
53821120 ACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAGTA
* * * *
53821159 ACTCGCACGAATGCCTTC-GGATCCTAATCCGGATATAGTC
1 ACTCGCACGAATGCCTTCGGGA-CTTAACCCGGATTTAGTA
* * *
53821199 ACTTAGCAC-AAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACGAATGCCTTCGGGACTTAACCCGGA
53821232 CATCATTCGA
Statistics
Matches: 121, Mismatches: 25, Indels: 12
0.77 0.16 0.08
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 77 0.64
41 12 0.10
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
ACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAGTA
Found at i:53823431 original size:58 final size:58
Alignment explanation
Indices: 53823357--53823579 Score: 179
Period size: 58 Copynumber: 3.9 Consensus size: 58
53823347 TGCGGTGACG
* *
53823357 AGAT-TGGCACTAAGTGTGCATGCTGAAAATATATGGCACTAAGTGTGC-ATGCTGGAA
1 AGATATGGCACTAAGTGTGCATGCTGAAAATATACGGCACTAAGTGTGCGA-GCTCGAA
* * **
53823414 ATATATGGCACTAAGTGTGCATGCTGGAAATATACGGCACTGGGTGTGCGAGCTCGAA
1 AGATATGGCACTAAGTGTGCATGCTGAAAATATACGGCACTAAGTGTGCGAGCTCGAA
* * ** * * * * * *
53823472 GGGTATGGCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-A
1 AGATATGGCACTAAGTGTGCATGCTGAAAA-TATACGGCACTAAGTGTGCGAGCTCGAA
** * *
53823530 TTATATAGCACTAAGTGTGCGA-GTTGAATACATATA--GCACTAAGTGTGCG
1 AGATATGGCACTAAGTGTGC-ATGCTGAA-A-ATATACGGCACTAAGTGTGCG
53823580 GATTCACTAT
Statistics
Matches: 133, Mismatches: 27, Indels: 12
0.77 0.16 0.07
Matches are distributed among these distances:
57 17 0.13
58 90 0.68
59 25 0.19
60 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.27
Consensus pattern (58 bp):
AGATATGGCACTAAGTGTGCATGCTGAAAATATACGGCACTAAGTGTGCGAGCTCGAA
Found at i:53823492 original size:29 final size:29
Alignment explanation
Indices: 53823361--53823491 Score: 174
Period size: 29 Copynumber: 4.5 Consensus size: 29
53823351 GTGACGAGAT
*
53823361 TGGCACTAAGTGTGCATGCTGAAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
53823390 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
53823419 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
53823448 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
53823477 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
53823492 GGGTTTAAAA
Statistics
Matches: 90, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
29 89 0.99
30 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:53823548 original size:28 final size:28
Alignment explanation
Indices: 53823479--53823579 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
53823469 GAAGGGTATG
* * * *
53823479 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
53823509 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
53823537 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
53823566 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
53823580 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:53825590 original size:58 final size:58
Alignment explanation
Indices: 53825523--53825686 Score: 179
Period size: 58 Copynumber: 2.8 Consensus size: 58
53825513 GTGACGAGAT
* *
53825523 TGGCACTAAGTGTGCATGCTGAAAATATATGGCACTAAGTGTGC-ATGCTGGAA-ATATA
1 TGGCACTAAGTGTGCATGCTGAAAATATACGGCACTAAGTGTGCGA-GCTCGAAGAT-TA
* ** *
53825581 TGGCACTAAGTGTGCATGCTGGAAATATACGGCACTGGGTGTGCGAGCTCGAAGGTTA
1 TGGCACTAAGTGTGCATGCTGAAAATATACGGCACTAAGTGTGCGAGCTCGAAGATTA
** * * * *
53825639 TGGCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAG
1 TGGCACTAAGTGTGCATGCTGAAAA-TATACGGCACTAAGTGTGCGAG
53825687 TTTGATTATA
Statistics
Matches: 88, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
58 68 0.77
59 20 0.23
ACGTcount: A:0.28, C:0.15, G:0.30, T:0.26
Consensus pattern (58 bp):
TGGCACTAAGTGTGCATGCTGAAAATATACGGCACTAAGTGTGCGAGCTCGAAGATTA
Found at i:53825654 original size:29 final size:29
Alignment explanation
Indices: 53825523--53825653 Score: 176
Period size: 29 Copynumber: 4.5 Consensus size: 29
53825513 GTGACGAGAT
*
53825523 TGGCACTAAGTGTGCATGCTGAAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
53825552 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
53825581 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * *
53825610 CGGCACTGGGTGTGCGA-GCTCGAAGGT-TA
1 TGGCACTAAGTGTGC-ATGCTGGAA-ATATA
53825639 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
53825654 GGGTTTAAAA
Statistics
Matches: 91, Mismatches: 9, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
29 89 0.98
30 2 0.02
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:53825712 original size:28 final size:29
Alignment explanation
Indices: 53825672--53825741 Score: 99
Period size: 29 Copynumber: 2.4 Consensus size: 29
53825662 AATTGTACAG
*
53825672 CACTAAGTGTGCGAGTTTG-AT-TATATAA
1 CACTAAGTGTGCGAG-TTGAATCCATATAA
*
53825700 CACTAAGTGTGCGAGTTGAATCCATATAG
1 CACTAAGTGTGCGAGTTGAATCCATATAA
53825729 CACTAAGTGTGCG
1 CACTAAGTGTGCG
53825742 GATTCACTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
27 3 0.08
28 17 0.45
29 18 0.47
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (29 bp):
CACTAAGTGTGCGAGTTGAATCCATATAA
Found at i:53825736 original size:29 final size:28
Alignment explanation
Indices: 53825670--53825741 Score: 101
Period size: 28 Copynumber: 2.5 Consensus size: 28
53825660 AAAATTGTAC
*
53825670 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
53825698 AACACTAAGTGTGCGAG-TTGAATCCATAT
1 AGCACTAAGTGTGCGAGTTTG-AT-CATAT
53825727 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
53825742 GATTCACTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
27 3 0.08
28 18 0.46
29 18 0.46
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:53827710 original size:29 final size:29
Alignment explanation
Indices: 53827648--53827750 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
53827638 GTGACGAGAT
* * *
53827648 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
53827677 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
53827706 TGGCACTATGTGTGCGGGCTT-GAATCATA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
53827735 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
53827751 TGATTGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 3 0.05
29 58 0.95
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:53831133 original size:40 final size:40
Alignment explanation
Indices: 53831048--53831198 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
53831038 AATTGAATGA
* * *
53831048 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
53831088 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
53831129 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
53831168 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
53831199 ACGTGATTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:53831212 original size:40 final size:40
Alignment explanation
Indices: 53831084--53831214 Score: 156
Period size: 40 Copynumber: 3.3 Consensus size: 40
53831074 TATGCTGGAA
* * *
53831084 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * **
53831124 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
53831164 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
53831204 ATTATATCCGG
1 ATTATATCCGG
53831215 TTATATTCGA
Statistics
Matches: 73, Mismatches: 17, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 72 0.99
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:53833030 original size:21 final size:21
Alignment explanation
Indices: 53833006--53833047 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
53832996 AGGAAACCAA
53833006 GTTATAAATTATATGATATAT
1 GTTATAAATTATATGATATAT
* *
53833027 GTTATATATTATATGTTATAT
1 GTTATAAATTATATGATATAT
53833048 CATAAAATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.52
Consensus pattern (21 bp):
GTTATAAATTATATGATATAT
Found at i:53835465 original size:40 final size:40
Alignment explanation
Indices: 53835420--53835585 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
53835410 CGGAATATAA
53835420 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
53835460 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
53835500 CCGGATATAGCCACTAGCAC-ATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
53835539 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
53835578 CCGGATAT
1 CCGGATAT
53835586 CATTCAATTT
Statistics
Matches: 106, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
39 45 0.42
40 61 0.58
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:53839332 original size:50 final size:50
Alignment explanation
Indices: 53839140--53839388 Score: 274
Period size: 50 Copynumber: 5.0 Consensus size: 50
53839130 GTTACACTGT
* * * *
53839140 GTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTGCTAT
1 GTGTATCAGATTGATAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTAC
* * *
53839190 GTGTA-CAGATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGATACTA-
1 GTGTATCAGATTGATAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTAC
* ** * *
53839238 -TGCATACCCATTAACTTCA-ATCACGTGTGTAGTACTAAGTGCAGGCTACTAC
1 GTGTAT-CAGATTGA--T-AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTAC
* * *
53839290 GTGTATCAGATGGATAAGTCACGTGTGTAGTACTAAGTGCAGGCTATTAC
1 GTGTATCAGATTGATAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTAC
*
53839340 GTGTA-CTAGATTGATAGGTCACATGTGTAGTACTAAGTGCAGGCTACTA
1 GTGTATC-AGATTGATAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTA
53839389 TGTATACCAG
Statistics
Matches: 165, Mismatches: 25, Indels: 18
0.79 0.12 0.09
Matches are distributed among these distances:
47 3 0.02
49 44 0.27
50 80 0.48
51 29 0.18
52 5 0.03
53 4 0.02
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (50 bp):
GTGTATCAGATTGATAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTAC
Found at i:53839619 original size:16 final size:16
Alignment explanation
Indices: 53839598--53839628 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
53839588 AGAATGAAGT
53839598 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
53839614 AAGTGAAATTTTGTA
1 AAGTGAAATTATGTA
53839629 CTAAAATAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.00, G:0.19, T:0.35
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:53840211 original size:179 final size:179
Alignment explanation
Indices: 53839957--53840282 Score: 537
Period size: 179 Copynumber: 1.8 Consensus size: 179
53839947 TCCGAGAGCT
* * * * *
53839957 GTACCATGAGATAAATAATTTTTAGTGAAGAGAGGTTGGAACTGTCGACAGTGAAGCAGGGGTAT
1 GTACCACGAAATAAATAATTTTTAGTGAAGAGAGGTTAGAACTATCGACAGTGAAACAGGGGTAT
* *
53840022 CTTTAATGAATAAACTGTACTAATTGGCTAAAC-TAAAAATTCTGAAAATTTTATGGTAAGAATA
