Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 124 of 410
Found at i:37301885 original size:80 final size:79
Alignment explanation
Indices: 37301773--37302004 Score: 239
Period size: 80 Copynumber: 2.9 Consensus size: 79
37301763 GGATATAGCG
* * * * * * * *
37301773 ACTCGCTCAATTGTCTTCGGGACATAGCCCGGTTATAGTGATTCGCACAATTGCCTTCGGGAATT
1 ACTCGCACAAATGCCTTCGGGACTTAACCCGGTT-TAGTAATTCGCACAAATGCCTTCGGGACTT
37301838 AGCCCGGATTTAGTA
65 AGCCCGGATTTAGTA
* *
37301853 ACTCGCACAAATGCCTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGACTT
1 ACTCGCACAAATGCCTTCGGGACTTAACCCGG-TTTAGTAATTCGCACAAATGCCTTCGGGACTT
* * * *
37301918 AACTCGGTTTTGGTA
65 AGCCCGGATTTAGTA
* * * * * * *
37301933 ACTCACACAAATGCCTTCCGGAATTGACCCGGATTTAGTCACTTAGCACAAAAGCCTTCGGGACT
1 ACTCGCACAAATGCCTTCGGGACTTAACCCGG-TTTAGT-AATTCGCACAAATGCCTTCGGGACT
37301998 TAGCCCG
64 TAGCCCG
37302005 AATACCATTC
Statistics
Matches: 124, Mismatches: 26, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
80 96 0.77
81 28 0.23
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (79 bp):
ACTCGCACAAATGCCTTCGGGACTTAACCCGGTTTAGTAATTCGCACAAATGCCTTCGGGACTTA
GCCCGGATTTAGTA
Found at i:37309227 original size:40 final size:40
Alignment explanation
Indices: 37309174--37309492 Score: 458
Period size: 40 Copynumber: 8.0 Consensus size: 40
37309164 TTGAGAGTTA
* *
37309174 TATATCCAGGCTAAGTCCCGAAGAGCATTCGTACTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* * * *
37309214 TATATCCAGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
37309254 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
*
37309294 TATATCCGGGCTAAGTCCCGAAGAGCATTTGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* * *
37309334 TATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGAGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* * * *
37309374 TATATCTGGGCTAAGTCTCGAAGAGCATTCGTGCTAGAGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* *
37309414 TATATCAGGGTTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* * * *
37309454 TATATCCGGGCTAGGTCCTGAAGAGCAATCATGCTGGTG
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG
37309493 ATGTGTATTC
Statistics
Matches: 254, Mismatches: 25, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 254 1.00
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (40 bp):
TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
Found at i:37309706 original size:25 final size:25
Alignment explanation
Indices: 37309656--37309706 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
37309646 TGTGTAACAA
* * *
37309656 CAAATGAATAGGGGCACTATGTGTG
1 CAAATGAATAGAGGCACTAAGAGTG
*
37309681 CAAATGATTAGAGGCACTAAGAGTG
1 CAAATGAATAGAGGCACTAAGAGTG
37309706 C
1 C
37309707 GAGTTCTTCA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.35, C:0.14, G:0.29, T:0.22
Consensus pattern (25 bp):
CAAATGAATAGAGGCACTAAGAGTG
Found at i:37321559 original size:26 final size:26
Alignment explanation
Indices: 37321529--37321580 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
37321519 ACTGGGAATA
*
37321529 TGTAACACCCCAAACCTGGCCCAGAC
1 TGTAACACCCCAAACCCGGCCCAGAC
*
37321555 TGTAACACCCCAAACCCGGCCTAGAC
1 TGTAACACCCCAAACCCGGCCCAGAC
37321581 GTTATGACCG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.31, C:0.42, G:0.15, T:0.12
Consensus pattern (26 bp):
TGTAACACCCCAAACCCGGCCCAGAC
Found at i:37325805 original size:40 final size:39
Alignment explanation
Indices: 37325637--37325807 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
37325627 AGAAATTGAA
* *
37325637 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
37325677 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
37325717 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
37325757 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
37325797 TGATATCCGGG
1 TGATATCCGGG
37325808 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:37333743 original size:40 final size:39
Alignment explanation
Indices: 37333575--37333745 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
37333565 AGAAATTGAA
* *
37333575 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
37333615 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
37333655 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
37333695 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
37333735 TGATATCCGGG
1 TGATATCCGGG
37333746 TAANGAACTC
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:37335259 original size:20 final size:20
Alignment explanation
Indices: 37335221--37335259 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
37335211 ATATCAATGT
*
37335221 CATATGTTATGAAAGATATG
1 CATATGTTATGAAAAATATG
37335241 CATAT-TTATGCAAAAATAT
1 CATATGTTATG-AAAAATAT
37335260 CCAAATTGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.36
Consensus pattern (20 bp):
CATATGTTATGAAAAATATG
Found at i:37335788 original size:17 final size:18
Alignment explanation
Indices: 37335768--37335805 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
37335758 TTATTGAATG
* *
37335768 AATTTTAAATT-TTATTT
1 AATTATAAATTATTATAT
37335785 AATTATAAATTATTATAT
1 AATTATAAATTATTATAT
37335803 AAT
1 AAT
37335806 AAAATTAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
AATTATAAATTATTATAT
Found at i:37341460 original size:40 final size:40
Alignment explanation
Indices: 37341415--37341544 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
37341405 CGGAATACAA
37341415 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
37341455 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
37341495 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
37341535 CCGGATATAA
1 CCGGATATAA
37341545 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:37341559 original size:40 final size:40
Alignment explanation
Indices: 37341415--37341578 Score: 145
Period size: 40 Copynumber: 4.1 Consensus size: 40
37341405 CGGAATACAA
* **
37341415 CCGGATATAACCACGTGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCACCAGCAC-AATTGCCTTCGGGTCTTAGC
* *
37341455 CCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-CAGCAC-AATTGCCTTCGGGTCTTAGC
* ** * *
37341495 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
** * * *
37341535 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
37341575 CCGG
1 CCGG
37341579 GTATCATTCA
Statistics
Matches: 100, Mismatches: 21, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
39 2 0.02
40 98 0.98
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:37348739 original size:40 final size:40
Alignment explanation
Indices: 37348694--37348823 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
37348684 CGGAATACAA
37348694 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
37348734 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
37348774 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
37348814 CCGGATATAA
1 CCGGATATAA
37348824 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:37348838 original size:40 final size:40
Alignment explanation
Indices: 37348694--37348857 Score: 145
Period size: 40 Copynumber: 4.1 Consensus size: 40
37348684 CGGAATACAA
* **
37348694 CCGGATATAACCACGTGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCACCAGCAC-AATTGCCTTCGGGTCTTAGC
* *
37348734 CCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-CAGCAC-AATTGCCTTCGGGTCTTAGC
* ** * *
37348774 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
** * * *
37348814 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
37348854 CCGG
1 CCGG
37348858 TATCATTCAA
Statistics
Matches: 100, Mismatches: 21, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
39 2 0.02
40 98 0.98
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:37359639 original size:46 final size:46
Alignment explanation
Indices: 37359589--37359764 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
37359579 TGGTTGAGCA
37359589 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
37359635 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
37359680 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
37359728 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
37359765 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:37359745 original size:93 final size:93
Alignment explanation
Indices: 37359586--37359757 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
37359576 GGATGGTTGA
* *
37359586 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
37359651 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
37359679 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
37359744 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
37359758 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:37372563 original size:26 final size:26
Alignment explanation
Indices: 37372534--37372594 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
37372524 ATAAGAGCCC
** *
37372534 TAATCAGGAAGTTCACAAAGAACTTT
1 TAATCAGGAAACTCACAAAGAACCTT
*
37372560 TAATCAGGAAACTCACAAAGAGCCTT
1 TAATCAGGAAACTCACAAAGAACCTT
37372586 TAATCAGGA
1 TAATCAGGA
37372595 GCTCCGGATA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.43, C:0.18, G:0.16, T:0.23
Consensus pattern (26 bp):
TAATCAGGAAACTCACAAAGAACCTT
Found at i:37373733 original size:30 final size:29
Alignment explanation
Indices: 37373684--37373742 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
37373674 TTTTTTTATC
*
37373684 ATTTATCATTTTTTTTATTTCACTTTCCA
1 ATTTATCATTTTCTTTATTTCACTTTCCA
* * *
37373713 ATTTCATCCTTTTCTTTATTTTATTTTCCA
1 ATTT-ATCATTTTCTTTATTTCACTTTCCA
37373743 TGGATATATC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 4 0.16
30 21 0.84
ACGTcount: A:0.19, C:0.19, G:0.00, T:0.63
Consensus pattern (29 bp):
ATTTATCATTTTCTTTATTTCACTTTCCA
Found at i:37377669 original size:29 final size:29
Alignment explanation
Indices: 37377636--37377694 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
37377626 GGGCTGCTAA
37377636 GGACCTAATTGAATTTCAGATAGGCTTAG
1 GGACCTAATTGAATTTCAGATAGGCTTAG
37377665 GGACCTAATTGAATTTCAGATAGGCTTAG
1 GGACCTAATTGAATTTCAGATAGGCTTAG
37377694 G
1 G
37377695 TTGTGATGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.31
Consensus pattern (29 bp):
