Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 29 of 213
Found at i:7821486 original size:5 final size:5
Alignment explanation
Indices: 7821472--7821500 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
7821462 ACATAAGTGC
7821472 TTTA- TTTAT TTTAT TTTAT TTTAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT
7821501 ATTGTTTCAC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.17
5 20 0.83
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTAT
Found at i:7826022 original size:41 final size:39
Alignment explanation
Indices: 7825972--7826068 Score: 113
Period size: 41 Copynumber: 2.4 Consensus size: 39
7825962 AAAACAAGGG
*
7825972 AAAAGGAAAAGAAAAACAAAATCAAAATCAAAAATAAAAAT
1 AAAAAGAAAAGAAAAAC-AAATCAAAATC-AAAATAAAAAT
* * *
7826013 AAAAAGAAAAGAGAAACCAATCAAAGTCAAAATAAAAAT
1 AAAAAGAAAAGAAAAACAAATCAAAATCAAAATAAAAAT
*
7826052 ATGAAAAGTAAAGAAAA
1 A--AAAAGAAAAGAAAA
7826069 GAAAAGAAGA
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
39 12 0.25
40 9 0.19
41 27 0.56
ACGTcount: A:0.72, C:0.07, G:0.10, T:0.10
Consensus pattern (39 bp):
AAAAAGAAAAGAAAAACAAATCAAAATCAAAATAAAAAT
Found at i:7827745 original size:43 final size:43
Alignment explanation
Indices: 7827697--7827827 Score: 110
Period size: 43 Copynumber: 3.1 Consensus size: 43
7827687 ACAAAGCCTC
7827697 GCCTTCATTGGTTGCAGTGGAGCTGGTTAAAGAAGCAGATCTT
1 GCCTTCATTGGTTGCAGTGGAGCTGGTTAAAGAAGCAGATCTT
* ** * * * ** *
7827740 GCCTTCCA--GCGTTAACAACGAAGCAGATCGAA-AA-CA-AGCCTT
1 GCCTT-CATTG-GTT-GCAGTGGAGCTGGTTAAAGAAGCAGA-TCTT
7827782 GCCTTCATTGGTTGCAGTGGAGCTGGTTAAAGAAGCAGATCTT
1 GCCTTCATTGGTTGCAGTGGAGCTGGTTAAAGAAGCAGATCTT
7827825 GCC
1 GCC
7827828 CTCCTGCATT
Statistics
Matches: 61, Mismatches: 18, Indels: 18
0.63 0.19 0.19
Matches are distributed among these distances:
41 13 0.21
42 16 0.26
43 19 0.31
44 13 0.21
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (43 bp):
GCCTTCATTGGTTGCAGTGGAGCTGGTTAAAGAAGCAGATCTT
Found at i:7827990 original size:43 final size:43
Alignment explanation
Indices: 7827941--7828076 Score: 116
Period size: 44 Copynumber: 3.1 Consensus size: 43
7827931 GAAGCAGATC
7827941 GAAGACACAAACCTTGCCTCTCTCGGTTGTGGTGGAGCTGGTT
1 GAAGACACAAACCTTGCCTCTCTCGGTTGTGGTGGAGCTGGTT
* * * * * * *
7827984 GAAGACAACAGATCTTGCCT-TC-CTGTAT-TGACAGCGAAGCAGGTC
1 GAAGAC-ACAAACCTTGCCTCTCTCGGT-TGTG---GTGGAGCTGGTT
* * *
7828029 GAAAACACAAACCTTGCCTCTCTCGGTTGTAGTGGAGCTAGTT
1 GAAGACACAAACCTTGCCTCTCTCGGTTGTGGTGGAGCTGGTT
7828072 GAAGA
1 GAAGA
7828077 TAGTGGATCT
Statistics
Matches: 67, Mismatches: 18, Indels: 16
0.66 0.18 0.16
Matches are distributed among these distances:
42 5 0.07
43 20 0.30
44 22 0.33
45 16 0.24
46 4 0.06
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (43 bp):
GAAGACACAAACCTTGCCTCTCTCGGTTGTGGTGGAGCTGGTT
Found at i:7828097 original size:88 final size:88
Alignment explanation
Indices: 7827680--7828119 Score: 502
Period size: 88 Copynumber: 5.1 Consensus size: 88
7827670 ATCAGTGAAC
* *
7827680 ATCGAAAACA-AAGCCTCGCCT-TCATTGGTTGCAGTGGAGCTGGTTAAAGAAGCAGATCTTGCC
1 ATCGAAAACACAAACCTTGCCTCTCATTGGTTGCAGTGGAGCTGGTTAAAGAAGCAGATCTTGCC
* * *
7827743 TTCCAGCGTTAACAACGAAGCAG
66 TTCCTGCATTAACAGCGAAGCAG
*
7827766 ATCG-AAA-ACAAGCCTTGCCT-TCATTGGTTGCAGTGGAGCTGGTTAAAGAAGCAGATCTTGCC
1 ATCGAAAACACAAACCTTGCCTCTCATTGGTTGCAGTGGAGCTGGTTAAAGAAGCAGATCTTGCC
* *
7827828 CTCCTGCATTAATAGCGAAGCAG
66 TTCCTGCATTAACAGCGAAGCAG
* * *
7827851 ATCGAAAATA-AAACCTTGCCTC-CATTGGTTGCAATGGAGCTGTTTAAAGATAGCAGATCTTGC
1 ATCGAAAACACAAACCTTGCCTCTCATTGGTTGCAGTGGAGCTGGTTAAAGA-AGCAGATCTTGC
*
7827914 CTTCCTGCATTAACAACGAAGCAG
65 CTTCCTGCATTAACAGCGAAGCAG
* * ** * *
7827938 ATCGAAGACACAAACCTTGCCTCTC-TCGGTTGTGGTGGAGCTGGTTGAAGACAACAGATCTTGC
1 ATCGAAAACACAAACCTTGCCTCTCATTGGTTGCAGTGGAGCTGGTTAAAGA-AGCAGATCTTGC
* *
7828002 CTTCCTGTATTGACAGCGAAGCAG
65 CTTCCTGCATTAACAGCGAAGCAG
* * * * * **
7828026 GTCGAAAACACAAACCTTGCCTCTC-TCGGTTGTAGTGGAGCTAGTTGAAGATAGTGGATCTTGC
1 ATCGAAAACACAAACCTTGCCTCTCATTGGTTGCAGTGGAGCTGGTTAAAGA-AGCAGATCTTGC
* * * * *
7828090 CTTCCTGTACTGACGGTGAAGCAG
65 CTTCCTGCATTAACAGCGAAGCAG
7828114 ATCGAA
1 ATCGAA
7828120 GAAACCAGAT
Statistics
Matches: 310, Mismatches: 37, Indels: 12
0.86 0.10 0.03
Matches are distributed among these distances:
84 1 0.00
85 77 0.25
86 43 0.14
87 42 0.14
88 146 0.47
89 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.25
Consensus pattern (88 bp):
ATCGAAAACACAAACCTTGCCTCTCATTGGTTGCAGTGGAGCTGGTTAAAGAAGCAGATCTTGCC
TTCCTGCATTAACAGCGAAGCAG
Found at i:7830164 original size:5 final size:5
Alignment explanation
Indices: 7830150--7830178 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
7830140 ACATAAGTGC
7830150 TTTA- TTTAT TTTAT TTTAT TTTAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT
7830179 ATTGTTTCAC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.17
5 20 0.83
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTAT
Found at i:7832911 original size:27 final size:27
Alignment explanation
Indices: 7832873--7832971 Score: 96
Period size: 27 Copynumber: 3.6 Consensus size: 27
7832863 AAATCTTTCT
7832873 AACTATGGACAAGAAACCGATTCACAA
1 AACTATGGACAAGAAACCGATTCACAA
* * *
7832900 AACTATGGACAAGAAACCAATAACATAAA
1 AACTATGGACAAGAAACCGAT-TCA-CAA
*
7832929 GGAACTA---ACCCAGAAACCGATTCACAA
1 --AACTATGGA-CAAGAAACCGATTCACAA
7832956 AACTATGGACAAGAAA
1 AACTATGGACAAGAAA
7832972 ATATACCTTT
Statistics
Matches: 56, Mismatches: 8, Indels: 16
0.70 0.10 0.20
Matches are distributed among these distances:
25 5 0.09
27 28 0.50
28 6 0.11
29 12 0.21
31 5 0.09
ACGTcount: A:0.52, C:0.21, G:0.14, T:0.13
Consensus pattern (27 bp):
AACTATGGACAAGAAACCGATTCACAA
Found at i:7833403 original size:14 final size:14
Alignment explanation
Indices: 7833381--7833411 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
7833371 CATTGGAAAA
*
7833381 TCCGTAAAATATTT
1 TCCGGAAAATATTT
7833395 TCCGGAAAATATTT
1 TCCGGAAAATATTT
7833409 TCC
1 TCC
7833412 ACCAATCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.19, G:0.10, T:0.39
Consensus pattern (14 bp):
TCCGGAAAATATTT
Found at i:7834402 original size:20 final size:20
Alignment explanation
Indices: 7834377--7834424 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
7834367 AACTACAATC
*
7834377 AAAGAAA-ACAAATAATAAAG
1 AAAGAAAGA-AAATAAAAAAG
7834397 AAAGAAAGAAAATAAAAAAG
1 AAAGAAAGAAAATAAAAAAG
*
7834417 GAAGAAAG
1 AAAGAAAG
7834425 TCTCTTACTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 24 0.96
21 1 0.04
ACGTcount: A:0.75, C:0.02, G:0.17, T:0.06
Consensus pattern (20 bp):
AAAGAAAGAAAATAAAAAAG
Found at i:7837188 original size:6 final size:6
Alignment explanation
Indices: 7837177--7837274 Score: 196
Period size: 6 Copynumber: 16.3 Consensus size: 6
7837167 TTAAGTCCTT
7837177 TACAGA TACAGA TACAGA TACAGA TACAGA TACAGA TACAGA TACAGA
1 TACAGA TACAGA TACAGA TACAGA TACAGA TACAGA TACAGA TACAGA
7837225 TACAGA TACAGA TACAGA TACAGA TACAGA TACAGA TACAGA TACAGA
1 TACAGA TACAGA TACAGA TACAGA TACAGA TACAGA TACAGA TACAGA
7837273 TA
1 TA
7837275 TGCAGAACAA
Statistics
Matches: 92, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 92 1.00
ACGTcount: A:0.50, C:0.16, G:0.16, T:0.17
Consensus pattern (6 bp):
TACAGA
Found at i:7838527 original size:242 final size:240
Alignment explanation
Indices: 7838104--7838552 Score: 713
Period size: 242 Copynumber: 1.9 Consensus size: 240
7838094 CCCGAACGAT
* * ** * *
7838104 TCCGACTATGATTTCGCGAGAGGAGAGTCCTGTTCTTCACAATTTGCTGTTGTCAAAAACCCAAA
1 TCCGACTACGATTCCGCGAGAGGAGAGTCCCATTCTTCACAATTTGATGCTGTCAAAAACCCAAA
*
7838169 AGAAATCAACTAACGAAACAGACAACAACACTAAAAACAGCATTAAAAGAAACTTCCCTAACTCA
66 AAAAATCAACTAACGAAACAGACAACAACACTAAAAACAGCATTAAAAGAAACTTCCCTAACTCA
* *
7838234 CAAAGGCCTACTACTGCCACTTACCAAAACATACGAAAGCAGGGAACCAAAAAATCGAGGTTGAG
131 CAAAGCCCTACTACCGCCACTTACCAAAACATACGAAAGCAGGGAACCAAAAAATCGAGGTTGAG
*
7838299 TGACAGGATTTCGATAGGATTTTAGAAGCAAGGAAAAAGAATGGA
196 TGAAAGGATTTCGATAGGATTTTAGAAGCAAGGAAAAAGAATGGA
7838344 TCCGACTACGATTCCGCGAGAGGAGAGTCCCATTCTTCACAATTTGATGCTGTCAAAAACCCAAA
1 TCCGACTACGATTCCGCGAGAGGAGAGTCCCATTCTTCACAATTTGATGCTGTCAAAAACCC--A
*
7838409 AAAAAAATCAACTAACGAAACAGACAACAACACTAAAAAC-GATATTAAAAGAAAC-TCCTCTAA
64 AAAAAAATCAACTAACGAAACAGACAACAACACTAAAAACAG-CATTAAAAGAAACTTCC-CTAA
* * *
7838472 CTCGCAAATCCCTACTACCGCCACTTACCAAAACGTACGAAAGCAGGGAACCAAAAAATCGAGGT
127 CTCACAAAGCCCTACTACCGCCACTTACCAAAACATACGAAAGCAGGGAACCAAAAAATCGAGGT
*
7838537 TGATTGAAAGGATTTC
192 TGAGTGAAAGGATTTC
7838553 AGAAGCAAGG
Statistics
Matches: 190, Mismatches: 15, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
240 56 0.29
241 4 0.02
242 130 0.68
ACGTcount: A:0.41, C:0.23, G:0.17, T:0.19
Consensus pattern (240 bp):
TCCGACTACGATTCCGCGAGAGGAGAGTCCCATTCTTCACAATTTGATGCTGTCAAAAACCCAAA
AAAAATCAACTAACGAAACAGACAACAACACTAAAAACAGCATTAAAAGAAACTTCCCTAACTCA
CAAAGCCCTACTACCGCCACTTACCAAAACATACGAAAGCAGGGAACCAAAAAATCGAGGTTGAG
TGAAAGGATTTCGATAGGATTTTAGAAGCAAGGAAAAAGAATGGA
Found at i:7846818 original size:6 final size:6
Alignment explanation
Indices: 7846807--7846839 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
7846797 CATGTCAAAG
7846807 CTAACA CTAACA CTAACA CTAACA CTAACA CTA
1 CTAACA CTAACA CTAACA CTAACA CTAACA CTA
7846840 GAATATATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.48, C:0.33, G:0.00, T:0.18
Consensus pattern (6 bp):
CTAACA
Found at i:7849664 original size:7 final size:7
Alignment explanation
Indices: 7849648--7849680 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
7849638 CTTATAAAGT
7849648 TTTATTC
1 TTTATTC
*
7849655 TTTGTTC
1 TTTATTC
7849662 TTTATTC
1 TTTATTC
7849669 TTTATTC
1 TTTATTC
7849676 TTTAT
1 TTTAT
7849681 ATAAATAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.12, C:0.12, G:0.03, T:0.73
Consensus pattern (7 bp):
TTTATTC
Found at i:7859104 original size:108 final size:108
Alignment explanation
Indices: 7858972--7859177 Score: 315
Period size: 108 Copynumber: 1.9 Consensus size: 108
7858962 CTTGGACTGA
* * *
7858972 CAGATCACGACATAAGAATGTGTAAGTTCATGTGGCT-AAGACCCATGACAATATATGATTGTAT
1 CAGATCACGACATAAGAATATGTAAGTCCATGTGGCTGAA-ACCCATGACAATATATGACTGTAT
*
7859036 GAATGTTCATGGTGAAGCCGGCGATAATGTGTAGATTGACTTGG
65 GAATATTCATGGTGAAGCCGGCGATAATGTGTAGATTGACTTGG
* * *
7859080 CAGATCACGACATGAGAATATGTAAGTCCATGTGGTTGAAACCCATGGCAATATATGACTGTATG
1 CAGATCACGACATAAGAATATGTAAGTCCATGTGGCTGAAACCCATGACAATATATGACTGTATG
**
7859145 AATATTCATGGTGAAGCCTTCGATAATGTGTAG
66 AATATTCATGGTGAAGCCGGCGATAATGTGTAG
7859178 GTCAAACTAG
Statistics
Matches: 88, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
108 86 0.98
109 2 0.02
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.29
