Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 114 of 295
Found at i:38880315 original size:48 final size:48
Alignment explanation
Indices: 38880212--38880420 Score: 269
Period size: 48 Copynumber: 4.6 Consensus size: 48
38880202 TGTTTAACCA
** * *
38880212 TGGTATATCCACTTAGCACCACGTTA-ATGAATCAATATATGTAACCG
1 TGGTATATCCACTTAGCACCACGTTACATTTATCAATATGTGTAATCG
* *
38880259 TGGCATATCCAGTTAGCACCACGTTACATTTATCAATATGTGTAATCG
1 TGGTATATCCACTTAGCACCACGTTACATTTATCAATATGTGTAATCG
*
38880307 TGGTATATCCACTTAGCACCACGTTAC----A-C-----GTATAATCG
1 TGGTATATCCACTTAGCACCACGTTACATTTATCAATATGTGTAATCG
*
38880345 TGGCATATCCACTTAGCACCACGTTACATTTATCAATATGTGTAATCG
1 TGGTATATCCACTTAGCACCACGTTACATTTATCAATATGTGTAATCG
38880393 TGGTATATCCACTTAGCACCACGTTACA
1 TGGTATATCCACTTAGCACCACGTTACA
38880421 CGTATAACCG
Statistics
Matches: 139, Mismatches: 12, Indels: 21
0.81 0.07 0.12
Matches are distributed among these distances:
38 34 0.24
42 1 0.01
43 2 0.01
44 1 0.01
47 24 0.17
48 77 0.55
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.31
Consensus pattern (48 bp):
TGGTATATCCACTTAGCACCACGTTACATTTATCAATATGTGTAATCG
Found at i:38880361 original size:86 final size:86
Alignment explanation
Indices: 38880253--38880451 Score: 371
Period size: 86 Copynumber: 2.3 Consensus size: 86
38880243 TCAATATATG
*
38880253 TAACCGTGGCATATCCAGTTAGCACCACGTTACATTTATCAATATGTGTAATCGTGGTATATCCA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATTTATCAATATGTGTAATCGTGGTATATCCA
38880318 CTTAGCACCACGTTACACGTA
66 CTTAGCACCACGTTACACGTA
*
38880339 TAATCGTGGCATATCCACTTAGCACCACGTTACATTTATCAATATGTGTAATCGTGGTATATCCA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATTTATCAATATGTGTAATCGTGGTATATCCA
38880404 CTTAGCACCACGTTACACGTA
66 CTTAGCACCACGTTACACGTA
*
38880425 TAACCGTGGTATATCCACTTAGCACCA
1 TAACCGTGGCATATCCACTTAGCACCA
38880452 TGTTTTTTCA
Statistics
Matches: 109, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
86 109 1.00
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (86 bp):
TAACCGTGGCATATCCACTTAGCACCACGTTACATTTATCAATATGTGTAATCGTGGTATATCCA
CTTAGCACCACGTTACACGTA
Found at i:38890929 original size:40 final size:40
Alignment explanation
Indices: 38890861--38891037 Score: 209
Period size: 40 Copynumber: 4.5 Consensus size: 40
38890851 ACCCAAGTAT
38890861 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAACAACTCGCACAAATGC
* **
38890900 CCTCGGGTCTTAGCCCGGATATAGGAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
* *
38890940 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAA-CAACTCGCACAAATGC
* * *
38890980 CTTCGGGACATAGCCCAGG-TATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCC-GGATATAACAACTCGCACAAATGC
* *
38891020 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
38891038 TTATCATCCG
Statistics
Matches: 116, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
38 1 0.01
39 13 0.11
40 100 0.86
41 2 0.02
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
Found at i:38900489 original size:38 final size:38
Alignment explanation
Indices: 38900447--38900603 Score: 125
Period size: 38 Copynumber: 3.9 Consensus size: 38
38900437 TTCAAATTAA
* *
38900447 CATGTATAACTGTGGCATATCCACTTAGTACCACATTG
1 CATGTATAACCGTGGCATATCCACTTAGCACCACATTG
* *
38900485 CATGTTTAACCGTGGTATATCCACTTAGCACCACATTAATG
1 CATGTATAACCGTGGCATATCCACTTAGCACCACA-T--TG
* * * * * *
38900526 AATCAATATATGTAAACGTGACATATCCACTTACCACCACGTTA
1 ---C-ATGTA--TAACCGTGGCATATCCACTTAGCACCACATTG
* *
38900570 CATGTTTAACCGTGGTATATCCACTTAGCACCAC
1 CATGTATAACCGTGGCATATCCACTTAGCACCAC
38900604 GTTAATGAAT
Statistics
Matches: 92, Mismatches: 18, Indels: 18
0.72 0.14 0.14
Matches are distributed among these distances:
38 55 0.60
39 1 0.01
40 3 0.03
41 3 0.03
44 2 0.02
45 3 0.03
46 1 0.01
47 24 0.26
ACGTcount: A:0.31, C:0.25, G:0.13, T:0.30
Consensus pattern (38 bp):
CATGTATAACCGTGGCATATCCACTTAGCACCACATTG
Found at i:38900565 original size:85 final size:85
Alignment explanation
Indices: 38900448--38900659 Score: 307
Period size: 85 Copynumber: 2.5 Consensus size: 85
38900438 TCAAATTAAC
* *
38900448 ATGTATAACTGTGGCATATCCACTTAGTACCACATTGCATGTTTAACCGTGGTATATCCACTTAG
1 ATGTA-AAC-GTGGCATATCCACTTAGCACCACATTACATGTTTAACCGTGGTATATCCACTTAG
38900513 CACCACATTAATGAATCAATAT
64 CACCACATTAATGAATCAATAT
* * *
38900535 ATGTAAACGTGACATATCCACTTACCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCA
1 ATGTAAACGTGGCATATCCACTTAGCACCACATTACATGTTTAACCGTGGTATATCCACTTAGCA
*
38900600 CCACGTTAATGAATCAATAT
66 CCACATTAATGAATCAATAT
* * * **
38900620 ATGTAACCGTGGTATATCAACTTAGCACCATGTTACATGT
1 ATGTAAACGTGGCATATCCACTTAGCACCACATTACATGT
38900660 ATCAATATGT
Statistics
Matches: 113, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
85 105 0.93
86 3 0.03
87 5 0.04
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.31
Consensus pattern (85 bp):
ATGTAAACGTGGCATATCCACTTAGCACCACATTACATGTTTAACCGTGGTATATCCACTTAGCA
CCACATTAATGAATCAATAT
Found at i:38900645 original size:47 final size:48
Alignment explanation
Indices: 38900576--38900698 Score: 194
Period size: 48 Copynumber: 2.6 Consensus size: 48
38900566 GTTACATGTT
38900576 TAACCGTGGTATATCCACTTAGCACCACGTTA-ATGAATCAATATATG
1 TAACCGTGGTATATCCACTTAGCACCACGTTACATGAATCAATATATG
* * * *
38900623 TAACCGTGGTATATCAACTTAGCACCATGTTACATGTATCAATATGTG
1 TAACCGTGGTATATCCACTTAGCACCACGTTACATGAATCAATATATG
*
38900671 TAATCGTGGTATATCCACTTAGCACCAC
1 TAACCGTGGTATATCCACTTAGCACCAC
38900699 ATTTTTTCAT
Statistics
Matches: 68, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
47 30 0.44
48 38 0.56
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.31
Consensus pattern (48 bp):
TAACCGTGGTATATCCACTTAGCACCACGTTACATGAATCAATATATG
Found at i:38902478 original size:28 final size:28
Alignment explanation
Indices: 38902438--38902529 Score: 166
Period size: 28 Copynumber: 3.3 Consensus size: 28
38902428 TGTACTAGAG
38902438 TACCCCTATGTATGCAAAATTACCATTA
1 TACCCCTATGTATGCAAAATTACCATTA
38902466 TACCCCTATGTATGCAAAATTACCATTA
1 TACCCCTATGTATGCAAAATTACCATTA
* *
38902494 TACCCCTATGTATGCAAAATGACCTTTA
1 TACCCCTATGTATGCAAAATTACCATTA
38902522 TACCCCTA
1 TACCCCTA
38902530 GGGTTAATTT
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 62 1.00
ACGTcount: A:0.34, C:0.27, G:0.08, T:0.32
Consensus pattern (28 bp):
TACCCCTATGTATGCAAAATTACCATTA
Found at i:38902681 original size:27 final size:27
Alignment explanation
Indices: 38902624--38902712 Score: 117
Period size: 28 Copynumber: 3.2 Consensus size: 27
38902614 GGAAGCGTCT
*
38902624 TGGTGGCTATGCCACAAATTATCTGTTC
1 TGGTGGCCATGCCACAAA-TATCTGTTC
*
38902652 TGGTGGCCATGCCACATATATCTGTTC
1 TGGTGGCCATGCCACAAATATCTGTTC
38902679 TGGTGG-CACTGCCACAAAATATCTGTATC
1 TGGTGGCCA-TGCCAC-AAATATCTGT-TC
38902708 TGGTG
1 TGGTG
38902713 ACTCTGTCAC
Statistics
Matches: 55, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
26 2 0.04
27 21 0.38
28 25 0.45
29 7 0.13
ACGTcount: A:0.21, C:0.22, G:0.24, T:0.33
Consensus pattern (27 bp):
TGGTGGCCATGCCACAAATATCTGTTC
Found at i:38912969 original size:40 final size:39
Alignment explanation
Indices: 38912885--38913109 Score: 188
Period size: 40 Copynumber: 5.6 Consensus size: 39
38912875 TTGAATGCTG
* * *
38912885 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACTATA
1 TCCGGGTTAAGT-CCGAAGGCATTTGTGCGAGA-T-ACTAAA
** *
38912925 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATAC-AAGT
1 TCCGGGTTAAG-TCCGAAGGCATTTGTGCGAGATACTAA-A
* * *
38912965 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGGTACTAAA
1 TCCGGGTTAAG-TCCGAAGGCATTTGTGCGAGATACTAAA
* * *
38913005 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGT-CCGAAGGCATTTGTGCGAGATACTAAA
* *
38913045 TCCGGGTTAAGTCCCGAAGGCA-TTGTGTGAGTTACTAAA
1 TCCGGGTTAAGT-CCGAAGGCATTTGTGCGAGATACTAAA
* * *
38913084 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGT-CCGAAGGCATTTG
38913110 AACGAGGAGC
Statistics
Matches: 156, Mismatches: 22, Indels: 14
0.81 0.11 0.07
Matches are distributed among these distances:
39 34 0.22
40 109 0.70
41 12 0.08
42 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGTTAAGTCCGAAGGCATTTGTGCGAGATACTAAA
Found at i:38913022 original size:80 final size:79
Alignment explanation
Indices: 38912885--38913109 Score: 256
Period size: 80 Copynumber: 2.8 Consensus size: 79
38912875 TTGAATGCTG
* * * * *
38912885 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGAT-CCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAGGT-ACTAAATCCGGGCTAAG-TCCCGAAGGCATT
*
38912949 TGTGCGAGATA-CAAGT
64 TGTGCGAGATATCAA-A
* * *
38912965 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGGTACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGG-CTTTGTGCGAGGTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
* *
38913030 GTGCGAGTTATTAAA
65 GTGCGAGATATCAAA
* * * * *
38913045 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAGGTACTAAATCCGGGCTAAGTCCCGAAGGCATTTG
38913110 AACGAGGAGC
Statistics
Matches: 123, Mismatches: 19, Indels: 7
0.83 0.13 0.05
Matches are distributed among these distances:
79 39 0.32
80 71 0.58
81 13 0.11
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAGGTACTAAATCCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGATATCAAA
Found at i:38913127 original size:79 final size:80
Alignment explanation
Indices: 38912965--38913142 Score: 200
Period size: 79 Copynumber: 2.2 Consensus size: 80
38912955 AGATACAAGT
* * * *
38912965 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGGTACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGGTACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
38913030 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * *
38913045 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGGTACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
38913109 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
38913124 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
38913143 TACGTGATTT
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
78 16 0.19
79 48 0.58
80 19 0.23
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.24
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGGTACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:38920566 original size:40 final size:39
Alignment explanation
Indices: 38920396--38920619 Score: 193
Period size: 40 Copynumber: 5.6 Consensus size: 39
38920386 TTGAATGCTG
* * * * * *
38920396 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
** * * *
38920436 TCCGGACTAAGAT-CCGAAGGCTTTTGTGCGAGATAC-AAGT
1 TCCGGGTTAAG-TCCCGAAGGC-ATTGTGCGAGTTACTAA-A
* *
38920476 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAG-TACTAAA
1 TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGTTACTAAA
*
38920515 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
*
38920555 TCCGGGTTAAGTGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAA--GTCCCGAAGGCATTGTGCGAGTTACTAAA
* * *
38920596 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
38920620 TGAACGAGGA
Statistics
Matches: 155, Mismatches: 19, Indels: 21
0.79 0.10 0.11
Matches are distributed among these distances:
38 3 0.02
39 44 0.28
40 65 0.42
41 29 0.19
42 14 0.09
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:38920601 original size:41 final size:40
Alignment explanation
Indices: 38920449--38920619 Score: 181
Period size: 39 Copynumber: 4.3 Consensus size: 40
38920439 GGACTAAGAT
* * * *
38920449 CCGAAGGCTTTTGTGCGAGATAC-AAGTTCCGGGTTAA-GCC
1 CCGAAGGC-ATTGTGCGAGTTACTAA-ATCCGGGTTAATGTC
*
38920489 CCGAAGGCCTTTGTGCGAG-TACTAAATCCGGGTTAA-GTC
1 CCGAAGG-CATTGTGCGAGTTACTAAATCCGGGTTAATGTC
*