GGACCTAATTGAATTTCAGATAGGCTTAG
Found at i:37380778 original size:27 final size:27
Alignment explanation
Indices: 37380741--37380879 Score: 151
Period size: 27 Copynumber: 5.1 Consensus size: 27
37380731 AGCATGGCTG
* *
37380741 CCAGA-ACAGATAATGTGACAGAGTCA
1 CCAGATACAGATAATGTGGCAGAGCCA
37380767 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGATACAGATAAT-GTGGCAGAGCCA
* * *
37380795 CCA-AAACAGAAATATGTGGCAGAGTCA
1 CCAGATACAGATA-ATGTGGCAGAGCCA
*
37380822 CCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGATACAGATAA-TGTGGCAGAGCCA
*
37380849 CCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGATACAGATAA-TGTGGCAGAGCCA
37380876 CCAG
1 CCAG
37380880 GACGCTTCCT
Statistics
Matches: 99, Mismatches: 9, Indels: 9
0.85 0.08 0.08
Matches are distributed among these distances:
26 6 0.06
27 77 0.78
28 16 0.16
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.17
Consensus pattern (27 bp):
CCAGATACAGATAATGTGGCAGAGCCA
Found at i:37380841 original size:54 final size:55
Alignment explanation
Indices: 37380745--37380879 Score: 168
Period size: 54 Copynumber: 2.5 Consensus size: 55
37380735 TGGCTGCCAG
* *
37380745 AACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCACCAA
1 AACAGAAATATGTGGCAGAGTCACCAGATACAGATAATCGTGGCAGAGCCACCAA
* * *
37380799 AACAGAAATATGTGGCAGAGTCACCAGAT-CAGATAATTGTGGCATAGCCACCAG
1 AACAGAAATATGTGGCAGAGTCACCAGATACAGATAATCGTGGCAGAGCCACCAA
* * *
37380853 ATCAGATAAT-TGTGGCATAGCCACCAG
1 AACAGA-AATATGTGGCAGAGTCACCAG
37380880 GACGCTTCCT
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
54 49 0.69
55 22 0.31
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.18
Consensus pattern (55 bp):
AACAGAAATATGTGGCAGAGTCACCAGATACAGATAATCGTGGCAGAGCCACCAA
Found at i:37381238 original size:17 final size:17
Alignment explanation
Indices: 37381216--37381249 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
37381206 GTACTGCAGT
37381216 TTATTACCTTCAGAATA
1 TTATTACCTTCAGAATA
37381233 TTATTACCTTCAGAATA
1 TTATTACCTTCAGAATA
37381250 CCAAACATAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.18, G:0.06, T:0.41
Consensus pattern (17 bp):
TTATTACCTTCAGAATA
Found at i:37384522 original size:20 final size:20
Alignment explanation
Indices: 37384497--37384541 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
37384487 AGGGACTAAA
* *
37384497 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
*
37384517 ATGAAAAATTCTAAAATTTT
1 ATGAAAAATTCTAAAATTTG
37384537 ATGAA
1 ATGAA
37384542 TACATGTGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.49, C:0.02, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:37386584 original size:13 final size:14
Alignment explanation
Indices: 37386566--37386599 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
37386556 TTTATCTTTG
37386566 TCTTTAAT-TTTAA
1 TCTTTAATCTTTAA
37386579 TCTTTAATCTTTAA
1 TCTTTAATCTTTAA
37386593 T-TTTAAT
1 TCTTTAAT
37386600 GTTAGTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 14 0.70
14 6 0.30
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.62
Consensus pattern (14 bp):
TCTTTAATCTTTAA
Found at i:37386586 original size:7 final size:7
Alignment explanation
Indices: 37386566--37386599 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
37386556 TTTATCTTTG
37386566 TCTTTAA
1 TCTTTAA
37386573 T-TTTAA
1 TCTTTAA
37386579 TCTTTAA
1 TCTTTAA
37386586 TCTTTAA
1 TCTTTAA
37386593 T-TTTAA
1 TCTTTAA
37386599 T
1 T
37386600 GTTAGTTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 12 0.46
7 14 0.54
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.62
Consensus pattern (7 bp):
TCTTTAA
Found at i:37386591 original size:20 final size:19
Alignment explanation
Indices: 37386518--37386599 Score: 73
Period size: 19 Copynumber: 4.4 Consensus size: 19
37386508 TTTCTAATTC
37386518 ATTTTAATCTTT-TC-TTA
1 ATTTTAATCTTTATCTTTA
* * *
37386535 GTTTT-ATTTTTAT-TTCTC
1 ATTTTAATCTTTATCTT-TA
* *
37386553 ATTTTTATCTTTGTCTTTA
1 ATTTTAATCTTTATCTTTA
37386572 ATTTTAATCTTTAATCTTTA
1 ATTTTAATCTTT-ATCTTTA
37386592 ATTTTAAT
1 ATTTTAAT
37386600 GTTAGTTTTA
Statistics
Matches: 50, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
16 5 0.10
17 6 0.12
18 5 0.10
19 18 0.36
20 16 0.32
ACGTcount: A:0.22, C:0.10, G:0.02, T:0.66
Consensus pattern (19 bp):
ATTTTAATCTTTATCTTTA
Found at i:37386705 original size:44 final size:44
Alignment explanation
Indices: 37386654--37386740 Score: 147
Period size: 44 Copynumber: 2.0 Consensus size: 44
37386644 TACTAATAAG
*
37386654 TTTGTTTATTTTTAAACAGTCCAATTTTCAAATAAAGTTTGGGT
1 TTTGTTTATTTTTAAACAATCCAATTTTCAAATAAAGTTTGGGT
* *
37386698 TTTGTTTATTTTTAAGCAATCCAATTTTCAAATAATGTTTGGG
1 TTTGTTTATTTTTAAACAATCCAATTTTCAAATAAAGTTTGGG
37386741 CTCAAGGCCT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.29, C:0.09, G:0.14, T:0.48
Consensus pattern (44 bp):
TTTGTTTATTTTTAAACAATCCAATTTTCAAATAAAGTTTGGGT
Found at i:37388595 original size:38 final size:38
Alignment explanation
Indices: 37388552--37388624 Score: 119
Period size: 38 Copynumber: 1.9 Consensus size: 38
37388542 TTTCAAATTA
*
37388552 ACATGTATAACTGTGGCATATCCACTTAGCACCACATT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACATT
* *
37388590 ACATGTTTAACCGTGGTATATCCACTTAGCACCAC
1 ACATGTATAACCGTGGCATATCCACTTAGCACCAC
37388625 GTTAATGAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (38 bp):
ACATGTATAACCGTGGCATATCCACTTAGCACCACATT
Found at i:37388655 original size:47 final size:48
Alignment explanation
Indices: 37388597--37388722 Score: 209
Period size: 48 Copynumber: 2.6 Consensus size: 48
37388587 ATTACATGTT
37388597 TAACCGTGGTATATCCACTTAGCACCACGTTA-ATGAATCAATACATG
1 TAACCGTGGTATATCCACTTAGCACCACGTTACATGAATCAATACATG
* * *
37388644 TAACCGTGGTATATTCACTTAGCACCACGTTACATGATTCAATATATG
1 TAACCGTGGTATATCCACTTAGCACCACGTTACATGAATCAATACATG
*
37388692 TAATCGTGGTATATCCACTTAGCACCACGTT
1 TAACCGTGGTATATCCACTTAGCACCACGTT
37388723 TTTTTCATTC
Statistics
Matches: 73, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
47 31 0.42
48 42 0.58
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (48 bp):
TAACCGTGGTATATCCACTTAGCACCACGTTACATGAATCAATACATG
Found at i:37394261 original size:42 final size:43
Alignment explanation
Indices: 37394187--37394286 Score: 114
Period size: 42 Copynumber: 2.3 Consensus size: 43
37394177 TGATTGAGAT
* **
37394187 TTTCGTATAAGACCATGTCTGGGAAATTGGCATC-ATATCT-AA
1 TTTCGTGTAAGACCATGTCTGGGAAAGAGGCATCGATAT-TGAA
* *
37394229 TTTCGTGTAAGACCCTGTCTGGGACAGAGGCATCGATATTGAA
1 TTTCGTGTAAGACCATGTCTGGGAAAGAGGCATCGATATTGAA
* *
37394272 TTACATGTAAGACCA
1 TTTCGTGTAAGACCA
37394287 CGTCCAGGAC
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
42 30 0.62
43 18 0.38
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (43 bp):
TTTCGTGTAAGACCATGTCTGGGAAAGAGGCATCGATATTGAA
Found at i:37396190 original size:68 final size:67
Alignment explanation
Indices: 37396116--37396297 Score: 187
Period size: 67 Copynumber: 2.7 Consensus size: 67
37396106 CATCATGTGT
* * *
37396116 ACAAGAGGGCTACGAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TGTA-TACACCA
1 ACAAGAGAGCTACGAGA-A-TAT-ATGTAGCTAGGTCGCATGGGTGATACTAGTGAAGGACACCA
37396179 TGTAG
63 TGTAG
* * * *
37396184 ATAAGAGAGCTACGAG-ATATATGTAGCTAGGTCGCATGTGTGGTTCTAGGTGAAGGACACCATG
1 ACAAGAGAGCTACGAGAATATATGTAGCTAGGTCGCATGGGTGATACTA-GTGAAGGACACCATG
37396248 TAG
65 TAG
* * *
37396251 ACAAGAGAGCTACGAG-ATAAACTG--GCTAGGTCACATGGGTGGTACTA
1 ACAAGAGAGCTACGAGAATATA-TGTAGCTAGGTCGCATGGGTGATACTA
37396298 AGTGTTCACC
Statistics
Matches: 98, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
64 25 0.26
65 3 0.03
66 24 0.24
67 30 0.31
68 16 0.16
ACGTcount: A:0.31, C:0.15, G:0.30, T:0.24
Consensus pattern (67 bp):
ACAAGAGAGCTACGAGAATATATGTAGCTAGGTCGCATGGGTGATACTAGTGAAGGACACCATGT
AG
Found at i:37400479 original size:12 final size:13
Alignment explanation
Indices: 37400451--37400483 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
37400441 TTATTTCTTT
37400451 TTCTCCATCTACC
1 TTCTCCATCTACC
*
37400464 TTCTCC-TCTTCC
1 TTCTCCATCTACC
37400476 TTCTCCAT
1 TTCTCCAT
37400484 AGCTGAACCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.09, C:0.45, G:0.00, T:0.45
Consensus pattern (13 bp):
TTCTCCATCTACC
Found at i:37401582 original size:28 final size:28
Alignment explanation
Indices: 37401550--37401612 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
37401540 GATTTACTAG
*
37401550 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* *
37401578 ATACCCCTATGTGTGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
37401606 ATACCCC
1 ATACCCC
37401613 CTAGGGTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.32, C:0.29, G:0.10, T:0.30
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:37401761 original size:27 final size:26
Alignment explanation
Indices: 37401722--37401826 Score: 113
Period size: 27 Copynumber: 3.9 Consensus size: 26
37401712 GGAAGCGTCC
*
37401722 TGGTGGCTATGCCACAATTATCTGATT
1 TGGTGGCTCTGCCAC-ATTATCTGATT
37401749 TGGTGGCTCTGCCACATATATCT-ATT
1 TGGTGGCTCTGCCACAT-TATCTGATT
* *
37401775 CTGGTGGTTCTGCCACGATTATCTGTATC
1 -TGGTGGCTCTGCCAC-ATTATCTG-ATT
* *
37401804 TGGTGACTCTGTCACATTATCTG
1 TGGTGGCTCTGCCACATTATCTG
37401827 TTCTGGCAGC
Statistics
Matches: 67, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
26 5 0.07
27 46 0.69
28 14 0.21
29 2 0.03
ACGTcount: A:0.18, C:0.22, G:0.22, T:0.38
Consensus pattern (26 bp):
TGGTGGCTCTGCCACATTATCTGATT
Found at i:37401825 original size:54 final size:54
Alignment explanation
Indices: 37401721--37401832 Score: 145
Period size: 54 Copynumber: 2.1 Consensus size: 54
37401711 AGGAAGCGTC
* *
37401721 CTGGTGGCTATGCCACAATTATCTGATTTGGTGGCTCTGCCACATATATCTATT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTATT
* * * * *
37401775 CTGGTGGTTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTATT
37401829 CTGG
1 CTGG
37401833 CAGCCATGCT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 33 0.66
55 17 0.34
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTATT
Found at i:37402925 original size:11 final size:10
Alignment explanation
Indices: 37402897--37402930 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
