Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11
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: 47972186
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2603476 characters in sequence are not A, C, G, or T
File 41 of 145
Found at i:14580057 original size:15 final size:15
Alignment explanation
Indices: 14580016--14580057 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
14580006 AGGGTTGATA
14580016 TTTAAGGTTTAGGGG
1 TTTAAGGTTTAGGGG
14580031 -TTAGAGGTTTAGGGG
1 TTTA-AGGTTTAGGGG
*
14580046 TTTAAGGGTTAG
1 TTTAAGGTTTAG
14580058 ACGTTAGGGG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 3 0.12
15 18 0.75
16 3 0.12
ACGTcount: A:0.21, C:0.00, G:0.40, T:0.38
Consensus pattern (15 bp):
TTTAAGGTTTAGGGG
Found at i:14580883 original size:16 final size:16
Alignment explanation
Indices: 14580862--14580931 Score: 95
Period size: 16 Copynumber: 4.4 Consensus size: 16
14580852 TTTGGTTCGC
* *
14580862 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
* *
14580878 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
*
14580894 TGTAATGTAATAGAGG
1 TGTAATGGAATAGAGG
14580910 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
14580926 TGTAAT
1 TGTAAT
14580932 AGCAAATCAA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.31, C:0.00, G:0.34, T:0.34
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:14581015 original size:39 final size:43
Alignment explanation
Indices: 14580910--14581019 Score: 120
Period size: 45 Copynumber: 2.6 Consensus size: 43
14580900 GTAATAGAGG
14580910 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTT--A
** * ***
14580955 TGTAATGGAATAGAGACGTAATAG-TAATCTTGTGTTTGG-T-
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTA
14580995 TG-AATGGAATAGAGGTGTAATAGCA
1 TGTAATGGAATAGAGGTGTAATAGCA
14581020 TAATGGAAAA
Statistics
Matches: 55, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
39 19 0.35
40 2 0.04
43 1 0.02
44 11 0.20
45 22 0.40
ACGTcount: A:0.35, C:0.05, G:0.28, T:0.32
Consensus pattern (43 bp):
TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTA
Found at i:14584349 original size:27 final size:27
Alignment explanation
Indices: 14584296--14584356 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
14584286 CCACGCCTGT
* **
14584296 TGATGTTGTTGCTGTTGCAGATGATGA
1 TGATGATGTTGCTGTTGCAGAAAATGA
**
14584323 TGATGATGTTGCTGTTGTTGAAAATGA
1 TGATGATGTTGCTGTTGCAGAAAATGA
14584350 TGATGAT
1 TGATGAT
14584357 TCTGCACCAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.23, C:0.05, G:0.31, T:0.41
Consensus pattern (27 bp):
TGATGATGTTGCTGTTGCAGAAAATGA
Found at i:14588916 original size:43 final size:43
Alignment explanation
Indices: 14588857--14589121 Score: 320
Period size: 42 Copynumber: 6.2 Consensus size: 43
14588847 AAAAGTTTGT
* * ** *
14588857 TCTATAGTGGCATTTGTAAAAAAAGCGCCGCTAAAGGTTGTGG
1 TCTATAGCGGCGTTTGTTGAAAAAGCGCCGCTAAAGGTCGTGG
* * *
14588900 TCTATAGCGACGTTTGTGGAAAAAGCGCCGCTAAAGGTCCTGG
1 TCTATAGCGGCGTTTGTTGAAAAAGCGCCGCTAAAGGTCGTGG
* *
14588943 TCTTTAGCGGCG-TTGTTGAAAAAGCGCCGCTAAAGGTCCTGG
1 TCTATAGCGGCGTTTGTTGAAAAAGCGCCGCTAAAGGTCGTGG
* * * *
14588985 TCTTTAGTGGAGTTT-TTGGAAAAGCGCCGCTAAAGGTCGTGG
1 TCTATAGCGGCGTTTGTTGAAAAAGCGCCGCTAAAGGTCGTGG
* * *
14589027 TCTATAGCGGTGTTT-TTGGAAAAGCGCCGCTAAAGGTCATGG
1 TCTATAGCGGCGTTTGTTGAAAAAGCGCCGCTAAAGGTCGTGG
* * **
14589069 TCTTTAGCGGCGTTTGTAGGTAAAGCGCCGCTAAAGGTCGTGG
1 TCTATAGCGGCGTTTGTTGAAAAAGCGCCGCTAAAGGTCGTGG
14589112 TCTATAGCGG
1 TCTATAGCGG
14589122 TGATTATTTC
Statistics
Matches: 196, Mismatches: 24, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
42 115 0.59
43 81 0.41
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (43 bp):
TCTATAGCGGCGTTTGTTGAAAAAGCGCCGCTAAAGGTCGTGG
Found at i:14589047 original size:127 final size:127
Alignment explanation
Indices: 14588877--14589114 Score: 379
Period size: 127 Copynumber: 1.9 Consensus size: 127
14588867 CATTTGTAAA
* *
14588877 AAAAGCGCCGCTAAAGGTTGTGGTCTATAGCGACGTTTGTGGAAAAAGCGCCGCTAAAGGTCCTG
1 AAAAGCGCCGCTAAAGGTCGTGGTCTATAGCGACGTTTGTGG-AAAAGCGCCGCTAAAGGTCATG
*
14588942 GTCTTTAGCGGCG-TTGTTGAAAAAGCGCCGCTAAAGGTCCTGGTCTTTAGTGGAGTTTTTGG
65 GTCTTTAGCGGCGTTTGTAGAAAAAGCGCCGCTAAAGGTCCTGGTCTTTAGTGGAGTTTTTGG
** *
14589004 AAAAGCGCCGCTAAAGGTCGTGGTCTATAGCGGTGTTTTTGGAAAAGCGCCGCTAAAGGTCATGG
1 AAAAGCGCCGCTAAAGGTCGTGGTCTATAGCGACGTTTGTGGAAAAGCGCCGCTAAAGGTCATGG
** *
14589069 TCTTTAGCGGCGTTTGTAGGTAAAGCGCCGCTAAAGGTCGTGGTCT
66 TCTTTAGCGGCGTTTGTAGAAAAAGCGCCGCTAAAGGTCCTGGTCT
14589115 ATAGCGGTGA
Statistics
Matches: 101, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
126 34 0.34
127 67 0.66
ACGTcount: A:0.23, C:0.18, G:0.32, T:0.27
Consensus pattern (127 bp):
AAAAGCGCCGCTAAAGGTCGTGGTCTATAGCGACGTTTGTGGAAAAGCGCCGCTAAAGGTCATGG
TCTTTAGCGGCGTTTGTAGAAAAAGCGCCGCTAAAGGTCCTGGTCTTTAGTGGAGTTTTTGG
Found at i:14604709 original size:29 final size:29
Alignment explanation
Indices: 14604675--14604732 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
14604665 TAATGCTTAT
14604675 TAGATTAACTACATCTATTAAAAATTAAC
1 TAGATTAACTACATCTATTAAAAATTAAC
*
14604704 TAGATTAATTACATCTATTAAAAATTAAC
1 TAGATTAACTACATCTATTAAAAATTAAC
14604733 ACAACTTTCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.48, C:0.12, G:0.03, T:0.36
Consensus pattern (29 bp):
TAGATTAACTACATCTATTAAAAATTAAC
Found at i:14609653 original size:566 final size:567
Alignment explanation
Indices: 14608539--14610238 Score: 2791
Period size: 566 Copynumber: 3.0 Consensus size: 567
14608529 GGCTAGAAAA
* *
14608539 CTTAGGCAACTCAGGCCAATGAGGTGCTTCTAATTCATTTGATCTTAATGCCCCTTCTAGTGAGG
1 CTTAGGCAACTCAGGCCAATGAGGTGCTTCTAATTCATTTGATCTTAATGCCCCTTCTAGTCAAG
* * * * * *
14608604 GGACATCCTTCCCCATTGATCAGGGAGTATTGCTGCAATAATTGTTTGGTTTGCAGGAGCAACTA
66 GGCCATCCTTCCCCTTTGATCAGGGAGTATCGCCGCAAAAATTGTTTGGTTTGCAGGAACAACTA
* * * *
14608669 AGTTTAATGAAAAAATAGATGACTCAAAGAAGTTTCAGGTTTGAACAACATCAATTGTTTCACTA
131 AGTTTAATGAAAGAACAGATGACTCAACGAAGTATCAGGTTTGAACAACATCAATTGTTTCACTA
* * * *
14608734 GGAGCTATTGATGCAAAACGAAGAAATAAGAAGAAAGATACAGTTCGACCTTTCTGATCTTCAAG
196 GGAGCTGTTGATACAAAACGAAGAATTAAGAAGAAAGATACAGTTCGACCATTCTGATCTTCAAG
**
14608799 GCAATGTCGCGCCTCTTCAAGAGGAGATTACGGAGGCACATGCAAAGCCATGGCAGAATGAGATG
261 GCAATGTCGCGCCTCTTCAAGAGGAGATTGTGGAGGCACATGCAAAGCCATGGCAGAATGAGATG
*
14608864 GATGCTTTACGTAGATAAGTTCAAGAATTACACCCTGATGTGCAAGACATGGACTGATTATTTTA
326 GATGCTTTGCGTAGATAAGTTCAAGAATTACACCCTGATGTGCAAGACATGGACTGATTATTTTA
* *
14608929 TTCTAACAACCTTTTGTCTCTAGAAA-TGCCAACTGTGAGCCTACCATCTGAGTTCAAAGTGCCG
391 TTCTAACAACCTTTTGTCTCTA-AAAGTGCCAACTGTGAGCCTAGCATCCGAGTTCAAAGTGCCG
14608993 AAAGAAATGTTCGAAGGTAGAAGGGACCCCAAGGCACATCTTATGTAGTATAATGATTATATGAA
455 AAAGAAATGTTCGAAGGTAGAAGGGACCCCAAGGCACATCTTATGTAGTATAATGATTATATGAA
* *
14609058 AGTGTTAA-GGCCTCAAATGTGGTAGAGTGTAGGCTTTTTCAATAATT
520 AGTGTTAAGGGCCTCAAATGTGGCAGAGTGTAGGCTTTTTCAATGATT
14609105 CTTAGGCAACTCAGGCCAATGAGGTGCTTCTAATTCATTTGATCTTAATGCCCCTTCTAGTCAAG
1 CTTAGGCAACTCAGGCCAATGAGGTGCTTCTAATTCATTTGATCTTAATGCCCCTTCTAGTCAAG
* * * *
14609170 GGCCATCCTTCCCCTTTGATCAGAGAGTATCACCGTAAAAATTGTTTGGTTTACAGGAACAACTA
66 GGCCATCCTTCCCCTTTGATCAGGGAGTATCGCCGCAAAAATTGTTTGGTTTGCAGGAACAACTA
* *
14609235 AGTATAATGAAAGAACAGATGACTCAACGAAGTATCAGGTTTGAACAATATCAATTGTTTCACTA
131 AGTTTAATGAAAGAACAGATGACTCAACGAAGTATCAGGTTTGAACAACATCAATTGTTTCACTA
14609300 GGAGCTGTTGATACAAAACGAAGAATTAAGAAGAAAGATACAGTTCGACCATT-TGATCTTCAAG
196 GGAGCTGTTGATACAAAACGAAGAATTAAGAAGAAAGATACAGTTCGACCATTCTGATCTTCAAG
* *
14609364 GAAATGTCGCGCCTCTTCAAGAGGAGATTGTGGAGGCACATGCAAAGCCATGGTAGAATGAGATG
261 GCAATGTCGCGCCTCTTCAAGAGGAGATTGTGGAGGCACATGCAAAGCCATGGCAGAATGAGATG
* * * *
14609429 GATGCTTTGCTTAGATATGTTCAAGCATTACACCCTGATGTGCAAGACATGGACTGATTGTTTTA
326 GATGCTTTGCGTAGATAAGTTCAAGAATTACACCCTGATGTGCAAGACATGGACTGATTATTTTA
*
14609494 TTCTAACAACCTTTTGTCTCTAAAAGTGCCAACTGTGAGCCTAGCATCCGAGTTCAAATTGCCGA
391 TTCTAACAACCTTTTGTCTCTAAAAGTGCCAACTGTGAGCCTAGCATCCGAGTTCAAAGTGCCGA
*
14609559 AAGAAATGTTCGAAGGTAGAAGGGACCCCAAGGCACATCTTATGTAGTATAATGATTATATGAAT
456 AAGAAATGTTCGAAGGTAGAAGGGACCCCAAGGCACATCTTATGTAGTATAATGATTATATGAAA
* *
14609624 GTGTTAAGGGCCTTAAATGTGGCAGAGTGTAGGCTTTTTCAACGATT
521 GTGTTAAGGGCCTCAAATGTGGCAGAGTGTAGGCTTTTTCAATGATT
* *
14609671 CTTAGTCAACTCAGGCCAATGGGGTGCTTCTAATTCATTTGATCTTAATGCCCCTTCTAGTCAAG
1 CTTAGGCAACTCAGGCCAATGAGGTGCTTCTAATTCATTTGATCTTAATGCCCCTTCTAGTCAAG
* * * *
14609736 GGCTATCCTTCCCTTTTGATCAGGGAGTATCGCCACAACAATTGTTTGGTTTGCAGGAACAACTA
66 GGCCATCCTTCCCCTTTGATCAGGGAGTATCGCCGCAAAAATTGTTTGGTTTGCAGGAACAACTA
* *
14609801 AGTTTGATGAAAGAACAGATGACTCAACGAAGTATCAGGTTTGAACAACATCAATTGTTTCACCA
131 AGTTTAATGAAAGAACAGATGACTCAACGAAGTATCAGGTTTGAACAACATCAATTGTTTCACTA
* * *
14609866 AGAGCTG--G-TACAAAACGAAGAATTAAGAAGAAAGATATAGTTCCACCATTCTGATCTTCAAG
196 GGAGCTGTTGATACAAAACGAAGAATTAAGAAGAAAGATACAGTTCGACCATTCTGATCTTCAAG
* * *
14609928 GCAATGTCGTGCCTCTTCAAGAGGAGATTGTGGAGCCACATGCAAAGCCATGACAGAATGAGATG
261 GCAATGTCGCGCCTCTTCAAGAGGAGATTGTGGAGGCACATGCAAAGCCATGGCAGAATGAGATG
* *
14609993 GATGCTTTGCGTAGATAAGTTCAAGGATTACACCCTGATGTGCAAGACATGGATTGATTATTTTA
326 GATGCTTTGCGTAGATAAGTTCAAGAATTACACCCTGATGTGCAAGACATGGACTGATTATTTTA
* * * *
14610058 TTCTAACAACCTTTTGTCTCTAGAAGTGCCAACTGTGAGCCTAGCATCCGAGTTTAAAGTACTGA
391 TTCTAACAACCTTTTGTCTCTAAAAGTGCCAACTGTGAGCCTAGCATCCGAGTTCAAAGTGCCGA
* * *
14610123 AAGAAATTTTCGAAGGTAGAAGGGACCTCAAGGCACATCTTATGTAGTATAATGATTATATAAAA
456 AAGAAATGTTCGAAGGTAGAAGGGACCCCAAGGCACATCTTATGTAGTATAATGATTATATGAAA
14610188 GTGTTAAGGGCCTCAAATGTGGCAGAGTGTAGGCTTTTTCAATGATT
521 GTGTTAAGGGCCTCAAATGTGGCAGAGTGTAGGCTTTTTCAATGATT
14610235 CTTA
1 CTTA
14610239 AGGGAAGTGC
Statistics
Matches: 1054, Mismatches: 77, Indels: 8
0.93 0.07 0.01
Matches are distributed among these distances:
563 40 0.04
564 305 0.29
565 261 0.25
566 448 0.43
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.29
Consensus pattern (567 bp):
CTTAGGCAACTCAGGCCAATGAGGTGCTTCTAATTCATTTGATCTTAATGCCCCTTCTAGTCAAG
GGCCATCCTTCCCCTTTGATCAGGGAGTATCGCCGCAAAAATTGTTTGGTTTGCAGGAACAACTA
AGTTTAATGAAAGAACAGATGACTCAACGAAGTATCAGGTTTGAACAACATCAATTGTTTCACTA
GGAGCTGTTGATACAAAACGAAGAATTAAGAAGAAAGATACAGTTCGACCATTCTGATCTTCAAG
GCAATGTCGCGCCTCTTCAAGAGGAGATTGTGGAGGCACATGCAAAGCCATGGCAGAATGAGATG
GATGCTTTGCGTAGATAAGTTCAAGAATTACACCCTGATGTGCAAGACATGGACTGATTATTTTA
TTCTAACAACCTTTTGTCTCTAAAAGTGCCAACTGTGAGCCTAGCATCCGAGTTCAAAGTGCCGA
AAGAAATGTTCGAAGGTAGAAGGGACCCCAAGGCACATCTTATGTAGTATAATGATTATATGAAA
GTGTTAAGGGCCTCAAATGTGGCAGAGTGTAGGCTTTTTCAATGATT
Found at i:14621563 original size:21 final size:21
Alignment explanation
Indices: 14621539--14621650 Score: 84
Period size: 21 Copynumber: 5.3 Consensus size: 21
14621529 GTGTTTTACT
14621539 TTCTGTTAAGCTCTTTTGAGC
1 TTCTGTTAAGCTCTTTTGAGC
* * *
14621560 TTCTGTTTAA-CTCATATGAGT
1 TTCTG-TTAAGCTCTTTTGAGC
* *
14621581 TTCCGTTCAGCTCTTTTGAGC
1 TTCTGTTAAGCTCTTTTGAGC
* * * * *
14621602 TTTTGTTTAA-CCCTTATGGGT
1 TTCTG-TTAAGCTCTTTTGAGC
* *
14621623 TTCCGTTCAGCTCTTTTGAGC
1 TTCTGTTAAGCTCTTTTGAGC
14621644 TTCTGTT
1 TTCTGTT
14621651 TAACCCTTAT
Statistics
Matches: 64, Mismatches: 23, Indels: 8
0.67 0.24 0.08
Matches are distributed among these distances:
20 6 0.09
21 51 0.80
22 7 0.11
ACGTcount: A:0.13, C:0.21, G:0.18, T:0.48
Consensus pattern (21 bp):
TTCTGTTAAGCTCTTTTGAGC
Found at i:14621609 original size:42 final size:42
Alignment explanation
Indices: 14621538--14621776 Score: 280
Period size: 42 Copynumber: 5.7 Consensus size: 42
14621528 CGTGTTTTAC
* * * * *
14621538 TTTCTGTTAAGCTCTTTTGAGCTTCTGTTTAACTCATATGAG
1 TTTCCGTTCAGCTCTTTTGAGCTTCTGTTTAACCCTTATGGG
*
