Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 170 of 235
Found at i:57634633 original size:42 final size:42
Alignment explanation
Indices: 57634532--57634695 Score: 152
Period size: 43 Copynumber: 3.8 Consensus size: 42
57634522 CAATGCCAGC
* * * * *
57634532 GTCCCGGACGTGGTCTTACATGTAATCAAATATCGATGCCACT
1 GTCCCAGACATGGTCTTACACGAAATCATATATCGATGCCA-T
* * *
57634575 GTCCCAAACAGGGTCTTACACGAAATCATATAT-GACGCCGAT
1 GTCCCAGACATGGTCTTACACGAAATCATATATCGATGCC-AT
* *
57634617 GTCCCAGACATGGTCTTACACGTAAATC-TCAAATCGATGCCAAC
1 GTCCCAGACATGGTCTTACACG-AAATCAT-ATATCGATGCC-AT
* * *
57634661 ATCCCAGACATGGTCTTACACAAAATCACATATCG
1 GTCCCAGACATGGTCTTACACGAAATCATATATCG
57634696 GAATCCTATG
Statistics
Matches: 98, Mismatches: 18, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
42 27 0.28
43 45 0.46
44 26 0.27
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (42 bp):
GTCCCAGACATGGTCTTACACGAAATCATATATCGATGCCAT
Found at i:57634658 original size:86 final size:85
Alignment explanation
Indices: 57634532--57634693 Score: 202
Period size: 86 Copynumber: 1.9 Consensus size: 85
57634522 CAATGCCAGC
* * * *
57634532 GTCCCGGACGTGGTCTTACATGTAATCAAATATCGATGCC-ACTGTCCCAAACAGGGTCTTACAC
1 GTCCCAGACATGGTCTTACACGTAATCAAATATCGATGCCAAC-ATCCCAAACAGGGTCTTACAC
* *
57634596 GAAATCATATATGACGCCGAT
65 AAAATCACATATGACGCCGAT
* * *
57634617 GTCCCAGACATGGTCTTACACGTAAATCTCAA-ATCGATGCCAACATCCCAGACATGGTCTTACA
1 GTCCCAGACATGGTCTTACACGT-AATC-AAATATCGATGCCAACATCCCAAACAGGGTCTTACA
57634681 CAAAATCACATAT
64 CAAAATCACATAT
57634694 CGGAATCCTA
Statistics
Matches: 65, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
85 20 0.31
86 41 0.63
87 4 0.06
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (85 bp):
GTCCCAGACATGGTCTTACACGTAATCAAATATCGATGCCAACATCCCAAACAGGGTCTTACACA
AAATCACATATGACGCCGAT
Found at i:57636149 original size:43 final size:43
Alignment explanation
Indices: 57636060--57636175 Score: 135
Period size: 43 Copynumber: 2.7 Consensus size: 43
57636050 TGAGATTACA
* * **
57636060 TGTAAAACCATGTTTGGGACATTGGCATTGTATTGTGATTAGG
1 TGTAAGACCATGTTTGGGACATTGGCATCGTATTAAGATTAGG
* **
57636103 TGTAAGACCATGTCTGGGACATTGGCATCGTGA-TAAGATTTTG
1 TGTAAGACCATGTTTGGGACATTGGCATCGT-ATTAAGATTAGG
* *
57636146 TGTAAGACCACGTTTGGGACGTTGGCATCG
1 TGTAAGACCATGTTTGGGACATTGGCATCG
57636176 GTATATGAAA
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
43 61 0.98
44 1 0.02
ACGTcount: A:0.24, C:0.14, G:0.29, T:0.33
Consensus pattern (43 bp):
TGTAAGACCATGTTTGGGACATTGGCATCGTATTAAGATTAGG
Found at i:57637712 original size:34 final size:34
Alignment explanation
Indices: 57637661--57637747 Score: 95
Period size: 34 Copynumber: 2.6 Consensus size: 34
57637651 GCAGTGTAAA
* * * *
57637661 CAGTCTGGGCCTAAGCCC-TTATCAGTAGCAATAT
1 CAGTGTGGGCCTTAGCCCATTAT-AGTAACAATAG
* * *
57637695 CAGTGTGGGCCTTAGCCCATTATGGTAATAGTAG
1 CAGTGTGGGCCTTAGCCCATTATAGTAACAATAG
57637729 CAGTGTGGGCCTTAGCCCA
1 CAGTGTGGGCCTTAGCCCA
57637748 ATTCAGTACA
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
34 41 0.91
35 4 0.09
ACGTcount: A:0.23, C:0.24, G:0.26, T:0.26
Consensus pattern (34 bp):
CAGTGTGGGCCTTAGCCCATTATAGTAACAATAG
Found at i:57649499 original size:27 final size:27
Alignment explanation
Indices: 57649469--57649543 Score: 114
Period size: 27 Copynumber: 2.8 Consensus size: 27
57649459 AAATTGTACA
* *
57649469 GCACTAAGTGTGCGATTTGACTATGTT
1 GCACTAAGTGTGCGAATTGACTATGAT
* *
57649496 GCACTAAGTGTGCGAAATGAATATGAT
1 GCACTAAGTGTGCGAATTGACTATGAT
57649523 GCACTAAGTGTGCGAATTGAC
1 GCACTAAGTGTGCGAATTGAC
57649544 ACTTGATGTT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGAT
Found at i:57655400 original size:39 final size:39
Alignment explanation
Indices: 57655357--57655433 Score: 127
Period size: 39 Copynumber: 2.0 Consensus size: 39
57655347 CCGGACATAT
* *
57655357 TTCCAGCACGTAGCCTGCGGACCTTAAGTCCAGATATAA
1 TTCCAGCACATAGCCTGCGGACCCTAAGTCCAGATATAA
*
57655396 TTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATA
1 TTCCAGCACATAGCCTGCGGACCCTAAGTCCAGATATA
57655434 CATCACTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.22
Consensus pattern (39 bp):
TTCCAGCACATAGCCTGCGGACCCTAAGTCCAGATATAA
Found at i:57666738 original size:16 final size:15
Alignment explanation
Indices: 57666717--57666764 Score: 62
Period size: 15 Copynumber: 3.1 Consensus size: 15
57666707 TCTCTCTCTC
57666717 TCTTTTTTCTTTTTTT
1 TCTTTTTT-TTTTTTT
*
57666733 TC-TTTTTTTTTTCT
1 TCTTTTTTTTTTTTT
57666747 TCTTTTTTTTTTTGTT
1 TCTTTTTTTTTTT-TT
57666763 TC
1 TC
57666765 CATTTTTACA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 8 0.29
15 15 0.54
16 5 0.18
ACGTcount: A:0.00, C:0.12, G:0.02, T:0.85
Consensus pattern (15 bp):
TCTTTTTTTTTTTTT
Found at i:57666743 original size:14 final size:14
Alignment explanation
Indices: 57666720--57666759 Score: 62
Period size: 14 Copynumber: 2.8 Consensus size: 14
57666710 CTCTCTCTCT
57666720 TTTTTCTTTTTTTTC
1 TTTTT-TTTTTTTTC
*
57666735 TTTTTTTTTTCTTC
1 TTTTTTTTTTTTTC
57666749 TTTTTTTTTTT
1 TTTTTTTTTTT
57666760 GTTTCCATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 18 0.78
15 5 0.22
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (14 bp):
TTTTTTTTTTTTTC
Found at i:57666744 original size:20 final size:19
Alignment explanation
Indices: 57666719--57666764 Score: 65
Period size: 20 Copynumber: 2.4 Consensus size: 19
57666709 TCTCTCTCTC
*
57666719 TTTTTTCTTTTTTTTCTTTT
1 TTTTTTCTTCTTTTT-TTTT
57666739 TTTTTTCTTCTTTTTTTTT
1 TTTTTTCTTCTTTTTTTTT
*
57666758 TTGTTTC
1 TTTTTTC
57666765 CATTTTTACA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 10 0.42
20 14 0.58
ACGTcount: A:0.00, C:0.11, G:0.02, T:0.87
Consensus pattern (19 bp):
TTTTTTCTTCTTTTTTTTT
Found at i:57673114 original size:42 final size:42
Alignment explanation
Indices: 57673061--57673146 Score: 154
Period size: 42 Copynumber: 2.0 Consensus size: 42
57673051 CCTTTTTGAG
* *
57673061 TTATCTGATTTCCCAGTTAAGATTATACCTCTGAAATGAGTT
1 TTATCTAATTTCCCAGGTAAGATTATACCTCTGAAATGAGTT
57673103 TTATCTAATTTCCCAGGTAAGATTATACCTCTGAAATGAGTT
1 TTATCTAATTTCCCAGGTAAGATTATACCTCTGAAATGAGTT
57673145 TT
1 TT
57673147 CTCTGCTGCA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (42 bp):
TTATCTAATTTCCCAGGTAAGATTATACCTCTGAAATGAGTT
Found at i:57673551 original size:500 final size:500
Alignment explanation
Indices: 57672603--57674147 Score: 3045
Period size: 500 Copynumber: 3.1 Consensus size: 500
57672593 CCTTTTTGAG
* *
57672603 TTATCTGATTTCCCAGTTAAGATTATACCTCTGAAATGAGTTTTCTCTGCTGCATGCCATGGCTG
1 TTATCTAATTTCCCAGGTAAGATTATACCTCTGAAATGAGTTTTCTCTGCTGCATGCCATGGCTG
57672668 ATTTGGGAGGTTTTGTTTCCCCTTCTTGTTTAGGAATCTTTTATAACCTACTCTAATTTTGAGAA
66 ATTTGGGAGGTTTTGTTTCCCCTTCTTGTTTAGGAATCTTTTATAACCTACTCTAATTTTGAGAA
57672733 AGAGAATTTTTGGAAGAAAAAGAGTTTGTTGAGAAAGATAAGAAAAAAGGAAATTTTTAGAGAAA
131 AGAGAATTTTTGGAAGAAAAAGAGTTTGTTGAGAAAGATAAGAAAAAAGGAAATTTTTAGAGAAA
57672798 AAAAAAACTTCATTCTTTTTCATGCTTTTTGCTTGTTACAATATCCTCTATTTATACTTGCTAAA
196 AAAAAAACTTCATTCTTTTTCATGCTTTTTGCTTGTTACAATATCCTCTATTTATACTTGCTAAA
57672863 ATCTTATAAACATGAAACTATCACAAAGCATGAGATTAAGCCCTAATAATGGGCATTATTACAAA
261 ATCTTATAAACATGAAACTATCACAAAGCATGAGATTAAGCCCTAATAATGGGCATTATTACAAA
57672928 ATCTTCCTAAGCTATTTACAGCTCATCTAGACAAGATCGCCTTTCATATGGTTAAATGCCCCTCA
326 ATCTTCCTAAGCTATTTACAGCTCATCTAGACAAGATCGCCTTTCATATGGTTAAATGCCCCTCA
57672993 ATCCACAATCCGAATGCCGATTTTCTCTTGTCTAACAATTAGAGTACTCATATAATTACCTTTTT
391 ATCCACAATCCGAATGCCGATTTTCTCTTGTCTAACAATTAGAGTACTCATATAATTACCTTTTT
57673058 GAGTTATCTGATTTCCCAGTTAAGATTATACCTCTGAAATGAGTT
456 GAGTTATCTGATTTCCCAGTTAAGATTATACCTCTGAAATGAGTT
57673103 TTATCTAATTTCCCAGGTAAGATTATACCTCTGAAATGAGTTTTCTCTGCTGCATGCCATGGCTG
1 TTATCTAATTTCCCAGGTAAGATTATACCTCTGAAATGAGTTTTCTCTGCTGCATGCCATGGCTG
57673168 ATTTGGGAGGTTTTGTTTCCCCTTCTTGTTTAGGAATCTTTTATAACCTACTCTAATTTTGAGAA
66 ATTTGGGAGGTTTTGTTTCCCCTTCTTGTTTAGGAATCTTTTATAACCTACTCTAATTTTGAGAA
57673233 AGAGAATTTTTGGAAGAAAAAGAGTTTGTTGAGAAAGATAAGAAAAAAGGAAATTTTTAGAGAAA
131 AGAGAATTTTTGGAAGAAAAAGAGTTTGTTGAGAAAGATAAGAAAAAAGGAAATTTTTAGAGAAA
57673298 AAAAAAACTTCATTCTTTTTCATGCTTTTTGCTTGTTACAATATCCTCTATTTATACTTGCTAAA
196 AAAAAAACTTCATTCTTTTTCATGCTTTTTGCTTGTTACAATATCCTCTATTTATACTTGCTAAA
57673363 ATCTTATAAACATGAAACTATCACAAAGCATGAGATTAAGCCCTAATAATGGGCATTATTACAAA
261 ATCTTATAAACATGAAACTATCACAAAGCATGAGATTAAGCCCTAATAATGGGCATTATTACAAA
57673428 ATCTTCCTAAGCTATTTACAGCTCATCTAGACAAGATCGCCTTTCATATGGTTAAATGCCCCTCA
326 ATCTTCCTAAGCTATTTACAGCTCATCTAGACAAGATCGCCTTTCATATGGTTAAATGCCCCTCA
57673493 ATCCACAATCCGAATGCCGATTTTCTCTTGTCTAACAATTAGAGTACTCATATAATTACCTTTTT
391 ATCCACAATCCGAATGCCGATTTTCTCTTGTCTAACAATTAGAGTACTCATATAATTACCTTTTT
57673558 GAGTTATCTGATTTCCCAGTTAAGATTATACCTCTGAAATGAGTT
456 GAGTTATCTGATTTCCCAGTTAAGATTATACCTCTGAAATGAGTT
57673603 TTATCTAATTTCCCAGGTAAGATTATACCTCTGAAATGAGTTTTCTCTGCTGCATGCCATGGCTG
1 TTATCTAATTTCCCAGGTAAGATTATACCTCTGAAATGAGTTTTCTCTGCTGCATGCCATGGCTG
57673668 ATTTGGGAGGTTTTGTTTCCCCTTCTTGTTTAGGAATCTTTTATAACCTACTCTAATTTTGAGAA
66 ATTTGGGAGGTTTTGTTTCCCCTTCTTGTTTAGGAATCTTTTATAACCTACTCTAATTTTGAGAA
57673733 AGAGAATTTTTGGAAGAAAAAGAGTTTGTTGAGAAAGATAAGAAAAAAGGAAATTTTTAGAGAAA
131 AGAGAATTTTTGGAAGAAAAAGAGTTTGTTGAGAAAGATAAGAAAAAAGGAAATTTTTAGAG-AA
57673798 AAAAAAAACTTCATTCTTTTTCATGCTTTTTGCTTGTTACAATATCCTCTATTTATACTTGCTAA
195 AAAAAAAACTTCATTCTTTTTCATGCTTTTTGCTTGTTACAATATCCTCTATTTATACTTGCTAA
57673863 AATCTTATAAACATGAAACTATCACAAAGCATGAGATTAAGCCCTAATAATGGGCATTATTACAA
260 AATCTTATAAACATGAAACTATCACAAAGCATGAGATTAAGCCCTAATAATGGGCATTATTACAA
57673928 AATCTTCCTAAGCTATTTACAGCTCATCTAGACAAGATCGCCTTTCATATGGTTAAATGCCCCTC
325 AATCTTCCTAAGCTATTTACAGCTCATCTAGACAAGATCGCCTTTCATATGGTTAAATGCCCCTC
*
57673993 AATCCACAATCCGAATGCCGGTTTTCTCTTGTCTAACAATTAGAGTACTCATATAATTACCTTTT
390 AATCCACAATCCGAATGCCGATTTTCTCTTGTCTAACAATTAGAGTACTCATATAATTACCTTTT
*
57674058 TGAGTTATCTAATTTCCCAGTTAAGATTATACCTCTGAAATGAGTT
455 TGAGTTATCTGATTTCCCAGTTAAGATTATACCTCTGAAATGAGTT
57674104 TTATCTAATTTCCCAGGTAAGATTATACCTCTGAAATGAGTTTT
1 TTATCTAATTTCCCAGGTAAGATTATACCTCTGAAATGAGTTTT
57674148 ATCTAATTTC
Statistics
Matches: 1040, Mismatches: 4, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
500 690 0.66
501 350 0.34
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (500 bp):
TTATCTAATTTCCCAGGTAAGATTATACCTCTGAAATGAGTTTTCTCTGCTGCATGCCATGGCTG
ATTTGGGAGGTTTTGTTTCCCCTTCTTGTTTAGGAATCTTTTATAACCTACTCTAATTTTGAGAA
AGAGAATTTTTGGAAGAAAAAGAGTTTGTTGAGAAAGATAAGAAAAAAGGAAATTTTTAGAGAAA
AAAAAAACTTCATTCTTTTTCATGCTTTTTGCTTGTTACAATATCCTCTATTTATACTTGCTAAA
ATCTTATAAACATGAAACTATCACAAAGCATGAGATTAAGCCCTAATAATGGGCATTATTACAAA
ATCTTCCTAAGCTATTTACAGCTCATCTAGACAAGATCGCCTTTCATATGGTTAAATGCCCCTCA
ATCCACAATCCGAATGCCGATTTTCTCTTGTCTAACAATTAGAGTACTCATATAATTACCTTTTT
GAGTTATCTGATTTCCCAGTTAAGATTATACCTCTGAAATGAGTT
Found at i:57673614 original size:42 final size:42
Alignment explanation
Indices: 57673561--57673646 Score: 154
Period size: 42 Copynumber: 2.0 Consensus size: 42
57673551 CCTTTTTGAG
* *
57673561 TTATCTGATTTCCCAGTTAAGATTATACCTCTGAAATGAGTT
1 TTATCTAATTTCCCAGGTAAGATTATACCTCTGAAATGAGTT
57673603 TTATCTAATTTCCCAGGTAAGATTATACCTCTGAAATGAGTT
1 TTATCTAATTTCCCAGGTAAGATTATACCTCTGAAATGAGTT
57673645 TT
1 TT
57673647 CTCTGCTGCA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (42 bp):
TTATCTAATTTCCCAGGTAAGATTATACCTCTGAAATGAGTT
Found at i:57674109 original size:42 final size:42