38920528 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTGTC
1 CCGAAGGCATT-GTGCGAGTTACTAAATCCGGGTTAA-TGTC
* * *
38920570 CCGAAGGCATTGTGTGAGTTACTAAAACCGGGCT-ATGTC
1 CCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTAATGTC
38920609 CCGAAGGCATT
1 CCGAAGGCATT
38920620 TGAACGAGGA
Statistics
Matches: 117, Mismatches: 8, Indels: 13
0.85 0.06 0.09
Matches are distributed among these distances:
38 3 0.03
39 44 0.38
40 36 0.31
41 20 0.17
42 14 0.12
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTAATGTC
Found at i:38920639 original size:81 final size:79
Alignment explanation
Indices: 38920476--38920654 Score: 175
Period size: 81 Copynumber: 2.3 Consensus size: 79
38920466 AGATACAAGT
* * *
38920476 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGTACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
1 TCCGGGTTAAGCCCCGAAGGCCATTGTGCGAGTACTAAAACCGGGCTAAGTCCCGAAGGCATTCG
** * *
38920541 TGCGAGTTATTAAA
66 AACGAGTGACTAAA
* * *
38920555 TCCGGGTTAAGTGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCAT
1 TCCGGGTTAA--GCCCCGAAGGCCATTGTGCGAG-TACTAAAACCGGGCTAAGTCCCGAAGGCAT
* *
38920619 TTGAACGAG-GAGCTATA
63 TCGAACGAGTGA-CTAAA
**
38920636 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGCCCCGAAGG
38920655 TACGTGATTT
Statistics
Matches: 83, Mismatches: 13, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
78 9 0.11
79 10 0.12
80 16 0.19
81 48 0.58
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (79 bp):
TCCGGGTTAAGCCCCGAAGGCCATTGTGCGAGTACTAAAACCGGGCTAAGTCCCGAAGGCATTCG
AACGAGTGACTAAA
Found at i:38999543 original size:26 final size:26
Alignment explanation
Indices: 38999511--38999658 Score: 140
Period size: 27 Copynumber: 5.6 Consensus size: 26
38999501 AAATTGTACA
38999511 GCACTAAGTGTGCGATTCGACT-TGTT
1 GCACTAAGTGTGCGATT-GACTATGTT
* * *
38999537 GCACTAAGTGTGCGAAATGAATATGAT
1 GCACTAAGTGTGCG-ATTGACTATGTT
**
38999564 GCACTAAGTGTGCGAATTGAC-ATGCG
1 GCACTAAGTGTGCG-ATTGACTATGTT
*
38999590 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGA--TTGACTATGTT
* * *
38999618 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGA-TTGACTATGTT
38999645 GCACTAA-TGTGCGA
1 GCACTAAGTGTGCGA
38999659 GTTATTATAT
Statistics
Matches: 106, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
25 1 0.01
26 41 0.39
27 46 0.43
28 18 0.17
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (26 bp):
GCACTAAGTGTGCGATTGACTATGTT
Found at i:38999574 original size:27 final size:26
Alignment explanation
Indices: 38999511--38999658 Score: 124
Period size: 26 Copynumber: 5.6 Consensus size: 26
38999501 AAATTGTACA
*
38999511 GCACTAAGTGTGCG-ATTCGACT-TGTT
1 GCACTAAGTGTGCGAATT-GAATATG-T
*
38999537 GCACTAAGTGTGCGAAATGAATATGAT
1 GCACTAAGTGTGCGAATTGAATATG-T
* *
38999564 GCACTAAGTGTGCGAATTG-ACATGCG
1 GCACTAAGTGTGCGAATTGAATATG-T
* *
38999590 GCACTAAGTGTGCGAGTTTGACTATGT
1 GCACTAAGTGTGCGA-ATTGAATATGT
* * *
38999617 AGCACTAAGTGTGCGATTTGATTACGT
1 -GCACTAAGTGTGCGAATTGAATATGT
38999644 AGCACTAA-TGTGCGA
1 -GCACTAAGTGTGCGA
38999659 GTTATTATAT
Statistics
Matches: 104, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
26 43 0.41
27 43 0.41
28 18 0.17
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (26 bp):
GCACTAAGTGTGCGAATTGAATATGT
Found at i:38999632 original size:54 final size:53
Alignment explanation
Indices: 38999510--38999683 Score: 169
Period size: 53 Copynumber: 3.3 Consensus size: 53
38999500 TAAATTGTAC
** **
38999510 AGCACTAAGTGTGCG-ATTCGACTTGTTGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATT-GACTTGCGGCACTAAGTGTGCGAGTTGAATATGT
* *
38999562 ATGCACTAAGTGTGCGAATTGACATGCGGCACTAAGTGTGCGAGTTTGACTATGT
1 A-GCACTAAGTGTGCGAATTGACTTGCGGCACTAAGTGTGCGAG-TTGAATATGT
* * * *
38999617 AGCACTAAGTGTGCGATTTGA-TTACGTAGCACTAA-TGTGCGAGTT-ATTATAT
1 AGCACTAAGTGTGCGAATTGACTTGCG--GCACTAAGTGTGCGAGTTGAATATGT
*
38999669 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
38999684 GCTCAATATA
Statistics
Matches: 104, Mismatches: 12, Indels: 12
0.81 0.09 0.09
Matches are distributed among these distances:
52 20 0.19
53 39 0.38
54 37 0.36
55 8 0.08
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.30
Consensus pattern (53 bp):
AGCACTAAGTGTGCGAATTGACTTGCGGCACTAAGTGTGCGAGTTGAATATGT
Found at i:39007581 original size:27 final size:26
Alignment explanation
Indices: 39007550--39007726 Score: 185
Period size: 27 Copynumber: 6.6 Consensus size: 26
39007540 TAAATTGTAC
39007550 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
39007577 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
39007603 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
39007631 GGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
39007658 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
39007685 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
39007712 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
39007727 GGCTCAATAT
Statistics
Matches: 128, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
26 1 0.01
27 125 0.98
28 2 0.02
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:39007611 original size:54 final size:54
Alignment explanation
Indices: 39007550--39007726 Score: 207
Period size: 54 Copynumber: 3.3 Consensus size: 54
39007540 TAAATTGTAC
* **
39007550 AGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT
1 AGCACTAAGTGTGCGATT-GACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
* ** *
39007605 -GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTGACTATG-T
1 AGCACTAAGTGTGCG-ATTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
* * *
39007658 AGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTGTGCGAGTTGATTAT-AT
1 AGCACTAAGTGTGCGA-TTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
*
39007712 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
39007727 GGCTCAATAT
Statistics
Matches: 105, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
53 2 0.02
54 100 0.95
55 3 0.03
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (54 bp):
AGCACTAAGTGTGCGATTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
Found at i:39007690 original size:81 final size:81
Alignment explanation
Indices: 39007551--39007705 Score: 224
Period size: 81 Copynumber: 1.9 Consensus size: 81
39007541 AAATTGTACA
* *
39007551 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
39007616 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
** *
39007632 GCACTAAGTGTGCGAGTT-GACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACTAAGT
1 GCACTAAGTGTGCGA-TTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAGT
*
39007695 GTGCGAGTTGA
64 GTGCGAATTGA
39007706 TTATATAGCA
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
80 1 0.02
81 63 0.95
82 2 0.03
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:39007717 original size:81 final size:81
Alignment explanation
Indices: 39007547--39007726 Score: 220
Period size: 81 Copynumber: 2.2 Consensus size: 81
39007537 GATTAAATTG
* *
39007547 TACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
39007612 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
39007628 TGCGGCACTAAGTGTGCGAGTT-GACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
39007691 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
39007709 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
39007727 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
80 1 0.01
81 80 0.96
82 2 0.02
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:39007737 original size:27 final size:27
Alignment explanation
Indices: 39007632--39007737 Score: 77
Period size: 27 Copynumber: 3.9 Consensus size: 27
39007622 TGACCATGCG
* * * *
39007632 GCACTAAGTGTGCGAGTTGACTATGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
** * * **
39007659 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
39007686 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
39007713 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
39007738 CATTCGTGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 68 1.00
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:39009628 original size:19 final size:19
Alignment explanation
Indices: 39009603--39009728 Score: 183
Period size: 19 Copynumber: 6.9 Consensus size: 19
39009593 ATAATCTTCA
39009603 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
39009622 GTGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
39009641 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
39009658 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
39009676 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
39009693 ATGAT-TGCCATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
39009711 ATGATATACAATCTTAGA
1 ATGATATGCAATCTTAGA
39009729 AGATATGATT
Statistics
Matches: 96, Mismatches: 5, Indels: 12
0.85 0.04 0.11
Matches are distributed among these distances:
17 32 0.33
18 31 0.32
19 33 0.34
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.37
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:39009673 original size:35 final size:35
Alignment explanation
Indices: 39009611--39009728 Score: 191
Period size: 35 Copynumber: 3.3 Consensus size: 35
39009601 CAATGATATG
*
39009611 CAATCTTAGATGTGATATGCAATCTTAGATATGATA
1 CAATCTTAGATATGAT-TGCAATCTTAGATATGATA
39009647 CAATCTTAGATATGATTGCAATCTTAGATATGATA
1 CAATCTTAGATATGATTGCAATCTTAGATATGATA
*
39009682 CAATCTTAGATATGATTGCCATCTTAGATATGATATA
1 CAATCTTAGATATGATTGCAATCTTAGATATG--ATA
39009719 CAATCTTAGA
1 CAATCTTAGA
39009729 AGATATGATT
Statistics
Matches: 78, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
35 50 0.64
36 15 0.19
37 13 0.17
ACGTcount: A:0.36, C:0.13, G:0.14, T:0.36
Consensus pattern (35 bp):
CAATCTTAGATATGATTGCAATCTTAGATATGATA
Found at i:39010223 original size:17 final size:16
Alignment explanation
Indices: 39010210--39010267 Score: 66
Period size: 17 Copynumber: 3.6 Consensus size: 16
39010200 CCAATATATT
39010210 TTATATTTTTATATAA
1 TTATATTTTTATATAA
*
39010226 TTATTATTCTTATA-AA
1 TTA-TATTTTTATATAA
39010242 -TATATTTTTATTATATA
1 TTATATTTTTA-TATA-A
39010259 TTATATTTT
1 TTATATTTT
39010268 AAATTTATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
14 7 0.20
15 4 0.11
16 6 0.17
17 10 0.29
18 8 0.23
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (16 bp):
TTATATTTTTATATAA
Found at i:39010268 original size:17 final size:17
Alignment explanation
Indices: 39010203--39010268 Score: 50
Period size: 17 Copynumber: 3.9 Consensus size: 17
39010193 TTCTAAACCA
*
39010203 ATATATTTTATATTT-TT
1 ATATATTATAT-TTTATT
39010220 ATATAATTATTATTCTTA-T
1 ATAT-ATTA-TATT-TTATT
*
39010239 AAATA-TAT-TTTTATT
1 ATATATTATATTTTATT
39010254 ATATATTATATTTTA
1 ATATATTATATTTTA
39010269 AATTTATTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 14
0.70 0.05 0.25
Matches are distributed among these distances:
14 3 0.08
15 7 0.18
16 4 0.10
17 11 0.28
18 5 0.13
19 9 0.23
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (17 bp):
ATATATTATATTTTATT
Found at i:39010292 original size:26 final size:25
Alignment explanation
Indices: 39010245--39010293 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
39010235 TTATAAATAT
* * *
39010245 ATTTTTATTATATATTATATTTTAA
1 ATTTTTATTAAATATCACATTTTAA
39010270 ATTTATTATTAAATATCACATTTT
1 ATTT-TTATTAAATATCACATTTT
39010294 TTTATATGCT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 4 0.20
26 16 0.80
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (25 bp):
ATTTTTATTAAATATCACATTTTAA
Found at i:39011883 original size:8 final size:8
Alignment explanation