14621580 TTTCCGTTCAGCTCTTTTGAGCTTTTGTTTAACCCTTATGGG
1 TTTCCGTTCAGCTCTTTTGAGCTTCTGTTTAACCCTTATGGG
*
14621622 TTTCCGTTCAGCTCTTTTGAGCTTCTGTTTAACCCTTATGGA
1 TTTCCGTTCAGCTCTTTTGAGCTTCTGTTTAACCCTTATGGG
* * * *
14621664 TTTTCATTCAGCTCTTTTGAGTTTCTGTTTCACCCTTATGGG
1 TTTCCGTTCAGCTCTTTTGAGCTTCTGTTTAACCCTTATGGG
* *** * *
14621706 TTTCCATTCAGCTCTTACAAGCTTCTGTTCAACCTTTATGGG
1 TTTCCGTTCAGCTCTTTTGAGCTTCTGTTTAACCCTTATGGG
** * **
14621748 TTTCTATTTAGCTCTCATGAGCTTCTGTT
1 TTTCCGTTCAGCTCTTTTGAGCTTCTGTT
14621777 CAGCTTTCGA
Statistics
Matches: 171, Mismatches: 26, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 171 1.00
ACGTcount: A:0.15, C:0.22, G:0.16, T:0.47
Consensus pattern (42 bp):
TTTCCGTTCAGCTCTTTTGAGCTTCTGTTTAACCCTTATGGG
Found at i:14621708 original size:21 final size:21
Alignment explanation
Indices: 14621605--14621709 Score: 61
Period size: 21 Copynumber: 5.0 Consensus size: 21
14621595 TTTGAGCTTT
*
14621605 TGTTTAACCCTTATGGGTTTC
1 TGTTTCACCCTTATGGGTTTC
* * * * *
14621626 CG-TTCAGCTCTTTTGAGCTTC
1 TGTTTCA-CCCTTATGGGTTTC
* *
14621647 TGTTTAACCCTTATGGATTT-
1 TGTTTCACCCTTATGGGTTTC
** * * *
14621667 TCATTCAGCTCTTTTGAGTTTC
1 TGTTTCA-CCCTTATGGGTTTC
14621689 TGTTTCACCCTTATGGGTTTC
1 TGTTTCACCCTTATGGGTTTC
14621710 CATTCAGCTC
Statistics
Matches: 55, Mismatches: 25, Indels: 8
0.62 0.28 0.09
Matches are distributed among these distances:
20 7 0.13
21 40 0.73
22 8 0.15
ACGTcount: A:0.13, C:0.22, G:0.17, T:0.48
Consensus pattern (21 bp):
TGTTTCACCCTTATGGGTTTC
Found at i:14621722 original size:21 final size:21
Alignment explanation
Indices: 14621614--14621722 Score: 58
Period size: 21 Copynumber: 5.2 Consensus size: 21
14621604 TTGTTTAACC
*
14621614 CTTATGGGTTTCCGTTCAGCT
1 CTTATGGGTTTCCATTCAGCT
* * * ** * * *
14621635 CTTTTGAGCTTCTGTTTAACC
1 CTTATGGGTTTCCATTCAGCT
* *
14621656 CTTATGGATTTTCATTCAGCT
1 CTTATGGGTTTCCATTCAGCT
* * ** *
14621677 CTTTTGAGTTTCTGTTTCA-CC
1 CTTATGGGTTTC-CATTCAGCT
14621698 CTTATGGGTTTCCATTCAGCT
1 CTTATGGGTTTCCATTCAGCT
14621719 CTTA
1 CTTA
14621723 CAAGCTTCTG
Statistics
Matches: 57, Mismatches: 29, Indels: 4
0.63 0.32 0.04
Matches are distributed among these distances:
20 4 0.07
21 49 0.86
22 4 0.07
ACGTcount: A:0.14, C:0.23, G:0.17, T:0.47
Consensus pattern (21 bp):
CTTATGGGTTTCCATTCAGCT
Found at i:14628016 original size:52 final size:52
Alignment explanation
Indices: 14627946--14628048 Score: 143
Period size: 52 Copynumber: 2.0 Consensus size: 52
14627936 ACCAGTAACG
* *
14627946 CAGCAAAGCTGCCAGTATCTGTAACGCAGCAAAGCTACTAGTAACAGTATTA
1 CAGCAAAGCCGCCAGTATCAGTAACGCAGCAAAGCTACTAGTAACAGTATTA
* ** * *
14627998 CAGCAGAGCCGCCAGTATCAGTATTGCAGCAAAGCTGCTAGTCACAGTATT
1 CAGCAAAGCCGCCAGTATCAGTAACGCAGCAAAGCTACTAGTAACAGTATT
14628049 GGTGGCAAAG
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
52 44 1.00
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.21
Consensus pattern (52 bp):
CAGCAAAGCCGCCAGTATCAGTAACGCAGCAAAGCTACTAGTAACAGTATTA
Found at i:14628045 original size:26 final size:26
Alignment explanation
Indices: 14627945--14628049 Score: 104
Period size: 26 Copynumber: 4.0 Consensus size: 26
14627935 CACCAGTAAC
* **
14627945 GCAGCAAAGCTGCCAGTATCTGTAAC
1 GCAGCAAAGCTGCCAGTATCAGTATT
* * *
14627971 GCAGCAAAGCTACTAGTAACAGTATT
1 GCAGCAAAGCTGCCAGTATCAGTATT
* * *
14627997 ACAGCAGAGCCGCCAGTATCAGTATT
1 GCAGCAAAGCTGCCAGTATCAGTATT
*
14628023 GCAGCAAAGCTGCTAGTCA-CAGTATT
1 GCAGCAAAGCTGCCAGT-ATCAGTATT
14628049 G
1 G
14628050 GTGGCAAAGC
Statistics
Matches: 62, Mismatches: 16, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
26 61 0.98
27 1 0.02
ACGTcount: A:0.32, C:0.24, G:0.23, T:0.21
Consensus pattern (26 bp):
GCAGCAAAGCTGCCAGTATCAGTATT
Found at i:14628272 original size:27 final size:27
Alignment explanation
Indices: 14628256--14628683 Score: 502
Period size: 27 Copynumber: 15.8 Consensus size: 27
14628246 TATCCTTTAG
* * *
14628256 GGGTATTTCGATAATTTTACCATTCGT
1 GGGTATTTCGGTAATTTTACCCTTCGA
* * *
14628283 GGGTATTTTGATAATTTT-CTCCTTTG-
1 GGGTATTTCGGTAATTTTAC-CCTTCGA
* *
14628309 GAGGTATTTCGATAATTTTACCTTTC-A
1 G-GGTATTTCGGTAATTTTACCCTTCGA
* * *
14628336 AGGTATTTTGGTAATTTTACCCTTTGA
1 GGGTATTTCGGTAATTTTACCCTTCGA
14628363 GGGTATTTCGGTAATTTTACCCTTCGA
1 GGGTATTTCGGTAATTTTACCCTTCGA
*
14628390 GGGTATTTCGATAATTTTACCCTTCGA
1 GGGTATTTCGGTAATTTTACCCTTCGA
* * *
14628417 AGGTATTTTGGTAATTTTACCCATCGA
1 GGGTATTTCGGTAATTTTACCCTTCGA
* * **
14628444 GGGTATTTCGGTAAAATTTACCTTTTAA
1 GGGTATTTCGGT-AATTTTACCCTTCGA
14628472 GGGTATTTCGGTAAATTTTACCCTTCGA
1 GGGTATTTCGGT-AATTTTACCCTTCGA
* *
14628500 GGGTATTTCGATAATTTTACCCTTCAA
1 GGGTATTTCGGTAATTTTACCCTTCGA
*
14628527 GGGTATTTTGGTAATTTTACCCTTCGA
1 GGGTATTTCGGTAATTTTACCCTTCGA
* * * *
14628554 GGGTATTCCGATAATTTTACCCATCAA
1 GGGTATTTCGGTAATTTTACCCTTCGA
* *
14628581 GGGTATTTTGGTAATTTTACCCATCGA
1 GGGTATTTCGGTAATTTTACCCTTCGA
* *
14628608 GGGTATTTCGATAATTTTATCCTTCGA
1 GGGTATTTCGGTAATTTTACCCTTCGA
*
14628635 GGGTATTTCGGTAATTTAACCCTTCGA
1 GGGTATTTCGGTAATTTTACCCTTCGA
* *
14628662 GGGTATCTCAGTAATTTTACCC
1 GGGTATTTCGGTAATTTTACCC
14628684 ATGAATAACA
Statistics
Matches: 341, Mismatches: 54, Indels: 12
0.84 0.13 0.03
Matches are distributed among these distances:
26 22 0.06
27 273 0.80
28 46 0.13
ACGTcount: A:0.23, C:0.16, G:0.19, T:0.42
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTTACCCTTCGA
Found at i:14634335 original size:28 final size:28
Alignment explanation
Indices: 14634303--14634402 Score: 146
Period size: 28 Copynumber: 3.6 Consensus size: 28
14634293 TAATGAGATT
14634303 AGCACTAAGTGTGCGAGTTTAATTGTAA
1 AGCACTAAGTGTGCGAGTTTAATTGTAA
* *
14634331 AGCACTAAGTGTGAGAGTTTAATGGTAA
1 AGCACTAAGTGTGCGAGTTTAATTGTAA
* * *
14634359 AGCACTAAGTGTGCGAGTTTGATTATTA
1 AGCACTAAGTGTGCGAGTTTAATTGTAA
*
14634387 AGCACTAAATGTGCGA
1 AGCACTAAGTGTGCGA
14634403 ACTTATTAAA
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 64 1.00
ACGTcount: A:0.33, C:0.11, G:0.26, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTAATTGTAA
Found at i:14642643 original size:6 final size:6
Alignment explanation
Indices: 14642632--14642665 Score: 50
Period size: 6 Copynumber: 5.3 Consensus size: 6
14642622 AGCCAAAGGT
14642632 TTTTAA TTTTAA TTTTAA TTTTTCAA TTTTAA TT
1 TTTTAA TTTTAA TTTTAA -TTTT-AA TTTTAA TT
14642666 GTCTTTATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 16 0.62
7 8 0.31
8 2 0.08
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (6 bp):
TTTTAA
Found at i:14642661 original size:14 final size:13
Alignment explanation
Indices: 14642632--14642665 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
14642622 AGCCAAAGGT
14642632 TTTTAA-TTTTAA
1 TTTTAATTTTTAA
14642644 TTTTAATTTTTCAA
1 TTTTAATTTTT-AA
14642658 TTTTAATT
1 TTTTAATT
14642666 GTCTTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 6 0.30
13 4 0.20
14 10 0.50
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (13 bp):
TTTTAATTTTTAA
Found at i:14642726 original size:17 final size:19
Alignment explanation
Indices: 14642706--14642740 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
14642696 TCCCTAAGTA
14642706 CTAATT-AGTTT-ATTTTC
1 CTAATTCAGTTTAATTTTC
14642723 CTAATTCAGTTTAATTTT
1 CTAATTCAGTTTAATTTT
14642741 TCGGTATAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 5 0.31
19 5 0.31
ACGTcount: A:0.26, C:0.11, G:0.06, T:0.57
Consensus pattern (19 bp):
CTAATTCAGTTTAATTTTC
Found at i:14646608 original size:19 final size:19
Alignment explanation
Indices: 14646584--14646675 Score: 157
Period size: 19 Copynumber: 4.8 Consensus size: 19
14646574 AATCTTCAAG
14646584 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
14646603 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
14646622 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
14646641 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
14646660 GATATGCAATTTTAGA
1 GATATGCAATCTTAGA
14646676 AGATATGATT
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 68 1.00
ACGTcount: A:0.37, C:0.08, G:0.16, T:0.39
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:14646628 original size:38 final size:38
Alignment explanation
Indices: 14646584--14646682 Score: 175
Period size: 38 Copynumber: 2.7 Consensus size: 38
14646574 AATCTTCAAG
14646584 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
14646622 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
*
14646660 GATATGCAATTTTAGA-A-GATATG
1 GATATGCAATCTTAGATATGATATG
14646683 ATTTTGTAAT
Statistics
Matches: 60, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
36 6 0.10
37 1 0.02
38 53 0.88
ACGTcount: A:0.37, C:0.07, G:0.17, T:0.38
Consensus pattern (38 bp):
GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
Found at i:14655195 original size:42 final size:42
Alignment explanation
Indices: 14655144--14655233 Score: 137
Period size: 42 Copynumber: 2.1 Consensus size: 42
14655134 GACAAAAAGG
* *
14655144 GGGAAAGGAAAAAGACA-TGGAGGATGACACGAATAAAAATGA
1 GGGAAAGGAAAAAGACACAGAAGG-TGACACGAATAAAAATGA
*
14655186 GGGAAAGGAAAAAGACACAGAAGGTGACACGAATAAAAATGG
1 GGGAAAGGAAAAAGACACAGAAGGTGACACGAATAAAAATGA
14655228 GGGAAA
1 GGGAAA
14655234 TATTTTTTCT
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
42 40 0.91
43 4 0.09
ACGTcount: A:0.52, C:0.08, G:0.32, T:0.08
Consensus pattern (42 bp):
GGGAAAGGAAAAAGACACAGAAGGTGACACGAATAAAAATGA
Found at i:14665128 original size:8 final size:8
Alignment explanation
Indices: 14665115--14665143 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
14665105 GTCAAATAAA
14665115 AAATAATT
1 AAATAATT
14665123 AAATAATT
1 AAATAATT
14665131 AAATAATT
1 AAATAATT
14665139 AAATA
1 AAATA
14665144 GAACAATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (8 bp):
AAATAATT
Found at i:14667048 original size:18 final size:18
Alignment explanation
Indices: 14667025--14667063 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
14667015 TTCCATTAAG
*
14667025 CTAATGAGTTGGCAATAA
1 CTAATGAGTCGGCAATAA
14667043 CTAATGAGTCGGCAATAA
1 CTAATGAGTCGGCAATAA
14667061 CTA
1 CTA
14667064 CTTATCTCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.26
Consensus pattern (18 bp):
CTAATGAGTCGGCAATAA
Found at i:14671676 original size:3 final size:3
Alignment explanation
Indices: 14671668--14671709 Score: 57
Period size: 3 Copynumber: 14.0 Consensus size: 3
14671658 CCCACCAGCT
* * *
14671668 TCA TCA TCA TCA TCA CCA TCA TCA TCA TCA CCA TCA CCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
14671710 CCACCACCAC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.40, G:0.00, T:0.26
Consensus pattern (3 bp):
TCA
Found at i:14671720 original size:15 final size:15
Alignment explanation
Indices: 14671669--14671724 Score: 76
Period size: 15 Copynumber: 3.7 Consensus size: 15
14671659 CCACCAGCTT
*
14671669 CATCATCATCATCAC
1 CATCACCATCATCAC
*
14671684 CATCATCATCATCAC
1 CATCACCATCATCAC
*
14671699 CATCACCATCACCAC
1 CATCACCATCATCAC
*
14671714 CACCACCATCA
1 CATCACCATCA
14671725 AAAAGCTCCC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 38 1.00
ACGTcount: A:0.34, C:0.46, G:0.00, T:0.20
Consensus pattern (15 bp):
CATCACCATCATCAC
Found at i:14689790 original size:267 final size:267
Alignment explanation
Indices: 14689305--14689859 Score: 871
Period size: 267 Copynumber: 2.1 Consensus size: 267
14689295 CGCCTTGAAG
** * *
14689305 TTGCAATGGAAAAGATTGAAGCCACGACGGCGAACCTTACTTCCCTGGTGTTGTAGCGGAGTCGA
1 TTGCAATTTAAAAGATTGAAGCCACAACGGCGAACCTTACTTCCCTGGCGTTGTAGCGGAGTCGA
**
14689370 TTGAAGCCACGACGGCGAATCTTATCTCCCTGGCATTAAGGCTTGGATTAGCTGAAGTGGAGCGG
66 TTGAAGCCACGACGGCGAATCTTATCTCCCTGGCATTAAGGCTTGGATTAGCTGAAGTGGAAAGG
