Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 23 of 325
Found at i:7038635 original size:33 final size:33
Alignment explanation
Indices: 7038555--7038742 Score: 163
Period size: 33 Copynumber: 5.8 Consensus size: 33
7038545 GTGGACTTTA
*
7038555 TCTGTGTTTACTGTCCCAACAGACTATCTCTAT
1 TCTGTGTTTACTGTCCTAACAGACTATCTCTAT
* * *
7038588 TATATG-TTAGCTGTCCTAACAGACTATCTCTGT
1 TCTGTGTTTA-CTGTCCTAACAGACTATCTCTAT
***
7038621 TCTGTGTTTACTGTCCTAGTGGACTA--TCTAT
1 TCTGTGTTTACTGTCCTAACAGACTATCTCTAT
* * * * *
7038652 TCTGCGTTTATTGTCCCAACAAACTATCTTTAT
1 TCTGTGTTTACTGTCCTAACAGACTATCTCTAT
* * *
7038685 TATGTGTTTATTGT-CTCAACAGATTATCTCT-T
1 TCTGTGTTTACTGTCCT-AACAGACTATCTCTAT
* *
7038717 T-TGTGTTTACTGTCCTAGCGGACTAT
1 TCTGTGTTTACTGTCCTAACAGACTAT
7038743 TTCTTTGGAT
Statistics
Matches: 121, Mismatches: 28, Indels: 14
0.74 0.17 0.09
Matches are distributed among these distances:
31 41 0.34
32 8 0.07
33 69 0.57
34 3 0.02
ACGTcount: A:0.21, C:0.21, G:0.15, T:0.43
Consensus pattern (33 bp):
TCTGTGTTTACTGTCCTAACAGACTATCTCTAT
Found at i:7038706 original size:97 final size:93
Alignment explanation
Indices: 7038532--7038743 Score: 268
Period size: 97 Copynumber: 2.2 Consensus size: 93
7038522 ACTTACCGGG
* * *
7038532 GTTTACTGTCCTGGTGGACT-TTATCTGTGTTTACTGTCCCAACAGACTATCTCTATTATATGTT
1 GTTTACTGTCCTAGTGGACTATTATCTGCGTTTACTGTCCCAACAAACTATCTCTATTATATGTT
7038596 AGCTGTCCTAACAGACTATCTCTGTTCTGT
66 AGCTGTCCTAACAGACTATCTCT-TT-TGT
* * *
7038626 GTTTACTGTCCTAGTGGACTATCTATTCTGCGTTTATTGTCCCAACAAACTATCTTTATTATGTG
1 GTTTACTGTCCTAGTGGACTAT-TA-TCTGCGTTTACTGTCCCAACAAACTATCTCTATTATATG
* *
7038691 TTTA-TTGT-CTCAACAGATTATCTCTTTTGT
64 -TTAGCTGTCCT-AACAGACTATCTCTTTTGT
*
7038721 GTTTACTGTCCTAGCGGACTATT
1 GTTTACTGTCCTAGTGGACTATT
7038744 TCTTTGGATG
Statistics
Matches: 104, Mismatches: 9, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
94 20 0.19
95 25 0.24
96 6 0.06
97 50 0.48
98 3 0.03
ACGTcount: A:0.20, C:0.21, G:0.16, T:0.43
Consensus pattern (93 bp):
GTTTACTGTCCTAGTGGACTATTATCTGCGTTTACTGTCCCAACAAACTATCTCTATTATATGTT
AGCTGTCCTAACAGACTATCTCTTTTGT
Found at i:7043291 original size:32 final size:32
Alignment explanation
Indices: 7043246--7043314 Score: 122
Period size: 32 Copynumber: 2.2 Consensus size: 32
7043236 GATCTACACA
7043246 GGCAATGTCAATCTGGGCGTGTGGGCCACATG
1 GGCAATGTCAATCTGGGCGTGTGGGCCACATG
7043278 GGCAATG-CTAATCTGGGCGTGTGGGCCACATG
1 GGCAATGTC-AATCTGGGCGTGTGGGCCACATG
7043310 GGCAA
1 GGCAA
7043315 ACCACACGAG
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
31 1 0.03
32 35 0.97
ACGTcount: A:0.20, C:0.22, G:0.38, T:0.20
Consensus pattern (32 bp):
GGCAATGTCAATCTGGGCGTGTGGGCCACATG
Found at i:7043330 original size:30 final size:32
Alignment explanation
Indices: 7043254--7043334 Score: 96
Period size: 32 Copynumber: 2.6 Consensus size: 32
7043244 CAGGCAATGT
* *
7043254 CAATCTGGGCGTGTGGGCCACATGGGCAATGC
1 CAATCTGAGCGTGTGGGCCACATGGGCAATAC
* *
7043286 TAATCTGGGCGTGTGGGCCACATGGGCAA-AC
1 CAATCTGAGCGTGTGGGCCACATGGGCAATAC
7043317 CACA-C-GAGCGTGTGGGCC
1 CA-ATCTGAGCGTGTGGGCC
7043335 CATTTATTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
30 12 0.27
31 3 0.07
32 29 0.66
ACGTcount: A:0.20, C:0.26, G:0.37, T:0.17
Consensus pattern (32 bp):
CAATCTGAGCGTGTGGGCCACATGGGCAATAC
Found at i:7044157 original size:11 final size:11
Alignment explanation
Indices: 7044141--7044187 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
7044131 CCACGTTAGC
7044141 AAATTATTTTA
1 AAATTATTTTA
*
7044152 AAATTATTGTA
1 AAATTATTTTA
*
7044163 AAA-AATTATTA
1 AAATTATT-TTA
*
7044174 AAATGATTTTA
1 AAATTATTTTA
7044185 AAA
1 AAA
7044188 CCATCATCGT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
10 3 0.10
11 24 0.80
12 3 0.10
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (11 bp):
AAATTATTTTA
Found at i:7059565 original size:31 final size:31
Alignment explanation
Indices: 7059527--7059586 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
7059517 TTCAACATTA
*
7059527 AACTATTCGAAAGTTTTCATTCAAGTCACTG
1 AACTATTCAAAAGTTTTCATTCAAGTCACTG
* * *
7059558 AACTATTCAAAATTTTTTATTTAAGTCAC
1 AACTATTCAAAAGTTTTCATTCAAGTCAC
7059587 GGACTGTCAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.35, C:0.17, G:0.08, T:0.40
Consensus pattern (31 bp):
AACTATTCAAAAGTTTTCATTCAAGTCACTG
Found at i:7060150 original size:289 final size:289
Alignment explanation
Indices: 7059631--7060210 Score: 1151
Period size: 289 Copynumber: 2.0 Consensus size: 289
7059621 GTGAGCTTTA
7059631 AGCAACGATTGAACGATCTGTTTGGTGGATCAATACCGATCAATGAGTAGAAAAACATGCCTTAG
1 AGCAACGATTGAACGATCTGTTTGGTGGATCAATACCGATCAATGAGTAGAAAAACATGCCTTAG
7059696 ATCCAAGTCGATTCGATGGTCATTGTTGGGTATTAGAGAAAAAAGTTGTTTGAATTTTGACTAGC
66 ATCCAAGTCGATTCGATGGTCATTGTTGGGTATTAGAGAAAAAAGTTGTTTGAATTTTGACTAGC
*
7059761 AAATTCGTGATGTCCAAAGTTGTTTCATGAAAAAAAACTGAGTTGTAAAAGATAATAAGAAAAAG
131 AAATTCGTGATGTCCAAAGTTGTTTCATGAAAAAAAACTGAGTTCTAAAAGATAATAAGAAAAAG
7059826 AGATTTCAATTGGCACAAACAGTGTGAACAAAGAAAGTCATATAACATTGATTTTAACAGTCCAG
196 AGATTTCAATTGGCACAAACAGTGTGAACAAAGAAAGTCATATAACATTGATTTTAACAGTCCAG
7059891 TGACTTAAATGAAAACTTTTGAATAATTT
261 TGACTTAAATGAAAACTTTTGAATAATTT
7059920 AGCAACGATTGAACGATCTGTTTGGTGGATCAATACCGATCAATGAGTAGAAAAACATGCCTTAG
1 AGCAACGATTGAACGATCTGTTTGGTGGATCAATACCGATCAATGAGTAGAAAAACATGCCTTAG
7059985 ATCCAAGTCGATTCGATGGTCATTGTTGGGTATTAGAGAAAAAAGTTGTTTGAATTTTGACTAGC
66 ATCCAAGTCGATTCGATGGTCATTGTTGGGTATTAGAGAAAAAAGTTGTTTGAATTTTGACTAGC
7060050 AAATTCGTGATGTCCAAAGTTGTTTCATGAAAAAAAACTGAGTTCTAAAAGATAATAAGAAAAAG
131 AAATTCGTGATGTCCAAAGTTGTTTCATGAAAAAAAACTGAGTTCTAAAAGATAATAAGAAAAAG
7060115 AGATTTCAATTGGCACAAACAGTGTGAACAAAGAAAGTCATATAACATTGATTTTAACAGTCCAG
196 AGATTTCAATTGGCACAAACAGTGTGAACAAAGAAAGTCATATAACATTGATTTTAACAGTCCAG
7060180 TGACTTAAATGAAAACTTTTGAATAATTT
261 TGACTTAAATGAAAACTTTTGAATAATTT
7060209 AG
1 AG
7060211 TAACTAAATT
Statistics
Matches: 290, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
289 290 1.00
ACGTcount: A:0.39, C:0.12, G:0.20, T:0.29
Consensus pattern (289 bp):
AGCAACGATTGAACGATCTGTTTGGTGGATCAATACCGATCAATGAGTAGAAAAACATGCCTTAG
ATCCAAGTCGATTCGATGGTCATTGTTGGGTATTAGAGAAAAAAGTTGTTTGAATTTTGACTAGC
AAATTCGTGATGTCCAAAGTTGTTTCATGAAAAAAAACTGAGTTCTAAAAGATAATAAGAAAAAG
AGATTTCAATTGGCACAAACAGTGTGAACAAAGAAAGTCATATAACATTGATTTTAACAGTCCAG
TGACTTAAATGAAAACTTTTGAATAATTT
Found at i:7064597 original size:19 final size:19
Alignment explanation
Indices: 7064552--7064589 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
7064542 CATCTAAACA
7064552 CCAGAAAAGTAAATCATTT
1 CCAGAAAAGTAAATCATTT
7064571 CCAGAAAAGTAAATCATTT
1 CCAGAAAAGTAAATCATTT
7064590 TCCAAAAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.16, G:0.11, T:0.26
Consensus pattern (19 bp):
CCAGAAAAGTAAATCATTT
Found at i:7065551 original size:17 final size:17
Alignment explanation
Indices: 7065517--7065551 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
7065507 TCTGAATCCA
*
7065517 AAATAACATAATAAAAT
1 AAATAACATAACAAAAT
*
7065534 AAATAACATAACACAAT
1 AAATAACATAACAAAAT
7065551 A
1 A
7065552 TTTACCATGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.69, C:0.11, G:0.00, T:0.20
Consensus pattern (17 bp):
AAATAACATAACAAAAT
Found at i:7070326 original size:23 final size:23
Alignment explanation
Indices: 7070296--7070342 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
7070286 CCCTTGGAAA
7070296 TAAATAGTCTCTCTAATTTTAAT
1 TAAATAGTCTCTCTAATTTTAAT
7070319 TAAATAGTCTCTCTAATTTTAAT
1 TAAATAGTCTCTCTAATTTTAAT
7070342 T
1 T
7070343 TCAAACGATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.34, C:0.13, G:0.04, T:0.49
Consensus pattern (23 bp):
TAAATAGTCTCTCTAATTTTAAT
Found at i:7071395 original size:15 final size:15
Alignment explanation
Indices: 7071375--7071405 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
7071365 ATTGAGAAAT
7071375 TTTTAAAAGTTCAAA
1 TTTTAAAAGTTCAAA
*
7071390 TTTTAAAAGTTGAAA
1 TTTTAAAAGTTCAAA
7071405 T
1 T
7071406 GTGGAAATCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.03, G:0.10, T:0.42
Consensus pattern (15 bp):
TTTTAAAAGTTCAAA
Found at i:7083814 original size:13 final size:13
Alignment explanation
Indices: 7083796--7083820 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7083786 GAACAGGCAC
7083796 AAAAAAAAAAGAA
1 AAAAAAAAAAGAA
7083809 AAAAAAAAAAGA
1 AAAAAAAAAAGA
7083821 CAAACAAATG
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:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAGAA
Found at i:7084790 original size:2 final size:2
Alignment explanation
Indices: 7084783--7084813 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
7084773 TGTAAAAGAT
7084783 GA GA 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 GA GA G
7084814 CTGAGAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:7086887 original size:13 final size:14