Alignment explanation
Indices: 57674062--57674189 Score: 247
Period size: 42 Copynumber: 3.0 Consensus size: 42
57674052 CCTTTTTGAG
*
57674062 TTATCTAATTTCCCAGTTAAGATTATACCTCTGAAATGAGTT
1 TTATCTAATTTCCCAGGTAAGATTATACCTCTGAAATGAGTT
57674104 TTATCTAATTTCCCAGGTAAGATTATACCTCTGAAATGAGTT
1 TTATCTAATTTCCCAGGTAAGATTATACCTCTGAAATGAGTT
57674146 TTATCTAATTTCCCAGGTAAGATTATACCTCTGAAATGAGTT
1 TTATCTAATTTCCCAGGTAAGATTATACCTCTGAAATGAGTT
57674188 TT
1 TT
57674190 CTCTGCTGCA
Statistics
Matches: 85, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
42 85 1.00
ACGTcount: A:0.30, C:0.16, G:0.13, T:0.40
Consensus pattern (42 bp):
TTATCTAATTTCCCAGGTAAGATTATACCTCTGAAATGAGTT
Found at i:57678330 original size:50 final size:49
Alignment explanation
Indices: 57678218--57678330 Score: 122
Period size: 49 Copynumber: 2.3 Consensus size: 49
57678208 ACATATTCTC
* * ** * *
57678218 ATAAAAGGAGTGTAGTAAGGTTAAAACACCTTATTTTTATCAATATCAA
1 ATAAAAGAAGTGTAATAAGGTTAAAACACCTTATTTAAATCAAAATAAA
*
57678267 ATAAATGAAGTGTAATAAGGTTGAAAA-ACCTTATTCTAAAAT-AAAATAAA
1 ATAAAAGAAGTGTAATAAGGTT-AAAACACCTTATT-T-AAATCAAAATAAA
57678317 ATAAAAGAAGTGTA
1 ATAAAAGAAGTGTA
57678331 GTTCTATATG
Statistics
Matches: 53, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
49 27 0.51
50 24 0.45
51 2 0.04
ACGTcount: A:0.50, C:0.07, G:0.14, T:0.29
Consensus pattern (49 bp):
ATAAAAGAAGTGTAATAAGGTTAAAACACCTTATTTAAATCAAAATAAA
Found at i:57684154 original size:40 final size:40
Alignment explanation
Indices: 57684099--57684901 Score: 1454
Period size: 40 Copynumber: 20.1 Consensus size: 40
57684089 NNNNNNNNNN
57684099 TTTGTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCA
1 TTTGTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCA
57684139 TTTGTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCA
1 TTTGTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCA
57684179 TTTGTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCA
1 TTTGTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCA
57684219 TTTGTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCA
1 TTTGTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCA
57684259 TTTGTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCA
1 TTTGTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCA
57684299 TTTGTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCA
1 TTTGTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCA
57684339 TTTGTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCA
1 TTTGTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCA
57684379 TTTGTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCA
1 TTTGTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCA
57684419 TTTGTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCA
1 TTTGTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCA
57684459 TTTGTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCA
1 TTTGTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCA
57684499 TTTGTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCA
1 TTTGTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCA
57684539 TTTGTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCA
1 TTTGTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCA
57684579 TTTGTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCA
1 TTTGTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCA
57684619 TTTGTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCA
1 TTTGTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCA
57684659 TTTGTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCA
1 TTTGTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCA
57684699 TTTGTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCA
1 TTTGTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCA
57684739 TTTGTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCA
1 TTTGTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCA
* * *
57684779 TTTGTGCGAGATACTAATTCCGGGCTAAG-CCCGAAGGCA
1 TTTGTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCA
* ** *
57684818 TTTGTGCGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGTA
1 TTTGTGCGAGATACTAAATCCGGACTAAGAT-CCGAAGGCA
* *
57684858 TTTGTGCGA-ATTACTATAA-CCGGGCTATG-TCCCGAAGGCA
1 TTTGTGCGAGA-TACTA-AATCCGGACTAAGAT-CCGAAGGCA
57684898 TTTG
1 TTTG
57684902 AACGAGGAGC
Statistics
Matches: 748, Mismatches: 12, Indels: 6
0.98 0.02 0.01
Matches are distributed among these distances:
39 35 0.05
40 711 0.95
41 2 0.00
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.23
Consensus pattern (40 bp):
TTTGTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCA
Found at i:57688213 original size:78 final size:78
Alignment explanation
Indices: 57688080--57688237 Score: 262
Period size: 78 Copynumber: 2.0 Consensus size: 78
57688070 CCAGAAATAT
*
57688080 GTAAGAAAAGGGTGCGAAGCATACCTTGCGTATGTACTTGATGACAAAGAATTAGAAAAGAAACC
1 GTAAGAAAAGGGTGCGAAGCATACCTCGCGTATGTACTTGATGACAAAGAATTAGAAAAGAAACC
*
57688145 CGAATCTGTGCCG
66 CGAATCGGTGCCG
* * * *
57688158 GTAAGGAAAGGGTGCGAAGCATACCTCGCGTATGTACTTGATGACAAGGAGTTAGAAAGGAAACC
1 GTAAGAAAAGGGTGCGAAGCATACCTCGCGTATGTACTTGATGACAAAGAATTAGAAAAGAAACC
57688223 CGAATCGGTGCCG
66 CGAATCGGTGCCG
57688236 GT
1 GT
57688238 GGTCTGTGAA
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
78 74 1.00
ACGTcount: A:0.34, C:0.17, G:0.29, T:0.20
Consensus pattern (78 bp):
GTAAGAAAAGGGTGCGAAGCATACCTCGCGTATGTACTTGATGACAAAGAATTAGAAAAGAAACC
CGAATCGGTGCCG
Found at i:57688619 original size:58 final size:58
Alignment explanation
Indices: 57688548--57688658 Score: 150
Period size: 58 Copynumber: 1.9 Consensus size: 58
57688538 ATATCCGTTA
* * *
57688548 CCGCGTATCGATGATTTGTTCGACCAACTGAAGGGAGCCTCAATGTTCTCAAAAATTT
1 CCGCGTATCGATGATCTGTTCGACCAACTAAAGGGAGCATCAATGTTCTCAAAAATTT
* * * * *
57688606 CCGCGTATTGATGATCTGTTCGATCAATTAAAGGGAGCATCAGTGTTTTCAAA
1 CCGCGTATCGATGATCTGTTCGACCAACTAAAGGGAGCATCAATGTTCTCAAA
57688659 GATAGATTTG
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
58 45 1.00
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.31
Consensus pattern (58 bp):
CCGCGTATCGATGATCTGTTCGACCAACTAAAGGGAGCATCAATGTTCTCAAAAATTT
Found at i:57692474 original size:12 final size:12
Alignment explanation
Indices: 57692457--57692483 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
57692447 ATTCCGAAGT
57692457 ATATATATATAC
1 ATATATATATAC
57692469 ATATATATATAC
1 ATATATATATAC
57692481 ATA
1 ATA
57692484 AGTATGCCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATATATAC
Found at i:57692996 original size:27 final size:27
Alignment explanation
Indices: 57692965--57693142 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
57692955 TAAATTGTAC
57692965 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
57692992 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
57693018 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
57693046 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
57693074 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
57693101 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
57693128 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
57693143 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:57693079 original size:82 final size:81
Alignment explanation
Indices: 57692966--57693121 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
57692956 AAATTGTACA
* *
57692966 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
57693030 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
57693047 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
57693112 TGCGAGTTGA
65 TGCGAATTGA
57693122 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:57693133 original size:82 final size:81
Alignment explanation
Indices: 57692962--57693142 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
57692952 GATTAAATTG
* *
57692962 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
57693027 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
57693043 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
57693107 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
57693125 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
57693143 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:57701206 original size:50 final size:50
Alignment explanation
Indices: 57701071--57701364 Score: 281
Period size: 50 Copynumber: 5.8 Consensus size: 50
57701061 AACCGAAGCT
* * * *
57701071 ATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC-AA-A
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAACC
*
57701119 AGTTTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAACC
1 A-TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAACC
* * * * **
57701170 ATCTGATACACGTAGTAGCCTGCACTTAGTAATACACACGTGA-TTGAAGTT
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCT-AA-CC
* * * * * * *
57701221 GTCGGGTACTCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAACT
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAACC
* *
57701271 ATTTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAAACC
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCT--AACC
*** * *
57701323 ATCTTAAACACATTA-TAGCCTGCACATAGTACTACACATGTG
1 ATCTGGTACAC-GTAGTAGCCTGCACTTAGTACTACACATGTG
57701365 TTCTCACAAT
Statistics
Matches: 198, Mismatches: 39, Indels: 14
0.79 0.16 0.06
Matches are distributed among these distances:
48 1 0.01
49 41 0.21
50 81 0.41
51 38 0.19
52 35 0.18
53 2 0.01
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (50 bp):
ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAACC
Found at i:57701257 original size:101 final size:101
Alignment explanation
Indices: 57701132--57701313 Score: 310
Period size: 101 Copynumber: 1.8 Consensus size: 101
57701122 TTGGTACACG
* *
57701132 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAAACCATCTGATACACGTAGTAGCCTGCACTT
57701197 AGTAATACACACGTGATTGAAGTTGTCGGGTACTCA
66 AGTAATACACACGTGATTGAAGTTGTCGGGTACTCA
* * *
57701233 TAGTAGCCTGCACTTAGTACTACACATGCGACCAAACTATTTGGTACACGTAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAAACCATCTGATACACGTAGTAGCCTGCACTT
*
57701298 AGTACTACACACGTGA
66 AGTAATACACACGTGA
57701314 CCTAAAACCA
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
101 75 1.00
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (101 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAAACCATCTGATACACGTAGTAGCCTGCACTT
AGTAATACACACGTGATTGAAGTTGTCGGGTACTCA
Found at i:57702913 original size:2 final size:2
Alignment explanation
Indices: 57702906--57702930 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
57702896 TCGTTACTCG
57702906 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
57702931 GAAATACATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:57707973 original size:20 final size:20
Alignment explanation
Indices: 57707945--57707982 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
57707935 GTCCCCTGTA
* *
57707945 TTTTGAAAAATTTTCTAAGT
1 TTTTCAAAAATTTCCTAAGT
57707965 TTTTCAAAAATTTCCTAA
1 TTTTCAAAAATTTCCTAA
57707983 TTTATCGATT
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:0.37, C:0.11, G:0.05, T:0.47
Consensus pattern (20 bp):
TTTTCAAAAATTTCCTAAGT
Found at i:57719536 original size:46 final size:46
Alignment explanation