* * *
14689435 ATTGAAGCAATGGGCAGCGAATCCTATCTCTTTGGCATTACAGTGGAGTAGATTAAAGCCGCAAC
131 ATTGAAGCAATGGGCAACAAACCCTATCTCTTTGGCATTACAGTGGAGTAGATTAAAGCCGCAAC
* * * *
14689500 GACAAATCTTACTCCCTTGGCGGTGTAGTGGAACAGATTGAAGCTAAGATGGCCAATCTTGTTTC
196 GACAAATCTTACTCCCTTGGCGGTGTAGTGGAACAGATTGAAGCTAAGACGACAAATCTTGTTTA
14689565 CCCAACA
261 CCCAACA
* * * *
14689572 TTGCAATTTAAAATATTGAAGCCGCAACGGCGAATCTTATTTCCCTGGCGTTGTAGCGGAG-CAG
1 TTGCAATTTAAAAGATTGAAGCCACAACGGCGAACCTTACTTCCCTGGCGTTGTAGCGGAGTC-G
14689636 ATTGAAGCCACGACGGCGAATCTTATCTCCCTGGCATTAAGGCTTGGATTAGCTGAAGTGGAAAG
65 ATTGAAGCCACGACGGCGAATCTTATCTCCCTGGCATTAAGGCTTGGATTAGCTGAAGTGGAAAG
**
14689701 GATTGAAGCTGTGGGCAACAAACCCTATCTCTTTGGCATTACAGTGGAGTAGATTAAAGCCGCAA
130 GATTGAAGCAATGGGCAACAAACCCTATCTCTTTGGCATTACAGTGGAGTAGATTAAAGCCGCAA
* * *
14689766 CGGCAAATCTTACT-TCTCTGGCGGTGTAGTGGAACAGATTGAAGCTACGACGACAAATCTTGTT
195 CGACAAATCTTACTCCCT-TGGCGGTGTAGTGGAACAGATTGAAGCTAAGACGACAAATCTTGTT
14689830 TACCCAACA
259 TACCCAACA
*
14689839 TTGCAATTTAAAAGACTGAAG
1 TTGCAATTTAAAAGATTGAAG
14689860 ATGGCGAATC
Statistics
Matches: 262, Mismatches: 24, Indels: 4
0.90 0.08 0.01
Matches are distributed among these distances:
266 3 0.01
267 259 0.99
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.25
Consensus pattern (267 bp):
TTGCAATTTAAAAGATTGAAGCCACAACGGCGAACCTTACTTCCCTGGCGTTGTAGCGGAGTCGA
TTGAAGCCACGACGGCGAATCTTATCTCCCTGGCATTAAGGCTTGGATTAGCTGAAGTGGAAAGG
ATTGAAGCAATGGGCAACAAACCCTATCTCTTTGGCATTACAGTGGAGTAGATTAAAGCCGCAAC
GACAAATCTTACTCCCTTGGCGGTGTAGTGGAACAGATTGAAGCTAAGACGACAAATCTTGTTTA
CCCAACA
Found at i:14689963 original size:44 final size:44
Alignment explanation
Indices: 14689866--14689977 Score: 118
Period size: 44 Copynumber: 2.5 Consensus size: 44
14689856 GAAGATGGCG
* *
14689866 AATCTTATCTCCCTGAAGTTGCAGGGGTGCAAATTAAAGCCAAT
1 AATCTTATCTCCCTGAAGTTGCAGGGGAGCAAATTAAAACCAAT
* * ** *
14689910 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACA-
1 AATCTTATCTCCCTGAAGTTGCAGGGGAGCAAATTAAAACCA-AT
* **
14689954 GATCTTATCTCTTTGAAGTTGCAG
1 AATCTTATCTCCCTGAAGTTGCAG
14689978 AGAGCAGATC
Statistics
Matches: 56, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
44 55 0.98
45 1 0.02
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGGGGAGCAAATTAAAACCAAT
Found at i:14696485 original size:19 final size:19
Alignment explanation
Indices: 14696461--14696499 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
14696451 ATGCTCTTTT
*
14696461 GTACATCTATTTCTTTCGA
1 GTACATATATTTCTTTCGA
* *
14696480 GTACATATTTTTTTTTCGA
1 GTACATATATTTCTTTCGA
14696499 G
1 G
14696500 CATATTATTG
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:0.21, C:0.15, G:0.13, T:0.51
Consensus pattern (19 bp):
GTACATATATTTCTTTCGA
Found at i:14706028 original size:6 final size:6
Alignment explanation
Indices: 14706019--14706054 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
14706009 AACAAATTAC
14706019 ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA
1 ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA
14706055 GGCAAAGATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
ATTAAA
Found at i:14706093 original size:13 final size:13
Alignment explanation
Indices: 14706062--14706086 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14706052 AAAGGCAAAG
14706062 ATAAAAATGAAAA
1 ATAAAAATGAAAA
14706075 ATAAAAATGAAA
1 ATAAAAATGAAA
14706087 CTTAAAATAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (13 bp):
ATAAAAATGAAAA
Found at i:14715350 original size:14 final size:15
Alignment explanation
Indices: 14715331--14715361 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
14715321 CCGAAAAATT
14715331 AAAAAATT-ATTTTA
1 AAAAAATTAATTTTA
14715345 AAAAAATTAATTTTA
1 AAAAAATTAATTTTA
14715360 AA
1 AA
14715362 GATTTTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
AAAAAATTAATTTTA
Found at i:14728208 original size:35 final size:35
Alignment explanation
Indices: 14728162--14728232 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
14728152 GTTCACAGCT
*
14728162 CAGTGTACTATGTATATAGAGTGTCGCCAATTATG
1 CAGTGTACTATGTATATAGAGTGTCACCAATTATG
14728197 CAGTGTACTATGTATATAGAGTGTCACCAATTATG
1 CAGTGTACTATGTATATAGAGTGTCACCAATTATG
14728232 C
1 C
14728233 TTCTAGTGGC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34
Consensus pattern (35 bp):
CAGTGTACTATGTATATAGAGTGTCACCAATTATG
Found at i:14730149 original size:46 final size:46
Alignment explanation
Indices: 14730082--14730175 Score: 188
Period size: 46 Copynumber: 2.0 Consensus size: 46
14730072 CTTCATTGTT
14730082 AATTCATTATTTTCCAGATCAATGGTAGACTTTAAAGTGGCTAGAA
1 AATTCATTATTTTCCAGATCAATGGTAGACTTTAAAGTGGCTAGAA
14730128 AATTCATTATTTTCCAGATCAATGGTAGACTTTAAAGTGGCTAGAA
1 AATTCATTATTTTCCAGATCAATGGTAGACTTTAAAGTGGCTAGAA
14730174 AA
1 AA
14730176 GGTCTACCCA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.36, C:0.13, G:0.17, T:0.34
Consensus pattern (46 bp):
AATTCATTATTTTCCAGATCAATGGTAGACTTTAAAGTGGCTAGAA
Found at i:14735628 original size:5 final size:5
Alignment explanation
Indices: 14735618--14735642 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
14735608 TCATTAAGCT
14735618 GACCC GACCC GACCC GACCC GACCC
1 GACCC GACCC GACCC GACCC GACCC
14735643 TATGTAAGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.60, G:0.20, T:0.00
Consensus pattern (5 bp):
GACCC
Found at i:14742307 original size:2 final size:2
Alignment explanation
Indices: 14742300--14742329 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
14742290 TAGGAAGACA
14742300 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14742330 GGAGCTTACT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14742425 original size:2 final size:2
Alignment explanation
Indices: 14742418--14742445 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
14742408 TGAATACACA
14742418 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14742446 GGAGCTTACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14742465 original size:116 final size:116
Alignment explanation
Indices: 14742302--14742519 Score: 436
Period size: 116 Copynumber: 1.9 Consensus size: 116
14742292 GGAAGACAAT
14742302 ATATATATATATATATATATATATATATGGAGCTTACTCAAATCAAACATATTTATAGAATGTAA
1 ATATATATATATATATATATATATATATGGAGCTTACTCAAATCAAACATATTTATAGAATGTAA
14742367 TCGATAATCGCATTAGACTTCAAATTCAATTTAAGTTAATATGAATACACA
66 TCGATAATCGCATTAGACTTCAAATTCAATTTAAGTTAATATGAATACACA
14742418 ATATATATATATATATATATATATATATGGAGCTTACTCAAATCAAACATATTTATAGAATGTAA
1 ATATATATATATATATATATATATATATGGAGCTTACTCAAATCAAACATATTTATAGAATGTAA
14742483 TCGATAATCGCATTAGACTTCAAATTCAATTTAAGTT
66 TCGATAATCGCATTAGACTTCAAATTCAATTTAAGTT
14742520 GATCCGCTAA
Statistics
Matches: 102, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
116 102 1.00
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.37
Consensus pattern (116 bp):
ATATATATATATATATATATATATATATGGAGCTTACTCAAATCAAACATATTTATAGAATGTAA
TCGATAATCGCATTAGACTTCAAATTCAATTTAAGTTAATATGAATACACA
Found at i:14748117 original size:43 final size:43
Alignment explanation
Indices: 14748050--14748135 Score: 145
Period size: 43 Copynumber: 2.0 Consensus size: 43
14748040 TTGTACTGTC
*
14748050 AAATATTGCATTAATATTGATTTTGTTTTAGTACTAAATAAGA
1 AAATATTGCATTAATATTGATTTTGTTTCAGTACTAAATAAGA
* *
14748093 AAATGTTGCATTAATATTGGTTTTGTTTCAGTACTAAATAAGA
1 AAATATTGCATTAATATTGATTTTGTTTCAGTACTAAATAAGA
14748136 TAATTTCCAC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.37, C:0.06, G:0.14, T:0.43
Consensus pattern (43 bp):
AAATATTGCATTAATATTGATTTTGTTTCAGTACTAAATAAGA
Found at i:14751232 original size:54 final size:54
Alignment explanation
Indices: 14751117--14751238 Score: 131
Period size: 54 Copynumber: 2.3 Consensus size: 54
14751107 GCATTAAGTT
* * * * *
14751117 AGTGTGTTACACGGCCTAGCACACGGCCTGCGACACGGCCGTGTGTTGCAAGTC
1 AGTGAGTTACACGGCCTAGCACACGGCCTGCGACACGACCATGTGCTGCAACTC
* * *
14751171 AGAGAGTTACACGGTCT-GACACACGGCCTGCGATACGACCATGTGACT-CAACTC
1 AGTGAGTTACACGGCCTAG-CACACGGCCTGCGACACGACCATGTG-CTGCAACTC
*
14751225 AGTGAGTTGCACGG
1 AGTGAGTTACACGG
14751239 GTGGAGACAC
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
53 1 0.02
54 54 0.96
55 1 0.02
ACGTcount: A:0.23, C:0.28, G:0.30, T:0.20
Consensus pattern (54 bp):
AGTGAGTTACACGGCCTAGCACACGGCCTGCGACACGACCATGTGCTGCAACTC
Found at i:14769104 original size:23 final size:23
Alignment explanation
Indices: 14768997--14769211 Score: 80
Period size: 23 Copynumber: 9.0 Consensus size: 23
14768987 TGGGCAGCCC
14768997 ATATACATAACAAATTGAGCAGCAT
1 ATATACAT--CAAATTGAGCAGCAT
* * *
14769022 TTTTACATCAAAAATTG-GACAGCTT
1 ATATACATC--AAATTGAG-CAGCAT
* * * *
14769047 ATAGACAACAATTTGGGCA--AT
1 ATATACATCAAATTGAGCAGCAT
*
14769068 ATATACCAACCAAATTGAGCAGCAT
1 ATATA-C-ATCAAATTGAGCAGCAT
* *
14769093 TTTTACATCAAAAATTG-GACAGCAT
1 ATATACATC--AAATTGAG-CAGCAT
* * * *
14769118 ATACACAACAATTTGGGCAGCAT
1 ATATACATCAAATTGAGCAGCAT
**
14769141 ATATGTATCAAATTGAGCAGCAT
1 ATATACATCAAATTGAGCAGCAT
* *
14769164 TTTTACATCAAAAATTG-GACAGCAT
1 ATATACATC--AAATTGAG-CAGCAT
* * * *
14769189 ATACACAACAATTTGGGCAGCAT
1 ATATACATCAAATTGAGCAGCAT
14769212 TTAAGCATAA
Statistics
Matches: 138, Mismatches: 36, Indels: 34
0.66 0.17 0.16
Matches are distributed among these distances:
21 5 0.04
22 1 0.01
23 64 0.46
24 7 0.05
25 61 0.44
ACGTcount: A:0.41, C:0.18, G:0.14, T:0.27
Consensus pattern (23 bp):
ATATACATCAAATTGAGCAGCAT
Found at i:14769208 original size:71 final size:71
Alignment explanation
Indices: 14768985--14769211 Score: 339
Period size: 71 Copynumber: 3.2 Consensus size: 71
14768975 ATCTACCCTG
* *
14768985 TTTGGGCAGCCCATATA-CATAACAAATTGAGCAGCATTTTTACATCAAAAATTGGACAGCTTAT
1 TTTGGGCAG--CATATACCA-ACCAAATTGAGCAGCATTTTTACATCAAAAATTGGACAGCATAT
*
14769049 AGACAACAA
63 ACACAACAA
**
14769058 TTTGGGCAATATATACCAACCAAATTGAGCAGCATTTTTACATCAAAAATTGGACAGCATATACA
1 TTTGGGCAGCATATACCAACCAAATTGAGCAGCATTTTTACATCAAAAATTGGACAGCATATACA
14769123 CAACAA
66 CAACAA
*** *
14769129 TTTGGGCAGCATATATGTATCAAATTGAGCAGCATTTTTACATCAAAAATTGGACAGCATATACA
1 TTTGGGCAGCATATACCAACCAAATTGAGCAGCATTTTTACATCAAAAATTGGACAGCATATACA
14769194 CAACAA
66 CAACAA
14769200 TTTGGGCAGCAT
1 TTTGGGCAGCAT
14769212 TTAAGCATAA
Statistics
Matches: 142, Mismatches: 11, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
71 132 0.93
72 2 0.01
73 8 0.06
ACGTcount: A:0.39, C:0.19, G:0.15, T:0.27
Consensus pattern (71 bp):
TTTGGGCAGCATATACCAACCAAATTGAGCAGCATTTTTACATCAAAAATTGGACAGCATATACA
CAACAA
Found at i:14769209 original size:48 final size:48
Alignment explanation
Indices: 14768996--14769214 Score: 150
Period size: 48 Copynumber: 4.6 Consensus size: 48
14768986 TTGGGCAGCC
* * *
14768996 CATATACATAACAAATTGAGCAGCATTTTTACATCAA-AAATTGGACAG
1 CATATACACAACAAATTGGGCAGCATTTATACA-CAACAAATTGGACAG
* * * *
14769044 CTTATAGACAACAATTTGGGCA--ATATATAC-CAACCAAATT-GAGCAG
1 CATATACACAACAAATTGGGCAGCATTTATACACAA-CAAATTGGA-CAG
* * * *
14769090 CATTTTTACATCAA-AAATTGGACAGCA--TATACACAACAATTTGGGCAG
1 CA--TATACA-CAACAAATTGGGCAGCATTTATACACAACAAATTGGACAG
*** * * *
14769138 CATATATGTATCAAATTGAGCAGCATTTTTACATCAA-AAATTGGACAG
1 CATATACACAACAAATTGGGCAGCATTTATACA-CAACAAATTGGACAG
*
14769186 CATATACACAACAATTTGGGCAGCATTTA
1 CATATACACAACAAATTGGGCAGCATTTA
14769215 AGCATAAAAT
Statistics
Matches: 126, Mismatches: 31, Indels: 28
0.68 0.17 0.15
Matches are distributed among these distances:
44 3 0.02
45 3 0.02
46 29 0.23
48 80 0.63
49 10 0.08
50 1 0.01
ACGTcount: A:0.41, C:0.18, G:0.14, T:0.27
Consensus pattern (48 bp):
CATATACACAACAAATTGGGCAGCATTTATACACAACAAATTGGACAG