Consensus pattern (108 bp):
CAGATCACGACATAAGAATATGTAAGTCCATGTGGCTGAAACCCATGACAATATATGACTGTATG
AATATTCATGGTGAAGCCGGCGATAATGTGTAGATTGACTTGG
Found at i:7859193 original size:108 final size:108
Alignment explanation
Indices: 7858973--7859211 Score: 295
Period size: 108 Copynumber: 2.2 Consensus size: 108
7858963 TTGGACTGAC
* * * *
7858973 AGATCACGACATAAGAATGTGTAAGTTCATGTGGCTAAGACCCATGACAATATATGATTGTATGA
1 AGATCACGACATGAGAATATGTAAGTCCATGTGGCTAAGACCCATGACAATATATGACTGTATGA
* ** * *
7859038 ATGTTCATGGTGAAGCCGGCGATAATGTGTAGATTGACTTGGC
66 ATATTCATGGTGAAGCCGGCGATAATGTGTAGATAAACTTAGA
* *
7859081 AGATCACGACATGAGAATATGTAAGTCCATGTGGTTGAA-ACCCATGGCAATATATGACTGTATG
1 AGATCACGACATGAGAATATGTAAGTCCATGTGGCT-AAGACCCATGACAATATATGACTGTATG
** *
7859145 AATATTCATGGTGAAGCCTTCGATAATGTGTAGGTCAAAC-TAGA
65 AATATTCATGGTGAAGCCGGCGATAATGTGTAGAT-AAACTTAGA
*
7859189 AGATCAAGACATGA-AATTATGTA
1 AGATCACGACATGAGAA-TATGTA
7859212 TGATTACATG
Statistics
Matches: 113, Mismatches: 15, Indels: 6
0.84 0.11 0.04
Matches are distributed among these distances:
107 2 0.02
108 107 0.95
109 4 0.04
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (108 bp):
AGATCACGACATGAGAATATGTAAGTCCATGTGGCTAAGACCCATGACAATATATGACTGTATGA
ATATTCATGGTGAAGCCGGCGATAATGTGTAGATAAACTTAGA
Found at i:7859330 original size:23 final size:22
Alignment explanation
Indices: 7859294--7859339 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
7859284 TGTTTGCTTG
*
7859294 TGTGGCATGATTTGCTAAGATTT
1 TGTGGCAAGATTTG-TAAGATTT
* *
7859317 TGTGGCAAGTTTTGTAATATTT
1 TGTGGCAAGATTTGTAAGATTT
7859339 T
1 T
7859340 ATTAGCGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.22, C:0.07, G:0.24, T:0.48
Consensus pattern (22 bp):
TGTGGCAAGATTTGTAAGATTT
Found at i:7864729 original size:24 final size:25
Alignment explanation
Indices: 7864694--7864746 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 25
7864684 TAAAAAACCA
7864694 AAAATAATAATAAGAAA-AATA-AATT
1 AAAATAATAATAA-AAATAA-AGAATT
7864719 AAAATAA-AATAAAAATAAAGAATT
1 AAAATAATAATAAAAATAAAGAATT
7864743 AAAA
1 AAAA
7864747 ATGGGAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
23 4 0.15
24 15 0.58
25 7 0.27
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.21
Consensus pattern (25 bp):
AAAATAATAATAAAAATAAAGAATT
Found at i:7865505 original size:21 final size:21
Alignment explanation
Indices: 7865480--7865523 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
7865470 AGCCGTGTAA
*
7865480 TAGTCGATTTTTGTGAAAAAT
1 TAGTCAATTTTTGTGAAAAAT
*
7865501 TAGTCAATTTTTTTGAAAAAT
1 TAGTCAATTTTTGTGAAAAAT
7865522 TA
1 TA
7865524 TGTCCCAGGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.36, C:0.05, G:0.14, T:0.45
Consensus pattern (21 bp):
TAGTCAATTTTTGTGAAAAAT
Found at i:7873575 original size:12 final size:12
Alignment explanation
Indices: 7873554--7873589 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
7873544 TGTTAATATT
*
7873554 AAAAACAAAAGA
1 AAAAAAAAAAGA
7873566 AAAAAAAAAAGA
1 AAAAAAAAAAGA
7873578 AAAAGAAAAAAG
1 AAAA-AAAAAAG
7873590 GCAAGTCCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 15 0.68
13 7 0.32
ACGTcount: A:0.86, C:0.03, G:0.11, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAGA
Found at i:7878544 original size:5 final size:5
Alignment explanation
Indices: 7878534--7878609 Score: 54
Period size: 5 Copynumber: 15.6 Consensus size: 5
7878524 TAAATATATA
* * *
7878534 ATAAT ATAAT ATAAT ATATT AATAAT ATAAT ATAA- AAAAT ACTTAT -TAAT
1 ATAAT ATAAT ATAAT ATAAT -ATAAT ATAAT ATAAT ATAAT A-TAAT ATAAT
*
7878584 -TAAGT A-AAT TTAAT ATAAT AT-AT ATA
1 ATAA-T ATAAT ATAAT ATAAT ATAAT ATA
7878610 TTTTAAATTA
Statistics
Matches: 56, Mismatches: 8, Indels: 14
0.72 0.10 0.18
Matches are distributed among these distances:
4 14 0.25
5 36 0.64
6 6 0.11
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (5 bp):
ATAAT
Found at i:7880118 original size:24 final size:21
Alignment explanation
Indices: 7880050--7880134 Score: 64
Period size: 24 Copynumber: 3.8 Consensus size: 21
7880040 TGAATTATAA
*
7880050 TAAA-ATAATATATATAATATATA
1 TAAATATAA-ATATAT-A-ATATG
* *
7880073 TAAATATACATATTTTAATATG
1 TAAATATAAATA-TATAATATG
7880095 TGAAAATATAAATATATAAGTATG
1 T--AAATATAAATATATAA-TATG
*
7880119 TACATATAAATATATA
1 TAAATATAAATATATA
7880135 CTTATAAAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
22 19 0.37
23 12 0.24
24 20 0.39
ACGTcount: A:0.54, C:0.02, G:0.05, T:0.39
Consensus pattern (21 bp):
TAAATATAAATATATAATATG
Found at i:7882189 original size:41 final size:44
Alignment explanation
Indices: 7882139--7882249 Score: 113
Period size: 45 Copynumber: 2.6 Consensus size: 44
7882129 GGTCCGCTCC
* * *
7882139 ACTGTAACTTCAGGGAGATAAGACT-C-ATCGT-GGTCTACTT-T
1 ACTGCAACTTCAGAGAGATAAGACTGCTATCGTCAGTCTA-TTCT
* *
7882180 ACTGCAACTTCAGAGAGATAATATCTGCTATCTTCAGTCTATTCT
1 ACTGCAACTTCAGAGAGATAAGA-CTGCTATCGTCAGTCTATTCT
* *
7882225 ACTGCAACATCAGTGAGATAAGACT
1 ACTGCAACTTCAGAGAGATAAGACT
7882250 TGTAGCTTCA
Statistics
Matches: 57, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
41 20 0.35
42 2 0.04
43 1 0.02
44 8 0.14
45 26 0.46
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.31
Consensus pattern (44 bp):
ACTGCAACTTCAGAGAGATAAGACTGCTATCGTCAGTCTATTCT
Found at i:7882421 original size:44 final size:44
Alignment explanation
Indices: 7882359--7882473 Score: 115
Period size: 43 Copynumber: 2.6 Consensus size: 44
7882349 GACTCATGTC
* * *
7882359 TTCAACTTGCCCCACTGCAACTTCAAAGGGATAAGACTTGTAAT
1 TTCAACCTGCCCTACTGCAACTTCAAAGGGACAAGACTTGTAAT
* * * * ** *
7882403 TTCAACCTGCCCTGCTGCAATTTC-AGGGGGCAAGGTTTGTTAT
1 TTCAACCTGCCCTACTGCAACTTCAAAGGGACAAGACTTGTAAT
* *
7882446 TTCAACCTGCTCTACTGCAACTTAAAAG
1 TTCAACCTGCCCTACTGCAACTTCAAAG
7882474 AGCTAAGGTT
Statistics
Matches: 55, Mismatches: 15, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
43 33 0.60
44 22 0.40
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (44 bp):
TTCAACCTGCCCTACTGCAACTTCAAAGGGACAAGACTTGTAAT
Found at i:7882677 original size:44 final size:43
Alignment explanation
Indices: 7882496--7882708 Score: 164
Period size: 44 Copynumber: 4.8 Consensus size: 43
7882486 TAGCCTATAG
* * * *
7882496 CTTCAATCTGTTCCATTGCAACTTCAGGAAAATAAGATTTGCTAT
1 CTTCAATCTGATCCACTGCAACTTCAGGGAGATAAGA-TTG-TAT
* * * * **
7882541 CTTTAATATGGTCCACTGCAACTTCAGGGAGAT-AGAATCCAT
1 CTTCAATCTGATCCACTGCAACTTCAGGGAGATAAGATTGTAT
* * * *
7882583 CATTTTAATCT-ATTCCACTGCAACTTCAGGGAGGTAGGATTAGTAA
1 C--TTCAATCTGA-TCCACTGCAACTTCAGGGAGATAAGATT-GTAT
7882629 CTTCAATCTGATCCACTGCAACTTCAGGGAGATAAGACTTGTAT
1 CTTCAATCTGATCCACTGCAACTTCAGGGAGATAAGA-TTGTAT
** *
7882673 CTTCAA-CTTGCCCCATTGCAACTTCATGGG-GATAAG
1 CTTCAATC-TGATCCACTGCAACTTCA-GGGAGATAAG
7882709 GTTTTCTATT
Statistics
Matches: 135, Mismatches: 24, Indels: 19
0.76 0.13 0.11
Matches are distributed among these distances:
42 3 0.02
43 2 0.01
44 92 0.68
45 36 0.27
46 2 0.01
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.31
Consensus pattern (43 bp):
CTTCAATCTGATCCACTGCAACTTCAGGGAGATAAGATTGTAT
Found at i:7882995 original size:90 final size:89
Alignment explanation
Indices: 7882908--7883089 Score: 224
Period size: 89 Copynumber: 2.0 Consensus size: 89
7882898 CTCGATCTGT
* * * * * *
7882908 TTCATTGCTAGTACAAGAATACTAGATCTGCAAT-CTTTTAGTCTGCTCCACTGCAAACTCAG-G
1 TTCACTGCCAGTACAAGAAGACGAGATCTG--ATGCTTTTAGTATACTCCACTGCAAACTCAGAG
7882971 AAGGTCAGGCTTGTGTCTTTGATCTAC
64 -AGGTCAGGCTTGTGTCTTTGATCTAC
* * *
7882998 TTCACTGCCAGTACAAGAAGACGAGATTTGTTGCTTTTAGTATACTCCGCTGCAAACTCAGAGAG
1 TTCACTGCCAGTACAAGAAGACGAGATCTGATGCTTTTAGTATACTCCACTGCAAACTCAGAGAG
* *
7883063 GTGAGTCTTGTGTCTTTGATCTAC
66 GTCAGGCTTGTGTCTTTGATCTAC
7883087 TTC
1 TTC
7883090 TCTATCGGTA
Statistics
Matches: 79, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
88 1 0.01
89 52 0.66
90 26 0.33
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (89 bp):
TTCACTGCCAGTACAAGAAGACGAGATCTGATGCTTTTAGTATACTCCACTGCAAACTCAGAGAG
GTCAGGCTTGTGTCTTTGATCTAC
Found at i:7884582 original size:6 final size:6
Alignment explanation
Indices: 7884571--7884598 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
7884561 TGGCCTCTCC
7884571 TTTTTA TTTTTA TTTTTA TTTTTA TTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTT
7884599 CTTTTCCTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTTA
Found at i:7889599 original size:16 final size:17
Alignment explanation
Indices: 7889570--7889602 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
7889560 ATAATAACAA
7889570 AAAAATAGATAAAATAT
1 AAAAATAGATAAAATAT
*
7889587 AAAAATATA-AAAATAT
1 AAAAATAGATAAAATAT
7889603 GTATATGTAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (17 bp):
AAAAATAGATAAAATAT
Found at i:7889670 original size:24 final size:24
Alignment explanation
Indices: 7889643--7889691 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
7889633 ATATGTGAAT
7889643 TATA-ATAAA-ATA-ATATATATAA
1 TATATATAAATATACATAT-TATAA
*
7889665 TATATATAAATATACATATTTTAA
1 TATATATAAATATACATATTATAA
7889689 TAT
1 TAT
7889692 GTGAAAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 4 0.17
23 5 0.22
24 10 0.43
25 4 0.17
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (24 bp):
TATATATAAATATACATATTATAA
Found at i:7889716 original size:24 final size:21
Alignment explanation
Indices: 7889648--7889732 Score: 64
Period size: 24 Copynumber: 3.8 Consensus size: 21
7889638 TGAATTATAA
*
7889648 TAAA-ATAATATATATAATATATA
1 TAAATATAA-ATATAT-A-ATATG
* *
7889671 TAAATATACATATTTTAATATG
1 TAAATATAAATA-TATAATATG
7889693 TGAAAATATAAATATATAAGTATG
1 T--AAATATAAATATATAA-TATG
*
7889717 TACATATAAATATATA
1 TAAATATAAATATATA
7889733 CTTATAAAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
22 19 0.37
23 12 0.24
24 20 0.39
ACGTcount: A:0.54, C:0.02, G:0.05, T:0.39
Consensus pattern (21 bp):
TAAATATAAATATATAATATG
Found at i:7889803 original size:10 final size:10
Alignment explanation
Indices: 7889776--7889829 Score: 53
Period size: 10 Copynumber: 5.8 Consensus size: 10
7889766 TAAGTATGTG
*
7889776 TATATAAAT-
1 TATAAAAATA
7889785 TAT-AAAATA
1 TATAAAAATA
7889794 TATAAAAATA
1 TATAAAAATA
*
7889804 T-T-AAATTA
1 TATAAAAATA
*
7889812 TATGAAAATA
1 TATAAAAATA
7889822 TATAAAAA
1 TATAAAAA
7889830 AAACATATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
8 10 0.27
9 8 0.22
10 19 0.51
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (10 bp):
TATAAAAATA
Found at i:7895521 original size:13 final size:11
Alignment explanation
Indices: 7895492--7895516 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
7895482 ACATTATCTC
7895492 TTCTTTTTTTT
1 TTCTTTTTTTT