Indices: 39011872--39011898 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
39011862 TTTGAAATTT
39011872 AAAAATAA
1 AAAAATAA
39011880 AAAAATAA
1 AAAAATAA
39011888 AAAAATAA
1 AAAAATAA
39011896 AAA
1 AAA
39011899 GCTTAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (8 bp):
AAAAATAA
Found at i:39012403 original size:3 final size:3
Alignment explanation
Indices: 39012395--39012437 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
39012385 TGAGAACGAG
* * *
39012395 GAA GAA GAA GAA GAA AAA GAA GAA GAA GAG GAG GAA G-A GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
39012438 GGGGGGAGGA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:39013605 original size:13 final size:13
Alignment explanation
Indices: 39013583--39013619 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
39013573 AAATTTTGAT
*
39013583 AAATTAAGATTTG
1 AAATTGAGATTTG
39013596 AAATTGAGATTTG
1 AAATTGAGATTTG
39013609 AAATTGAGATT
1 AAATTGAGATT
39013620 CATGATTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.43, C:0.00, G:0.19, T:0.38
Consensus pattern (13 bp):
AAATTGAGATTTG
Found at i:39016543 original size:42 final size:43
Alignment explanation
Indices: 39016455--39016587 Score: 178
Period size: 43 Copynumber: 3.1 Consensus size: 43
39016445 GGTCTTGTTC
* ** *
39016455 TTTAGCGGCATTTGTAAGAAAAGCGCAGCTAAAAGTCATGGTT
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGGTT
* * * *
39016498 TTTAGCGGCTTTTGTGGGAAAAGGGTC-TTAAAAGTCATGGTT
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGGTT
*
39016540 TTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAAGTCATGGTT
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGGTT
39016583 TTTAG
1 TTTAG
39016588 TGGAGCTTTT
Statistics
Matches: 77, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
42 37 0.48
43 40 0.52
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.32
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGGTT
Found at i:39025159 original size:21 final size:21
Alignment explanation
Indices: 39025133--39025172 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
39025123 AAAAAGGAAA
*
39025133 TAAATAAAAGAAATAAAATAT
1 TAAATAAAACAAATAAAATAT
*
39025154 TAAATAAAACACATAAAAT
1 TAAATAAAACAAATAAAAT
39025173 GATAATAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.70, C:0.05, G:0.03, T:0.23
Consensus pattern (21 bp):
TAAATAAAACAAATAAAATAT
Found at i:39027365 original size:44 final size:44
Alignment explanation
Indices: 39026962--39027396 Score: 170
Period size: 44 Copynumber: 9.8 Consensus size: 44
39026952 GAGATTTGTA
* * * * * *
39026962 GCTTCGATCTATTCCGCTGAAACTTCAAGGAGATAAGAATTGGTA
1 GCTTCAATCTACTCCACTGTAACTTCAAGGAGATAAG-GTTGGTG
** * * * *
39027007 ATTTCAA-CTTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTG
1 GCTTCAATC-TACTCCACTGTAACTTCAAGGAGATAAGGTTGGTG
** ** * *
39027051 TATTTTTATCCTACTCTACTGCAACTTC-AGAGAGATAAGGATT-GTG
1 -GCTTCAAT-CTACTCCACTGTAACTTCAAG-GAGATAAGG-TTGGTG
* ** * * * * *
39027097 GCTTCAATCTGCTTTAATGTAATTTCAGGGAGA-AGAGATAT-GTA
1 GCTTCAATCTACTCCACTGTAACTTCAAGGAGATA-AGGT-TGGTG
* * * * * * *
39027141 ACTTCGATCTACTCCGCTGGAACTTTAAAGAGATAAGGTTGATG
1 GCTTCAATCTACTCCACTGTAACTTCAAGGAGATAAGGTTGGTG
* * * * * *
39027185 GCTTCAATCTACTCCAATGTAATTTC-AGAAAGA-AGAGATTTGTA
1 GCTTCAATCTACTCCACTGTAACTTCAAG-GAGATA-AGGTTGGTG
* * * * *
39027229 GCTTCGATCTTCTCCGCTGAAACTTCAAGAAGATAAGGTTGGTG
1 GCTTCAATCTACTCCACTGTAACTTCAAGGAGATAAGGTTGGTG
* * * * * * * *
39027273 GCTTTAATCCACTCCAATGTAATTTCAGGGAGA-AGAGATTTGTA
1 GCTTCAATCTACTCCACTGTAACTTCAAGGAGATA-AGGTTGGTG
* *
39027317 GCTTCGATCTACTCCACTAG-AACTTCAAGGAGATAAGGCTGGTG
1 GCTTCAATCTACTCCACT-GTAACTTCAAGGAGATAAGGTTGGTG
* * *
39027361 GCTTCAATCTGCTCTACTGCAACTTC-AGGAAGATAA
1 GCTTCAATCTACTCCACTGTAACTTCAAGG-AGATAA
39027397 AATTCCCCAT
Statistics
Matches: 279, Mismatches: 91, Indels: 41
0.68 0.22 0.10
Matches are distributed among these distances:
43 10 0.04
44 195 0.70
45 44 0.16
46 27 0.10
47 3 0.01
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Consensus pattern (44 bp):
GCTTCAATCTACTCCACTGTAACTTCAAGGAGATAAGGTTGGTG
Found at i:39027389 original size:88 final size:88
Alignment explanation
Indices: 39026928--39027374 Score: 465
Period size: 88 Copynumber: 5.0 Consensus size: 88
39026918 GCTTTGATCC
* *
39026928 GCTCCAATGTAATTTCAGGGAAAAGAGATTTGTAGCTTCGATCTATTCCGCTGAAACTTCAAGGA
1 GCTCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGAAACTTCAAGGA
* ***
39026993 GATAAGAATTGGTAATTTCAA-CTT
66 GATAAG-GTTGGTGGCTTCAATC-T
* * * * * ** ** *
39027017 GCTCCACTGCAACTTCAGGGAGATA-AGGTTTGT-GTATTTTTATCCTACTCTACTGCAACTTC-
1 GCTCCAATGTAATTTCAGGGAGA-AGAGATTTGTAG--CTTCGAT-CTACTCCGCTGAAACTTCA
39027079 AGAGAGATAAGGATT-GTGGCTTCAATCT
62 AG-GAGATAAGG-TTGGTGGCTTCAATCT
** * * * * *
39027107 GCTTTAATGTAATTTCAGGGAGAAGAGATATGTAACTTCGATCTACTCCGCTGGAACTTTAAAGA
1 GCTCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGAAACTTCAAGGA
*
39027172 GATAAGGTTGATGGCTTCAATCT
66 GATAAGGTTGGTGGCTTCAATCT
* ** * *
39027195 ACTCCAATGTAATTTCAGAAAGAAGAGATTTGTAGCTTCGATCTTCTCCGCTGAAACTTCAAGAA
1 GCTCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGAAACTTCAAGGA
* *
39027260 GATAAGGTTGGTGGCTTTAATCC
66 GATAAGGTTGGTGGCTTCAATCT
* *
39027283 ACTCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCACT-AGAACTTCAAGG
1 GCTCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGA-AACTTCAAGG
*
39027347 AGATAAGGCTGGTGGCTTCAATCT
65 AGATAAGGTTGGTGGCTTCAATCT
39027371 GCTC
1 GCTC
39027375 TACTGCAACT
Statistics
Matches: 289, Mismatches: 57, Indels: 25
0.78 0.15 0.07
Matches are distributed among these distances:
87 3 0.01
88 190 0.66
89 32 0.11
90 39 0.13
91 25 0.09
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Consensus pattern (88 bp):
GCTCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGAAACTTCAAGGA
GATAAGGTTGGTGGCTTCAATCT
Found at i:39027595 original size:143 final size:143
Alignment explanation
Indices: 39027324--39027637 Score: 377
Period size: 143 Copynumber: 2.2 Consensus size: 143
39027314 GTAGCTTCGA
* * *
39027324 TCTACTCCACTAGAACTTCAAGGAGATAAGGCTGGTGGCTTCAATCTGCTCTACTGCAACTTCAG
1 TCTACTCCACTAGAACTTCAAGGAGATAAGACTGGTGGCTTCAATCTACTCCACTGCAACTTCAG
* * * * * * *
39027389 GAAGATAAAATTCCCCATAGTTTATAAGTTTAATCTGTTCCATTGTAACGTCAAGGAAGTAAGAT
66 GAAGATAAAATTCCCCATAATTCATAAGTTCAATCTATTCCACTGCAACGTCAAGGAAATAAGAT
*
39027454 TCGCTGTCTTCAG
131 CCGCTGTCTTCAG
* *
39027467 TCTACTCCGCT-GTAACTTCAGGGAGATAAGACTGGTGGCTTCAATCTACTCCACTGCAACTTCA
1 TCTACTCCACTAG-AACTTCAAGGAGATAAGACTGGTGGCTTCAATCTACTCCACTGCAACTTCA
* * *
39027531 GGAAGATAAAA-TCCGTCATAATTCGT-AGCTTCAATCTATTCCACTGCAAC-TCCAGGTAAATA
65 GGAAGATAAAATTCC-CCATAATTCATAAG-TTCAATCTATTCCACTGCAACGTCAAGG-AAATA
*
39027593 AGATCCGCTTTCTTC-G
127 AGATCCGCTGTCTTCAG
* *
39027609 ATCTGCTCCACTACAACTTCAAGGAGATA
1 -TCTACTCCACTAGAACTTCAAGGAGATA
39027638 GGATCTATAA
Statistics
Matches: 144, Mismatches: 21, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
142 12 0.08
143 132 0.92
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (143 bp):
TCTACTCCACTAGAACTTCAAGGAGATAAGACTGGTGGCTTCAATCTACTCCACTGCAACTTCAG
GAAGATAAAATTCCCCATAATTCATAAGTTCAATCTATTCCACTGCAACGTCAAGGAAATAAGAT
CCGCTGTCTTCAG
Found at i:39029007 original size:21 final size:20
Alignment explanation
Indices: 39028983--39029021 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
39028973 CCGTGTTGAT
*
39028983 TTCGTACTTTGGCCTATTTTC
1 TTCGT-CTTTGGCCCATTTTC
*
39029004 TTCGTTTTTGGCCCATTT
1 TTCGTCTTTGGCCCATTT
39029022 CTCGTTCCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.08, C:0.23, G:0.15, T:0.54
Consensus pattern (20 bp):
TTCGTCTTTGGCCCATTTTC
Found at i:39038902 original size:53 final size:53
Alignment explanation
Indices: 39038817--39038920 Score: 165
Period size: 53 Copynumber: 2.0 Consensus size: 53
39038807 GGGAACATAG
*
39038817 CTCGAAATGAATAAATTAATCAAAGATTGCAAATGCAATAAGATA-GAAATTAA
1 CTCGAAATGAATAAATTAATCAAAGATAGCAAATGCAATAAGA-AGGAAATTAA
* *
39038870 CTCGAAATGAATAAGTTAATCAAAGATAGCAAATGTAATAAGAAGGAAATT
1 CTCGAAATGAATAAATTAATCAAAGATAGCAAATGCAATAAGAAGGAAATT
39038921 GATTAGGAGC
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.02
53 46 0.98
ACGTcount: A:0.52, C:0.09, G:0.15, T:0.24
Consensus pattern (53 bp):
CTCGAAATGAATAAATTAATCAAAGATAGCAAATGCAATAAGAAGGAAATTAA
Found at i:39040580 original size:49 final size:49
Alignment explanation
Indices: 39040506--39040750 Score: 310
Period size: 49 Copynumber: 4.9 Consensus size: 49
39040496 TAGCCGAAGC
* * *
39040506 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* * ***
39040555 TGTCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTGCC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC-AAT
* * * *
39040605 CATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-T
* * *
39040656 TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* *
39040705 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACAGACGTGACC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC
39040751 CCACAATAGC
Statistics
Matches: 166, Mismatches: 27, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
49 83 0.50
50 44 0.27
51 39 0.23
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (49 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
Found at i:39040645 original size:28 final size:28
Alignment explanation
Indices: 39040563--39040646 Score: 92
Period size: 28 Copynumber: 3.2 Consensus size: 28
39040553 ATTGTCTGGT
39040563 ACACGTAGTAGCCTGCACTTAGTACTAC
1 ACACGTAGTAGCCTGCACTTAGTACTAC
* *
39040591 ACACGT-G-A-CCTGC-C-CA-T-CTGAT
1 ACACGTAGTAGCCTGCACTTAGTACT-AC
39040613 ACACGTAGTAGCCTGCACTTAGTACTAC
1 ACACGTAGTAGCCTGCACTTAGTACTAC
39040641 ACACGT
1 ACACGT
39040647 GATCGAAGTT
Statistics
Matches: 44, Mismatches: 4, Indels: 16
0.69 0.06 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.18
23 2 0.05
24 2 0.05
25 10 0.23
26 2 0.05
27 2 0.05
28 14 0.32
29 2 0.05
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.24
Consensus pattern (28 bp):
ACACGTAGTAGCCTGCACTTAGTACTAC
Found at i:39040694 original size:101 final size:98
Alignment explanation
Indices: 39040519--39040750 Score: 311
Period size: 100 Copynumber: 2.3 Consensus size: 98
39040509 CTGGTACGCA
* * * * *
39040519 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTGTCTGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACACATAGTAGCCTGCACTTA
* **
39040584 GTACTACACACGTGACCTGCCCATCTGATACACG
66 GTACTACACACGCGACC-AACCATCTGATACACG
* *
39040618 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCAGGTACACATAGTAGCCTGCACT
** *
39040683 TAGTACTACACACGCGACCAATTATCTGGTACACG
64 TAGTACTACACACGCGACCAACCATCTGATACACG
*
39040718 TAGTAGCCTGCACTTAGTACTACAGACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
39040751 CCACAATAGC
Statistics
Matches: 116, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
99 30 0.26
100 44 0.38
101 42 0.36
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.25
Consensus pattern (98 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCAACCATCTGATACACG
Found at i:39043505 original size:15 final size:15
Alignment explanation
Indices: 39043476--39043514 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
39043466 AACAGAGAAG
39043476 CCAAGAATAAAGAAAT
1 CCAAG-ATAAAGAAAT
39043492 CCAAGATAAAGAAAT
1 CCAAGATAAAGAAAT
*
39043507 CCATGATA
1 CCAAGATA
39043515 CGAGAATCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 17 0.77
16 5 0.23
ACGTcount: A:0.56, C:0.15, G:0.13, T:0.15
Consensus pattern (15 bp):
CCAAGATAAAGAAAT
Found at i:39046335 original size:49 final size:49
Alignment explanation
Indices: 39046261--39046505 Score: 283