66 CTTTAATGAATAAACTGTACTAATTGGATAAACACAAAAATTCTGAAAATTTTATGGTAAGAATA
*
53840086 TATGTGAGTCTAGTTTCTGGAAAAATTAGTGGTTCTCAATTTGGAGTCC
131 TATATGAGTCTAGTTTCTGGAAAAATTAGTGGTTCTCAATTTGGAGTCC
*
53840135 GTACCACGAAATAAATAATTTTTAGTGAAGAGAGGTTAGAACTATCGGACAGTGAAATAGGGGTA
1 GTACCACGAAATAAATAATTTTTAGTGAAGAGAGGTTAGAACTATC-GACAGTGAAACAGGGGTA
*
53840200 TCTTTAATGAATAAACTGTACTAATTGGATAAACACAAAAATTCTGAAAATTTTATGGTAATAAT
65 TCTTTAATGAATAAACTGTACTAATTGGATAAACACAAAAATTCTGAAAATTTTATGGTAAGAAT
*
53840265 ATATATGATTCTAGTTTC
130 ATATATGAGTCTAGTTTC
53840283 ATAAAAAATT
Statistics
Matches: 135, Mismatches: 11, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
178 42 0.31
179 49 0.36
180 44 0.33
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.33
Consensus pattern (179 bp):
GTACCACGAAATAAATAATTTTTAGTGAAGAGAGGTTAGAACTATCGACAGTGAAACAGGGGTAT
CTTTAATGAATAAACTGTACTAATTGGATAAACACAAAAATTCTGAAAATTTTATGGTAAGAATA
TATATGAGTCTAGTTTCTGGAAAAATTAGTGGTTCTCAATTTGGAGTCC
Found at i:53840292 original size:180 final size:178
Alignment explanation
Indices: 53839957--53840293 Score: 532
Period size: 180 Copynumber: 1.9 Consensus size: 178
53839947 TCCGAGAGCT
* * * * *
53839957 GTACCATGAGATAAATAATTTTTAGTGAAGAGAGGTTGGAACTGTCGACAGTGAAGCAGGGGTAT
1 GTACCACGAAATAAATAATTTTTAGTGAAGAGAGGTTAGAACTATCGACAGTGAAACAGGGGTAT
* *
53840022 CTTTAATGAATAAACTGTACTAATTGGCTAAACTAAAAATTCTGAAAATTTTATGGTAAGAATAT
66 CTTTAATGAATAAACTGTACTAATTGGATAAACCAAAAATTCTGAAAATTTTATGGTAAGAATAT
* *
53840087 ATGTGAGTCTAGTTTCTGGAAAAATTAGTGGTTCTCAATTTGGAGTCC
131 ATATGAGTCTAGTTTCTGAAAAAATTAGTGGTTCTCAATTTGGAGTCC
*
53840135 GTACCACGAAATAAATAATTTTTAGTGAAGAGAGGTTAGAACTATCGGACAGTGAAATAGGGGTA
1 GTACCACGAAATAAATAATTTTTAGTGAAGAGAGGTTAGAACTATC-GACAGTGAAACAGGGGTA
*
53840200 TCTTTAATGAATAAACTGTACTAATTGGATAAACACAAAAATTCTGAAAATTTTATGGTAATAAT
65 TCTTTAATGAATAAACTGTACTAATTGGATAAAC-CAAAAATTCTGAAAATTTTATGGTAAGAAT
*
53840265 ATATATGATTCTAGTTTCAT-AAAAAATTA
129 ATATATGAGTCTAGTTTC-TGAAAAAATTA
53840294 ACGGATCTTA
Statistics
Matches: 144, Mismatches: 12, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
178 42 0.29
179 49 0.34
180 52 0.36
181 1 0.01
ACGTcount: A:0.39, C:0.09, G:0.20, T:0.32
Consensus pattern (178 bp):
GTACCACGAAATAAATAATTTTTAGTGAAGAGAGGTTAGAACTATCGACAGTGAAACAGGGGTAT
CTTTAATGAATAAACTGTACTAATTGGATAAACCAAAAATTCTGAAAATTTTATGGTAAGAATAT
ATATGAGTCTAGTTTCTGAAAAAATTAGTGGTTCTCAATTTGGAGTCC
Found at i:53844280 original size:40 final size:40
Alignment explanation
Indices: 53844220--53844403 Score: 253
Period size: 40 Copynumber: 4.6 Consensus size: 40
53844210 TATTCGAATG
* *
53844220 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
* * * *
53844260 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGACT
* *
53844300 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
* *
53844340 ATATCCGGGCTAAGCCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
*
53844380 ATATCCGAGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
53844404 CTTGTGCGAG
Statistics
Matches: 126, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
39 1 0.01
40 123 0.98
41 2 0.02
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
Found at i:53849266 original size:27 final size:28
Alignment explanation
Indices: 53849232--53849313 Score: 143
Period size: 27 Copynumber: 3.0 Consensus size: 28
53849222 AGGGGTATAT
53849232 GGTAATTTTGCTC-TTAGGGGTAATTTC
1 GGTAATTTTGCTCTTTAGGGGTAATTTC
53849259 GGTAATTTTGCTCTTTAGGGGTAA-TTC
1 GGTAATTTTGCTCTTTAGGGGTAATTTC
53849286 GGTAATTTTGCTCTTTA-GGGTAATTTC
1 GGTAATTTTGCTCTTTAGGGGTAATTTC
53849313 G
1 G
53849314 TGTTCTACGT
Statistics
Matches: 53, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
26 6 0.11
27 37 0.70
28 10 0.19
ACGTcount: A:0.18, C:0.11, G:0.26, T:0.45
Consensus pattern (28 bp):
GGTAATTTTGCTCTTTAGGGGTAATTTC
Found at i:53850956 original size:20 final size:20
Alignment explanation
Indices: 53850933--53850970 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
53850923 CACATCCAAA
*
53850933 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
53850953 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
53850971 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:53857251 original size:26 final size:27
Alignment explanation
Indices: 53857222--53857311 Score: 125
Period size: 26 Copynumber: 3.4 Consensus size: 27
53857212 ATTTAAACCC
53857222 TAGGGGTATATT-GGTAATTTTGCTC-T
1 TAGGGGTA-ATTCGGTAATTTTGCTCTT
*
53857248 TA-GGGTAATTTCGATAATTTTGCTCTT
1 TAGGGGTAA-TTCGGTAATTTTGCTCTT
53857275 TAGGGGTAATTCGGTAATTTTGCTCTT
1 TAGGGGTAATTCGGTAATTTTGCTCTT
53857302 TA-GGGTAATT
1 TAGGGGTAATT
53857312 TCGTGTTCTA
Statistics
Matches: 58, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
24 1 0.02
25 7 0.12
26 22 0.38
27 22 0.38
28 6 0.10
ACGTcount: A:0.21, C:0.09, G:0.24, T:0.46
Consensus pattern (27 bp):
TAGGGGTAATTCGGTAATTTTGCTCTT
Found at i:53857287 original size:27 final size:26
Alignment explanation
Indices: 53857225--53857311 Score: 124
Period size: 27 Copynumber: 3.3 Consensus size: 26
53857215 TAAACCCTAG
53857225 GGGTATATT-GGTAATTTTGCTC-TTA
1 GGGTA-ATTCGGTAATTTTGCTCTTTA
*
53857250 GGGTAATTTCGATAATTTTGCTCTTTA
1 GGGTAA-TTCGGTAATTTTGCTCTTTA
53857277 GGGGTAATTCGGTAATTTTGCTCTTTA
1 -GGGTAATTCGGTAATTTTGCTCTTTA
53857304 GGGTAATT
1 GGGTAATT
53857312 TCGTGTTCTA
Statistics
Matches: 56, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
24 1 0.02
25 7 0.12
26 20 0.36
27 22 0.39
28 6 0.11
ACGTcount: A:0.21, C:0.09, G:0.24, T:0.46
Consensus pattern (26 bp):
GGGTAATTCGGTAATTTTGCTCTTTA
Found at i:53857314 original size:27 final size:27
Alignment explanation
Indices: 53857234--53857314 Score: 130
Period size: 27 Copynumber: 3.0 Consensus size: 27
53857224 GGGGTATATT
53857234 GGTAATTTTGCTC-TTAGGGTAATTTC
1 GGTAATTTTGCTCTTTAGGGTAATTTC
*
53857260 GATAATTTTGCTCTTTAGGGGTAA-TTC
1 GGTAATTTTGCTCTTTA-GGGTAATTTC
53857287 GGTAATTTTGCTCTTTAGGGTAATTTC
1 GGTAATTTTGCTCTTTAGGGTAATTTC
53857314 G
1 G
53857315 TGTTCTACGT
Statistics
Matches: 50, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
26 18 0.36
27 26 0.52
28 6 0.12
ACGTcount: A:0.20, C:0.11, G:0.23, T:0.46
Consensus pattern (27 bp):
GGTAATTTTGCTCTTTAGGGTAATTTC
Found at i:53858967 original size:20 final size:20
Alignment explanation
Indices: 53858944--53858981 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
53858934 CACATCCAAA
*
53858944 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
53858964 TACAAAATATTAAAAATC
1 TACAAAATATTAAAAATC
53858982 GCGAATAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.55, C:0.11, G:0.00, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:53863312 original size:40 final size:40
Alignment explanation
Indices: 53863252--53863435 Score: 262
Period size: 40 Copynumber: 4.6 Consensus size: 40
53863242 TATTCGAATG
* *
53863252 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
* * * *
53863292 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGACT
* *
53863332 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
* *
53863372 ATATCCGGGCTAAGCCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
53863412 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
53863436 CTTGTGCGAG
Statistics
Matches: 127, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
39 1 0.01
40 124 0.98
41 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
Found at i:53865274 original size:15 final size:15
Alignment explanation
Indices: 53865254--53865298 Score: 72
Period size: 15 Copynumber: 3.0 Consensus size: 15
53865244 TATGATATTA
53865254 TATCTTGGATTTCTT
1 TATCTTGGATTTCTT
*
53865269 TATCTTGGATTTCTC
1 TATCTTGGATTTCTT
*
53865284 TATCTTGGACTTCTT
1 TATCTTGGATTTCTT
53865299 AATCCTAGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.13, C:0.18, G:0.13, T:0.56
Consensus pattern (15 bp):
TATCTTGGATTTCTT
Found at i:53865312 original size:30 final size:30
Alignment explanation
Indices: 53865254--53865312 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
53865244 TATGATATTA
* * * *
53865254 TATCTTGGATTTCTTTATCTTGGATTTCTC
1 TATCTTGGACTTCTTAATCCTAGATTTCTC
*
53865284 TATCTTGGACTTCTTAATCCTAGTTTTCT
1 TATCTTGGACTTCTTAATCCTAGATTTCT
53865313 TGTTATTTAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.15, C:0.19, G:0.12, T:0.54
Consensus pattern (30 bp):
TATCTTGGACTTCTTAATCCTAGATTTCTC
Found at i:53867097 original size:93 final size:93
Alignment explanation
Indices: 53866989--53867160 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
53866979 ACCCATAAGT
* * *
53866989 GAACTCGGACTCAACTCAACGA-TCTCGGGCGTTCGCATCCATAAGTGAACTCTGACTCAACTCA
1 GAACTCAGACTCAACTCAACGAGT-TCGGGCGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
53867053 ACGAGCTCGGATGCCTAGTTACATCTCTC
65 ACGAGCTCGGATGCCTAGTTACATCTCTC
53867082 GAACTCAGACTCAACTCAACGAGTTCGGGCGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGTTCGGGCGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
53867147 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
53867161 CAAATATCCT
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
93 73 0.99
94 1 0.01
ACGTcount: A:0.27, C:0.31, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGTTCGGGCGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:53867150 original size:46 final size:46
Alignment explanation
Indices: 53866981--53867155 Score: 203
Period size: 46 Copynumber: 3.8 Consensus size: 46
53866971 TGTAACCCAC
*
53866981 CCATAAGTGAACTCGGACTCAACTCAACGA-TCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGT-TCGGGCGCTCGCAT
* * * *
53867027 CCATAAGTGAACTCTGACTCAACTCAACGAGCTCGGATGC-CTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--GCGCTCGCAT
* *** *
53867073 ACATCTCTCGAACTCAGACTCAACTCAACGAGTTCGGGCGCTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTCGGGCGCTCGCAT
53867120 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
53867156 ATGCCCAAAT
Statistics
Matches: 105, Mismatches: 18, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
45 2 0.02
46 68 0.65
47 33 0.31
48 2 0.02
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGCTCGCAT
Found at i:53867175 original size:46 final size:46
Alignment explanation
Indices: 53867032--53867175 Score: 116
Period size: 46 Copynumber: 3.1 Consensus size: 46
53867022 CGCATCCATA
* * * *
53867032 AGTGAACTCTGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 AGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCCA--AACATC-CT
* * ***
53867081 --CGAACTCAGACTCAACTCAACGAGTTCGG--GCGCTCGCATCCAT
1 AGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCCAAACATCC-T