7895503 TTCTTTTTTTT
1 TTCTTTTTTTT
7895514 TTC
1 TTC
7895517 ACTTTCAACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (11 bp):
TTCTTTTTTTT
Found at i:7897786 original size:12 final size:13
Alignment explanation
Indices: 7897769--7897818 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
7897759 TTGACCTCTC
7897769 ATTTT-CTTTTTT
1 ATTTTCCTTTTTT
7897781 ATTTTCCTTTTTT
1 ATTTTCCTTTTTT
*
7897794 -TTCTCTCCTTTTTC
1 ATT-T-TCCTTTTTT
*
7897808 ATTTTCATTTT
1 ATTTTCCTTTT
7897819 GACCTTGATT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
12 7 0.22
13 14 0.44
14 9 0.28
15 2 0.06
ACGTcount: A:0.08, C:0.18, G:0.00, T:0.74
Consensus pattern (13 bp):
ATTTTCCTTTTTT
Found at i:7897872 original size:34 final size:36
Alignment explanation
Indices: 7897823--7897897 Score: 102
Period size: 37 Copynumber: 2.1 Consensus size: 36
7897813 CATTTTGACC
7897823 TTGATTTTTGATTTTTCTTTT-T-CTTCTTTTTGTT
1 TTGATTTTTGATTTTTCTTTTCTCCTTCTTTTTGTT
*
7897857 TTGA-TTTTGATTTTTTCTTTTGCTCCTTCTTTTTTTT
1 TTGATTTTTGA-TTTTTCTTTT-CTCCTTCTTTTTGTT
7897894 TTGA
1 TTGA
7897898 ATTGGATCTG
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
33 6 0.17
34 14 0.39
36 1 0.03
37 15 0.42
ACGTcount: A:0.07, C:0.11, G:0.09, T:0.73
Consensus pattern (36 bp):
TTGATTTTTGATTTTTCTTTTCTCCTTCTTTTTGTT
Found at i:7902115 original size:28 final size:27
Alignment explanation
Indices: 7902084--7902176 Score: 80
Period size: 29 Copynumber: 3.3 Consensus size: 27
7902074 AATATATGTA
*
7902084 AATTAAAAAGTTAAAATAAATTTGAATG
1 AATTAAAATGTTAAAAT-AATTTGAATG
* * * *
7902112 AATTGACAATGTTGAAATAAGTTGAAATA
1 AATT-AAAATGTTAAAATAATTTG-AATG
*
7902141 AATTAAAGATGTTAAAAT-ATTTGAAAG
1 AATTAAA-ATGTTAAAATAATTTGAATG
*
7902168 AAATAAAAT
1 AATTAAAAT
7902177 ATCTATATAA
Statistics
Matches: 51, Mismatches: 11, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
26 2 0.04
27 8 0.16
28 15 0.29
29 26 0.51
ACGTcount: A:0.55, C:0.01, G:0.13, T:0.31
Consensus pattern (27 bp):
AATTAAAATGTTAAAATAATTTGAATG
Found at i:7902473 original size:22 final size:22
Alignment explanation
Indices: 7902444--7902491 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
7902434 ACAAAAATAC
*
7902444 ATAT-AAAATAAAATAATGCAT
1 ATATAAAAATAAAACAATGCAT
* *
7902465 ATATAAAAATAAACCAATGTAT
1 ATATAAAAATAAAACAATGCAT
7902487 ATATA
1 ATATA
7902492 TATGTAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 4 0.17
22 19 0.83
ACGTcount: A:0.60, C:0.06, G:0.04, T:0.29
Consensus pattern (22 bp):
ATATAAAAATAAAACAATGCAT
Found at i:7907541 original size:16 final size:16
Alignment explanation
Indices: 7907522--7907552 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7907512 ATATTAAAAT
7907522 AAATAAATAAAAATAA
1 AAATAAATAAAAATAA
*
7907538 AAATAATTAAAAATA
1 AAATAAATAAAAATA
7907553 TTCTCTATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (16 bp):
AAATAAATAAAAATAA
Found at i:7925357 original size:2 final size:2
Alignment explanation
Indices: 7925350--7925376 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
7925340 TAATGTACGT
7925350 GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA G
7925377 CATGCAGTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:7932052 original size:21 final size:21
Alignment explanation
Indices: 7932023--7932070 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
7932013 TTTTTTTTTG
*
7932023 TTTGATGAT-GATAAATAAAT
1 TTTGTTGATAGATAAATAAAT
* *
7932043 ATTTGTTGATAGATTATTAAAT
1 -TTTGTTGATAGATAAATAAAT
7932065 TTTGTT
1 TTTGTT
7932071 AAGTAATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 14 0.61
22 9 0.39
ACGTcount: A:0.35, C:0.00, G:0.15, T:0.50
Consensus pattern (21 bp):
TTTGTTGATAGATAAATAAAT
Found at i:7932694 original size:42 final size:43
Alignment explanation
Indices: 7932645--7932739 Score: 111
Period size: 42 Copynumber: 2.2 Consensus size: 43
7932635 GATTTGGGAT
* *
7932645 TTACGTGTAAAAACATGTTTGGGACATTGGCATCG-TATATGA
1 TTACGTGTAAAAACATGTCTGGGACAGTGGCATCGTTATATGA
* * * *
7932687 TTACGTGTAAGACCCTGTCTGGGATAGTGGCATCGTTATATGA
1 TTACGTGTAAAAACATGTCTGGGACAGTGGCATCGTTATATGA
* *
7932730 CTACATGTAA
1 TTACGTGTAA
7932740 GACCACGTCT
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
42 29 0.66
43 15 0.34
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (43 bp):
TTACGTGTAAAAACATGTCTGGGACAGTGGCATCGTTATATGA
Found at i:7937207 original size:27 final size:27
Alignment explanation
Indices: 7937163--7937497 Score: 370
Period size: 27 Copynumber: 12.5 Consensus size: 27
7937153 TTGCGATTCG
7937163 TGGGT-AAATAACCAAAATACCCTCGA
1 TGGGTAAAATAACCAAAATACCCTCGA
* * *
7937189 TGGGTAAAATGACCGAAATACGCTCGA
1 TGGGTAAAATAACCAAAATACCCTCGA
* * * *
7937216 TAGGTAAAATGACCGAAATACCCTAGA
1 TGGGTAAAATAACCAAAATACCCTCGA
* **
7937243 TGGGTAAAATGACC-AAATACATTCGA
1 TGGGTAAAATAACCAAAATACCCTCGA
* * *
7937269 TAGGTAAAATGACCAAAATACCCTCAA
1 TGGGTAAAATAACCAAAATACCCTCGA
* * * *
7937296 TGGGTAAATTGATCGAAATACCCTCGA
1 TGGGTAAAATAACCAAAATACCCTCGA
** *
7937323 TGGGTAAAATAATTAAAATACCCTCAA
1 TGGGTAAAATAACCAAAATACCCTCGA
* * *
7937350 AGGGTAAAATGATCAAAATACCCTCGA
1 TGGGTAAAATAACCAAAATACCCTCGA
*
7937377 TGGGTAAAATAACCGAAATACCCTCGA
1 TGGGTAAAATAACCAAAATACCCTCGA
* * *
7937404 TGGGTAAAATAATCGAAATATCCTCGA
1 TGGGTAAAATAACCAAAATACCCTCGA
*
7937431 TGGGTAAAATAACCAAAATACCCCCGA
1 TGGGTAAAATAACCAAAATACCCTCGA
* *
7937458 AGGGTAAAATAACCAAAATACCC-CCA
1 TGGGTAAAATAACCAAAATACCCTCGA
7937484 TAGGGTAAAATAAC
1 T-GGGTAAAATAAC
7937498 TGTTATACCC
Statistics
Matches: 265, Mismatches: 41, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
26 29 0.11
27 236 0.89
ACGTcount: A:0.43, C:0.19, G:0.17, T:0.20
Consensus pattern (27 bp):
TGGGTAAAATAACCAAAATACCCTCGA
Found at i:7942428 original size:27 final size:27
Alignment explanation
Indices: 7942397--7942474 Score: 129
Period size: 27 Copynumber: 2.9 Consensus size: 27
7942387 AATACTTTGG
7942397 TTTACAAAATTACTGAAATACCCTTGA
1 TTTACAAAATTACTGAAATACCCTTGA
* *
7942424 TTTACAAAATTATTGAAATACCCTTGG
1 TTTACAAAATTACTGAAATACCCTTGA
*
7942451 TTTACAAAATTTCTGAAATACCCT
1 TTTACAAAATTACTGAAATACCCT
7942475 CGAATTGTAA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.38, C:0.18, G:0.08, T:0.36
Consensus pattern (27 bp):
TTTACAAAATTACTGAAATACCCTTGA
Found at i:7942500 original size:54 final size:54
Alignment explanation
Indices: 7942393--7942528 Score: 150
Period size: 54 Copynumber: 2.5 Consensus size: 54
7942383 TTAGAATACT
* * **
7942393 TTGGTTTACAAAATTACTGAAATACCCTTGATTTACAAAATTATTGAAATACCC
1 TTGGTTTACAAAATTACTGAAATACCCTCGAATTACAAAATTATCCAAATACCC
* **
7942447 TTGGTTTACAAAATTTCTGAAATACCCTCGAATTGTAAAATTA-CCAAAGTACCC
1 TTGGTTTACAAAATTACTGAAATACCCTCGAATTACAAAATTATCCAAA-TACCC
*** *
7942501 CCAGTTTACAAAATTACCG-AATACCCTC
1 TTGGTTTACAAAATTACTGAAATACCCTC
7942529 AGTTTTTGAA
Statistics
Matches: 69, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
53 12 0.17
54 57 0.83
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.32
Consensus pattern (54 bp):
TTGGTTTACAAAATTACTGAAATACCCTCGAATTACAAAATTATCCAAATACCC
Found at i:7942609 original size:27 final size:28
Alignment explanation
Indices: 7942466--7942609 Score: 115
Period size: 27 Copynumber: 5.3 Consensus size: 28
7942456 AAAATTTCTG
* *
7942466 AAATACCCTC-GAATTGTAAAATTACCA
1 AAATACCCTCAGATTTGCAAAATTACCA
* * *
7942493 AAGTACCCCCAG-TTTACAAAATTACC-
1 AAATACCCTCAGATTTGCAAAATTACCA
* * *
7942519 GAATACCCTCAGTTTTTG--AAATT-GCA
1 AAATACCCTCAG-ATTTGCAAAATTACCA
*
7942545 AAAGTACCC-CTGATTTGCAAAAGTTACCA
1 AAA-TACCCTCAGATTTGCAAAA-TTACCA
*
7942574 AAATACCCTCAG-TTTGGAAAATTACCA
1 AAATACCCTCAGATTTGCAAAATTACCA
7942601 AAATACCCT
1 AAATACCCT
7942610 TATAGGGTAA
Statistics
Matches: 91, Mismatches: 16, Indels: 20
0.72 0.13 0.16
Matches are distributed among these distances:
25 5 0.05
26 18 0.20
27 42 0.46
28 19 0.21
29 7 0.08
ACGTcount: A:0.39, C:0.24, G:0.10, T:0.26
Consensus pattern (28 bp):
AAATACCCTCAGATTTGCAAAATTACCA
Found at i:7942621 original size:27 final size:27
Alignment explanation
Indices: 7942563--7942622 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
7942553 CCTGATTTGC
**
7942563 AAAAGTTACCAAAATACCCTCAGTTTGG
1 AAAA-TTACCAAAATACCCTCAGTAGGG
*
7942591 AAAATTACCAAAATACCCTTA-TAGGG
1 AAAATTACCAAAATACCCTCAGTAGGG
7942617 TAAAAT
1 -AAAAT
7942623 GACTATTTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 3 0.11
27 21 0.75
28 4 0.14
ACGTcount: A:0.45, C:0.18, G:0.12, T:0.25
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTCAGTAGGG
Found at i:7942948 original size:27 final size:27
Alignment explanation
Indices: 7942910--7942965 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
7942900 TACTGATATG
* *
7942910 GTATTAGGCTAAGGCCCACCTTGTTCT
1 GTATTAGGCTAAAGCCCACATTGTTCT
*
7942937 GTATTGGGCTAAAGCCCACATTGTTCT
1 GTATTAGGCTAAAGCCCACATTGTTCT
7942964 GT
1 GT
7942966 TCTGTTACTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (27 bp):
GTATTAGGCTAAAGCCCACATTGTTCT
Found at i:7947052 original size:28 final size:27
Alignment explanation
Indices: 7947020--7947090 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 27
7947010 TTAATAAGTA
*
7947020 CGCACACTTAGTGCTTAAT-AATCACACT
1 CGCACACTTAGTGCTT--TCAATCAAACT
*
7947048 CGCACACTTAGTGCATTTCAATTAAACT
1 CGCACACTTAGTGC-TTTCAATCAAACT
7947076 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
7947091 AATCTCATTA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
27 2 0.05
28 35 0.90
29 2 0.05
ACGTcount: A:0.30, C:0.28, G:0.13, T:0.30
Consensus pattern (27 bp):
CGCACACTTAGTGCTTTCAATCAAACT
Found at i:7950120 original size:24 final size:23
Alignment explanation
Indices: 7950087--7950187 Score: 75
Period size: 24 Copynumber: 4.3 Consensus size: 23
7950077 TAAAAACGTA
7950087 TTAAATTTTAAATCTAATATTATT
1 TTAAA-TTTAAATCTAATATTATT
*
7950111 TTAATATTT-AAGCTTAATATTATT
1 TTAA-ATTTAAATC-TAATATTATT
* *
7950135 TTGAATTCATAAT-TAATATTA-T
1 TTAAATTTA-AATCTAATATTATT
* *
7950157 TTAAACTTGT-AATGTACTATTATT
1 TTAAA-TT-TAAATCTAATATTATT
7950181 TTAAATT
1 TTAAATT
7950188 ATCATCAAAA
Statistics
Matches: 62, Mismatches: 7, Indels: 17
0.72 0.08 0.20
Matches are distributed among these distances:
22 8 0.13
23 25 0.40
24 26 0.42
25 3 0.05
ACGTcount: A:0.39, C:0.05, G:0.04, T:0.52
Consensus pattern (23 bp):
TTAAATTTAAATCTAATATTATT
Found at i:7950843 original size:18 final size:17
Alignment explanation
Indices: 7950810--7950843 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
7950800 ATGGTATTGT
7950810 TTATTTGCATTAATTAA
1 TTATTTGCATTAATTAA
*
7950827 TTATTTAGCATTCATTA
1 TTATTT-GCATTAATTA
7950844 GAGTGCAATT
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:0.32, C:0.09, G:0.06, T:0.53