Period size: 49 Copynumber: 4.9 Consensus size: 49
39046251 TAGCCGAAGC
* * *
39046261 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* * * ***
39046310 TGTCTGGTACATGTAGTAGCCTGCACTTAGTACTACACACGTGACCTGCC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC-AAT
* * * * *
39046360 CATCTGATACATGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-T
* * *
39046411 TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* * *
39046460 TATCTAGTACACGTAGTAGCCTGCACTTAGTACTACAGACGTGACC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC
39046506 CCACAATAGC
Statistics
Matches: 163, Mismatches: 30, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
49 81 0.50
50 44 0.27
51 38 0.23
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.26
Consensus pattern (49 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
Found at i:39046449 original size:101 final size:98
Alignment explanation
Indices: 39046274--39046505 Score: 286
Period size: 100 Copynumber: 2.3 Consensus size: 98
39046264 CTGGTACGCA
* * * * **
39046274 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTGTCTGGTACATGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACACATAGTAGCCTGCACTTA
* ** *
39046339 GTACTACACACGTGACCTGCCCATCT-GATACATG
66 GTACTACACACGCGACC-AACCATCTAG-TACACG
* *
39046373 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCAGGTACACATAGTAGCCTGCACT
**
39046438 TAGTACTACACACGCGACCAATTATCTAGTACACG
64 TAGTACTACACACGCGACCAACCATCTAGTACACG
*
39046473 TAGTAGCCTGCACTTAGTACTACAGACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
39046506 CCACAATAGC
Statistics
Matches: 114, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
99 30 0.26
100 42 0.37
101 42 0.37
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (98 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCAACCATCTAGTACACG
Found at i:39058265 original size:44 final size:43
Alignment explanation
Indices: 39058177--39058292 Score: 144
Period size: 44 Copynumber: 2.7 Consensus size: 43
39058167 ATAGGATTCT
* **
39058177 GATATGTGATTTCGTGTAAGGCCACGTCTGGGACGTTGGAATC
1 GATATGTGATTTCGTGTAAGACCACGTCTGGGACAATGGAATC
* *
39058220 GATATGTGATTTACGTTTAAGACC-CTGTCTGGGACAATGGCATC
1 GATATGTGATTT-CGTGTAAGACCAC-GTCTGGGACAATGGAATC
* *
39058264 GATATGTGATTACATGTAAGACCACGTCT
1 GATATGTGATTTCGTGTAAGACCACGTCT
39058293 AGGATGTTGG
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
43 26 0.42
44 36 0.58
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (43 bp):
GATATGTGATTTCGTGTAAGACCACGTCTGGGACAATGGAATC
Found at i:39059859 original size:86 final size:86
Alignment explanation
Indices: 39059753--39059974 Score: 275
Period size: 86 Copynumber: 2.6 Consensus size: 86
39059743 AAAAAAAACT
* * * *
39059753 ACTAAAGACCATGACTTTTAGCGACGCTTTTTTCGTAAACGCCGCTAAAGACCATGAACTTTAAT
1 ACTAAAGACCATGACATTTAGCGGCGCTTTTTTCGCAAACGCCGCTAAAGACCATGAACTTTAAC
*
39059818 GGCGCTTTTCCCACAAACGCC
66 GACGCTTTTCCCACAAACGCC
* * * * * *
39059839 GCTAAAGACCATGACCTTTAGCGGTGCTTTTCTCGCAAACGCCGCTAAAGACCATGACCTTTAGC
1 ACTAAAGACCATGACATTTAGCGGCGCTTTTTTCGCAAACGCCGCTAAAGACCATGAACTTTAAC
*
39059904 GACGCTTTTTCCACAAACGCC
66 GACGCTTTTCCCACAAACGCC
* * * * * *
39059925 ACTATATAACA-GACATTTAGCGGCACTTTTTTCACAAACGCCACTAAAGA
1 ACTAAAGACCATGACATTTAGCGGCGCTTTTTTCGCAAACGCCGCTAAAGA
39059975 ATATAAACTT
Statistics
Matches: 115, Mismatches: 21, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
85 33 0.29
86 82 0.71
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (86 bp):
ACTAAAGACCATGACATTTAGCGGCGCTTTTTTCGCAAACGCCGCTAAAGACCATGAACTTTAAC
GACGCTTTTCCCACAAACGCC
Found at i:39059902 original size:43 final size:43
Alignment explanation
Indices: 39059754--39059974 Score: 239
Period size: 43 Copynumber: 5.2 Consensus size: 43
39059744 AAAAAAACTA
* * * **
39059754 CTAAAGACCATGACTTTTAGCGACGCTTTTTTCGTAAACGCCG
1 CTAAAGACCATGACCTTTAGCGGCGCTTTTCTCACAAACGCCG
* ** *
39059797 CTAAAGACCATGAACTTTAATGGCGCTTTTCCCACAAACGCCG
1 CTAAAGACCATGACCTTTAGCGGCGCTTTTCTCACAAACGCCG
* *
39059840 CTAAAGACCATGACCTTTAGCGGTGCTTTTCTCGCAAACGCCG
1 CTAAAGACCATGACCTTTAGCGGCGCTTTTCTCACAAACGCCG
* *
39059883 CTAAAGACCATGACCTTTAGCGACGCTTTT-TCCACAAACGCCA
1 CTAAAGACCATGACCTTTAGCGGCGCTTTTCT-CACAAACGCCG
* * * * * * *
39059926 CTATATAACA-GACATTTAGCGGCACTTTTTTCACAAACGCCA
1 CTAAAGACCATGACCTTTAGCGGCGCTTTTCTCACAAACGCCG
39059968 CTAAAGA
1 CTAAAGA
39059975 ATATAAACTT
Statistics
Matches: 149, Mismatches: 27, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
42 33 0.22
43 116 0.78
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (43 bp):
CTAAAGACCATGACCTTTAGCGGCGCTTTTCTCACAAACGCCG
Found at i:39062713 original size:22 final size:22
Alignment explanation
Indices: 39062688--39062732 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
39062678 AATCAAGAAG
39062688 TAAACATAAACTCAACTCAAAA
1 TAAACATAAACTCAACTCAAAA
*
39062710 TAAATATAAACTCAACTCAAAA
1 TAAACATAAACTCAACTCAAAA
39062732 T
1 T
39062733 CACAGTTCTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.58, C:0.20, G:0.00, T:0.22
Consensus pattern (22 bp):
TAAACATAAACTCAACTCAAAA
Found at i:39064308 original size:15 final size:15
Alignment explanation
Indices: 39064264--39064351 Score: 74
Period size: 14 Copynumber: 6.0 Consensus size: 15
39064254 ATATGGATTA
* * *
39064264 AAATATTAAATATTA
1 AAATTTTAAATTTTT
*
39064279 AAATTTTAAGTTTTTT
1 AAATTTTAA-ATTTTT
* *
39064295 TATTTTTAAA-TTTT
1 AAATTTTAAATTTTT
39064309 AAATTTTAAA-TTTT
1 AAATTTTAAATTTTT
**
39064323 AAATTTTTTATTTTT
1 AAATTTTAAATTTTT
39064338 AAATTTT-AATTTTT
1 AAATTTTAAATTTTT
39064352 TTGGAATATT
Statistics
Matches: 59, Mismatches: 12, Indels: 5
0.78 0.16 0.07
Matches are distributed among these distances:
14 30 0.51
15 19 0.32
16 10 0.17
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (15 bp):
AAATTTTAAATTTTT
Found at i:39064371 original size:9 final size:8
Alignment explanation
Indices: 39064276--39064378 Score: 72
Period size: 7 Copynumber: 12.9 Consensus size: 8
39064266 ATATTAAATA
*
39064276 TTAAAATT
1 TTAAATTT
*
39064284 TTAAGTTT
1 TTAAATTT
**
39064292 TTTTATTT
1 TTAAATTT
39064300 TTAAA-TT
1 TTAAATTT
39064307 TTAAA-TT
1 TTAAATTT
39064314 TTAAA-TT
1 TTAAATTT
39064321 TTAAATTT
1 TTAAATTT
*
39064329 TT-TATTT
1 TTAAATTT
39064336 TTAAA-TT
1 TTAAATTT
*
39064343 TTAATTTTT
1 TTAA-ATTT
39064352 TTGGAATATTT
1 TT--AA-ATTT
39064363 TTATAATTT
1 TTA-AATTT
39064372 TTAAATT
1 TTAAATT
39064379 AACATATAAA
Statistics
Matches: 77, Mismatches: 11, Indels: 14
0.75 0.11 0.14
Matches are distributed among these distances:
7 33 0.43
8 23 0.30
9 12 0.16
10 1 0.01
11 8 0.10
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (8 bp):
TTAAATTT
Found at i:39064372 original size:36 final size:32
Alignment explanation
Indices: 39064279--39064378 Score: 93
Period size: 29 Copynumber: 3.2 Consensus size: 32
39064269 TTAAATATTA
* **
39064279 AAATTTTAAGTTTTTTTATTTTTA-AA-TTTT
1 AAATTTTAAATTTTAATATTTTTATAATTTTT
39064309 AAATTTTAAATTTTAA-ATTTTT-T-ATTTTT
1 AAATTTTAAATTTTAATATTTTTATAATTTTT
*
39064338 AAATTTTAATTTTTTTGGAATATTTTTATAATTTTT
1 AAATTTTAA--ATTTT--AATATTTTTATAATTTTT
39064374 AAATT
1 AAATT
39064379 AACATATAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 12
0.78 0.05 0.16
Matches are distributed among these distances:
28 1 0.02
29 19 0.33
30 13 0.23
31 4 0.07
33 2 0.04
34 6 0.11
35 1 0.02
36 11 0.19
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (32 bp):
AAATTTTAAATTTTAATATTTTTATAATTTTT
Found at i:39064786 original size:21 final size:21
Alignment explanation
Indices: 39064762--39064804 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
39064752 CACTAAAAAT
*
39064762 TAAACCCCAAATCCTAAACCA
1 TAAACCACAAATCCTAAACCA
* *
39064783 TAAACCATAAATCCTAGACCA
1 TAAACCACAAATCCTAAACCA
39064804 T
1 T
39064805 GAACATATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.47, C:0.33, G:0.02, T:0.19
Consensus pattern (21 bp):
TAAACCACAAATCCTAAACCA
Found at i:39065930 original size:40 final size:40
Alignment explanation
Indices: 39065871--39066010 Score: 153
Period size: 40 Copynumber: 3.5 Consensus size: 40
39065861 GACTTAATCT
* *
39065871 TTTAGCGGTGTTTTTTTAAAAACGCCGCT-ATAGATCGA-C
1 TTTAGCGGTGCTTTCTTAAAAACGCCGCTAAT-GATCGATC
* * *
39065910 TTATAGCGGTGCTTTCTTAAAAATGCTGCTAATGCTCGATC
1 TT-TAGCGGTGCTTTCTTAAAAACGCCGCTAATGATCGATC
* * *
39065951 TTTAGCGGTGCTTTCTTAAAAACGCCTCTAATGCTTGATC
1 TTTAGCGGTGCTTTCTTAAAAACGCCGCTAATGATCGATC
*
39065991 TTTAGCGGCG-TTT-TTAAAAA
1 TTTAGCGGTGCTTTCTTAAAAA
39066011 AAATGCCGCT
Statistics
Matches: 88, Mismatches: 10, Indels: 7
0.84 0.10 0.07
Matches are distributed among these distances:
38 7 0.08
39 5 0.06
40 71 0.81
41 5 0.06
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (40 bp):
TTTAGCGGTGCTTTCTTAAAAACGCCGCTAATGATCGATC
Found at i:39068833 original size:20 final size:20
Alignment explanation
Indices: 39068783--39068834 Score: 77
Period size: 22 Copynumber: 2.5 Consensus size: 20
39068773 AGAAGCAATG
*
39068783 TGACTAAAAACATGCTGTAA
1 TGACTAAAAACATGCTATAA
39068803 TGAACCTAAAAACATGCTATAA
1 TG-A-CTAAAAACATGCTATAA
39068825 TGACTAAAAA
1 TGACTAAAAA
39068835 TGTAAAAAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 9 0.31
21 2 0.07
22 18 0.62
ACGTcount: A:0.50, C:0.15, G:0.12, T:0.23
Consensus pattern (20 bp):
TGACTAAAAACATGCTATAA
Found at i:39074804 original size:49 final size:47
Alignment explanation
Indices: 39074744--39075102 Score: 549
Period size: 47 Copynumber: 7.6 Consensus size: 47
39074734 GATAATTGTG
* *
39074744 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
39074791 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
39074838 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
39074887 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
39074936 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
39074983 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * *
39075030 ATGTGAAAGTGTATATATGTGA-CAGAGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAG-GCCTAATGGCCGATGTGATGA
*
39075077 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
39075103 TCCCGAAGGG
Statistics
Matches: 291, Mismatches: 17, Indels: 7
0.92 0.05 0.02
Matches are distributed among these distances:
46 2 0.01
47 193 0.66
48 2 0.01
49 94 0.32
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:39078325 original size:16 final size:16
Alignment explanation
Indices: 39078304--39078339 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
39078294 AACCCTAAAT
39078304 TTTCCTTTTCTTT-TTC
1 TTTCCTTTT-TTTCTTC
39078320 TTTCCTTTTTTTCTTC
1 TTTCCTTTTTTTCTTC
39078336 TTTC
1 TTTC
39078340 TTTCCCTGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 3 0.16
16 16 0.84
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTCCTTTTTTTCTTC
Found at i:39080348 original size:40 final size:40
Alignment explanation
Indices: 39080271--39080491 Score: 297
Period size: 40 Copynumber: 5.5 Consensus size: 40
39080261 ACCCAAGTAT
* *
39080271 CTTCGGGAT-TTAG-CCGGATATA-ACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGTC-ACTAGCACAAATGC
*
39080310 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
39080350 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
*
39080390 CTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * *
39080430 CTTCGGATCTTAGTCCGGATATAGTCACTAGCACAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
*
39080470 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
39080492 CATTCGAATA
Statistics
Matches: 161, Mismatches: 16, Indels: 9
0.87 0.09 0.05
Matches are distributed among these distances:
38 1 0.01
39 12 0.07
40 146 0.91