37402887 AGCCTGTAAG
37402897 TATTCTGAAT
1 TATTCTGAAT
*
37402907 TTTTCTGAAT
1 TATTCTGAAT
37402917 ATATTCTGAAT
1 -TATTCTGAAT
37402928 TAT
1 TAT
37402931 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:37405345 original size:40 final size:40
Alignment explanation
Indices: 37405301--37405519 Score: 258
Period size: 40 Copynumber: 5.5 Consensus size: 40
37405291 ACTCGATTGT
* * * * * *
37405301 CTTCGGGACATAGCCCGGTTATAGTAATTCGCACAATTGC
1 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
*
37405341 CTTCGGGACTTAACCCGGTTTTGGTAACTCACACAAATGC
1 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
*
37405381 CTTCGGGACTTAACCCGGTTTTGGTAACTCACACAAATGC
1 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
**
37405421 CTTCGGGACTTAACCCAATTTTGGTAACTCGCACAAATGC
1 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
* * * * * * * *
37405461 CTTCGAGAATTGACCCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGACTTAACCCGGTTTTGGTAAC-TCGCACAAATGC
*
37405502 CTTCGGGACTTAGCCCGG
1 CTTCGGGACTTAACCCGG
37405520 ATACCATTCG
Statistics
Matches: 154, Mismatches: 24, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
40 130 0.84
41 24 0.16
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
Found at i:37413447 original size:40 final size:40
Alignment explanation
Indices: 37413403--37413621 Score: 242
Period size: 40 Copynumber: 5.5 Consensus size: 40
37413393 ACTCGATTGT
* * * * *
37413403 CTTCGGGACATAGCCCGGTTATAGTAATTCGCACAATTGC
1 CTTCGGGACATAACCCGGTTTTGGTAACTCGCACAAATGC
* *
37413443 CTTCGGGACTTAACCCAGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACATAACCCGGTTTTGGTAACTCGCACAAATGC
* *
37413483 CTTCGGGACATAACCCAGTTTTGGTAACTCACACAAATGC
1 CTTCGGGACATAACCCGGTTTTGGTAACTCGCACAAATGC
* *
37413523 CTTTGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACATAACCCGGTTTTGGTAACTCGCACAAATGC
* * * * * *
37413563 CTTCGGGA-ATTGACCCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGACA-TAACCCGGTTTTGGTAAC-TCGCACAAATGC
* *
37413604 CTTCGGGACTTAGCCCGG
1 CTTCGGGACATAACCCGG
37413622 ATACCATTCG
Statistics
Matches: 152, Mismatches: 24, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
40 128 0.84
41 24 0.16
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
CTTCGGGACATAACCCGGTTTTGGTAACTCGCACAAATGC
Found at i:37419756 original size:12 final size:13
Alignment explanation
Indices: 37419728--37419760 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
37419718 TTATTTCTTT
37419728 TTCTCCATCTACC
1 TTCTCCATCTACC
*
37419741 TTCTCC-TCTTCC
1 TTCTCCATCTACC
37419753 TTCTCCAT
1 TTCTCCAT
37419761 AGCTGAACCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.09, C:0.45, G:0.00, T:0.45
Consensus pattern (13 bp):
TTCTCCATCTACC
Found at i:37420839 original size:28 final size:28
Alignment explanation
Indices: 37420807--37420869 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
37420797 ATTTACTAGA
*
37420807 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* *
37420835 ATACCCCTATGTGTGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
37420863 ATACCCC
1 ATACCCC
37420870 CTAGGGTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.32, C:0.29, G:0.10, T:0.30
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:37421018 original size:27 final size:26
Alignment explanation
Indices: 37420978--37421089 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
37420968 AGGAAGCGTC
*
37420978 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
37421005 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
37421032 CTGGTGGTTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* * *
37421060 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGAT
37421086 CTGG
1 CTGG
37421090 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 7 0.09
27 51 0.69
28 16 0.22
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:37421082 original size:54 final size:54
Alignment explanation
Indices: 37420978--37421089 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
37420968 AGGAAGCGTC
*
37420978 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
* * * *
37421032 CTGGTGGTTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
37421086 CTGG
1 CTGG
37421090 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:37430828 original size:22 final size:22
Alignment explanation
Indices: 37430787--37430828 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
37430777 GGTGTTACAG
*
37430787 GTAAGCTCTATTGAGTTGAAAT
1 GTAAGCTCTATTGAGCTGAAAT
37430809 GTAAGCTCT-TTCGAGCTGAA
1 GTAAGCTCTATT-GAGCTGAA
37430829 TCGGTAACCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 2 0.11
22 16 0.89
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.33
Consensus pattern (22 bp):
GTAAGCTCTATTGAGCTGAAAT
Found at i:37432644 original size:40 final size:40
Alignment explanation
Indices: 37432600--37432728 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
37432590 CGCTGGAAAT
* * *
37432600 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGAC
* *
37432640 TATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTGAC
* * *
37432680 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCAATTGTGCGA-GTGAC
37432720 TATATCCGG
1 TATATCCGG
37432729 TTATATTCCG
Statistics
Matches: 77, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
39 4 0.05
40 71 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGAC
Found at i:37440060 original size:32 final size:32
Alignment explanation
Indices: 37440015--37440084 Score: 113
Period size: 32 Copynumber: 2.2 Consensus size: 32
37440005 ACTAGATAAA
*
37440015 AACACATTTGAAATATCAAGAGTCATCACACT
1 AACACATTAGAAATATCAAGAGTCATCACACT
*
37440047 AACACATTAGAAATGTCAAGAGTCATCACACT
1 AACACATTAGAAATATCAAGAGTCATCACACT
*
37440079 ATCACA
1 AACACA
37440085 GTTTTATATA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.44, C:0.23, G:0.10, T:0.23
Consensus pattern (32 bp):
AACACATTAGAAATATCAAGAGTCATCACACT
Found at i:37441740 original size:24 final size:22
Alignment explanation
Indices: 37441708--37441809 Score: 89
Period size: 23 Copynumber: 4.5 Consensus size: 22
37441698 GTTGATAAAC
37441708 AGTAAGCTCTATTGAGCTGAAA
1 AGTAAGCTCTATTGAGCTGAAA
* *
37441730 ATGGTAAGCTCTACTGAGCTGAAC
1 A--GTAAGCTCTATTGAGCTGAAA
*
37441754 AGTAAGCTCT-TTCGAGCTGAATC
1 AGTAAGCTCTATT-GAGCTGAA-A
* * * *
37441777 GGTAAGCTCCAATGAACTGAAA
1 AGTAAGCTCTATTGAGCTGAAA
37441799 CAGTAAGCTCT
1 -AGTAAGCTCT
37441810 TACGATTGAA
Statistics
Matches: 64, Mismatches: 10, Indels: 11
0.75 0.12 0.13
Matches are distributed among these distances:
21 1 0.02
22 18 0.28
23 24 0.38
24 21 0.33
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (22 bp):
AGTAAGCTCTATTGAGCTGAAA
Found at i:37441761 original size:22 final size:22
Alignment explanation
Indices: 37441705--37441830 Score: 96
Period size: 22 Copynumber: 5.5 Consensus size: 22
37441695 TAAGTTGATA
*
37441705 AACAGTAAGCTCTATTGAGCTG
1 AACAGTAAGCTCTACTGAGCTG
*
37441727 AAAATGGTAAGCTCTACTGAGCTG
1 AACA--GTAAGCTCTACTGAGCTG
*
37441751 AACAGTAAGCTCT-TTCGAGCTG
1 AACAGTAAGCTCTACT-GAGCTG
* * * *
37441773 AATCGGTAAGCTCCAATGAACTG
1 AA-CAGTAAGCTCTACTGAGCTG
*
37441796 AAACAGTAAGCTCTTAC-GA-TTG
1 -AACAGTAAGCTC-TACTGAGCTG
37441818 AATCAGTAAGCTC
1 AA-CAGTAAGCTC
37441831 ATACAAGCTA
Statistics
Matches: 84, Mismatches: 12, Indels: 16
0.75 0.11 0.14
Matches are distributed among these distances:
21 3 0.04
22 32 0.38
23 25 0.30
24 24 0.29
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.25
Consensus pattern (22 bp):
AACAGTAAGCTCTACTGAGCTG
Found at i:37441797 original size:45 final size:46
Alignment explanation
Indices: 37441704--37441830 Score: 145
Period size: 46 Copynumber: 2.8 Consensus size: 46
37441694 CTAAGTTGAT
* * *
37441704 AAACAGTAAGCTCTATT-GAGCTGAAAAT-GGTAAGCTCTACTGAGCTG
1 AAACAGTAAGCTCT-TTCGAGCTG--AATCGGTAAGCTCCAATGAACTG
37441751 -AACAGTAAGCTCTTTCGAGCTGAATCGGTAAGCTCCAATGAACTG
1 AAACAGTAAGCTCTTTCGAGCTGAATCGGTAAGCTCCAATGAACTG
* * *
37441796 AAACAGTAAGCTCTTACGA-TTGAATCAGTAAGCTC
1 AAACAGTAAGCTCTTTCGAGCTGAATCGGTAAGCTC
37441831 ATACAAGCTA
Statistics
Matches: 71, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
44 3 0.04
45 32 0.45
46 36 0.51
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.25
Consensus pattern (46 bp):
AAACAGTAAGCTCTTTCGAGCTGAATCGGTAAGCTCCAATGAACTG
Found at i:37450948 original size:20 final size:20
Alignment explanation
Indices: 37450895--37450959 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
37450885 ATTTTGATAA
*
37450895 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
37450915 ACATGACA--TATGATATGC
1 ACATGATATGTATGATATGC
37450933 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
37450953 ACATGAT
1 ACATGAT
37450960 GTATTCATAA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
18 17 0.43
20 23 0.57
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:37450963 original size:18 final size:18
Alignment explanation
Indices: 37450902--37450963 Score: 88
Period size: 18 Copynumber: 3.3 Consensus size: 18
37450892 TAAACATGGT
37450902 ATGTATGATATGCACATG
1 ATGTATGATATGCACATG
**
37450920 ACATATGATATGCACATG
1 ATGTATGATATGCACATG
37450938 ATATGTATGATATGCACATG
1 --ATGTATGATATGCACATG
37450958 ATGTAT
1 ATGTAT
37450964 TCATAAATGC
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
18 22 0.58
20 16 0.42
ACGTcount: A:0.35, C:0.11, G:0.19, T:0.34
Consensus pattern (18 bp):
ATGTATGATATGCACATG
Found at i:37451057 original size:24 final size:25
Alignment explanation
Indices: 37451012--37451140 Score: 167
Period size: 24 Copynumber: 5.2 Consensus size: 25
37451002 AGGAAGTGTA
37451012 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
37451037 AAAGGGCTTATG-CCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
*
37451061 AAA-GGCTTATGCCTCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
*
37451085 AAAGGGCTTATGCCCCAGTTATTA-
1 AAAGGGCTTATGCCCCAGTTATGAT
*
37451109 AAAGAGGC-TAGGCCTCCAGTTATATGAT
1 AAAG-GGCTTATGCC-CCAG-T-TATGAT
37451137 AAAG
1 AAAG
37451141 CAGCTATGCT
Statistics
Matches: 92, Mismatches: 5, Indels: 11
0.85 0.05 0.10
Matches are distributed among these distances:
23 8 0.09
24 38 0.41
25 37 0.40
26 1 0.01