Indices: 57719484--57719573 Score: 153
Period size: 46 Copynumber: 2.0 Consensus size: 46
57719474 AATGTACTCT
* *
57719484 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATAGTTGAAAGACACCATGGCAAC
*
57719530 CTGATATGAAATGTGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATGAAATGTGTAAGACCATAGTTGAAAGACACCATGGCA
57719574 TCATGTCAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.24
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATAGTTGAAAGACACCATGGCAAC
Found at i:57719680 original size:46 final size:46
Alignment explanation
Indices: 57719622--57719839 Score: 258
Period size: 46 Copynumber: 4.7 Consensus size: 46
57719612 CAAGATATCT
* * * *
57719622 TAAGGCCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAG
* * * **
57719668 TAAGACCATGGTTGAAAGATACCATGGCAGCTTGATATGAAATTTG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAG
* * * *
57719714 TAAGACCATGGTCGAAAGATACCATGGCAGCGTGACATGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAG
*
57719760 CAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATG-AAATGAG
* * * *
57719806 TAAGACCATAGTTGAAAGACACTATGGCATCATG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATG
57719840 TCAAAGATAA
Statistics
Matches: 151, Mismatches: 20, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
45 1 0.01
46 150 0.99
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.22
Consensus pattern (46 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAG
Found at i:57727049 original size:16 final size:16
Alignment explanation
Indices: 57727030--57727060 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
57727020 CTTCTTCACT
57727030 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
57727046 TACTTACTTACTTAA
1 TACTCACTTACTTAA
57727061 TCAAATTTAT
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:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:57727066 original size:20 final size:20
Alignment explanation
Indices: 57727027--57727066 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
57727017 AAACTTCTTC
* *
57727027 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
57727047 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
57727067 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:57727379 original size:53 final size:53
Alignment explanation
Indices: 57727252--57727499 Score: 194
Period size: 53 Copynumber: 4.8 Consensus size: 53
57727242 ACACGGGTAC
* * * * *
57727252 CTTACCATTTCCATGACTTGTCATGGTCTTACGTGGTATCC-T---TT-TGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA
* * * *
57727301 CTTACCATTGCCATGTCTTGACATGGTTTTACATGGTAGCCTTGCCTTATGAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAA
* * * *
57727354 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTTCCTTATAGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTAT-G-AA
* * * * *
57727409 CTTATCAATGCCATGTCTTGACATGGTATTACATGATTTCCTTGCCTTA-GAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAA
* * *
57727461 ---ACC-TTGCCATGCCTTGGCATGGTCTTACACGGTATCCTT
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
57727500 AAACCCTAAT
Statistics
Matches: 160, Mismatches: 30, Indels: 19
0.77 0.14 0.09
Matches are distributed among these distances:
48 29 0.18
49 37 0.23
50 1 0.01
52 4 0.03
53 45 0.28
54 3 0.02
55 39 0.24
56 2 0.01
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.37
Consensus pattern (53 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAA
Found at i:57727452 original size:108 final size:103
Alignment explanation
Indices: 57727299--57727489 Score: 274
Period size: 108 Copynumber: 1.8 Consensus size: 103
57727289 ATCCTTTTGA
* * *
57727299 AACTTACCATTGCCATGTCTTGACATGGTTTTACATGGTAGCCTTGCCTTATGAACTCACCAATG
1 AACTTACCAATGCCATGTCTTGACATGGTATTACATGATAGCCTTGCCTTA-GAA---ACC-ATG
57727364 CCATGCCTTGGCATGGTCTTACATGGGACCTTTTCCTTATAGT
61 CCATGCCTTGGCATGGTCTTACATGGGACCTTTTCCTTATAGT
* ** *
57727407 AACTTATCAATGCCATGTCTTGACATGGTATTACATGATTTCCTTGCCTTAGAAACCTTGCCATG
1 AACTTACCAATGCCATGTCTTGACATGGTATTACATGATAGCCTTGCCTTAGAAACCATGCCATG
57727472 CCTTGGCATGGTCTTACA
66 CCTTGGCATGGTCTTACA
57727490 CGGTATCCTT
Statistics
Matches: 76, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
103 25 0.33
104 3 0.04
107 3 0.04
108 45 0.59
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.35
Consensus pattern (103 bp):
AACTTACCAATGCCATGTCTTGACATGGTATTACATGATAGCCTTGCCTTAGAAACCATGCCATG
CCTTGGCATGGTCTTACATGGGACCTTTTCCTTATAGT
Found at i:57730153 original size:21 final size:21
Alignment explanation
Indices: 57730129--57730179 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
57730119 CGTTGTTTTT
*
57730129 AATCTCACCACTACAATATCC
1 AATCTCACCACTACAATAACC
* *
57730150 AATCTCACTACTACAATAACG
1 AATCTCACCACTACAATAACC
57730171 AATCTCACC
1 AATCTCACC
57730180 GCCACTGCTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.39, C:0.35, G:0.02, T:0.24
Consensus pattern (21 bp):
AATCTCACCACTACAATAACC
Found at i:57730623 original size:31 final size:31
Alignment explanation
Indices: 57730598--57730663 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
57730588 AATTGGATGG
* *
57730598 AATTGACTGTGAATTTTATTAAATTGAGTTA
1 AATTAACTGTGAATTTTATTAAATTGAGTGA
* *
57730629 AATTAACTGTGAATTTTATTAAATTAAGTTA
1 AATTAACTGTGAATTTTATTAAATTGAGTGA
57730660 AATT
1 AATT
57730664 TACTCGTATA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.39, C:0.03, G:0.12, T:0.45
Consensus pattern (31 bp):
AATTAACTGTGAATTTTATTAAATTGAGTGA
Found at i:57732446 original size:19 final size:19
Alignment explanation
Indices: 57732424--57732462 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
57732414 TAATTATTAG
57732424 AAATAATTATAAGTCTAGT
1 AAATAATTATAAGTCTAGT
57732443 AAATAATTATAAGTCTAGT
1 AAATAATTATAAGTCTAGT
57732462 A
1 A
57732463 GTGTGTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.49, C:0.05, G:0.10, T:0.36
Consensus pattern (19 bp):
AAATAATTATAAGTCTAGT
Found at i:57732724 original size:3 final size:3
Alignment explanation
Indices: 57732716--57732746 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
57732706 TTTATATTAG
*
57732716 ATT ATT ATT ATT ATT ATT AGT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
57732747 AATAAATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:57733673 original size:18 final size:19
Alignment explanation
Indices: 57733637--57733673 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
57733627 AGTAATTTTA
*
57733637 TTGAATTGAATTTAGAAAT
1 TTGAATTGAATTGAGAAAT
57733656 TTGAATTGAA-TGAGAAAT
1 TTGAATTGAATTGAGAAAT
57733674 ATGTGTTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.43, C:0.00, G:0.19, T:0.38
Consensus pattern (19 bp):
TTGAATTGAATTGAGAAAT
Found at i:57735769 original size:12 final size:12
Alignment explanation
Indices: 57735752--57735777 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
57735742 CATGTGACCT
57735752 ATTTCAAAAGGA
1 ATTTCAAAAGGA
57735764 ATTTCAAAAGGA
1 ATTTCAAAAGGA
57735776 AT
1 AT
57735778 ATGTTGGGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.15, T:0.27
Consensus pattern (12 bp):
ATTTCAAAAGGA
Found at i:57738899 original size:68 final size:65
Alignment explanation
Indices: 57738822--57738979 Score: 167
Period size: 68 Copynumber: 2.3 Consensus size: 65
57738812 ATACTATGCA
* * * *
57738822 GTAGTTAGGTCACATGTGTGAT-ACGGGATGTATC-CCATGTAGACAAGAGAGCTACGGGAGAGA
1 GTAGCTAGGTCACATGTGTGATCAAGGGAAGGA-CACCATGTAGACAAGAGAGCTAC---A-AGA
57738885 TAAAT
61 TAAAT
* *
57738890 GTAGCTAGGTCGCATGTGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACAAGATAA
1 GTAGCTAGGTCACATGTGTGA-T-CAAGGGAAGGACACCATGTAGACAAGAGAGCTACAAGATAA
57738955 AT
64 AT
*
57738957 GTAGCTAGGACACCATGTGTGAT
1 GTAGCTAGGTCA-CATGTGTGAT
57738980 TCCGAAAATA
Statistics
Matches: 77, Mismatches: 8, Indels: 11
0.80 0.08 0.11
Matches are distributed among these distances:
67 19 0.25
68 29 0.38
69 1 0.01
70 1 0.01
71 27 0.35
ACGTcount: A:0.33, C:0.15, G:0.29, T:0.23
Consensus pattern (65 bp):
GTAGCTAGGTCACATGTGTGATCAAGGGAAGGACACCATGTAGACAAGAGAGCTACAAGATAAAT
Found at i:57758593 original size:38 final size:38
Alignment explanation
Indices: 57758551--57758628 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
57758541 ACGACCAATG
57758551 TATGTTTTCTATATCCTACAAAATATGTAATATTCGCA
1 TATGTTTTCTATATCCTACAAAATATGTAATATTCGCA
*
57758589 TATGTTTTCTATATCCTGCAAAATATGTAATATTCGCA
1 TATGTTTTCTATATCCTACAAAATATGTAATATTCGCA
57758627 TA
1 TA
57758629 AAGAAAGCCA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.33, C:0.15, G:0.09, T:0.42
Consensus pattern (38 bp):
TATGTTTTCTATATCCTACAAAATATGTAATATTCGCA
Found at i:57765729 original size:17 final size:18
Alignment explanation
Indices: 57765703--57765740 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
57765693 ATCAAATTAT
57765703 TTTTGAAATT-GTTAAAA
1 TTTTGAAATTAGTTAAAA
* *
57765720 TTTTGTAATTAGTTTAAA
1 TTTTGAAATTAGTTAAAA
57765738 TTT
1 TTT
57765741 GATCTTTAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.55
Consensus pattern (18 bp):
TTTTGAAATTAGTTAAAA
Found at i:57765749 original size:18 final size:18
Alignment explanation
Indices: 57765728--57765766 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
57765718 AATTTTGTAA
57765728 TTAGTTTAAATTTGATCT
1 TTAGTTTAAATTTGATCT
* *
57765746 TTAGTTTAATTTTGATTT
1 TTAGTTTAAATTTGATCT
57765764 TTA
1 TTA
57765767 AATTTTGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.26, C:0.03, G:0.10, T:0.62
Consensus pattern (18 bp):
TTAGTTTAAATTTGATCT
Found at i:57772930 original size:30 final size:30
Alignment explanation
Indices: 57772896--57772977 Score: 137
Period size: 30 Copynumber: 2.7 Consensus size: 30
57772886 ATTTTTGAGC
*
57772896 CTAGGGGGAAAATGGTCATTTTGTTAAAGT
1 CTAGGGGCAAAATGGTCATTTTGTTAAAGT
*
57772926 CTAGGGGCAAAATGGTTATTTTGTTAAAGT
1 CTAGGGGCAAAATGGTCATTTTGTTAAAGT
*
57772956 CTAGGGGCAAAATGGTCGTTTT
1 CTAGGGGCAAAATGGTCATTTT
57772978 ACCAAAGATA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 48 1.00
ACGTcount: A:0.28, C:0.09, G:0.29, T:0.34
Consensus pattern (30 bp):
CTAGGGGCAAAATGGTCATTTTGTTAAAGT
Found at i:57782062 original size:6 final size:6
Alignment explanation
Indices: 57782020--57782060 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
57782010 TTCATTTCAT
* * *
57782020 TTTTTC TTTTTC TTTTGC TTTTGC TTTTGC TTTTGT TTTTG
1 TTTTGC TTTTGC TTTTGC TTTTGC TTTTGC TTTTGC TTTTG
57782061 TTGCTTACTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.00, C:0.12, G:0.12, T:0.76
Consensus pattern (6 bp):
TTTTGC
Found at i:57784056 original size:29 final size:30
Alignment explanation
Indices: 57783994--57784060 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 30
57783984 AATCAACCGC
*
57783994 GCACACTTAGTGCCATGCACTTTAAACTCA
1 GCACACTTAGTGCCATGCACTTTAAACTAA
* *
57784024 -CACACTTAGTGCCATGCA-TTTCAAGTAA
1 GCACACTTAGTGCCATGCACTTTAAACTAA
57784052 GCACACTTA
1 GCACACTTA
57784061 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
28 7 0.21
29 26 0.79
ACGTcount: A:0.31, C:0.28, G:0.13, T:0.27
Consensus pattern (30 bp):
GCACACTTAGTGCCATGCACTTTAAACTAA
Found at i:57784230 original size:29 final size:29
Alignment explanation
Indices: 57784168--57784234 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 29
57784158 AATCAACCAA
57784168 GCACACTTAGTGCCATGCACTTTAAACTC
1 GCACACTTAGTGCCATGCACTTTAAACTC