41 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:39088604 original size:40 final size:40
Alignment explanation
Indices: 39088527--39088746 Score: 270
Period size: 40 Copynumber: 5.5 Consensus size: 40
39088517 ACCCAAATAT
* *
39088527 CTTCGGGAT-TTAG-CCGGATATA-ACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGTC-ACTAGCACAAATGC
*
39088566 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* **
39088606 CTTCGGGACTTAGCCCGGATATAGTCGTTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
39088646 CTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAAATGT
1 CTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * *
39088686 CTTCGGATCTTAGTCCGGATATAGTCACTAGCACAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
*
39088726 CTTC-GGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
39088747 CATCGAATAA
Statistics
Matches: 156, Mismatches: 20, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
38 1 0.01
39 26 0.17
40 127 0.81
41 2 0.01
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:39091964 original size:33 final size:33
Alignment explanation
Indices: 39091924--39091994 Score: 133
Period size: 33 Copynumber: 2.2 Consensus size: 33
39091914 TTCAAAACTT
*
39091924 TTCTTACACTGTTCACTCCAAACAAACGGAACA
1 TTCTTACACTGTTCACTCCAAACAAACGAAACA
39091957 TTCTTACACTGTTCACTCCAAACAAACGAAACA
1 TTCTTACACTGTTCACTCCAAACAAACGAAACA
39091990 TTCTT
1 TTCTT
39091995 TTGCAGTAAC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.35, C:0.30, G:0.07, T:0.28
Consensus pattern (33 bp):
TTCTTACACTGTTCACTCCAAACAAACGAAACA
Found at i:39096853 original size:19 final size:20
Alignment explanation
Indices: 39096829--39096866 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
39096819 TAAATTTTCC
39096829 TTTTCTT-TTTCTTTCCCTT
1 TTTTCTTCTTTCTTTCCCTT
39096848 TTTTCTTCTTTCTTTCCCT
1 TTTTCTTCTTTCTTTCCCT
39096867 GCTATTCGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (20 bp):
TTTTCTTCTTTCTTTCCCTT
Found at i:39096856 original size:16 final size:17
Alignment explanation
Indices: 39096827--39096859 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
39096817 CCTAAATTTT
*
39096827 CCTTTTCTTTTTCTTTC
1 CCTTTTCTTCTTCTTTC
39096844 CCTTTT-TTCTTCTTTC
1 CCTTTTCTTCTTCTTTC
39096860 TTTCCCTGCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (17 bp):
CCTTTTCTTCTTCTTTC
Found at i:39099965 original size:48 final size:47
Alignment explanation
Indices: 39099848--39099992 Score: 173
Period size: 48 Copynumber: 3.0 Consensus size: 47
39099838 TTACACGATG
* **
39099848 TCTCATATCGATGCCAATGCCATATCCCAGATGTGGTTTACATGGGA
1 TCTCATATCGATGCCAATGCCATGTCCCAGACATGGTTTACATGGGA
* * *
39099895 TCACATGTCGATGCCAATGCCATGTCCCAGACATGGTCTTATATGGGA
1 TCTCATATCGATGCCAATGCCATGTCCCAGACATGGT-TTACATGGGA
* * * * *
39099943 TCTCATAACGATACCAAAGCCATGTCCCAGACATTGTGTTACATGAGA
1 TCTCATATCGATGCCAATGCCATGTCCCAGACATGGT-TTACATGGGA
39099991 TC
1 TC
39099993 GCACATAACC
Statistics
Matches: 82, Mismatches: 15, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
47 32 0.39
48 50 0.61
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.28
Consensus pattern (47 bp):
TCTCATATCGATGCCAATGCCATGTCCCAGACATGGTTTACATGGGA
Found at i:39102001 original size:25 final size:25
Alignment explanation
Indices: 39101967--39102017 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
39101957 GACAAGATGA
39101967 TAGTGTGTTGAATCTCCGACCGTTT
1 TAGTGTGTTGAATCTCCGACCGTTT
39101992 TAGTGTGTTGAATCTCCGACCGTTT
1 TAGTGTGTTGAATCTCCGACCGTTT
39102017 T
1 T
39102018 CCAATCTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.16, C:0.20, G:0.24, T:0.41
Consensus pattern (25 bp):
TAGTGTGTTGAATCTCCGACCGTTT
Found at i:39114430 original size:18 final size:18
Alignment explanation
Indices: 39114404--39114451 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
39114394 GATGTCTTGG
39114404 TGATTTGGTATCT-TATGA
1 TGATTTGGTAT-TGTATGA
*
39114422 TGTTTTGGTATTGTATGA
1 TGATTTGGTATTGTATGA
39114440 TGATTTGGTATT
1 TGATTTGGTATT
39114452 TGGATTCTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
17 1 0.04
18 26 0.96
ACGTcount: A:0.19, C:0.02, G:0.25, T:0.54
Consensus pattern (18 bp):
TGATTTGGTATTGTATGA
Found at i:39119585 original size:145 final size:145
Alignment explanation
Indices: 39119317--39119605 Score: 490
Period size: 145 Copynumber: 2.0 Consensus size: 145
39119307 GTACATAAAG
* * *
39119317 GTTTCAAACTGTCGTTAGAGTAAGTTCGACACTAAGTTTTCCAATGTGGCCTTCTCGATTTGGTC
1 GTTTCAAACTGTCGTTAGAGTAAGTTCGACACTAAGTTGTCCAATCTGGCCTTCACGATTTGGTC
39119382 GTAACATCTAGGCTGGGTTTGGGAGGTTACAACAGATGTGCCTGTGATTGCCTTATATAAGTGTA
66 GTAACATCTAGGCTGGGTTTGGGAGGTTACAACAGATGTGCCTGTGATTGCCTTATATAAGTGTA
39119447 AGAACAGAGTTGTTT
131 AGAACAGAGTTGTTT
* *
39119462 GTTTTAAACTGTCGTTAGAGTAGGTTCGACACTAAGTTGTCCAATCTGGCCTTCACGATTTGGTC
1 GTTTCAAACTGTCGTTAGAGTAAGTTCGACACTAAGTTGTCCAATCTGGCCTTCACGATTTGGTC
* *
39119527 GTAACATCTAGG-TCGGGTTTGGGAGTTTACAATAGATGTGCCTGTGATTGCCTTATATAAGTGT
66 GTAACATCTAGGCT-GGGTTTGGGAGGTTACAACAGATGTGCCTGTGATTGCCTTATATAAGTGT
*
39119591 AGGAACAGAGTTGTT
130 AAGAACAGAGTTGTT
39119606 CACCAATCAA
Statistics
Matches: 135, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
144 1 0.01
145 134 0.99
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.35
Consensus pattern (145 bp):
GTTTCAAACTGTCGTTAGAGTAAGTTCGACACTAAGTTGTCCAATCTGGCCTTCACGATTTGGTC
GTAACATCTAGGCTGGGTTTGGGAGGTTACAACAGATGTGCCTGTGATTGCCTTATATAAGTGTA
AGAACAGAGTTGTTT
Found at i:39121953 original size:46 final size:45
Alignment explanation
Indices: 39121886--39122058 Score: 172
Period size: 46 Copynumber: 3.8 Consensus size: 45
39121876 TGTAACCCGC
* *
39121886 CCATAAGCGAACTCGAACTCAACTCAACGAGCTCAGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGGCATTC-CAT
* * * *
39121932 CCATAAGTGAATTCAGACTCAACTCAACGAGTTC-GG-ATGCCTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGGCATTCC-A--T
* * * *
39121978 ACATCTCA-CGAACTCGGACTCAACTCAACGAGCTCAGACATTCACAT
1 CCA--TAAGTGAACTCGGACTCAACTCAACGAGCTCAGGCATTC-CAT
39122025 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC
39122059 GGATGCCCAA
Statistics
Matches: 101, Mismatches: 17, Indels: 18
0.74 0.12 0.13
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
45 4 0.04
46 58 0.57
47 26 0.26
48 3 0.03
49 4 0.04
50 1 0.01
ACGTcount: A:0.32, C:0.31, G:0.17, T:0.20
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGGCATTCCAT
Found at i:39122000 original size:93 final size:93
Alignment explanation
Indices: 39121893--39122065 Score: 292
Period size: 93 Copynumber: 1.9 Consensus size: 93
39121883 CGCCCATAAG
* * *
39121893 CGAACTCGAACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAGTGAATTCAGACTCAACTCA
1 CGAACTCGAACTCAACTCAACGAGCTCAGACATTCACATCCATAAGTGAACTCAGACTCAACTCA
*
39121958 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
* *
39121986 CGAACTCGGACTCAACTCAACGAGCTCAGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGAACTCAACTCAACGAGCTCAGACATTCACATCCATAAGTGAACTCAGACTCAACTCA
39122051 ACGAGCTCGGATGCC
66 ACGAGCTCGGATGCC
39122066 CAAATATCCT
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.31, C:0.31, G:0.18, T:0.20
Consensus pattern (93 bp):
CGAACTCGAACTCAACTCAACGAGCTCAGACATTCACATCCATAAGTGAACTCAGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:39122306 original size:48 final size:48
Alignment explanation
Indices: 39122244--39122349 Score: 185
Period size: 48 Copynumber: 2.2 Consensus size: 48
39122234 CATGATAACA
* *
39122244 ATTATAATATCGTATAAATAACATTAAATGATTTAAAATAACGGTTAT
1 ATTACAATATCGTATAAATAACATTAAATGATTTAAAATAACAGTTAT
*
39122292 ATTACAATATCGTATAAATAGCATTAAATGATTTAAAATAACAGTTAT
1 ATTACAATATCGTATAAATAACATTAAATGATTTAAAATAACAGTTAT
39122340 ATTACAATAT
1 ATTACAATAT
39122350 TTACATATGA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 55 1.00
ACGTcount: A:0.48, C:0.08, G:0.08, T:0.37
Consensus pattern (48 bp):
ATTACAATATCGTATAAATAACATTAAATGATTTAAAATAACAGTTAT
Found at i:39125814 original size:40 final size:40
Alignment explanation
Indices: 39125744--39126081 Score: 475
Period size: 40 Copynumber: 8.5 Consensus size: 40
39125734 AAGCCAGGTA
* * * *
39125744 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * *
39125783 CCTTTGGGACATAGCCCGGATGTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
39125823 CCTTCGGGACTTAGCCCGGATATAGTAACTCGTACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
39125863 CCTTCGGGACTTAGCCTGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
39125903 CCTTCGGGACTTAACCTGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
39125943 CCTTCGGGACTTAGCCCGGATATAGTAACTCGTACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
39125983 CCTTCGAGACTTAACCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
39126023 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
39126063 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
39126082 TTATCATCCG
Statistics
Matches: 269, Mismatches: 27, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
39 12 0.04
40 257 0.96
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:39128688 original size:13 final size:13
Alignment explanation
Indices: 39128670--39128694 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
39128660 CCTGACTTTT
39128670 TTTTTAAATTGTG
1 TTTTTAAATTGTG
39128683 TTTTTAAATTGT
1 TTTTTAAATTGT
39128695 AATGGATCCC
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:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (13 bp):
TTTTTAAATTGTG
Found at i:39133411 original size:12 final size:12
Alignment explanation
Indices: 39133388--39133418 Score: 53
Period size: 12 Copynumber: 2.5 Consensus size: 12
39133378 AGAACAAAAC
39133388 GAAAACAGGGAAA
1 GAAAA-AGGGAAA
39133401 GAAAAAGGGAAA
1 GAAAAAGGGAAA
39133413 GAAAAA
1 GAAAAA
39133419 AATAAAAAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 13 0.72
13 5 0.28
ACGTcount: A:0.68, C:0.03, G:0.29, T:0.00
Consensus pattern (12 bp):
GAAAAAGGGAAA
Found at i:39143761 original size:47 final size:47
Alignment explanation
Indices: 39143708--39143821 Score: 203
Period size: 47 Copynumber: 2.4 Consensus size: 47
39143698 CATCCATAAG
39143708 CTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCACGAAC-TCGAA
1 CTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCACGAACAT-GAA
39143755 CTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCACGAACATGAA
1 CTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCACGAACATGAA
*
39143802 CTCAACTCAACGAGTTCGGA
1 CTCAACTCAACGAGCTCGGA
39143822 ACTCAACCAT
Statistics
Matches: 65, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
47 64 0.98
48 1 0.02
ACGTcount: A:0.31, C:0.31, G:0.18, T:0.21
Consensus pattern (47 bp):
CTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCACGAACATGAA
Found at i:39180639 original size:56 final size:54
Alignment explanation
Indices: 39180519--39180674 Score: 170
Period size: 56 Copynumber: 2.8 Consensus size: 54
39180509 ACATAGCACA
* * * *
39180519 CCTCTCAACAGGGCTACATATGAGCACCTGGACCTAGCATGCATCACATAACCACG
1 CCTCTCAACAGGGCTACATA--AGCTCCCGGACCTAGCATGTATCACATAAACACG
* * *
39180575 CCTCTCAACAGGGCTACATAAGCTCCCAGACCTAGCGTGTATCACATAATTACATG
1 CCTCTCAACAGGGCTACATAAGCTCCCGGACCTAGCATGTATCACATAA--ACACG
* * *
39180631 CCTTTCAAC-GTGGCTACACAAGCTCCCGGACCTAGCCTGTATCA
1 CCTCTCAACAG-GGCTACATAAGCTCCCGGACCTAGCATGTATCA
39180675 TGTCATCATA
Statistics
Matches: 86, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
54 24 0.28
55 1 0.01
56 61 0.71
ACGTcount: A:0.28, C:0.33, G:0.17, T:0.21
Consensus pattern (54 bp):
CCTCTCAACAGGGCTACATAAGCTCCCGGACCTAGCATGTATCACATAAACACG
Found at i:39186458 original size:18 final size:18