27 4 0.04
28 4 0.04
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (25 bp):
AAAGGGCTTATGCCCCAGTTATGAT
Found at i:37451362 original size:31 final size:31
Alignment explanation
Indices: 37451324--37451386 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
37451314 CGTTTACAGT
*
37451324 AAAGGCTTCGGCCCAGTAATATGAAGTATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
37451355 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
37451386 A
1 A
37451387 GTGTGAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.35, C:0.16, G:0.25, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:37455209 original size:29 final size:28
Alignment explanation
Indices: 37455139--37455213 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
37455129 ATACTCGATT
* *
37455139 TCGCACACTTAGTGCCATGCGATTTAGC
1 TCGCACACTTAGTGCCATGCCATTGAGC
* ** *
37455167 CCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGCCATT-GAGC
37455196 TCGCACACTTAGTGCCAT
1 TCGCACACTTAGTGCCAT
37455214 ATATTTCCAG
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
28 19 0.51
29 18 0.49
ACGTcount: A:0.21, C:0.36, G:0.20, T:0.23
Consensus pattern (28 bp):
TCGCACACTTAGTGCCATGCCATTGAGC
Found at i:37455230 original size:29 final size:29
Alignment explanation
Indices: 37455197--37455270 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
37455187 CCTTCGAGCT
37455197 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
37455226 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
37455255 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
37455271 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:37456433 original size:14 final size:16
Alignment explanation
Indices: 37456414--37456445 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
37456404 GCATCCATGC
37456414 TCATTT-TTT-TTTTT
1 TCATTTCTTTATTTTT
37456428 TCATTTCTTTATTTTT
1 TCATTTCTTTATTTTT
37456444 TC
1 TC
37456446 TACATAATCC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 3 0.19
16 7 0.44
ACGTcount: A:0.09, C:0.12, G:0.00, T:0.78
Consensus pattern (16 bp):
TCATTTCTTTATTTTT
Found at i:37461614 original size:18 final size:19
Alignment explanation
Indices: 37461593--37461628 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
37461583 AATAAAGAAA
*
37461593 GGAATTAAA-AAGAAAAGG
1 GGAATAAAATAAGAAAAGG
37461611 GGAATAAAATAAGAAAAG
1 GGAATAAAATAAGAAAAG
37461629 AAAAAGGGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.64, C:0.00, G:0.25, T:0.11
Consensus pattern (19 bp):
GGAATAAAATAAGAAAAGG
Found at i:37463021 original size:59 final size:58
Alignment explanation
Indices: 37462927--37463056 Score: 242
Period size: 59 Copynumber: 2.2 Consensus size: 58
37462917 AATTGTACAA
37462927 CACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATATATAG
1 CACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATATATAG
*
37462985 CACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATAG
1 CACTAAGTGTGCGAACTGAAAA-TATATAGCACTAAGTGTGCGAGCTGAAAATATATAG
37463044 CACTAAGTGTGCG
1 CACTAAGTGTGCG
37463057 GATTCACTAT
Statistics
Matches: 70, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
58 21 0.30
59 49 0.70
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.25
Consensus pattern (58 bp):
CACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATATATAG
Found at i:37463068 original size:29 final size:29
Alignment explanation
Indices: 37462927--37463056 Score: 242
Period size: 29 Copynumber: 4.4 Consensus size: 29
37462917 AATTGTACAA
*
37462927 CACTAAGTGTGCGAACTGAAAATATATAG
1 CACTAAGTGTGCGAGCTGAAAATATATAG
37462956 CACTAAGTGTGCGAGCTGAAAATATATAG
1 CACTAAGTGTGCGAGCTGAAAATATATAG
37462985 CACTAAGTGTGCGAGCTGAAAATTATATAG
1 CACTAAGTGTGCGAGCTGAAAA-TATATAG
37463015 CACTAAGTGTGCGAGCTGAAAATATATAG
1 CACTAAGTGTGCGAGCTGAAAATATATAG
37463044 CACTAAGTGTGCG
1 CACTAAGTGTGCG
37463057 GATTCACTAT
Statistics
Matches: 99, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
29 70 0.71
30 29 0.29
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.25
Consensus pattern (29 bp):
CACTAAGTGTGCGAGCTGAAAATATATAG
Found at i:37468990 original size:29 final size:29
Alignment explanation
Indices: 37468977--37469059 Score: 148
Period size: 29 Copynumber: 2.9 Consensus size: 29
37468967 GTGCTGTATT
* *
37468977 TTTCCAGCATGCACATTTAGTGCCATATA
1 TTTCCAGCACGCACACTTAGTGCCATATA
37469006 TTTCCAGCACGCACACTTAGTGCCATATA
1 TTTCCAGCACGCACACTTAGTGCCATATA
37469035 TTTCCAGCACGCACACTTAGTGCCA
1 TTTCCAGCACGCACACTTAGTGCCA
37469060 ATCTCGTCAC
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 52 1.00
ACGTcount: A:0.27, C:0.30, G:0.14, T:0.29
Consensus pattern (29 bp):
TTTCCAGCACGCACACTTAGTGCCATATA
Found at i:37468991 original size:58 final size:58
Alignment explanation
Indices: 37468928--37469059 Score: 147
Period size: 58 Copynumber: 2.3 Consensus size: 58
37468918 AATTTAAGCC
* * * * ** *
37468928 CGCACACATAGTGCCATACCCTTCGAGCTCGCACACCCAGTGCTGTATTTTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
* * * * **
37468986 TGCACATTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
37469044 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
37469060 ATCTCGTCAC
Statistics
Matches: 59, Mismatches: 15, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.25, C:0.33, G:0.16, T:0.27
Consensus pattern (58 bp):
CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
Found at i:37472021 original size:19 final size:19
Alignment explanation
Indices: 37471999--37472052 Score: 51
Period size: 19 Copynumber: 2.9 Consensus size: 19
37471989 TAAATTTTGG
37471999 TATTTCTCTTAATTTTTTA
1 TATTTCTCTTAATTTTTTA
37472018 TATTTTCTCATT--TTTTTTA
1 TA-TTTCTC-TTAATTTTTTA
* *
37472037 TA-TCCTCGTAATTTTT
1 TATTTCTCTTAATTTTT
37472053 ACTATTCTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
16 1 0.03
17 4 0.14
18 5 0.17
19 11 0.38
20 6 0.21
21 2 0.07
ACGTcount: A:0.19, C:0.13, G:0.02, T:0.67
Consensus pattern (19 bp):
TATTTCTCTTAATTTTTTA
Found at i:37479505 original size:20 final size:20
Alignment explanation
Indices: 37479480--37479517 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
37479470 GTTTATTCGC
*
37479480 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
37479500 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
37479518 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:37481177 original size:28 final size:28
Alignment explanation
Indices: 37481145--37481213 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
37481135 GCGTAGATCA
37481145 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
37481173 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
37481201 CGATA-TACCCCTA
1 CGAAATTACCCCTA
37481214 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:37486132 original size:29 final size:29
Alignment explanation
Indices: 37486099--37486172 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
37486089 GTGACGAGAT
37486099 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
37486128 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
37486157 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
37486173 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:37486188 original size:29 final size:29
Alignment explanation
Indices: 37486156--37486231 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
37486146 CTGGAAATAT
* *
37486156 ATGGCACTAAGTGTGCGAG-CTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCCT-AAAGCGC
** * *
37486185 ATGGCACTGTGTGTGCGGGCCTAAATCGC
1 ATGGCACTAAGTGTGCGAGCCTAAAGCGC
37486214 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
37486232 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
29 35 0.95
30 2 0.05
ACGTcount: A:0.22, C:0.21, G:0.36, T:0.21
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCCTAAAGCGC
Found at i:37494000 original size:29 final size:29
Alignment explanation
Indices: 37493967--37494040 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
37493957 GTGACGAGAT
37493967 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
37493996 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
37494025 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
37494041 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:37494056 original size:29 final size:29
Alignment explanation
Indices: 37494024--37494099 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
37494014 CTGGAAATAT
* *
37494024 ATGGCACTAAGTGTGCGAG-CTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCCT-AAAGCGC
** * *
37494053 ATGGCACTGTGTGTGCGGGCCTAAATCGC
1 ATGGCACTAAGTGTGCGAGCCTAAAGCGC
37494082 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
37494100 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
29 35 0.95
30 2 0.05
ACGTcount: A:0.22, C:0.21, G:0.36, T:0.21
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCCTAAAGCGC
Found at i:37496896 original size:38 final size:38
Alignment explanation
Indices: 37496847--37496970 Score: 149
Period size: 38 Copynumber: 3.2 Consensus size: 38
37496837 GGCACGAAGG
* * * * *
37496847 CCCGAATATAATACCAGCACTAGGCCTGCTGGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
37496885 CCCTGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
** *
37496923 CCCGGATATTTTACCAGCACGAAGCCTGCGGGTCTTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGG-ATTTAA
37496962 GCCCGGATA
1 -CCCGGATA
37496971 CACATCAAAT
Statistics
Matches: 74, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
38 61 0.82
39 5 0.07
40 8 0.11
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.23
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:37502439 original size:37 final size:38
Alignment explanation
Indices: 37502334--37502455 Score: 147
Period size: 38 Copynumber: 3.2 Consensus size: 38
37502324 GGCACGAAGG
* * * *
37502334 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
37502372 CCCTGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
** *
37502410 CCCGGATATTTTACCA-CACGAAGCCTGCGGGTCTTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGG-ATTTAA
*
37502448 GCCGGATA
1 CCCGGATA
37502456 CACATCAAAT
Statistics
Matches: 73, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