* *
53867124 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCT
1 -AGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCCAAACATCCT
53867171 AGTGA
1 AGTGA
53867176 CATGTCACTT
Statistics
Matches: 74, Mismatches: 15, Indels: 15
0.71 0.14 0.14
Matches are distributed among these distances:
42 1 0.01
43 5 0.07
45 2 0.03
46 32 0.43
47 27 0.36
48 7 0.09
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
AGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCCAAACATCCT
Found at i:53869516 original size:31 final size:31
Alignment explanation
Indices: 53869481--53869557 Score: 136
Period size: 31 Copynumber: 2.5 Consensus size: 31
53869471 GCATATACTA
53869481 GGCCGAAGCCTTTACATTATTCATACCACTG
1 GGCCGAAGCCTTTACATTATTCATACCACTG
* *
53869512 GGCCGAAGCCTTTTCATTATTCATATCACTG
1 GGCCGAAGCCTTTACATTATTCATACCACTG
53869543 GGCCGAAGCCTTTAC
1 GGCCGAAGCCTTTAC
53869558 TGTAAACGGT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.23, C:0.29, G:0.18, T:0.30
Consensus pattern (31 bp):
GGCCGAAGCCTTTACATTATTCATACCACTG
Found at i:53869810 original size:25 final size:25
Alignment explanation
Indices: 53869776--53869844 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 25
53869766 CTCTTTTAAT
* *
53869776 AACTTGGGCAATGCCCTTTTTGATA
1 AACTAGGGCAATGCCCTTTTCGATA
* * *
53869801 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTAGGGCAATGCCCTTTTCGATA
53869826 AACTAGGGC-ATAGCCCTTT
1 AACTAGGGCAAT-GCCCTTT
53869845 AGCACTTCCT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
24 1 0.03
25 36 0.97
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (25 bp):
AACTAGGGCAATGCCCTTTTCGATA
Found at i:53869888 original size:2 final size:2
Alignment explanation
Indices: 53869881--53869914 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
53869871 CAACCCATGC
53869881 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
53869915 CATGGCATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:53869935 original size:11 final size:10
Alignment explanation
Indices: 53869911--53869945 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
53869901 ATATATATAT
53869911 ATATCATGGC
1 ATATCATGGC
53869921 ATATCATGTGC
1 ATATCATG-GC
*
53869932 ATATCATGGA
1 ATATCATGGC
53869942 ATAT
1 ATAT
53869946 TATGTACAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 13 0.57
11 10 0.43
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.34
Consensus pattern (10 bp):
ATATCATGGC
Found at i:53869937 original size:21 final size:21
Alignment explanation
Indices: 53869911--53869950 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
53869901 ATATATATAT
*
53869911 ATATCATGGCATATCATGTGC
1 ATATCATGGAATATCATGTGC
*
53869932 ATATCATGGAATATTATGT
1 ATATCATGGAATATCATGT
53869951 ACAAATCAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (21 bp):
ATATCATGGAATATCATGTGC
Found at i:53869958 original size:21 final size:21
Alignment explanation
Indices: 53869913--53869958 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
53869903 ATATATATAT
* * *
53869913 ATCATGGCATATCATGTGCAT
1 ATCATGGAATATCATGTACAA
*
53869934 ATCATGGAATATTATGTACAA
1 ATCATGGAATATCATGTACAA
53869955 ATCA
1 ATCA
53869959 GTATCACATG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (21 bp):
ATCATGGAATATCATGTACAA
Found at i:53877459 original size:31 final size:30
Alignment explanation
Indices: 53877417--53877502 Score: 120
Period size: 31 Copynumber: 2.8 Consensus size: 30
53877407 TCAATCTTAG
53877417 CATAT-ACTGGGCCAATGCCTTTACATTATT
1 CATATCACTGGGCCAA-GCCTTTACATTATT
* *
53877447 CATATCACTGGGCCGAGGCCTTTTCATTATT
1 CATATCACTGGGCC-AAGCCTTTACATTATT
53877478 CATATCACTGGGCCGAAGCCTTTAC
1 CATATCACTGGGCC-AAGCCTTTAC
53877503 TGTAAACGGT
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
30 5 0.10
31 44 0.88
32 1 0.02
ACGTcount: A:0.23, C:0.27, G:0.17, T:0.33
Consensus pattern (30 bp):
CATATCACTGGGCCAAGCCTTTACATTATT
Found at i:53877749 original size:25 final size:25
Alignment explanation
Indices: 53877721--53877789 Score: 102
Period size: 25 Copynumber: 2.8 Consensus size: 25
53877711 CTCTTTTAAT
*
53877721 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
53877746 AACTAGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
53877771 AACTGGGGCATAGCCCTTT
1 AACTGGGGCAAAGCCCTTT
53877790 AGCACTTCCT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:53877853 original size:10 final size:10
Alignment explanation
Indices: 53877840--53877874 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
53877830 ATATATATAT
53877840 ATATCATGGC
1 ATATCATGGC
53877850 ATATCATGTGC
1 ATATCATG-GC
*
53877861 ATATCATGTC
1 ATATCATGGC
53877871 ATAT
1 ATAT
53877875 AATGTACAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 13 0.57
11 10 0.43
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.37
Consensus pattern (10 bp):
ATATCATGGC
Found at i:53877866 original size:21 final size:21
Alignment explanation
Indices: 53877840--53877879 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
53877830 ATATATATAT
*
53877840 ATATCATGGCATATCATGTGC
1 ATATCATGGCATATAATGTGC
*
53877861 ATATCATGTCATATAATGT
1 ATATCATGGCATATAATGT
53877880 ACAAATCAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.38
Consensus pattern (21 bp):
ATATCATGGCATATAATGTGC
Found at i:53877887 original size:21 final size:21
Alignment explanation
Indices: 53877842--53877887 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
53877832 ATATATATAT
* * *
53877842 ATCATGGCATATCATGTGCAT
1 ATCATGGCATATAATGTACAA
*
53877863 ATCATGTCATATAATGTACAA
1 ATCATGGCATATAATGTACAA
53877884 ATCA
1 ATCA
53877888 GTATCACATG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (21 bp):
ATCATGGCATATAATGTACAA
Found at i:53880198 original size:27 final size:28
Alignment explanation
Indices: 53880141--53880210 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
53880131 AAATTTGTAC
**
53880141 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
53880169 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
53880196 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
53880211 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:53880219 original size:27 final size:27
Alignment explanation
Indices: 53880141--53880222 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
53880131 AAATTTGTAC
* *
53880141 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
53880169 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
53880196 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
53880223 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:53888113 original size:27 final size:28
Alignment explanation
Indices: 53888056--53888125 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
53888046 AAATTTGTAC
**
53888056 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
53888084 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
53888111 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
53888126 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:53888134 original size:27 final size:27
Alignment explanation
Indices: 53888056--53888137 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
53888046 AAATTTGTAC
* *
53888056 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
53888084 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
53888111 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
53888138 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:53892277 original size:30 final size:30
Alignment explanation
Indices: 53892243--53892301 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
53892233 TTTACGAGCC
* *
53892243 TAGGGGCCAAAGTGAAAATATGTGAAAGTT
1 TAGGGGCCAAAATGAAAATATGTAAAAGTT
* * *
53892273 TAGGGGTCAAAATGCAAATTTGTAAAAGT
1 TAGGGGCCAAAATGAAAATATGTAAAAGT
53892302 ATGATTTTTG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.41, C:0.07, G:0.27, T:0.25
Consensus pattern (30 bp):
TAGGGGCCAAAATGAAAATATGTAAAAGTT
Found at i:53893040 original size:50 final size:50
Alignment explanation
Indices: 53892919--53893158 Score: 232
Period size: 50 Copynumber: 4.7 Consensus size: 50
53892909 ATTGTGAGAA
* * *
53892919 CACATGTGTAGTACTATGTGCAGGCTACTACACGTTTAAGACAG-TT-TTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACA--TGT-A-CCAGATTGTTAGGT
* *
53892971 CACATGTGTTGTACCAAGTGCAGGCTACTACATGTACCAGATTGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTGTTAGGT
* * * * * * * *
53893021 CGCATGTGTAGTACTAAGTGCAAGCTACTATACGTACCCGATAGTTTTGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTG-TTAGGT
* * * * *
53893072 CACGTGTGTAGTACTAAGTGCAGGATACTACGTGTATCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTGTTAGGT
** *
53893122 CATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTAC
1 CACATGTGTAGTACTAAGTGCAGGCTACTACATGTAC
53893159 GCATGTGTAG
Statistics
Matches: 155, Mismatches: 30, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
48 3 0.02
49 3 0.02
50 82 0.53
51 38 0.25
52 29 0.19
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTGTTAGGT
Found at i:53893121 original size:101 final size:102
Alignment explanation
Indices: 53892919--53893152 Score: 290
Period size: 101 Copynumber: 2.3 Consensus size: 102
53892909 ATTGTGAGAA
* ** * *
53892919 CACATGTGTAGTACTATGTGCAGGCTACTACACGTTTAAGACAGTTTTAGGTCACATGTGTTGTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTACACGTACAAGACAGTTTTAGATCACATGTGTAGTA
* *
53892984 CCAAGTGCAGGCTACTACATGTACCAGATTGTTAGGT
66 CCAAGTGCAGGATACTACATGTACCAGATGGTTAGGT
* * * ** * *
53893021 CGCATGTGTAGTACTAAGTGCAAGCTACTATACGTACCCGATAGTTTT-GATCACGTGTGTAGTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTACACGTACAAGACAGTTTTAGATCACATGTGTAGTA
* * *
53893085 CTAAGTGCAGGATACTACGTGTATCAGATGGTTAGGT
66 CCAAGTGCAGGATACTACATGTACCAGATGGTTAGGT
**
53893122 CATGTGTGTAGTACTAAGTGCAGGCTACTAC
1 CACATGTGTAGTACTAAGTGCAGGCTACTAC
53893153 GTGTACGCAT
Statistics
Matches: 110, Mismatches: 22, Indels: 1
0.83 0.17 0.01
Matches are distributed among these distances:
101 71 0.65
102 39 0.35
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (102 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACACGTACAAGACAGTTTTAGATCACATGTGTAGTA
CCAAGTGCAGGATACTACATGTACCAGATGGTTAGGT
Found at i:53893241 original size:26 final size:26
Alignment explanation
Indices: 53893161--53893244 Score: 66
Period size: 26 Copynumber: 3.3 Consensus size: 26
53893151 ACGTGTACGC
53893161 ATGTGTAGTACTAAGTGCAGGCTACT
1 ATGTGTAGTACTAAGTGCAGGCTACT
* * ** * * *
53893187 ATGCGTACCTGTTAACTTC--GATCAC-
1 ATGTGTA-GTACTAAGTGCAGGCT-ACT