* **
57784197 ACACACTTAGTGCCATGCA-TTTCAAGTTC
1 GCACACTTAGTGCCATGCACTTT-AAACTC
57784226 GCACACTTA
1 GCACACTTA
57784235 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.30, G:0.13, T:0.28
Consensus pattern (29 bp):
GCACACTTAGTGCCATGCACTTTAAACTC
Found at i:57784403 original size:29 final size:29
Alignment explanation
Indices: 57784340--57784407 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
57784330 TAATCAACCA
57784340 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
57784369 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
57784398 CGCACACTTA
1 CGCACACTTA
57784408 CCTTTTTCCG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:57784403 original size:173 final size:174
Alignment explanation
Indices: 57783882--57784559 Score: 1171
Period size: 174 Copynumber: 3.9 Consensus size: 174
57783872 AACTCAAGGT
* *
57783882 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
57783947 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
**
57784012 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTAAGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
57784056 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGT-AAGTTCGCACCCTTAATGTAAATAATTTAT
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAG-TCGCACCCTTAATGTAAATAATTTAT
*
57784120 AGAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCAAGCACACTTAGTGCCATG
65 AGAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATG
57784185 CACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
130 CACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
* *
57784230 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
* * * *
57784295 TAAAATATATATTGGGTT-GCACACATAATGTTTAGTAATCAACCACGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
57784359 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
57784403 ACTTACCTTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTAT
1 ACTTACC-TTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTAT
*
57784468 AGAAAATATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCA
65 AG-AAA-ATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCA
* *
57784533 TGTACTTTAAACTCGCACACTTAGTGC
128 TGCACTTTAAACTCACACACTTAGTGC
57784560 TGTACAATTT
Statistics
Matches: 476, Mismatches: 22, Indels: 9
0.94 0.04 0.02
Matches are distributed among these distances:
173 96 0.20
174 296 0.62
175 6 0.01
176 14 0.03
177 64 0.13
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:57784551 original size:29 final size:30
Alignment explanation
Indices: 57784512--57784590 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
57784502 CTTAATAATC
57784512 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
57784542 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
57784571 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
57784591 ATCTCATGAT
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:57785937 original size:43 final size:44
Alignment explanation
Indices: 57785889--57785975 Score: 158
Period size: 43 Copynumber: 2.0 Consensus size: 44
57785879 ACAAAATTTT
57785889 TCTTTTCCTTTCTTTAGCTCACGGCAAT-GGGGGGGGGAAACAA
1 TCTTTTCCTTTCTTTAGCTCACGGCAATGGGGGGGGGGAAACAA
*
57785932 TCTTTTCCTTTCTTTAGCTCGCGGCAATGGGGGGGGGGAAACAA
1 TCTTTTCCTTTCTTTAGCTCACGGCAATGGGGGGGGGGAAACAA
57785976 CCACACATTT
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
43 27 0.64
44 15 0.36
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.30
Consensus pattern (44 bp):
TCTTTTCCTTTCTTTAGCTCACGGCAATGGGGGGGGGGAAACAA
Found at i:57787055 original size:150 final size:150
Alignment explanation
Indices: 57786784--57787083 Score: 591
Period size: 150 Copynumber: 2.0 Consensus size: 150
57786774 GACCAAATCT
57786784 AAGCACCTTCTTCCAGGGTGAAACTTTGAGAAATACTTTATCTCCAACCTGATATTCAATGTCTT
1 AAGCACCTTCTTCCAGGGTGAAACTTTGAGAAATACTTTATCTCCAACCTGATATTCAATGTCTT
57786849 TTCTTTTCAAATCCGCATACGACTTTTGACGATCCGAAGCGGCTTTCAAACTTTCGCGAATTACT
66 TTCTTTTCAAATCCGCATACGACTTTTGACGATCCGAAGCGGCTTTCAAACTTTCGCGAATTACT
*
57786914 TGGACTTTCTGCTCGGCATC
131 CGGACTTTCTGCTCGGCATC
57786934 AAGCACCTTCTTCCAGGGTGAAACTTTGAGAAATACTTTATCTCCAACCTGATATTCAATGTCTT
1 AAGCACCTTCTTCCAGGGTGAAACTTTGAGAAATACTTTATCTCCAACCTGATATTCAATGTCTT
57786999 TTCTTTTCAAATCCGCATACGACTTTTGACGATCCGAAGCGGCTTTCAAACTTTCGCGAATTACT
66 TTCTTTTCAAATCCGCATACGACTTTTGACGATCCGAAGCGGCTTTCAAACTTTCGCGAATTACT
57787064 CGGACTTTCTGCTCGGCATC
131 CGGACTTTCTGCTCGGCATC
57787084 CTTAATCAAA
Statistics
Matches: 149, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
150 149 1.00
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.34
Consensus pattern (150 bp):
AAGCACCTTCTTCCAGGGTGAAACTTTGAGAAATACTTTATCTCCAACCTGATATTCAATGTCTT
TTCTTTTCAAATCCGCATACGACTTTTGACGATCCGAAGCGGCTTTCAAACTTTCGCGAATTACT
CGGACTTTCTGCTCGGCATC
Found at i:57792942 original size:27 final size:27
Alignment explanation
Indices: 57792872--57792947 Score: 125
Period size: 27 Copynumber: 2.8 Consensus size: 27
57792862 ATATTAAGTC
* * *
57792872 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
57792899 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
57792926 CGCACACTTAGTGCTACATAGT
1 CGCACACTTAGTGCTACATAGT
57792948 TTAAACCCGC
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:57805545 original size:22 final size:22
Alignment explanation
Indices: 57805515--57805559 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
57805505 TGTGCTTCTC
57805515 TTTACTCTCTAT-TTATCTTATT
1 TTTACTCTCTATATTAT-TTATT
* *
57805537 TTTATTCTCTTTATTATTTATT
1 TTTACTCTCTATATTATTTATT
57805559 T
1 T
57805560 CCTAATAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.18, C:0.13, G:0.00, T:0.69
Consensus pattern (22 bp):
TTTACTCTCTATATTATTTATT
Found at i:57808076 original size:19 final size:19
Alignment explanation
Indices: 57808052--57808089 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
57808042 GATTTCTAGA
*
57808052 AAATGATTTATTTTTCTGG
1 AAATGATTTACTTTTCTGG
57808071 AAATGATTTACTTTTCTGG
1 AAATGATTTACTTTTCTGG
57808090 TGTTTGGATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.26, C:0.08, G:0.16, T:0.50
Consensus pattern (19 bp):
AAATGATTTACTTTTCTGG
Found at i:57811763 original size:40 final size:39
Alignment explanation
Indices: 57811665--57811927 Score: 278
Period size: 40 Copynumber: 6.6 Consensus size: 39
57811655 TCCTCGTTCA
* * * *
57811665 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
57811704 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
57811743 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
57811783 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
57811823 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
57811863 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
57811904 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
57811928 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
39 40 0.20
40 145 0.74
41 12 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:57811887 original size:120 final size:119
Alignment explanation
Indices: 57811665--57811927 Score: 307
Period size: 120 Copynumber: 2.2 Consensus size: 119
57811655 TCCTCGTTCA
* * *
57811665 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
* * *
57811730 TAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAAC-TCGCAC
66 TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
* * * * *
57811783 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACATAACCCGG-
* * ** * *
57811848 ATTT-GTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
63 ATTTAATAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAATAACTTAGCAC
*
57811904 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
57811928 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 37 0.31
120 75 0.62
121 9 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
Found at i:57811936 original size:41 final size:41
Alignment explanation
Indices: 57811859--57811936 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
57811849 TTTGTATCTC
* * *
57811859 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
57811900 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
57811937 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:57822441 original size:19 final size:19
Alignment explanation
Indices: 57822419--57822459 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
57822409 TTGCATGCAA
57822419 ATAATAAGCAACATTAATC
1 ATAATAAGCAACATTAATC
57822438 ATAATAAGCAACATTAATC
1 ATAATAAGCAACATTAATC
57822457 ATA
1 ATA
57822460 CATTAATCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.54, C:0.15, G:0.05, T:0.27
Consensus pattern (19 bp):
ATAATAAGCAACATTAATC
Found at i:57822464 original size:11 final size:11
Alignment explanation
Indices: 57822429--57822470 Score: 54
Period size: 11 Copynumber: 4.1 Consensus size: 11
57822419 ATAATAAGCA
57822429 ACATTAATCAT
1 ACATTAATCAT
*
57822440 A-A-TAAGCA-
1 ACATTAATCAT
57822448 ACATTAATCAT
1 ACATTAATCAT
57822459 ACATTAATCAT
1 ACATTAATCAT
57822470 A
1 A
57822471 TGATTATTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
8 1 0.04
9 6 0.23
10 6 0.23
11 13 0.50
ACGTcount: A:0.50, C:0.17, G:0.02, T:0.31
Consensus pattern (11 bp):
ACATTAATCAT
Found at i:57824838 original size:68 final size:70
Alignment explanation
Indices: 57824766--57824895 Score: 167
Period size: 71 Copynumber: 1.9 Consensus size: 70
57824756 ATACTATGTA
* * * *
57824766 GTAGCTAGGTCACATGTGTGA-T-ACGGGATGTATC-CCATGTAGACAAGAGAGCTACGAGAGAG
1 GTAGCTAGGTCACATGCGTGATTCAAGGGAAG-AACACCATGTAGACAAGAGAGCTACGAGAGAG
57824828 ATAAAT
65 ATAAAT
* *
57824834 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGAACACCATGTAGACAAGAGAGCTACGAGA
1 GTAGCTAGGTCACATGCGTGATT-CAAGGGAAGAACACCATGTAGACAAGAGAGCTACGAGA
57824896 CAAATTGGCT
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
68 19 0.37
69 1 0.02
70 2 0.04
71 30 0.58
ACGTcount: A:0.34, C:0.17, G:0.29, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCACATGCGTGATTCAAGGGAAGAACACCATGTAGACAAGAGAGCTACGAGAGAGA
TAAAT
Found at i:57832051 original size:28 final size:28
Alignment explanation
Indices: 57832016--57832071 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
57832006 TGGCCCGTAA
57832016 TCATTTACACGGTCTAGACACGTCCGTG
1 TCATTTACACGGTCTAGACACGTCCGTG
57832044 TCATTTACACGGTCTAGACACGTCCGTG
1 TCATTTACACGGTCTAGACACGTCCGTG
57832072 CTCACCCGTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.21, C:0.29, G:0.21, T:0.29
Consensus pattern (28 bp):
TCATTTACACGGTCTAGACACGTCCGTG
Found at i:57858368 original size:56 final size:55
Alignment explanation
Indices: 57858278--57858388 Score: 143
Period size: 56 Copynumber: 2.0 Consensus size: 55
57858268 CTTACATGTT
*
57858278 ATCACATATCGATGTCAGTATCCTAAACAAGGTCTTACTCGCACACATATATCGAA
1 ATCACATATCGATGCCAGTAT-CTAAACAAGGTCTTACTCGCACACATATATCGAA
** * *
57858334 ATCACATATCGATGCCAACGTAT-TAAACGTGGTCTTCCTCGCATACATATATCGA
1 ATCACATATCGATGCC-A-GTATCTAAACAAGGTCTTACTCGCACACATATATCGA
57858389 TGCCATGGTC
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
56 43 0.90
57 1 0.02
58 4 0.08
ACGTcount: A:0.33, C:0.25, G:0.14, T:0.28
Consensus pattern (55 bp):
ATCACATATCGATGCCAGTATCTAAACAAGGTCTTACTCGCACACATATATCGAA
Found at i:57859021 original size:15 final size:15
Alignment explanation
Indices: 57858998--57859028 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