Alignment explanation
Indices: 7086861--7086889 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
7086851 ACTACCGACG
7086861 AATTAAACCATTAT
1 AATTAAACCATTAT
7086875 AATTAAA-CATTAT
1 AATTAAACCATTAT
7086888 AA
1 AA
7086890 ATATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:7090768 original size:79 final size:80
Alignment explanation
Indices: 7090669--7090851 Score: 221
Period size: 79 Copynumber: 2.3 Consensus size: 80
7090659 TACTCGTTCA
* * *
7090669 AATGCCTTTGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
7090732 ATTTAGTAAC-TCGCACC
64 ATATAGTAACTTAGCA-C
**
7090749 AATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
* *
7090813 ATGGTCACTTAGCAC
66 ATAGTAACTTAGCAC
*
7090828 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
7090852 CATCATTCAA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 59 0.66
80 27 0.30
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
ATAGTAACTTAGCAC
Found at i:7090851 original size:40 final size:40
Alignment explanation
Indices: 7090648--7090851 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
7090638 CGGAATTTAA
** * *
7090648 CCGGATATAGCT-ACTCGTTCAAATGCCTTTGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
7090688 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
7090728 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
7090767 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
7090807 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
7090847 CCGGA
1 CCGGA
7090852 CATCATTCAA
Statistics
Matches: 140, Mismatches: 17, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 93 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:7092561 original size:14 final size:14
Alignment explanation
Indices: 7092523--7092554 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
7092513 GCTTAAAACT
7092523 TTCACACATTTATA
1 TTCACACATTTATA
7092537 TTCACACATTTATA
1 TTCACACATTTATA
7092551 TTCA
1 TTCA
7092555 TATATTTTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.34, C:0.22, G:0.00, T:0.44
Consensus pattern (14 bp):
TTCACACATTTATA
Found at i:7095319 original size:9 final size:9
Alignment explanation
Indices: 7095305--7095425 Score: 63
Period size: 9 Copynumber: 13.4 Consensus size: 9
7095295 TAAGTATGAT
7095305 TAAGTTATG
1 TAAGTTATG
7095314 TAAGTTATG
1 TAAGTTATG
* * *
7095323 ATATGATATA
1 -TAAGTTATG
*
7095333 T-ATTTATG
1 TAAGTTATG
7095341 T-A-TTATG
1 TAAGTTATG
7095348 TAAGTTATG
1 TAAGTTATG
* *
7095357 CAAATTATG
1 TAAGTTATG
*
7095366 TAAGATATGATA
1 TAAG-T-T-ATG
*
7095378 TATATTTATG
1 TA-AGTTATG
7095388 T-A-TTATG
1 TAAGTTATG
*
7095395 TAAGTTTTG
1 TAAGTTATG
*
7095404 TAAATTATG
1 TAAGTTATG
*
7095413 TAAATTATG
1 TAAGTTATG
7095422 TAAG
1 TAAG
7095426 ATATAATATA
Statistics
Matches: 85, Mismatches: 18, Indels: 18
0.70 0.15 0.15
Matches are distributed among these distances:
7 12 0.14
8 8 0.09
9 47 0.55
10 10 0.12
11 2 0.02
12 5 0.06
13 1 0.01
ACGTcount: A:0.37, C:0.01, G:0.16, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:7095354 original size:43 final size:43
Alignment explanation
Indices: 7095305--7095412 Score: 153
Period size: 47 Copynumber: 2.4 Consensus size: 43
7095295 TAAGTATGAT
*
7095305 TAAGTTATGTAAGTTATGATATGATATATATTTATGTATTATG
1 TAAGTTATGTAAATTATGATATGATATATATTTATGTATTATG
*
7095348 TAAGTTATGCAAATTATGTAAGATATGATATATATTTATGTATTATG
1 TAAGTTATGTAAATTA--T--GATATGATATATATTTATGTATTATG
*
7095395 TAAGTTTTGTAAATTATG
1 TAAGTTATGTAAATTATG
7095413 TAAATTATGT
Statistics
Matches: 57, Mismatches: 4, Indels: 8
0.83 0.06 0.12
Matches are distributed among these distances:
43 15 0.26
45 2 0.04
47 40 0.70
ACGTcount: A:0.36, C:0.01, G:0.16, T:0.47
Consensus pattern (43 bp):
TAAGTTATGTAAATTATGATATGATATATATTTATGTATTATG
Found at i:7095382 original size:47 final size:47
Alignment explanation
Indices: 7095322--7095415 Score: 170
Period size: 47 Copynumber: 2.0 Consensus size: 47
7095312 TGTAAGTTAT
7095322 GATATGATATATATTTATGTATTATGTAAGTTATGCAAATTATGTAA
1 GATATGATATATATTTATGTATTATGTAAGTTATGCAAATTATGTAA
* *
7095369 GATATGATATATATTTATGTATTATGTAAGTTTTGTAAATTATGTAA
1 GATATGATATATATTTATGTATTATGTAAGTTATGCAAATTATGTAA
7095416 ATTATGTAAG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.37, C:0.01, G:0.15, T:0.47
Consensus pattern (47 bp):
GATATGATATATATTTATGTATTATGTAAGTTATGCAAATTATGTAA
Found at i:7095811 original size:105 final size:105
Alignment explanation
Indices: 7095695--7096159 Score: 792
Period size: 105 Copynumber: 4.4 Consensus size: 105
7095685 CAATATTTAA
*
7095695 AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGATAAAATATTTTTCGTG
1 AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTCGTG
7095760 ATTAAATTAAAATAAAATAAAATATTTAAAATAAAACTTT
66 ATTAAATTAAAATAAAATAAAATATTTAAAATAAAACTTT
7095800 AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTCGTG
1 AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTCGTG
*
7095865 ATTAAATTAAAATAAATAAAATAAAATATTTAAAATAAATCTTT
66 ATTAAATT---A-AAATAAAATAAAATATTTAAAATAAAACTTT
*
7095909 AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGATAAAATATTTTTCGTG
1 AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTCGTG
*
7095974 ATTAAATTAAATTAAAATAAAATATTTAAAATAAAACTTT
66 ATTAAATTAAAATAAAATAAAATATTTAAAATAAAACTTT
* * * *
7096014 AAATGCAATTTACTTTAATTAGCTAATTTAAAAATAAAATAAAAGTACACAAAATA-TTTTCGTG
1 AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTCGTG
7096078 ATTAAATTAAAATAAAATAAAATATTTAAAATAAAACTTT
66 ATTAAATTAAAATAAAATAAAATATTTAAAATAAAACTTT
*
7096118 AATTACAATTTAATTTAATTAGGTAA-TT-AAAATAAAATAAAA
1 AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAA
7096160 CTTTAGCGGC
Statistics
Matches: 341, Mismatches: 15, Indels: 11
0.93 0.04 0.03
Matches are distributed among these distances:
102 14 0.04
103 2 0.01
104 69 0.20
105 152 0.45
106 1 0.00
108 1 0.00
109 102 0.30
ACGTcount: A:0.55, C:0.04, G:0.05, T:0.36
Consensus pattern (105 bp):
AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTCGTG
ATTAAATTAAAATAAAATAAAATATTTAAAATAAAACTTT
Found at i:7096068 original size:214 final size:209
Alignment explanation
Indices: 7095695--7096159 Score: 808
Period size: 214 Copynumber: 2.2 Consensus size: 209
7095685 CAATATTTAA
7095695 AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGATAAAATATTTTTCGTG
1 AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGATAAAATATTTTTCGTG
*
7095760 ATTAAATTAAAATAAAATAAAATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTA
66 ATTAAATTAAAATAAAATAAAATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGCTA
*
7095825 ATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTCGTGATTAAATTAAAATAAATAAAATAAA
131 ATTTAAAAATAAAATAAAAGTACACAAAATA-TTTTCGTGATTAAATT---A-AAATAAAATAAA
*
7095890 ATATTTAAAATAAATCTTT
191 ATATTTAAAATAAAACTTT
7095909 AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGATAAAATATTTTTCGTG
1 AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGATAAAATATTTTTCGTG
* * *
7095974 ATTAAATTAAATTAAAATAAAATATTTAAAATAAAACTTTAAATGCAATTTACTTTAATTAGCTA
66 ATTAAATTAAAATAAAATAAAATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGCTA
7096039 ATTTAAAAATAAAATAAAAGTACACAAAATATTTTCGTGATTAAATTAAAATAAAATAAAATATT
131 ATTTAAAAATAAAATAAAAGTACACAAAATATTTTCGTGATTAAATTAAAATAAAATAAAATATT
7096104 TAAAATAAAACTTT
196 TAAAATAAAACTTT
*
7096118 AATTACAATTTAATTTAATTAGGTAA-TT-AAAATAAAATAAAA
1 AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAA
7096160 CTTTAGCGGC
Statistics
Matches: 244, Mismatches: 7, Indels: 7
0.95 0.03 0.03
Matches are distributed among these distances:
207 14 0.06
208 2 0.01
209 55 0.23
210 1 0.00
213 16 0.07
214 156 0.64
ACGTcount: A:0.55, C:0.04, G:0.05, T:0.36
Consensus pattern (209 bp):
AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGATAAAATATTTTTCGTG
ATTAAATTAAAATAAAATAAAATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGCTA
ATTTAAAAATAAAATAAAAGTACACAAAATATTTTCGTGATTAAATTAAAATAAAATAAAATATT
TAAAATAAAACTTT
Found at i:7098920 original size:14 final size:14
Alignment explanation
Indices: 7098876--7098922 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
7098866 CCTAAACCAC
*
7098876 AAACCTCAAACT-A
1 AAACCTTAAACTCA
*
7098889 TAAACCTTGAATCTCA
1 -AAACCTT-AAACTCA
7098905 AAACCTTAAACTCA
1 AAACCTTAAACTCA
7098919 AAAC
1 AAAC
7098923 TCTATCATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
14 16 0.57
15 11 0.39
16 1 0.04
ACGTcount: A:0.49, C:0.28, G:0.02, T:0.21
Consensus pattern (14 bp):
AAACCTTAAACTCA
Found at i:7099157 original size:21 final size:21
Alignment explanation
Indices: 7099133--7099178 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
7099123 TATCATATCT
* *
7099133 TAAACCCTAACCCTTAAACCA
1 TAAACCATAACCCATAAACCA
* *
7099154 TAAACCATAATCCATAAACCT
1 TAAACCATAACCCATAAACCA
7099175 TAAA
1 TAAA