53893212 ATGTGTAGTACTAAGTGCAGGCTACT
1 ATGTGTAGTACTAAGTGCAGGCTACT
53893238 ATGTGTA
1 ATGTGTA
53893245 TCAGATGGAT
Statistics
Matches: 39, Mismatches: 14, Indels: 10
0.62 0.22 0.16
Matches are distributed among these distances:
24 6 0.15
25 10 0.26
26 17 0.44
27 6 0.15
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (26 bp):
ATGTGTAGTACTAAGTGCAGGCTACT
Found at i:53893244 original size:137 final size:137
Alignment explanation
Indices: 53893021--53893295 Score: 415
Period size: 137 Copynumber: 2.0 Consensus size: 137
53893011 ATTGTTAGGT
** * *
53893021 CGCATGTGTAGTACTAAGTGCAAGCTACTATACGTACCCGATAGTTTTGATCACGTGTGTAGTAC
1 CGCATGTGTAGTACTAAGTGCAAGCTACTATACGTACCCGATAACTTCGATCACATGTGTAGTAC
* * **
53893086 TAAGTGCAGGATACTACGTGTATCAGATGGTTAGGTCATGTGTGTAGTACTAAGTGCAGGCTACT
66 TAAGTGCAGGATACTACGTGTATCAGATGGATAAGTCACATGTGTAGTACTAAGTGCAGGCTACT
53893151 ACGTGTA
131 ACGTGTA
* * * *
53893158 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGTTAACTTCGATCACATGTGTAGTAC
1 CGCATGTGTAGTACTAAGTGCAAGCTACTATACGTACCCGATAACTTCGATCACATGTGTAGTAC
* *
53893223 TAAGTGCAGGCTACTATGTGTATCAGATGGATAAGTCACATGTGTAGTACTAAGTGCAGGCTACT
66 TAAGTGCAGGATACTACGTGTATCAGATGGATAAGTCACATGTGTAGTACTAAGTGCAGGCTACT
*
53893288 AGGTGTA
131 ACGTGTA
53893295 C
1 C
53893296 CAGATTGATA
Statistics
Matches: 123, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
137 123 1.00
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (137 bp):
CGCATGTGTAGTACTAAGTGCAAGCTACTATACGTACCCGATAACTTCGATCACATGTGTAGTAC
TAAGTGCAGGATACTACGTGTATCAGATGGATAAGTCACATGTGTAGTACTAAGTGCAGGCTACT
ACGTGTA
Found at i:53893283 original size:50 final size:50
Alignment explanation
Indices: 53893160--53893349 Score: 247
Period size: 50 Copynumber: 3.8 Consensus size: 50
53893150 TACGTGTACG
* * **
53893160 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTG-TTAACTTCGATCA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATTGA-TAAG-TCA
* * *
53893211 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATGGATAAGTCA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATTGATAAGTCA
* * * *
53893261 CATGTGTAGTACTAAGTGCAGGCTACTAGGTGTACCAGATTGATAGGTCG
1 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATTGATAAGTCA
*
53893311 CATGTGTAGTACTAAGTGCAGGCTATTATGCGTACCAGA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
53893350 GAGCTTCAGT
Statistics
Matches: 123, Mismatches: 15, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
50 84 0.68
51 37 0.30
52 2 0.02
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.29
Consensus pattern (50 bp):
CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATTGATAAGTCA
Found at i:53893569 original size:16 final size:16
Alignment explanation
Indices: 53893548--53893579 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
53893538 AGAATGGAGT
53893548 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
53893564 AAGTGAAATTTTGTAA
1 AAGTGAAATTATGTAA
53893580 TAAAACAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:53898082 original size:14 final size:14
Alignment explanation
Indices: 53898063--53898089 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
53898053 TAAATACTTG
53898063 ATTTGTTCTTAATT
1 ATTTGTTCTTAATT
53898077 ATTTGTTCTTAAT
1 ATTTGTTCTTAAT
53898090 GCTTGAGTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.07, G:0.07, T:0.63
Consensus pattern (14 bp):
ATTTGTTCTTAATT
Found at i:53898538 original size:13 final size:13
Alignment explanation
Indices: 53898522--53898546 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
53898512 TTAAATCAGT
53898522 TAATTAGTTTAAA
1 TAATTAGTTTAAA
53898535 TAATTAGTTTAA
1 TAATTAGTTTAA
53898547 TAAACAAACC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TAATTAGTTTAAA
Found at i:53903973 original size:17 final size:17
Alignment explanation
Indices: 53903945--53903987 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
53903935 TCTTATTTTT
* *
53903945 ATTTTATTTTTCTTTTGA
1 ATTTTA-TTTTCATTTCA
53903963 ATTTTATTTTCATTTCA
1 ATTTTATTTTCATTTCA
*
53903980 GTTTTATT
1 ATTTTATT
53903988 ATTTAATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 16 0.73
18 6 0.27
ACGTcount: A:0.19, C:0.07, G:0.05, T:0.70
Consensus pattern (17 bp):
ATTTTATTTTCATTTCA
Found at i:53906428 original size:14 final size:14
Alignment explanation
Indices: 53906409--53906435 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
53906399 TAAATACTTG
53906409 ATTTGTTCTTAATT
1 ATTTGTTCTTAATT
53906423 ATTTGTTCTTAAT
1 ATTTGTTCTTAAT
53906436 GCTTGAGTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.07, G:0.07, T:0.63
Consensus pattern (14 bp):
ATTTGTTCTTAATT
Found at i:53906884 original size:13 final size:13
Alignment explanation
Indices: 53906868--53906892 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
53906858 TTAAATCAGT
53906868 TAATTAGTTTAAA
1 TAATTAGTTTAAA
53906881 TAATTAGTTTAA
1 TAATTAGTTTAA
53906893 TAAACAAACC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TAATTAGTTTAAA
Found at i:53910095 original size:40 final size:39
Alignment explanation
Indices: 53910031--53910218 Score: 214
Period size: 39 Copynumber: 4.8 Consensus size: 39
53910021 GCTACTCGTT
* * * ** * *
53910031 CAAACGCCTTCGGGACATAGCCCGGTTATGGTAACCCGTA
1 CAAATGCCTTCGGG-CTTAGCCCGGATATCATAACTCGCA
* *
53910071 CAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGATATCATAACTCGCA
*
53910111 CAATTGCCTTCGGGCTTAGCCCGGATATCATAACTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGATATCATAACTCGCA
* * * * *
53910150 CAATTGCCTTCGGGCTTAGCCCGGATGTCACAATTTGCA
1 CAAATGCCTTCGGGCTTAGCCCGGATATCATAACTCGCA
*
53910189 CAATTGCCTTCGGGCTTAGCCCGGATATCA
1 CAAATGCCTTCGGGCTTAGCCCGGATATCA
53910219 CTCGAACATT
Statistics
Matches: 131, Mismatches: 17, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 87 0.66
40 44 0.34
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGATATCATAACTCGCA
Found at i:53910139 original size:39 final size:39
Alignment explanation
Indices: 53910070--53910219 Score: 237
Period size: 39 Copynumber: 3.8 Consensus size: 39
53910060 GGTAACCCGT
* *
53910070 ACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGC
1 ACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACTCGC
*
53910110 ACAATTGCCTTCGGGCTTAGCCCGGATATCATAACTCGC
1 ACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTCGC
* * *
53910149 ACAATTGCCTTCGGGCTTAGCCCGGATGTCACAATTTGC
1 ACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTCGC
53910188 ACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 ACAATTGCCTTCGGGCTTAGCCCGGATATCAC
53910220 TCGAACATTT
Statistics
Matches: 102, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 88 0.86
40 14 0.14
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.25
Consensus pattern (39 bp):
ACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTCGC
Found at i:53910190 original size:78 final size:79
Alignment explanation
Indices: 53910036--53910218 Score: 251
Period size: 78 Copynumber: 2.3 Consensus size: 79
53910026 TCGTTCAAAC
* * ** *
53910036 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGTACAAATGCCTTCGGGACTTAACCCGGATATC
1 GCCTTCGGG-CTTAGCCCGGATATCATAACCCGCACAAATGCCTTCGGGACTTAACCCGGATATC
53910101 ACAACTCGCACAATT
65 ACAACTCGCACAATT
* * * *
53910116 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGG-CTTAGCCCGGATGTCA
1 GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAATGCCTTCGGGACTTAACCCGGATATCA
* *
53910180 CAATTTGCACAATT
66 CAACTCGCACAATT
53910194 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
53910219 CTCGAACATT
Statistics
Matches: 92, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
78 51 0.55
79 32 0.35
80 9 0.10
ACGTcount: A:0.23, C:0.30, G:0.22, T:0.25
Consensus pattern (79 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAATGCCTTCGGGACTTAACCCGGATATCA
CAACTCGCACAATT
Found at i:53921573 original size:29 final size:30
Alignment explanation
Indices: 53921531--53921726 Score: 172
Period size: 29 Copynumber: 6.7 Consensus size: 30
53921521 TGTGATCGAA
* *
53921531 ACCATCCCTTTTCATATTCGATGGGT-GTC
1 ACCATCCCTTTTCATATTTGATGGGTCATC
53921560 ACCATCCCTTTTCATATTTGAT-GGTCATC
1 ACCATCCCTTTTCATATTTGATGGGTCATC
* * **
53921589 ACCTTCCCTTTACATATTTGAT-GGTCAAA
1 ACCATCCCTTTTCATATTTGATGGGTCATC
* **
53921618 ACCTTCCCTTTTCATATTTGAT-GGTCAAA
1 ACCATCCCTTTTCATATTTGATGGGTCATC
** * * *
53921647 ACCATCTATTTGCAGATTTGAT-GGTCGTC
1 ACCATCCCTTTTCATATTTGATGGGTCATC
* * *
53921676 ACTATCCATTTTCATATTTGAT-GGTCGA-A
1 ACCATCCCTTTTCATATTTGATGGGTC-ATC
*
53921705 ACCATCCATTTTCATATTTGAT
1 ACCATCCCTTTTCATATTTGAT
53921727 CGGCATCGAT
Statistics
Matches: 143, Mismatches: 22, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
28 3 0.02
29 140 0.98
ACGTcount: A:0.23, C:0.23, G:0.13, T:0.40
Consensus pattern (30 bp):
ACCATCCCTTTTCATATTTGATGGGTCATC
Found at i:53921605 original size:58 final size:58
Alignment explanation
Indices: 53921529--53921726 Score: 218
Period size: 58 Copynumber: 3.4 Consensus size: 58
53921519 ACTGTGATCG
* *
53921529 AAACCATCCCTTTTCATATTCGATGGGT-GTCACCATCCCTTTTCATATTTGATGGTCA
1 AAACCATCCCTTTACATATTTGAT-GGTCGTCACCATCCCTTTTCATATTTGATGGTCA
** * *** *
53921587 TCACCTTCCCTTTACATATTTGATGGTCAAAACCTTCCCTTTTCATATTTGATGGTCA
1 AAACCATCCCTTTACATATTTGATGGTCGTCACCATCCCTTTTCATATTTGATGGTCA
** * * * * *
53921645 AAACCATCTATTTGCAGATTTGATGGTCGTCACTATCCATTTTCATATTTGATGGTCG
1 AAACCATCCCTTTACATATTTGATGGTCGTCACCATCCCTTTTCATATTTGATGGTCA
* *
53921703 AAACCATCCATTTTCATATTTGAT
1 AAACCATCCCTTTACATATTTGAT
53921727 CGGCATCGAT
Statistics
Matches: 113, Mismatches: 26, Indels: 2
0.80 0.18 0.01
Matches are distributed among these distances:
57 3 0.03
58 110 0.97
ACGTcount: A:0.24, C:0.23, G:0.13, T:0.40
Consensus pattern (58 bp):
AAACCATCCCTTTACATATTTGATGGTCGTCACCATCCCTTTTCATATTTGATGGTCA
Found at i:53926391 original size:37 final size:37
Alignment explanation
Indices: 53926341--53926418 Score: 156
Period size: 37 Copynumber: 2.1 Consensus size: 37
53926331 TATAAAAGAA
53926341 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
53926378 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
53926415 GTCT
1 GTCT
53926419 CGCCCGGAAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.21, C:0.32, G:0.19, T:0.28
Consensus pattern (37 bp):
GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
Found at i:53926584 original size:49 final size:49
Alignment explanation
Indices: 53926529--53926741 Score: 399
Period size: 49 Copynumber: 4.3 Consensus size: 49
53926519 TTACATTGGT
*
53926529 CATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCGGC
1 CATTAGGCCTCATCACATATACATACACTTTCACGTTCACCACATCGGC
53926578 CATTAGGCCTCATCACATATACATACACTTTCACGTTCACCACATCGGC
1 CATTAGGCCTCATCACATATACATACACTTTCACGTTCACCACATCGGC
* *
53926627 CATTAGGCCTCATCACATATACATACACTTTCACGTTCATCACATCGGT
1 CATTAGGCCTCATCACATATACATACACTTTCACGTTCACCACATCGGC
53926676 CATTAGGCCTCATCACATATACATACACTTTCACGTTCACCACATCGGC
1 CATTAGGCCTCATCACATATACATACACTTTCACGTTCACCACATCGGC
53926725 CATTAGGCCTCATCACA
1 CATTAGGCCTCATCACA
53926742 CATATATGTA
Statistics
Matches: 159, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 159 1.00
ACGTcount: A:0.29, C:0.34, G:0.10, T:0.27
Consensus pattern (49 bp):
CATTAGGCCTCATCACATATACATACACTTTCACGTTCACCACATCGGC
Found at i:53929888 original size:46 final size:46
Alignment explanation
Indices: 53929838--53930013 Score: 182
Period size: 46 Copynumber: 3.8 Consensus size: 46
53929828 TGTTTGGGCA
* *
53929838 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
53929884 TCCGAACTCGTTGAGTTGAGTCCGAGTT---TGA-GAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCAA--A--CG
* * *
53929931 TCCGAGCTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
*
53929977 -CCCAAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
53930014 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 14, Indels: 20
0.76 0.10 0.14
Matches are distributed among these distances:
42 1 0.01
43 8 0.08
45 4 0.04
46 58 0.55
47 26 0.25
48 1 0.01
50 7 0.07
51 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:53929993 original size:93 final size:93
Alignment explanation
Indices: 53929834--53930004 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
53929824 AGGATGTTTG
* * * *
53929834 GGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCCAACTCGTTGAG
53929899 TTGAGTCCGAGTTTGAGAGATGTAACTA
66 TTGAGTCCGAGTTTGAGAGATGTAACTA
* *
53929927 GGCATCCGAGCTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCCAAGCTCGTTGA
1 GGCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCCAA-CTCGTTGA
53929991 GTTGAGTCCGAGTT
65 GTTGAGTCCGAGTT
53930005 CACTTATGGG
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 4 0.06
93 67 0.94
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCCAACTCGTTGAG
TTGAGTCCGAGTTTGAGAGATGTAACTA
Found at i:53932968 original size:15 final size:15
Alignment explanation
Indices: 53932948--53933009 Score: 65
Period size: 15 Copynumber: 4.2 Consensus size: 15
53932938 TCTTGGGTTT
53932948 CTTTATTCTGGATTC
1 CTTTATTCTGGATTC
*
53932963 CTTTATTCTGGATTT
1 CTTTATTCTGGATTC
* *
53932978 CTCTA-TCTTGGATTT
1 CTTTATTC-TGGATTC
*
53932993 CTTTATTC-GGTTTC
1 CTTTATTCTGGATTC
53933007 CTT
1 CTT
53933010 GTTATCTTTA
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
14 9 0.22
15 29 0.73
16 2 0.05
ACGTcount: A:0.11, C:0.19, G:0.13, T:0.56
Consensus pattern (15 bp):
CTTTATTCTGGATTC
Found at i:53946419 original size:47 final size:47
Alignment explanation
Indices: 53946347--53946553 Score: 270
Period size: 49 Copynumber: 4.3 Consensus size: 47
53946337 CCCTTCGGGA
* * * * * * *
53946347 CTTATCACATTTATACACTTCCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
53946394 CCTATCACATGTATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
53946441 CTTATCACATATATACACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATAT--ACACTTTCACATTCATCACATCGGCCATTAGGC
53946490 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATAT--ACACTTTCACATTCATCACATCGGCCATTAGGC
53946539 CTTATCACATATATA
1 CTTATCACATATATA
53946554 TATCTCATAC
Statistics
Matches: 146, Mismatches: 12, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
47 54 0.37
49 92 0.63
ACGTcount: A:0.29, C:0.32, G:0.09, T:0.31
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:53952477 original size:29 final size:29
Alignment explanation
Indices: 53952427--53952554 Score: 132
Period size: 29 Copynumber: 4.4 Consensus size: 29
53952417 CCCTTAAATA
* * *
53952427 ATGAAAGGGGATAGCTTCAGCTATCGAAT
1 ATGAAAAGGGATAACTTTAGCTATCGAAT
* * *
53952456 TTGGAAAGGGATAACTTTAGCTATTGAAT
1 ATGAAAAGGGATAACTTTAGCTATCGAAT
* * * *
53952485 ATGAAAAGGAATACCTTTGGTTATCGAAT
1 ATGAAAAGGGATAACTTTAGCTATCGAAT
* *
53952514 ATGAAAAGGGAT-AGTTTCAGCTATCGATT
1 ATGAAAAGGGATAACTTT-AGCTATCGAAT
53952543 ATGAAAAGGGAT
1 ATGAAAAGGGAT
53952555 GGTGACGACC
Statistics
Matches: 79, Mismatches: 19, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
28 3 0.04
29 76 0.96
ACGTcount: A:0.37, C:0.09, G:0.25, T:0.29
Consensus pattern (29 bp):
ATGAAAAGGGATAACTTTAGCTATCGAAT
Found at i:53952574 original size:29 final size:29
Alignment explanation
Indices: 53952507--53952613 Score: 119
Period size: 29 Copynumber: 3.7 Consensus size: 29
53952497 ACCTTTGGTT
* ** *
53952507 ATCGAATATGAAAAGGGATAGTTTC-AGCT
1 ATCGAATATGAAAAGGGATGGTGACGA-CC
*
53952536 ATCGATTATGAAAAGGGATGGTGACGACC
1 ATCGAATATGAAAAGGGATGGTGACGACC
53952565 ATC-AACTATGAAAAGGGATGGTGACGACC
1 ATCGAA-TATGAAAAGGGATGGTGACGACC
* *
53952594 ATCGAATACGAAAATGGATG
1 ATCGAATATGAAAAGGGATG
53952614 CTTTCGACCG
Statistics
Matches: 67, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
28 1 0.01
29 63 0.94
30 3 0.04
ACGTcount: A:0.38, C:0.13, G:0.27, T:0.21
Consensus pattern (29 bp):
ATCGAATATGAAAAGGGATGGTGACGACC
Found at i:53958378 original size:16 final size:16
Alignment explanation
Indices: 53958322--53958381 Score: 61
Period size: 16 Copynumber: 3.8 Consensus size: 16
53958312 ATTTTAATAA
53958322 AATTTAATATTA-ATTT
1 AATTTAATATTATA-TT
*
53958338 AATCTAATATTTATATT
1 AATTTAATA-TTATATT
* *
53958355 GA-TAAATATTATATT
1 AATTTAATATTATATT
53958370 AATTTAATATTA
1 AATTTAATATTA
53958382 AAGTGGTTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
15 8 0.23
16 20 0.57
17 6 0.17
18 1 0.03
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (16 bp):
AATTTAATATTATATT
Found at i:53960592 original size:21 final size:22
Alignment explanation
Indices: 53960568--53960624 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
53960558 TAACAAAAAA
53960568 AATA-TTAATTCTAATT-ATTTT
1 AATATTTAATT-TAATTAATTTT
*
53960589 AATATTTTATTTAATTAATTTT
1 AATATTTAATTTAATTAATTTT
53960611 AAT-TTT--TTTAATTA
1 AATATTTAATTTAATTA
53960625 TCTAACTCAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
19 8 0.24
21 12 0.36
22 13 0.39
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (22 bp):
AATATTTAATTTAATTAATTTT
Found at i:53969120 original size:28 final size:28
Alignment explanation
Indices: 53969080--53969178 Score: 101
Period size: 28 Copynumber: 3.5 Consensus size: 28
53969070 GTAATAAGCC
*
53969080 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
53969108 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* ** * * *
53969136 TGCACACTTAGTGCTATACCATTTGAACC
1 CGCACACTTAGTGCT-TAATAATCGAACT
53969165 CGCACACTTAGTGC
1 CGCACACTTAGTGC
53969179 CAATTTGTGA
Statistics
Matches: 58, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
27 2 0.03
28 36 0.62
29 18 0.31
30 2 0.03
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:53976770 original size:28 final size:28
Alignment explanation
Indices: 53976730--53976828 Score: 101
Period size: 28 Copynumber: 3.5 Consensus size: 28
53976720 GTAATAAGCC
*
53976730 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
53976758 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* ** * * *
53976786 TGCACACTTAGTGCTATACCATTTGAACC
1 CGCACACTTAGTGCT-TAATAATCGAACT
53976815 CGCACACTTAGTGC
1 CGCACACTTAGTGC
53976829 CAATTTGTGA
Statistics
Matches: 58, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
27 2 0.03
28 36 0.62
29 18 0.31
30 2 0.03
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:53976852 original size:29 final size:29
Alignment explanation
Indices: 53976820--53976877 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
53976810 GAACCCGCAC
53976820 ACTTAGTGCCAATTTGTGATCATAAATGT
1 ACTTAGTGCCAATTTGTGATCATAAATGT
53976849 ACTTAGTGCCAATTTGTGATCATAAATGT
1 ACTTAGTGCCAATTTGTGATCATAAATGT
53976878 TTAGACCCGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.38
Consensus pattern (29 bp):
ACTTAGTGCCAATTTGTGATCATAAATGT
Found at i:53981739 original size:37 final size:37
Alignment explanation
Indices: 53981687--53981814 Score: 220
Period size: 37 Copynumber: 3.4 Consensus size: 37
53981677 TTATTACGAA
* *
53981687 GTCTTACCCGAACATAATCTCCACATGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
53981724 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
53981761 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
53981798 GTCTCACCCGGAACATA
1 GTCTTACCCGG-ACATA
53981815 TTTCCAAGTT
Statistics
Matches: 87, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
37 82 0.94
38 5 0.06
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:53981909 original size:48 final size:48
Alignment explanation
Indices: 53981854--53982005 Score: 232
Period size: 48 Copynumber: 3.2 Consensus size: 48
53981844 TATTACAACA
*
53981854 TTCACATTAGCCATTCGGCTTTATCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* ** * *
53981902 TTCACATTAGCCATTCGGCTTTACCACATACACATATCTTATATATGT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
53981950 TTCACATTAGCCCTTCGGCTTTACCACATATACACATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
53981998 TTCACATT
1 TTCACATT
53982006 CATCACATCG
Statistics
Matches: 91, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 91 1.00
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.36
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
Found at i:53982050 original size:49 final size:49
Alignment explanation
Indices: 53981997--53982185 Score: 355
Period size: 49 Copynumber: 3.9 Consensus size: 49
53981987 CACACATATA
53981997 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
53982046 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
53982095 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACAC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
*
53982142 TTTCACATTCATCACATCGGCCATTAGGCCATATCACATATATA
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
53982186 CATACATGTT
Statistics
Matches: 137, Mismatches: 1, Indels: 4
0.96 0.01 0.03
Matches are distributed among these distances:
47 46 0.34
49 91 0.66
ACGTcount: A:0.31, C:0.29, G:0.08, T:0.32
Consensus pattern (49 bp):
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
Found at i:53982191 original size:98 final size:97
Alignment explanation
Indices: 53981997--53982185 Score: 353
Period size: 96 Copynumber: 1.9 Consensus size: 97
53981987 CACACATATA
53981997 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATATACACTTTCACATTCATCACA
*
53982062 TCGGCCATTAGGCCTTATCACATATATATACAC
65 TCGGCCATTAGGCCATATCACATATATATACAC
53982095 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC-ATATATACACTTTCACATTCATCACAT
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACACTTTCACATTCATCACAT
53982159 CGGCCATTAGGCCATATCACATATATA
66 CGGCCATTAGGCCATATCACATATATA
53982186 CATACATGTT
Statistics
Matches: 90, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
96 53 0.59
98 37 0.41
ACGTcount: A:0.31, C:0.29, G:0.08, T:0.32
Consensus pattern (97 bp):
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACACTTTCACATTCATCACAT
CGGCCATTAGGCCATATCACATATATATACAC
Found at i:53983991 original size:39 final size:39
Alignment explanation
Indices: 53983947--53984103 Score: 237
Period size: 39 Copynumber: 4.0 Consensus size: 39
53983937 GATGTGTATG
53983947 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
1 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
53983986 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
1 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
* *
53984025 AATGTGCGAGA-TATGATATCCGGGCTAAGCCCGAAGGCG
1 AATGTGCGA-ATTGTGATATCCGGGCTAAGCCCGAAGGCA
* *
53984064 ATTGTGC-AAGTTGTGATATCCGGGTTAAGTCCCGAAGGCA
1 AATGTGCGAA-TTGTGATATCCGGGCTAAG-CCCGAAGGCA
53984104 TTTGTGCGGG
Statistics
Matches: 108, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
37 1 0.01
38 1 0.01
39 96 0.89
40 10 0.09
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.22
Consensus pattern (39 bp):
AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
Found at i:53984127 original size:40 final size:39
Alignment explanation
Indices: 53983949--53984147 Score: 202
Period size: 39 Copynumber: 5.1 Consensus size: 39
53983939 TGTGTATGAA
* * **
53983949 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAA
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCATT
* * **
53983988 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAA
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCATT
*
53984027 TGTGCGAGATATGATATCCGGGCTAAGCCCGAAGGCGA-T
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGC-ATT
* * *
53984066 TGTGCAAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCATT
* * * * * *
53984106 TGTGCGGGTTATCATAACCGGGTTATGTCCCGAAGGCGTT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCATT
53984146 TG
1 TG
53984148 AACGAGTAGC
Statistics
Matches: 142, Mismatches: 15, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
39 96 0.68
40 46 0.32
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.25
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCATT
Found at i:53988160 original size:46 final size:46
Alignment explanation
Indices: 53988110--53988285 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
53988100 TGGTTGAGCA
53988110 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
53988156 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
53988201 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
53988249 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
53988286 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:53988266 original size:93 final size:93
Alignment explanation
Indices: 53988107--53988278 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
53988097 GGATGGTTGA
* *
53988107 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
53988172 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
53988200 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
53988265 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
53988279 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:53991627 original size:40 final size:39
Alignment explanation
Indices: 53991462--53991645 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
53991452 AAATTGAATG
* * *
53991462 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
53991502 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
53991542 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
53991582 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
53991621 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
53991646 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:53991670 original size:80 final size:81
Alignment explanation
Indices: 53991502--53991690 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
53991492 GCTGGAAATT
* * * *
53991502 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
53991567 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
53991583 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
53991646 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
53991662 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
53991691 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:53996958 original size:46 final size:46
Alignment explanation
Indices: 53996908--53997083 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
53996898 TGGTTGAGCA
53996908 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
53996954 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
53996999 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
53997047 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
53997084 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:53997064 original size:93 final size:93
Alignment explanation
Indices: 53996905--53997076 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
53996895 GGATGGTTGA
* *
53996905 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
53996970 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
53996998 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
53997063 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
53997077 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:54000163 original size:40 final size:40
Alignment explanation
Indices: 54000114--54000200 Score: 111
Period size: 40 Copynumber: 2.2 Consensus size: 40
54000104 CGGGATTTAA
* * *
54000114 CCGGATATAGCGACTCGCTCGATTGTCTTCGGGACATAGC
1 CCGGATATAGCGACTCGCACAATTGCCTTCGGGACATAGC
* * * *
54000154 CCGGTTATAGTGATTCGCACAATTGCCTTCGGGACTTAGC
1 CCGGATATAGCGACTCGCACAATTGCCTTCGGGACATAGC
54000194 CCGGATA
1 CCGGATA
54000201 CCATTCGAAT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.21, C:0.26, G:0.26, T:0.26
Consensus pattern (40 bp):
CCGGATATAGCGACTCGCACAATTGCCTTCGGGACATAGC
Found at i:54000753 original size:25 final size:25
Alignment explanation
Indices: 54000716--54000767 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
54000706 AAGGGATTTA
*
54000716 CACACGCACAGTGC-CTCTAATCATT
1 CACACACACAGTGCTCT-TAATCATT
* *
54000741 CACACACATAGTGCTCTTATTCATT
1 CACACACACAGTGCTCTTAATCATT
54000766 CA
1 CA
54000768 TTATTACACA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 21 0.91
26 2 0.09
ACGTcount: A:0.29, C:0.33, G:0.10, T:0.29
Consensus pattern (25 bp):
CACACACACAGTGCTCTTAATCATT
Found at i:54000987 original size:40 final size:40
Alignment explanation
Indices: 54000943--54001214 Score: 481
Period size: 40 Copynumber: 6.8 Consensus size: 40
54000933 CCAACATGAT
* * *
54000943 TGCTCTTCGGGACCTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
54000983 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
54001023 TGCTCTTCGGAACTTAGTCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
54001063 TGCTCTTCAGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
54001103 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
54001143 TGCTCTTCGGAACTTAGTCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
54001183 TGCTCTTCGGAACTTAGTCCGGATATATCACT
1 TGCTCTTCGGAACTTAGTCCGGATACATCACT
54001215 CTCAATTCTC
Statistics
Matches: 224, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 224 1.00
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:54003126 original size:39 final size:40
Alignment explanation
Indices: 54003014--54003143 Score: 167
Period size: 40 Copynumber: 3.3 Consensus size: 40
54003004 GACTAGCTCA
* *
54003014 AATGCCTTCGGGAC-AAACCC-CAGTTATAGTAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-TT-TAGTAACTCGCACG
* *
54003054 AATGCCTTCGGGACTTAACCCGGGTTTAGTAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
*
54003094 AATGCCTTCGGG-CTTAACCCGGATTTATTAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
*
54003133 AACGCCTTCGG
1 AATGCCTTCGG
54003144 ATCTTAGTCC
Statistics
Matches: 80, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 34 0.43
40 39 0.49
41 7 0.09
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
Found at i:54006336 original size:37 final size:37
Alignment explanation
Indices: 54006284--54006411 Score: 220
Period size: 37 Copynumber: 3.4 Consensus size: 37
54006274 TTATTACGAA
* *
54006284 GTCTTACCCGAACATAATCTCCACATGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
54006321 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
54006358 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
54006395 GTCTCACCCGGAACATA
1 GTCTTACCCGG-ACATA
54006412 TTTCCAAGTT
Statistics
Matches: 87, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
37 82 0.94
38 5 0.06
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:54006506 original size:48 final size:48
Alignment explanation
Indices: 54006451--54006602 Score: 241
Period size: 48 Copynumber: 3.2 Consensus size: 48
54006441 TATTACAACA
54006451 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* ** * *
54006499 TTCACATTAGCCATTCGGCTTTACCACATACACATATCTTATATATGT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
54006547 TTCACATTAGCCCTTCGGCTTTACCACATATACACATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
54006595 TTCACATT
1 TTCACATT
54006603 CATCACATCG
Statistics
Matches: 92, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 92 1.00
ACGTcount: A:0.31, C:0.28, G:0.07, T:0.35
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
Found at i:54006638 original size:96 final size:97
Alignment explanation
Indices: 54006435--54006733 Score: 271
Period size: 96 Copynumber: 3.1 Consensus size: 97
54006425 TGTACATTTA
* * * *
54006435 ATCACATAT-TACA-ACATTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATA
1 ATCACATATATATACACTTTCACATTAGCCCTTCGGCTTTACCACATATACACATCACACATATA
* * *
54006498 TTTCACATT-AGC-CATTCGG-CTTTA--CCAC
66 TTTCACATTCATCACA-TCGGCCATTAGGCCAT
* * *
54006526 ATACACATATCTTATATATGTTTCACATTAGCCCTTCGGCTTTACCACATATACACATCACACAT
1 AT-CACATAT-ATATACA-CTTTCACATTAGCCCTTCGGCTTTACCACATATACACATCACACAT
*
54006591 ATATTTCACATTCATCACATCGGCCATTAGGCCTT
63 ATATTTCACATTCATCACATCGGCCATTAGGCCAT
* * * * * * *