57858988 TCAAAAATTC
57858998 CAATACAAAACATAT
1 CAATACAAAACATAT
*
57859013 CAATCCAAAACATAT
1 CAATACAAAACATAT
57859028 C
1 C
57859029 TTTAATATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.26, G:0.00, T:0.19
Consensus pattern (15 bp):
CAATACAAAACATAT
Found at i:57874928 original size:19 final size:19
Alignment explanation
Indices: 57874892--57874930 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
57874882 TTTTCAACAT
* *
57874892 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
57874911 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
57874930 A
1 A
57874931 AAATAATTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:57875453 original size:27 final size:28
Alignment explanation
Indices: 57875396--57875465 Score: 79
Period size: 27 Copynumber: 2.5 Consensus size: 28
57875386 GTGACAGAGT
** *
57875396 CACCAGATATAGATATTTTGTGGCAGTGC
1 CACCAGA-ATAGATATTACGTGGCAGGGC
57875425 CACCAGAATAGATA-TACGTGGCAGGGC
1 CACCAGAATAGATATTACGTGGCAGGGC
* *
57875452 CACTAGAACAGATA
1 CACCAGAATAGATA
57875466 ATTTGTGGCA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
27 22 0.61
28 7 0.19
29 7 0.19
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.21
Consensus pattern (28 bp):
CACCAGAATAGATATTACGTGGCAGGGC
Found at i:57875481 original size:28 final size:27
Alignment explanation
Indices: 57875396--57875485 Score: 74
Period size: 27 Copynumber: 3.2 Consensus size: 27
57875386 GTGACAGAGT
* *
57875396 CACCAGATATAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCA-TGC
* ** *
57875425 CACCAGAATAGAT-ATACGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCA-TGC
*
57875452 CACTAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCAT-GC
57875480 CACCAG
1 CACCAG
57875486 GACGCTTCCT
Statistics
Matches: 49, Mismatches: 10, Indels: 5
0.77 0.16 0.08
Matches are distributed among these distances:
27 21 0.43
28 21 0.43
29 7 0.14
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.22
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCATGC
Found at i:57875638 original size:28 final size:28
Alignment explanation
Indices: 57875591--57875655 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
57875581 AAATTAACCC
*
57875591 TAGGGGTATAAAGGTCATTTTGCACACA
1 TAGGGGTATAAAGGTAATTTTGCACACA
* *
57875619 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCACACA
57875647 TAGGGGTAT
1 TAGGGGTAT
57875656 TCTAGTAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.31, C:0.09, G:0.28, T:0.32
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCACACA
Found at i:57883733 original size:8 final size:8
Alignment explanation
Indices: 57883711--57883744 Score: 59
Period size: 8 Copynumber: 4.1 Consensus size: 8
57883701 GTATATAGAA
57883711 ATTTTGTG
1 ATTTTGTG
57883719 TATTTTGTG
1 -ATTTTGTG
57883728 ATTTTGTG
1 ATTTTGTG
57883736 ATTTTGTG
1 ATTTTGTG
57883744 A
1 A
57883745 ATTAGGGACT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 17 0.68
9 8 0.32
ACGTcount: A:0.15, C:0.00, G:0.24, T:0.62
Consensus pattern (8 bp):
ATTTTGTG
Found at i:57888882 original size:40 final size:40
Alignment explanation
Indices: 57888837--57888924 Score: 158
Period size: 40 Copynumber: 2.2 Consensus size: 40
57888827 GCAAACACAT
57888837 TTGCCTTCGGGTCTTAGCCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGACATATCAACTCGCATAA
* *
57888877 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGACATATCAACTCGCATAA
57888917 TTGCCTTC
1 TTGCCTTC
57888925 ATATCAATAA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.19, C:0.30, G:0.19, T:0.32
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGACATATCAACTCGCATAA
Found at i:57889278 original size:243 final size:243
Alignment explanation
Indices: 57888850--57889335 Score: 856
Period size: 243 Copynumber: 2.0 Consensus size: 243
57888840 CCTTCGGGTC
*
57888850 TTAGCCCGGACATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCAT
1 TTAGCCCGGACATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATATATCATATCGCAT
*
57888915 AATTGCCTTCATATCAATAATCATAACACATCCATATCATTTCTTCGTTACTAAGGCTCAAACAC
66 AATTGCCATCATATCAATAATCATAACACATCCATATCATTTCTTCGTTACTAAGGCTCAAACAC
57888980 AAAACATTTATTAAACCTTTCAAATTTCGGCTCAATAGCCACACACAAAGAGCATAATTTCAATT
131 AAAACATTTATTAAACCTTTCAAATTTCGGCTCAATAGCCACACACAAAGAGCATAATTTCAATT
57889045 GGCTTTATAACATAGTCTCTATGCACATTCGACTATCCGTCATAATAT
196 GGCTTTATAACATAGTCTCTATGCACATTCGACTATCCGTCATAATAT
*
57889093 TTAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATATATCCCA-AT-GC
1 TTAGCCCGGACATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATATAT--CATATCGC
*
57889156 -TCA-TGCACA-CATATATCAATAATCATAACACATCCATATCATTTCTTCGTTACTAAGGCTCA
64 ATAATTGC-CATC--ATATCAATAATCATAACACATCCATATCATTTCTTCGTTACTAAGGCTCA
57889218 AACACAAAACATTTATTAAACCTTTCAAATTTCGGCTCAATAGCCACACACAAAGAGCATAATTT
126 AACACAAAACATTTATTAAACCTTTCAAATTTCGGCTCAATAGCCACACACAAAGAGCATAATTT
57889283 CAATTGGCTTTATAACATAGTCTCTATGCACATTCGACTATCCGTCATAATAT
191 CAATTGGCTTTATAACATAGTCTCTATGCACATTCGACTATCCGTCATAATAT
57889336 GACTAATCAT
Statistics
Matches: 234, Mismatches: 4, Indels: 10
0.94 0.02 0.04
Matches are distributed among these distances:
241 4 0.02
242 3 0.01
243 224 0.96
244 1 0.00
245 2 0.01
ACGTcount: A:0.33, C:0.25, G:0.11, T:0.31
Consensus pattern (243 bp):
TTAGCCCGGACATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATATATCATATCGCAT
AATTGCCATCATATCAATAATCATAACACATCCATATCATTTCTTCGTTACTAAGGCTCAAACAC
AAAACATTTATTAAACCTTTCAAATTTCGGCTCAATAGCCACACACAAAGAGCATAATTTCAATT
GGCTTTATAACATAGTCTCTATGCACATTCGACTATCCGTCATAATAT
Found at i:57893340 original size:20 final size:20
Alignment explanation
Indices: 57893315--57893355 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
57893305 ATCCATCGTG
57893315 ACTCTTTCCCATTTCCACTC
1 ACTCTTTCCCATTTCCACTC
57893335 ACTCTTTCCCATTTCCACTC
1 ACTCTTTCCCATTTCCACTC
57893355 A
1 A
57893356 GGTATCATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.17, C:0.44, G:0.00, T:0.39
Consensus pattern (20 bp):
ACTCTTTCCCATTTCCACTC
Found at i:57903712 original size:17 final size:18
Alignment explanation
Indices: 57903690--57903724 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
57903680 CATAACAGCC
57903690 CACATTTTCCT-CCCTTT
1 CACATTTTCCTACCCTTT
*
57903707 CACATTTTTCTACCCTTT
1 CACATTTTCCTACCCTTT
57903725 TTTTACAACT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.14, C:0.37, G:0.00, T:0.49
Consensus pattern (18 bp):
CACATTTTCCTACCCTTT
Found at i:57905090 original size:46 final size:46
Alignment explanation
Indices: 57905032--57905161 Score: 136
Period size: 47 Copynumber: 2.8 Consensus size: 46
57905022 TCACTTGTGT
* *
57905032 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCA-ACATTATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCATACA-AACGA
* * * **
57905078 GAGCCAGTGTAAGACCATGTTTGGGATATAGCATCGGCATTGAAACGA
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATACAAACGA
* * *
57905126 GTGCTAGTGTAAAACATGTCTGGGACATACATCGGC
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGC
57905162 TACGAGAGGT
Statistics
Matches: 68, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
46 20 0.29
47 24 0.35
48 23 0.34
49 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (46 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCATACAAACGA
Found at i:57907223 original size:40 final size:40
Alignment explanation
Indices: 57907140--57907482 Score: 467
Period size: 40 Copynumber: 8.6 Consensus size: 40
57907130 TTGAATGCTG
* * * * * *
57907140 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
57907180 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
57907220 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
57907260 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
57907300 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
57907340 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
57907380 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
57907420 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
57907459 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
57907483 TGAACGAGGA
Statistics
Matches: 281, Mismatches: 19, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
39 35 0.12
40 238 0.85
41 8 0.03
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:57914670 original size:20 final size:21
Alignment explanation
Indices: 57914647--57914685 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
57914637 TGAAAAGCTG
57914647 TAAAATTTATGAAA-AAATTC
1 TAAAATTTATGAAATAAATTC
*
57914667 TAAATTTTATGAAATAAAT
1 TAAAATTTATGAAATAAAT
57914686 GGGTTGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.54, C:0.03, G:0.05, T:0.38
Consensus pattern (21 bp):
TAAAATTTATGAAATAAATTC
Found at i:57915404 original size:26 final size:26
Alignment explanation
Indices: 57915348--57915405 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
57915338 GGATATATGA
57915348 CTCTTCGTGAACTTCCCGATTAAAGG
1 CTCTTCGTGAACTTCCCGATTAAAGG
* * * * *
57915374 ATCTTTGTGAGCTTCCTGATTAATGG
1 CTCTTCGTGAACTTCCCGATTAAAGG
57915400 CTCTTC
1 CTCTTC
57915406 AGAGCTTCCC
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.19, C:0.24, G:0.19, T:0.38
Consensus pattern (26 bp):
CTCTTCGTGAACTTCCCGATTAAAGG
Found at i:57915582 original size:25 final size:25
Alignment explanation
Indices: 57915489--57915597 Score: 114
Period size: 25 Copynumber: 4.4 Consensus size: 25
57915479 GGAGCTACTC
57915489 GTTAT-TGGCTCTCATGAGCTTCCT
1 GTTATATGGCTCTCATGAGCTTCCT
* * *
57915513 G-AATATGGCTCTTATGAGCTTCCC
1 GTTATATGGCTCTCATGAGCTTCCT
** * ** *
57915537 GTTATACAGCCCGGATAAGCTTCCT
1 GTTATATGGCTCTCATGAGCTTCCT
*
57915562 GTTATATGGCTCACATGAGCTTCCT
1 GTTATATGGCTCTCATGAGCTTCCT
57915587 GTTATATGGCT
1 GTTATATGGCT
57915598 TGAGAGGGAG
Statistics
Matches: 66, Mismatches: 17, Indels: 3
0.77 0.20 0.03
Matches are distributed among these distances:
23 2 0.03
24 19 0.29
25 45 0.68
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.36
Consensus pattern (25 bp):
GTTATATGGCTCTCATGAGCTTCCT
Found at i:57918860 original size:46 final size:46
Alignment explanation
Indices: 57918807--57918980 Score: 183
Period size: 46 Copynumber: 3.8 Consensus size: 46
57918797 TTTGGGCATT
*
57918807 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACATC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACATC
* * * * * *
57918853 TGAACTCGATGAGTTGAGTCTGAGTTC-GTGA--GATGTAACTAGGCATC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CATC
* **
57918900 CGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACATC
* *
57918946 CGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
57918981 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 17, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
43 5 0.05
45 3 0.03
46 60 0.58
47 27 0.26
48 3 0.03
50 6 0.06
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (46 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACATC
Found at i:57918960 original size:93 final size:93
Alignment explanation
Indices: 57918801--57918973 Score: 265
Period size: 93 Copynumber: 1.9 Consensus size: 93
57918791 CGGATATTTG
* * * *
57918801 GGCATTCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACATCTGAACTCGATGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACACCCGAACTCGATGAG
*
57918866 TTGAGTCTGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * * *
57918894 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACACCCGAACTCGATGAG
57918959 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
57918974 CTTATGGGCG
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACACCCGAACTCGATGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:57922808 original size:40 final size:39
Alignment explanation
Indices: 57922744--57922835 Score: 96
Period size: 40 Copynumber: 2.3 Consensus size: 39
57922734 CTTTCATACT
* *
57922744 CCTGTTAGCACTATGGTGCTCCTAATAGCAAATTTGTGC
1 CCTGTTTGCACTATGGTGCTCCTAATAGCAAATCTGTGC
* * * *
57922783 TCTTGTTTGCACTATGGT-ATCCCTAATTGCACATCTGTGC
1 -CCTGTTTGCACTATGGTGCT-CCTAATAGCAAATCTGTGC
57922823 CCTGTTATGCACT
1 CCTGTT-TGCACT
57922836 CTAGTGCCCT
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
39 6 0.14
40 37 0.86
ACGTcount: A:0.20, C:0.25, G:0.18, T:0.37
Consensus pattern (39 bp):
CCTGTTTGCACTATGGTGCTCCTAATAGCAAATCTGTGC
Found at i:57922833 original size:20 final size:20
Alignment explanation
Indices: 57922810--57922883 Score: 75
Period size: 20 Copynumber: 3.8 Consensus size: 20
57922800 TATCCCTAAT
57922810 TGCACATCTGTGCCCTGTTA
1 TGCACATCTGTGCCCTGTTA
57922830 TGCAC-TCTAGTGCCCT-TT-
1 TGCACATCT-GTGCCCTGTTA
* *
57922848 TGCACTTCGGTGCTCCTG-TA
1 TGCACATCTGTGC-CCTGTTA
*
57922868 TGCACATTTGTGCCCT
1 TGCACATCTGTGCCCT
57922884 ATTTGGCATC
Statistics
Matches: 45, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
18 9 0.20
19 14 0.31
20 22 0.49
ACGTcount: A:0.12, C:0.31, G:0.20, T:0.36
Consensus pattern (20 bp):
TGCACATCTGTGCCCTGTTA
Found at i:57922853 original size:18 final size:18
Alignment explanation
Indices: 57922809--57922898 Score: 65
Period size: 20 Copynumber: 4.6 Consensus size: 18
57922799 GTATCCCTAA
57922809 TTGCACATCTGTGCCCTGT
1 TTGCAC-TCTGTGCCCTGT
57922828 TATGCACTCTAGTGCCCT-T
1 T-TGCACTCT-GTGCCCTGT
*
57922847 TTGCACTTCGGTGCTCCTGT
1 TTGCAC-TCTGTGC-CCTGT
* * *
57922867 ATGCACATTTGTGCCCTAT
1 TTGCAC-TCTGTGCCCTGT
57922886 TTGGCATCTCTGT
1 TT-GCA-CTCTGT
57922899 AACACCCCTC
Statistics
Matches: 56, Mismatches: 8, Indels: 13
0.73 0.10 0.17
Matches are distributed among these distances:
18 9 0.16
19 16 0.29
20 30 0.54
21 1 0.02
ACGTcount: A:0.12, C:0.29, G:0.20, T:0.39
Consensus pattern (18 bp):
TTGCACTCTGTGCCCTGT
Found at i:57922881 original size:38 final size:39
Alignment explanation
Indices: 57922803--57922888 Score: 97
Period size: 38 Copynumber: 2.2 Consensus size: 39
57922793 ACTATGGTAT
* *
57922803 CCCTAATTGCACATCTGTGCCCTGTTATGCACTCTAGTG
1 CCCTATTTGCACATCGGTGCCCTGTTATGCACTCTAGTG
* *
57922842 CCCT-TTTGCACTTCGGTGCTCCTG-TATGCACAT-TTGTG
1 CCCTATTTGCACATCGGTGC-CCTGTTATGCAC-TCTAGTG
57922880 CCCTATTTG
1 CCCTATTTG
57922889 GCATCTCTGT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
38 27 0.68
39 13 0.32
ACGTcount: A:0.14, C:0.30, G:0.19, T:0.37
Consensus pattern (39 bp):
CCCTATTTGCACATCGGTGCCCTGTTATGCACTCTAGTG
Found at i:57926762 original size:48 final size:48
Alignment explanation
Indices: 57926691--57926784 Score: 188
Period size: 48 Copynumber: 2.0 Consensus size: 48
57926681 GTGAAGAGCG
57926691 GTCAGAACAGTTGAGTAGTGAAACAGGGGTAACTTCAATGAATAAACT
1 GTCAGAACAGTTGAGTAGTGAAACAGGGGTAACTTCAATGAATAAACT
57926739 GTCAGAACAGTTGAGTAGTGAAACAGGGGTAACTTCAATGAATAAA
1 GTCAGAACAGTTGAGTAGTGAAACAGGGGTAACTTCAATGAATAAA
57926785 ATGTACTAAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.40, C:0.12, G:0.26, T:0.22
Consensus pattern (48 bp):
GTCAGAACAGTTGAGTAGTGAAACAGGGGTAACTTCAATGAATAAACT
Found at i:57928413 original size:21 final size:20
Alignment explanation
Indices: 57928385--57928424 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
57928375 CAAAACTTGT
*
57928385 ATAACTATCATCAATCATTC
1 ATAACTATCATAAATCATTC
57928405 ATAATCTATCATAAATCATT
1 ATAA-CTATCATAAATCATT
57928425 AAAATACATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.42, C:0.20, G:0.00, T:0.38
Consensus pattern (20 bp):
ATAACTATCATAAATCATTC
Found at i:57938831 original size:5 final size:5
Alignment explanation
Indices: 57938821--57938868 Score: 50
Period size: 5 Copynumber: 10.4 Consensus size: 5
57938811 TCAAGAATTC
* *
57938821 AAATA AAAT- AATTA AAATA AAATA AAAT- AAA-A AAAT- AAAGA AAATA
1 AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAATA
57938867 AA
1 AA
57938869 TGAAAGAGGA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
4 12 0.34
5 23 0.66
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:57938838 original size:14 final size:14
Alignment explanation
Indices: 57938816--57938845 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
57938806 AAATTTCAAG
*
57938816 AATTCAAATAAAAT
1 AATTAAAATAAAAT
57938830 AATTAAAATAAAAT
1 AATTAAAATAAAAT
57938844 AA
1 AA
57938846 AATAAAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (14 bp):
AATTAAAATAAAAT
Found at i:57938845 original size:19 final size:18
Alignment explanation
Indices: 57938821--57938868 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
57938811 TCAAGAATTC
*
57938821 AAATAAAATAATTAAAATA
1 AAATAAAATAA-AAAAATA
57938840 AAATAAAATAAAAAAAT-
1 AAATAAAATAAAAAAATA
*
57938857 AAAGAAAATAAA
1 AAATAAAATAAA
57938869 TGAAAGAGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
17 11 0.41
18 5 0.19
19 11 0.41
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (18 bp):
AAATAAAATAAAAAAATA
Found at i:57945949 original size:27 final size:27
Alignment explanation
Indices: 57945919--57946096 Score: 137
Period size: 27 Copynumber: 6.6 Consensus size: 27
57945909 ATATTGAGCC
* *
57945919 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
57945946 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
57945973 CGCACACTTAGTGCTACATAGTCAAACC
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
57946001 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
57946028 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
57946055 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
57946082 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
57946097 GTACAATTTA
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 96 0.79
28 23 0.19
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:57946031 original size:55 final size:54
Alignment explanation
Indices: 57945919--57946096 Score: 164
Period size: 54 Copynumber: 3.3 Consensus size: 54
57945909 ATATTGAGCC
* * * * *
57945919 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
* * ** *
57945973 CGCACACTTAGTGCTACATAGTCAAACCCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACCCGCACACTTAGTGCCACATAATCAAAT
* *** *
57946028 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACCCGCACACTTAGTGCCACATAA-TCA-AAT
57946082 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
57946097 GTACAATTTA
Statistics
Matches: 100, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
53 1 0.01
54 55 0.55
55 44 0.44
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
Found at i:57950870 original size:40 final size:40
Alignment explanation
Indices: 57950667--57950849 Score: 278
Period size: 40 Copynumber: 4.6 Consensus size: 40
57950657 TGGATGATAA
* * *
57950667 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
57950707 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
57950747 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
** *
57950787 CTAGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
57950827 CCGGGCTATGTCCCAAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATT
57950850 CGAGCAAGTA
Statistics
Matches: 132, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
39 1 0.01
40 131 0.99
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:57973350 original size:54 final size:54
Alignment explanation
Indices: 57973310--57973795 Score: 559
Period size: 54 Copynumber: 9.0 Consensus size: 54
57973300 AAGTACTCCT
* * *
57973310 GATTTACAGAATTACCATTTTACCCTC-GATTTACAGAATTATCGTTTTACCCTC
1 GATTTACAGAATTACCGTTTTACCCTCAG-TTTACAGAATTACCATTTTACCCTC
** * * *
57973364 GATTTTTAAAATTACTGTTTTACCCTC-GATTTACAGAATTACCGTTTTACCCTC
1 GATTTACAGAATTACCGTTTTACCCTCAG-TTTACAGAATTACCATTTTACCCTC
** *
57973418 GATTTACAGAATTACTATTTTACCCTCAGTTTATAGAATTACCATTTTACCCTC
1 GATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACCATTTTACCCTC
** *
57973472 GATTTACAGAATTACTATTTTACCCTCAGTTTACAGAATTACTATTTTACCCTC
1 GATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACCATTTTACCCTC
* ** * **
57973526 GATTTACAGAATTACCGTTTTACCCTCAATTTGTAAAATTATTATTTTACCCTC
1 GATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACCATTTTACCCTC
*
57973580 AATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACCATTTTACCCTC
1 GATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACCATTTTACCCTC
* * * **
57973634 GATTTACAGAATTATCGTTTTACCCTCACTTTATAGAATTACTGTTTTACCCTC
1 GATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACCATTTTACCCTC
* * * * ***
57973688 AATTT-CTAAAATTACTGTTTTACCCTC-GATTTATAGAATTACTGGTTTACCCTC
1 GATTTAC-AGAATTACCGTTTTACCCTCAG-TTTACAGAATTACCATTTTACCCTC
* * * *
57973742 GGTTTACAAAATTATCGTTTTACCCTC-GATTTACAGAATTACTATTTTACCCTC
1 GATTTACAGAATTACCGTTTTACCCTCAG-TTTACAGAATTACCATTTTACCCTC
57973796 AATTGTGAAA
Statistics
Matches: 381, Mismatches: 47, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
53 1 0.00
54 378 0.99
55 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.08, T:0.41
Consensus pattern (54 bp):
GATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACCATTTTACCCTC
Found at i:57973654 original size:27 final size:26
Alignment explanation
Indices: 57973310--57973795 Score: 505
Period size: 27 Copynumber: 18.0 Consensus size: 26
57973300 AAGTACTCCT
*
57973310 GATTTACAGAATTACCATTTTACCCTC
1 GATTTACAGAATTA-CGTTTTACCCTC
57973337 GATTTACAGAATTATCGTTTTACCCTC
1 GATTTACAGAATTA-CGTTTTACCCTC
** *
57973364 GATTTTTAAAATTACTGTTTTACCCTC
1 GATTTACAGAATTAC-GTTTTACCCTC
57973391 GATTTACAGAATTACCGTTTTACCCTC
1 GATTTACAGAATTA-CGTTTTACCCTC
*
57973418 GATTTACAGAATTACTATTTTACCCTC
1 GATTTACAGAATTAC-GTTTTACCCTC
* *
57973445 -AGTTTATAGAATTACCATTTTACCCTC
1 GA-TTTACAGAATTA-CGTTTTACCCTC
*
57973472 GATTTACAGAATTACTATTTTACCCTC
1 GATTTACAGAATTAC-GTTTTACCCTC
*
57973499 -AGTTTACAGAATTACTATTTTACCCTC
1 GA-TTTACAGAATTAC-GTTTTACCCTC
57973526 GATTTACAGAATTACCGTTTTACCCTC
1 GATTTACAGAATTA-CGTTTTACCCTC
* ** * **
57973553 AATTTGTAAAATTATTATTTTACCCTC
1 GATTTACAGAATTA-CGTTTTACCCTC
*
57973580 AATTTACAGAATTACCGTTTTACCCTC
1 GATTTACAGAATTA-CGTTTTACCCTC
*
57973607 -AGTTTACAGAATTACCATTTTACCCTC
1 GA-TTTACAGAATTA-CGTTTTACCCTC
57973634 GATTTACAGAATTATCGTTTTACCCTC
1 GATTTACAGAATTA-CGTTTTACCCTC
*
57973661 -ACTTTATAGAATTACTGTTTTACCCTC
1 GA-TTTACAGAATTAC-GTTTTACCCTC
* *
57973688 AATTT-CTAAAATTACTGTTTTACCCTC
1 GATTTAC-AGAATTAC-GTTTTACCCTC
* *
57973715 GATTTATAGAATTACTGGTTTACCCTC
1 GATTTACAGAATTAC-GTTTTACCCTC
* *
57973742 GGTTTACAAAATTATCGTTTTACCCTC
1 GATTTACAGAATTA-CGTTTTACCCTC
*
57973769 GATTTACAGAATTACTATTTTACCCTC
1 GATTTACAGAATTAC-GTTTTACCCTC
57973796 AATTGTGAAA
Statistics
Matches: 398, Mismatches: 42, Indels: 38
0.83 0.09 0.08
Matches are distributed among these distances:
26 9 0.02
27 381 0.96
28 8 0.02
ACGTcount: A:0.28, C:0.22, G:0.08, T:0.41
Consensus pattern (26 bp):
GATTTACAGAATTACGTTTTACCCTC
Found at i:57973942 original size:27 final size:27