7099179 ATAGTAACTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.30, G:0.00, T:0.22
Consensus pattern (21 bp):
TAAACCATAACCCATAAACCA
Found at i:7099209 original size:7 final size:7
Alignment explanation
Indices: 7099197--7099235 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
7099187 TCATACACTT
7099197 TAAACCC
1 TAAACCC
7099204 TAAA-CC
1 TAAACCC
*
7099210 AAAACCC
1 TAAACCC
7099217 TAAACCC
1 TAAACCC
*
7099224 TAAATCC
1 TAAACCC
7099231 TAAAC
1 TAAAC
7099236 TATAATGATA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
6 5 0.19
7 22 0.81
ACGTcount: A:0.49, C:0.36, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAACCC
Found at i:7099216 original size:13 final size:13
Alignment explanation
Indices: 7099198--7099222 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7099188 CATACACTTT
7099198 AAACCCTAAACCA
1 AAACCCTAAACCA
7099211 AAACCCTAAACC
1 AAACCCTAAACC
7099223 CTAAATCCTA
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:0.52, C:0.40, G:0.00, T:0.08
Consensus pattern (13 bp):
AAACCCTAAACCA
Found at i:7099374 original size:14 final size:14
Alignment explanation
Indices: 7099355--7099397 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 14
7099345 ACTCTTAATT
7099355 CATAAACCCTAAAC
1 CATAAACCCTAAAC
* * *
7099369 CATAAATCTTAAAA
1 CATAAACCCTAAAC
7099383 CATAAACCCTAAAC
1 CATAAACCCTAAAC
7099397 C
1 C
7099398 CTTAACTCCC
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.51, C:0.30, G:0.00, T:0.19
Consensus pattern (14 bp):
CATAAACCCTAAAC
Found at i:7099383 original size:22 final size:22
Alignment explanation
Indices: 7099331--7099381 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
7099321 AACGCTAATT
*
7099331 AATC-TAAACCCTAAACTCTTA
1 AATCATAAACCCTAAACTCATA
*
7099352 ATTCATAAACCCTAAAC-CATA
1 AATCATAAACCCTAAACTCATA
*
7099373 AATCTTAAA
1 AATCATAAA
7099382 ACATAAACCC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 13 0.52
22 12 0.48
ACGTcount: A:0.47, C:0.25, G:0.00, T:0.27
Consensus pattern (22 bp):
AATCATAAACCCTAAACTCATA
Found at i:7099387 original size:28 final size:29
Alignment explanation
Indices: 7099334--7099397 Score: 94
Period size: 28 Copynumber: 2.2 Consensus size: 29
7099324 GCTAATTAAT
* **
7099334 CTAAACCCTAAACTCTTAATTCATAAACC
1 CTAAACCATAAACTCTTAAAACATAAACC
7099363 CTAAACCATAAA-TCTTAAAACATAAACC
1 CTAAACCATAAACTCTTAAAACATAAACC
7099391 CTAAACC
1 CTAAACC
7099398 CTTAACTCCC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
28 21 0.66
29 11 0.34
ACGTcount: A:0.47, C:0.30, G:0.00, T:0.23
Consensus pattern (29 bp):
CTAAACCATAAACTCTTAAAACATAAACC
Found at i:7099998 original size:74 final size:74
Alignment explanation
Indices: 7099844--7100028 Score: 219
Period size: 74 Copynumber: 2.5 Consensus size: 74
7099834 TAATACTCGA
* * * * *
7099844 TCTTTGGCGGCATTTTTAAAAGGCACCGCTAAAGCCACTAAAAGCTCAATAAAAAAGACGGCGTT
1 TCTTTTGCGGCGTTTTTAAAAAGCGCCGCTAAAGCCAATAAAAGCTCAATAAAAAAGACGGCGTT
*
7099909 TTGCAAAAT
66 GTGCAAAAT
* * * *
7099918 TCTTTTGCGGCGTTTCTAAAAAGCGCCGCTAAAGCCAATAAAGGCTTAATAGAAAACGACGGCGT
1 TCTTTTGCGGCGTTTTTAAAAAGCGCCGCTAAAGCCAATAAAAGCTCAATA-AAAAAGACGGCGT
**
7099983 TGTGTTAAAT
65 TGTGCAAAAT
**
7099993 T-TTTTGCGGCGTTTTTTGTAAAGCGCCGCTAAAGCC
1 TCTTTTGCGGCG-TTTTTAAAAAGCGCCGCTAAAGCC
7100029 GCTGAAGCTC
Statistics
Matches: 94, Mismatches: 15, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
74 53 0.56
75 41 0.44
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.28
Consensus pattern (74 bp):
TCTTTTGCGGCGTTTTTAAAAAGCGCCGCTAAAGCCAATAAAAGCTCAATAAAAAAGACGGCGTT
GTGCAAAAT
Found at i:7101375 original size:2 final size:2
Alignment explanation
Indices: 7101368--7101392 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7101358 TCTTAAAACA
7101368 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
7101393 AAATTAAGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7101552 original size:29 final size:29
Alignment explanation
Indices: 7101519--7101577 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
7101509 AACCACCATA
*
7101519 TTCAATTTTTAGAGGATAAGACAAGAGAG
1 TTCAATTTTTAGAGGATAAGACAAAAGAG
7101548 TTCAATTTTTAGAGGATAAGACAAAAGAG
1 TTCAATTTTTAGAGGATAAGACAAAAGAG
7101577 T
1 T
7101578 GCTGATAGGG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.42, C:0.07, G:0.22, T:0.29
Consensus pattern (29 bp):
TTCAATTTTTAGAGGATAAGACAAAAGAG
Found at i:7101722 original size:12 final size:13
Alignment explanation
Indices: 7101700--7101736 Score: 58
Period size: 12 Copynumber: 2.9 Consensus size: 13
7101690 GATATGTTTG
7101700 TATTAATTTTTTA
1 TATTAATTTTTTA
7101713 TATT-ATTTTTTA
1 TATTAATTTTTTA
*
7101725 TATAAATTTTTT
1 TATTAATTTTTT
7101737 TTAAAATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
TATTAATTTTTTA
Found at i:7101930 original size:11 final size:11
Alignment explanation
Indices: 7101916--7101968 Score: 52
Period size: 11 Copynumber: 4.8 Consensus size: 11
7101906 ATACAATAAC
7101916 AACAAAATAGT
1 AACAAAATAGT
* *
7101927 AACAACATAAT
1 AACAAAATAGT
***
7101938 AGTGAAATAGT
1 AACAAAATAGT
7101949 AACAAAATAGT
1 AACAAAATAGT
*
7101960 AAAAAAATA
1 AACAAAATA
7101969 ACAGCTTTTT
Statistics
Matches: 31, Mismatches: 11, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
11 31 1.00
ACGTcount: A:0.64, C:0.08, G:0.09, T:0.19
Consensus pattern (11 bp):
AACAAAATAGT
Found at i:7101967 original size:22 final size:22
Alignment explanation
Indices: 7101910--7101968 Score: 55
Period size: 22 Copynumber: 2.7 Consensus size: 22
7101900 AGAGTTATAC
* *
7101910 AATAACAACAAAATAGTAACAA
1 AATAATAAAAAAATAGTAACAA
* ***
7101932 CATAATAGTGAAATAGTAACAA
1 AATAATAAAAAAATAGTAACAA
*
7101954 AATAGTAAAAAAATA
1 AATAATAAAAAAATA
7101969 ACAGCTTTTT
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.64, C:0.08, G:0.08, T:0.19
Consensus pattern (22 bp):
AATAATAAAAAAATAGTAACAA
Found at i:7103236 original size:16 final size:17
Alignment explanation
Indices: 7103215--7103248 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
7103205 TATCATTTTG
7103215 ATTTTTAAAAA-AATTT
1 ATTTTTAAAAATAATTT
7103231 ATTTTTAAAAATAATTT
1 ATTTTTAAAAATAATTT
7103248 A
1 A
7103249 AAAAAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTTTTAAAAATAATTT
Found at i:7104173 original size:25 final size:23
Alignment explanation
Indices: 7104133--7104180 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 23
7104123 TTGTAGTTGA
*
7104133 TTTTTTTTTTTGCTTCAATCAAG
1 TTTTTTTTTATGCTTCAATCAAG
7104156 TTTTTATTTTATGACTTCAATCAAG
1 TTTTT-TTTTATG-CTTCAATCAAG
7104181 CATGGGAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 5 0.23
24 6 0.27
25 11 0.50
ACGTcount: A:0.23, C:0.12, G:0.08, T:0.56
Consensus pattern (23 bp):
TTTTTTTTTATGCTTCAATCAAG
Found at i:7105225 original size:21 final size:23
Alignment explanation
Indices: 7105182--7105227 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
7105172 GACTCGAAAG
*
7105182 TTTGATAAAATTTTTGAAGTTTT
1 TTTGATAAAATTTTTGAAATTTT
7105205 TTTG-TAAAATTTTT-AAATTTT
1 TTTGATAAAATTTTTGAAATTTT
7105226 TT
1 TT
7105228 ACATATATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 8 0.36
22 10 0.45
23 4 0.18
ACGTcount: A:0.30, C:0.00, G:0.09, T:0.61
Consensus pattern (23 bp):
TTTGATAAAATTTTTGAAATTTT
Found at i:7108309 original size:46 final size:46
Alignment explanation
Indices: 7108256--7108606 Score: 443
Period size: 46 Copynumber: 7.6 Consensus size: 46
7108246 TTCTGAAATA
7108256 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
*
7108302 AAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGATATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
** *
7108348 AAATGTGTAAGACCATGGTTGAAAGATACCATGAAAACATGATATA
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
* *
7108394 AAATGTGTAAGACCATGGTTGAAAGATTCCATGGCAACATGATATA
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
** *
7108440 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAATGTGACATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
* ** * ** * *
7108486 AAAAGAATAAGACCATAGTTGAAAGATACCAATATGGCAATGTAACATG
1 AAATGTGTAAGACCATGGTTGAAAGATACC---ATGGCAACATGATATG
*** * *
7108535 AAATGAACAAGACCATGGTTGAAAGATACCATGGCAACCTGACA-G
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
* *
7108580 AAAATGAGTAAGACCATAGTTGAAAGA
1 -AAATGTGTAAGACCATGGTTGAAAGA
7108607 CACTGTGGCA
Statistics
Matches: 274, Mismatches: 27, Indels: 8
0.89 0.09 0.03
Matches are distributed among these distances:
45 1 0.00
46 231 0.84
49 42 0.15
ACGTcount: A:0.42, C:0.13, G:0.22, T:0.22
Consensus pattern (46 bp):
AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
Found at i:7109621 original size:15 final size:16
Alignment explanation
Indices: 7109601--7109633 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
7109591 TATATATTTT
7109601 TTATTTT-ATTTTTAA
1 TTATTTTAATTTTTAA
7109616 TTATTTTAAATTTTTAA
1 TTATTTT-AATTTTTAA