Consensus pattern (17 bp):
TTATTTGCATTAATTAA
Found at i:7960102 original size:7 final size:8
Alignment explanation
Indices: 7960089--7960136 Score: 51
Period size: 8 Copynumber: 5.8 Consensus size: 8
7960079 CAGTAGAGGA
7960089 AAAAAAAG
1 AAAAAAAG
7960097 AAAAAAAG
1 AAAAAAAG
*
7960105 AAAAAAATAC
1 -AAAAAA-AG
*
7960115 AAAAAAAT
1 AAAAAAAG
*
7960123 AAAAAAAC
1 AAAAAAAG
7960131 AAAAAA
1 AAAAAA
7960137 CAAAAAGAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
8 22 0.63
9 12 0.34
10 1 0.03
ACGTcount: A:0.88, C:0.04, G:0.04, T:0.04
Consensus pattern (8 bp):
AAAAAAAG
Found at i:7960102 original size:8 final size:8
Alignment explanation
Indices: 7960089--7960152 Score: 58
Period size: 9 Copynumber: 7.6 Consensus size: 8
7960079 CAGTAGAGGA
*
7960089 AAAAAAAG
1 AAAAAAAC
*
7960097 AAAAAAAGA
1 AAAAAAA-C
7960106 AAAAAATAC
1 AAAAAA-AC
*
7960115 AAAAAAAT
1 AAAAAAAC
7960123 AAAAAAAC
1 AAAAAAAC
7960131 -AAAAAAC
1 AAAAAAAC
7960138 AAAAAGAAAC
1 -AAAA-AAAC
7960148 AAAAA
1 AAAAA
7960153 CTTTTACCGG
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
7 7 0.15
8 16 0.34
9 19 0.40
10 5 0.11
ACGTcount: A:0.86, C:0.06, G:0.05, T:0.03
Consensus pattern (8 bp):
AAAAAAAC
Found at i:7960135 original size:17 final size:17
Alignment explanation
Indices: 7960088--7960152 Score: 55
Period size: 16 Copynumber: 3.9 Consensus size: 17
7960078 GCAGTAGAGG
*
7960088 AAAAAAAAGA-AAAAAA
1 AAAAAAAACACAAAAAA
* *
7960104 GAAAAAAATACAAAAAA
1 AAAAAAAACACAAAAAA
*
7960121 ATAAAAAAACA-AAAAAC
1 A-AAAAAAACACAAAAAA
*
7960138 AAAAAGAA-ACAAAAA
1 AAAAAAAACACAAAAA
7960153 CTTTTACCGG
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
15 1 0.03
16 19 0.47
17 12 0.30
18 8 0.20
ACGTcount: A:0.86, C:0.06, G:0.05, T:0.03
Consensus pattern (17 bp):
AAAAAAAACACAAAAAA
Found at i:7960153 original size:16 final size:15
Alignment explanation
Indices: 7960088--7960152 Score: 62
Period size: 15 Copynumber: 4.2 Consensus size: 15
7960078 GCAGTAGAGG
7960088 AAAAAAAAGAAA-AA
1 AAAAAAAAGAAACAA
*
7960102 AAGAAAAAA-ATACAA
1 AA-AAAAAAGAAACAA
*
7960117 AAAAATAAAAAAACAAA
1 AAAAA-AAAGAAAC-AA
7960134 AAACAAAAAGAAACAA
1 AAA-AAAAAGAAACAA
7960150 AAA
1 AAA
7960153 CTTTTACCGG
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
14 7 0.17
15 13 0.31
16 8 0.19
17 12 0.29
18 2 0.05
ACGTcount: A:0.86, C:0.06, G:0.05, T:0.03
Consensus pattern (15 bp):
AAAAAAAAGAAACAA
Found at i:7960720 original size:53 final size:53
Alignment explanation
Indices: 7960581--7960711 Score: 167
Period size: 53 Copynumber: 2.5 Consensus size: 53
7960571 AAGGAGAAGG
*
7960581 GACCAAGGTGAAAACTCGCAAAGGGCGATTTGAGTCCTAAATACAAAAAAAAA
1 GACCAAGGTGAAAACTCGCAAAGGGCGCTTTGAGTCCTAAATACAAAAAAAAA
* * * * *
7960634 GACCAAGGTAAAAACCCGCAAAAGGCGCTTTGAGTTCTAAA-A-AAAAAAGGAGA
1 GACCAAGGTGAAAACTCGCAAAGGGCGCTTTGAGTCCTAAATACAAAAAA--AAA
*
7960687 GGCCAAGGTGAAAACTCGCAAAGGG
1 GACCAAGGTGAAAACTCGCAAAGGG
7960712 TTCCTTGAGA
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
51 6 0.09
52 1 0.02
53 59 0.89
ACGTcount: A:0.45, C:0.18, G:0.24, T:0.13
Consensus pattern (53 bp):
GACCAAGGTGAAAACTCGCAAAGGGCGCTTTGAGTCCTAAATACAAAAAAAAA
Found at i:7961983 original size:51 final size:51
Alignment explanation
Indices: 7961914--7962199 Score: 394
Period size: 51 Copynumber: 5.6 Consensus size: 51
7961904 GGAAAATTTT
* *
7961914 TTTCCCTGGTGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTA
1 TTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTA
*
7961965 TTTCCTTGGCGTTACAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTA
1 TTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTA
* ** * *
7962016 TTTCCATGGAATTGTAGTGGAACAGATTAAAGCTGAAGGTAGCGAATCTTA
1 TTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTA
* * *
7962067 TTTCCCTTGGCATTGCAGTGGAACAGATTAAAGCTGAAGGCAACGAATCTTT
1 TTT-CCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTA
* * * *
7962119 TTTCCCTGGTGTTGCAGTGGAACAAATTAAAGCTGAAGACAGCGAATCTTA
1 TTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTA
* *
7962170 TTT-CTCTGGCGTTACAGTGGAACAAATTAA
1 TTTCCT-TGGCGTTGCAGTGGAACAGATTAA
7962200 GGGTGCGTTT
Statistics
Matches: 208, Mismatches: 25, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
50 1 0.00
51 162 0.78
52 45 0.22
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (51 bp):
TTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTA
Found at i:7962123 original size:103 final size:103
Alignment explanation
Indices: 7961911--7962199 Score: 447
Period size: 103 Copynumber: 2.8 Consensus size: 103
7961901 TATGGAAAAT
7961911 TTTTTTCCCTGGTGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTT-CCTTGGC
1 TTTTTTCCCTGGTGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTTGGC
*
7961975 GTTACAGTGGAACAGATTAAAGCTGAAGGCAGCGAATC
66 GTTACAGTGGAACAGATTAAAGCTGAAGGCAACGAATC
* * ** * *
7962013 TTATTTCCATGGAATTGTAGTGGAACAGATTAAAGCTGAAGGTAGCGAATCTTATTTCCCTTGGC
1 TTTTTTCCCTGGTGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTTGGC
* *
7962078 ATTGCAGTGGAACAGATTAAAGCTGAAGGCAACGAATC
66 GTTACAGTGGAACAGATTAAAGCTGAAGGCAACGAATC
* * *
7962116 TTTTTTCCCTGGTGTTGCAGTGGAACAAATTAAAGCTGAAGACAGCGAATCTTATTTCTC-TGGC
1 TTTTTTCCCTGGTGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTTGGC
*
7962180 GTTACAGTGGAACAAATTAA
66 GTTACAGTGGAACAGATTAA
7962200 GGGTGCGTTT
Statistics
Matches: 165, Mismatches: 21, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
102 72 0.44
103 93 0.56
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (103 bp):
TTTTTTCCCTGGTGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTTGGC
GTTACAGTGGAACAGATTAAAGCTGAAGGCAACGAATC
Found at i:7964733 original size:32 final size:33
Alignment explanation
Indices: 7964697--7964783 Score: 90
Period size: 33 Copynumber: 2.7 Consensus size: 33
7964687 ACTTTGCCGA
* *
7964697 AAAATATTTT-CAGGAAATC-TGCCAAACAGCAG
1 AAAATATTTTACAGCAAATCAT-CCAAACACCAG
*
7964729 AAAATATTTTACA-CAGATTCATCCAAACACCAG
1 AAAATATTTTACAGCA-AATCATCCAAACACCAG
* *
7964762 AAAATATTTTCCAGTAAATCAT
1 AAAATATTTTACAGCAAATCAT
7964784 TTTACAGAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
32 11 0.24
33 32 0.71
34 2 0.04
ACGTcount: A:0.45, C:0.20, G:0.09, T:0.26
Consensus pattern (33 bp):
AAAATATTTTACAGCAAATCATCCAAACACCAG
Found at i:7964780 original size:14 final size:15
Alignment explanation
Indices: 7964758--7964834 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
7964748 CATCCAAACA
7964758 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
7964772 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
7964787 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
7964807 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
7964821 ACGGAAAA-CATTTT
1 CCAGAAAATCATTTT
7964835 ACTGGCAAAC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 22 0.44
15 14 0.28
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.32
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:7964799 original size:20 final size:20
Alignment explanation
Indices: 7964774--7964813 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
7964764 AATATTTTCC
*
7964774 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
7964794 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
7964814 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:7964819 original size:34 final size:35
Alignment explanation
Indices: 7964762--7964828 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
7964752 CAAACACCAG
*
7964762 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
7964797 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
7964829 CATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:7964835 original size:14 final size:14
Alignment explanation
Indices: 7964797--7964836 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
7964787 ACAGAAAAGT
*
7964797 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
7964811 AAATCATTTTACGG
1 AAAACATTTTACAG
7964825 AAAACATTTTAC
1 AAAACATTTTAC
7964837 TGGCAAACAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:7964931 original size:51 final size:51
Alignment explanation
Indices: 7964855--7965346 Score: 458
Period size: 51 Copynumber: 10.1 Consensus size: 51
7964845 AAACGGACCC
* * * *
7964855 TAAAGCTGAAAGTAGCGAATCTTATTTCCCTAGCATTGCAGTGGAACAGAT
1 TAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGAT
* *
7964906 TAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCATTGCAGTGGAATAGAT
1 TAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGAT
* * * * * *
7964957 TAAAGCTGAAGGTAGTGAATCTTTTTTCCCTGGTGTTGTAGTGGAACAAAT
1 TAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGAT
* * * *
7965008 TAAAGTTGAAGGCAGCGAATCTTTTTTCCCTAGCGTTGC-----AATAGAT
1 TAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGAT
* * *
7965054 TAAAGCTAAAGGCAGTGAATCTTATTTCCCTGGCATTGCAGTGGAACAGAT
1 TAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGAT
* ** * *
7965105 TAAAGCTGAAGGTAATGAATCTTTTTTCCCTGGTGTTGCAGT-----AG--
1 TAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGAT
* * * *
7965149 --AA-CAGAAGGCAACGAATCTTATTTCCCTGGCGTTGGAATGGAACAGAT
1 TAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGAT
* * * *
7965197 TAAAGCTGAAAGCAGTGAATCTTTTTTCCCTGGTGTTGCAGTGG---A-A-
1 TAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGAT
* * *
7965243 T--A---GAATGCAACGAATATTATTTCCCTGGCGTTGCAGTGGAACAGAT
1 TAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGAT
* * * *
7965289 TAAAGCTGAAGGTAGCGAATCTTTTTTCCCTGGCATTGCAGTGGAATAGAT
1 TAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGAT
7965340 TAAAGCT
1 TAAAGCT
7965347 ACAAATTGTG
Statistics
Matches: 355, Mismatches: 61, Indels: 50
0.76 0.13 0.11
Matches are distributed among these distances:
41 61 0.17
42 2 0.01
44 2 0.01
45 1 0.00
46 44 0.12
47 1 0.00
48 2 0.01
50 2 0.01
51 240 0.68
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (51 bp):
TAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGAT
Found at i:7965174 original size:41 final size:41
Alignment explanation
Indices: 7965112--7965287 Score: 145
Period size: 41 Copynumber: 4.0 Consensus size: 41
7965102 GATTAAAGCT
* * * * *
7965112 GAAGGTAATGAATCTTTTTTCCCTGGTGTTGCAGTAGAACA
1 GAAGGCAACGAATCTTATTTCCCTGGCGTTGCAGTGGAACA
* *
7965153 GAAGGCAACGAATCTTATTTCCCTGGCGTTGGAATGGAACA
1 GAAGGCAACGAATCTTATTTCCCTGGCGTTGCAGTGGAACA
* * * *
7965194 GATTAAAGCTGAAAGCAGTGAATCTTTTTTCCCTGGTGTTGCAGTGGAATA
1 G----AAG--GCAA-C---GAATCTTATTTCCCTGGCGTTGCAGTGGAACA
* *
7965245 GAATGCAACGAATATTATTTCCCTGGCGTTGCAGTGGAACA
1 GAAGGCAACGAATCTTATTTCCCTGGCGTTGCAGTGGAACA
7965286 GA
1 GA
7965288 TTAAAGCTGA
Statistics