Found at i:14769708 original size:29 final size:28
Alignment explanation
Indices: 14769643--14769741 Score: 128
Period size: 28 Copynumber: 3.5 Consensus size: 28
14769633 TTTAATAAGT
* *
14769643 TCGCACACTTAGTGC-TCAATAATCAAAC
1 TCGCACACTTAGTGCTTC-ACAATTAAAC
* *
14769671 TCGCACACTTAGTTCTTTACAAATTAAAC
1 TCGCACACTTAGTGCTTCAC-AATTAAAC
*
14769700 TCGCACACTTAGTGCTTCACAATTAAAT
1 TCGCACACTTAGTGCTTCACAATTAAAC
14769728 TCGCACACTTAGTG
1 TCGCACACTTAGTG
14769742 TCGAAAGTCA
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
28 36 0.58
29 26 0.42
ACGTcount: A:0.32, C:0.26, G:0.11, T:0.30
Consensus pattern (28 bp):
TCGCACACTTAGTGCTTCACAATTAAAC
Found at i:14777038 original size:5 final size:5
Alignment explanation
Indices: 14777022--14777121 Score: 182
Period size: 5 Copynumber: 20.0 Consensus size: 5
14777012 TATAACTGTG
*
14777022 CATAT CACAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
*
14777072 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT TATAT CATAT
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
14777122 TGTATCATGT
Statistics
Matches: 91, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 91 1.00
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (5 bp):
CATAT
Found at i:14795331 original size:158 final size:159
Alignment explanation
Indices: 14795162--14795478 Score: 618
Period size: 158 Copynumber: 2.0 Consensus size: 159
14795152 TTAATGATCC
*
14795162 TAGATTACGTATATCAAATTTAAAGTAATTTTTTAAACTATTTGTTTTATGTAAAAAATTAATTT
1 TAGATTACGTATATCAAATTTAAAGTAATTTTTTAAACTATTTGTTTTATGTAAAAAATTAATTA
14795227 TTAAATTATATATTAATATAGATAATATTTTAGATTGGTATGATAAAGATATTGAATTAGTTCAG
66 TTAAATTATATATTAATATAGATAATATTTTAGATTGGTATGATAAAGATATTGAATTAGTTCAG
14795292 AATTTTACATGTTTG-AAAGCACAATTAT
131 AATTTTACATGTTTGAAAAGCACAATTAT
14795320 TAGATTACGTATATCAAATTTAAAGTAATTTTTTAAACTATTTGTTTTATGTAAAAAATTAATTA
1 TAGATTACGTATATCAAATTTAAAGTAATTTTTTAAACTATTTGTTTTATGTAAAAAATTAATTA
14795385 TTAAATTATATATTAATATAGATAATATTTTAGATTGGTATGATAAAGATATTGAATTAGTTCAG
66 TTAAATTATATATTAATATAGATAATATTTTAGATTGGTATGATAAAGATATTGAATTAGTTCAG
14795450 AATTTTACATGTTTGAAAAGCACAATTAT
131 AATTTTACATGTTTGAAAAGCACAATTAT
14795479 ATTCATAAAT
Statistics
Matches: 157, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
158 144 0.92
159 13 0.08
ACGTcount: A:0.41, C:0.04, G:0.11, T:0.44
Consensus pattern (159 bp):
TAGATTACGTATATCAAATTTAAAGTAATTTTTTAAACTATTTGTTTTATGTAAAAAATTAATTA
TTAAATTATATATTAATATAGATAATATTTTAGATTGGTATGATAAAGATATTGAATTAGTTCAG
AATTTTACATGTTTGAAAAGCACAATTAT
Found at i:14802962 original size:34 final size:35
Alignment explanation
Indices: 14802918--14802984 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
14802908 CAGTAAAATA
* * *
14802918 TTTTCCGTAAATTGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATAATTTACTGGAAAATATTTTAC
*
14802952 TTTTCTGTAAAATAATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATAATTTACTGGAAAATATTTT
14802985 TTGGTGTTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 15 0.54
35 13 0.46
ACGTcount: A:0.31, C:0.09, G:0.12, T:0.48
Consensus pattern (35 bp):
TTTTCCGTAAAATAATTTACTGGAAAATATTTTAC
Found at i:14802970 original size:20 final size:20
Alignment explanation
Indices: 14802933--14802972 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
14802923 CGTAAATTGA
**
14802933 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATAATTTACT
*
14802953 TTTCTGTAAAATAATTTACT
1 TTTCTGGAAAATAATTTACT
14802973 GGAAAATATT
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:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATAATTTACT
Found at i:14815229 original size:43 final size:46
Alignment explanation
Indices: 14815168--14815257 Score: 150
Period size: 43 Copynumber: 2.0 Consensus size: 46
14815158 TTTGAATGTT
14815168 TCGTTATAGAATATGTATA-TTTTTT-TTTTT-TTTTTTGGTTTAA
1 TCGTTATAGAATATGTATAGTTTTTTATTTTTATTTTTTGGTTTAA
14815211 TCGTTATAGAATATGTATATGTTTTTTATTTTTATTTTTTGGTTTAA
1 TCGTTATAGAATATGTATA-GTTTTTTATTTTTATTTTTTGGTTTAA
14815258 ACTATGGTTT
Statistics
Matches: 43, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
43 19 0.44
45 6 0.14
46 5 0.12
47 13 0.30
ACGTcount: A:0.22, C:0.02, G:0.12, T:0.63
Consensus pattern (46 bp):
TCGTTATAGAATATGTATAGTTTTTTATTTTTATTTTTTGGTTTAA
Found at i:14819323 original size:22 final size:22
Alignment explanation
Indices: 14819295--14819366 Score: 110
Period size: 22 Copynumber: 3.3 Consensus size: 22
14819285 ACAAATCCTA
14819295 TCTCAATTTCCTTCCAAAATCC
1 TCTCAATTTCCTTCCAAAATCC
*
14819317 TCTCAATTTCCTTTCAAAATCC
1 TCTCAATTTCCTTCCAAAATCC
*
14819339 TCTCAATTTCATTCCAAAAAT-C
1 TCTCAATTTCCTTCC-AAAATCC
14819361 TCTCAA
1 TCTCAA
14819367 ATCCATATTA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
22 41 0.89
23 5 0.11
ACGTcount: A:0.31, C:0.32, G:0.00, T:0.38
Consensus pattern (22 bp):
TCTCAATTTCCTTCCAAAATCC
Found at i:14819436 original size:32 final size:32
Alignment explanation
Indices: 14819400--14819468 Score: 104
Period size: 32 Copynumber: 2.2 Consensus size: 32
14819390 CCTCAATTTC
*
14819400 ATTTTTT-TAAATAATTTCAAATTTTTTTTTAT
1 ATTTTTTAAAAATAATTTCAAA-TTTTTTTTAT
*
14819432 ATTTTTTAAAAATAATTTTAAATTTTTTTTAT
1 ATTTTTTAAAAATAATTTCAAATTTTTTTTAT
14819464 ATTTT
1 ATTTT
14819469 CATCAATGGC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 22 0.65
33 12 0.35
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.65
Consensus pattern (32 bp):
ATTTTTTAAAAATAATTTCAAATTTTTTTTAT
Found at i:14821619 original size:29 final size:29
Alignment explanation
Indices: 14821583--14822082 Score: 966
Period size: 29 Copynumber: 17.2 Consensus size: 29
14821573 CTAACCCTAC
14821583 AAAACCCTAACCTTAACCTAATTTAATTA
1 AAAACCCTAACCTTAACCTAATTTAATTA
14821612 AAAACCCTAACCTTAACCTAATTTAATTA
1 AAAACCCTAACCTTAACCTAATTTAATTA
14821641 AAAACCCTAACCTTAACCTAATTTAATTA
1 AAAACCCTAACCTTAACCTAATTTAATTA
14821670 AAAACCCTAACCTTAACCTAATTTAATTA
1 AAAACCCTAACCTTAACCTAATTTAATTA
14821699 AAAACCCTAACCTTAACCTAATTTAATTA
1 AAAACCCTAACCTTAACCTAATTTAATTA
14821728 AAAACCCTAACCTTAACCTAATTTAATTA
1 AAAACCCTAACCTTAACCTAATTTAATTA
14821757 AAAACCCTAACCTTAACCTAATTTAATTA
1 AAAACCCTAACCTTAACCTAATTTAATTA
14821786 AAAACCCTAACCTTAACCTAATTTAATTA
1 AAAACCCTAACCTTAACCTAATTTAATTA
14821815 AAAACCCTAACCTTAACCTAATTTAATTA
1 AAAACCCTAACCTTAACCTAATTTAATTA
14821844 AAAACCCTAACCTTAACCTAATTTAATTA
1 AAAACCCTAACCTTAACCTAATTTAATTA
14821873 AAAACCCTAACCTTAACCTAATTTAATTA
1 AAAACCCTAACCTTAACCTAATTTAATTA
14821902 AAAACCCTAACCTTAACCTAATTTAATTA
1 AAAACCCTAACCTTAACCTAATTTAATTA
14821931 AAAACCCTAACCTTAACCTAATTTAATTA
1 AAAACCCTAACCTTAACCTAATTTAATTA
14821960 AAAACCCTAACCTTAACCTAATTTAATTA
1 AAAACCCTAACCTTAACCTAATTTAATTA
14821989 AAAACCCTAACCTTAACCTAATTTAATTA
1 AAAACCCTAACCTTAACCTAATTTAATTA
*
14822018 AAAACCCTAACCCT-ACCATAATTTAATTA
1 AAAACCCTAACCTTAACC-TAATTTAATTA
14822047 AAAACCCTAACCTTAACCTAATTTAATTA
1 AAAACCCTAACCTTAACCTAATTTAATTA
*
14822076 CAAACCC
1 AAAACCC
14822083 NNNNNNNNNN
Statistics
Matches: 466, Mismatches: 3, Indels: 4
0.99 0.01 0.01
Matches are distributed among these distances:
28 3 0.01
29 460 0.99
30 3 0.01
ACGTcount: A:0.45, C:0.25, G:0.00, T:0.30
Consensus pattern (29 bp):
AAAACCCTAACCTTAACCTAATTTAATTA
Found at i:14826197 original size:14 final size:14
Alignment explanation
Indices: 14826175--14826214 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
14826165 ACGGGCAATC
*
14826175 ATTTTAAATAAAAA
1 ATTTAAAATAAAAA
14826189 ATTTAAAATAAAAA
1 ATTTAAAATAAAAA
*
14826203 ATGTAAAATAAA
1 ATTTAAAATAAA
14826215 GTTATTTTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (14 bp):
ATTTAAAATAAAAA
Found at i:14828302 original size:26 final size:26
Alignment explanation
Indices: 14828266--14828317 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
14828256 GCCTTCTTAC
14828266 CAACTTGGAACGTGTAAGGAGAGGCA
1 CAACTTGGAACGTGTAAGGAGAGGCA
14828292 CAACTTGGAACGTGTAAGGAGAGGCA
1 CAACTTGGAACGTGTAAGGAGAGGCA
14828318 TTGGACAAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.15, G:0.35, T:0.15
Consensus pattern (26 bp):
CAACTTGGAACGTGTAAGGAGAGGCA
Found at i:14834388 original size:43 final size:43
Alignment explanation
Indices: 14834327--14834409 Score: 157
Period size: 43 Copynumber: 1.9 Consensus size: 43
14834317 AAGTCAAGTG
*
14834327 ACTGCTGCTGTCTGAAATCTGTTTCATTGCAAATTTTTACGTC
1 ACTGCTGCTATCTGAAATCTGTTTCATTGCAAATTTTTACGTC
14834370 ACTGCTGCTATCTGAAATCTGTTTCATTGCAAATTTTTAC
1 ACTGCTGCTATCTGAAATCTGTTTCATTGCAAATTTTTAC
14834410 TTTTTCACAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.23, C:0.20, G:0.14, T:0.42
Consensus pattern (43 bp):
ACTGCTGCTATCTGAAATCTGTTTCATTGCAAATTTTTACGTC
Found at i:14843558 original size:16 final size:16
Alignment explanation
Indices: 14843537--14843688 Score: 160
Period size: 16 Copynumber: 9.1 Consensus size: 16
14843527 TTATAAAAGA
14843537 TATGTAAGTTATGTAT
1 TATGTAAGTTATGTAT
*
14843553 TATGTAAGTTATATAAGT
1 TATGTAAGTTATGT-A-T
*
14843571 TATGTAGGTTATGTAT
1 TATGTAAGTTATGTAT
** *
14843587 TATGTAAGTTACATAAGC
1 TATGTAAGTTATGT-A-T
14843605 TATGTAAGTTATGTAT
1 TATGTAAGTTATGTAT
*
14843621 TATATAAGTTATGTAT
1 TATGTAAGTTATGTAT
*
14843637 TATGTAAATTATGTAT
1 TATGTAAGTTATGTAT
*
14843653 TATGTAAGTTATATAAGT
1 TATGTAAGTTATGT-A-T
* *
14843671 TATATAAGTTATATAT
1 TATGTAAGTTATGTAT
14843687 TA
1 TA
14843689 AAATAAAATA
Statistics
Matches: 114, Mismatches: 16, Indels: 12
0.80 0.11 0.08
Matches are distributed among these distances:
16 69 0.61
17 6 0.05
18 39 0.34
ACGTcount: A:0.36, C:0.01, G:0.16, T:0.47
Consensus pattern (16 bp):
TATGTAAGTTATGTAT
Found at i:14843575 original size:34 final size:34
Alignment explanation
Indices: 14843527--14843688 Score: 220
Period size: 34 Copynumber: 4.8 Consensus size: 34
14843517 TATGTATATA
* *
14843527 TTATAAAAGATATGTAAGTTATGTATTATGTAAG
1 TTATATAAGTTATGTAAGTTATGTATTATGTAAG
*
14843561 TTATATAAGTTATGTAGGTTATGTATTATGTAAG
1 TTATATAAGTTATGTAAGTTATGTATTATGTAAG
* * *
14843595 TTACATAAGCTATGTAAGTTATGTATTATATAAG
1 TTATATAAGTTATGTAAGTTATGTATTATGTAAG
* *
14843629 TTATGT-A-TTATGTAAATTATGTATTATGTAAG
1 TTATATAAGTTATGTAAGTTATGTATTATGTAAG
* *
14843661 TTATATAAGTTATATAAGTTATATATTA
1 TTATATAAGTTATGTAAGTTATGTATTA
14843689 AAATAAAATA
Statistics
Matches: 110, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
32 27 0.25
33 2 0.02
34 81 0.74
ACGTcount: A:0.38, C:0.01, G:0.15, T:0.46
Consensus pattern (34 bp):
TTATATAAGTTATGTAAGTTATGTATTATGTAAG
Found at i:14843685 original size:9 final size:9
Alignment explanation
Indices: 14843489--14843682 Score: 151
Period size: 9 Copynumber: 22.7 Consensus size: 9
14843479 ATTTTGTTTC
14843489 AGTTATGT-
1 AGTTATGTA
*
14843497 A-TTAAGTA
1 AGTTATGTA
*
14843505 AATTATGTA
1 AGTTATGTA
14843514 AGTTATGTA
1 AGTTATGTA
* **
14843523 TATATTATAAA
1 -A-GTTATGTA
*
14843534 AGATATGTA
1 AGTTATGTA
14843543 AGTTATGT-
1 AGTTATGTA
14843551 A-TTATGTA
1 AGTTATGTA
*
14843559 AGTTATATA
1 AGTTATGTA
14843568 AGTTATGTA
1 AGTTATGTA
*
14843577 GGTTATGT-
1 AGTTATGTA
14843585 A-TTATGTA
1 AGTTATGTA
**
14843593 AGTTACATA
1 AGTTATGTA
*
14843602 AGCTATGTA
1 AGTTATGTA
14843611 AGTTATGT-
1 AGTTATGTA
*
14843619 A-TTATATA
1 AGTTATGTA
14843627 AGTTATGT-
1 AGTTATGTA
14843635 A-TTATGTA
1 AGTTATGTA
*
14843643 AATTATGT-
1 AGTTATGTA
14843651 A-TTATGTA
1 AGTTATGTA
*
14843659 AGTTATATA
1 AGTTATGTA
*
14843668 AGTTATATA
1 AGTTATGTA
14843677 AGTTAT
1 AGTTAT
14843683 ATATTAAAAT
Statistics
Matches: 148, Mismatches: 24, Indels: 27
0.74 0.12 0.14
Matches are distributed among these distances:
7 34 0.23
8 11 0.07
9 96 0.65
10 2 0.01
11 5 0.03
ACGTcount: A:0.38, C:0.01, G:0.16, T:0.45
Consensus pattern (9 bp):