Alignment explanation
Indices: 39186435--39186482 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
39186425 GTACTGTTAT
39186435 TGTTACTGCAATAATTAC
1 TGTTACTGCAATAATTAC
* **
39186453 TGTTACTGCATTGTTTAC
1 TGTTACTGCAATAATTAC
39186471 TGTTACTGCAAT
1 TGTTACTGCAAT
39186483 GGGCCTTGGC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.25, C:0.17, G:0.15, T:0.44
Consensus pattern (18 bp):
TGTTACTGCAATAATTAC
Found at i:39196730 original size:43 final size:43
Alignment explanation
Indices: 39196606--39196742 Score: 154
Period size: 43 Copynumber: 3.2 Consensus size: 43
39196596 ATTGTAGATG
** * * *
39196606 TGGTCTTACATGTAATCGGATATCGATGCCACTATCCCAGACA
1 TGGTCTTACATGTAATCTCAAATCGATGCCAATGTCCCAGACA
* * *
39196649 GGGTCTTACATG-AA-ATC-AATACGATGCCGATGTCCCAGACA
1 TGGTCTTACATGTAATCTCAAAT-CGATGCCAATGTCCCAGACA
**
39196690 TGGTCTTACATGTAATCTCAAATCGATGCCAATGTCCCAGATG
1 TGGTCTTACATGTAATCTCAAATCGATGCCAATGTCCCAGACA
39196733 TGGTCTTACA
1 TGGTCTTACA
39196743 CGAAATCACA
Statistics
Matches: 77, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
40 2 0.03
41 28 0.36
42 4 0.05
43 40 0.52
44 3 0.04
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (43 bp):
TGGTCTTACATGTAATCTCAAATCGATGCCAATGTCCCAGACA
Found at i:39204530 original size:409 final size:409
Alignment explanation
Indices: 39203894--39204708 Score: 1452
Period size: 409 Copynumber: 2.0 Consensus size: 409
39203884 ATTGCCGAGG
*
39203894 CTTTAGTAGCTACGATAACTGTAAAACAAACAATAATCACACAGAGTAAGCTTTCAAAAGCTTAG
1 CTTTAGTAGCTACGAAAACTGTAAAACAAACAATAATCACACAGAGTAAGCTTTCAAAAGCTTAG
* *
39203959 CAAGCTCGTGCTCAAAACATTCATAGTATATAAACATAAAATGATAACCTATGAGCATTTGCACA
66 CAAGCTCGTACTCAAAAAATTCATAGTATATAAACATAAAATGATAACCTATGAGCATTTGCACA
39204024 ATTTCAATCCATATAACTATATCAATTCAATGATTCATATATATAACATCATCTACCACTTAGGC
131 ATTTCAATCCATATAACTATATCAATTCAATGATTCATATATATAACATCATCTACCACTTAGGC
39204089 ATTATACATACCTGAAGCCTTCCGTACTTATTCACTTTTGTACTTACCTCATGATAAATGTTATA
196 ATTATACATACCTGAAGCCTTCCGTACTTATTCACTTTTGTACTTACCTCATGATAAATGTTATA
* * *
39204154 AGACTTTCCATAAGTTATTTGTGTTTTACACATCACCACACTTAGTGATATAAGGTTAGTCAAAG
261 AGACTTTCCATAAGTTATTCGTGTTTTACACATCACCACACTTAGTGATATAAGGATAGCCAAAG
* *
39204219 TTAAATATTTTCGCACACTTAGTGCCATCTCGAATAACCGAGACTAAGTCGGTATCGTACACTTA
326 TTAAATATTTCCGCACACTTAGTGCCATCTCGAATAACCGAGACTAAGTCGGTATCGCACACTTA
39204284 GTGCCTCAAGTAGCTGAGC
391 GTGCCTCAAGTAGCTGAGC
* * *
39204303 CTTTAGTAGCTGCGAAAACTGTAAAACAGACAGTAATCACACAGAGTAAGCTTTCAAAAGCTTAG
1 CTTTAGTAGCTACGAAAACTGTAAAACAAACAATAATCACACAGAGTAAGCTTTCAAAAGCTTAG
* *
39204368 TAAGCTCGTACTCAAAAAATTCATAGTATATAAACATAAAATGATAACCTATGAGTATTTGCACA
66 CAAGCTCGTACTCAAAAAATTCATAGTATATAAACATAAAATGATAACCTATGAGCATTTGCACA
*
39204433 ATTTCAATCCATATAACTATATCAATTCAATGATTCATATATATAACATCTTCTACCACTTAGGC
131 ATTTCAATCCATATAACTATATCAATTCAATGATTCATATATATAACATCATCTACCACTTAGGC
*
39204498 ATTATACATACCTGAAG-CTTCCCGTACTTATTCACTTTTGTACTTACCTCATGATGAATGTTAT
196 ATTATACATACCTGAAGCCTT-CCGTACTTATTCACTTTTGTACTTACCTCATGATAAATGTTAT
* *
39204562 AAGACTTTCCATAAGTTATTCGTGTTTTACACATCACCACACTTAGTGCTATAAGGATAGCCGAA
260 AAGACTTTCCATAAGTTATTCGTGTTTTACACATCACCACACTTAGTGATATAAGGATAGCCAAA
*
39204627 GTTAAATATTTCCGCATACTTAGTGCCATCTCGAATAACCGAGACTAAGTCGGTATCGCACACTT
325 GTTAAATATTTCCGCACACTTAGTGCCATCTCGAATAACCGAGACTAAGTCGGTATCGCACACTT
39204692 AGTGCCTCAAGTAGCTG
390 AGTGCCTCAAGTAGCTG
39204709 GAGCTAGTTA
Statistics
Matches: 387, Mismatches: 18, Indels: 2
0.95 0.04 0.00
Matches are distributed among these distances:
408 3 0.01
409 384 0.99
ACGTcount: A:0.35, C:0.21, G:0.13, T:0.31
Consensus pattern (409 bp):
CTTTAGTAGCTACGAAAACTGTAAAACAAACAATAATCACACAGAGTAAGCTTTCAAAAGCTTAG
CAAGCTCGTACTCAAAAAATTCATAGTATATAAACATAAAATGATAACCTATGAGCATTTGCACA
ATTTCAATCCATATAACTATATCAATTCAATGATTCATATATATAACATCATCTACCACTTAGGC
ATTATACATACCTGAAGCCTTCCGTACTTATTCACTTTTGTACTTACCTCATGATAAATGTTATA
AGACTTTCCATAAGTTATTCGTGTTTTACACATCACCACACTTAGTGATATAAGGATAGCCAAAG
TTAAATATTTCCGCACACTTAGTGCCATCTCGAATAACCGAGACTAAGTCGGTATCGCACACTTA
GTGCCTCAAGTAGCTGAGC
Found at i:39211935 original size:30 final size:29
Alignment explanation
Indices: 39211888--39211955 Score: 118
Period size: 30 Copynumber: 2.3 Consensus size: 29
39211878 GCCTCAAGTA
*
39211888 GCCAAAGCTAGTTAAATCGCACACTTCGT
1 GCCAAAGCTAGTTAAATCGCACACTTAGT
39211917 GCCAAAGCTAGTTTAAATCGCACACTTAGT
1 GCCAAAGCTAG-TTAAATCGCACACTTAGT
39211947 GCCAAAGCT
1 GCCAAAGCT
39211956 TCCGATCCAT
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
29 11 0.30
30 26 0.70
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (29 bp):
GCCAAAGCTAGTTAAATCGCACACTTAGT
Found at i:39218026 original size:18 final size:20
Alignment explanation
Indices: 39217985--39218028 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
39217975 CAGGCTGAGG
39217985 ACACGGGCGTGTCCCGAGCC
1 ACACGGGCGTGTCCCGAGCC
*
39218005 ACACGGGCGTGT-GCGA-CC
1 ACACGGGCGTGTCCCGAGCC
39218023 ACACGG
1 ACACGG
39218029 CCTACTTACA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 8 0.35
19 3 0.13
20 12 0.52
ACGTcount: A:0.18, C:0.36, G:0.36, T:0.09
Consensus pattern (20 bp):
ACACGGGCGTGTCCCGAGCC
Found at i:39219387 original size:41 final size:43
Alignment explanation
Indices: 39219289--39219426 Score: 165
Period size: 43 Copynumber: 3.3 Consensus size: 43
39219279 TGTGATTTCA
* *
39219289 TGTAAGACCATGTCTGGGACATTGACATCGATATGA-GATTATG
1 TGTAAGACCATGTCTAGGACATTGGCATCGATAT-ATGATTATG
*
39219332 TGTAAGACCATGTCTAAGACATTGGCATC-ATATATGATT-TG
1 TGTAAGACCATGTCTAGGACATTGGCATCGATATATGATTATG
* ** * **
39219373 TGTAAGACCCTGTCTAGGACAGAGGCATCGATATATGATAACA
1 TGTAAGACCATGTCTAGGACATTGGCATCGATATATGATTATG
39219416 TGTAAGACCAT
1 TGTAAGACCAT
39219427 ATCTGGGTAT
Statistics
Matches: 81, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
41 28 0.35
42 17 0.21
43 36 0.44
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (43 bp):
TGTAAGACCATGTCTAGGACATTGGCATCGATATATGATTATG
Found at i:39224873 original size:50 final size:49
Alignment explanation
Indices: 39224812--39224995 Score: 226
Period size: 50 Copynumber: 3.7 Consensus size: 49
39224802 TGAATACACG
*
39224812 TGTGTAGTACTAAGTGTAGGCTACTACGTGTATCATATTGTTAAGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCA-ATTGTTAAGTCGCA
* * * *
39224862 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAAATGATGAGGTCACA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAATTG-TTAAGTCGCA
* * * * *
39224912 TGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATTTTTGA-TCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATC-AATTGTTAAGTCGCA
* *
39224961 TGTGTAGTACTAAGTGCAGGCTACTATGCGTATCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCA
39224996 GATAGCTTCG
Statistics
Matches: 113, Mismatches: 19, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
49 37 0.33
50 74 0.65
51 2 0.02
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAATTGTTAAGTCGCA
Found at i:39224984 original size:99 final size:100
Alignment explanation
Indices: 39224812--39224995 Score: 280
Period size: 99 Copynumber: 1.9 Consensus size: 100
39224802 TGAATACACG
* * * *
39224812 TGTGTAGTACTAAGTGTAGGCTACTACGTGTATCATATTGTTAAGTCGCATGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTGTTAAGTCGCATGTGTAGTACTAAGT
*
39224877 GCAGGCTACTACGTGTATCAAATGATGAGGTCACA
66 GCAGGCTACTACGCGTATCAAATGATGAGGTCACA
* * *
39224912 TGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATTTTTGA-TCGCATGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTGTTAAGTCGCATGTGTAGTACTAAGT
*
39224976 GCAGGCTACTATGCGTATCA
66 GCAGGCTACTACGCGTATCA
39224996 GATAGCTTCG
Statistics
Matches: 75, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
99 38 0.51
100 37 0.49
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (100 bp):
TGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTGTTAAGTCGCATGTGTAGTACTAAGT
GCAGGCTACTACGCGTATCAAATGATGAGGTCACA
Found at i:39230160 original size:27 final size:27
Alignment explanation
Indices: 39230125--39230176 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
39230115 CAAAATTCAT
*
39230125 ACTTTAATTA-TAAAATAATTAAATTGC
1 ACTTAAATTATTAAAAT-ATTAAATTGC
*
39230152 ACTTAAATTATTAACATATTAAATT
1 ACTTAAATTATTAAAATATTAAATT
39230177 TTAATTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 17 0.77
28 5 0.23
ACGTcount: A:0.48, C:0.08, G:0.02, T:0.42
Consensus pattern (27 bp):
ACTTAAATTATTAAAATATTAAATTGC
Found at i:39230200 original size:22 final size:22
Alignment explanation
Indices: 39230157--39230200 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
39230147 ATTGCACTTA
*
39230157 AATTATTAACATATTAAATTTT
1 AATTATTAACATAATAAATTTT
* * *
39230179 AATTATTTATATAATAATTTTT
1 AATTATTAACATAATAAATTTT
39230201 CACAAATTTG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (22 bp):
AATTATTAACATAATAAATTTT
Found at i:39231661 original size:14 final size:14
Alignment explanation
Indices: 39231640--39231683 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
39231630 CGTGCATTGG
39231640 AATTTTTATTTTTT
1 AATTTTTATTTTTT
* **
39231654 ACTTTTTATTAGTT
1 AATTTTTATTTTTT
*
39231668 AATTTTTAGTTTTT
1 AATTTTTATTTTTT
39231682 AA
1 AA
39231684 ATTACATCTT
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.25, C:0.02, G:0.05, T:0.68
Consensus pattern (14 bp):
AATTTTTATTTTTT
Found at i:39237109 original size:40 final size:40
Alignment explanation
Indices: 39237051--39237228 Score: 265
Period size: 40 Copynumber: 4.5 Consensus size: 40
39237041 CGAAGGATAA
* *
39237051 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
39237091 CCGGGCTAAG-CCCTGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCC-GAAGGCATTTGTGCGAGTTACTATAT
39237131 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
39237171 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
39237211 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
39237229 TACTTGGTTT
Statistics
Matches: 130, Mismatches: 4, Indels: 9
0.91 0.03 0.06
Matches are distributed among these distances:
39 20 0.15
40 106 0.82
41 4 0.03
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:39244934 original size:40 final size:40
Alignment explanation
Indices: 39244879--39245096 Score: 343
Period size: 40 Copynumber: 5.5 Consensus size: 40
39244869 CGGATGATAA
* *
39244879 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
39244919 CCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
39244959 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
39244999 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
39245039 TCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
39245079 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
39245097 TACTTGGTTT
Statistics
Matches: 168, Mismatches: 8, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
39 17 0.10
40 150 0.89
41 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:39357471 original size:25 final size:25
Alignment explanation
Indices: 39357432--39357501 Score: 72
Period size: 25 Copynumber: 2.8 Consensus size: 25
39357422 TAATGTACAT
*
39357432 GTATGCTCA-TACGAGCTGT-GAATCG
1 GTATGCTCACT-CGAGCTATAG-ATCG
*
39357457 GTATGCTCACTCGAGTTATAGATCG
1 GTATGCTCACTCGAGCTATAGATCG
* *
39357482 GTATGCTCTCACGAGCTATA
1 GTATGCTCACTCGAGCTATA
39357502 AATCAACATG
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
25 36 0.95
26 2 0.05
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.30
Consensus pattern (25 bp):
GTATGCTCACTCGAGCTATAGATCG
Found at i:39358516 original size:49 final size:49
Alignment explanation
Indices: 39358463--39358560 Score: 187
Period size: 49 Copynumber: 2.0 Consensus size: 49