Matches: 106, Mismatches: 19, Indels: 20
0.73 0.13 0.14
Matches are distributed among these distances:
41 65 0.61
44 1 0.01
45 6 0.06
47 5 0.05
48 1 0.01
51 28 0.26
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (41 bp):
GAAGGCAACGAATCTTATTTCCCTGGCGTTGCAGTGGAACA
Found at i:7965331 original size:92 final size:92
Alignment explanation
Indices: 7964973--7965338 Score: 444
Period size: 92 Copynumber: 3.9 Consensus size: 92
7964963 TGAAGGTAGT
* * * * *
7964973 GAATCTTTTTTCCCTGGTGTTGTAGTGGAACAAATTAAAGTTGAAGGCAGCGAATCTTTTTTCCC
1 GAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTTTTTCCC
* * * **
7965038 TAGCGTTGCAATAGATTAAAGCTAAAGGCAGT
66 TGGCGTTGCAGTAGA--ATAG---AAGGCAAC
* * **
7965070 GAATCTTATTTCCCTGGCATTGCAGTGGAACAGATTAAAGCTGAAGGTAATGAATCTTTTTTCCC
1 GAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTTTTTCCC
* *
7965135 TGGTGTTGCAGTAGAACAGAAGGCAAC
66 TGGCGTTGCAGTAGAATAGAAGGCAAC
* * * *
7965162 GAATCTTATTTCCCTGGCGTTGGAATGGAACAGATTAAAGCTGAAAGCAGTGAATCTTTTTTCCC
1 GAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTTTTTCCC
* * *
7965227 TGGTGTTGCAGTGGAATAGAATGCAAC
66 TGGCGTTGCAGTAGAATAGAAGGCAAC
* *
7965254 GAATATTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGTAGCGAATCTTTTTTCCC
1 GAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTTTTTCCC
* *
7965319 TGGCATTGCAGTGGAATAGA
66 TGGCGTTGCAGTAGAATAGA
7965339 TTAAAGCTAC
Statistics
Matches: 237, Mismatches: 32, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
92 166 0.70
95 3 0.01
97 68 0.29
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.31
Consensus pattern (92 bp):
GAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTTTTTCCC
TGGCGTTGCAGTAGAATAGAAGGCAAC
Found at i:7972642 original size:24 final size:24
Alignment explanation
Indices: 7972614--7972666 Score: 88
Period size: 24 Copynumber: 2.2 Consensus size: 24
7972604 TCTTTCTAGA
* *
7972614 ATATTTAGTATTTATTAGTATAAT
1 ATATTTAGAATTTATTAGCATAAT
7972638 ATATTTAGAATTTATTAGCATAAT
1 ATATTTAGAATTTATTAGCATAAT
7972662 ATATT
1 ATATT
7972667 AGGCATTGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.40, C:0.02, G:0.08, T:0.51
Consensus pattern (24 bp):
ATATTTAGAATTTATTAGCATAAT
Found at i:7975599 original size:8 final size:8
Alignment explanation
Indices: 7975586--7975617 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
7975576 GTTAAAATAT
7975586 ATATTATA
1 ATATTATA
7975594 ATATTATA
1 ATATTATA
7975602 ATATTATA
1 ATATTATA
7975610 ATATTATA
1 ATATTATA
7975618 TCTTAATGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (8 bp):
ATATTATA
Found at i:7976430 original size:24 final size:24
Alignment explanation
Indices: 7976403--7976449 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
7976393 ATTGAAATGG
7976403 ATTG-ATTTAGTATGTGA-TGAATTT
1 ATTGAATTTA-TAT-TGATTGAATTT
7976427 ATTGAATTTATATTGATTGAATT
1 ATTGAATTTATATTGATTGAATT
7976450 GGTATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.14
24 13 0.62
25 5 0.24
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (24 bp):
ATTGAATTTATATTGATTGAATTT
Found at i:7976447 original size:15 final size:15
Alignment explanation
Indices: 7976427--7976479 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 15
7976417 TGATGAATTT
7976427 ATTGAATTTATATTG
1 ATTGAATTTATATTG
7976442 ATTGAATTGGTATATAT-
1 ATTGAATT--TATAT-TG
7976459 ATTGAA--TATATTG
1 ATTGAATTTATATTG
7976472 ATTGAATT
1 ATTGAATT
7976480 GTTGTAATTG
Statistics
Matches: 32, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
12 1 0.03
13 11 0.34
15 8 0.25
17 11 0.34
18 1 0.03
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:7983246 original size:3 final size:3
Alignment explanation
Indices: 7983240--7983290 Score: 93
Period size: 3 Copynumber: 17.0 Consensus size: 3
7983230 TATCATCATC
*
7983240 ATT ATT ATT ATT ACT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
7983288 ATT
1 ATT
7983291 TATTTTGGCT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:7985935 original size:19 final size:19
Alignment explanation
Indices: 7985908--7985952 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
7985898 CATTTGACAC
7985908 AATTATTTAATAACTTATA
1 AATTATTTAATAACTTATA
* * *
7985927 AATTTTTTATTAATTTATA
1 AATTATTTAATAACTTATA
7985946 AGATTAT
1 A-ATTAT
7985953 GTTTATATTA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (19 bp):
AATTATTTAATAACTTATA
Found at i:7998506 original size:44 final size:44
Alignment explanation
Indices: 7998458--7998864 Score: 566
Period size: 44 Copynumber: 9.2 Consensus size: 44
7998448 CCACTATTGC
* *
7998458 TCAGGGAGACAGGA-TCTACAATCTTCAACCTATTCCACTGCTGT
1 TCAGGGAGATAGGACT-TACAATCTTCAACCTATTCCACTGCTGG
* * * * *
7998502 TCAGGGAGATAAGACATACAATCTTCCACCTATTCCACTGTTGT
1 TCAGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGG
* * * *
7998546 TCAGGGAGCTAGGACTTACAATCTTCCACCCATTCCACTGCTGT
1 TCAGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGG
* * *
7998590 TCAGGGAGCTAGGACTTACAATCTTCCACCTATTCCACTACT-G
1 TCAGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGG
* *
7998633 TCCAGGGAGATATGACTTACAATCTTCCACCTATTCCACTGCTGG
1 T-CAGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGG
* * * *
7998678 TCAGGGAGATAGGAGTTGCAATCTTCAACCTATTTCACTACTGG
1 TCAGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGG
* *
7998722 TCAGGGAGATAGGACTTACAATCTTCAACCTCTTTCACTGCTGG
1 TCAGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGG
7998766 TCAGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGG
1 TCAGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGG
*
7998810 TCAGGGAGATAGGACTCACAATCTTCAACCTATTCCACTGCTGG
1 TCAGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGG
*
7998854 CCAGGGAGATA
1 TCAGGGAGATA
7998865 AGGCTTTGTG
Statistics
Matches: 330, Mismatches: 30, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
43 1 0.00
44 327 0.99
45 2 0.01
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.28
Consensus pattern (44 bp):
TCAGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGG
Found at i:8018617 original size:23 final size:22
Alignment explanation
Indices: 8018591--8018635 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
8018581 ATGCATTTAC
8018591 TATTTACTTTCTTA-TTATTTCTT
1 TATTT-CTTT-TTAGTTATTTCTT
8018614 TATTTCTTTTTAGTTTATTTCT
1 TATTTCTTTTTAG-TTATTTCT
8018636 ATCATTATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 3 0.15
22 4 0.20
23 13 0.65
ACGTcount: A:0.16, C:0.11, G:0.02, T:0.71
Consensus pattern (22 bp):
TATTTCTTTTTAGTTATTTCTT
Found at i:8020883 original size:16 final size:15
Alignment explanation
Indices: 8020857--8020911 Score: 67
Period size: 16 Copynumber: 3.6 Consensus size: 15
8020847 AAAGAATTAA
8020857 AAAAAGAAACAAAGG
1 AAAAAGAAACAAAGG
*
8020872 AGAAACGAAACAGAAGG
1 A-AAAAGAAACA-AAGG
*
8020889 AAAAAGAAAGAAA-G
1 AAAAAGAAACAAAGG
8020903 AAAAAGAAA
1 AAAAAGAAA
8020912 AGGGAGAAAG
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
14 10 0.29
15 3 0.09
16 17 0.49
17 5 0.14
ACGTcount: A:0.73, C:0.05, G:0.22, T:0.00
Consensus pattern (15 bp):
AAAAAGAAACAAAGG
Found at i:8021960 original size:23 final size:23
Alignment explanation
Indices: 8021933--8021982 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
8021923 GCTTTCTGAA
* *
8021933 ATATGGCTCTCTAGAGCTTCCCG
1 ATATGGCTCGCTAGAACTTCCCG
* *
8021956 ATATGGCTCGCTTGAACTTCTCG
1 ATATGGCTCGCTAGAACTTCCCG
8021979 ATAT
1 ATAT
8021983 ATGGCTCTTC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.20, C:0.26, G:0.20, T:0.34
Consensus pattern (23 bp):
ATATGGCTCGCTAGAACTTCCCG
Found at i:8030065 original size:50 final size:50
Alignment explanation
Indices: 8029990--8030091 Score: 143
Period size: 50 Copynumber: 2.0 Consensus size: 50
8029980 CATGGTTTGA
* *
8029990 ATTTTGTCATTGTTTAAGTAATGAAAGCGTA-AAAATTTATACCTTAGAT
1 ATTTTATCATTGTTTAAGTAATGAAAGCGTATAAAATTTATACATTAGAT
* * *
8030039 ATTTTATCATTGTTTTAAGTAATGAAAGTGTATAAATTTTATAGATTAGAT
1 ATTTTATCATTG-TTTAAGTAATGAAAGCGTATAAAATTTATACATTAGAT
8030090 AT
1 AT
8030092 AAAGTATTTA
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
49 11 0.24
50 18 0.39
51 17 0.37
ACGTcount: A:0.37, C:0.05, G:0.14, T:0.44
Consensus pattern (50 bp):
ATTTTATCATTGTTTAAGTAATGAAAGCGTATAAAATTTATACATTAGAT
Found at i:8031784 original size:32 final size:30
Alignment explanation
Indices: 8031730--8031809 Score: 92
Period size: 32 Copynumber: 2.6 Consensus size: 30
8031720 TAATTTGTCC
* *
8031730 TCTGAACTTG-TC-CAAAGTACCTAGTTGATG
1 TCTGAACTTGTTCAAAAAGTACCTAATTG--G
8031760 TCTGAACTTGTTCAAAAAGTACCTAATTGG
1 TCTGAACTTGTTCAAAAAGTACCTAATTGG
8031790 TACTTGAACTTGTTCAAAAA
1 T-C-TGAACTTGTTCAAAAA
8031810 ATTGTACATT
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
30 12 0.27
31 3 0.07
32 29 0.66
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (30 bp):
TCTGAACTTGTTCAAAAAGTACCTAATTGG
Found at i:8044542 original size:18 final size:18
Alignment explanation
Indices: 8044513--8044554 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
8044503 TGTTTATGTA
* *
8044513 TATACTTTTTTAAATTTT
1 TATAATTTTTAAAATTTT
8044531 TCATAATTTTTAAAATTTT
1 T-ATAATTTTTAAAATTTT
8044550 TATAA
1 TATAA
8044555 ACCACGCATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.60
Consensus pattern (18 bp):
TATAATTTTTAAAATTTT
Found at i:8045184 original size:31 final size:31
Alignment explanation
Indices: 8045149--8045212 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
8045139 CTTAACAACC
*
8045149 CAATGACTTAAATAAAAACTTTTGAATAGTT
1 CAATGACTTAAATAAAAACTTTTCAATAGTT
*
8045180 CAATGACTTAAATGAAAACTTTTCAATAGTT
1 CAATGACTTAAATAAAAACTTTTCAATAGTT
8045211 CA
1 CA
8045213 GTGATCAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.34
Consensus pattern (31 bp):
CAATGACTTAAATAAAAACTTTTCAATAGTT
Found at i:8045232 original size:30 final size:31
Alignment explanation
Indices: 8045149--8045222 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 31
8045139 CTTAACAACC
* * *
8045149 CAATGACTTAAATAAAAACTTTTGAATAGTT
1 CAATGACTCAAATGAAAACTTTTCAATAGTT
*
8045180 CAATGACTTAAATGAAAACTTTTCAATAGTT
1 CAATGACTCAAATGAAAACTTTTCAATAGTT
*
8045211 CAGTGA-TCAAAT
1 CAATGACTCAAAT
8045223 TGTAACTTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 5 0.13
31 34 0.87
ACGTcount: A:0.43, C:0.12, G:0.11, T:0.34
Consensus pattern (31 bp):
CAATGACTCAAATGAAAACTTTTCAATAGTT
Found at i:8054749 original size:2 final size:2
Alignment explanation
Indices: 8054742--8054805 Score: 128
Period size: 2 Copynumber: 32.0 Consensus size: 2
8054732 AAACACCCTC
8054742 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
8054784 CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT
8054806 TGGCTCTTAA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 62 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:8059950 original size:21 final size:21
Alignment explanation
Indices: 8059924--8059963 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
8059914 CAATCTATTA
8059924 TGTTTGTAGGTTTATAAAAAT
1 TGTTTGTAGGTTTATAAAAAT
*
8059945 TGTTTGTGGGTTTATAAAA
1 TGTTTGTAGGTTTATAAAA
8059964 TATGTATGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.00, G:0.23, T:0.47
Consensus pattern (21 bp):
TGTTTGTAGGTTTATAAAAAT
Found at i:8063340 original size:17 final size:17
Alignment explanation
Indices: 8063320--8063354 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
8063310 CATCTAGCGT
8063320 CAATAAAGGTACTTTTA
1 CAATAAAGGTACTTTTA
*
8063337 CAATGAAGGTACTTTTA
1 CAATAAAGGTACTTTTA
8063354 C
1 C
8063355 GATCCATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.34
Consensus pattern (17 bp):
CAATAAAGGTACTTTTA
Found at i:8068346 original size:33 final size:32
Alignment explanation
Indices: 8068270--8068351 Score: 85
Period size: 33 Copynumber: 2.5 Consensus size: 32
8068260 AGTATAGATA
* * * *
8068270 CATGTGTAAAACCATAGCTAGGCTATGGCATT
1 CATGTGTAAGACCATAACTAGGCTATGACATG
*
8068302 C-TGATGATAAGACCATAACTAGGTTATGACAATG
1 CATG-TG-TAAGACCATAACTAGGCTATGAC-ATG
8068336 CATGTGTAAGACCATA
1 CATGTGTAAGACCATA
8068352 GTAGGACTAT
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
31 2 0.05
32 3 0.07
33 29 0.71
34 5 0.12
35 2 0.05
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (32 bp):
CATGTGTAAGACCATAACTAGGCTATGACATG
Found at i:8069653 original size:21 final size:21
Alignment explanation
Indices: 8069629--8069678 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
8069619 TAATTATTCA
8069629 TATATGTTTTCACTATTTACT
1 TATATGTTTTCACTATTTACT
*
8069650 TATATGTTTTCAGTATTTACT
1 TATATGTTTTCACTATTTACT
8069671 TATATGTT
1 TATATGTT
8069679 CCTTCAAAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.24, C:0.10, G:0.08, T:0.58
Consensus pattern (21 bp):
TATATGTTTTCACTATTTACT
Found at i:8076099 original size:47 final size:48
Alignment explanation
Indices: 8075989--8076099 Score: 145
Period size: 48 Copynumber: 2.3 Consensus size: 48
8075979 AGGTGAAAGA
* * * *
8075989 ATGTGGCAGCTTATCTGCAAAAGTGGTGGCTTGTCCACAAATTTTGTT
1 ATGTGGCAGTTTATCTACAAAAGTCGAGGCTTGTCCACAAATTTTGTT
*
8076037 ATGTGGCAGTATATCTACAAAAGTCGAGGCTTGTCCAC-AA-TTTGATT
1 ATGTGGCAGTTTATCTACAAAAGTCGAGGCTTGTCCACAAATTTTG-TT
*
8076084 ATGTGACAGTTTATCT
1 ATGTGGCAGTTTATCT
8076100 GCATTACCAT
Statistics
Matches: 55, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
46 4 0.07
47 18 0.33
48 33 0.60
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (48 bp):
ATGTGGCAGTTTATCTACAAAAGTCGAGGCTTGTCCACAAATTTTGTT
Found at i:8079197 original size:11 final size:11
Alignment explanation
Indices: 8079181--8079205 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
8079171 ATCTTTATTA
8079181 TTTAGAACTTG
1 TTTAGAACTTG
8079192 TTTAGAACTTG
1 TTTAGAACTTG
8079203 TTT
1 TTT
8079206 TCAAAGTACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.08, G:0.16, T:0.52
Consensus pattern (11 bp):
TTTAGAACTTG
Found at i:8087744 original size:25 final size:25
Alignment explanation
Indices: 8087714--8087761 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
8087704 ACATACCATA
*
8087714 GCTCTTTGTGAGCGTCCCGATATAG
1 GCTCTTTATGAGCGTCCCGATATAG
* *
8087739 GCTCTTTATGAGCTTCCTGATAT
1 GCTCTTTATGAGCGTCCCGATAT
8087762 GCCTCGCTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.38
Consensus pattern (25 bp):
GCTCTTTATGAGCGTCCCGATATAG
Found at i:8090165 original size:22 final size:22
Alignment explanation
Indices: 8090135--8090189 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
8090125 TCTAGTCGCT
*
8090135 ATGTTGCAACACAGGGAGTGTG
1 ATGTCGCAACACAGGGAGTGTG
**
8090157 ATGTCGCAATGCAGGGAGTGTG
1 ATGTCGCAACACAGGGAGTGTG
*
8090179 ATGTCACAACA
1 ATGTCGCAACA
8090190 TAGGAGCAGA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.29, C:0.16, G:0.33, T:0.22
Consensus pattern (22 bp):
ATGTCGCAACACAGGGAGTGTG
Found at i:8093737 original size:29 final size:29
Alignment explanation
Indices: 8093703--8093802 Score: 137
Period size: 29 Copynumber: 3.3 Consensus size: 29
8093693 TATATACAAT
*
8093703 ATATATATGCGCGGGTTTTGTTATATATA
1 ATATATATGCGTGGGTTTTGTTATATATA
* *
8093732 ATATATATGAGTGGGTTTTGATATATATA
1 ATATATATGCGTGGGTTTTGTTATATATA
*
8093761 ATATATATGCGTGGGTCTTGATTATATATATA
1 ATATATATGCGTGGGTTTTG--T-TATATATA
8093793 ATATATATGC
1 ATATATATGC
8093803 ATATATGAGT
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
29 44 0.71
32 18 0.29
ACGTcount: A:0.32, C:0.05, G:0.19, T:0.44
Consensus pattern (29 bp):
ATATATATGCGTGGGTTTTGTTATATATA
Found at i:8094152 original size:18 final size:18
Alignment explanation
Indices: 8094084--8094154 Score: 79
Period size: 18 Copynumber: 3.9 Consensus size: 18
8094074 CATGTTAACT
* *
8094084 TGGCGAATTATATTACTA
1 TGGCGAATTGTATTAATA
* *
8094102 TGGCGAATTGTGTTAATT
1 TGGCGAATTGTATTAATA
* * *
8094120 TGGTGATTTGCATTAATA
1 TGGCGAATTGTATTAATA
8094138 TGGCGAATTGTATTAAT
1 TGGCGAATTGTATTAAT
8094155 TTGCCAAACT
Statistics
Matches: 41, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 41 1.00
ACGTcount: A:0.28, C:0.07, G:0.23, T:0.42
Consensus pattern (18 bp):
TGGCGAATTGTATTAATA
Found at i:8094869 original size:34 final size:34
Alignment explanation
Indices: 8094820--8094922 Score: 120
Period size: 34 Copynumber: 3.0 Consensus size: 34
8094810 TACGATGTGG
* *
8094820 TATGAATGAATTATTATATTGAATGAACTGTTA-
1 TATGCATGAACTATTATATTGAATGAACTGTTAT
*
8094853 TATTGTATGAACTATTATATTGAATGAACTGTTAT
1 TA-TGCATGAACTATTATATTGAATGAACTGTTAT
* * *
8094888 TATGCATGAACTGTTAT-TTCATATGAATTGTTAT
1 TATGCATGAACTATTATATTGA-ATGAACTGTTAT
8094922 T
1 T
8094923 TTATGCGAAC
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
33 5 0.08
34 54 0.89
35 2 0.03
ACGTcount: A:0.34, C:0.06, G:0.15, T:0.46
Consensus pattern (34 bp):
TATGCATGAACTATTATATTGAATGAACTGTTAT
Found at i:8094905 original size:17 final size:17
Alignment explanation
Indices: 8094822--8094904 Score: 105
Period size: 17 Copynumber: 4.9 Consensus size: 17
8094812 CGATGTGGTA
* *
8094822 TGAATGAATTATTATAT
1 TGAATGAACTGTTATAT
8094839 TGAATGAACTGTTATAT
1 TGAATGAACTGTTATAT
* *
8094856 TGTATGAACTATTATAT
1 TGAATGAACTGTTATAT
8094873 TGAATGAACTGTTAT-T
1 TGAATGAACTGTTATAT
*
8094889 ATGCATGAACTGTTAT
1 -TGAATGAACTGTTAT
8094905 TTCATATGAA
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
16 1 0.02
17 57 0.98
ACGTcount: A:0.35, C:0.06, G:0.16, T:0.43
Consensus pattern (17 bp):
TGAATGAACTGTTATAT
Found at i:8094913 original size:17 final size:16
Alignment explanation
Indices: 8094842--8094927 Score: 70
Period size: 17 Copynumber: 5.2 Consensus size: 16
8094832 ATTATATTGA
*
8094842 ATGAACTGTTATATTGT
1 ATGAACTGTTAT-TTAT
*
8094859 ATGAACTATTATATTGA-
1 ATGAACTGTTAT-TT-AT
8094876 ATGAACTGTTA-TTAT
1 ATGAACTGTTATTTAT
8094891 GCATGAACTGTTATTTCAT
1 --ATGAACTGTTATTT-AT
*
8094910 ATGAATTGTTATTT-T
1 ATGAACTGTTATTTAT
8094925 ATG
1 ATG
8094928 CGAACTACCT
Statistics
Matches: 59, Mismatches: 4, Indels: 14
0.77 0.05 0.18
Matches are distributed among these distances:
14 1 0.02
15 6 0.10
17 48 0.81
18 2 0.03
19 2 0.03
ACGTcount: A:0.31, C:0.07, G:0.15, T:0.47
Consensus pattern (16 bp):
ATGAACTGTTATTTAT
Found at i:8095540 original size:22 final size:23
Alignment explanation
Indices: 8095515--8095558 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
8095505 TGAACTAATT
8095515 AAATG-ATGATGATTTT-ATGAAG
1 AAATGCATGATG-TTTTAATGAAG
8095537 AAATGCATGATGTTTTAATGAA
1 AAATGCATGATGTTTTAATGAA
8095559 TCTTCCTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.41, C:0.02, G:0.20, T:0.36
Consensus pattern (23 bp):
AAATGCATGATGTTTTAATGAAG
Found at i:8112474 original size:25 final size:25
Alignment explanation
Indices: 8112439--8112487 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
8112429 GTATATTTAA
*
8112439 TAATTAGTAATTTAATTTTAAAAAG
1 TAATTAATAATTTAATTTTAAAAAG
*
8112464 TAATTAATAATTTATTTTTAAAAA
1 TAATTAATAATTTAATTTTAAAAA
8112488 TATTAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (25 bp):
TAATTAATAATTTAATTTTAAAAAG
Found at i:8113549 original size:19 final size:19
Alignment explanation
Indices: 8113510--8113549 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
8113500 CTTATTTATC
8113510 ATTTTATTTTTTTAGAATTA
1 ATTTTATTTTTTTAG-ATTA
8113530 ATTTTAGTTTTTTTAG-TTA
1 ATTTTA-TTTTTTTAGATTA
8113549 A
1 A
8113550 AGGGAAAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 6 0.32
21 9 0.47
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.65
Consensus pattern (19 bp):
ATTTTATTTTTTTAGATTA
Found at i:8113772 original size:48 final size:48
Alignment explanation
Indices: 8113715--8113814 Score: 200
Period size: 48 Copynumber: 2.1 Consensus size: 48
8113705 AAAATTATCT
8113715 TTTTAATTTCCTTTAATTTTATTCATTTTCTAGAACTAATTGTAAATA
1 TTTTAATTTCCTTTAATTTTATTCATTTTCTAGAACTAATTGTAAATA
8113763 TTTTAATTTCCTTTAATTTTATTCATTTTCTAGAACTAATTGTAAATA
1 TTTTAATTTCCTTTAATTTTATTCATTTTCTAGAACTAATTGTAAATA
8113811 TTTT
1 TTTT
8113815 CCCACTAAAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 52 1.00
ACGTcount: A:0.30, C:0.10, G:0.04, T:0.56
Consensus pattern (48 bp):
TTTTAATTTCCTTTAATTTTATTCATTTTCTAGAACTAATTGTAAATA
Found at i:8114121 original size:13 final size:14
Alignment explanation
Indices: 8114103--8114135 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
8114093 CAATATGTGA
8114103 ATAGTTTTTAA-TG
1 ATAGTTTTTAACTG
8114116 ATAGTTTTTAACTG
1 ATAGTTTTTAACTG
8114130 -TAGTTT
1 ATAGTTT
8114136 GGTAACCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 17 0.89
14 2 0.11
ACGTcount: A:0.27, C:0.03, G:0.15, T:0.55
Consensus pattern (14 bp):
ATAGTTTTTAACTG
Found at i:8118408 original size:44 final size:44
Alignment explanation
Indices: 8118352--8119041 Score: 206
Period size: 44 Copynumber: 15.6 Consensus size: 44
8118342 TTGGGGAGGT
*
8118352 AAGACCTGTATCTTCGATCTACTTCA-CACTAGTATGGGAAGAC
1 AAGATCTGTATCTTCGATCTACTTCATCACTAGTATGGGAAGAC
* * * * *
8118395 ATGGTCTGCTATC-TCTGATCTACTTAATGTCAATA-CAT--GAAGAC
1 AAGATCTG-TATCTTC-GATCTACTTCA--TCACTAGTATGGGAAGAC
* *
8118439 AAGATCCAT-TATCTTCGATCTACTTCACCACCAGTATGGGAAGAC
1 AAGAT-C-TGTATCTTCGATCTACTTCATCACTAGTATGGGAAGAC
* * *
8118484 AAGATCTGTCATCTTTGATCTACTTCATGTCAATA-CAT--GAAGAC
1 AAGATCTGT-ATCTTCGATCTACTTCA--TCACTAGTATGGGAAGAC
** * *
8118528 AAGATCCACTATC-TCTGATCTACTTCATGTCAATA-CAT--GAAGAC
1 AAGAT-CTGTATCTTC-GATCTACTTCA--TCACTAGTATGGGAAGAC
* * *
8118572 AAGATCCAT-TATCTTCGATCTACTTCATGTCAATA-CAT--GTAGAC