7109633 T
1 T
7109634 ATAACTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTTAATTTTTAA
Found at i:7109706 original size:21 final size:22
Alignment explanation
Indices: 7109680--7109738 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
7109670 GTTTTAAGAA
*
7109680 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
*
7109701 TTGTTTTAATATTTGTTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
7109723 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
7109739 GATTTATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 6 0.19
21 16 0.50
22 10 0.31
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:7109753 original size:26 final size:24
Alignment explanation
Indices: 7109709--7109758 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
7109699 ATTTGTTTTA
*
7109709 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
7109733 ATATTTGATTTATTATATTTTTAAAT
1 ATATTTG-TTT-TTATATTTTTAAAT
7109759 TTTTTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:7113511 original size:10 final size:9
Alignment explanation
Indices: 7113493--7113541 Score: 55
Period size: 10 Copynumber: 5.2 Consensus size: 9
7113483 AACATATTAG
7113493 AAAATTATA
1 AAAATTATA
7113502 AAAATATATA
1 AAAAT-TATA
7113512 GAAAATTATA
1 -AAAATTATA
7113522 AAAA-TATA
1 AAAATTATA
*
7113530 AACACTTATA
1 AA-AATTATA
7113540 AA
1 AA
7113542 GGTATTAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
8 6 0.17
9 10 0.29
10 14 0.40
11 5 0.14
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (9 bp):
AAAATTATA
Found at i:7113541 original size:18 final size:20
Alignment explanation
Indices: 7113486--7113529 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
7113476 TTTTTAGAAC
7113486 ATAT-TAGAAAATTATAAAA
1 ATATATAGAAAATTATAAAA
7113505 ATATATAGAAAATTATAAAA
1 ATATATAGAAAATTATAAAA
7113525 ATATA
1 ATATA
7113530 AACACTTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 4 0.17
20 20 0.83
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.32
Consensus pattern (20 bp):
ATATATAGAAAATTATAAAA
Found at i:7114035 original size:19 final size:19
Alignment explanation
Indices: 7114011--7114075 Score: 55
Period size: 18 Copynumber: 3.5 Consensus size: 19
7114001 ATTTTTATAC
7114011 ATTTTTTATTAGTTTTTAT
1 ATTTTTTATTAGTTTTTAT
* *
7114030 A-TTTTTAATAATTTTATAT
1 ATTTTTTATTAGTTTT-TAT
* * *
7114049 CTTTTTTATAAG-TTCTAT
1 ATTTTTTATTAGTTTTTAT
7114067 -TTTTTTATT
1 ATTTTTTATT
7114076 TAAAAAAACT
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
17 8 0.22
18 15 0.42
19 6 0.17
20 7 0.19
ACGTcount: A:0.25, C:0.03, G:0.03, T:0.69
Consensus pattern (19 bp):
ATTTTTTATTAGTTTTTAT
Found at i:7114177 original size:17 final size:17
Alignment explanation
Indices: 7114110--7114188 Score: 63
Period size: 17 Copynumber: 4.5 Consensus size: 17
7114100 TAAGGGGATT
*
7114110 TTTCTGATTTTTTATAAAA
1 TTTCT-ATTTTTT-TATAA
7114129 TTT-TA-TTTTTTATAA
1 TTTCTATTTTTTTATAA
*
7114144 CTTTTCTACTATTTTTATAA
1 --TTTCTA-TTTTTTTATAA
*
7114164 TTTCTATTTTTTTATGA
1 TTTCTATTTTTTTATAA
*
7114181 TTTTTATT
1 TTTCTATT
7114189 GTTGTTATTT
Statistics
Matches: 50, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
15 4 0.08
16 5 0.10
17 20 0.40
18 9 0.18
19 3 0.06
20 9 0.18
ACGTcount: A:0.24, C:0.06, G:0.03, T:0.67
Consensus pattern (17 bp):
TTTCTATTTTTTTATAA
Found at i:7145050 original size:71 final size:74
Alignment explanation
Indices: 7144892--7145075 Score: 230
Period size: 71 Copynumber: 2.5 Consensus size: 74
7144882 AAAATAAATA
* * * *
7144892 ATTAAATCTCAAAATTTAACACATTGGATAGATAAAAACGAGTAATATGGGGGGTTTGATGGATT
1 ATTAAATCTCAAAATTTAACACAATAGATAGATCAAAAC-AGTAATATGGGAGGTTTGATGGATT
*
7144957 TAACCGCTCC
65 TAACCGCTAC
* * * *
7144967 ATAAAATTTCAAAATTTAACACAATAGATAGATCAAAAC-G-AATAT-TGAGGTTTGGTGGATTT
1 ATTAAATCTCAAAATTTAACACAATAGATAGATCAAAACAGTAATATGGGAGGTTTGATGGATTT
* *
7145029 AACTGGTAC
66 AACCGCTAC
*
7145038 ATTAAATCTCAAAATTTAACACAATAGATAAATCAAAA
1 ATTAAATCTCAAAATTTAACACAATAGATAGATCAAAA
7145076 TGAGTACTAT
Statistics
Matches: 95, Mismatches: 14, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
71 55 0.58
72 5 0.05
73 1 0.01
75 34 0.36
ACGTcount: A:0.43, C:0.12, G:0.15, T:0.29
Consensus pattern (74 bp):
ATTAAATCTCAAAATTTAACACAATAGATAGATCAAAACAGTAATATGGGAGGTTTGATGGATTT
AACCGCTAC
Found at i:7145119 original size:54 final size:54
Alignment explanation
Indices: 7145037--7145140 Score: 163
Period size: 54 Copynumber: 1.9 Consensus size: 54
7145027 TTAACTGGTA
* * *
7145037 CATTAAATCTCAAAATTTAACACAATAGATAAATCAAAATGAGTACTATAGCTT
1 CATTAAATCTCAAAATTTAACACAATAGATAAACCAAAACGAGTAATATAGCTT
* *
7145091 CATTAAATCTCAATATTTAACACAATAGATAGACCAAAACGAGTAATATA
1 CATTAAATCTCAAAATTTAACACAATAGATAAACCAAAACGAGTAATATA
7145141 TGGGTTTGGT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 45 1.00
ACGTcount: A:0.49, C:0.15, G:0.08, T:0.28
Consensus pattern (54 bp):
CATTAAATCTCAAAATTTAACACAATAGATAAACCAAAACGAGTAATATAGCTT
Found at i:7145283 original size:127 final size:127
Alignment explanation
Indices: 7144964--7145298 Score: 383
Period size: 127 Copynumber: 2.6 Consensus size: 127
7144954 ATTTAACCGC
* * * *
7144964 TCCATAAAATTTCAAAATTTAACACAATAGATAGATCAAAACGAAT-AT-TGAGGTTTGGTGGAT
1 TCCATTAAATATCAATATTTAACACAATAGATAGATCAAAACGAGTAATATGAGGTTTGGTGGAT
* * * * * * *
7145027 TTAACTGGTACATTAAATCTCAAAATTTAACACAATAGATAAATCAAAATGAGTACTATAGC
66 TTAATTGCTCCATTAAATCTCAAAATTTAACAAAATAGATAAATCAAAACGAGTAATATAGA
* * *
7145089 TTCATTAAATCTCAATATTTAACACAATAGATAGACCAAAACGAGTAATAT-ATGGGTTTGGTGG
1 TCCATTAAATATCAATATTTAACACAATAGATAGATCAAAACGAGTAATATGA--GGTTTGGTGG
*
7145153 ATTTAATTGCTCCATTAAATCTCAAATTTTAACAAAATAGATAAATC-AAACGAGTAATAT-GAA
64 ATTTAATTGCTCCATTAAATCTCAAAATTTAACAAAATAGATAAATCAAAACGAGTAATATAG-A
* * * * * * * *
7145216 TCCATTAAATATTAGTATTTAACACAATAAATATATCAAAATGAGTAATATGAGAATTTGATAGA
1 TCCATTAAATATCAATATTTAACACAATAGATAGATCAAAACGAGTAATATGAG-GTTTGGTGGA
*
7145281 TTTAATCGCTCCATTAAA
65 TTTAATTGCTCCATTAAA
7145299 ATTTGATTTG
Statistics
Matches: 177, Mismatches: 26, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
125 40 0.23
126 5 0.03
127 79 0.45
128 53 0.30
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.32
Consensus pattern (127 bp):
TCCATTAAATATCAATATTTAACACAATAGATAGATCAAAACGAGTAATATGAGGTTTGGTGGAT
TTAATTGCTCCATTAAATCTCAAAATTTAACAAAATAGATAAATCAAAACGAGTAATATAGA
Found at i:7146951 original size:20 final size:17
Alignment explanation
Indices: 7146910--7146944 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
7146900 TTTTAAAATG
7146910 TAAATTTAGTAACATGA
1 TAAATTTAGTAACATGA
7146927 TAAATTTAGTAACATGA
1 TAAATTTAGTAACATGA
7146944 T
1 T
7146945 GAAAAATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.46, C:0.06, G:0.11, T:0.37
Consensus pattern (17 bp):
TAAATTTAGTAACATGA
Found at i:7149760 original size:80 final size:81
Alignment explanation
Indices: 7149653--7149812 Score: 279
Period size: 80 Copynumber: 2.0 Consensus size: 81
7149643 ACACACGCCC
*
7149653 GTGTGCTCGACCGTGTGGGGGAAAATTAGGCTTGGTTTAAGCCATATTTCTCATCCACATCAAGC
1 GTGTGCTCGACCGTGTGGGGGAAAATTAGGCTTGGTTTAAGCCACATTTCTCATCCACATCAAGC
7149718 ATACCTAAGCCACAAT
66 ATACCTAAGCCACAAT
*
7149734 GTGT-CTCGACCGTGTAGGGGG-TAATTAGGCTTGGTTTAAGCCACATTTCTCATCCACATCAAG
1 GTGTGCTCGACCGTGT-GGGGGAAAATTAGGCTTGGTTTAAGCCACATTTCTCATCCACATCAAG
7149797 CATACCTAAGCCACAA
65 CATACCTAAGCCACAA
7149813 CATTTAATAC
Statistics
Matches: 76, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
80 67 0.88
81 9 0.12
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (81 bp):
GTGTGCTCGACCGTGTGGGGGAAAATTAGGCTTGGTTTAAGCCACATTTCTCATCCACATCAAGC
ATACCTAAGCCACAAT
Found at i:7150785 original size:43 final size:42
Alignment explanation
Indices: 7150738--7150844 Score: 115
Period size: 43 Copynumber: 2.5 Consensus size: 42
7150728 TATCCCAGAT
* *
7150738 ATGGTTTTACATGCTATCACACATTGATGCCAATGTCCCAAAC
1 ATGGTTTTACATG-TATCACACAATGATACCAATGTCCCAAAC
* * * * *
7150781 ATGGTTTTACACGAAATCATATAATGATACCAATGTCCCAGAC
1 ATGGTTTTACATG-TATCACACAATGATACCAATGTCCCAAAC
*
7150824 ATGGTCTTACATGTAATCACA
1 ATGGTTTTACATGT-ATCACA
7150845 TCTCTGTAAT
Statistics
Matches: 51, Mismatches: 12, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.30
Consensus pattern (42 bp):
ATGGTTTTACATGTATCACACAATGATACCAATGTCCCAAAC
Found at i:7153348 original size:11 final size:10
Alignment explanation
Indices: 7153332--7153402 Score: 52
Period size: 11 Copynumber: 6.6 Consensus size: 10
7153322 GTCTTTCCCC
7153332 TTTTCTTTCCT
1 TTTTCTTT-CT
7153343 TTTTCTTTCT
1 TTTTCTTTCT
*
7153353 TTTTCCCTTCT
1 TTTT-CTTTCT
* *
7153364 GTTTTGTTTAT
1 -TTTTCTTTCT
7153375 TCTTTCTTTCT
1 T-TTTCTTTCT
*
7153386 TTTCTATTTCT
1 TTT-TCTTTCT
*
7153397 ATTTCT
1 TTTTCT
7153403 ATTTCTTTTA
Statistics
Matches: 47, Mismatches: 9, Indels: 9
0.72 0.14 0.14
Matches are distributed among these distances:
10 11 0.23
11 32 0.68
12 4 0.09
ACGTcount: A:0.04, C:0.21, G:0.03, T:0.72
Consensus pattern (10 bp):
TTTTCTTTCT
Found at i:7153403 original size:12 final size:11
Alignment explanation
Indices: 7153381--7153411 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
7153371 TTATTCTTTC
7153381 TTTCTTTTCTA
1 TTTCTTTTCTA
7153392 TTTCTATTTCTA
1 TTTCT-TTTCTA
7153404 TTTCTTTT
1 TTTCTTTT
7153412 ATTTTATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.10, C:0.16, G:0.00, T:0.74
Consensus pattern (11 bp):
TTTCTTTTCTA
Found at i:7153700 original size:13 final size:14
Alignment explanation
Indices: 7153682--7153710 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
7153672 AACTAACTTC
7153682 ATAAATATTT-CTA
1 ATAAATATTTACTA
7153695 ATAAATATTTACTA
1 ATAAATATTTACTA
7153709 AT
1 AT
7153711 CTAATTTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (14 bp):
ATAAATATTTACTA
Found at i:7158970 original size:8 final size:8
Alignment explanation
Indices: 7158928--7158952 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
7158918 ATATAGACTA
7158928 AATAAAAT
1 AATAAAAT
7158936 AATAAAAT
1 AATAAAAT
7158944 AATAAAAT
1 AATAAAAT
7158952 A
1 A
7158953 TCTTATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:7158976 original size:29 final size:31
Alignment explanation
Indices: 7158925--7159006 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 31
7158915 TATATATAGA
*
7158925 CTAAATAAAATAATAAAATAATAA-AA-TAT
1 CTAATTAAAATAATAAAATAATAATAATTAT
* *
7158954 CTTATTAAAAT-ATTAAATAAATAATAATTAT
1 CTAATTAAAATAATAAAAT-AATAATAATTAT
7158985 CTAATTAAATAATAATAAAATA
1 CTAATT-AA-AATAATAAAATA
7159007 TCACCAACAT
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
28 6 0.14
29 14 0.33
30 2 0.05
31 8 0.19
32 2 0.05
33 4 0.10
34 6 0.14
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (31 bp):
CTAATTAAAATAATAAAATAATAATAATTAT
Found at i:7159008 original size:23 final size:23
Alignment explanation
Indices: 7158965--7159008 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
7158955 TTATTAAAAT
*
7158965 ATTAAATAAATAATAATTATCTA
1 ATTAAATAAATAATAAATATCTA
7158988 ATTAAAT-AATAATAAAATATC
1 ATTAAATAAATAAT-AAATATC
7159009 ACCAACATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (23 bp):
ATTAAATAAATAATAAATATCTA
Found at i:7174510 original size:24 final size:25
Alignment explanation
Indices: 7174483--7174531 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
7174473 GCTTTTTTAT
*
7174483 TAAATAAAAAAC-TTTAAAATATAA
1 TAAATAAAAAACATTTAAAACATAA
* *
7174507 TAAATCAAATACATTTAAAACATAA
1 TAAATAAAAAACATTTAAAACATAA
7174532 AAACAAATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (25 bp):
TAAATAAAAAACATTTAAAACATAA
Found at i:7174524 original size:25 final size:23
Alignment explanation
Indices: 7174495--7174559 Score: 75
Period size: 25 Copynumber: 2.9 Consensus size: 23
7174485 AATAAAAAAC
*
7174495 TTTAAAATATAATAAATCAAATACA
1 TTTAAAACATAA-AAA-CAAATACA
7174520 TTTAAAACATAAAAACAAAT--A
1 TTTAAAACATAAAAACAAATACA
7174541 -TTAAAACA-AAAAACAAATA
1 TTTAAAACATAAAAACAAATA
7174560 AAAAATAAGA
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
19 10 0.26
20 8 0.21
21 1 0.03
23 5 0.13
24 3 0.08
25 11 0.29
ACGTcount: A:0.66, C:0.09, G:0.00, T:0.25
Consensus pattern (23 bp):
TTTAAAACATAAAAACAAATACA
Found at i:7174554 original size:19 final size:20
Alignment explanation
Indices: 7174521--7174559 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
7174511 TCAAATACAT
7174521 TTAAAACATAAAAACAAATA
1 TTAAAACATAAAAACAAATA
7174541 TTAAAACA-AAAAACAAATA
1 TTAAAACATAAAAACAAATA
7174560 AAAAATAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.72, C:0.10, G:0.00, T:0.18
Consensus pattern (20 bp):
TTAAAACATAAAAACAAATA
Found at i:7176373 original size:3 final size:3
Alignment explanation
Indices: 7176365--7176410 Score: 74
Period size: 3 Copynumber: 15.3 Consensus size: 3
7176355 TTCAATTATT
* *
7176365 TCA TCA TCA TCA TCA TCA CCG TCA TCA TCA TCA TCA TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
7176411 TATTATTATT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.30, C:0.35, G:0.02, T:0.33
Consensus pattern (3 bp):
TCA
Found at i:7176475 original size:3 final size:3
Alignment explanation
Indices: 7176451--7176750 Score: 83
Period size: 3 Copynumber: 102.7 Consensus size: 3
7176441 TTTCATATCG
* * **
7176451 TTA TATA TTA TGTA TATA TTA TTA TT- TACA TCA TTA TTA TTA TTA CAA
1 TTA T-TA TTA T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA
* * * ** * *
7176499 TTT TTA TT- TTCT TTA TT- TTA TTA CTA TTA ACA TTA GTA CTA TT-
1 TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * * * * *
7176542 TTA TTA CTA TTA CT- TTA TTA CTA TTA CTA CTA ATA TCA CTA TTA TCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
7176589 TT- TTT TTA TTA CTA TTA TTA TT- TTA TTA TT- TTT TTA CTA TCTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
* *
7176632 ATA -TA TTA TTA -TA CCTT- TTA TTA TTA TTA CTA TTA TTA -TA TT-
1 TTA TTA TTA TTA TTA --TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * * *
7176674 TTC TT- TT- TTA TTA CTA TTA CTA -TA TTA TTT TTA TTT TTA CTA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
7176719 TTA TTA TTA TAA ATA TTA TCA TTA TTA CTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
7176751 GTTTCGTTAT
Statistics
Matches: 215, Mismatches: 60, Indels: 44
0.67 0.19 0.14
Matches are distributed among these distances:
2 30 0.14
3 170 0.79
4 14 0.07
5 1 0.00
ACGTcount: A:0.31, C:0.09, G:0.01, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:7176541 original size:26 final size:25
Alignment explanation
Indices: 7176512--7176566 Score: 83
Period size: 26 Copynumber: 2.2 Consensus size: 25
7176502 TTATTTTCTT
7176512 TATTTTATTACTATTAACATTAGTAC
1 TATTTTATTACTATT-ACATTAGTAC
* *
7176538 TATTTTATTACTATTACTTTATTAC
1 TATTTTATTACTATTACATTAGTAC
7176563 TATT
1 TATT
7176567 ACTACTAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
25 12 0.44
26 15 0.56
ACGTcount: A:0.31, C:0.11, G:0.02, T:0.56
Consensus pattern (25 bp):
TATTTTATTACTATTACATTAGTAC
Found at i:7176558 original size:14 final size:14
Alignment explanation
Indices: 7176515--7176569 Score: 62
Period size: 14 Copynumber: 4.1 Consensus size: 14
7176505 TTTTCTTTAT
7176515 TTTATTACTATTAAC
1 TTTATTACTATT-AC
* *
7176530 ATTAGTACTA-T--
1 TTTATTACTATTAC
7176541 TTTATTACTATTAC
1 TTTATTACTATTAC
7176555 TTTATTACTATTAC
1 TTTATTACTATTAC
7176569 T
1 T
7176570 ACTAATATCA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
11 8 0.24
12 1 0.03
14 16 0.48
15 8 0.24
ACGTcount: A:0.31, C:0.13, G:0.02, T:0.55
Consensus pattern (14 bp):
TTTATTACTATTAC
Found at i:7176604 original size:20 final size:20
Alignment explanation
Indices: 7176579--7176618 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
7176569 TACTAATATC
*
7176579 ACTATTATCATTTTTTTATT
1 ACTATTATCATTTTATTATT
*
7176599 ACTATTATTATTTTATTATT
1 ACTATTATCATTTTATTATT
7176619 TTTTTACTAT
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:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (20 bp):
ACTATTATCATTTTATTATT
Found at i:7176618 original size:58 final size:60
Alignment explanation
Indices: 7176556--7176670 Score: 139
Period size: 61 Copynumber: 1.9 Consensus size: 60
7176546 TACTATTACT
7176556 TTATTACTATTACTA-CTAATATCACTATTAT-CATTT-TT-TTATTACTATTATTATTTTA
1 TTATT-CTATTACTATCTAATAT-ACTATTATACATTTATTATTATTACTATTATTATTTTA
* * * *
7176614 TTATTTTTTTACTATCTAATATATTATTATACCTTTTATTATTATTACTATTATTAT
1 TTATTCTATTACTATCTAATATACTATTATA-CATTTATTATTATTACTATTATTAT
7176671 ATTTTCTTTT
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
57 14 0.29
58 12 0.25
59 4 0.08
60 2 0.04
61 16 0.33
ACGTcount: A:0.30, C:0.10, G:0.00, T:0.59
Consensus pattern (60 bp):
TTATTCTATTACTATCTAATATACTATTATACATTTATTATTATTACTATTATTATTTTA
Found at i:7176621 original size:29 final size:28
Alignment explanation
Indices: 7176589--7176726 Score: 120
Period size: 29 Copynumber: 4.8 Consensus size: 28
7176579 ACTATTATCA
*
7176589 TTTTTTTATTACTATTATTATTTTATTA
1 TTTTTTTATTACTATTATTATTTTATTT
* *
7176617 TTTTTTTACTATCTAATATATTATTATACCTTT
1 TTTTTTTATTA-CT-AT-TATTATTTTA--TTT
* *
7176650 TATTATTATTACTATTATTA---TATTT
1 TTTTTTTATTACTATTATTATTTTATTT
* *
7176675 TCTTTTTTATTACTATTACTATATTATTT
1 T-TTTTTTATTACTATTATTATTTTATTT
*
7176704 TTATTTTTACTACTATTATTATT
1 TT-TTTTTATTACTATTATTATT
7176727 ATAAATATTA
Statistics
Matches: 88, Mismatches: 12, Indels: 19
0.74 0.10 0.16
Matches are distributed among these distances:
25 4 0.05
26 16 0.18
27 2 0.02
28 11 0.12
29 25 0.28
30 7 0.08
31 11 0.12
32 2 0.02
33 10 0.11
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.65
Consensus pattern (28 bp):
TTTTTTTATTACTATTATTATTTTATTT
Found at i:7176681 original size:58 final size:57
Alignment explanation