AGTTATGTA
Found at i:14843850 original size:9 final size:9
Alignment explanation
Indices: 14843802--14843893 Score: 56
Period size: 9 Copynumber: 10.9 Consensus size: 9
14843792 AGTTAATATA
14843802 TAAGTTATG
1 TAAGTTATG
14843811 T-A-TTATG
1 TAAGTTATG
*
14843818 TAAGTCATG
1 TAAGTTATG
* *
14843827 TAGGCTATG
1 TAAGTTATG
14843836 T-A-TTATG
1 TAAGTTATG
14843843 TAAGTTAT-
1 TAAGTTATG
*
14843851 T-A--TAAG
1 TAAGTTATG
14843857 TAAGTTATG
1 TAAGTTATG
* *
14843866 AAAGTTATATA
1 TAAG-T-TATG
14843877 TAAGTTATG
1 TAAGTTATG
14843886 TAAGTTAT
1 TAAGTTAT
14843894 TATGTAAGTT
Statistics
Matches: 61, Mismatches: 12, Indels: 20
0.66 0.13 0.22
Matches are distributed among these distances:
5 2 0.03
6 1 0.02
7 13 0.21
8 4 0.07
9 33 0.54
10 2 0.03
11 6 0.10
ACGTcount: A:0.36, C:0.02, G:0.18, T:0.43
Consensus pattern (9 bp):
TAAGTTATG
Found at i:14843880 original size:20 final size:21
Alignment explanation
Indices: 14843838--14843904 Score: 91
Period size: 20 Copynumber: 3.1 Consensus size: 21
14843828 AGGCTATGTA
14843838 TTATGTAAGTTATTATAAGTAAG
1 TTATGTAAGTTATTAT-A-TAAG
*
14843861 TTATGAAAGTTA-TATATAAG
1 TTATGTAAGTTATTATATAAG
*
14843881 TTATGTAAGTTATTATGTAAG
1 TTATGTAAGTTATTATATAAG
14843902 TTA
1 TTA
14843905 ACTGTTGTGT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
20 15 0.38
21 11 0.28
22 3 0.08
23 11 0.28
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (21 bp):
TTATGTAAGTTATTATATAAG
Found at i:14843962 original size:52 final size:52
Alignment explanation
Indices: 14843886--14844165 Score: 544
Period size: 52 Copynumber: 5.4 Consensus size: 52
14843876 ATAAGTTATG
*
14843886 TAAGTTAT-TATGTAAGTTAACTGTTGTGTAAGTTTGTATATAAATTTAATT
1 TAAGTTATGTATGTAAGTTATCTGTTGTGTAAGTTTGTATATAAATTTAATT
14843937 TAAGTTATGTATGTAAGTTATCTGTTGTGTAAGTTTGTATATAAATTTAATT
1 TAAGTTATGTATGTAAGTTATCTGTTGTGTAAGTTTGTATATAAATTTAATT
14843989 TAAGTTATGTATGTAAGTTATCTGTTGTGTAAGTTTGTATATAAATTTAATT
1 TAAGTTATGTATGTAAGTTATCTGTTGTGTAAGTTTGTATATAAATTTAATT
14844041 TAAGTTATGTATGTAAGTTATCTGTTGTGTAAGTTTGTATATAAATTTAATT
1 TAAGTTATGTATGTAAGTTATCTGTTGTGTAAGTTTGTATATAAATTTAATT
14844093 TAAGTTATGTATGTAAGTTATCTGTTGTGTAAGTTTGTATATAAATTTAATT
1 TAAGTTATGTATGTAAGTTATCTGTTGTGTAAGTTTGTATATAAATTTAATT
14844145 TAAGTTATGTATGTAAGTTAT
1 TAAGTTATGTATGTAAGTTAT
14844166 GTCAGTTGTG
Statistics
Matches: 227, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
51 8 0.04
52 219 0.96
ACGTcount: A:0.31, C:0.02, G:0.17, T:0.50
Consensus pattern (52 bp):
TAAGTTATGTATGTAAGTTATCTGTTGTGTAAGTTTGTATATAAATTTAATT
Found at i:14844172 original size:9 final size:9
Alignment explanation
Indices: 14844154--14844225 Score: 62
Period size: 9 Copynumber: 8.4 Consensus size: 9
14844144 TTAAGTTATG
14844154 TATGTAAGT
1 TATGTAAGT
*
14844163 TATGTCAGT
1 TATGTAAGT
*
14844172 TGTGT-A-T
1 TATGTAAGT
*
14844179 AATGTAAGT
1 TATGTAAGT
* *
14844188 TATGAAATT
1 TATGTAAGT
14844197 TATGT-A-T
1 TATGTAAGT
14844204 TATGTAAGT
1 TATGTAAGT
*
14844213 TATTTAAGT
1 TATGTAAGT
14844222 TATG
1 TATG
14844226 AAATATAAAG
Statistics
Matches: 49, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
7 10 0.20
8 4 0.08
9 35 0.71
ACGTcount: A:0.32, C:0.01, G:0.19, T:0.47
Consensus pattern (9 bp):
TATGTAAGT
Found at i:14844188 original size:25 final size:25
Alignment explanation
Indices: 14844155--14844225 Score: 79
Period size: 25 Copynumber: 2.8 Consensus size: 25
14844145 TAAGTTATGT
** *
14844155 ATGTAAGTTATGTCAGTTGTGTATA
1 ATGTAAGTTATGAAAGTTATGTATA
* *
14844180 ATGTAAGTTATGAAATTTATGTATT
1 ATGTAAGTTATGAAAGTTATGTATA
**
14844205 ATGTAAGTTATTTAAGTTATG
1 ATGTAAGTTATGAAAGTTATG
14844226 AAATATAAAG
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.32, C:0.01, G:0.20, T:0.46
Consensus pattern (25 bp):
ATGTAAGTTATGAAAGTTATGTATA
Found at i:14844197 original size:156 final size:154
Alignment explanation
Indices: 14843886--14844215 Score: 515
Period size: 156 Copynumber: 2.1 Consensus size: 154
14843876 ATAAGTTATG
*
14843886 TAAGTTATTATGTAAGTTAACTGTTGTGTAAGTTTGTATATAAATTTAATTTAAGTTATGTATGT
1 TAAGTTATTATGTAAGTTATCTGTTGTGTAAGTTTGTATATAAATTTAATTTAAGTTATGTATGT
*
14843951 AAGTTATCTGTTGTGTAAGTTTGTATATAAATTTAATTTAAGTTATGTATGTAAGTTATCTGTTG
66 AAGTTATCTGTTGTGTAAGTTTGTATATAAATTTAATTTAAGTTATGTATGTAAGTTATCAGTTG
* **
14844016 TGTAAGTTTGTATATAAATTTAATT
131 TGTAAG-ATGTATATAAATGAAATT
14844041 TAAGTTATGTATGTAAGTTATCTGTTGTGTAAGTTTGTATATAAATTTAATTTAAGTTATGTATG
1 TAAGTTAT-TATGTAAGTTATCTGTTGTGTAAGTTTGTATATAAATTTAATTTAAGTTATGTATG
14844106 TAAGTTATCTGTTGTGTAAGTTTGTATATAAATTTAATTTAAGTTATGTATGTAAGTTATGTCAG
65 TAAGTTATCTGTTGTGTAAGTTTGTATATAAATTTAATTTAAGTTATGTATGTAAGTTA--TCAG
*
14844171 TTGTGTATA-ATGTA-AGT-TATGAAATT
128 TTGTGTA-AGATGTATA-TAAATGAAATT
*
14844197 TATG-TATTATGTAAGTTAT
1 TAAGTTATTATGTAAGTTAT
14844216 TTAAGTTATG
Statistics
Matches: 163, Mismatches: 7, Indels: 11
0.90 0.04 0.06
Matches are distributed among these distances:
154 12 0.07
155 11 0.07
156 124 0.76
157 5 0.03
158 10 0.06
159 1 0.01
ACGTcount: A:0.32, C:0.02, G:0.18, T:0.49
Consensus pattern (154 bp):
TAAGTTATTATGTAAGTTATCTGTTGTGTAAGTTTGTATATAAATTTAATTTAAGTTATGTATGT
AAGTTATCTGTTGTGTAAGTTTGTATATAAATTTAATTTAAGTTATGTATGTAAGTTATCAGTTG
TGTAAGATGTATATAAATGAAATT
Found at i:14845848 original size:18 final size:18
Alignment explanation
Indices: 14845825--14845867 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
14845815 TTTTCATTAA
*
14845825 GCGAAACGGTGACGTTTT
1 GCGAAACGGCGACGTTTT
14845843 GCGAAACGGCGACGTTTT
1 GCGAAACGGCGACGTTTT
14845861 GCGAAAC
1 GCGAAAC
14845868 TTTAATTGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.26, C:0.21, G:0.33, T:0.21
Consensus pattern (18 bp):
GCGAAACGGCGACGTTTT
Found at i:14846120 original size:82 final size:83
Alignment explanation
Indices: 14845965--14846172 Score: 231
Period size: 83 Copynumber: 2.5 Consensus size: 83
14845955 TATATAAATA
* * * **
14845965 ATTGCGGCGTTTT-CTTAAAAAAAACACCACCATTAAATTATTTTCCAGTACAAAAACGGCGCCG
1 ATTGCGGCGTTTTCCTT---AAAAACGCCACTATAAAATT-TTTTCCAACACAAAAACGGCGCCG
* * *
14846029 CATA-GGGAAATTTAATTAATC
62 CATACGGAAAAGTTAATCAATC
** * *
14846050 ATTGCGGCGTTTTCCTTAAAAACGCCACTATAAAATTTTTTCCAACACTGAAACGGCGCCTCATT
1 ATTGCGGCGTTTTCCTTAAAAACGCCACTATAAAATTTTTTCCAACACAAAAACGGCGCCGCATA
14846115 CGGAAAAGTTAATCAATC
66 CGGAAAAGTTAATCAATC
* * *
14846133 ATTGCGGCGTTTCCCCTAAAAACGCCACTATCAAATTTTT
1 ATTGCGGCGTTTTCCTTAAAAACGCCACTATAAAATTTTT
14846173 ATTACTATTA
Statistics
Matches: 106, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
82 22 0.21
83 68 0.64
85 13 0.12
86 3 0.03
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.29
Consensus pattern (83 bp):
ATTGCGGCGTTTTCCTTAAAAACGCCACTATAAAATTTTTTCCAACACAAAAACGGCGCCGCATA
CGGAAAAGTTAATCAATC
Found at i:14846840 original size:14 final size:14
Alignment explanation
Indices: 14846813--14846861 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
14846803 ACTAAAGCAG
**
14846813 CCTAAACCCCAAAC
1 CCTAAACCTTAAAC
14846827 CCTAAACCTTAAA-
1 CCTAAACCTTAAAC
14846840 CCTCAAACTCTTAAAC
1 CCT-AAAC-CTTAAAC
14846856 CCTAAA
1 CCTAAA
14846862 TCCAAAACAC
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
13 3 0.10
14 15 0.50
15 9 0.30
16 3 0.10
ACGTcount: A:0.43, C:0.39, G:0.00, T:0.18
Consensus pattern (14 bp):
CCTAAACCTTAAAC
Found at i:14846840 original size:21 final size:22
Alignment explanation
Indices: 14846815--14846879 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 22
14846805 TAAAGCAGCC
14846815 TAAACCCCAAAC-CCTAAACCT
1 TAAACCCCAAACACCTAAACCT
* * * *
14846836 TAAACCTCAAACTCTTAAACCC
1 TAAACCCCAAACACCTAAACCT
* * *
14846858 TAAATCCAAAACACCAAAACCT
1 TAAACCCCAAACACCTAAACCT
14846880 ACATCATAAA
Statistics
Matches: 33, Mismatches: 10, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
21 11 0.33
22 22 0.67
ACGTcount: A:0.46, C:0.37, G:0.00, T:0.17
Consensus pattern (22 bp):
TAAACCCCAAACACCTAAACCT
Found at i:14847130 original size:49 final size:47
Alignment explanation
Indices: 14847023--14847140 Score: 110
Period size: 49 Copynumber: 2.4 Consensus size: 47
14847013 ACTCTCAAAC
* * * * *
14847023 CCTAAACTAAAAACACTAAACCTATATAGTAAACCTTAAACCCTAAA
1 CCTAAACCAAAAATAATAAACCTATATAATAAACCCTAAACCCTAAA
* * * *
14847070 CTGTAATCCAAAAATAATAAACATTATATAATGAACCCTAATACCCTAAA
1 C-CTAAACCAAAAATAATAAAC-CTATATAATAAACCCTAA-ACCCTAAA
* *
14847120 CCTAAACCAAATATGATAAAC
1 CCTAAACCAAAAATAATAAAC
14847141 TAAATATATA
Statistics
Matches: 55, Mismatches: 13, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
47 1 0.02
48 15 0.27
49 30 0.55
50 9 0.16
ACGTcount: A:0.51, C:0.23, G:0.03, T:0.23
Consensus pattern (47 bp):
CCTAAACCAAAAATAATAAACCTATATAATAAACCCTAAACCCTAAA
Found at i:14847409 original size:115 final size:112
Alignment explanation
Indices: 14847178--14847447 Score: 339
Period size: 115 Copynumber: 2.4 Consensus size: 112
14847168 ATGCATGGTT
**
14847178 AAGACCAAAACG-ATGCGTTTTGGTTAAGATATTTTGCAACGCTTCTCAAGCGCCGCTAATACTA
1 AAGACCAAAACGCA-GCGTTTTGGTTAAGATATTTTGCGGCGCTTCTCAAGCGCCGCTAATACTA
* * * * * *
14847242 TGCTTTAGCGGTATTTTCTAGTAAGTGCCACAAATTCTAGTATACATT
65 TGCATTAGCAGCATTTTCTAGTAAGCGCCACAAATTCTAATATACATC
* *
14847290 AAGACCAAAACGCAGCGTTTTGGTTAAGATATTTTGTGGCGCTTCTCACAAAGTGCCGCTAATAC
1 AAGACCAAAACGCAGCGTTTTGGTTAAGATATTTTGCGGCGCTTCT--C-AAGCGCCGCTAATAC
* * *
14847355 TATGCATTAGCAGCGTTTTCTCA-TAAGCGCCACTAATTCTAATATACCTC
63 TATGCATTAGCAGCATTTTCT-AGTAAGCGCCACAAATTCTAATATACATC
* *
14847405 AAGACC-AAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTT
1 AAGACCAAAACGCAGCGTTTTGGTTAAGATATTTTGCGGCGCTT
14847448 TGTGCCTTAG
Statistics
Matches: 137, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
112 41 0.30
113 1 0.01
114 35 0.26
115 59 0.43
116 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (112 bp):
AAGACCAAAACGCAGCGTTTTGGTTAAGATATTTTGCGGCGCTTCTCAAGCGCCGCTAATACTAT
GCATTAGCAGCATTTTCTAGTAAGCGCCACAAATTCTAATATACATC
Found at i:14847520 original size:93 final size:92
Alignment explanation
Indices: 14847361--14847631 Score: 400
Period size: 93 Copynumber: 2.9 Consensus size: 92
14847351 ATACTATGCA
*
14847361 TTAGCAGCGTTTTCTCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACTCTGCGTTTTG
1 TTAGCGGCGTTTTCTCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACTCTGCGTTTTG
14847426 GTTAAGATATTTTGCGGCGCTTTGTGCC
66 GTTAAGATATTTTGCGGCGCTTT-TGCC
* *
14847454 TTAGCGGCATTTTCTCATAAGTGCCACTAATTCTAATATACCTCAAGACCAAACTCTGCGTTTTG
1 TTAGCGGCGTTTTCTCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACTCTGCGTTTTG
* * *
14847519 GTTAAGATATTTTGCAGCAC-TTTGCT
66 GTTAAGATATTTTGCGGCGCTTTTGCC
* * * * *
14847545 TTAGCGGCGTTTTCCCGTAAGCGCCACTAATTCTAGTATACATCAAGACCAAAACGCTGCGTTTT
1 TTAGCGGCGTTTTCTCATAAGCGCCACTAATTCTAATATACCTCAAGACC-AAACTCTGCGTTTT
* *
14847610 GGTTAAGAGATTTTGCGACGCT
65 GGTTAAGATATTTTGCGGCGCT
14847632 ATTCACAAAG
Statistics
Matches: 159, Mismatches: 17, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
91 47 0.30
92 32 0.20
93 80 0.50
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.34
Consensus pattern (92 bp):
TTAGCGGCGTTTTCTCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACTCTGCGTTTTG
GTTAAGATATTTTGCGGCGCTTTTGCC
Found at i:14847834 original size:114 final size:113
Alignment explanation
Indices: 14847540--14847974 Score: 566
Period size: 114 Copynumber: 3.8 Consensus size: 113
14847530 TTGCAGCACT
* *
14847540 TTGCTTTAGCGGCGTTTTCCCGTAAGCGCCACTAATTCTAGTATACATCAAGACCAAAACGCTGC
1 TTGCTTTAGCGGCGTTTTCCCATAAGCGCCACTAATTCTAATATACATCAAGACCAAAACGCTGC
* * *
14847605 GTTTTGGTTAAGAGATTTTGCGACGCTATTCACAAAGCGCCGCTAATAC
66 GTTTTGGTTAAGAGATTTTGCGGCGCTTTTCACAAAGC-ACGCTAATAC