1 AAGAT-C-TGTATCTTCGATCTACTTCA--TCACTAGTATGGGAAGAC
* * * * *
8118616 AAGATCCGCTATCTTCGATCTACTTTAT-A-TCAATACGTGAAGAC
1 AAGATCTG-TATCTTCGATCTACTTCATCACT-AGTATGGGAAGAC
* * *
8118660 AAGATCTGCTATCTTGGATCTACTTCATGTCAATA-CAT--GAAGAC
1 AAGATCTG-TATCTTCGATCTACTTCA--TCACTAGTATGGGAAGAC
* * *
8118704 AAGATCCAT-TATC-TCTGATCTACTTTATGTCAATA-CAT--GAAGAC
1 AAGAT-C-TGTATCTTC-GATCTACTTCA--TCACTAGTATGGGAAGAC
* * * * *
8118748 AAGATCCGCTATCTTCGATCTACTCCATGTCAATA-CAT--AAAGAC
1 AAGATCTG-TATCTTCGATCTACTTCA--TCACTAGTATGGGAAGAC
* *
8118792 AAGATTCAT-TATC-TCTGATCTACTTCATGTCAATA-CAT--GAAGAC
1 AAGA-TC-TGTATCTTC-GATCTACTTCA--TCACTAGTATGGGAAGAC
* * * * *
8118836 AAGATCTATTATCTTTGATCTACTTCACCACCAGTATGGGAAGAT
1 AAGATCT-GTATCTTCGATCTACTTCATCACTAGTATGGGAAGAC
* * *
8118881 AAGATCCGCTATCTTCGATCTACTTCATGTCAATA-CAT--GAAGAC
1 AAGATCTG-TATCTTCGATCTACTTCA--TCACTAGTATGGGAAGAC
* *
8118925 AAGATGCAT-TATC-TCTGATCTACTTCATGTCAAT-GCAT--GAAGAC
1 AAGAT-C-TGTATCTTC-GATCTACTTCA--TCACTAGTATGGGAAGAC
** * **
8118969 AAGATCCATCATCTTCGATCTACTTCACCACCGGTATGGGAAGAC
1 AAGATCTGT-ATCTTCGATCTACTTCATCACTAGTATGGGAAGAC
8119014 AAGATCTGCTATCTTCGATCTACTTCAT
1 AAGATCTG-TATCTTCGATCTACTTCAT
8119042 GTCAATACAT
Statistics
Matches: 524, Mismatches: 65, Indels: 114
0.75 0.09 0.16
Matches are distributed among these distances:
40 1 0.00
41 2 0.00
42 11 0.02
43 27 0.05
44 359 0.69
45 100 0.19
46 11 0.02
47 12 0.02
48 1 0.00
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.31
Consensus pattern (44 bp):
AAGATCTGTATCTTCGATCTACTTCATCACTAGTATGGGAAGAC
Found at i:8118454 original size:88 final size:86
Alignment explanation
Indices: 8118360--8119064 Score: 681
Period size: 88 Copynumber: 8.0 Consensus size: 86
8118350 GTAAGACCTG
* * * * *
8118360 TATCTTCGATCTACTTCA-CACTAGTATGGGAAGACATGGTCTGCTATC-TCTGATCTACTTAAT
1 TATCTTCGATCTACTTCATCAATA-CAT--GAAGACAAGATCTGCTATCTTC-GATCTACTTCAT
8118423 GTCAATACATGAAGACAAGATCCAT
62 GTCAATACATGAAGACAAGATCCAT
* *** *
8118448 TATCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTG-TCATCTTTGATCTACTTCAT
1 TATCTTCGATCTACTTCATCA--A-TACATGAAGACAAGATCTGCT-ATCTTCGATCTACTTCAT
*
8118512 GTCAATACATGAAGACAAGATCCAC
62 GTCAATACATGAAGACAAGATCCAT
***
8118537 TATC-TCTGATCTACTTCATGTCAATACATGAAGACAAGATCCATTATCTTCGATCTACTTCATG
1 TATCTTC-GATCTACTTCA--TCAATACATGAAGACAAGATCTGCTATCTTCGATCTACTTCATG
* **
8118601 TCAATACATGTAGACAAGATCCGC
63 TCAATACATGAAGACAAGATCCAT
* * *
8118625 TATCTTCGATCTACTTTATATCAATACGTGAAGACAAGATCTGCTATCTTGGATCTACTTCATGT
1 TATCTTCGATCTAC-TT-CATCAATACATGAAGACAAGATCTGCTATCTTCGATCTACTTCATGT
8118690 CAATACATGAAGACAAGATCCAT
64 CAATACATGAAGACAAGATCCAT
* * *
8118713 TATC-TCTGATCTACTTTATGTCAATACATGAAGACAAGATCCGCTATCTTCGATCTACTCCATG
1 TATCTTC-GATCTACTTCA--TCAATACATGAAGACAAGATCTGCTATCTTCGATCTACTTCATG
* *
8118777 TCAATACATAAAGACAAGATTCAT
63 TCAATACATGAAGACAAGATCCAT
** * *
8118801 TATC-TCTGATCTACTTCATGTCAATACATGAAGACAAGATCTATTATCTTTGATCTACTTCACC
1 TATCTTC-GATCTACTTCA--TCAATACATGAAGACAAGATCTGCTATCTTCGATCTACTTCA-T
** * *** * **
8118865 ACCAGTATGGGAAGATAAGATCCGC
62 GTCAATACATGAAGACAAGATCCAT
8118890 TATCTTCGATCTACTTCATGTCAATACATGAAGACAAGA--TGCATTATC-TCTGATCTACTTCA
1 TATCTTCGATCTACTTCA--TCAATACATGAAGACAAGATCTGC--TATCTTC-GATCTACTTCA
*
8118952 TGTCAATGCATGAAGACAAGATCCAT
61 TGTCAATACATGAAGACAAGATCCAT
* * * ***
8118978 CATCTTCGATCTACTTCACCACCGGTATGGGAAGACAAGATCTGCTATCTTCGATCTACTTCATG
1 TATCTTCGATCTACTTCATCA---ATACATGAAGACAAGATCTGCTATCTTCGATCTACTTCATG
*
8119043 TCAATACATAAAGACAAGATCC
63 TCAATACATGAAGACAAGATCC
8119065 GCTGCTTTTC
Statistics
Matches: 518, Mismatches: 72, Indels: 53
0.81 0.11 0.08
Matches are distributed among these distances:
86 4 0.01
87 5 0.01
88 308 0.59
89 187 0.36
90 6 0.01
91 6 0.01
92 2 0.00
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.31
Consensus pattern (86 bp):
TATCTTCGATCTACTTCATCAATACATGAAGACAAGATCTGCTATCTTCGATCTACTTCATGTCA
ATACATGAAGACAAGATCCAT
Found at i:8118540 original size:133 final size:133
Alignment explanation
Indices: 8118403--8119064 Score: 920
Period size: 133 Copynumber: 5.0 Consensus size: 133
8118393 ACATGGTCTG
*
8118403 CTATCTCTGATCTACTTAATGTCAATACATGAAGACAAGATCCATTATCTTCGATCTACTTCACC
1 CTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCCATTATCTTCGATCTACTTCACC
* *
8118468 ACCAGTATGGGAAGACAAGATCTG-TCATCTTTGATCTACTTCATGTCAATACATGAAGACAAGA
66 ACCAGTATGGGAAGACAAGATCCGCT-ATCTTCGATCTACTTCATGTCAATACATGAAGACAAGA
8118532 TCCA
130 TCCA
*
8118536 CTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCCATTATCTTCGATCTACTTCA-T
1 CTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCCATTATCTTCGATCTACTTCACC
** * *** * * * *
8118600 GTCAATACATGTAGACAAGATCCGCTATCTTCGATCTACTTTATATCAATACGTGAAGACAAGAT
66 ACCAGTATGGGAAGACAAGATCCGCTATCTTCGATCTACTTCATGTCAATACATGAAGACAAGAT
**
8118665 CTG
131 CCA
*
8118668 CTATCT-TGGATCTACTTCATGTCAATACATGAAGACAAGATCCATTATC-TCTGATCTACTTTA
1 CTATCTCT-GATCTACTTCATGTCAATACATGAAGACAAGATCCATTATCTTC-GATCTACTTCA
*** * *** * *
8118731 -TGTCAATACATGAAGACAAGATCCGCTATCTTCGATCTACTCCATGTCAATACATAAAGACAAG
64 CCACCAGTATGGGAAGACAAGATCCGCTATCTTCGATCTACTTCATGTCAATACATGAAGACAAG
*
8118795 ATTCA
129 ATCCA
* * *
8118800 TTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCTATTATCTTTGATCTACTTCACC
1 CTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCCATTATCTTCGATCTACTTCACC
*
8118865 ACCAGTATGGGAAGATAAGATCCGCTATCTTCGATCTACTTCATGTCAATACATGAAGACAAGAT
66 ACCAGTATGGGAAGACAAGATCCGCTATCTTCGATCTACTTCATGTCAATACATGAAGACAAGAT
*
8118930 GCA
131 CCA
* * *
8118933 TTATCTCTGATCTACTTCATGTCAATGCATGAAGACAAGATCCATCATCTTCGATCTACTTCACC
1 CTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCCATTATCTTCGATCTACTTCACC
* * *
8118998 ACCGGTATGGGAAGACAAGATCTGCTATCTTCGATCTACTTCATGTCAATACATAAAGACAAGAT
66 ACCAGTATGGGAAGACAAGATCCGCTATCTTCGATCTACTTCATGTCAATACATGAAGACAAGAT
8119063 CC
131 CC
8119065 GCTGCTTTTC
Statistics
Matches: 473, Mismatches: 50, Indels: 12
0.88 0.09 0.02
Matches are distributed among these distances:
131 3 0.01
132 224 0.47
133 246 0.52
ACGTcount: A:0.32, C:0.23, G:0.13, T:0.31
Consensus pattern (133 bp):
CTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCCATTATCTTCGATCTACTTCACC
ACCAGTATGGGAAGACAAGATCCGCTATCTTCGATCTACTTCATGTCAATACATGAAGACAAGAT
CCA
Found at i:8120374 original size:14 final size:15
Alignment explanation
Indices: 8120351--8120396 Score: 62
Period size: 14 Copynumber: 3.3 Consensus size: 15
8120341 AGCCTCTCTA
8120351 TTTT-ACTTTTTCCT
1 TTTTCACTTTTTCCT
8120365 TTTTCA-TTTTTCC-
1 TTTTCACTTTTTCCT
*
8120378 TTTTCACTTTTTCAT
1 TTTTCACTTTTTCCT
8120393 TTTT
1 TTTT
8120397 TTCATTTCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
13 6 0.21
14 17 0.61
15 5 0.18
ACGTcount: A:0.09, C:0.20, G:0.00, T:0.72
Consensus pattern (15 bp):
TTTTCACTTTTTCCT
Found at i:8123492 original size:17 final size:17
Alignment explanation
Indices: 8123470--8123505 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
8123460 TTCTATGATG
*
8123470 AAATGTCATGCAGTCAA
1 AAATGTCATGCAGCCAA
8123487 AAATGTCATGCAGCCAA
1 AAATGTCATGCAGCCAA
8123504 AA
1 AA
8123506 CAAAACACAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.44, C:0.19, G:0.17, T:0.19
Consensus pattern (17 bp):
AAATGTCATGCAGCCAA
Found at i:8134625 original size:25 final size:25
Alignment explanation
Indices: 8134578--8134636 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
8134568 CAATCATCCT
* *
8134578 AATTTTTAATAGTAAAAATTAATAA
1 AATTTTTAACAGTAAAAACTAATAA
**
8134603 AATTTTTAACA-TAAAATACTAATTT
1 AATTTTTAACAGTAAAA-ACTAATAA
8134628 AATTTTTAA
1 AATTTTTAA
8134637 TCTAACGTAC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 5 0.17
25 24 0.83
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.44
Consensus pattern (25 bp):
AATTTTTAACAGTAAAAACTAATAA
Found at i:8137570 original size:26 final size:25
Alignment explanation
Indices: 8137536--8137636 Score: 109
Period size: 26 Copynumber: 4.0 Consensus size: 25
8137526 AAGACAAATG
8137536 AAATAAAATAATATAAAAAACAATTTA
1 AAAT-AAATAATATAAAAAA-AATTTA
* *
8137563 AAGTAAATAATAT--AAAAAGTTTA
1 AAATAAATAATATAAAAAAAATTTA
*
8137586 AAATAAATAATATATGAAAAAATTTA
1 AAATAAATAATATA-AAAAAAATTTA
8137612 AAATAAATAA-ATAAATAACAAATTT
1 AAATAAATAATATAAA-AA-AAATTT
8137637 GCAAAAAGTT
Statistics
Matches: 64, Mismatches: 5, Indels: 11
0.80 0.06 0.14
Matches are distributed among these distances:
23 17 0.27
24 5 0.08
25 5 0.08
26 34 0.53
27 3 0.05
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.29
Consensus pattern (25 bp):
AAATAAATAATATAAAAAAAATTTA
Found at i:8140050 original size:126 final size:126
Alignment explanation
Indices: 8139818--8140169 Score: 575
Period size: 126 Copynumber: 2.8 Consensus size: 126
8139808 ATTATTTCGA
8139818 GTTGACGTTTCTG-GTCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTG
1 GTTGACGTTTCTGAG-CAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTG
* *
8139882 TGAAATCGTGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTT
65 TGAAATCGCGCCCTCGTGGACGCGATTTTGCTACAGCAGGTCATGTAAGAAATAATTTTTTT
* * * *
8139944 -TCTGATC-TTTCTGAGCAAATAGTATAAAATTGTTTCTACGAGAATGCTATTTGAGAAGAAATT
1 GT-TGA-CGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATT
* * *
8140007 GTGAAATCGCACCCTCGTGGACACGATTTTGCTACAGCAGGTCATGTTAGAAATAATTTTTTT
64 GTGAAATCGCGCCCTCGTGGACGCGATTTTGCTACAGCAGGTCATGTAAGAAATAATTTTTTT
8140070 GTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGT
1 GTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGT
8140135 GAAATCGCGCCCTCGTGGACGCGATTTTGCTACAG
66 GAAATCGCGCCCTCGTGGACGCGATTTTGCTACAG
8140170 TAACAAGTTT
Statistics
Matches: 206, Mismatches: 15, Indels: 10
0.89 0.06 0.04
Matches are distributed among these distances:
125 2 0.01
126 201 0.98
127 3 0.01
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (126 bp):
GTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGT
GAAATCGCGCCCTCGTGGACGCGATTTTGCTACAGCAGGTCATGTAAGAAATAATTTTTTT
Found at i:8143301 original size:10 final size:10
Alignment explanation
Indices: 8143286--8143310 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
8143276 CAAATCTAAC
8143286 ATTATGTAAA
1 ATTATGTAAA
8143296 ATTATGTAAA
1 ATTATGTAAA
8143306 ATTAT
1 ATTAT
8143311 TAAGCCAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (10 bp):
ATTATGTAAA
Found at i:8143390 original size:56 final size:56
Alignment explanation
Indices: 8143302--8143630 Score: 456
Period size: 56 Copynumber: 5.9 Consensus size: 56
8143292 TAAAATTATG
8143302 TAAAATTATTAAG-CCAAAAAAATTGTGTTAATGGTTAGTAAAATTTATCAAATAAAC
1 TAAAATTATTAAGTCC--AAAAATTGTGTTAATGGTTAGTAAAATTTATCAAATAAAC
** * **
8143359 TAAAATTATTAAGTCCGGAAATTGTGCTAATGGTTAGTAAAA-TTATCAAA-ATATG