Indices: 7176565--7176725 Score: 161
Period size: 58 Copynumber: 2.8 Consensus size: 57
7176555 TTTATTACTA
* * *
7176565 TTACTACTAATATCACTATTATCATTTTTTTATTACTATTATTATTTTATTATTTTT
1 TTACTACTAATATCACTATTATCATTTTATTATTACTACTATTATTATATTATTTTT
* * * *
7176622 TTACTATCTAATAT-ATTATTATACCTTTTATTATTATTACTATTATTATATTTTCTTTT
1 TTACTA-CTAATATCACTATTAT-CATTTTATTATTACTACTATTATTATATTAT-TTTT
* * *
7176681 TTATTACT-AT-T-ACTA-TATTATTTTTATTTTTACTACTATTATTAT
1 TTACTACTAATATCACTATTATCA-TTTTATTATTACTACTATTATTAT
7176726 TATAAATATT
Statistics
Matches: 87, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
55 25 0.29
56 4 0.05
57 15 0.17
58 34 0.39
59 9 0.10
ACGTcount: A:0.29, C:0.10, G:0.00, T:0.61
Consensus pattern (57 bp):
TTACTACTAATATCACTATTATCATTTTATTATTACTACTATTATTATATTATTTTT
Found at i:7176712 original size:61 final size:61
Alignment explanation
Indices: 7176594--7176728 Score: 152
Period size: 61 Copynumber: 2.2 Consensus size: 61
7176584 TATCATTTTT
*
7176594 TTATTACTATTATTATTTTATTATTTTTTTACTATCTAATATATTATTATACCTTTTATTA
1 TTATTACTATTATTATTTTATTATTTTTTTACTATCTAATATATTATTATACCTTTTACTA
* * *
7176655 TTATTACTATTATTATATTT-TCT-TTTTTATTACTAT-TACTATATTATTTTTA-TTTTTACTA
1 TTATTACTATTATTAT-TTTAT-TATTTTT-TTACTATCTAATATATTA-TTATACCTTTTACTA
* *
7176716 CTATTATTATTAT
1 TTATTACTATTAT
7176729 AAATATTATC
Statistics
Matches: 64, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
61 49 0.77
62 15 0.23
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (61 bp):
TTATTACTATTATTATTTTATTATTTTTTTACTATCTAATATATTATTATACCTTTTACTA
Found at i:7176722 original size:21 final size:20
Alignment explanation
Indices: 7176662--7176728 Score: 61
Period size: 20 Copynumber: 3.5 Consensus size: 20
7176652 TTATTATTAC
7176662 TATTATTATATTTT-CT-T-T
1 TATTATTAT-TTTTACTATAT
* *
7176680 T-TTATTACTATTACTATAT
1 TATTATTATTTTTACTATAT
*
7176699 TATTTTTATTTTTACTACTAT
1 TATTATTATTTTTACTA-TAT
7176720 TATTATTAT
1 TATTATTAT
7176729 AAATATTATC
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
16 3 0.08
17 8 0.21
18 2 0.05
19 2 0.05
20 12 0.32
21 11 0.29
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.66
Consensus pattern (20 bp):
TATTATTATTTTTACTATAT
Found at i:7179587 original size:44 final size:44
Alignment explanation
Indices: 7179524--7179615 Score: 175
Period size: 44 Copynumber: 2.1 Consensus size: 44
7179514 TTTGGTTAGT
7179524 ATACATGGGGAATAACTACAAAAAGAAAGTTCGCGAAATATCAA
1 ATACATGGGGAATAACTACAAAAAGAAAGTTCGCGAAATATCAA
*
7179568 ATACATGGGGAATAACTACAAAAAGAAAGTTCGCGAGATATCAA
1 ATACATGGGGAATAACTACAAAAAGAAAGTTCGCGAAATATCAA
7179612 ATAC
1 ATAC
7179616 CTGGAACCAG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.18
Consensus pattern (44 bp):
ATACATGGGGAATAACTACAAAAAGAAAGTTCGCGAAATATCAA
Found at i:7180082 original size:17 final size:17
Alignment explanation
Indices: 7180056--7180090 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
7180046 GCCAACCAAT
*
7180056 GGGAAGAAAATTTTCCG
1 GGGAAGAAAAATTTCCG
*
7180073 GGGAATAAAAATTTCCG
1 GGGAAGAAAAATTTCCG
7180090 G
1 G
7180091 TTGTTTAAGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.37, C:0.11, G:0.29, T:0.23
Consensus pattern (17 bp):
GGGAAGAAAAATTTCCG
Found at i:7188912 original size:87 final size:87
Alignment explanation
Indices: 7188656--7189333 Score: 914
Period size: 87 Copynumber: 7.7 Consensus size: 87
7188646 GAATTCGTAA
* * * * * ** *
7188656 GCCTT-AACCCTCTAAGCAGTAGGGTAACAGGCTAAAAATTACAAATCTTGTCTCCCTAAACAAT
1 GCCTTAAACCC-CTAAGCAGTAGGGTAACAGGCT-GAATTTACAGATCTTATCACCCTAAGTAGT
* ** *
7188720 AGTGG-AGCAGATCGAAGACGAAGG
64 AG-GGAAACAGATCGAAGGTGATGG
*
7188744 GCCTT-AACTCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCACCCTAAGTAGT
1 GCCTTAAAC-CCCTAAGCAGTAGGGTAACAGGCTG-AATTTACAGATCTTATCACCCTAAGTAGT
7188808 AGGGAAACAGATCGAAGGTGATGG
64 AGGGAAACAGATCGAAGGTGATGG
7188832 GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGTAGTAG
1 GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGTAGTAG
* *
7188897 GGAAACAGATTGAAGGTGATAG
66 GGAAACAGATCGAAGGTGATGG
* *
7188919 ACCTTAAACCCCCTAAGTAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGTAGTA
1 GCCTTAAA-CCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGTAGTA
* *
7188984 GGGATACAGATCGAAGGTAATGG
65 GGGAAACAGATCGAAGGTGATGG
* * * * *
7189007 GCCTTAAACCCCTAAGCAGTAGGATAATAGGCTGAATTTACGGATCTTATCACCATAAGCAGTAG
1 GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGTAGTAG
* * *
7189072 GCAAACAGATCAAAAGTGATGG
66 GGAAACAGATCGAAGGTGATGG
*
7189094 GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGCAGTAG
1 GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGTAGTAG
7189159 GGAAACAGATCGAAGGTGATGG
66 GGAAACAGATCGAAGGTGATGG
*
7189181 GCCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAATTTACAGATCTTATCACCCTAAGTAGTA-
1 GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGTAGTAG
* *
7189245 GGAGAACAGATCAAAGATGATGG
66 GGA-AACAGATCGAAGGTGATGG
* * * * * * *
7189268 GCCTTAAACCCCTAAGCAGTAGGTTAACAGGTTGGAAATCAAAGATCTTATCTCTCTAAGTAGTA
1 GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCT-GAATTTACAGATCTTATCACCCTAAGTAGTA
7189333 G
65 G
7189334 TGGAGTAGAT
Statistics
Matches: 533, Mismatches: 49, Indels: 15
0.89 0.08 0.03
Matches are distributed among these distances:
86 3 0.01
87 318 0.60
88 207 0.39
89 5 0.01
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.23
Consensus pattern (87 bp):
GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGTAGTAG
GGAAACAGATCGAAGGTGATGG
Found at i:7189183 original size:174 final size:172
Alignment explanation
Indices: 7188656--7189333 Score: 901
Period size: 175 Copynumber: 3.9 Consensus size: 172
7188646 GAATTCGTAA
* * * * * ** *
7188656 GCCTT-AACCCTCTAAGCAGTAGGGTAACAGGCTAAAAATTACAAATCTTGTCTCCCTAAACAAT
1 GCCTTAAACCC-CTAAGCAGTAGGGTAACAGGCT-GAATTTACAGATCTTATCACCCTAAGTAGT
* * * * * *
7188720 AGTGGAGCAGATCGAAGACGAAGGGCCTT-AACTCCCTAAGCAGTAGGGTAACAGGCTGAAAATT
64 AG-GAAACAGATCAAAG-TGATGGGCCTTAAAC-CCCTAAGCAGTAGGGTAACAGGCTG-AATTT
7188784 ACAGATCTTATCACCCTAAGTAGTAGGGAAACAGATCGAAGGTGATGG
125 ACAGATCTTATCACCCTAAGTAGTAGGGAAACAGATCGAAGGTGATGG
7188832 GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGTAGTAG
1 GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGTAGTA-
* * * * *
7188897 GGAAACAGATTGAAGGTGATAGACCTTAAACCCCCTAAGTAGTAGGGTAACAGGCTGAATTTACA
65 GGAAACAGA-TCAAAGTGATGGGCCTTAAA-CCCCTAAGCAGTAGGGTAACAGGCTGAATTTACA
* *
7188962 GATCTTATCACCCTAAGTAGTAGGGATACAGATCGAAGGTAATGG
128 GATCTTATCACCCTAAGTAGTAGGGAAACAGATCGAAGGTGATGG
* * * * *
7189007 GCCTTAAACCCCTAAGCAGTAGGATAATAGGCTGAATTTACGGATCTTATCACCATAAGCAGTAG
1 GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGTAGTAG
7189072 GCAAACAGATCAAAAGTGATGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAG
66 G-AAACAGATC-AAAGTGATGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAG
*
7189137 ATCTTATCACCCTAAGCAGTAGGGAAACAGATCGAAGGTGATGG
129 ATCTTATCACCCTAAGTAGTAGGGAAACAGATCGAAGGTGATGG
*
7189181 GCCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAATTTACAGATCTTATCACCCTAAGTAGTAG
1 GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGTAGTAG
* * * * *
7189246 GAGAACAGATCAAAGATGATGGGCCTTAAACCCCTAAGCAGTAGGTTAACAGGTTGGAAATCAAA
66 GA-AACAGATCAAAG-TGATGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCT-GAATTTACA
* *
7189311 GATCTTATCTCTCTAAGTAGTAG
128 GATCTTATCACCCTAAGTAGTAG
7189334 TGGAGTAGAT
Statistics
Matches: 444, Mismatches: 48, Indels: 21
0.87 0.09 0.04
Matches are distributed among these distances:
173 5 0.01
174 183 0.41
175 193 0.43
176 57 0.13
177 6 0.01
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.23
Consensus pattern (172 bp):
GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGTAGTAG
GAAACAGATCAAAGTGATGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGAT
CTTATCACCCTAAGTAGTAGGGAAACAGATCGAAGGTGATGG
Found at i:7189289 original size:44 final size:43
Alignment explanation
Indices: 7188797--7189297 Score: 187
Period size: 44 Copynumber: 11.5 Consensus size: 43
7188787 GATCTTATCA
* * *
7188797 CCCTAAGTAGTAGGGAAACAGATCGAAGGTGATGGGCCTTAAAC
1 CCCTAAGCAGTAGGGTAACAGATCGAA-ATGATGGGCCTTAAAC
* * * ** ** *
7188841 CCCTAAGCAGTAGGGTAACAG-GCTGAATTTACAGATCTT-ATC
1 CCCTAAGCAGTAGGGTAACAGATC-GAAATGATGGGCCTTAAAC
* * * * * *
7188883 ACCCTAAGTAGTAGGGAAACAGATTGAAGGTGATAGACCTTAAACC
1 -CCCTAAGCAGTAGGGTAACAGATCGAA-ATGATGGGCCTTAAA-C
* * * * ** ** *
7188929 CCCTAAGTAGTAGGGTAACAG-GCTGAATTTACAGATCTT-ATC
1 CCCTAAGCAGTAGGGTAACAGATC-GAAATGATGGGCCTTAAAC
* * *
7188971 ACCCTAAGTAGTAGGG-ATACAGATCGAAGGTAATGGGCCTTAAAC
1 -CCCTAAGCAGTAGGGTA-ACAGATCGAA-ATGATGGGCCTTAAAC
* * * * * * ** *
7189016 CCCTAAGCAGTAGGATAATAG-GCTGAATTTACGGATCTT-ATC
1 CCCTAAGCAGTAGGGTAACAGATC-GAAATGATGGGCCTTAAAC
* ** *
7189058 ACCATAAGCAGTAGGCAAACAGATCAAAAGTGATGGGCCTTAAAC