39358453 AAGCTTAATT
39358463 TTTTTTTGTGTATTTTTCATTATTTTCTAAATTACATAATTAGACTTTA
1 TTTTTTTGTGTATTTTTCATTATTTTCTAAATTACATAATTAGACTTTA
*
39358512 TTTTTTTGTGTATTTTTCATTATTTTCTAAATTACATAATTAGCCTTTA
1 TTTTTTTGTGTATTTTTCATTATTTTCTAAATTACATAATTAGACTTTA
39358561 AAACATTATT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.26, C:0.09, G:0.06, T:0.59
Consensus pattern (49 bp):
TTTTTTTGTGTATTTTTCATTATTTTCTAAATTACATAATTAGACTTTA
Found at i:39359908 original size:43 final size:43
Alignment explanation
Indices: 39359819--39359975 Score: 124
Period size: 43 Copynumber: 3.7 Consensus size: 43
39359809 ACCGAGATGT
* * * * *
39359819 GATTACATGTAAGAACAT-TTTGGAACATTGGCAT-TTTATTGT-
1 GATTACATGTAAGACCATGTCTGGGATATTGGCATCGTTA--GTC
* *
39359861 GATTACGTGTAAGACCATGTTTGGGATATTGGCATCGTTAGTC
1 GATTACATGTAAGACCATGTCTGGGATATTGGCATCGTTAGTC
* * * * * *
39359904 GATTACGTGTAAGACCCTGTCTAGGATAGTGACATCGATA-TGC
1 GATTACATGTAAGACCATGTCTGGGATATTGGCATCGTTAGT-C
* *
39359947 GATAACATGTAAGACCATATCTGGGATAT
1 GATTACATGTAAGACCATGTCTGGGATAT
39359976 GGTATTGTAA
Statistics
Matches: 94, Mismatches: 17, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
42 19 0.20
43 72 0.77
44 3 0.03
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.33
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTCTGGGATATTGGCATCGTTAGTC
Found at i:39362783 original size:16 final size:16
Alignment explanation
Indices: 39362762--39362798 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
39362752 CCAGCAAATC
*
39362762 CCGAAATGCCGGAAAG
1 CCGAAATGCCGAAAAG
*
39362778 CCGAAATGCTGAAAAG
1 CCGAAATGCCGAAAAG
39362794 CCGAA
1 CCGAA
39362799 TGTTTAACTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.41, C:0.24, G:0.27, T:0.08
Consensus pattern (16 bp):
CCGAAATGCCGAAAAG
Found at i:39363067 original size:28 final size:28
Alignment explanation
Indices: 39363021--39363086 Score: 89
Period size: 28 Copynumber: 2.4 Consensus size: 28
39363011 TATGAATGTC
39363021 ATTGGGCCTGACGTGCCATACGAAAGTG
1 ATTGGGCCTGACGTGCCATACGAAAGTG
* * *
39363049 ATTGGGCCTGATG-GACCATATGAATGTG
1 ATTGGGCCTGACGTG-CCATACGAAAGTG
39363077 ATTGGGCCTG
1 ATTGGGCCTG
39363087 TGACAGCCCA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
27 1 0.03
28 33 0.97
ACGTcount: A:0.23, C:0.18, G:0.33, T:0.26
Consensus pattern (28 bp):
ATTGGGCCTGACGTGCCATACGAAAGTG
Found at i:39364708 original size:28 final size:28
Alignment explanation
Indices: 39364643--39364793 Score: 214
Period size: 28 Copynumber: 5.4 Consensus size: 28
39364633 GAGATTGGCG
* * * *
39364643 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
39364672 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
39364700 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
39364728 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
39364756 CTAAGTGTGCAAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
39364783 CTGAGTGTGCG
1 CTAAGTGTGCG
39364794 GACTTAATAT
Statistics
Matches: 113, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 23 0.20
28 75 0.66
29 15 0.13
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.34
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:39367639 original size:17 final size:18
Alignment explanation
Indices: 39367606--39367639 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
39367596 TTCAAAGAAG
39367606 GGTTTTCAATGAAAACAA
1 GGTTTTCAATGAAAACAA
*
39367624 GGTTTTCGAT-AAAACA
1 GGTTTTCAATGAAAACA
39367640 CTTCAATGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (18 bp):
GGTTTTCAATGAAAACAA
Found at i:39372729 original size:28 final size:28
Alignment explanation
Indices: 39372695--39372794 Score: 128
Period size: 28 Copynumber: 3.6 Consensus size: 28
39372685 GCCCTTTAGA
* *
39372695 CCCAATCTCATTCATATGGCCCATCGGG
1 CCCAATCACATTCATATGGCCCATCAGG
* *
39372723 CCTAATCACATTCAAATGGCCCATCAGG
1 CCCAATCACATTCATATGGCCCATCAGG
* * * *
39372751 CCCAATCACTTTCATATGGCTCGTCTGG
1 CCCAATCACATTCATATGGCCCATCAGG
39372779 CCCAATCACATTCATA
1 CCCAATCACATTCATA
39372795 GTATGCAATC
Statistics
Matches: 61, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 61 1.00
ACGTcount: A:0.26, C:0.34, G:0.14, T:0.26
Consensus pattern (28 bp):
CCCAATCACATTCATATGGCCCATCAGG
Found at i:39374975 original size:16 final size:16
Alignment explanation
Indices: 39374957--39375012 Score: 78
Period size: 16 Copynumber: 3.5 Consensus size: 16
39374947 GGCAAATCCT
39374957 GAAAAGCCGAAATGAT-
1 GAAAAGCCGAAATG-TC
*
39374973 GAAAAGCCAAAATGTC
1 GAAAAGCCGAAATGTC
*
39374989 GAAAAGCTGAAATGTC
1 GAAAAGCCGAAATGTC
39375005 GAAAAGCC
1 GAAAAGCC
39375013 AAAAGTTTGC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
15 1 0.03
16 34 0.97
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.12
Consensus pattern (16 bp):
GAAAAGCCGAAATGTC
Found at i:39375330 original size:28 final size:29
Alignment explanation
Indices: 39375236--39375345 Score: 102
Period size: 28 Copynumber: 3.9 Consensus size: 29
39375226 GACTGTAAAT
* *
39375236 GAGATTTGGGCCTAGT-GGCCATATGAAT
1 GAGATTTGGGCCTAATGGGCCATATGAAA
* *
39375264 GTGATTTTGGGCCTAATGGGCCACAT-AAA
1 GAGA-TTTGGGCCTAATGGGCCATATGAAA
* * *
39375293 TGTGA-ATGGGCCTAATAGGCCATATGAAA
1 -GAGATTTGGGCCTAATGGGCCATATGAAA
*
39375322 GAGA-TTGGGCCTAGTGGGCCATAT
1 GAGATTTGGGCCTAATGGGCCATAT
39375346 ATATATAGGT
Statistics
Matches: 67, Mismatches: 11, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
28 40 0.60
29 16 0.24
30 11 0.16
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.26
Consensus pattern (29 bp):
GAGATTTGGGCCTAATGGGCCATATGAAA
Found at i:39377156 original size:40 final size:40
Alignment explanation
Indices: 39377078--39377254 Score: 216
Period size: 40 Copynumber: 4.4 Consensus size: 40
39377068 ACCCAAGTAT
* *
39377078 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
39377117 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
39377157 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
39377197 CTTCGGGACTTATCCCGGGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
*
39377240 CTTCGTGACTTAGCC
1 CTTCGGGACTTAGCC
39377255 TAACATTCAA
Statistics
Matches: 120, Mismatches: 12, Indels: 8
0.86 0.09 0.06
Matches are distributed among these distances:
39 12 0.10
40 84 0.70
41 1 0.01
43 23 0.19
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:39384339 original size:40 final size:40
Alignment explanation
Indices: 39384265--39384437 Score: 226
Period size: 40 Copynumber: 4.3 Consensus size: 40
39384255 AAGTATCTTT
* *
39384265 GGGATTTAG-CCGGATATAG-CAACTCGCACAAATGCCTTC
1 GGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTC
* **
39384304 GGGTCTTAGCCCGGATATAGTCACTAGCATGAATGCCTTC
1 GGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTC
39384344 GGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTC
1 GGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTC
*
39384384 GGGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATGCCTTC
1 GGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGCCTTC
39384427 GGGACTTAGCC
1 GGGACTTAGCC
39384438 TAACTTTCAA
Statistics
Matches: 119, Mismatches: 9, Indels: 8
0.88 0.07 0.06
Matches are distributed among these distances:
39 8 0.07
40 85 0.71
41 1 0.01
43 25 0.21
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.23
Consensus pattern (40 bp):
GGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTC
Found at i:39401476 original size:14 final size:13
Alignment explanation
Indices: 39401453--39401482 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
39401443 GGGATATCAA
39401453 AACAATAATTAAG
1 AACAATAATTAAG
39401466 AACACATAATTAAG
1 AACA-ATAATTAAG
39401480 AAC
1 AAC
39401483 TAGTTAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.60, C:0.13, G:0.07, T:0.20
Consensus pattern (13 bp):
AACAATAATTAAG
Found at i:39410551 original size:17 final size:18
Alignment explanation
Indices: 39410529--39410562 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
39410519 TTTTGGGCTT
39410529 TGTGGGC-CACATGGGCG
1 TGTGGGCTCACATGGGCG
39410546 TGTGGGCTCACATGGGC
1 TGTGGGCTCACATGGGC
39410563 CCCATTTTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.12, C:0.24, G:0.44, T:0.21
Consensus pattern (18 bp):
TGTGGGCTCACATGGGCG
Found at i:39411044 original size:39 final size:39
Alignment explanation
Indices: 39410970--39411045 Score: 109
Period size: 39 Copynumber: 1.9 Consensus size: 39
39410960 CTGTAATGTT
*
39410970 ACTGATACTGTAATGGGCTAAGGCCCTAACTGAAATTTA
1 ACTGATACTGTAATGGGCTAAGGCCCTAACAGAAATTTA
* *
39411009 ACTGTTACTGTAATGGGCTTAGGCCC-AGACAGAAATT
1 ACTGATACTGTAATGGGCTAAGGCCCTA-ACAGAAATT
39411046 ACCTACTGTA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
38 1 0.03
39 32 0.97
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (39 bp):
ACTGATACTGTAATGGGCTAAGGCCCTAACAGAAATTTA
Found at i:39414825 original size:40 final size:40
Alignment explanation
Indices: 39414669--39414817 Score: 210
Period size: 40 Copynumber: 3.7 Consensus size: 40
39414659 CTAACGGGGT
** * *
39414669 TAAGTCCCGAAGATATTTGTGCTAGTGATTAATTCTGGGC
1 TAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGC
* *
39414709 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGC
* *
39414749 TAAGCCCCGAAGGCATTTGTGCTAGTTACT-ATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCTAGTGACTAAT-TCCGGGC
39414789 TAAGTCCCGAAGGCATTTGTGCTAGTGAC
1 TAAGTCCCGAAGGCATTTGTGCTAGTGAC
39414818 CATATCCGCA
Statistics
Matches: 98, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
39 2 0.02
40 96 0.98
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGC
Found at i:39414832 original size:40 final size:40
Alignment explanation
Indices: 39414669--39414842 Score: 208
Period size: 40 Copynumber: 4.3 Consensus size: 40
39414659 CTAACGGGGT
** * * *
39414669 TAAGTCCCGAAGATATTTGTGCTAGTGATTA-ATTCTGGGC
1 TAAGTCCCGAAGGCATTTGTGCTAGTTACTATA-TCCGGGC
*
39414709 TAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCTAGTTACTATA-TCCGGGC
*
39414749 TAAGCCCCGAAGGCATTTGTGCTAGTTACTATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCTAGTTACTATATCCGGGC
* * **
39414789 TAAGTCCCGAAGGCATTTGTGCTAGTGACCATATCCGCAC
1 TAAGTCCCGAAGGCATTTGTGCTAGTTACTATATCCGGGC
*
39414829 TAAGACCCGAAGGC
1 TAAGTCCCGAAGGC
39414843 CTTGTGCAGT
Statistics
Matches: 119, Mismatches: 14, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
40 118 0.99
41 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.27
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCTAGTTACTATATCCGGGC
Found at i:39422800 original size:80 final size:80
Alignment explanation
Indices: 39422667--39422875 Score: 255
Period size: 80 Copynumber: 2.6 Consensus size: 80
39422657 GTCCCAAAGA
* * * * *
39422667 CATTTGTGCTAGTGATTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATTCTG
1 CATTTGTGCGAGTGACTAATTCCGAGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATA-TCCG
39422731 GGATAAGCCCCGAAGG
65 GGATAAGCCCCGAAGG
*
39422747 CATTTGTGCGAGTTACTAATTCCGAGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
1 CATTTGTGCGAGTGACTAATTCCGAGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
* *
39422812 GCTAAGTCCCGAAGG
66 GATAAGCCCCGAAGG
* * * *
39422827 CATTTGTGCTAGTGAC-CATATCCGCA-CTAAGACCCGAAGGC-CTTGTGCG
1 CATTTGTGCGAGTGACTAAT-TCCG-AGCTAAGCCCCGAAGGCATTTGTGCG
39422876 GGTGGTTATA
Statistics
Matches: 113, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
79 9 0.08
80 102 0.90
81 2 0.02
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.27
Consensus pattern (80 bp):
CATTTGTGCGAGTGACTAATTCCGAGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
GATAAGCCCCGAAGG
Found at i:39422850 original size:40 final size:40