54006626 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC-CTTAT-CACAT---ATAT
1 ATCACATATATATACACTTTCACATT-AGCCCTTCGG-CTTTA-CCACATATACACATCACACAT
*
54006686 ACACTTTCACATTCATCACATCGGCCATTAGGCCAT
63 ATA-TTTCACATTCATCACATCGGCCATTAGGCCAT
54006722 ATCACATATATA
1 ATCACATATATA
54006734 CATACATGTT
Statistics
Matches: 173, Mismatches: 21, Indels: 23
0.80 0.10 0.11
Matches are distributed among these distances:
91 2 0.01
92 7 0.04
94 3 0.02
95 6 0.03
96 97 0.56
97 15 0.09
98 23 0.13
99 15 0.09
100 5 0.03
ACGTcount: A:0.32, C:0.28, G:0.07, T:0.32
Consensus pattern (97 bp):
ATCACATATATATACACTTTCACATTAGCCCTTCGGCTTTACCACATATACACATCACACATATA
TTTCACATTCATCACATCGGCCATTAGGCCAT
Found at i:54006702 original size:47 final size:47
Alignment explanation
Indices: 54006594--54006735 Score: 257
Period size: 47 Copynumber: 3.0 Consensus size: 47
54006584 CACACATATA
54006594 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACAC
54006643 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
54006690 TTTCACATTCATCACATCGGCCATTAGGCCATATCACATATATACA
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
54006736 TACATGTTTC
Statistics
Matches: 92, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
47 55 0.60
49 37 0.40
ACGTcount: A:0.31, C:0.29, G:0.08, T:0.32
Consensus pattern (47 bp):
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
Found at i:54012387 original size:40 final size:40
Alignment explanation
Indices: 54012343--54012574 Score: 376
Period size: 40 Copynumber: 5.8 Consensus size: 40
54012333 GGATATAGCT
* * *
54012343 ACTCGCTCAAATGCCTTCGGGACATAGCCCGG-TTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TGGTA
*
54012383 ACTCGCACCAATGCCTTCGGGACTTAGCCCGGATTTGGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTGGTA
* * * *
54012423 ACTCGCTCAAATGCCTTCGGGACTTAGCCTGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTGGTA
54012463 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTGGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTGGTA
54012503 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTGGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTGGTA
54012543 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
54012575 TTATCATCCG
Statistics
Matches: 178, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
40 176 0.99
41 2 0.01
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTGGTA
Found at i:54015820 original size:40 final size:40
Alignment explanation
Indices: 54015689--54015816 Score: 195
Period size: 40 Copynumber: 3.2 Consensus size: 40
54015679 GGACTAGGAT
54015689 CCGAAGGCATTTATGCGAGTTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTATGCGAGTTACTAAATCCGGGTTAAGTC
54015729 CCGAAGGCATTTATGCGAGTTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTATGCGAGTTACTAAATCCGGGTTAAGTC
* * * * *
54015769 CCGAAGGCGTTTATGCGAGTTGCTATAA-CCAGGCTATGTC
1 CCGAAGGCATTTATGCGAGTTACTA-AATCCGGGTTAAGTC
54015809 CCGAAGGC
1 CCGAAGGC
54015817 GTTTGAACGA
Statistics
Matches: 82, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
40 80 0.98
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTTATGCGAGTTACTAAATCCGGGTTAAGTC
Found at i:54015828 original size:80 final size:79
Alignment explanation
Indices: 54015689--54015854 Score: 185
Period size: 80 Copynumber: 2.1 Consensus size: 79
54015679 GGACTAGGAT
* * *
54015689 CCGAAGGCATTTATGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTATGCGAGTTA-CT
1 CCGAAGGCATTTATGCGAGTTACTAAATCCAGGCTAAGTCCCGAAGGCATTTATACGAG-TAGCT
*
54015753 AAATCCGGGTTAAGTC
65 AAATCC-GGTTAAATC
* * * *
54015769 CCGAAGGCGTTTATGCGAGTTGCTATAA-CCAGGCTATGTCCCGAAGGCGTTTGA-ACGAGTAGC
1 CCGAAGGCATTTATGCGAGTTACTA-AATCCAGGCTAAGTCCCGAAGGCATTT-ATACGAGTAGC
* *
54015832 TATATCCGGTTAAATT
64 TAAATCCGGTTAAATC
54015848 CCGAAGG
1 CCGAAGG
54015855 TACGTGATTC
Statistics
Matches: 73, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
79 16 0.22
80 54 0.74
81 3 0.04
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTATGCGAGTTACTAAATCCAGGCTAAGTCCCGAAGGCATTTATACGAGTAGCTA
AATCCGGTTAAATC
Found at i:54023844 original size:41 final size:40
Alignment explanation
Indices: 54023721--54023902 Score: 208
Period size: 40 Copynumber: 4.5 Consensus size: 40
54023711 TCAAATGATG
* * * *
54023721 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTATGC-GAGTTACTAAA
* *
54023761 TCCGGACTAGGAT-CCGAAGGCATTTATGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTATGCGAGTTACTAAA
* *
54023801 TCCGGGTTAAGTCCCGAAGGCATTATGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATT-TATGCGAGTTACTAAA
* *
54023842 TCCGGGTTAAGTCCCGAAGGCATTTATGCGAGTTGCTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTATGCGAGTTACTA-AA
*
54023883 -CCGGGCTATGTCCCGAAGGC
1 TCCGGGCTAAGTCCCGAAGGC
54023903 GTTTGAACGA
Statistics
Matches: 123, Mismatches: 14, Indels: 10
0.84 0.10 0.07
Matches are distributed among these distances:
39 1 0.01
40 74 0.60
41 48 0.39
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTATGCGAGTTACTAAA
Found at i:54023868 original size:81 final size:81
Alignment explanation
Indices: 54023721--54023907 Score: 229
Period size: 81 Copynumber: 2.3 Consensus size: 81
54023711 TCAAATGATG
* *
54023721 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
54023786 ATGCGAGTTACTA-AA
66 ATGCGAGTTACTATAA
* * * **
54023801 TCCGGGTTAAGTCCCGAAGGCATTATGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGC-TT-TGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCA
*
54023864 TTTATGCGAGTTGCTATAA
63 TTTATGCGAGTTACTATAA
*
54023883 -CCGGGCTATGTCCCGAAGGCGTTTG
1 TCCGGGCTAAGTCCCGAAGGC-TTTG
54023908 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
80 23 0.25
81 62 0.67
82 7 0.08
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
ATGCGAGTTACTATAA
Found at i:54023914 original size:40 final size:40
Alignment explanation
Indices: 54023721--54023930 Score: 173
Period size: 40 Copynumber: 5.2 Consensus size: 40
54023711 TCAAATGATG
* * * * *
54023721 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGAGC-GAGTTACTAAA
** *
54023761 TCCGGACTAGGAT-CCGAAGGCATTT-ATGCGAGTTACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGA-GCGAGTTACTAAA
*
54023801 TCCGGGTTAAGTCCCGAAGGCATTATGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-TGAGCGAGTTACTAAA
*
54023842 TCCGGGTTAAGTCCCGAAGGCATTT-ATGCGAGTTGCTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGA-GCGAGTTACTA-AA
* * * * *
54023883 -CCGGGCTATGTCCCGAAGGCGTTTGAACGAG-TAGCTATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGAGCGAGTTA-CTAAA
54023922 TCC-GGTTAA
1 TCCGGGTTAA
54023931 ATTCGAAGGT
Statistics
Matches: 139, Mismatches: 20, Indels: 23
0.76 0.11 0.13
Matches are distributed among these distances:
39 7 0.05
40 85 0.61
41 47 0.34
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGAGCGAGTTACTAAA
Found at i:54027532 original size:39 final size:39
Alignment explanation
Indices: 54027459--54027599 Score: 142
Period size: 39 Copynumber: 3.6 Consensus size: 39
54027449 CTACTCATTC
* * *
54027459 AAAGCCTTCGGGACATAGGCCGG-TTATAGCAACTCGCAT
1 AAAGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCAT
*
54027498 AAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAT
1 AAAGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAT
* * * * * *
54027537 AAATGCCTTC-GGATCCTAGTCCGGATATAGTCACTTAGCAC
1 AAA-GCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCAT
54027578 AAAGCCTTCGGGACTTAGCCCG
1 AAAGCCTTCGGGACTTAGCCCG
54027600 ACATCATTTG
Statistics
Matches: 84, Mismatches: 13, Indels: 9
0.79 0.12 0.08
Matches are distributed among these distances:
39 38 0.45
40 36 0.43
41 10 0.12
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (39 bp):
AAAGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAT
Found at i:54035547 original size:40 final size:40
Alignment explanation
Indices: 54035446--54035629 Score: 180
Period size: 40 Copynumber: 4.7 Consensus size: 40
54035436 GCTACTCGTT
* * * *
54035446 CAAACGCCTTCGGGACAT-AGCCGG-TTATAGCAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
*
54035485 CAAACGCCTT-GGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
54035524 TAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * ** * * *
54035564 TAAATGCCTTC-GGATCCTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
54035605 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
54035630 CATCATTTGA
Statistics
Matches: 125, Mismatches: 14, Indels: 11
0.83 0.09 0.07
Matches are distributed among these distances:
38 6 0.05
39 37 0.30
40 72 0.58
41 10 0.08
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:54043518 original size:40 final size:40
Alignment explanation
Indices: 54043472--54043660 Score: 240
Period size: 40 Copynumber: 4.7 Consensus size: 40
54043462 GCTACTCACT
*
54043472 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
54043512 CCAATGCCTTCGGGACTTAGCCTGGATT-TGGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
** * *
54043552 CAAATGCCTTTAGGACTTAGCCCGG-AATTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* *
54043592 CAAATGCCTTCGGGACTTAGCCCAGATT-TGGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCC-GGTTATAGTAACTCGCA
54043632 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
54043661 CATCCGAATA
Statistics
Matches: 125, Mismatches: 18, Indels: 12
0.81 0.12 0.08
Matches are distributed among these distances:
39 3 0.02
40 119 0.95
41 3 0.02
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:54043605 original size:80 final size:80
Alignment explanation
Indices: 54043472--54043656 Score: 282
Period size: 80 Copynumber: 2.3 Consensus size: 80
54043462 GCTACTCACT
* * * * **
54043472 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACCAATGCCTTCGGGACTTAGCCTGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATGCCTTCGGGACTTAGCCCAG
54043537 ATTTGGTAACTCGCA
66 ATTTGGTAACTCGCA
**
54043552 CAAATGCCTTTAGGACTTAGCCCGGA-ATTAGTAACTCACACAAATGCCTTCGGGACTTAGCCCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCACACAAATGCCTTCGGGACTTAGCCCA
54043616 GATTTGGTAACTCGCA
65 GATTTGGTAACTCGCA
54043632 CAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
54043657 TTATCATCCG
Statistics
Matches: 94, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
79 1 0.01
80 93 0.99
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATGCCTTCGGGACTTAGCCCAG
ATTTGGTAACTCGCA
Found at i:54058722 original size:29 final size:29
Alignment explanation
Indices: 54058690--54058824 Score: 155
Period size: 29 Copynumber: 4.7 Consensus size: 29
54058680 ATACCCTCCG