1 -CCCTAAGCAGTAGGGTAACAGATCGAAA-TGATGGGCCTTAAAC
* * * ** ** *
7189103 CCCTAAGCAGTAGGGTAACAG-GCTGAATTTACAGATCTT-ATC
1 CCCTAAGCAGTAGGGTAACAGATC-GAAATGATGGGCCTTAAAC
* *
7189145 ACCCTAAGCAGTAGGGAAACAGATCGAAGGTGATGGGCCTTAAAC
1 -CCCTAAGCAGTAGGGTAACAGATCGAA-ATGATGGGCCTTAAAC
* * * * ** ** *
7189190 CCCTAAGCAGTAGGGTAACAGGTTGAATTTACAGATCTT-ATC
1 CCCTAAGCAGTAGGGTAACAGATCGAAATGATGGGCCTTAAAC
* *
7189232 ACCCTAAGTAGTAGGAG-AACAGATCAAAGATGATGGGCCTTAAAC
1 -CCCTAAGCAGTAGG-GTAACAGATCGAA-ATGATGGGCCTTAAAC
*
7189277 CCCTAAGCAGTAGGTTAACAG
1 CCCTAAGCAGTAGGGTAACAG
7189298 GTTGGAAATC
Statistics
Matches: 328, Mismatches: 101, Indels: 56
0.68 0.21 0.12
Matches are distributed among these distances:
42 10 0.03
43 136 0.41
44 148 0.45
45 33 0.10
46 1 0.00
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.22
Consensus pattern (43 bp):
CCCTAAGCAGTAGGGTAACAGATCGAAATGATGGGCCTTAAAC
Found at i:7191063 original size:18 final size:17
Alignment explanation
Indices: 7191040--7191082 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
7191030 AAATACTATT
*
7191040 ATTATTTCTACTATTGTC
1 ATTATTTCTACTATTG-A
* *
7191058 ATTATTACTATTATTGA
1 ATTATTTCTACTATTGA
7191075 ATTATTTC
1 ATTATTTC
7191083 ATCATCATCA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.28, C:0.12, G:0.05, T:0.56
Consensus pattern (17 bp):
ATTATTTCTACTATTGA
Found at i:7191206 original size:3 final size:3
Alignment explanation
Indices: 7191169--7191460 Score: 72
Period size: 3 Copynumber: 99.3 Consensus size: 3
7191159 TTTCATATCG
* * *
7191169 TTA TCA TTA -TA TTA -TA TATA TTA TGTA TATA TTA TTA TT- TGCA TCA
1 TTA TTA TTA TTA TTA TTA T-TA TTA T-TA T-TA TTA TTA TTA T-TA TTA
** * * *
7191215 TTA TTA TTA TTA CAA TTT TTA TT- TTCT TTA TT- TTA TTA CTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA
** * * * * * * * *
7191259 ACA TTA GTA CTA TTT TTA TTA CTA TTA CT- TTA TTA CTA TTA CTA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
** * * * * * * *
7191306 ACA TCA CTA TTA TCA TT- TTA TTA TTA TTA TTT TTA TTA TTT TTT TTT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
7191353 TTA CTA TCTA ATA -TA TTA TTA -TA CCTTA TTA TTA TTA -TA TT- TTC
1 TTA TTA T-TA TTA TTA TTA TTA TTA --TTA TTA TTA TTA TTA TTA TTA
* * * * *
7191397 TT- TT- TTA TTA CTA TTA CTA TT- TTA TTT TTA TTT TTA CTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
7191442 TTA TCA ATA TTA TCA TTA T
1 TTA TTA TTA TTA TTA TTA T
7191461 CACTATCGTT
Statistics
Matches: 208, Mismatches: 61, Indels: 40
0.67 0.20 0.13
Matches are distributed among these distances:
2 26 0.12
3 166 0.80
4 14 0.07
5 2 0.01
ACGTcount: A:0.30, C:0.09, G:0.01, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:7191275 original size:41 final size:41
Alignment explanation
Indices: 7191220--7191299 Score: 108
Period size: 41 Copynumber: 2.0 Consensus size: 41
7191210 CATCATTATT
* * *
7191220 ATTATTACAATTTTTATTTTCT-TTATTTTATTACTATTAAC
1 ATTAGTACAATTTTTA-TTACTATTACTTTATTACTATTAAC
*
7191261 ATTAGTACTATTTTTATTACTATTACTTTATTACTATTA
1 ATTAGTACAATTTTTATTACTATTACTTTATTACTATTA
7191300 CTACTAACAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 4 0.12
41 30 0.88
ACGTcount: A:0.30, C:0.10, G:0.01, T:0.59
Consensus pattern (41 bp):
ATTAGTACAATTTTTATTACTATTACTTTATTACTATTAAC
Found at i:7191417 original size:29 final size:26
Alignment explanation
Indices: 7191379--7191445 Score: 80
Period size: 26 Copynumber: 2.5 Consensus size: 26
7191369 TATTATACCT
*
7191379 TATTATTATTATATTTTCTTTTTTATTAC
1 TATTATTATTATA-TTT-TTATTT-TTAC
* *
7191408 TATTACTATTTTATTTTTATTTTTAC
1 TATTATTATTATATTTTTATTTTTAC
7191434 TATTATTATTAT
1 TATTATTATTAT
7191446 CAATATTATC
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
26 14 0.42
27 5 0.15
28 3 0.09
29 11 0.33
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.69
Consensus pattern (26 bp):
TATTATTATTATATTTTTATTTTTAC
Found at i:7191614 original size:18 final size:18
Alignment explanation
Indices: 7191591--7191625 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
7191581 CTTGCTTTTT
*
7191591 TCATATTTTTATTATTGC
1 TCATATTATTATTATTGC
*
7191609 TCATATTATTGTTATTG
1 TCATATTATTATTATTG
7191626 ATATTGTCGC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.09, G:0.09, T:0.60
Consensus pattern (18 bp):
TCATATTATTATTATTGC
Found at i:7195677 original size:17 final size:16
Alignment explanation
Indices: 7195636--7195677 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 16
7195626 AATATTTATT
7195636 TAAAATTAATTATAAA
1 TAAAATTAATTATAAA
7195652 -AATATATTAATTATAAA
1 TAA-A-ATTAATTATAAA
7195669 CTAAAATTA
1 -TAAAATTA
7195678 TACTAAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 7
0.76 0.00 0.24
Matches are distributed among these distances:
15 2 0.09
16 1 0.05
17 16 0.73
18 1 0.05
19 2 0.09
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (16 bp):
TAAAATTAATTATAAA
Found at i:7195684 original size:11 final size:11
Alignment explanation
Indices: 7195668--7195699 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
7195658 TTAATTATAA
7195668 ACTAAAATTAT
1 ACTAAAATTAT
7195679 ACTAAAATTAT
1 ACTAAAATTAT
*
7195690 ATTAAAATTA
1 ACTAAAATTA
7195700 AGTTAAATCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (11 bp):
ACTAAAATTAT
Found at i:7196106 original size:22 final size:22
Alignment explanation
Indices: 7196081--7196124 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
7196071 TAGTCTTATA
7196081 ATAATTTATTAATATAATAAAT
1 ATAATTTATTAATATAATAAAT
* *
7196103 ATAATTTATTATTTTAATAAAT
1 ATAATTTATTAATATAATAAAT
7196125 TATTTAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
ATAATTTATTAATATAATAAAT
Found at i:7196135 original size:20 final size:22
Alignment explanation
Indices: 7196081--7196136 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
7196071 TAGTCTTATA
* * *
7196081 ATAATTTATTAATATAATAAAT
1 ATAATTTAATATTTTAATAAAT
*
7196103 ATAATTTATTATTTTAATAAAT
1 ATAATTTAATATTTTAATAAAT
7196125 -T-ATTTAATATTT
1 ATAATTTAATATTT
7196137 CAATTTTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
20 10 0.32
21 1 0.03
22 20 0.65
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
ATAATTTAATATTTTAATAAAT
Found at i:7196176 original size:15 final size:16
Alignment explanation
Indices: 7196149--7196179 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
7196139 ATTTTATTTT
7196149 AATAATAAATTTTAAA
1 AATAATAAATTTTAAA
7196165 AATAAT-AATTTTAAA
1 AATAATAAATTTTAAA
7196180 GAACATTATT
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:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AATAATAAATTTTAAA
Found at i:7196238 original size:15 final size:15
Alignment explanation
Indices: 7196218--7196274 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
7196208 ATTCAATATT
7196218 AATATTTTAATAATA
1 AATATTTTAATAATA
*
7196233 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
7196252 AATATATTAATAATA
1 AATATTTTAATAATA
*
7196267 AATGTTTT
1 AATATTTT
7196275 GTAGTTTAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:7196750 original size:14 final size:14
Alignment explanation
Indices: 7196731--7196768 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
7196721 CCAGAAAAGT
7196731 AAATCATTTTCCAG
1 AAATCATTTTCCAG
*
7196745 AAATCATTTTCCGG
1 AAATCATTTTCCAG
*
7196759 AAGTCATTTT
1 AAATCATTTT
7196769 TAGTGAAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.39
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:7198207 original size:14 final size:14
Alignment explanation
Indices: 7198188--7198217 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
7198178 AACCCCTTTC
7198188 AATAATAATAGTTT
1 AATAATAATAGTTT
*
7198202 AATAATAATGGTTT
1 AATAATAATAGTTT
7198216 AA
1 AA
7198218 GAGTAAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (14 bp):
AATAATAATAGTTT
Found at i:7198449 original size:20 final size:20
Alignment explanation
Indices: 7198424--7198465 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
7198414 TTTTTTGAAA
7198424 ATTTTAAAATTAATAAAAAT
1 ATTTTAAAATTAATAAAAAT
7198444 ATTTTAAAATTAATAAAAAT
1 ATTTTAAAATTAATAAAAAT
7198464 AT
1 AT
7198466 ATACATTTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
ATTTTAAAATTAATAAAAAT
Found at i:7198652 original size:28 final size:31
Alignment explanation
Indices: 7198621--7198677 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
7198611 ATATCTAAAA
*
7198621 AATTT-GAAAAAAA-TA-AAAAATTATTATT
1 AATTTAGAAAAAAACCATAAAAATTATTATT
*
7198649 AATTTATAAAAAAACCATAAAAATTATTA
1 AATTTAGAAAAAAACCATAAAAATTATTA
7198678 AAACAAACCT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 5 0.21
29 7 0.29
30 1 0.04
31 11 0.46
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (31 bp):
AATTTAGAAAAAAACCATAAAAATTATTATT
Found at i:7199135 original size:39 final size:39
Alignment explanation
Indices: 7199088--7199173 Score: 172