Alignment explanation
Indices: 39422654--39422835 Score: 258
Period size: 40 Copynumber: 4.5 Consensus size: 40
39422644 CTAACGGGGT
* * * * *
39422654 TAAGTCCCAAAGACATTTGTGCTAGTGATTAATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
* *
39422694 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCTGGGA
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
* *
39422734 TAAGCCCCGAAGGCATTTGTGCGAGTTACTAATTCCGAGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
*
39422774 TAAGCCCCGAAGGCATTTGTGCGAGTTACT-ATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCCGGGC
39422814 TAAGTCCCGAAGGCATTTGTGC
1 TAAGTCCCGAAGGCATTTGTGC
39422836 TAGTGACCAT
Statistics
Matches: 128, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
39 2 0.02
40 126 0.98
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
Found at i:39422857 original size:40 final size:40
Alignment explanation
Indices: 39422654--39422875 Score: 229
Period size: 40 Copynumber: 5.6 Consensus size: 40
39422644 CTAACGGGGT
* * * * * *
39422654 TAAGTCCCAAAGACATTTGTGCTAGTGATTAATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGAC
*
39422694 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCTGGGA-
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTC-CGGAC
*
39422734 TAAGCCCCGAAGGCATTTGTGCGAGTTACTAATTCC-GAGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGA-C
* *
39422774 TAAGCCCCGAAGGCATTTGTGCGAGTTACT-ATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCCGGAC
* * * *
39422814 TAAGTCCCGAAGGCATTTGTGCTAGTGAC-CATATCCGCAC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCCGGAC
* *
39422854 TAAGACCCGAAGGC-CTTGTGCG
1 TAAGTCCCGAAGGCATTTGTGCG
39422876 GGTGGTTATA
Statistics
Matches: 158, Mismatches: 18, Indels: 13
0.84 0.10 0.07
Matches are distributed among these distances:
38 2 0.01
39 8 0.05
40 145 0.92
41 3 0.02
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGAC
Found at i:39430331 original size:47 final size:48
Alignment explanation
Indices: 39430234--39430363 Score: 156
Period size: 47 Copynumber: 2.8 Consensus size: 48
39430224 GTGCAAATAA
* ** * *
39430234 TACCTTGATTTGGCTACGGGCCATGATATAGGTA-TTTTGAGAGGATT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCTGAGAGAAGT
* *
39430281 TACCTTGATTTGGCTACGGGCCTTGGTATAGGTACTCCTG-GATAAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCTGAGAGAAGT
** *
39430328 TACCTTGATTTGATTACGGACCATGGTATAGGTACT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACT
39430364 TATCGATTGT
Statistics
Matches: 71, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
47 68 0.96
48 3 0.04
ACGTcount: A:0.22, C:0.16, G:0.26, T:0.35
Consensus pattern (48 bp):
TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCTGAGAGAAGT
Found at i:39433463 original size:29 final size:29
Alignment explanation
Indices: 39433421--39433620 Score: 129
Period size: 29 Copynumber: 6.7 Consensus size: 29
39433411 TGATTGACCA
* * *
39433421 ATGAAAAGAGATAGTTCCAGCTATCGATT
1 ATGAAAAGGGATAGTTACAGCCATCGATT
* *
39433450 ATGAAAAGGGATAGTGAC-GACCATCGACT
1 ATGAAAAGGGATAGTTACAG-CCATCGATT
* * *
39433479 ATGAAAATGGGGGATGGTGACAACCATCGAATT
1 ATGAAAA---GGGATAGTTACAGCCATCG-ATT
* * *
39433512 ATGAAAGGGGATAGCTT-CAGCTATTGATT
1 ATGAAAAGGGATAG-TTACAGCCATCGATT
* *
39433541 ATGAAAAGGGATGGTAAC-GACCATCGAATT
1 ATGAAAAGGGATAGTTACAG-CCATCG-ATT
* * *
39433571 ATGAAAAAGGATAGCTT-CGGCTATCGATT
1 ATGAAAAGGGATAG-TTACAGCCATCGATT
* *
39433600 ATGAAAAGGGATTGTAACAGC
1 ATGAAAAGGGATAGTTACAGC
39433621 TTGATTTTAG
Statistics
Matches: 131, Mismatches: 27, Indels: 26
0.71 0.15 0.14
Matches are distributed among these distances:
28 4 0.03
29 67 0.51
30 33 0.25
31 3 0.02
32 16 0.12
33 8 0.06
ACGTcount: A:0.37, C:0.13, G:0.27, T:0.23
Consensus pattern (29 bp):
ATGAAAAGGGATAGTTACAGCCATCGATT
Found at i:39433575 original size:59 final size:59
Alignment explanation
Indices: 39433489--39433618 Score: 197
Period size: 59 Copynumber: 2.2 Consensus size: 59
39433479 ATGAAAATGG
* ** *
39433489 GGGATGGTGACAACCATCGAATTATGAAAGGGGATAGCTTCAGCTATTGATTATGAAAA
1 GGGATGGTAACAACCATCGAATTATGAAAAAGGATAGCTTCAGCTATCGATTATGAAAA
* *
39433548 GGGATGGTAACGACCATCGAATTATGAAAAAGGATAGCTTCGGCTATCGATTATGAAAA
1 GGGATGGTAACAACCATCGAATTATGAAAAAGGATAGCTTCAGCTATCGATTATGAAAA
*
39433607 GGGATTGTAACA
1 GGGATGGTAACA
39433619 GCTTGATTTT
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
59 63 1.00
ACGTcount: A:0.36, C:0.12, G:0.27, T:0.25
Consensus pattern (59 bp):
GGGATGGTAACAACCATCGAATTATGAAAAAGGATAGCTTCAGCTATCGATTATGAAAA
Found at i:39442395 original size:43 final size:43
Alignment explanation
Indices: 39442302--39442449 Score: 142
Period size: 43 Copynumber: 3.4 Consensus size: 43
39442292 GGTTACCGAA
*
39442302 ATGTGATTACATGTAAGACCATGTCTGAGACATTGGCAT--TGT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCAT-T
* *
39442344 ATTGTGATTACGTGTAAGACCATGTCTGGGATATTGGCATCATT
1 A-TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCATT
* * * * * *
39442388 ATATGATTTCGTATAAGATCC-TGTCTAGGACAGTGGCATCGA-T
1 ATGTGATTACATGTAAGA-CCATGTCTGGGACATTGGCATC-ATT
*
39442431 ATGTGATAACATGTAAGAC
1 ATGTGATTACATGTAAGAC
39442450 AATATTTGGG
Statistics
Matches: 87, Mismatches: 14, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
42 2 0.02
43 79 0.91
44 5 0.06
45 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.33
Consensus pattern (43 bp):
ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCATT
Found at i:39443356 original size:30 final size:30
Alignment explanation
Indices: 39443320--39443385 Score: 114
Period size: 30 Copynumber: 2.2 Consensus size: 30
39443310 TGGCTCAACT
39443320 GTGTGTGACACATGGCCTTGGTACACGGCC
1 GTGTGTGACACATGGCCTTGGTACACGGCC
* *
39443350 GTGTGTGACACGTGGCCTTGGTACATGGCC
1 GTGTGTGACACATGGCCTTGGTACACGGCC
39443380 GTGTGT
1 GTGTGT
39443386 CCCCTAGGGT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.14, C:0.23, G:0.36, T:0.27
Consensus pattern (30 bp):
GTGTGTGACACATGGCCTTGGTACACGGCC
Found at i:39443604 original size:12 final size:12
Alignment explanation
Indices: 39443587--39443617 Score: 55
Period size: 11 Copynumber: 2.7 Consensus size: 12
39443577 TCGACATTGA
39443587 AATATTTATTTT
1 AATATTTATTTT
39443599 AATA-TTATTTT
1 AATATTTATTTT
39443610 AATATTTA
1 AATATTTA
39443618 CAGGATGATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 11 0.61
12 7 0.39
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (12 bp):
AATATTTATTTT
Found at i:39445088 original size:34 final size:34
Alignment explanation
Indices: 39445043--39445125 Score: 100
Period size: 34 Copynumber: 2.5 Consensus size: 34
39445033 CGTTTCAATG
*
39445043 ACAGT-TC-GTATTAGT-TAGGGCCATAGCCCATT
1 ACAGTATCAGTATTAGTGT-GGACCATAGCCCATT
*
39445075 ACAGTATCAGTATTAGTGTGGACCTTAGCCCATT
1 ACAGTATCAGTATTAGTGTGGACCATAGCCCATT
* *
39445109 ACAGTAACAGTAATAGT
1 ACAGTATCAGTATTAGT
39445126 AATACAATCA
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
32 5 0.11
33 2 0.05
34 36 0.82
35 1 0.02
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.30
Consensus pattern (34 bp):
ACAGTATCAGTATTAGTGTGGACCATAGCCCATT
Found at i:39469082 original size:39 final size:40
Alignment explanation
Indices: 39469035--39469258 Score: 224
Period size: 40 Copynumber: 5.7 Consensus size: 40
39469025 GCTCCTCGTT
* * * *
39469035 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
39469075 C-AATGCCTTC-GGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
39469113 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
39469153 CAAAGGCCTTCGGGGCTTAACCCGGAACTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
39469193 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
39469234 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
39469259 CAGCATTCAA
Statistics
Matches: 155, Mismatches: 22, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
38 24 0.15
39 22 0.14
40 95 0.61
41 14 0.09
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:39469267 original size:41 final size:41
Alignment explanation
Indices: 39469190--39469267 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
39469180 CTTGTATCTC
* * *
39469190 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
39469231 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
39469268 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:39476949 original size:39 final size:40
Alignment explanation
Indices: 39476904--39477128 Score: 242
Period size: 40 Copynumber: 5.7 Consensus size: 40
39476894 GCTCCTCGTT
* * * *
39476904 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
39476944 C-AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
39476983 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
39477023 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
39477063 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
39477104 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
39477129 CAGCATTCAA
Statistics
Matches: 159, Mismatches: 20, Indels: 12
0.83 0.10 0.06
Matches are distributed among these distances:
39 39 0.25
40 105 0.66
41 15 0.09
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:39477137 original size:41 final size:41
Alignment explanation
Indices: 39477060--39477137 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
39477050 TTTGTATCTC
* * *
39477060 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
39477101 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
39477138 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:39481613 original size:20 final size:21
Alignment explanation
Indices: 39481584--39481628 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
39481574 TTCAAACTCG
* *
39481584 TTTTATTTTTATTTTTATTT-
1 TTTTACTTTTATTTCTATTTA
39481604 TTTTACTTTTATTTCTATTTA
1 TTTTACTTTTATTTCTATTTA
39481625 TTTT
1 TTTT
39481629 TAAAGACTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 18 0.82
21 4 0.18
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.80
Consensus pattern (21 bp):
TTTTACTTTTATTTCTATTTA
Found at i:39483474 original size:13 final size:13
Alignment explanation
Indices: 39483456--39483482 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
39483446 GAAGCACTCA
39483456 CACACGGGCGTGT
1 CACACGGGCGTGT
39483469 CACACGGGCGTGT
1 CACACGGGCGTGT
39483482 C
1 C
39483483 CCTGTCGGGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:39487427 original size:14 final size:14
Alignment explanation
Indices: 39487408--39487437 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
39487398 TAACACTTAA
39487408 TTAAATGCCCATAT
1 TTAAATGCCCATAT
39487422 TTAAATGCCCATAT
1 TTAAATGCCCATAT
39487436 TT
1 TT
39487438 TTCCACTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.33, C:0.20, G:0.07, T:0.40
Consensus pattern (14 bp):
TTAAATGCCCATAT
Found at i:39491763 original size:42 final size:41
Alignment explanation
Indices: 39491704--39491857 Score: 202
Period size: 42 Copynumber: 3.7 Consensus size: 41
39491694 TAAGTTTATA
39491704 TGTAAGACCATATCTGGGATATGGCATCAGTATGAGACTTCG
1 TGTAAGACCATATCTGGGATATGGCATCAGTATGAGA-TTCG
* *
39491746 TGTAAAACCATATCTGGGATATGGCATCAATATGAGATTTCG
1 TGTAAGACCATATCTGGGATATGGCATCAGTATGAGA-TTCG
* * *
39491788 TGTAAGACCATAGCTGGGCTATTGGCATC-GATATGAGATTACA
1 TGTAAGACCATATCTGGGATA-TGGCATCAG-TATGAGATT-CG
*
39491831 TGTAAGACCATATATGGGATATGGCAT
1 TGTAAGACCATATCTGGGATATGGCAT
39491858 TGGTATGATA
Statistics
Matches: 98, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
42 65 0.66
43 33 0.34
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (41 bp):
TGTAAGACCATATCTGGGATATGGCATCAGTATGAGATTCG
Done.