** * *
54058690 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
* * * *
54058719 AGCTTGCACACATAGTGTCATATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
54058748 AGCAT-GCACACTTAGTGCCTTATATTTCC
1 AGC-TCGCACACTTAGTGCCATATATTTCC
*
54058777 AGCACGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
54058806 AGCACGCACACTTAGTGCC
1 AGCTCGCACACTTAGTGCC
54058825 GATCTCGTCA
Statistics
Matches: 93, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
29 92 0.99
30 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.16, T:0.30
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCATATATTTCC
Found at i:54058757 original size:58 final size:58
Alignment explanation
Indices: 54058636--54058825 Score: 179
Period size: 58 Copynumber: 3.3 Consensus size: 58
54058626 TACTCGATTT
* * * *** *
54058636 CGCACACTTAGTGCCACGTA-ATTT-AAGCCCGCACACACAGTGCCATA-CCCTCCGAGCT
1 CGCACACTTAGTG-C-CGTATATTTCCAGCACGCACACATAGTGCCATATATTTCC-AGCA
** * ** * *
54058694 CGCACACCCAGTGCCGTATTTTTCCAGCTTGCACACATAGTGTCATATTTTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
* * *
54058752 TGCACACTTAGTGCCTTATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
54058810 CGCACACTTAGTGCCG
1 CGCACACTTAGTGCCG
54058826 ATCTCGTCAC
Statistics
Matches: 105, Mismatches: 24, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
56 4 0.04
57 4 0.04
58 94 0.90
59 3 0.03
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.26
Consensus pattern (58 bp):
CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
Found at i:54066706 original size:29 final size:29
Alignment explanation
Indices: 54066674--54066808 Score: 155
Period size: 29 Copynumber: 4.7 Consensus size: 29
54066664 ATACCCTCCG
** * *
54066674 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
* * * *
54066703 AGCTTGCACACATAGTGTCATATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
54066732 AGCAT-GCACACTTAGTGCCTTATATTTCC
1 AGC-TCGCACACTTAGTGCCATATATTTCC
*
54066761 AGCACGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
54066790 AGCACGCACACTTAGTGCC
1 AGCTCGCACACTTAGTGCC
54066809 GATCTCGTCA
Statistics
Matches: 93, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
29 92 0.99
30 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.16, T:0.30
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCATATATTTCC
Found at i:54066741 original size:58 final size:58
Alignment explanation
Indices: 54066620--54066809 Score: 179
Period size: 58 Copynumber: 3.3 Consensus size: 58
54066610 TACTCGATTT
* * * *** *
54066620 CGCACACTTAGTGCCACGTA-ATTT-AAGCCCGCACACACAGTGCCATA-CCCTCCGAGCT
1 CGCACACTTAGTG-C-CGTATATTTCCAGCACGCACACATAGTGCCATATATTTCC-AGCA
** * ** * *
54066678 CGCACACCCAGTGCCGTATTTTTCCAGCTTGCACACATAGTGTCATATTTTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
* * *
54066736 TGCACACTTAGTGCCTTATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
54066794 CGCACACTTAGTGCCG
1 CGCACACTTAGTGCCG
54066810 ATCTCGTCAC
Statistics
Matches: 105, Mismatches: 24, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
56 4 0.04
57 4 0.04
58 94 0.90
59 3 0.03
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.26
Consensus pattern (58 bp):
CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
Found at i:54074213 original size:25 final size:25
Alignment explanation
Indices: 54074185--54074259 Score: 105
Period size: 25 Copynumber: 3.0 Consensus size: 25
54074175 CGACCACTCG
54074185 TGAGAGCATACTGATTTATAGCTCA
1 TGAGAGCATACTGATTTATAGCTCA
* * *
54074210 TGAGAGCATACCGACTTATAGCTCG
1 TGAGAGCATACTGATTTATAGCTCA
* *
54074235 TGAGAGCATACTGATCTACAGCTCA
1 TGAGAGCATACTGATTTATAGCTCA
54074260 ATTGAGCATA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (25 bp):
TGAGAGCATACTGATTTATAGCTCA
Found at i:54078946 original size:27 final size:28
Alignment explanation
Indices: 54078866--54078934 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
54078856 GCGTAGATCA
*
54078866 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGTAAAATTAC
54078894 CGAAATTACCCCTAAAGAGTAAAATTAC
1 CGAAATTACCCCTAAAGAGTAAAATTAC
54078922 CGAAA-TACCCCTA
1 CGAAATTACCCCTA
54078935 GAGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.45, C:0.26, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGTAAAATTAC
Found at i:54083132 original size:28 final size:28
Alignment explanation
Indices: 54083100--54083168 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
54083090 GCGTAGATCA
54083100 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
54083128 CGAAATTACCCCTAAAGAGTAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
54083156 CGATA-TACCCCTA
1 CGAAATTACCCCTA
54083169 GGTTTAAATT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 8 0.21
28 31 0.79
ACGTcount: A:0.43, C:0.26, G:0.10, T:0.20
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:54087503 original size:40 final size:40
Alignment explanation
Indices: 54087474--54087665 Score: 224
Period size: 40 Copynumber: 4.8 Consensus size: 40
54087464 ATAAGCATGT
*
54087474 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAATGACTC
* *
54087514 GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAATGACTC
* *** *
54087554 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAATGACTC
* * **
54087594 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-C
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAATGACTC
* * * *
54087633 AGCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 -GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
54087666 CATTCAATTT
Statistics
Matches: 133, Mismatches: 18, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
40 133 1.00
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAATGACTC
Found at i:54096518 original size:28 final size:29
Alignment explanation
Indices: 54096486--54096584 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 29
54096476 ATAATAAGCC
*
54096486 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* *
54096514 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* * *
54096542 CGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
54096571 CGCACACTTAGTGC
1 CGCACACTTAGTGC
54096585 CAATCTCATG
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
27 2 0.03
28 37 0.61
29 19 0.31
30 3 0.05
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:54099521 original size:49 final size:49
Alignment explanation
Indices: 54099350--54099893 Score: 874
Period size: 49 Copynumber: 11.3 Consensus size: 49
54099340 TACATGATAG
54099350 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
54099397 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
54099446 TAAATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 T--ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
54099497 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
54099546 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
54099593 TATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* *
54099642 TATATGTGATGAGGCCTAATGGCCGATTTGATGAATGTGAAAGTGTATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* *
54099691 TATATGTGATGAGGCCTAATGGACGATGTGATGAATGTGAAAGTGTATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
54099740 TATATGTGATAAGGCCTAATGGCCGATGTGCTGAATGTGAAA--GTATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* *
54099787 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG--TA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* * * * * *
54099834 TATATGTGATAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
54099883 -A-ATGTGATAAG
1 TATATGTGATAAG
54099894 TCCCGAAGGG
Statistics
Matches: 472, Mismatches: 15, Indels: 20
0.93 0.03 0.04
Matches are distributed among these distances:
47 187 0.40
48 1 0.00
49 235 0.50
51 49 0.10
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (49 bp):
TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
Found at i:54102970 original size:48 final size:48
Alignment explanation
Indices: 54102901--54103117 Score: 193
Period size: 48 Copynumber: 4.5 Consensus size: 48
54102891 TGAGTTTTCA
* * * * * *
54102901 ATGCCATATGCCAAACATGGTCTTACACTGGCTCACATGTCGAGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAAGGCCG
* * * * * * *
54102949 ATGCAATGTCCCAGACATGGTCTTACACAAGCTCTCGTCTCAATGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAAGGCCG
** * ** *
54102997 ATGCCATGTCCCAGACATAATCTTACACTAGCTCTCATAAT-GTGGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCACAT-ATCAAGGCCG
* * * *
54103045 ATGCCATGTCCCAAACATGGTCTTACACTAGCACACATATCAATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAAGGCCG
* *
54103093 ATGCCATTTCCCATACATGGTCTTA
1 ATGCCATGTCCCAGACATGGTCTTA
54103118 TATTGGCTCT
Statistics
Matches: 134, Mismatches: 33, Indels: 4
0.78 0.19 0.02
Matches are distributed among these distances:
47 2 0.01
48 131 0.98
49 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAAGGCCG
Found at i:54103127 original size:96 final size:96
Alignment explanation
Indices: 54102899--54103129 Score: 239
Period size: 96 Copynumber: 2.4 Consensus size: 96
54102889 GGTGAGTTTT
* * * *
54102899 CAATGCCATATGCCAAACATGGTCTTACACTGGCTCACATGTCGAGGCCGATGCAATGTCCCAGA
1 CAATGCCATATCCCAAACATGGTCTTACACTGGCTCTCATATCGAGGCCGATGCAATGTCCCAAA
* * * *
54102964 CATGGTCTTACACAAGCTCTCGTCTCAATGC
66 CATGGTCTTACACAAGCACACATATCAATGC
** * * ** * * * *
54102995 TGATGCCATGTCCCAGACATAATCTTACACTAGCTCTCATAAT-GTGGCTGATGCCATGTCCCAA
1 CAATGCCATATCCCAAACATGGTCTTACACTGGCTCTCAT-ATCGAGGCCGATGCAATGTCCCAA
*
54103059 ACATGGTCTTACACTAGCACACATATCAATGC
65 ACATGGTCTTACACAAGCACACATATCAATGC
* * * *
54103091 CAATGCCATTTCCCATACATGGTCTTATATTGGCTCTCA
1 CAATGCCATATCCCAAACATGGTCTTACACTGGCTCTCA
54103130 CAACATCACC
Statistics
Matches: 106, Mismatches: 28, Indels: 2
0.78 0.21 0.01
Matches are distributed among these distances:
96 105 0.99
97 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (96 bp):
CAATGCCATATCCCAAACATGGTCTTACACTGGCTCTCATATCGAGGCCGATGCAATGTCCCAAA
CATGGTCTTACACAAGCACACATATCAATGC
Found at i:54116091 original size:28 final size:29
Alignment explanation
Indices: 54116029--54116092 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
54116019 GTGACGAGAT
** *
54116029 CGGCACTAAGTGTGCGTGCTGGAAATATA
1 CGGCACTAAGTGTGCAAGCTGGAAAAATA
*
54116058 TGGCACTAAGTGTGCAAGCT-GAAAAATA
1 CGGCACTAAGTGTGCAAGCTGGAAAAATA
54116086 CGGCACT
1 CGGCACT
54116093 GGGTGTGCGA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 13 0.43
29 17 0.57
ACGTcount: A:0.31, C:0.19, G:0.28, T:0.22
Consensus pattern (29 bp):
CGGCACTAAGTGTGCAAGCTGGAAAAATA
Done.