37 15 0.21
38 58 0.79
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:37503862 original size:21 final size:21
Alignment explanation
Indices: 37503836--37503876 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
37503826 AAACTTCATC
*
37503836 TTATAACCATTTTTTAAAAAT
1 TTATAACCATTTTATAAAAAT
**
37503857 TTATAATGATTTTATAAAAA
1 TTATAACCATTTTATAAAAA
37503877 CAGAACAGAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.46
Consensus pattern (21 bp):
TTATAACCATTTTATAAAAAT
Found at i:37511626 original size:25 final size:25
Alignment explanation
Indices: 37511597--37511644 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
37511587 TTATAATATG
* * *
37511597 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
37511622 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
37511645 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:37511711 original size:20 final size:20
Alignment explanation
Indices: 37511688--37511746 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
37511678 TAAACATGGT
37511688 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
*
37511708 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAC
37511728 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
37511747 GGTATTCATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:37511728 original size:11 final size:11
Alignment explanation
Indices: 37511692--37511746 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
37511682 CATGGTATGT
37511692 ATGATATGCAC
1 ATGATATGCAC
* *
37511703 ATGACATG--T
1 ATGATATGCAC
37511712 ATGATATGCAC
1 ATGATATGCAC
*
37511723 ATGATATG--T
1 ATGATATGCAC
37511732 ATGATATGCAC
1 ATGATATGCAC
37511743 ATGA
1 ATGA
37511747 GGTATTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:37511823 original size:24 final size:24
Alignment explanation
Indices: 37511796--37511963 Score: 266
Period size: 24 Copynumber: 7.0 Consensus size: 24
37511786 GGAGAAGTGC
37511796 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
37511820 AAAAGGGCTTCTGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
37511844 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
37511868 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
37511892 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
37511916 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
37511940 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
37511964 ATGATAAAGC
Statistics
Matches: 135, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
24 124 0.92
25 11 0.08
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:37519783 original size:20 final size:20
Alignment explanation
Indices: 37519760--37519818 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
37519750 TAAACATGGT
37519760 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
*
37519780 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAC
37519800 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
37519819 GGTATTCATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:37519800 original size:11 final size:11
Alignment explanation
Indices: 37519764--37519818 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
37519754 CATGGTATGT
37519764 ATGATATGCAC
1 ATGATATGCAC
* *
37519775 ATGACATG--T
1 ATGATATGCAC
37519784 ATGATATGCAC
1 ATGATATGCAC
*
37519795 ATGATATG--T
1 ATGATATGCAC
37519804 ATGATATGCAC
1 ATGATATGCAC
37519815 ATGA
1 ATGA
37519819 GGTATTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:37519938 original size:48 final size:48
Alignment explanation
Indices: 37519867--37520093 Score: 364
Period size: 48 Copynumber: 4.7 Consensus size: 48
37519857 GGAGGAAGTG
* *
37519867 CAAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTCTGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCTAGTTATTAAAAGGGCTTCTACCCCAGTTAT
37519915 CAAAAGGGCTTATGCCCTAGTTATTAAAAGGGCTTCTACCCCAGTTAT
1 CAAAAGGGCTTATGCCCTAGTTATTAAAAGGGCTTCTACCCCAGTTAT
*
37519963 CAAAAGGGCTTATGCCCTAGTTATTAAAAGCGCTTCTACCCCAGTTAT
1 CAAAAGGGCTTATGCCCTAGTTATTAAAAGGGCTTCTACCCCAGTTAT
* * *
37520011 CAAAAGGGCTTATGCCCTAGTTATTAAAAGCGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCTAGTTATTAAAAGGGCTTCTACCCCAGTTAT
* * *
37520059 TAAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCT
1 CAAAAGGGCTTATGCCCTAGTTATTAAAAG-GGCT
37520094 AGGCCTCCAG
Statistics
Matches: 169, Mismatches: 9, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
48 166 0.98
49 3 0.02
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (48 bp):
CAAAAGGGCTTATGCCCTAGTTATTAAAAGGGCTTCTACCCCAGTTAT
Found at i:37520103 original size:25 final size:24
Alignment explanation
Indices: 37519868--37520107 Score: 320
Period size: 24 Copynumber: 10.0 Consensus size: 24
37519858 GAGGAAGTGC
37519868 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
37519892 AAAAGGGCTTCTGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
*
37519916 AAAAGGGCTTATGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* * *
37519940 AAAAGGGCTTCTACCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
*
37519964 AAAAGGGCTTATGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* * * *
37519988 AAAAGCGCTTCTACCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
*
37520012 AAAAGGGCTTATGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
37520036 AAAAGCGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
37520060 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
37520084 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
37520108 ATGATAAAGT
Statistics
Matches: 185, Mismatches: 29, Indels: 3
0.85 0.13 0.01
Matches are distributed among these distances:
24 174 0.94
25 11 0.06
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:37522124 original size:40 final size:40
Alignment explanation
Indices: 37522069--37522324 Score: 374
Period size: 40 Copynumber: 6.4 Consensus size: 40
37522059 GATGATAACT
* * * *
37522069 GGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-TTC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TATCC
*
37522109 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATTC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
37522149 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
37522189 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
*
37522229 GGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* * *
37522269 GGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCC
* *
37522309 -GGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
37522325 TACTTGGCTT
Statistics
Matches: 203, Mismatches: 11, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
39 16 0.08
40 187 0.92
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
Found at i:37533948 original size:125 final size:125
Alignment explanation
Indices: 37533762--37534002 Score: 410
Period size: 125 Copynumber: 1.9 Consensus size: 125
37533752 TCTGGGCCGA
* *
37533762 GTAGTACACATGGCTAAGACACACGCCCGTGTCTTTGCCCGTGTGCTCAATTCTGAGCATTCTAT
1 GTAGCACACATGGCTAAGACACACGCCCATGTCTTTGCCCGTGTGCTCAATTCTGAGCATTCTAT
*
37533827 TTCTCAAATTTAAGTTGCAGGGGACACACAACCAAACCACATGCCCATGTGCTAAGCTGT
66 TTCTCAAATTTAAGTTGCAAGGGACACACAACCAAACCACATGCCCATGTGCTAAGCTGT
* * * *
37533887 GTAGCACACATGGCTGAGACATACGCTCATGTCTTTGCCCGTGTGCTCAATTCTGAGCATTCTGT
1 GTAGCACACATGGCTAAGACACACGCCCATGTCTTTGCCCGTGTGCTCAATTCTGAGCATTCTAT
*
37533952 TTCTCAAATTTAAGTTGCAAGGGACACACGACCAAACCACATGCCCATGTG
66 TTCTCAAATTTAAGTTGCAAGGGACACACAACCAAACCACATGCCCATGTG
37534003 TTAGGCCGTG
Statistics
Matches: 108, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
125 108 1.00
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (125 bp):
GTAGCACACATGGCTAAGACACACGCCCATGTCTTTGCCCGTGTGCTCAATTCTGAGCATTCTAT
TTCTCAAATTTAAGTTGCAAGGGACACACAACCAAACCACATGCCCATGTGCTAAGCTGT
Found at i:37534056 original size:125 final size:125
Alignment explanation
Indices: 37533802--37534056 Score: 318
Period size: 125 Copynumber: 2.0 Consensus size: 125
37533792 GTCTTTGCCC
*
37533802 GTGTGCTCAATTCTGAGCATTCTATTTCTCAAATTTAAGTTGCAGGGGACACACAACCAAACCAC
1 GTGTGCTCAATTCTGAGCATTCTATTTCTCAAATTTAAGTTGCAAGGGACACACAACCAAACCAC
* * * * *** *
37533867 ATGCCCATGTGCTAAGCTGTGTAGCACACATGGCTGAGACATACGCTCATGTCTTTGCCC
66 ATGCCCATGTGCTAAGCCGTGTAGCACACACGGCTGACACACACGCTCATGTCTCCACCA
* *
37533927 GTGTGCTCAATTCTGAGCATTCTGTTTCTCAAATTTAAGTTGCAAGGGACACACGACCAAACCAC
1 GTGTGCTCAATTCTGAGCATTCTATTTCTCAAATTTAAGTTGCAAGGGACACACAACCAAACCAC
* * * * *
37533992 ATGCCCATGTGTTAGGCCGTGT-GTCACAGACGGTCATGACACACAC-C-CGTGTGTCCACCA
66 ATGCCCATGTGCTAAGCCGTGTAG-CACACACGG-C-TGACACACACGCTCATGTCTCCACCA
37534052 GTGTG
1 GTGTG
37534057 GAAAAAATAA
Statistics
Matches: 111, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
124 1 0.01
125 100 0.90
126 2 0.02
127 8 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (125 bp):
GTGTGCTCAATTCTGAGCATTCTATTTCTCAAATTTAAGTTGCAAGGGACACACAACCAAACCAC
ATGCCCATGTGCTAAGCCGTGTAGCACACACGGCTGACACACACGCTCATGTCTCCACCA
Found at i:37541154 original size:42 final size:43
Alignment explanation
Indices: 37541102--37541224 Score: 135
Period size: 42 Copynumber: 2.9 Consensus size: 43
37541092 GTACTATCGA
* *
37541102 GATTCCGTATAAGACCATATCTGGGATATGGCATC-AGTATG-T
1 GATTTCGTATAAGACCATATCAGGGATATGGCATCGA-TATGAT
* *
37541144 GATTTCGTATAAGATCATGTCAGGGATATGGCATCGATATGAT
1 GATTTCGTATAAGACCATATCAGGGATATGGCATCGATATGAT
* * * * *
37541187 -ATTTCATGTAAGACCATATCCGGGGTATGGCATTGATA
1 GATTTCGTATAAGACCATATCAGGGATATGGCATCGATA
37541225 CGGTACTAAG
Statistics
Matches: 68, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
42 66 0.97
43 2 0.03
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (43 bp):
GATTTCGTATAAGACCATATCAGGGATATGGCATCGATATGAT
Found at i:37544190 original size:40 final size:40
Alignment explanation
Indices: 37544145--37544310 Score: 187
Period size: 40 Copynumber: 4.2 Consensus size: 40
37544135 CGGAATATAA
37544145 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
37544185 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
37544225 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
37544265 CCGGATATAATTC-C-AGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAA-TCACTAGCACAAATGCCTTCGGGTCTTAGC