1 TAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTTATCAAATA-AAC
* *
8143414 TAAAATTATTAAG-CCAAAAATTGTATTAATGGTTAGTAAAATTTATGAAATAAAC
1 TAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTTATCAAATAAAC
* **
8143469 TAAAATTATTAAGTCCAGAAATTGTGTTAATGGTTAGTAAAA-TTATCAAA-ATATG
1 TAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTTATCAAATA-AAC
* * *
8143524 TAAAATTATTAAG-CCAAAAATTGTATTAATGGTTAGTAAAATTTATGACATAAAC
1 TAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTTATCAAATAAAC
8143579 TAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTTATCAAAT
1 TAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTTATCAAAT
8143631 TAAGTTACGT
Statistics
Matches: 237, Mismatches: 26, Indels: 19
0.84 0.09 0.07
Matches are distributed among these distances:
54 52 0.22
55 84 0.35
56 86 0.36
57 13 0.05
58 2 0.01
ACGTcount: A:0.46, C:0.06, G:0.12, T:0.35
Consensus pattern (56 bp):
TAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTTATCAAATAAAC
Found at i:8143493 original size:110 final size:110
Alignment explanation
Indices: 8143293--8143629 Score: 584
Period size: 110 Copynumber: 3.0 Consensus size: 110
8143283 AACATTATGT
* *
8143293 AAAATTATGTAAAATTATTAAGCCAAAAAAATTGTGTTAATGGTTAGTAAAATTTATCAAATAAA
1 AAAA-TATGTAAAATTATTAAGCC--AAAAATTGTATTAATGGTTAGTAAAATTTATGAAATAAA
* *
8143358 CTAAAATTATTAAGTCCGGAAATTGTGCTAATGGTTAGTAAAATTATC
63 CTAAAATTATTAAGTCCAGAAATTGTGTTAATGGTTAGTAAAATTATC
8143406 AAAATATGTAAAATTATTAAGCCAAAAATTGTATTAATGGTTAGTAAAATTTATGAAATAAACTA
1 AAAATATGTAAAATTATTAAGCCAAAAATTGTATTAATGGTTAGTAAAATTTATGAAATAAACTA
8143471 AAATTATTAAGTCCAGAAATTGTGTTAATGGTTAGTAAAATTATC
66 AAATTATTAAGTCCAGAAATTGTGTTAATGGTTAGTAAAATTATC
*
8143516 AAAATATGTAAAATTATTAAGCCAAAAATTGTATTAATGGTTAGTAAAATTTATGACATAAACTA
1 AAAATATGTAAAATTATTAAGCCAAAAATTGTATTAATGGTTAGTAAAATTTATGAAATAAACTA
*
8143581 AAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTTATC
66 AAATTATTAAGTCCAGAAATTGTGTTAATGGTTAGTAAAA-TTATC
8143627 AAA
1 AAA
8143630 TTAAGTTACG
Statistics
Matches: 217, Mismatches: 6, Indels: 4
0.96 0.03 0.02
Matches are distributed among these distances:
110 186 0.86
111 8 0.04
112 19 0.09
113 4 0.02
ACGTcount: A:0.46, C:0.06, G:0.12, T:0.35
Consensus pattern (110 bp):
AAAATATGTAAAATTATTAAGCCAAAAATTGTATTAATGGTTAGTAAAATTTATGAAATAAACTA
AAATTATTAAGTCCAGAAATTGTGTTAATGGTTAGTAAAATTATC
Found at i:8143650 original size:6 final size:6
Alignment explanation
Indices: 8143639--8143682 Score: 56
Period size: 6 Copynumber: 7.5 Consensus size: 6
8143629 ATTAAGTTAC
*
8143639 GTTAGG GTTAGG GTTAGG GTTTA-A GTTA-G GTTAGG GTTAGG GTT
1 GTTAGG GTTAGG GTTAGG G-TTAGG GTTAGG GTTAGG GTTAGG GTT
8143683 TTTAATTAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
5 7 0.21
6 24 0.71
7 3 0.09
ACGTcount: A:0.18, C:0.00, G:0.43, T:0.39
Consensus pattern (6 bp):
GTTAGG
Found at i:8143679 original size:35 final size:31
Alignment explanation
Indices: 8143628--8144226 Score: 546
Period size: 29 Copynumber: 19.7 Consensus size: 31
8143618 AAATTTATCA
* **
8143628 AATTAAGTTA-CGTTAGGGTTAGGGTTAGGGT
1 AATTAAGTTAGGGTTAGGGTTAGGGTTA-TTT
8143659 --TTAAGTTA-GGTTAGGGTTAGGGTT-TTT
1 AATTAAGTTAGGGTTAGGGTTAGGGTTATTT
*
8143686 AATTAAGTTA-TGTTAGGGTTAGGGTT-TTT
1 AATTAAGTTAGGGTTAGGGTTAGGGTTATTT
*
8143715 AATTAAGTTA-GGTTAGGGTTAGGGTTTTTAGTT
1 AATTAAGTTAGGGTTAGGGTTAGGG---TTATTT
*
8143748 AATTTAGGTTAGGGTTAGGGTTAGGGTT-TTT
1 AA-TTAAGTTAGGGTTAGGGTTAGGGTTATTT
8143779 AATTAAGTTA-GGTTAGGGTTAGGGTT-TTT
1 AATTAAGTTAGGGTTAGGGTTAGGGTTATTT
8143808 AATTAAGTTAGGTTAGGATTAGGGTTAGGGTT-TTT
1 AATTAAGTTA-G---GG-TTAGGGTTAGGGTTATTT
8143843 AATTAAGTTA-GGTTAGGTTAGGTTAGGGTT-TTT
1 AATTAAGTTAGGGTTA-G---GGTTAGGGTTATTT
*
8143876 AATTAATTTA-GGTTAGGGTTAGGGTT-TTT
1 AATTAAGTTAGGGTTAGGGTTAGGGTTATTT
* * *
8143905 AGTTAATTTA-GGTTAGGGTTAGGATT-TTT
1 AATTAAGTTAGGGTTAGGGTTAGGGTTATTT
8143934 AATTAAGTTA-GGTTAGGGTTAGGGTTAGAGTTTTT
1 AATTAAGTTAGGGTTAGGGTTAGGGTT--A---TTT
*
8143969 AATTAAGTTA-GATTAGGGTTAGGGTT-TTT
1 AATTAAGTTAGGGTTAGGGTTAGGGTTATTT
8143998 AATTAAGTTAGGGTTAGGGTTAGGGTTAGAGTTTT
1 AATTAAGTTAGGGTTAGGGTTAGGGTT--A--TTT
8144033 AATTAAGTTA-GGTTAGGGTTAGGGTT-TTT
1 AATTAAGTTAGGGTTAGGGTTAGGGTTATTT
* * * *
8144062 AGTTAGGTTA-GGTTAAGGTTAAGGTT-TTT
1 AATTAAGTTAGGGTTAGGGTTAGGGTTATTT
* *
8144091 AATTAATTTA-GGTTAGGGTTAAGGTT-TTT
1 AATTAAGTTAGGGTTAGGGTTAGGGTTATTT
* *
8144120 AGTTAATTTA-GGTTAGGGTTAGGGTT-TTT
1 AATTAAGTTAGGGTTAGGGTTAGGGTTATTT
* * *
8144149 AGTTAATTTA-GGTTAGGGTTA-GGTTTTTT
1 AATTAAGTTAGGGTTAGGGTTAGGGTTATTT
*
8144178 AATTAATTTA-GGTTAGGGTTAGGGTT-TTT
1 AATTAAGTTAGGGTTAGGGTTAGGGTTATTT
8144207 AATTAAGTTA-GGTTAGGGTT
1 AATTAAGTTAGGGTTAGGGTT
8144227 TTCAATTAAA
Statistics
Matches: 507, Mismatches: 29, Indels: 66
0.84 0.05 0.11
Matches are distributed among these distances:
27 1 0.00
28 4 0.01
29 326 0.64
30 29 0.06
31 4 0.01
32 5 0.01
33 31 0.06
34 25 0.05
35 82 0.16
ACGTcount: A:0.24, C:0.00, G:0.30, T:0.45
Consensus pattern (31 bp):
AATTAAGTTAGGGTTAGGGTTAGGGTTATTT
Found at i:8144240 original size:23 final size:23
Alignment explanation
Indices: 8144194--8144241 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
8144184 TTTAGGTTAG
* *
8144194 GGTTAGGGTTTTTAATTAAGTTA
1 GGTTAGGGTTTTCAATTAAATTA
8144217 GGTTAGGGTTTTCAATTAAATTA
1 GGTTAGGGTTTTCAATTAAATTA
8144240 GG
1 GG
8144242 GTATTTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.27, C:0.02, G:0.27, T:0.44
Consensus pattern (23 bp):
GGTTAGGGTTTTCAATTAAATTA
Found at i:8144320 original size:26 final size:25
Alignment explanation
Indices: 8144290--8144338 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
8144280 CTTCAAAAAT
8144290 TTCTATGCGTATTACATCAAATAAAC
1 TTCTAT-CGTATTACATCAAATAAAC
**
8144316 TTCTATTTTATTACATCAAATAA
1 TTCTATCGTATTACATCAAATAA
8144339 TAAATTTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 15 0.71
26 6 0.29
ACGTcount: A:0.39, C:0.16, G:0.04, T:0.41
Consensus pattern (25 bp):
TTCTATCGTATTACATCAAATAAAC
Found at i:8144779 original size:18 final size:18
Alignment explanation
Indices: 8144735--8144780 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
8144725 TATTCGGAAA
* *
8144735 AGGATACATGTAAGGGTT
1 AGGATACATATAAGGGCT
*
8144753 AGGGTACATATAAGGGCT
1 AGGATACATATAAGGGCT
*
8144771 AGGAAACATA
1 AGGATACATA
8144781 CCTGGCATCA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.39, C:0.09, G:0.30, T:0.22
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:8145435 original size:7 final size:7
Alignment explanation
Indices: 8145425--8145449 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
8145415 TTATATACAT
8145425 AATACTA
1 AATACTA
8145432 AATACTA
1 AATACTA
8145439 AATACTA
1 AATACTA
8145446 AATA
1 AATA
8145450 TCAATCGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:8146433 original size:15 final size:16
Alignment explanation
Indices: 8146408--8146438 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
8146398 ATAATTATCT
8146408 AAAAATACTTAAATAA
1 AAAAATACTTAAATAA
8146424 AAAAAT-CTTAAATAA
1 AAAAATACTTAAATAA
8146439 TAATTACAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (16 bp):
AAAAATACTTAAATAA
Found at i:8146573 original size:29 final size:30
Alignment explanation
Indices: 8146531--8146595 Score: 114
Period size: 29 Copynumber: 2.2 Consensus size: 30
8146521 ACCATTGATG
8146531 AAAATATAAAAAAATTTAAAATTATTTTAA
1 AAAATATAAAAAAATTTAAAATTATTTTAA
*
8146561 AAAATAT-AAAAAATTTATAATTATTTTAA
1 AAAATATAAAAAAATTTAAAATTATTTTAA
8146590 AAAATA
1 AAAATA
8146596 GATTTGAGAG
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 27 0.79
30 7 0.21
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (30 bp):
AAAATATAAAAAAATTTAAAATTATTTTAA
Found at i:8146634 original size:51 final size:50
Alignment explanation
Indices: 8146579--8146724 Score: 151
Period size: 51 Copynumber: 3.0 Consensus size: 50
8146569 AAAAATTTAT
8146579 AATTATTTTAAAAAATAGATTTGAGAGAATTTTGGAAGGAAATTGAGAGGA
1 AATTATTTT-AAAAATAGATTTGAGAGAATTTTGGAAGGAAATTGAGAGGA
** * * *
8146630 AATTAAAATTAAATATGGGTTTGAGAGAATTTTGGAAGGAAATTGAGA--A
1 AATT-ATTTTAAAAATAGATTTGAGAGAATTTTGGAAGGAAATTGAGAGGA
** **
8146679 AATT-TTGGAAGGA-A-A-TTGAGAGAATTTTGGAAGGAAATTGAGAGGA
1 AATTATTTTAAAAATAGATTTGAGAGAATTTTGGAAGGAAATTGAGAGGA
8146725 TTAGAGAGGA
Statistics
Matches: 79, Mismatches: 13, Indels: 11
0.77 0.13 0.11
Matches are distributed among these distances:
44 28 0.35
46 1 0.01
47 3 0.04
49 5 0.06
51 39 0.49
52 3 0.04
ACGTcount: A:0.44, C:0.00, G:0.27, T:0.29
Consensus pattern (50 bp):
AATTATTTTAAAAATAGATTTGAGAGAATTTTGGAAGGAAATTGAGAGGA
Found at i:8146675 original size:22 final size:22
Alignment explanation
Indices: 8146650--8146722 Score: 137
Period size: 22 Copynumber: 3.3 Consensus size: 22
8146640 AAATATGGGT
8146650 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
*
8146672 TTGAGAAAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
8146694 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
8146716 TTGAGAG
1 TTGAGAG
8146723 GATTAGAGAG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 49 1.00
ACGTcount: A:0.41, C:0.00, G:0.32, T:0.27
Consensus pattern (22 bp):
TTGAGAGAATTTTGGAAGGAAA
Found at i:8153638 original size:11 final size:11
Alignment explanation
Indices: 8153624--8153697 Score: 66
Period size: 11 Copynumber: 6.9 Consensus size: 11
8153614 ATTAAAAATG
8153624 TATTTTAAAAA
1 TATTTTAAAAA
8153635 TATTTTAAAAA
1 TATTTTAAAAA
8153646 TATTTT--AAA
1 TATTTTAAAAA
*
8153655 -A-TTAAAAAA
1 TATTTTAAAAA
* *
8153664 AATTTAAAAAAA
1 TATTT-TAAAAA
*
8153676 GTATTTTAAAAG
1 -TATTTTAAAAA
8153688 TATTTTAAAA
1 TATTTTAAAA
8153698 TTTAAAAAAT
Statistics
Matches: 53, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
7 2 0.04
8 1 0.02
9 6 0.11
10 1 0.02
11 29 0.55
12 10 0.19
13 4 0.08
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.41
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:8153646 original size:51 final size:51
Alignment explanation
Indices: 8153578--8153714 Score: 179
Period size: 51 Copynumber: 2.6 Consensus size: 51
8153568 TAAAATTAAA
*
8153578 AAAAATTATTTTGAAAATATTTTAAAATAAAAAAAAATT-AAAAATGTATTTT
1 AAAAA-TATTTT-AAAATATTTTAAAATAAAAAAAAATTAAAAAAAGTATTTT
*
8153630 AAAAATATTTTAAAAATATTTTAAAATTAAAAAAAATTTAAAAAAAGTATTTT
1 AAAAATATTTT-AAAATATTTTAAAA-TAAAAAAAAATTAAAAAAAGTATTTT
* **
8153683 AAAAGTATTTTAAAAT-TTAAAAAATAAAAAAA
1 AAAAATATTTTAAAATATTTTAAAATAAAAAAA
8153715 TTTATTATAT
Statistics
Matches: 77, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
50 8 0.10
51 26 0.34
52 21 0.27
53 22 0.29
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (51 bp):
AAAAATATTTTAAAATATTTTAAAATAAAAAAAAATTAAAAAAAGTATTTT
Done.