* * * *
14847654 TATGCGTTAGCGGCGTTTTCCCATAAGCGCCACTAATTCTAATATACCTCAATACC-AAACTCTG
1 T-TGCTTTAGCGGCGTTTTCCCATAAGCGCCACTAATTCTAATATACATCAAGACCAAAACGCTG
* * *
14847718 CGTTTTGGTTAATATATTTTGCGGCGCTTTTTACAAAGCACAGCTAATAC
65 CGTTTTGGTTAAGAGATTTTGCGGCGCTTTTCACAAAGCAC-GCTAATAC
* ** * * * *
14847768 TTGCTTTAGCGGCATTTTTTCGTATGCGCCACTAATTCTAATATACATCAAGACTAAAACGATGC
1 TTGCTTTAGCGGCGTTTTCCCATAAGCGCCACTAATTCTAATATACATCAAGACCAAAACGCTGC
** * * *
14847833 GTTTTCCTTAAAAAATTTTGCGGCGCTTTTCACGAAGCATCGCTAATAC
66 GTTTTGGTTAAGAGATTTTGCGGCGCTTTTCACAAAGCA-CGCTAATAC
* * *
14847882 TTGCTTTAGCGGCGTTTTCCCATAATCGCCACTAATTCTAGTATACATAAAGACCAAAACGCTGC
1 TTGCTTTAGCGGCGTTTTCCCATAAGCGCCACTAATTCTAATATACATCAAGACCAAAACGCTGC
* *
14847947 ATTTTGGTTAAGAGATTTTGCAGCGCTT
66 GTTTTGGTTAAGAGATTTTGCGGCGCTT
14847975 GATGGTAAAC
Statistics
Matches: 272, Mismatches: 45, Indels: 8
0.84 0.14 0.02
Matches are distributed among these distances:
113 46 0.17
114 176 0.65
115 50 0.18
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.32
Consensus pattern (113 bp):
TTGCTTTAGCGGCGTTTTCCCATAAGCGCCACTAATTCTAATATACATCAAGACCAAAACGCTGC
GTTTTGGTTAAGAGATTTTGCGGCGCTTTTCACAAAGCACGCTAATAC
Found at i:14858566 original size:2 final size:2
Alignment explanation
Indices: 14858559--14858595 Score: 51
Period size: 2 Copynumber: 19.0 Consensus size: 2
14858549 ACATTTACAC
14858559 AT AT AT AT AT AT AT AT AT AT AT -T CAT A- AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT
14858596 TCCAATTCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
1 2 0.06
2 29 0.91
3 1 0.03
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:14859446 original size:16 final size:17
Alignment explanation
Indices: 14859419--14859450 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
14859409 CGTTTTGAGC
14859419 TTTCTGTTTCTTTCTTA
1 TTTCTGTTTCTTTCTTA
14859436 TTTCT-TTTCTTTCTT
1 TTTCTGTTTCTTTCTT
14859451 TTGTTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.03, C:0.19, G:0.03, T:0.75
Consensus pattern (17 bp):
TTTCTGTTTCTTTCTTA
Found at i:14869111 original size:21 final size:21
Alignment explanation
Indices: 14869085--14869128 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
14869075 TGCGTGTATG
14869085 CTCACTAAATTAATTAAGCAA
1 CTCACTAAATTAATTAAGCAA
*
14869106 CTCACTCAATTAATTAAGCAA
1 CTCACTAAATTAATTAAGCAA
14869127 CT
1 CT
14869129 GAATCTTATG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.43, C:0.23, G:0.05, T:0.30
Consensus pattern (21 bp):
CTCACTAAATTAATTAAGCAA
Found at i:14869918 original size:2 final size:2
Alignment explanation
Indices: 14869880--14869905 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
14869870 AATACTAGCT
14869880 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
14869906 AAGGATAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:14873416 original size:23 final size:23
Alignment explanation
Indices: 14873387--14873441 Score: 110
Period size: 23 Copynumber: 2.4 Consensus size: 23
14873377 TTTCTTAATC
14873387 TAATAATTTGATGGTTCCGTTTA
1 TAATAATTTGATGGTTCCGTTTA
14873410 TAATAATTTGATGGTTCCGTTTA
1 TAATAATTTGATGGTTCCGTTTA
14873433 TAATAATTT
1 TAATAATTT
14873442 AATACTTGTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.29, C:0.07, G:0.15, T:0.49
Consensus pattern (23 bp):
TAATAATTTGATGGTTCCGTTTA
Found at i:14876744 original size:28 final size:28
Alignment explanation
Indices: 14876711--14876780 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
14876701 AAATAAAAAA
*
14876711 TACCAAAATGT-TATAACTTTTTTTTATT
1 TACCAAAATATATATAA-TTTTTTTTATT
*
14876739 TACCAAAAAATATATAATTTTTTTTATT
1 TACCAAAATATATATAATTTTTTTTATT
14876767 TACCAAAATATATA
1 TACCAAAATATATA
14876781 AAAAAACAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
28 33 0.87
29 5 0.13
ACGTcount: A:0.41, C:0.10, G:0.01, T:0.47
Consensus pattern (28 bp):
TACCAAAATATATATAATTTTTTTTATT
Found at i:14876890 original size:27 final size:27
Alignment explanation
Indices: 14876860--14876926 Score: 98
Period size: 27 Copynumber: 2.5 Consensus size: 27
14876850 AGGGAAGCAG
*
14876860 GTTGGCAGCACCAAACAAGGGAACCCT
1 GTTGGCGGCACCAAACAAGGGAACCCT
** *
14876887 GTTGGCGGCACCAAACAAGGGTTCCTT
1 GTTGGCGGCACCAAACAAGGGAACCCT
14876914 GTTGGCGGCACCA
1 GTTGGCGGCACCA
14876927 CCCTTGAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.25, C:0.28, G:0.30, T:0.16
Consensus pattern (27 bp):
GTTGGCGGCACCAAACAAGGGAACCCT
Found at i:14876991 original size:12 final size:12
Alignment explanation
Indices: 14876974--14877058 Score: 54
Period size: 12 Copynumber: 7.1 Consensus size: 12
14876964 AAAGAGAGGG
14876974 GAAG-AAGAAGAA
1 GAAGAAAGAA-AA
*
14876986 GAAGAAAGAAAG
1 GAAGAAAGAAAA
14876998 GAAGAAAG-AAA
1 GAAGAAAGAAAA
*
14877009 -AAGAAGGAAAA
1 GAAGAAAGAAAA
* *
14877020 G--GAAAGGAGAG
1 GAAGAAA-GAAAA
14877031 GAAAGAAAGAAAAA
1 G-AAGAAAG-AAAA
14877045 GAAGGAAAGAAAA
1 GAA-GAAAGAAAA
14877058 G
1 G
14877059 GAAAGGGGAG
Statistics
Matches: 56, Mismatches: 8, Indels: 17
0.69 0.10 0.21
Matches are distributed among these distances:
10 9 0.16
11 9 0.16
12 13 0.23
13 13 0.23
14 12 0.21
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (12 bp):
GAAGAAAGAAAA
Found at i:14876994 original size:10 final size:10
Alignment explanation
Indices: 14876974--14877108 Score: 65
Period size: 10 Copynumber: 13.8 Consensus size: 10
14876964 AAAGAGAGGG
14876974 GAAGAAG-AA
1 GAAGAAGAAA
14876983 GAAGAAGAAA
1 GAAGAAGAAA
14876993 GAAAGGAAGAAA
1 G-AA-GAAGAAA
* *
14877005 GAAAAAGAAG
1 GAAGAAGAAA
14877015 GAA-AAGGAAA
1 GAAGAA-GAAA
* *
14877025 GGAGAGGAAA
1 GAAGAAGAAA
14877035 G-A-AAGAAA
1 GAAGAAGAAA
14877043 -AAGAAGGAAA
1 GAAGAA-GAAA
14877053 GAA-AAGGAAA
1 GAAGAA-GAAA
** *
14877063 GGGGAGGAAA
1 GAAGAAGAAA
14877073 G-A-AAGAAA
1 GAAGAAGAAA
*
14877081 -AATAAGGAAA
1 GAAGAA-GAAA
14877091 GAA-AAGGAAA
1 GAAGAA-GAAA
14877101 GAAGAAGA
1 GAAGAAGA
14877109 GAAATTTTTT
Statistics
Matches: 100, Mismatches: 11, Indels: 29
0.71 0.08 0.21
Matches are distributed among these distances:
8 12 0.12
9 14 0.14
10 54 0.54
11 12 0.12
12 8 0.08
ACGTcount: A:0.66, C:0.00, G:0.33, T:0.01
Consensus pattern (10 bp):
GAAGAAGAAA
Found at i:14877012 original size:28 final size:29
Alignment explanation
Indices: 14876961--14877061 Score: 89
Period size: 28 Copynumber: 3.3 Consensus size: 29
14876951 TGGTGGGGGG
* * *
14876961 AAGAAAGAGAGGGGAAGAAGAAGAAGAAGA
1 AAGAAAG-GAAGGAAAGAAAAAGAAGAAGA
14876991 AAGAAAGGAA-GAAAGAAAAAGAAGGAA-A
1 AAGAAAGGAAGGAAAGAAAAAGAA-GAAGA
* *
14877019 AGGAAAGGAGAGGAAAGAAAGAAAAAGAAGGA
1 AAGAAAGGA-AGGAAAGAAA-AAGAAGAA-GA
14877051 AAGAAAAGGAA
1 AAG-AAAGGAA
14877062 AGGGGAGGAA
Statistics
Matches: 58, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
28 20 0.34
29 6 0.10
30 18 0.31
31 4 0.07
32 4 0.07
33 6 0.10
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (29 bp):
AAGAAAGGAAGGAAAGAAAAAGAAGAAGA
Found at i:14877035 original size:38 final size:38
Alignment explanation
Indices: 14876999--14877101 Score: 160
Period size: 38 Copynumber: 2.8 Consensus size: 38
14876989 GAAAGAAAGG
14876999 AAGAAAGAAAAAGAA-G---GAAAAGGAAAGGAGAGGA
1 AAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAGGA
*
14877033 AAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGGGAGGA
1 AAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAGGA
*
14877071 AAGAAAGAAAAATAAGGAAAGAAAAGGAAAG
1 AAGAAAGAAAAAGAAGGAAAGAAAAGGAAAG
14877102 AAGAAGAGAA
Statistics
Matches: 63, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
34 15 0.24
35 1 0.02
38 47 0.75
ACGTcount: A:0.66, C:0.00, G:0.33, T:0.01
Consensus pattern (38 bp):
AAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAGGA
Found at i:14877062 original size:28 final size:28
Alignment explanation
Indices: 14876978--14877063 Score: 88
Period size: 34 Copynumber: 3.0 Consensus size: 28
14876968 AGAGGGGAAG
*
14876978 AAGAAGAAGAA-GAAAG-AAAGG-AAGA
1 AAGAAAAAGAAGGAAAGAAAAGGAAAGA
14877003 AAGAAAAAGAAGGAAAAGGAAAGGAGAGGAAAGA
1 AAGAAAAAGAAGG-AAA-G-AA--A-AGGAAAGA
14877037 AAGAAAAAGAAGGAAAGAAAAGGAAAG
1 AAGAAAAAGAAGGAAAGAAAAGGAAAG
14877064 GGGAGGAAAG
Statistics
Matches: 51, Mismatches: 1, Indels: 15
0.76 0.01 0.22
Matches are distributed among these distances:
25 10 0.20
26 1 0.02
27 3 0.06
28 8 0.16
29 1 0.02
30 1 0.02
31 2 0.04
32 2 0.04
33 6 0.12
34 17 0.33
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (28 bp):
AAGAAAAAGAAGGAAAGAAAAGGAAAGA
Found at i:14877338 original size:15 final size:15
Alignment explanation
Indices: 14877314--14877352 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
14877304 CAATAACCAC
*
14877314 AATAACTAAAACTAG
1 AATAATTAAAACTAG
*
14877329 AATAATT-AAATTAG
1 AATAATTAAAACTAG
14877343 AATAATTAAA
1 AATAATTAAA
14877353 TTGATACAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 13 0.62
15 8 0.38
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.28
Consensus pattern (15 bp):
AATAATTAAAACTAG
Found at i:14877345 original size:14 final size:14
Alignment explanation
Indices: 14877326--14877354 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
14877316 TAACTAAAAC
14877326 TAGAATAATTAAAT
1 TAGAATAATTAAAT
14877340 TAGAATAATTAAAT
1 TAGAATAATTAAAT
14877354 T
1 T
14877355 GATACAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (14 bp):
TAGAATAATTAAAT
Found at i:14879605 original size:27 final size:27
Alignment explanation
Indices: 14879566--14879655 Score: 126
Period size: 27 Copynumber: 3.3 Consensus size: 27
14879556 TAGTGTGTTT
14879566 TACCCTTGTTTGGTGCCGCCAACAGGG
1 TACCCTTGTTTGGTGCCGCCAACAGGG
* *
14879593 AACCCTTGTTTGGTGCTGCCAACAGGG
1 TACCCTTGTTTGGTGCCGCCAACAGGG
** *
14879620 TTTCATTGTTTGGTGCCGCCAACAGGG
1 TACCCTTGTTTGGTGCCGCCAACAGGG
*
14879647 TTCCCTTGT
1 TACCCTTGT
14879656 CCGAGGGAGT
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 54 1.00
ACGTcount: A:0.14, C:0.27, G:0.28, T:0.31
Consensus pattern (27 bp):
TACCCTTGTTTGGTGCCGCCAACAGGG
Found at i:14879748 original size:28 final size:29
Alignment explanation
Indices: 14879714--14879771 Score: 100
Period size: 28 Copynumber: 2.0 Consensus size: 29
14879704 TTTTTTTTGG
*
14879714 ATATATTTTGGTAAAT-AAAAAAAATTAT
1 ATATATTTTAGTAAATAAAAAAAAATTAT
14879742 ATATATTTTAGTAAATAAAAAAAAATTAT
1 ATATATTTTAGTAAATAAAAAAAAATTAT
14879771 A
1 A
14879772 NNNNNNNNNN
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 15 0.54
29 13 0.46
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (29 bp):
ATATATTTTAGTAAATAAAAAAAAATTAT
Found at i:14882777 original size:11 final size:10
Alignment explanation
Indices: 14882761--14882798 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
14882751 ATCAGTCCAG
14882761 GTTTTTTTTCT
1 GTTTTTTTT-T
14882772 G-TTTTTTTT
1 GTTTTTTTTT
*
14882781 ATTTTTTTTT
1 GTTTTTTTTT
14882791 GTTTTTTT
1 GTTTTTTT
14882799 GATATATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
9 1 0.04
10 22 0.92
11 1 0.04
ACGTcount: A:0.03, C:0.03, G:0.08, T:0.87
Consensus pattern (10 bp):
GTTTTTTTTT
Found at i:14882808 original size:19 final size:20
Alignment explanation
Indices: 14882766--14882808 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
14882756 TCCAGGTTTT
* *
14882766 TTTTCTGTTTTTTTTAT-TT
1 TTTTCTGTTTTTTTGATATA
*
14882785 TTTTTTGTTTTTTTGATATA
1 TTTTCTGTTTTTTTGATATA
14882805 TTTT
1 TTTT
14882809 GGTAAATAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.09, C:0.02, G:0.07, T:0.81
Consensus pattern (20 bp):
TTTTCTGTTTTTTTGATATA
Found at i:14882832 original size:27 final size:29
Alignment explanation
Indices: 14882800--14882867 Score: 106