Alignment explanation
Indices: 57973812--57973945 Score: 169
Period size: 27 Copynumber: 5.0 Consensus size: 27
57973802 GAAATTACTA
*
57973812 AAATACCCCTATAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
57973839 AAATACCCCTATAGGGTAGAATTATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
57973866 AAATACCCTTGTAGGGTAGAAATACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
*
57973893 AAATACCCCTGTAGGATAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* ** * *
57973920 AGATACCTTTGTGGGGTAAAATTACC
1 AAATACCCCTGTAGGGTAGAATTACC
57973946 ATTTTGCCCC
Statistics
Matches: 93, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 93 1.00
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (27 bp):
AAATACCCCTGTAGGGTAGAATTACCG
Found at i:57974187 original size:27 final size:26
Alignment explanation
Indices: 57974145--57974226 Score: 101
Period size: 27 Copynumber: 3.1 Consensus size: 26
57974135 GGAGGAAGCA
* *
57974145 TTCTGGTGTCTATGCCACAAATATCTG
1 TTCTGGTGACTCTGCCAC-AATATCTG
*
57974172 TTCTGGTGGCTCTGCCACAATATCTG
1 TTCTGGTGACTCTGCCACAATATCTG
* *
57974198 TATCTGGTGACTCTGTCACCATATCTG
1 T-TCTGGTGACTCTGCCACAATATCTG
57974225 TT
1 TT
57974227 GACCGATCGA
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
26 10 0.20
27 39 0.80
ACGTcount: A:0.18, C:0.24, G:0.20, T:0.38
Consensus pattern (26 bp):
TTCTGGTGACTCTGCCACAATATCTG
Found at i:57974346 original size:22 final size:22
Alignment explanation
Indices: 57974314--57974372 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
57974304 CCCGTTATTA
*
57974314 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
57974336 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
57974358 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
57974373 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:57974559 original size:27 final size:27
Alignment explanation
Indices: 57974537--57974610 Score: 98
Period size: 27 Copynumber: 2.8 Consensus size: 27
57974527 TAGGTGGTTT
*
57974537 TGCCACATTATCTG-ATTCTGGTGGCTC
1 TGCCACAATATCTGTA-TCTGGTGGCTC
*
57974564 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGTATCTGGTGGCTC
*
57974591 TGTCACAATATCTGT-TCTGG
1 TGCCACAATATCTGTATCTGG
57974611 CAGCCATGCT
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
26 5 0.12
27 37 0.86
28 1 0.02
ACGTcount: A:0.19, C:0.24, G:0.20, T:0.36
Consensus pattern (27 bp):
TGCCACAATATCTGTATCTGGTGGCTC
Found at i:57974737 original size:6 final size:6
Alignment explanation
Indices: 57974728--57975133 Score: 295
Period size: 6 Copynumber: 66.8 Consensus size: 6
57974718 TTGCATTCAC
* *
57974728 ATTCTG ATTCTG ATTCTG -TCACCTA ATTCTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * *
57974777 -TTACTA ATACTG ATTCTG -TTACTA ATACTG ATTCTG ATTCTG ATTCTG
1 ATT-CTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG ATTCTG
* *
57974825 -TTACTG ATTCTG ATTCTG ATTCTG -TCACTTA ATTCTG ATTCTG ATTCTG
1 ATT-CTG ATTCTG ATTCTG ATTCTG AT-TC-TG ATTCTG ATTCTG ATTCTG
* * * *
57974874 -TTACTG GTTCTG ATTCTG ATTCTG -TCACCTA ATCCTG ATTCTG ATTCTG
1 ATT-CTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG
* * *
57974923 -TTATTA ATACTG ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG
1 ATT-CTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG
* * * *
57974971 ATTCTG -TCACCTA ATTCTG ATTCTG ATTCTG ATTCTG -TTACTA ATACTG
1 ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG
* * *
57975020 ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG ATTTTG ATTCT- ATCACCTA
1 ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG AT--TCTG
* *
57975069 ATTCTG ATTCTG -TTACTA ATAT-TG ATTCTG ATTCTG ATTTTG -TTACTG
1 ATTCTG ATTCTG ATT-CTG AT-TCTG ATTCTG ATTCTG ATTCTG ATT-CTG
57975117 ATTCTG ATTCTG ATTCT
1 ATTCTG ATTCTG ATTCT
57975134 CATTTTGGTT
Statistics
Matches: 319, Mismatches: 44, Indels: 74
0.73 0.10 0.17
Matches are distributed among these distances:
5 27 0.08
6 260 0.82
7 25 0.08
8 7 0.02
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:57974866 original size:43 final size:45
Alignment explanation
Indices: 57974813--57975104 Score: 151
Period size: 49 Copynumber: 5.8 Consensus size: 45
57974803 ACTGATTCTG
*
57974813 ATTCTGATTCTGTTACTGATTCTGATTCTGATTCTGTCACTTAATTCT
1 ATTCTGATTCTGTTACTGATTCTGATTCTGATTCTGTCACCTAA---T
*
57974861 GATTCTGATTCTGTTACTGGTTCTGATTCTGATTCTGTCACCTAATCCT
1 -ATTCTGATTCTGTTACTGATTCTGATTCTGATTCTGTCACCTAA---T
* *
57974910 GATTCTGATTCTGTTATTAATACTGATTCTGATTCTGATTCTGTTA-CTGATTCT
1 -ATTCTGATTCTG----T--TACTGATTCTGATTCTGATTCTGTCACCT-A--AT
* * *
57974964 GATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATT
1 -ATTCTGATTCTGT----T-ACT--GATTCTGATTCTGATTCTG-T-C--A-CCT-AAT
* *
57975023 CTGATTCTGATTCTGTTACTGATTCTGATTTTGATTCTATCACCT-A-
1 ---ATTCTGATTCTGTTACTGATTCTGATTCTGATTCTGTCACCTAAT
*
57975069 ATTCTGATTCTGTTACTAATAT-TGATTCTGATTCTG
1 ATTCTGATTCTGTTACTGAT-TCTGATTCTGATTCTG
57975105 ATTTTGTTAC
Statistics
Matches: 201, Mismatches: 19, Indels: 52
0.74 0.07 0.19
Matches are distributed among these distances:
43 31 0.15
44 1 0.00
49 60 0.30
50 2 0.01
52 2 0.01
53 4 0.02
54 33 0.16
55 44 0.22
56 3 0.01
57 1 0.00
59 2 0.01
61 18 0.09
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (45 bp):
ATTCTGATTCTGTTACTGATTCTGATTCTGATTCTGTCACCTAAT
Found at i:57974869 original size:79 final size:78
Alignment explanation
Indices: 57974728--57975133 Score: 428
Period size: 73 Copynumber: 5.2 Consensus size: 78
57974718 TTGCATTCAC
* * *
57974728 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGT--TACTAATACTGAT
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTG-TACT-TAATACTGATTCTGAT
*
57974791 TCTGTTACTAATACTG
64 TCTGTT-CTGATACTG
* * *
57974807 ATTCTGATTCTGATTCTGTTA-CTGATTCTGATTCTGATTCTGTCACTTAATTCTGATTCTGATT
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGT-ACTTAATACTGATTCTGATT
57974871 CTG---T--TACTG
65 CTGTTCTGATACTG
* *
57974880 GTTCTGATTCTGATTCTGTCACCTAATCCTGATTCTGATTCTGTTA-TTAATACTGATTCTGATT
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTG-TACTTAATACTGATTCTGATT
*
57974944 CTGATTCTGTTACTG
65 CTG-TTCTGATACTG
*
57974959 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTG-TAC---T--TAATACTGATTC
*
57975024 TGATTCTGATTCTGTTACTG
60 TGATTCTG-TTCTGATACTG
* * *
57975044 ATTCTGATTTTGATTCTATCACCTAATTCTGATTCTG----T-TAC-TAATATTGATTCTGATTC
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGTACTTAATACTGATTCTGATTC
* *
57975103 TGATTTTGTTACTG
66 TG-TTCTGATACTG
57975117 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
57975134 CATTTTGGTT
Statistics
Matches: 289, Mismatches: 21, Indels: 40
0.83 0.06 0.11
Matches are distributed among these distances:
73 90 0.31
74 20 0.07
75 2 0.01
77 3 0.01
78 22 0.08
79 83 0.29
81 1 0.00
83 1 0.00
85 67 0.23
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (78 bp):
ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGTACTTAATACTGATTCTGATTC
TGTTCTGATACTG
Found at i:57974956 original size:128 final size:128
Alignment explanation
Indices: 57974728--57975133 Score: 430
Period size: 128 Copynumber: 3.1 Consensus size: 128
57974718 TTGCATTCAC
* **
57974728 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATCCTAATACTAATACTGATTC
*
57974793 TGTTACTAATACTGATTCTGATTCTGATTCTGTTACTGATTCTGATTCTGATTCTGTCACTTA
66 TGTTACTAATACTGATTCTGATTCTGATTCTGTTACTGATTCTGATTCTGATTCTGTCACCTA
* ** * * *
57974856 ATTCTGATTCTGATTCTGTTA-CTGGTTCTGATTCTGATTCTG-TCACCTAATCCTGATTCTGAT
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGAT--CCTAATACTAATACTGAT
*
57974919 TCTGTTATTAATACTGATTCTGATTCTGATTCTGTTACTGATTCTGATTCTGATTCTGTCACCTA
64 TCTGTTACTAATACTGATTCTGATTCTGATTCTGTTACTGATTCTGATTCTGATTCTGTCACCTA
* * ** * *
57974984 ATTCTGATTCTGATTCTGATTCTGTTA-CTAATACTGATTCTGATTCTGATTCTGTTACTGATTC
1 ATTCTGATTCTGATTCTG--TC----ACCTAATTCTGATTCTGATTCTGATCCTAATACTAATAC
* * ** * *
57975048 TGATTTTGATT-CT-ATCACCTAATTCTGATTCTG-TTACTAATATTGATTCTGATTCTGATTTT
60 TGATTCTG-TTACTAAT-A-CTGATTCTGATTCTGATT-CTGTTACTGATTCTGATTCTGATTCT
* *
57975110 GTTA-CTG
121 GTCACCTA
57975117 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
57975134 CATTTTGGTT
Statistics
Matches: 237, Mismatches: 28, Indels: 21
0.83 0.10 0.07
Matches are distributed among these distances:
126 1 0.00
127 19 0.08
128 113 0.48
130 1 0.00
132 2 0.01
133 40 0.17
134 60 0.25
135 1 0.00
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (128 bp):
ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATCCTAATACTAATACTGATTC
TGTTACTAATACTGATTCTGATTCTGATTCTGTTACTGATTCTGATTCTGATTCTGTCACCTA
Found at i:57975113 original size:30 final size:30
Alignment explanation
Indices: 57975069--57975154 Score: 104
Period size: 30 Copynumber: 2.9 Consensus size: 30
57975059 CTATCACCTA
*
57975069 ATTCTGATTCTGTTACTAATAT-TGATTCTG
1 ATTCTGATTTTGTTACTAAT-TCTGATTCTG
*
57975099 ATTCTGATTTTGTTACTGATTCTGATTCTG
1 ATTCTGATTTTGTTACTAATTCTGATTCTG
* *
57975129 ATTCTCATTTTGGTT-CCAATTCTGAT
1 ATTCTGATTTT-GTTACTAATTCTGAT
57975155 AATGTTTCTT
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
29 1 0.02
30 45 0.92
31 3 0.06
ACGTcount: A:0.20, C:0.15, G:0.14, T:0.51
Consensus pattern (30 bp):
ATTCTGATTTTGTTACTAATTCTGATTCTG
Found at i:57975125 original size:73 final size:73
Alignment explanation
Indices: 57974756--57975000 Score: 226
Period size: 79 Copynumber: 3.3 Consensus size: 73
57974746 TCACCTAATT
* * *
57974756 CTGATTCTGATTCTGATTCTGTTA-CTAATACTGATTCTGTTACTAATACTGATTCTGATTCTGA
1 CTGATTCTGATTCTGATTCTATCACCTAATTCTGATTCTGTTACTAATACTGATTCTGATTCTGA
57974820 TTCTGTTA
66 TTCTGTTA
* * ** *
57974828 CTGATTCTGATTCTGATTCTGTCACTTAATTCTGATTCTGATT-CTGTTACTGGTTCTGATTCTG
1 CTGATTCTGATTCTGATTCTATCACCTAATTCTGATTCTG-TTACTAATACTGATTCTGATTCTG
*
57974892 ATTCTGTCA
65 ATTCTGTTA
* * * * * **
57974901 CCTAATCCTGATTCTGATTCTGTTATTAATACTGATTCTGATTCTGATT-CTGTTACTGATTCTG
1 -CTGATTCTGATTCTGATTC---TA-TCA-CCTAATTCTGATTCTG-TTACTAATACTGATTCTG
*
57974965 ATTCTGATTCTGTCA
59 ATTCTGATTCTGTTA
*
57974980 CCTAATTCTGATTCTGATTCT
1 -CTGATTCTGATTCTGATTCT
57975001 GATTCTGTTA
Statistics
Matches: 149, Mismatches: 16, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
72 23 0.15
73 39 0.26
74 19 0.13
76 1 0.01
77 1 0.01
78 2 0.01
79 64 0.43
ACGTcount: A:0.20, C:0.19, G:0.14, T:0.47
Consensus pattern (73 bp):
CTGATTCTGATTCTGATTCTATCACCTAATTCTGATTCTGTTACTAATACTGATTCTGATTCTGA
TTCTGTTA
Found at i:57975129 original size:24 final size:24
Alignment explanation
Indices: 57974756--57975133 Score: 334
Period size: 24 Copynumber: 14.8 Consensus size: 24
57974746 TCACCTAATT
57974756 CTGATTCTGATTCTGATTCTGTTA
1 CTGATTCTGATTCTGATTCTGTTA
* * **
57974780 CTAATACTGATTCTG-TTACTAATA
1 CTGATTCTGATTCTGATT-CTGTTA
57974804 CTGATTCTGATTCTGATTCTGTTA
1 CTGATTCTGATTCTGATTCTGTTA
*
57974828 CTGATTCTGATTCTGATTCTGTCA
1 CTGATTCTGATTCTGATTCTGTTA
*
57974852 CTTAATTCTGATTCTGATTCTGTTA
1 C-TGATTCTGATTCTGATTCTGTTA
* *
57974877 CTGGTTCTGATTCTGATTCTGTCA
1 CTGATTCTGATTCTGATTCTGTTA
* *
57974901 CCTAATCCTGATTCTGATTCTGTTATTAATA
1 -CTGATTCTGATTCTGATTCTG----T--TA
57974932 CTGATTCTGATTCTGATTCTGTTA
1 CTGATTCTGATTCTGATTCTGTTA
57974956 CTGATTCTGATTCTGATTCTGTCACCTAA
1 CTGATTCTGATTCTGATTCTGT----T-A
57974985 TTCTGATTCTGATTCTGATTCTGTTA
1 --CTGATTCTGATTCTGATTCTGTTA
* *
57975011 CTAATACTGATTCTGATTCTGATT-
1 CTGATTCTGATTCTGATTCTG-TTA
*