37544303 CCGGATAT
1 CCGGATAT
37544311 CATTCAATTT
Statistics
Matches: 108, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
38 13 0.12
39 17 0.16
40 77 0.71
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:37547941 original size:65 final size:64
Alignment explanation
Indices: 37547837--37547972 Score: 161
Period size: 65 Copynumber: 2.1 Consensus size: 64
37547827 GAGAATCATT
* * *
37547837 AGAA-AAGTTGGCCTTATTTTAGCATTTTATGTTGTTTTTAAGTATGTTTTGTTTTCTTGCAT-A
1 AGAATAAGTTGGCCTTATTTTAGCATTTTATGTTGATTTTAAATATG-TTTATTTTCTTG-ATAA
37547900 A
64 A
** *
37547901 AGAATAAGTTGGTGTTATTTTGGCATATTTATGTT-ATTTTAAATATGTTTATTTTCTTGATACA
1 AGAATAAGTTGGCCTTATTTTAGCAT-TTTATGTTGATTTTAAATATGTTTATTTTCTTGATA-A
37547965 A
64 A
37547966 AGAATAA
1 AGAATAA
37547973 AAACAAAGTA
Statistics
Matches: 62, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
63 2 0.03
64 15 0.24
65 37 0.60
66 8 0.13
ACGTcount: A:0.29, C:0.06, G:0.16, T:0.49
Consensus pattern (64 bp):
AGAATAAGTTGGCCTTATTTTAGCATTTTATGTTGATTTTAAATATGTTTATTTTCTTGATAAA
Found at i:37553226 original size:40 final size:40
Alignment explanation
Indices: 37553083--37553228 Score: 197
Period size: 40 Copynumber: 3.7 Consensus size: 40
37553073 AAACCAAGTA
* *
37553083 CCTTCGGGAATTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * * *
37553122 CCTTCGGGATTTATCCCGGTTATACTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
37553162 CCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
37553202 CCTTCGGGACTTAGCCCGGGTATAGTA
1 CCTTCGGGACTTAGCCCGGATATAGTA
37553229 TGTGACAGCC
Statistics
Matches: 93, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
39 13 0.14
40 80 0.86
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:37555001 original size:40 final size:40
Alignment explanation
Indices: 37554916--37555066 Score: 141
Period size: 40 Copynumber: 3.8 Consensus size: 40
37554906 AATTGAATGA
* * * *
37554916 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
37554956 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
37554997 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
37555036 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
37555067 ACGTGGTTAT
Statistics
Matches: 92, Mismatches: 12, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 80 0.87
41 3 0.03
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.22
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:37555080 original size:40 final size:40
Alignment explanation
Indices: 37554953--37555082 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
37554943 ATGCTGGAAA
* * *
37554953 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * ***
37554993 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGACA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
37555033 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
37555073 TTATATCCGG
1 TTATATCCGG
37555083 TTATATTCCG
Statistics
Matches: 72, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:37555081 original size:80 final size:80
Alignment explanation
Indices: 37554915--37555082 Score: 207
Period size: 80 Copynumber: 2.1 Consensus size: 80
37554905 AAATTGAATG
* *
37554915 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
37554980 ATTGTGCTAGTGGCT
66 ATTGTGCTAGTGGCT
* * * * *
37554995 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATTCTATCCGGGCTAAGACCCGAAGG
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGG
* *
37555058 CATTTGTGC-ACGTGGTT
64 CAATTGTGCTA-GTGGCT
37555075 ATATCCGG
1 ATATCCGG
37555083 TTATATTCCG
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
79 5 0.07
80 70 0.93
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCTAGTGGCT
Found at i:37562974 original size:40 final size:39
Alignment explanation
Indices: 37562908--37563053 Score: 138
Period size: 40 Copynumber: 3.8 Consensus size: 39
37562898 AAATTGAATG
*
37562908 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-TGCTGGAAATT
* * ****
37562947 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-TGCTGGAAATT
* * *
37562987 ACATCCGGGCTAAGACCCGAAGGC-ATTCG-TGCGACATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTTGCTG-GAAATT
*
37563025 CTATCCGGGCTAAGACCCGAAGGC-ATTTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTTG
37563054 TGCACGTGGT
Statistics
Matches: 86, Mismatches: 19, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
37 1 0.01
38 29 0.34
39 16 0.19
40 40 0.47
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTTGCTGGAAATT
Found at i:37563071 original size:78 final size:78
Alignment explanation
Indices: 37562908--37563072 Score: 201
Period size: 78 Copynumber: 2.1 Consensus size: 78
37562898 AAATTGAATG
*
37562908 ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCAA
1 ATATCCGGGCTAAGCCCGAAGACAATTATGC-GGAAATTATATCCGGGCTAAGACCCGAAGGCAA
37562973 TTGTGCTAGTGGCT
65 TTGTGCTAGTGGCT
* * * * *
37562987 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GACATTCTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAG-CCCGAAGACAATT-ATGCGGAAATTATATCCGGGCTAAGACCCGAAGGCA
* *
37563050 TTTGTGC-ACGTGGTT
64 ATTGTGCTA-GTGGCT
37563065 ATATCCGG
1 ATATCCGG
37563073 TTATATTCCG
Statistics
Matches: 74, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
77 1 0.01
78 46 0.62
79 16 0.22
80 11 0.15
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (78 bp):
ATATCCGGGCTAAGCCCGAAGACAATTATGCGGAAATTATATCCGGGCTAAGACCCGAAGGCAAT
TGTGCTAGTGGCT
Found at i:37567170 original size:17 final size:18
Alignment explanation
Indices: 37567140--37567177 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
37567130 ATTAATTTTT
* *
37567140 ATTATATAATAATTTATA
1 ATTAAATAATAATTTAAA
37567158 ATTAAATAA-AATTTAAA
1 ATTAAATAATAATTTAAA
37567175 ATT
1 ATT
37567178 CATTCAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
ATTAAATAATAATTTAAA
Found at i:37568154 original size:33 final size:33
Alignment explanation
Indices: 37568117--37568183 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
37568107 TATCATGCCT
*
37568117 TCTAGTGAAAAAAAGTTTATTTCTTAAAGAGAA
1 TCTAGTGAAAAAAAGTTTATTCCTTAAAGAGAA
*
37568150 TCTAGTGAAAAAATGTTTATTCCTTAAAGAGAA
1 TCTAGTGAAAAAAAGTTTATTCCTTAAAGAGAA
37568183 T
1 T
37568184 GTAACAATAC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.43, C:0.07, G:0.15, T:0.34
Consensus pattern (33 bp):
TCTAGTGAAAAAAAGTTTATTCCTTAAAGAGAA
Found at i:37570561 original size:15 final size:15
Alignment explanation
Indices: 37570541--37570569 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
37570531 ATGCTTCACA
37570541 CACCGTGTTATCAAT
1 CACCGTGTTATCAAT
37570556 CACCGTGTTATCAA
1 CACCGTGTTATCAA
37570570 GCAACAAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.31
Consensus pattern (15 bp):
CACCGTGTTATCAAT
Found at i:37572871 original size:24 final size:22
Alignment explanation
Indices: 37572843--37572887 Score: 54
Period size: 24 Copynumber: 2.0 Consensus size: 22
37572833 TTTATCAAGA
37572843 TAAATATTAGATTAAATATAATAT
1 TAAATATT-GATTAAA-ATAATAT
* *
37572867 TAAATCTTTATTAAAATAATA
1 TAAATATTGATTAAAATAATA
37572888 GAATGTTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 6 0.32
23 6 0.32
24 7 0.37
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (22 bp):
TAAATATTGATTAAAATAATAT
Found at i:37573005 original size:37 final size:36
Alignment explanation
Indices: 37572902--37573018 Score: 107
Period size: 37 Copynumber: 3.2 Consensus size: 36
37572892 GTTAATCTAC
* * *
37572902 AATATAAACATTAAATTAA-ATTAAA-TATTAATAT
1 AATATTAATATTAAATTAATATTAAACTATTAAAAT
* *
37572936 AATCACTTTAATATTAAATTAATA-AAATACTATTAAGAT
1 AAT-A--TTAATATTAAATTAATATTAA-ACTATTAAAAT
37572975 AAGTATTAA-ATTAAATTTAATATTAAACTATTAAAAT
1 AA-TATTAATATTAAA-TTAATATTAAACTATTAAAAT
37573012 AATATTA
1 AATATTA
37573019 TTTTTGGAAA
Statistics
Matches: 68, Mismatches: 6, Indels: 16
0.76 0.07 0.18
Matches are distributed among these distances:
34 3 0.04
35 1 0.01
36 11 0.16
37 37 0.54
38 4 0.06
39 11 0.16
40 1 0.01
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (36 bp):
AATATTAATATTAAATTAATATTAAACTATTAAAAT
Found at i:37576432 original size:40 final size:39
Alignment explanation
Indices: 37576368--37576569 Score: 219
Period size: 40 Copynumber: 5.1 Consensus size: 39
37576358 CGGAATACAA
* *
37576368 CGGATATAACCAC-ACGCACGAATGCCCTCGGGTCTTAGCC
1 CGGATATAA-CACTA-GCACAAATGCCTTCGGGTCTTAGCC
* *
37576408 CGGATATAACGACTTGCACAAATGCCTTCGGGTATTAGCC
1 CGGATATAAC-ACTAGCACAAATGCCTTCGGGTCTTAGCC
* *
37576448 CGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGCC
1 CGGATATAAC-ACTAGCACAAATGCCTTCGGGTCTTAGCC
* * *
37576488 CGGATATAGTCACTAGCACAATTGCCTTCGGGTCTTAACC
1 CGGATATA-ACACTAGCACAAATGCCTTCGGGTCTTAGCC
* * * *
37576528 C-GATATAATTACTAGCATAAATGTCTTCGGGACTTAGCC
1 CGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAGCC
37576567 CGG
1 CGG
37576570 GTATCATTCA
Statistics
Matches: 140, Mismatches: 17, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
39 32 0.23
40 107 0.76
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
CGGATATAACACTAGCACAAATGCCTTCGGGTCTTAGCC
Found at i:37576724 original size:64 final size:64
Alignment explanation
Indices: 37576656--37576848 Score: 150
Period size: 64 Copynumber: 3.1 Consensus size: 64
37576646 GAACACAAAC
37576656 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
1 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
* * * * *** * *** * ** * *
37576720 ATATCAATA--ATCATTACACATCCATATTTCATTTTC-GTTA-C--T--AAGGCTCAAACACAA
1 ATATCACTAGCATAATTGC-CTTCGGGACTT-A-GCCCGGGTACCATTCAAATACTCATACACAC
*
37576777 AC
63 AT
37576779 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
1 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
37576843 ATATCA
1 ATATCA
37576849 ATAATCATTA
Statistics
Matches: 84, Mismatches: 34, Indels: 22
0.60 0.24 0.16
Matches are distributed among these distances:
58 1 0.01
59 24 0.29
60 7 0.08
61 7 0.08
62 7 0.08
63 7 0.08
64 30 0.36
65 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.11, T:0.28
Consensus pattern (64 bp):
ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
Found at i:37576757 original size:123 final size:123
Alignment explanation