Period size: 28 Copynumber: 2.4 Consensus size: 29
14882790 TGTTTTTTTG
14882800 ATATATTTTGGTAAAT-AAAAAAA-TTAT
1 ATATATTTTGGTAAATAAAAAAAAGTTAT
14882827 ATATATTTTGGTAAATAAAAAAAAGTTAT
1 ATATATTTTGGTAAATAAAAAAAAGTTAT
*
14882856 A-ACATTTTGGTA
1 ATATATTTTGGTA
14882868 CGTGAGAAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
27 16 0.42
28 17 0.45
29 5 0.13
ACGTcount: A:0.49, C:0.01, G:0.10, T:0.40
Consensus pattern (29 bp):
ATATATTTTGGTAAATAAAAAAAAGTTAT
Found at i:14883379 original size:17 final size:17
Alignment explanation
Indices: 14883354--14883387 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
14883344 CATGCAAATC
14883354 AATTCAAAATAAATAAT
1 AATTCAAAATAAATAAT
* *
14883371 AATTTAAAATAAGTAAT
1 AATTCAAAATAAATAAT
14883388 TTACAACAAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (17 bp):
AATTCAAAATAAATAAT
Found at i:14885049 original size:20 final size:21
Alignment explanation
Indices: 14885021--14885060 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
14885011 AGAGATTTGC
*
14885021 AAAAGAAGA-AAAAATAAAAT
1 AAAAGAAGATAAAAAGAAAAT
*
14885041 AAAATAAGATAAAAAGAAAA
1 AAAAGAAGATAAAAAGAAAA
14885061 CGAAGAGAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.80, C:0.00, G:0.10, T:0.10
Consensus pattern (21 bp):
AAAAGAAGATAAAAAGAAAAT
Found at i:14885998 original size:44 final size:44
Alignment explanation
Indices: 14885950--14886096 Score: 154
Period size: 44 Copynumber: 3.3 Consensus size: 44
14885940 AAGTCTGCTT
* *
14885950 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCCGC-A
1 TCTTCGATCTACTTC-CCACCAATATAGGAAGACAAGATCCGCTA
* * *
14885994 TCTTCGATCCACTTCCTACCAATATAGGAATACAAGA-CCTGCTA
1 TCTTCGATCTACTTCCCACCAATATAGGAAGACAAGATCC-GCTA
* * * * * * *
14886038 TCCTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
1 TCTTCGATCTACTTCCCACCAATATAGGAAGACAAGATCCGCTA
14886082 TCTTCGATCTACTTC
1 TCTTCGATCTACTTC
14886097 GGCGTTAACG
Statistics
Matches: 84, Mismatches: 16, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
42 2 0.02
43 20 0.24
44 61 0.73
45 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.14, T:0.28
Consensus pattern (44 bp):
TCTTCGATCTACTTCCCACCAATATAGGAAGACAAGATCCGCTA
Found at i:14886305 original size:86 final size:87
Alignment explanation
Indices: 14886100--14886306 Score: 299
Period size: 87 Copynumber: 2.4 Consensus size: 87
14886090 CTACTTCGGC
* * *
14886100 GTTAACGCAGGAAGGTAAGATCTGCTATCTTTAACCAGCTCCACTGTAACCGATGGAGGCAAGGC
1 GTTAACGCAGGAAGGCAAGATCTGCTATCTTTGACCAGCTCCACTGCAACCGATGGAGGCAAGGC
*
14886165 TTTGTTTTCGATCTGCTTCACT
66 TTTGTTTTCGATCTGCTCCACT
* * * *
14886187 GTTAATGCAGGAAGACAAGATCTGCTATCTTTGACCAGCTCCATTGCAATCGATGGAGGCAAGG-
1 GTTAACGCAGGAAGGCAAGATCTGCTATCTTTGACCAGCTCCACTGCAACCGATGGAGGCAAGGC
* *
14886251 TTTTTTTTCGATCTGCTCCGCT
66 TTTGTTTTCGATCTGCTCCACT
* *
14886273 GTTAACGCAAGAAGGCAAGATCTGCTTTCTTTGA
1 GTTAACGCAGGAAGGCAAGATCTGCTATCTTTGA
14886307 TCTACTTCGC
Statistics
Matches: 106, Mismatches: 14, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
86 49 0.46
87 57 0.54
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (87 bp):
GTTAACGCAGGAAGGCAAGATCTGCTATCTTTGACCAGCTCCACTGCAACCGATGGAGGCAAGGC
TTTGTTTTCGATCTGCTCCACT
Found at i:14886329 original size:131 final size:132
Alignment explanation
Indices: 14886187--14886438 Score: 364
Period size: 131 Copynumber: 1.9 Consensus size: 132
14886177 CTGCTTCACT
* * * *
14886187 GTTAATGCAGGAAGACAAGATCTGCTATCTTTGACCAGCTCCATTGCAA-TCGATGGAGGCAAGG
1 GTTAACGCAGGAAGACAAGATCTACTATCTTTAACCAGCTCCACTGCAACT-GATGGAGGCAAGG
* *
14886251 -TTTTTTTTCGATCTGCTCCGCTGTTAACGCAAGAAGGCAAGATCTGCTTTCTTTGATCTACTTC
65 CTTTGTTTTCGATCTGCTCCGCTGTTAACGCAAGAAGGCAAGATCTGCTATCTTTGATCTACTTC
14886315 GCC
130 GCC
* *
14886318 GTTAACGCAGGAAGATAAGATCTACTATCTTTAACCAGTTCCACTGCAACTGATGGAGGCAAGGC
1 GTTAACGCAGGAAGACAAGATCTACTATCTTTAACCAGCTCCACTGCAACTGATGGAGGCAAGGC
* * ** *
14886383 TTTGTTTTCTATCTGCTTCGCTGTTATTGCAGGAAGGCAAGATCTGCTATCTTTGA
66 TTTGTTTTCGATCTGCTCCGCTGTTAACGCAAGAAGGCAAGATCTGCTATCTTTGA
14886439 CCAACTCCAC
Statistics
Matches: 106, Mismatches: 13, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
131 56 0.53
132 50 0.47
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (132 bp):
GTTAACGCAGGAAGACAAGATCTACTATCTTTAACCAGCTCCACTGCAACTGATGGAGGCAAGGC
TTTGTTTTCGATCTGCTCCGCTGTTAACGCAAGAAGGCAAGATCTGCTATCTTTGATCTACTTCG
CC
Found at i:14886331 original size:218 final size:219
Alignment explanation
Indices: 14886065--14886517 Score: 710
Period size: 218 Copynumber: 2.1 Consensus size: 219
14886055 GCCAATACAT
* * * *
14886065 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGGCGTTAACGCAGGAAGGTAAGATCTGCTATCT
1 GAAGGCAAGATCTGCTTTCTTCGATCTACTTCGCCGTTAACGCAGGAAGATAAGATCTACTATCT
*
14886130 TTAACCAGCTCCACTGTAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCACTGTTAATGC
66 TTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCACTGTTAATGC
* * *
14886195 AGGAAGACAAGATCTGCTATCTTTGACCAGCTCCATTGCAATCGATGGAGGCAAGGTTTT-TTTT
131 AGGAAGACAAGATCTGCTATCTTTGACCAACTCCACTGCAACCGATGGAGGCAAGGTTTTGTTTT
*
14886259 CGATCTGCTCCGCTGTTAACGCAA
196 CGATCTGCTCCGCTGTTAACACAA
*
14886283 GAAGGCAAGATCTGCTTTCTTTGATCTACTTCGCCGTTAACGCAGGAAGATAAGATCTACTATCT
1 GAAGGCAAGATCTGCTTTCTTCGATCTACTTCGCCGTTAACGCAGGAAGATAAGATCTACTATCT
* * * * *
14886348 TTAACCAGTTCCACTGCAACTGATGGAGGCAAGGCTTTGTTTTCTATCTGCTTCGCTGTTATTGC
66 TTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCACTGTTAATGC
*
14886413 AGGAAGGCAAGATCTGCTATCTTTGACCAACTCCACTGCAACCGATGGAGGCAAGGTTTTGTTTT
131 AGGAAGACAAGATCTGCTATCTTTGACCAACTCCACTGCAACCGATGGAGGCAAGGTTTTGTTTT
* ** * *
14886478 CGATCTGGTTTGCTGTTAATACAG
196 CGATCTGCTCCGCTGTTAACACAA
14886502 GAAGGCAAGATCTGCT
1 GAAGGCAAGATCTGCT
14886518 ATATTTGACC
Statistics
Matches: 213, Mismatches: 21, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
218 175 0.82
219 38 0.18
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.31
Consensus pattern (219 bp):
GAAGGCAAGATCTGCTTTCTTCGATCTACTTCGCCGTTAACGCAGGAAGATAAGATCTACTATCT
TTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCACTGTTAATGC
AGGAAGACAAGATCTGCTATCTTTGACCAACTCCACTGCAACCGATGGAGGCAAGGTTTTGTTTT
CGATCTGCTCCGCTGTTAACACAA
Found at i:14886460 original size:87 final size:87
Alignment explanation
Indices: 14886305--14886726 Score: 637
Period size: 87 Copynumber: 4.9 Consensus size: 87
14886295 TGCTTTCTTT
* * * ** * * * *
14886305 GATCTACTTCGCCGTTAACGCAGGAAGATAAGATCTACTATCTTTAACCAGTTCCACTGCAACTG
1 GATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTTGACCAGCTCCACTGCAACCG
*
14886370 ATGGAGGCAAGGCTTTGTTTTC
66 ATGGAGGCAAGGTTTTGTTTTC
* * *
14886392 TATCTGCTTCGCTGTTATTGCAGGAAGGCAAGATCTGCTATCTTTGACCAACTCCACTGCAACCG
1 GATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTTGACCAGCTCCACTGCAACCG
14886457 ATGGAGGCAAGGTTTTGTTTTC
66 ATGGAGGCAAGGTTTTGTTTTC
* * * *
14886479 GATCTGGTTTGCTGTTAATACAGGAAGGCAAGATCTGCTATATTTGACCAGCTCCACTGCAACCG
1 GATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTTGACCAGCTCCACTGCAACCG
*
14886544 ATGGAGGCAATGTTTTGTTTTC
66 ATGGAGGCAAGGTTTTGTTTTC
* *
14886566 GATCTGTTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCG
1 GATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTTGACCAGCTCCACTGCAACCG
*
14886631 ATGGAGGTAAGGTTTTGTTTTC
66 ATGGAGGCAAGGTTTTGTTTTC
* *
14886653 GATCTGCTTCGCTGTTAATGTAGGAAGGCAAGATCTGCTATCTTTGACCAGCTCCACTGCAACTG
1 GATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTTGACCAGCTCCACTGCAACCG
14886718 ATGGAGGCA
66 ATGGAGGCA
14886727 GACTTTGCTT
Statistics
Matches: 302, Mismatches: 33, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
87 302 1.00
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.31
Consensus pattern (87 bp):
GATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTTGACCAGCTCCACTGCAACCG
ATGGAGGCAAGGTTTTGTTTTC
Found at i:14887145 original size:13 final size:13
Alignment explanation
Indices: 14887127--14887154 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
14887117 CAATTTAAGG
14887127 ATACAGGATCTGC
1 ATACAGGATCTGC
14887140 ATACAGGATCTGC
1 ATACAGGATCTGC
14887153 AT
1 AT
14887155 CATTCTGGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.25
Consensus pattern (13 bp):
ATACAGGATCTGC
Found at i:14887959 original size:14 final size:14
Alignment explanation
Indices: 14887940--14887994 Score: 60
Period size: 14 Copynumber: 4.0 Consensus size: 14
14887930 TTAGCCTCTC
14887940 CATTTTT-ACTCTTT
1 CATTTTTCA-TCTTT
*
14887954 CATTTTTCATTTTT
1 CATTTTTCATCTTT
*
14887968 CATTTTCCAT-TTT
1 CATTTTTCATCTTT
*
14887981 CATTCTTCATCTTT
1 CATTTTTCATCTTT
14887995 TTCTTTTTTG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
13 11 0.31
14 23 0.66
15 1 0.03
ACGTcount: A:0.15, C:0.22, G:0.00, T:0.64
Consensus pattern (14 bp):
CATTTTTCATCTTT
Found at i:14887963 original size:7 final size:7
Alignment explanation
Indices: 14887951--14887995 Score: 56
Period size: 7 Copynumber: 6.4 Consensus size: 7
14887941 ATTTTTACTC
14887951 TTTCATT
1 TTTCATT
14887958 TTTCATT
1 TTTCATT
14887965 TTTCATT
1 TTTCATT
*
14887972 TTCCA-T
1 TTTCATT
14887978 TTTCATT
1 TTTCATT
*
14887985 CTTCATCT
1 TTTCAT-T
14887993 TTT
1 TTT
14887996 TCTTTTTTGA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
6 5 0.16
7 24 0.75
8 3 0.09
ACGTcount: A:0.13, C:0.20, G:0.00, T:0.67
Consensus pattern (7 bp):
TTTCATT
Found at i:14888407 original size:29 final size:26
Alignment explanation
Indices: 14888370--14888428 Score: 82
Period size: 29 Copynumber: 2.2 Consensus size: 26
14888360 TCATATTTTA
14888370 TTTTGACTTTGATTGATTTCTCTTTTTGC
1 TTTTGACTTTGATT--TTT-TCTTTTTGC
*
14888399 TTTTGACTTTGATTTTTTCTTTTTGT
1 TTTTGACTTTGATTTTTTCTTTTTGC
14888425 TTTT
1 TTTT
14888429 TTATTTTAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
26 12 0.41
27 3 0.10
29 14 0.48
ACGTcount: A:0.08, C:0.10, G:0.12, T:0.69
Consensus pattern (26 bp):
TTTTGACTTTGATTTTTTCTTTTTGC
Found at i:14893145 original size:17 final size:17
Alignment explanation
Indices: 14893120--14893153 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
14893110 CATGCAAATC
14893120 AATTCAAAATAAATAAT
1 AATTCAAAATAAATAAT
* *
14893137 AATTTAAAATAAGTAAT
1 AATTCAAAATAAATAAT
14893154 TTACAACAAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (17 bp):
AATTCAAAATAAATAAT
Found at i:14904991 original size:50 final size:50
Alignment explanation
Indices: 14904928--14905063 Score: 195
Period size: 50 Copynumber: 2.7 Consensus size: 50
14904918 ATATCGGTGA
* *
14904928 CGATGCCATGTCCCAGACATGGTTTTACA-TTG-ACTCTTCTCAGTCTGTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACTC--CTCAGTCTGTGC
* *
14904978 CGATGCCATGTCCCAAACATGGTCTTACACTAGCACTCCTCGGTCTGTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCCTCAGTCTGTGC
*
14905028 CGATGCCATGTCCCAGACATGGTCTTACACTGGCAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCAC
14905064 ACTTACTGAC
Statistics
Matches: 78, Mismatches: 6, Indels: 4
0.89 0.07 0.05
Matches are distributed among these distances:
50 72 0.92
51 2 0.03
52 4 0.05
ACGTcount: A:0.20, C:0.32, G:0.21, T:0.28
Consensus pattern (50 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCCTCAGTCTGTGC
Found at i:14905156 original size:44 final size:44
Alignment explanation
Indices: 14905090--14905174 Score: 125
Period size: 44 Copynumber: 1.9 Consensus size: 44
14905080 CAACCATGGT
* * * *
14905090 CTTTTCCGTCAATTCTTTCTTAATTTCCATGTTATAAACATAGA
1 CTTTTCCGTCAATTATTCCTTAATTGCCACGTTATAAACATAGA
*
14905134 CTTTTCTGTCAATTATTCCTTAATTGCCACGTTATAAACAT
1 CTTTTCCGTCAATTATTCCTTAATTGCCACGTTATAAACAT
14905175 GGACCTTGAG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 36 1.00