57975035 CTG-TTACTGATTCTGATTTTGATT-
1 CTGATT-CTGATTCTGATTCTG-TTA
* *
57975059 CT-ATCACCTAATTCTGATTCTGTTA
1 CTGAT--TCTGATTCTGATTCTGTTA
*
57975084 CTAATATTGATTCTGATTCTGATTTTGTTA
1 C------TGATTCTGATTCTGATTCTGTTA
57975114 CTGATTCTGATTCTGATTCT
1 CTGATTCTGATTCTGATTCT
57975134 CATTTTGGTT
Statistics
Matches: 292, Mismatches: 32, Indels: 60
0.76 0.08 0.16
Matches are distributed among these distances:
23 3 0.01
24 163 0.56
25 58 0.20
26 2 0.01
27 1 0.00
28 1 0.00
29 2 0.01
30 36 0.12
31 24 0.08
32 2 0.01
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (24 bp):
CTGATTCTGATTCTGATTCTGTTA
Found at i:57975140 original size:85 final size:84
Alignment explanation
Indices: 57974828--57975140 Score: 323
Period size: 85 Copynumber: 3.8 Consensus size: 84
57974818 GATTCTGTTA
* * *
57974828 CTGATTCTGATTCTGATTCTGTCACT--TA---ATTCTGATTCTGATTCTGTTACTGGTTCTGAT
1 CTGATTCTGATTCTAATTCTGTTACTAATACTGATTCTGATTCTGATTCTGTT-CTGATTCTGAT
* *
57974888 TCTGATTCTGTCACCTAA-T
65 TTTGATTCTATCACCTAATT
* *
57974907 C-----CTGATTCTGATTCTGTTATTAATACTGATTCTGATTCTGATTCTGTTACTGATTCTGAT
1 CTGATTCTGATTCTAATTCTGTTACTAATACTGATTCTGATTCTGATTCTGTT-CTGATTCTGAT
* *
57974967 TCTGATTCTGTCACCTAATT
65 TTTGATTCTATCACCTAATT
*
57974987 CTGATTCTGATTCTGATTCTGTTACTAATACTGATTCTGATTCTGATTCTGTTACTGATTCTGAT
1 CTGATTCTGATTCTAATTCTGTTACTAATACTGATTCTGATTCTGATTCTGTT-CTGATTCTGAT
57975052 TTTGATTCTATCACCTAATT
65 TTTGATTCTATCACCTAATT
* * *
57975072 CTGATTCTG-TTACTAATAT-TGATT-CTGATTCTGATTTTG-TTACTGATTCTGATTCTGATTC
1 CTGATTCTGATT-CTAAT-TCTG-TTACTAATACTGATTCTGATT-CTGATTCTG-TTCTGATTC
*
57975133 TCATTTTG
61 TGATTTTG
57975141 GTTCCAATTC
Statistics
Matches: 207, Mismatches: 11, Indels: 26
0.85 0.05 0.11
Matches are distributed among these distances:
74 18 0.09
76 2 0.01
79 50 0.24
80 2 0.01
84 4 0.02
85 126 0.61
86 5 0.02
ACGTcount: A:0.19, C:0.18, G:0.14, T:0.49
Consensus pattern (84 bp):
CTGATTCTGATTCTAATTCTGTTACTAATACTGATTCTGATTCTGATTCTGTTCTGATTCTGATT
TTGATTCTATCACCTAATT
Found at i:57977014 original size:9 final size:9
Alignment explanation
Indices: 57977000--57977024 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
57976990 TATGTGATTA
57977000 TATAAATTT
1 TATAAATTT
57977009 TATAAATTT
1 TATAAATTT
57977018 TATAAAT
1 TATAAAT
57977025 ATATGAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (9 bp):
TATAAATTT
Found at i:57977128 original size:34 final size:32
Alignment explanation
Indices: 57977064--57977128 Score: 85
Period size: 34 Copynumber: 2.0 Consensus size: 32
57977054 CCGAAAAATA
*
57977064 TTAAGTTCTTTGAATAATGAATTTTAATGGAG
1 TTAAGTTCTTTGAATAATGAATTTCAATGGAG
* *
57977096 TTAAGTTCTGTTTGAATGATGAATTTCGATGGA
1 TTAAGTTC--TTTGAATAATGAATTTCAATGGA
57977129 TATATGTGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 8 0.29
34 20 0.71
ACGTcount: A:0.31, C:0.05, G:0.22, T:0.43
Consensus pattern (32 bp):
TTAAGTTCTTTGAATAATGAATTTCAATGGAG
Found at i:57984459 original size:27 final size:27
Alignment explanation
Indices: 57984327--57984459 Score: 160
Period size: 27 Copynumber: 4.9 Consensus size: 27
57984317 AAGACCCCTA
* * *
57984327 ATTTGTAAAATTACTGAAATACCCCCT
1 ATTTGTAAAATTACCGAAATACCCTCG
* *
57984354 ACTTGTAAAATTA-CTAAGATACCCTCG
1 ATTTGTAAAATTACCGAA-ATACCCTCG
* *
57984381 ATTTGTAAAATTACCAAAATACCCTTG
1 ATTTGTAAAATTACCGAAATACCCTCG
**
57984408 ATTTGTAAAATTATTGAAATACCCTCG
1 ATTTGTAAAATTACCGAAATACCCTCG
*
57984435 ATTTGTGAAATTACCGAAATACCCT
1 ATTTGTAAAATTACCGAAATACCCT
57984460 TATAGGGTAG
Statistics
Matches: 89, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
26 2 0.02
27 84 0.94
28 3 0.03
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.33
Consensus pattern (27 bp):
ATTTGTAAAATTACCGAAATACCCTCG
Found at i:57984459 original size:54 final size:53
Alignment explanation
Indices: 57984327--57984461 Score: 182
Period size: 54 Copynumber: 2.5 Consensus size: 53
57984317 AAGACCCCTA
* *
57984327 ATTTGTAAAATTACTGAAATACCCCCTACTTGTAAAATTACTAAGATACCCTCG
1 ATTTGTAAAATTACCGAAATA-CCCTTACTTGTAAAATTACTAAGATACCCTCG
* * *
57984381 ATTTGTAAAATTACCAAAATACCCTTGATTTGTAAAATTATTGAA-ATACCCTCG
1 ATTTGTAAAATTACCGAAATACCCTT-ACTTGTAAAATTACT-AAGATACCCTCG
*
57984435 ATTTGTGAAATTACCGAAATACCCTTA
1 ATTTGTAAAATTACCGAAATACCCTTA
57984462 TAGGGTAGGA
Statistics
Matches: 72, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
53 5 0.07
54 65 0.90
55 2 0.03
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (53 bp):
ATTTGTAAAATTACCGAAATACCCTTACTTGTAAAATTACTAAGATACCCTCG
Found at i:57984474 original size:27 final size:27
Alignment explanation
Indices: 57984444--57984495 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
57984434 GATTTGTGAA
*
57984444 ATTACCGAAATACCCTTATAGGGTAGG
1 ATTACCGAAATACCCTTAAAGGGTAGG
*
57984471 ATTACTGAAATACCCTTAAAGGGTA
1 ATTACCGAAATACCCTTAAAGGGTA
57984496 AAATGATCGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.27
Consensus pattern (27 bp):
ATTACCGAAATACCCTTAAAGGGTAGG
Found at i:57984480 original size:54 final size:54
Alignment explanation
Indices: 57984358--57984486 Score: 163
Period size: 54 Copynumber: 2.4 Consensus size: 54
57984348 CCCCCTACTT
**
57984358 GTAAAATTACT-AAGATACCCTCGATTTGTAAAATTACCAAAATACCCTTGATTT
1 GTAAAATTACTGAA-ATACCCTCGATTTGTAAAATTACCAAAATACCCTTGATGG
* * *
57984412 GTAAAATTATTGAAATACCCTCGATTTGTGAAATTACCGAAATACCCTT-ATAGG
1 GTAAAATTACTGAAATACCCTCGATTTGTAAAATTACCAAAATACCCTTGAT-GG
**
57984466 GTAGGATTACTGAAATACCCT
1 GTAAAATTACTGAAATACCCT
57984487 TAAAGGGTAA
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
53 2 0.03
54 61 0.94
55 2 0.03
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (54 bp):
GTAAAATTACTGAAATACCCTCGATTTGTAAAATTACCAAAATACCCTTGATGG
Found at i:57986299 original size:17 final size:17
Alignment explanation
Indices: 57986277--57986310 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
57986267 GATCAGTATA
*
57986277 TATTGTCATTGCATTTT
1 TATTGTCATTACATTTT
57986294 TATTGTCATTACATTTT
1 TATTGTCATTACATTTT
57986311 CATGTTAGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.59
Consensus pattern (17 bp):
TATTGTCATTACATTTT
Found at i:57987572 original size:15 final size:15
Alignment explanation
Indices: 57987552--57987582 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
57987542 CAATCTTACC
57987552 TTAGTTTAGTCTACA
1 TTAGTTTAGTCTACA
57987567 TTAGTTTAGTCTACA
1 TTAGTTTAGTCTACA
57987582 T
1 T
57987583 GTTAGACATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.13, G:0.13, T:0.48
Consensus pattern (15 bp):
TTAGTTTAGTCTACA
Found at i:57997519 original size:15 final size:15
Alignment explanation
Indices: 57997499--57997530 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
57997489 CATTTCACTA
*
57997499 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
57997514 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
57997529 TT
1 TT
57997531 TGTATGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:57998709 original size:19 final size:19
Alignment explanation
Indices: 57998685--57998724 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
57998675 ATTAATTTTG
57998685 ATCAAGTAAAATT-AAATTA
1 ATCAAGT-AAATTAAAATTA
*
57998704 ATCAAGTTAATTAAAATTA
1 ATCAAGTAAATTAAAATTA
57998723 AT
1 AT
57998725 TTTCAAGCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.35
Consensus pattern (19 bp):
ATCAAGTAAATTAAAATTA
Found at i:58003586 original size:12 final size:12
Alignment explanation
Indices: 58003569--58003593 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
58003559 AATTTGGATG
58003569 TTATTATTATTT
1 TTATTATTATTT
58003581 TTATTATTATTT
1 TTATTATTATTT
58003593 T
1 T
58003594 GTATGTCTAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (12 bp):
TTATTATTATTT
Found at i:58005601 original size:27 final size:26
Alignment explanation
Indices: 58005571--58005628 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
58005561 ATTTACTAAA
58005571 ATACCCCTAAGTATG-AAAATTACCACT
1 ATACCCCT-AG-ATGCAAAATTACCACT
* *
58005598 ATACCCCTAGGTGCAAAATTACCATT
1 ATACCCCTAGATGCAAAATTACCACT
58005624 ATACC
1 ATACC
58005629 ATGACATGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 2 0.07
26 18 0.64
27 8 0.29
ACGTcount: A:0.38, C:0.28, G:0.09, T:0.26
Consensus pattern (26 bp):
ATACCCCTAGATGCAAAATTACCACT
Found at i:58005726 original size:28 final size:28
Alignment explanation
Indices: 58005681--58005796 Score: 146
Period size: 28 Copynumber: 4.2 Consensus size: 28
58005671 GGAAGAAGCG
*
58005681 TTCTGGTGGCTATGCCACAAATATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
* * *
58005709 TTCTGGTGGCTCTACCACAAATATTTGA
1 TTCTGGTGGCTCTGCCACAAATATCTGT
*
58005737 TTCTGGTGGCACTGCCACAAATATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
* * *
58005765 ATCTGGTGACTCTGTCAC-AATATCTG-
1 TTCTGGTGGCTCTGCCACAAATATCTGT
58005791 TTCTGG
1 TTCTGG
58005797 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 13, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
26 5 0.07
27 8 0.11
28 62 0.83
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.35
Consensus pattern (28 bp):
TTCTGGTGGCTCTGCCACAAATATCTGT
Found at i:58011718 original size:46 final size:46
Alignment explanation
Indices: 58011651--58011871 Score: 406
Period size: 46 Copynumber: 4.8 Consensus size: 46
58011641 TATAACCCGC
* * * *
58011651 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCCGTTCGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCAT
58011697 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCAT
58011743 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCAT
58011789 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCAT
58011835 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
58011872 TGCTCAACCA
Statistics
Matches: 171, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 171 1.00
ACGTcount: A:0.32, C:0.29, G:0.19, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:58012328 original size:30 final size:30
Alignment explanation
Indices: 58012294--58012353 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
58012284 ATTTAATACG
58012294 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
58012324 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
58012354 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:58014953 original size:40 final size:40
Alignment explanation
Indices: 58014906--58015250 Score: 566
Period size: 40 Copynumber: 8.6 Consensus size: 40
58014896 CAAGCTCAAT
* * * * *
58014906 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
58014946 TGCCTTCGGGTCTTAGCCCGGATATATCAACTT-GCACAAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAA-TTCGCACAAA
58014986 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* * *
58015026 CGCCATCGGGTCTTAGCCCGGATATATCAGTTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
58015066 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
58015106 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
58015146 TGCCTTCTGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* *
58015186 TGCCTTCGGGTCTAAACCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
58015226 TGCCTTCGGGTCTTAGCCCGGATAT
1 TGCCTTCGGGTCTTAGCCCGGATAT
58015251 CATTCAAATG
Statistics
Matches: 284, Mismatches: 19, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
39 2 0.01
40 281 0.99
41 1 0.00
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
Done.