Indices: 37576538--37576876 Score: 606
Period size: 123 Copynumber: 2.8 Consensus size: 123
37576528 CGATATAATT
* * * * * * *
37576538 ACTAGCATAAATGTCTTCGGGACTTAGCCCGGGTATCATTCAATTGCTCATGCACACATAAATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
*
37576603 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCGAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
37576661 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
37576726 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
37576784 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
37576849 ATAATCATTACACATCCATATTTCATTT
66 ATAATCATTACACATCCATATTTCATTT
37576877 CACATAATTC
Statistics
Matches: 208, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
123 208 1.00
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.30
Consensus pattern (123 bp):
ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
Found at i:37584031 original size:40 final size:40
Alignment explanation
Indices: 37583966--37584209 Score: 303
Period size: 40 Copynumber: 6.1 Consensus size: 40
37583956 CGGAATACAA
* ** * * *
37583966 CCGGATATAACCACACGCACGAATGCCCTCGGGTCTTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
*
37584006 CCGGATATAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
37584046 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
37584086 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
* * * * *
37584126 CCGGATATAGTC-ACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATA-ACAACTTGCACAAATGCCTTCGGGTATTAGC
** * * *
37584166 CCGGATATAATTACTAGCATAAATGTCTTCGGG-ACTTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTA-TTAGC
37584206 CCGG
1 CCGG
37584210 GTATCATTCA
Statistics
Matches: 182, Mismatches: 19, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
40 181 0.99
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
Found at i:37584364 original size:64 final size:64
Alignment explanation
Indices: 37584296--37584488 Score: 150
Period size: 64 Copynumber: 3.1 Consensus size: 64
37584286 GAACACAAAC
37584296 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
1 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
* * * * *** * *** * ** * *
37584360 ATATCAATA--ATCATTACACATCCATATTTCATTTTC-GTTA-C--T--AAGGCTCAAACACAA
1 ATATCACTAGCATAATTGC-CTTCGGGACTT-A-GCCCGGGTACCATTCAAATACTCATACACAC
*
37584417 AC
63 AT
37584419 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
1 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
37584483 ATATCA
1 ATATCA
37584489 ATAATCATTA
Statistics
Matches: 84, Mismatches: 34, Indels: 22
0.60 0.24 0.16
Matches are distributed among these distances:
58 1 0.01
59 24 0.29
60 7 0.08
61 7 0.08
62 7 0.08
63 7 0.08
64 30 0.36
65 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.11, T:0.28
Consensus pattern (64 bp):
ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
Found at i:37584397 original size:123 final size:123
Alignment explanation
Indices: 37584178--37584516 Score: 606
Period size: 123 Copynumber: 2.8 Consensus size: 123
37584168 GGATATAATT
* * * * * * *
37584178 ACTAGCATAAATGTCTTCGGGACTTAGCCCGGGTATCATTCAATTGCTCATGCACACATAAATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
*
37584243 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCGAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
37584301 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
37584366 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
37584424 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
37584489 ATAATCATTACACATCCATATTTCATTT
66 ATAATCATTACACATCCATATTTCATTT
37584517 CACATAATTC
Statistics
Matches: 208, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
123 208 1.00
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.30
Consensus pattern (123 bp):
ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
Found at i:37594545 original size:45 final size:45
Alignment explanation
Indices: 37594450--37594563 Score: 135
Period size: 45 Copynumber: 2.6 Consensus size: 45
37594440 CTAGCATTTT
*
37594450 GCCTGTTAGGCTCG-AGGCCCG-ATATCAGTTCACCGGCATTATA
1 GCCTGCTAGGCTCGAAGGCCCGAATATCAGTTCACCGGCATTATA
* *
37594493 GCCTGCTAGGCTCGAAGGCCCGAATAGT-ATTTCATCGGCATTATA
1 GCCTGCTAGGCTCGAAGGCCCGAATA-TCAGTTCACCGGCATTATA
** * *
37594538 GTTTGCTAAGCTCAAAGGCCCGAATA
1 GCCTGCTAGGCTCGAAGGCCCGAATA
37594564 ATCAAGTCAA
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
43 13 0.21
44 7 0.11
45 40 0.66
46 1 0.02
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.25
Consensus pattern (45 bp):
GCCTGCTAGGCTCGAAGGCCCGAATATCAGTTCACCGGCATTATA
Found at i:37594927 original size:43 final size:43
Alignment explanation
Indices: 37594879--37595076 Score: 344
Period size: 43 Copynumber: 4.6 Consensus size: 43
37594869 CCGGCATTAC
*
37594879 GCCTGCTAGGCACGAAGGGCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
37594922 GCCTGCTAGGCACGAAGGCCC-AATTACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAA-TACACATCACCGGCACGAA
*
37594965 GCCTGCTAGGCACGAAGGCCCGAATACACATCACTGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* *
37595008 GCCTGCAAGGCACGAAGGCCCGAATACACATCACCGGCACTAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
37595051 GCCTGCTAGGCACGAAGGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
37595077 TAATACCAGC
Statistics
Matches: 147, Mismatches: 6, Indels: 4
0.94 0.04 0.03
Matches are distributed among these distances:
42 2 0.01
43 143 0.97
44 2 0.01
ACGTcount: A:0.30, C:0.33, G:0.26, T:0.11
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:37595140 original size:38 final size:38
Alignment explanation
Indices: 37595069--37595152 Score: 105
Period size: 38 Copynumber: 2.2 Consensus size: 38
37595059 GGCACGAAGG
* ** * *
37595069 CCCGAATATAATACCAGCACTAGGCCTATGGGATTTAT
1 CCCGAATATAATACCAGCACGAACCCTACGGGATTTAA
* *
37595107 CCCGGATATAATACCAGCACGAACCCTGCGGGATTTAA
1 CCCGAATATAATACCAGCACGAACCCTACGGGATTTAA
37595145 CCCGAATA
1 CCCGAATA
37595153 CACATCAAAT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.21
Consensus pattern (38 bp):
CCCGAATATAATACCAGCACGAACCCTACGGGATTTAA
Found at i:37600599 original size:5 final size:5
Alignment explanation
Indices: 37600589--37600627 Score: 78
Period size: 5 Copynumber: 7.8 Consensus size: 5
37600579 GCATTAAAAC
37600589 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTA
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTA
37600628 CTTTGCTTTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTAT
Found at i:37606831 original size:19 final size:19
Alignment explanation
Indices: 37606821--37606858 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
37606811 TCCAAGTGTT
*
37606821 GTAAAAGTTTCATAAGTTC
1 GTAAAAGTTTCACAAGTTC
*
37606840 GTAAAAGTTTCATAAGTTC
1 GTAAAAGTTTCACAAGTTC
37606859 TCAGTTTAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.37
Consensus pattern (19 bp):
GTAAAAGTTTCACAAGTTC
Found at i:37622614 original size:25 final size:26
Alignment explanation
Indices: 37622585--37622653 Score: 72
Period size: 25 Copynumber: 2.8 Consensus size: 26
37622575 TTACCAATTC
37622585 CAGCTCT-TATGAGCTTACCGATACT
1 CAGCTCTGTATGAGCTTACCGATACT
* * *
37622610 CAGCT-TGTATGAGCTTATCGTTATT
1 CAGCTCTGTATGAGCTTACCGATACT
* *
37622635 CAGCTCAG-AGGAGCTTACC
1 CAGCTCTGTATGAGCTTACC
37622654 ATTCATAGCT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
24 1 0.03
25 34 0.94
26 1 0.03
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (26 bp):
CAGCTCTGTATGAGCTTACCGATACT
Found at i:37627327 original size:40 final size:39
Alignment explanation
Indices: 37627270--37627486 Score: 242
Period size: 40 Copynumber: 5.5 Consensus size: 39
37627260 TGGATGATAA
* * *
37627270 CCGGGCTAAGTCTCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCA-TTGTGCGAGTTACTATA-T
37627310 CCGGGCTAAGTCCCGAAGGCATTGTTGCGAGTTACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTG-TGCGAGTTACTATA-T
37627350 CCGGGCTAAGTCCCGAAGGCATTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTGTGCGAGTTACTATAT
* **
37627389 CCAGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
1 CCGGGCTAAGTCCCGAAGGCA-TTGTGCGAGTTACTATAT
* * * **
37627429 CCGGGCTAAGTCCCAAAGGCGTTCGAGCGAGTGGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATT-GTGCGAGTTACTATAT
* *
37627469 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
37627487 TACTTGGTTT
Statistics
Matches: 156, Mismatches: 17, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
39 51 0.33
40 105 0.67
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTGTGCGAGTTACTATAT
Found at i:37627407 original size:79 final size:78
Alignment explanation
Indices: 37627270--37627486 Score: 251
Period size: 79 Copynumber: 2.7 Consensus size: 78
37627260 TGGATGATAA
* *
37627270 CCGGGCTAAGTCTCGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAGTCCCGAAGGCA-TT
1 CCGGGCTAAGTCCCGAAGGCA-TTGTGCGAGTGACTATA-TCC-GGCTAAGTCCCGAAGGCATTT
**
37627333 GTTGCGAGTTACTA-ATT
63 G-TGCGAACTACTATA-T
*
37627350 CCGGGCTAAGTCCCGAAGGCATTGTGCGAGTTACTATATCCAGGCTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGTCCCGAAGGCATTGTGCGAGTGACTATATCC-GGCTAAGTCCCGAAGGCATTTGT
37627415 GCGAACTACTATAT
65 GCGAACTACTATAT
* * * * * *
37627429 CCGGGCTAAGTCCCAAAGGCGTTCGAGCGAGTGGCTATATCCGGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATT-GTGCGAGTGACTATATCCGGCTAAGTCCCGAAGG
37627487 TACTTGGTTT
Statistics
Matches: 120, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
79 80 0.67
80 40 0.33
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (78 bp):
CCGGGCTAAGTCCCGAAGGCATTGTGCGAGTGACTATATCCGGCTAAGTCCCGAAGGCATTTGTG
CGAACTACTATAT
Found at i:37633049 original size:65 final size:65
Alignment explanation
Indices: 37632961--37633091 Score: 244
Period size: 65 Copynumber: 2.0 Consensus size: 65
37632951 ATTCCCATGC
* *
37632961 ATCAGATAATAATAACATGGCATGGAGTAAATAGTGACAGTCAAACATGCATTCAGGTCAACCTT
1 ATCAGATAATAATAACATGGCATGCAGTAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTT
37633026 ATCAGATAATAATAACATGGCATGCAGTAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTT
1 ATCAGATAATAATAACATGGCATGCAGTAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTT
37633091 A
1 A
37633092 ACCCTAGGGG
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 64 1.00
ACGTcount: A:0.41, C:0.18, G:0.17, T:0.24
Consensus pattern (65 bp):
ATCAGATAATAATAACATGGCATGCAGTAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTT
Found at i:37633150 original size:27 final size:26
Alignment explanation
Indices: 37633094--37633150 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
37633084 CAACCTTAAC
* * *
37633094 CCTAGGGGTATATCAGTAATTTTGCT
1 CCTAGGGGTAAATCAGTAATTTTCCA
37633120 CCTAGGGGTAAATCTA-TAAATTTTCCA
1 CCTAGGGGTAAATC-AGT-AATTTTCCA
37633147 CCTA
1 CCTA
37633151 TAAAGGTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 14 0.54
27 12 0.46
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (26 bp):
CCTAGGGGTAAATCAGTAATTTTCCA
Found at i:37634411 original size:31 final size:30
Alignment explanation
Indices: 37634376--37634458 Score: 87
Period size: 31 Copynumber: 2.7 Consensus size: 30
37634366 TCAGCTAGAA
37634376 GAAAA-AGCAAAAAGGAAGAAAGAAAATGAAG
1 GAAAAGAG-AAAAA-GAAGAAAGAAAATGAAG
**
37634407 GAAAATGAGAGGAAGAAGAAAGAAAATGAAG
1 GAAAA-GAGAAAAAGAAGAAAGAAAATGAAG
**
37634438 GAAAATGAGAGGAAGAAGAAA
1 GAAAA-GAGAAAAAGAAGAAA
37634459 TCGGCACCAA
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
31 43 0.90
32 3 0.06
33 2 0.04
ACGTcount: A:0.64, C:0.01, G:0.30, T:0.05
Consensus pattern (30 bp):
GAAAAGAGAAAAAGAAGAAAGAAAATGAAG
Found at i:37634412 original size:10 final size:10
Alignment explanation
Indices: 37634397--37634451 Score: 67
Period size: 10 Copynumber: 5.3 Consensus size: 10
37634387 AAGGAAGAAA
37634397 GAAAATGAAG
1 GAAAATGAAG
37634407 GAAAATGAGAG
1 GAAAATGA-AG
*
37634418 GAAGAA-GAAA
1 GAA-AATGAAG
37634428 GAAAATGAAG
1 GAAAATGAAG
37634438 GAAAATGAGAG
1 GAAAATGA-AG
37634449 GAA
1 GAA
37634452 GAAGAAATCG
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
9 2 0.05
10 23 0.59
11 12 0.31
12 2 0.05
ACGTcount: A:0.60, C:0.00, G:0.33, T:0.07
Consensus pattern (10 bp):
GAAAATGAAG
Found at i:37634420 original size:28 final size:28
Alignment explanation
Indices: 37634388--37634458 Score: 108
Period size: 31 Copynumber: 2.5 Consensus size: 28
37634378 AAAAGCAAAA
37634388 AGGAAGAAAGAAAATGAAGGAAAATGAG
1 AGGAAGAAAGAAAATGAAGGAAAATGAG
37634416 AGGAAGAAGAAAGAAAATGAAGGAAAATGAG
1 A-G--GAAGAAAGAAAATGAAGGAAAATGAG
37634447 AGGAAG-AAGAAA
1 AGGAAGAAAGAAA
37634459 TCGGCACCAA
Statistics
Matches: 40, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
27 6 0.15
28 5 0.12
29 1 0.03
30 1 0.03
31 27 0.68
ACGTcount: A:0.62, C:0.00, G:0.32, T:0.06
Consensus pattern (28 bp):
AGGAAGAAAGAAAATGAAGGAAAATGAG
Found at i:37634471 original size:42 final size:42
Alignment explanation
Indices: 37634425--37634513 Score: 151
Period size: 42 Copynumber: 2.1 Consensus size: 42
37634415 GAGGAAGAAG
* *
37634425 AAAGAAAATGAAGGAAAATGAGAGGAAGAAGAAATCGGCACC
1 AAAGAAAATGAAGGAAAAAGAGAGGAAGAAGAAATCGACACC
*
37634467 AAAGAAAATGAAGTAAAAAGAGAGGAAGAAGAAATCGACACC
1 AAAGAAAATGAAGGAAAAAGAGAGGAAGAAGAAATCGACACC
37634509 AAAGA
1 AAAGA
37634514 GAAGGAATTT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.58, C:0.09, G:0.26, T:0.07
Consensus pattern (42 bp):
AAAGAAAATGAAGGAAAAAGAGAGGAAGAAGAAATCGACACC
Found at i:37635138 original size:19 final size:18
Alignment explanation
Indices: 37635101--37635144 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
37635091 ATACATACAG
37635101 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
37635118 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
37635137 TACTAATT
1 TAATAATT
37635145 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:37637966 original size:58 final size:58
Alignment explanation
Indices: 37637896--37638009 Score: 210
Period size: 58 Copynumber: 2.0 Consensus size: 58
37637886 TTTAGACTTT
*
37637896 TATCAAATCACCGGCATTCAGCTTGCTAGATTTAAAAACCCGAATTCATTCACCGGTA
1 TATCAAATCACCGGCATTCAGCCTGCTAGATTTAAAAACCCGAATTCATTCACCGGTA
*
37637954 TATCAAATCACCGGCATTCAGCCTGCTAGATTTAAAAACCCGAATTTATTCACCGG
1 TATCAAATCACCGGCATTCAGCCTGCTAGATTTAAAAACCCGAATTCATTCACCGG
37638010 CATTTCGCCT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
58 54 1.00
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.27
Consensus pattern (58 bp):
TATCAAATCACCGGCATTCAGCCTGCTAGATTTAAAAACCCGAATTCATTCACCGGTA
Found at i:37638124 original size:45 final size:44
Alignment explanation
Indices: 37637961--37638175 Score: 299
Period size: 45 Copynumber: 4.9 Consensus size: 44
37637951 GTATATCAAA
* ** * **
37637961 TCACCGGCATTCAGCCTGCTAGATTTAAAAACCCGAAT-TTAT-
1 TCACCGGCATTTAGCCTGCTAGGCTCAAAGGCCCGAATATTATC
*
37638003 TCACCGGCATTTCGCCTGCTAGGCTCAAAGGCCCGAATATTATC
1 TCACCGGCATTTAGCCTGCTAGGCTCAAAGGCCCGAATATTATC
* *
37638047 TAACCGGCATTTCGCCTGCTAGGCTCAAAGGCCCGAATATTATC
1 TCACCGGCATTTAGCCTGCTAGGCTCAAAGGCCCGAATATTATC
*
37638091 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
1 TCACCGGCATT-TAGCCTGCTAGGCTCAAAGGCCCGAATATTATC
*
37638136 TCATCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
1 TCACCGGCATT-TAGCCTGCTAGGCTCAAAGGCCCGAATA
37638176 GTACTGTACA
Statistics
Matches: 158, Mismatches: 12, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
42 31 0.20
43 4 0.03
44 53 0.34
45 70 0.44
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.25
Consensus pattern (44 bp):
TCACCGGCATTTAGCCTGCTAGGCTCAAAGGCCCGAATATTATC
Found at i:37638129 original size:89 final size:88
Alignment explanation
Indices: 37637992--37638175 Score: 291
Period size: 89 Copynumber: 2.1 Consensus size: 88
37637982 GATTTAAAAA
* *
37637992 CCCGAAT-TTATTCACCGGCATTTCGCCTGCTAGGCTCAAAGGCCCGAATATTATCTAACCGGCA
1 CCCGAATATTATTCACCGGCATTTAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTAACCGGCA
*
37638056 TT-TCGCCTGCTAGGCTCAAAGG
66 TTATAGCCTGCTAGGCTCAAAGG
* *
37638078 CCCGAATATTATCTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCATCGG
1 CCCGAATATTAT-TCACCGGCATT-TAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTAACCGG
37638143 CATTATAGCCTGCTAGGCTCAAAGG
64 CATTATAGCCTGCTAGGCTCAAAGG
37638168 CCCGAATA
1 CCCGAATA
37638176 GTACTGTACA
Statistics
Matches: 89, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
86 7 0.08
87 4 0.04
88 11 0.12
89 40 0.45
90 27 0.30
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (88 bp):
CCCGAATATTATTCACCGGCATTTAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTAACCGGCA
TTATAGCCTGCTAGGCTCAAAGG
Found at i:37642932 original size:53 final size:54
Alignment explanation
Indices: 37642857--37643042 Score: 207
Period size: 55 Copynumber: 3.4 Consensus size: 54
37642847 TTTTGAACTT
* * *
37642857 ACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-GAAATC
1 ACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAAATC
* *
37642910 ACCAATGCCATGCCTTGGCATGGTCTTACATAGG-A-CCTTTGCCTTATAGTAACTC
1 ACCAATGCCATGCCTTGACATGGTCTTACAT-GGTATCC-TTGCCTTATAG-AAATC
* * * * * *
37642965 ATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTACCTTATAGAAATT
1 ACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAAATC
* *
37643019 ATCAATGCCATGCCTTGGCATGGT
1 ACCAATGCCATGCCTTGACATGGT
37643043 TTTTGTAACA
Statistics
Matches: 112, Mismatches: 15, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
52 2 0.02
53 37 0.33
54 29 0.26
55 42 0.38
56 2 0.02
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (54 bp):
ACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAAATC
Found at i:37644442 original size:47 final size:44
Alignment explanation
Indices: 37644288--37644595 Score: 231
Period size: 47 Copynumber: 6.6 Consensus size: 44
37644278 TTGCCAATGC
* * * * *
37644288 CATGTCCCAGACATGGTTTTACACTGGCTCTCATATATGTGTGCTGATG
1 CATGTCCCAGACAT-GTCTTACACTGGCAC-C-TCTCTG-G-GCCGATG
* * ** **
37644337 CATGCCCCAGACATGTCTTACACTAGCACAACTCTTAGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCACCTCTCTGGGCCGATG
* * * *
37644381 CGTGTCCTAGACATGTCTTACACAGGCTACCTCTGTTGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGC-ACCTCT-CTG-GGCCGATG
* * *
37644428 CATGTCCCATACATGTCTTACTCTGGCACTCATCTCTGTGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCAC-C-TCTCTGGGCCGATG
* *
37644474 CCATGTCCCAGACATGTCTTACTCTGGCACTCATCTCTGTGCCGATG
1 -CATGTCCCAGACATGTCTTACACTGGCAC-C-TCTCTGGGCCGATG
* * * *
37644521 CCATGTCCCAGACATGGTCTTACACTGGC-TCTCATAATGTGACCGAAG
1 -CATGTCCCAGACAT-GTCTTACACTGGCACCTC-T-CTG-GGCCGATG
37644569 CATGTCCCAGACATGTCTTACACTGGC
1 CATGTCCCAGACATGTCTTACACTGGC
37644596 GCACAAATCA
Statistics
Matches: 214, Mismatches: 35, Indels: 23
0.79 0.13 0.08
Matches are distributed among these distances:
44 28 0.13
45 6 0.03
46 27 0.13
47 108 0.50
48 32 0.15
49 13 0.06
ACGTcount: A:0.21, C:0.30, G:0.20, T:0.29
Consensus pattern (44 bp):
CATGTCCCAGACATGTCTTACACTGGCACCTCTCTGGGCCGATG
Found at i:37644526 original size:94 final size:92
Alignment explanation
Indices: 37644279--37644595 Score: 295
Period size: 94 Copynumber: 3.4 Consensus size: 92
37644269 TGGGATATAT
* * * * * * *
37644279 TGCCAATGCCATGTCCCAGACATGGTTTTACACTGGCTCTCATATATGTGTGCTGATGCATGCCC
1 TGCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCACTC--ATCTCTGTGCCGATGCATGTCC
* *
37644344 CAGACATGTCTTACACTAGCA--CAACTCT-
62 CAGACATGTCTTACACTGGCACTCATCTCTG
* * * * *
37644372 TAGCCGATGCGTGTCCTAGACATGTCTTACACAGGCTAC-C-TCTGTTGAGGCCGATGCATGTCC
1 T-GCCGATGCATGTCCCAGACATGTCTTACACTGGC-ACTCATCT-CTG-TGCCGATGCATGTCC
* *
37644435 CATACATGTCTTACTCTGGCACTCATCTCTG
62 CAGACATGTCTTACACTGGCACTCATCTCTG
*
37644466 TGCCGATGCCATGTCCCAGACATGTCTTACTCTGGCACTCATCTCTGTGCCGATGCCATGTCCCA
1 TGCCGATG-CATGTCCCAGACATGTCTTACACTGGCACTCATCTCTGTGCCGATG-CATGTCCCA
* **
37644531 GACATGGTCTTACACTGGCTCTCAT-AATG
64 GACAT-GTCTTACACTGGCACTCATCTCTG
*
37644560 TGACCGAAGCATGTCCCAGACATGTCTTACACTGGC
1 TG-CCGATGCATGTCCCAGACATGTCTTACACTGGC
37644596 GCACAAATCA
Statistics
Matches: 183, Mismatches: 28, Indels: 25
0.78 0.12 0.11
Matches are distributed among these distances:
89 2 0.01
90 2 0.01
91 30 0.16
92 12 0.07
93 36 0.20
94 76 0.42
95 25 0.14
ACGTcount: A:0.21, C:0.30, G:0.20, T:0.28
Consensus pattern (92 bp):
TGCCGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTGTGCCGATGCATGTCCCAGA
CATGTCTTACACTGGCACTCATCTCTG
Done.