ACGTcount: A:0.27, C:0.21, G:0.07, T:0.45
Consensus pattern (44 bp):
CTTTTCCGTCAATTATTCCTTAATTGCCACGTTATAAACATAGA
Found at i:14907381 original size:15 final size:15
Alignment explanation
Indices: 14907361--14907390 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
14907351 CTCTTTCTTC
14907361 AGAATGATATACCAA
1 AGAATGATATACCAA
*
14907376 AGAATGATATGCCAA
1 AGAATGATATACCAA
14907391 TATTCTTCTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.13, G:0.17, T:0.20
Consensus pattern (15 bp):
AGAATGATATACCAA
Found at i:14909294 original size:35 final size:37
Alignment explanation
Indices: 14909225--14909296 Score: 96
Period size: 35 Copynumber: 2.0 Consensus size: 37
14909215 TAATGATAAT
* *
14909225 AATAATAAAATATATAAAAATATATAAATGAAATGAA
1 AATAATAAAATATATAAAAATAGATAAATAAAATGAA
14909262 AATAA-AAAATATA-AAAAATACGATAAA-AAAATGAA
1 AATAATAAAATATATAAAAATA-GATAAATAAAATGAA
14909297 GACAATTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
35 14 0.44
36 13 0.41
37 5 0.16
ACGTcount: A:0.71, C:0.01, G:0.06, T:0.22
Consensus pattern (37 bp):
AATAATAAAATATATAAAAATAGATAAATAAAATGAA
Found at i:14910848 original size:58 final size:58
Alignment explanation
Indices: 14910740--14910850 Score: 134
Period size: 58 Copynumber: 1.9 Consensus size: 58
14910730 ATCCACTCCA
* * * ** *
14910740 CTGCAACTTCAGAGAGATACAACTTGTAGCTTCAATCTACTCTGCTGCAACTTTAAGG
1 CTGCAACTTAAGAGAGATACAACTTATAACTTCAATCTACTCCACAGCAACTTTAAGG
* *
14910798 CTGCAACTTAAGGGAGATA-AGACTTATAACTTCAATCTGCTCCACAGCAACTT
1 CTGCAACTTAAGAGAGATACA-ACTTATAACTTCAATCTACTCCACAGCAACTT
14910851 CAGGGAGATA
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
57 1 0.02
58 43 0.98
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (58 bp):
CTGCAACTTAAGAGAGATACAACTTATAACTTCAATCTACTCCACAGCAACTTTAAGG
Found at i:14911290 original size:143 final size:143
Alignment explanation
Indices: 14910886--14911769 Score: 1177
Period size: 143 Copynumber: 6.2 Consensus size: 143
14910876 TGCACTACTG
* * * *** *
14910886 CAACTTCA-GAGAGATAAGATCCG---TAACTTATAGCTTTAATCTATTCCACTGCAACTTTAAG
1 CAACTTCAGGA-AGATAAGATCCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGG
* * * * * * *
14910947 GAAATAAGATTTGCTATCTTCAGTCTGCTCCGCTGTAACTTCAGGGAGATAAGGTTGGTGACTTT
65 GAAATAAGATTCGCTGTCTTCAGTCTGCTCCGCTGCAACTTTAGGGAGATAAGGCTGGTGGCTTC
* *
14911012 AATATGCTCCACTG
130 AATCTGCTCCACTA
* * *
14911026 CAACTTCAGGAAGATAAGATCGGCCATAATTTGTAGCTTTAATCTGTTCCACTG-TATGCCAGGG
1 CAACTTCAGGAAGATAAGATCCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGG
*
14911090 AAATAAGATTCGCTGTCTTCAGTCTGTTCCGCTGCAACTTTAGGGAGATAAGGCTGGTGGCTTCA
66 AAATAAGATTCGCTGTCTTCAGTCTGCTCCGCTGCAACTTTAGGGAGATAAGGCTGGTGGCTTCA
*
14911155 ATATGCTCCACTA
131 ATCTGCTCCACTA
* *
14911168 CAACTTCAGGAAGATAATATCCGCCATAATTTGTAGCTTTAATATGTTCCACTGCAACGCCAGGG
1 CAACTTCAGGAAGATAAGATCCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGG
14911233 AAATAAGATTCGCTGTCTTCAGTCTGCTCCGCTGCAACTTTAGGGAGATAAGGCTGGTGGCTTCA
66 AAATAAGATTCGCTGTCTTCAGTCTGCTCCGCTGCAACTTTAGGGAGATAAGGCTGGTGGCTTCA
*
14911298 ATCTGCTCCACTG
131 ATCTGCTCCACTA
**
14911311 CAACTTCAGGAAGATAAGATCCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAAAACCAGGG
1 CAACTTCAGGAAGATAAGATCCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGG
* ** *
14911376 AAATAAGATTCGCTGTCTTTAGTCTGCTTTGCTACAACTTTAGGGAGATAAGGCTGGTGGCTTCA
66 AAATAAGATTCGCTGTCTTCAGTCTGCTCCGCTGCAACTTTAGGGAGATAAGGCTGGTGGCTTCA
*
14911441 ATCTGCTCCACTG
131 ATCTGCTCCACTA
* * * *
14911454 CAAGTTTAGGAAGATAAGATCC-CTCATAATTTGTAGCTTTAATCTGTTCCACTGCAACACTAGG
1 CAACTTCAGGAAGATAAGATCCGC-CATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGG
* * * * ** *
14911518 GAAATAAGATTCGCTGTCTTTAGTCTGTTTCGCTGCAACTTTAGGGTGATAAGGCTATTGCCTTC
65 GAAATAAGATTCGCTGTCTTCAGTCTGCTCCGCTGCAACTTTAGGGAGATAAGGCTGGTGGCTTC
*
14911583 AATCTGCTCTACTA
130 AATCTGCTCCACTA
* * * * * **
14911597 CAACTTCAGGAAGATAAGATCTGTCATAATTTATAGCTTTAATATGTTCCACTACAACGTTAGGG
1 CAACTTCAGGAAGATAAGATCCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGG
* * * * * *
14911662 AAATAATATTCGTTGTCTTCAGTCTACTCCGCTGCAACTTCAGGGAGATAAGGTTGGTGGCTTTA
66 AAATAAGATTCGCTGTCTTCAGTCTGCTCCGCTGCAACTTTAGGGAGATAAGGCTGGTGGCTTCA
14911727 ATCTGCTCCACTA
131 ATCTGCTCCACTA
* * *
14911740 CAACTTTAGAAAGATAAGATCCGCTATAAT
1 CAACTTCAGGAAGATAAGATCCGCCATAAT
14911770 GATTTCAATC
Statistics
Matches: 661, Mismatches: 76, Indels: 11
0.88 0.10 0.01
Matches are distributed among these distances:
140 19 0.03
141 2 0.00
142 125 0.19
143 515 0.78
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (143 bp):
CAACTTCAGGAAGATAAGATCCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGG
AAATAAGATTCGCTGTCTTCAGTCTGCTCCGCTGCAACTTTAGGGAGATAAGGCTGGTGGCTTCA
ATCTGCTCCACTA
Found at i:14912658 original size:10 final size:10
Alignment explanation
Indices: 14912640--14912692 Score: 70
Period size: 10 Copynumber: 5.0 Consensus size: 10
14912630 TGGCCTCTCC
*
14912640 CTTTCTTTTT
1 CTTTTTTTTT
14912650 CTTTTTTTTT
1 CTTTTTTTTT
14912660 CTTTTTTTCTCT
1 CTTTTTTT-T-T
14912672 CTTTTTATTTT
1 CTTTTT-TTTT
14912683 CTTTTTTTTT
1 CTTTTTTTTT
14912693 AAGTGAAGTA
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
10 21 0.54
11 8 0.21
12 8 0.21
13 2 0.05
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (10 bp):
CTTTTTTTTT
Found at i:14915621 original size:3 final size:3
Alignment explanation
Indices: 14915607--14915669 Score: 76
Period size: 3 Copynumber: 21.7 Consensus size: 3
14915597 TAAAAAAGTT
* * *
14915607 TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA -AA TCA GAA -AA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
14915653 TAG TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TA
14915670 TTACATTAAT
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
2 4 0.08
3 47 0.92
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:14920097 original size:4 final size:4
Alignment explanation
Indices: 14920088--14920381 Score: 554
Period size: 4 Copynumber: 73.2 Consensus size: 4
14920078 AAATACAAAA
*
14920088 TAAT TAAT TAAT TAAT T-AT TAAT TAAAT ACAAT TAAT TAAT TAAT TAAT
1 TAAT TAAT TAAT TAAT TAAT TAAT T-AAT -TAAT TAAT TAAT TAAT TAAT
14920137 TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT
1 TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT
14920185 TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT
1 TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT
14920233 TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT
1 TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT
14920281 TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT
1 TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT
14920329 TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT
1 TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT
14920377 TAAT T
1 TAAT T
14920382 TTAGTAGACA
Statistics
Matches: 285, Mismatches: 2, Indels: 6
0.97 0.01 0.02
Matches are distributed among these distances:
3 3 0.01
4 276 0.97
5 6 0.02
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
TAAT
Found at i:14923422 original size:16 final size:16
Alignment explanation
Indices: 14923380--14923425 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
14923370 TTTTTGATAA
14923380 ATTTAAATATTATATATC
1 ATTTAAATATT-TA-ATC
14923398 A-TT--ATATTTAATC
1 ATTTAAATATTTAATC
14923411 ATTTAAATATTTAAT
1 ATTTAAATATTTAAT
14923426 GTACCATTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
13 4 0.16
14 4 0.16
15 5 0.20
16 9 0.36
17 2 0.08
18 1 0.04
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.52
Consensus pattern (16 bp):
ATTTAAATATTTAATC
Found at i:14923879 original size:23 final size:23
Alignment explanation
Indices: 14923848--14923892 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
14923838 CCTTTTCATG
14923848 AATTGAATTATT-TCAATTTATTT
1 AATTGAATT-TTATCAATTTATTT
*
14923871 AATTTAATTTTATCAATTTATT
1 AATTGAATTTTATCAATTTATT
14923893 CGATTTAGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 2 0.10
23 18 0.90
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (23 bp):
AATTGAATTTTATCAATTTATTT
Found at i:14924108 original size:19 final size:20
Alignment explanation
Indices: 14924084--14924125 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
14924074 TAACTTACCC
*
14924084 AATTAATTA-TCAAATATAA
1 AATTAAGTACTCAAATATAA
*
14924103 AATTAAGTACTCAAATGTAA
1 AATTAAGTACTCAAATATAA
14924123 AAT
1 AAT
14924126 AATCCAACGC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.55, C:0.07, G:0.05, T:0.33
Consensus pattern (20 bp):
AATTAAGTACTCAAATATAA
Found at i:14929260 original size:19 final size:21
Alignment explanation
Indices: 14929238--14929276 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
14929228 TTTTCTTTTG
14929238 GTTAA-AAT-CTATATCATTA
1 GTTAATAATACTATATCATTA
*
14929257 GTTAATAATATTATATCATT
1 GTTAATAATACTATATCATT
14929277 GGATGACTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 3 0.18
21 9 0.53
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.46
Consensus pattern (21 bp):
GTTAATAATACTATATCATTA
Found at i:14936208 original size:40 final size:38
Alignment explanation
Indices: 14936153--14936278 Score: 132
Period size: 40 Copynumber: 3.2 Consensus size: 38
14936143 CCCAGTTTGG
*
14936153 CACCCAGTGCCTCATCAGATAATTCGAAGTGGTAAATTGA
1 CACCCAGTGCCTCATC-GATAATCCGAAGT-GTAAATTGA
* * *
14936193 CACCCAGTGTCTCATCGATTAAACCGAA--GTAAATTGC
1 CACCCAGTGCCTCATCGA-TAATCCGAAGTGTAAATTGA
*
14936230 CACCCAGTGCCTCATCGAATAAATCCGAAGTAATAAATTGA
1 CACCCAGTGCCTCATCG-AT-AATCCGAAGT-GTAAATTGA
14936271 CA-CCAGTG
1 CACCCAGTG
14936279 TCCCATCTAC
Statistics
Matches: 72, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
37 25 0.35
38 8 0.11
39 2 0.03
40 28 0.39
41 9 0.12
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.23
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGATAATCCGAAGTGTAAATTGA
Found at i:14936234 original size:37 final size:38
Alignment explanation
Indices: 14936153--14936262 Score: 127
Period size: 37 Copynumber: 2.9 Consensus size: 38
14936143 CCCAGTTTGG
*
14936153 CACCCAGTGCCTCATC-AGAT-AATTCGAAGTGGTAAATTGA
1 CACCCAGTGCCTCATCGA-ATAAATCCGAA---GTAAATTGA
* * *
14936193 CACCCAGTGTCTCATCGATTAAA-CCGAAGTAAATTGC
1 CACCCAGTGCCTCATCGAATAAATCCGAAGTAAATTGA
14936230 CACCCAGTGCCTCATCGAATAAATCCGAAGTAA
1 CACCCAGTGCCTCATCGAATAAATCCGAAGTAA
14936263 TAAATTGACA
Statistics
Matches: 61, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
37 29 0.48
38 9 0.15
40 20 0.33
41 3 0.05
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGAATAAATCCGAAGTAAATTGA
Found at i:14937168 original size:18 final size:18
Alignment explanation
Indices: 14937130--14937168 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
14937120 AGGTCGTGGC
*
14937130 TTTCTTTCTTCTTCTCTT
1 TTTCTTTCTTCTTCTCGT
* *
14937148 TTTCTTTCTTTTTGTCGT
1 TTTCTTTCTTCTTCTCGT
14937166 TTT
1 TTT
14937169 GGCTTGGCTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.00, C:0.21, G:0.05, T:0.74
Consensus pattern (18 bp):
TTTCTTTCTTCTTCTCGT
Found at i:14943006 original size:23 final size:24
Alignment explanation
Indices: 14942960--14943009 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
14942950 GCGTGTTTAT
*
14942960 TTTTTAAAATTTTTAAATAATATA
1 TTTTTAAAATTTTAAAATAATATA
* *
14942984 TTTTTATAATTTTAAAAT-GTATA
1 TTTTTAAAATTTTAAAATAATATA
14943007 TTT
1 TTT
14943010 ACTAATTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 7 0.30
24 16 0.70
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (24 bp):
TTTTTAAAATTTTAAAATAATATA
Done.