Period size: 39 Copynumber: 2.2 Consensus size: 39
7199078 TAAAACTGAT
7199088 TTAACCGACCGAACCGAATTAATTCGGTTAATCGGTCGG
1 TTAACCGACCGAACCGAATTAATTCGGTTAATCGGTCGG
7199127 TTAACCGACCGAACCGAATTAATTCGGTTAATCGGTCGG
1 TTAACCGACCGAACCGAATTAATTCGGTTAATCGGTCGG
7199166 TTAACCGA
1 TTAACCGA
7199174 ATTAATTCAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 47 1.00
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (39 bp):
TTAACCGACCGAACCGAATTAATTCGGTTAATCGGTCGG
Found at i:7200486 original size:18 final size:19
Alignment explanation
Indices: 7200465--7200507 Score: 70
Period size: 18 Copynumber: 2.3 Consensus size: 19
7200455 TAATAAGTAT
*
7200465 TAATTTTTTTATAA-TTTA
1 TAATTTTTTAATAATTTTA
7200483 TAATTTTTTAATAATTTTA
1 TAATTTTTTAATAATTTTA
7200502 TAATTT
1 TAATTT
7200508 ATACTAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 13 0.57
19 10 0.43
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
TAATTTTTTAATAATTTTA
Found at i:7200559 original size:20 final size:19
Alignment explanation
Indices: 7200475--7200591 Score: 57
Period size: 18 Copynumber: 6.3 Consensus size: 19
7200465 TAATTTTTTT
7200475 ATAATTTATAAT-TTTT-TA
1 ATAATTT-TAATATTTTGTA
* *
7200493 ATAATTTT-ATAATTTATA
1 ATAATTTTAATATTTTGTA
* *
7200511 CTAATTATTAA-ATTTGGTA
1 ATAATT-TTAATATTTTGTA
*** *
7200530 GCCATGTTAATATTTTGTA
1 ATAATTTTAATATTTTGTA
*
7200549 ATAATTATTAATATATT-T-
1 ATAATT-TTAATATTTTGTA
*
7200567 ATAATTTTTATAGTTTTGTA
1 ATAATTTTAATA-TTTTGTA
*
7200587 CTAAT
1 ATAAT
7200592 CAAAATGAAT
Statistics
Matches: 72, Mismatches: 18, Indels: 16
0.68 0.17 0.15
Matches are distributed among these distances:
16 2 0.03
17 9 0.12
18 27 0.38
19 20 0.28
20 14 0.19
ACGTcount: A:0.37, C:0.03, G:0.06, T:0.54
Consensus pattern (19 bp):
ATAATTTTAATATTTTGTA
Found at i:7200577 original size:21 final size:20
Alignment explanation
Indices: 7200454--7200571 Score: 56
Period size: 18 Copynumber: 6.2 Consensus size: 20
7200444 ATTTTTAAGA
*
7200454 ATAATAAGTATTAAT-TTTT
1 ATAATAATTATTAATATTTT
*
7200473 -TTATAATT-TATAAT-TTTT
1 ATAATAATTAT-TAATATTTT
*
7200491 -TAATAATT-TT-ATAATTT
1 ATAATAATTATTAATATTTT
* *
7200508 ATACTAATTATTAA-ATTTG
1 ATAATAATTATTAATATTTT
* *** *
7200527 GTAGCCA-TGTTAATATTTT
1 ATAATAATTATTAATATTTT
*
7200546 GTAATAATTATTAATATATTT
1 ATAATAATTATTAATAT-TTT
7200567 ATAAT
1 ATAAT
7200572 TTTTATAGTT
Statistics
Matches: 73, Mismatches: 18, Indels: 14
0.70 0.17 0.13
Matches are distributed among these distances:
16 2 0.03
17 5 0.07
18 34 0.47
19 16 0.22
20 9 0.12
21 7 0.10
ACGTcount: A:0.39, C:0.03, G:0.05, T:0.53
Consensus pattern (20 bp):
ATAATAATTATTAATATTTT
Found at i:7205413 original size:16 final size:15
Alignment explanation
Indices: 7205376--7205425 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
7205366 GTTAAATCTG
7205376 AATTT-AAAATTTTA
1 AATTTAAAAATTTTA
**
7205390 AAAATAAAAATTCTTA
1 AATTTAAAAATT-TTA
*
7205406 AATTTAAAAATTTAA
1 AATTTAAAAATTTTA
7205421 AATTT
1 AATTT
7205426 TTGAAGAGAA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
14 3 0.10
15 13 0.45
16 13 0.45
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (15 bp):
AATTTAAAAATTTTA
Found at i:7206984 original size:15 final size:15
Alignment explanation
Indices: 7206964--7206998 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
7206954 TTAATAAAAA
*
7206964 ATATATTTAATATAT
1 ATATATTAAATATAT
7206979 ATATATTAAATATAT
1 ATATATTAAATATAT
*
7206994 TTATA
1 ATATA
7206999 AATATCAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
ATATATTAAATATAT
Found at i:7209159 original size:31 final size:32
Alignment explanation
Indices: 7209114--7209180 Score: 100
Period size: 31 Copynumber: 2.1 Consensus size: 32
7209104 TTTTTGCAAT
*
7209114 TATACATATTAAATTTTGATTTTGATTCAAATG
1 TATACATA-TAAATTTTAATTTTGATTCAAATG
*
7209147 TATACATA-AAATTTTAATTTTGATTTAAATG
1 TATACATATAAATTTTAATTTTGATTCAAATG
7209178 TAT
1 TAT
7209181 GAATTTAAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
31 24 0.75
33 8 0.25
ACGTcount: A:0.39, C:0.04, G:0.07, T:0.49
Consensus pattern (32 bp):
TATACATATAAATTTTAATTTTGATTCAAATG
Found at i:7216742 original size:102 final size:98
Alignment explanation
Indices: 7216567--7216752 Score: 255
Period size: 102 Copynumber: 1.9 Consensus size: 98
7216557 TTTCTTTAAT
* * * *
7216567 TTTGGGACACTGATGGCCGGCACCAGTGTCAATTAAAAAAATTGGGTGTTGGCCAGTAGATGACC
1 TTTGGGACACTGATGGCAGGCACAAATGTCAATTAAAAAAATTGGGTGCTGGCCAGTAGATGACC
*
7216632 GGCACCAAGTACATTTTTTGCAATTTTTTTTAC
66 GACACCAAGTACATTTTTTGCAATTTTTTTTAC
*
7216665 TTTGGGACACTGATGGCAGGCAGAAATGTCAATTAAAAAAATATTTTGGGTGCTGGCCAGTAGAT
1 TTTGGGACACTGATGGCAGGCACAAATGTCAATT-AAAAAA-A--TTGGGTGCTGGCCAGTAGAT
***
7216730 GGTTGACACCAAGTACATTTTTT
62 GACCGACACCAAGTACATTTTTT
7216753 TAGGTTCCAA
Statistics
Matches: 75, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
98 30 0.40
99 6 0.08
100 1 0.01
102 38 0.51
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.31
Consensus pattern (98 bp):
TTTGGGACACTGATGGCAGGCACAAATGTCAATTAAAAAAATTGGGTGCTGGCCAGTAGATGACC
GACACCAAGTACATTTTTTGCAATTTTTTTTAC
Found at i:7217033 original size:12 final size:12
Alignment explanation
Indices: 7217018--7217043 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
7217008 TCCATTTGAG
7217018 TTTTTGTTTGCT
1 TTTTTGTTTGCT
7217030 TTTTTGTTTGCT
1 TTTTTGTTTGCT
7217042 TT
1 TT
7217044 ATTAGTTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.08, G:0.15, T:0.77
Consensus pattern (12 bp):
TTTTTGTTTGCT
Found at i:7219983 original size:44 final size:44
Alignment explanation
Indices: 7219933--7220084 Score: 241
Period size: 44 Copynumber: 3.5 Consensus size: 44
7219923 TTCTTATTCC
* *
7219933 TAATTTAAAACACATTAAATTATAATACAATTTACATGCATATT
1 TAATTTAAAACACATTAAATTATAATACAATATACATACATATT
* * *
7219977 TAATTTAGAGCACATTAAATTACAATACAATATACATACATATT
1 TAATTTAAAACACATTAAATTATAATACAATATACATACATATT
* *
7220021 TATTTTAAAACACATTAAATTATAATACAACATACATACATATT
1 TAATTTAAAACACATTAAATTATAATACAATATACATACATATT
7220065 TAATTTAAAACACATTAAAT
1 TAATTTAAAACACATTAAAT
7220085 GAAACAAATT
Statistics
Matches: 97, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 97 1.00
ACGTcount: A:0.49, C:0.12, G:0.02, T:0.36
Consensus pattern (44 bp):
TAATTTAAAACACATTAAATTATAATACAATATACATACATATT
Found at i:7220079 original size:22 final size:22
Alignment explanation
Indices: 7220010--7220079 Score: 63
Period size: 22 Copynumber: 3.2 Consensus size: 22
7220000 AATACAATAT
*
7220010 ACATACATATTTATTTTAAAAC
1 ACATACATATTTAATTTAAAAC
** * *
7220032 ACATTA-A-ATTATAATACAACAT
1 ACA-TACATATT-TAATTTAAAAC
7220054 ACATACATATTTAATTTAAAAC
1 ACATACATATTTAATTTAAAAC
7220076 ACAT
1 ACAT
7220080 TAAATGAAAC
Statistics
Matches: 35, Mismatches: 9, Indels: 8
0.67 0.17 0.15
Matches are distributed among these distances:
21 5 0.14
22 25 0.71
23 5 0.14
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (22 bp):
ACATACATATTTAATTTAAAAC
Found at i:7220363 original size:6 final size:6
Alignment explanation
Indices: 7220348--7220398 Score: 52
Period size: 6 Copynumber: 8.8 Consensus size: 6
7220338 AAGATAATTT
* * * *
7220348 AAAT-G AAATGG AAATGA AAATGA AAATGG AAAT-G AAGTGG AAATAG
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG
7220394 AAATG
1 AAATG
7220399 AAAAAAAAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
5 8 0.21
6 30 0.79
ACGTcount: A:0.57, C:0.00, G:0.25, T:0.18
Consensus pattern (6 bp):
AAATGG
Found at i:7220367 original size:50 final size:49
Alignment explanation
Indices: 7220117--7220361 Score: 369
Period size: 50 Copynumber: 5.1 Consensus size: 49
7220107 AAATTAATAT
* * *
7220117 GAAAAAAAACGTAAATTAAAATGGAAAGAAAGATAATTTAAATGAAATGA
1 GAAAAAAAA-TTAAATTTAAATGGAAAAAAAGATAATTTAAATGAAATGA
7220167 GAAAAAAAATTAAATTTAAATGGAAAAAAA-ATAATTTAAATGAAATGA
1 GAAAAAAAATTAAATTTAAATGGAAAAAAAGATAATTTAAATGAAATGA
*
7220215 G-AAAAAAATTAAATTTAAAAGGAAAAAAAGATAATTTAAATGAAATGA
1 GAAAAAAAATTAAATTTAAATGGAAAAAAAGATAATTTAAATGAAATGA
*
7220263 GAAACAAAAATTAAATTTAAATGGAAAGAAAGATAATTTAAATGAAATGA
1 GAAA-AAAAATTAAATTTAAATGGAAAAAAAGATAATTTAAATGAAATGA
7220313 G--AAAAAA--AAATTTAAATGGAAAAAAAAGATAATTTAAATGAAATG-
1 GAAAAAAAATTAAATTTAAATGG-AAAAAAAGATAATTTAAATGAAATGA
7220358 GAAA
1 GAAA
7220362 TGAAAATGAA
Statistics
Matches: 182, Mismatches: 7, Indels: 15
0.89 0.03 0.07
Matches are distributed among these distances:
45 13 0.07
46 24 0.13
47 33 0.18
48 39 0.21
49 20 0.11
50 53 0.29
ACGTcount: A:0.63, C:0.01, G:0.13, T:0.22
Consensus pattern (49 bp):
GAAAAAAAATTAAATTTAAATGGAAAAAAAGATAATTTAAATGAAATGA
Found at i:7220381 original size:96 final size:95
Alignment explanation
Indices: 7220115--7220361 Score: 376
Period size: 96 Copynumber: 2.6 Consensus size: 95
7220105 AAAAATTAAT
* *
7220115 ATGA-AAAAAAACGTAAATTAAAATGGAAAGAAAGATAATTTAAATGAAATGAGAAAAAAAATTA
1 ATGAGAAAAAAA--TAAATTTAAATGGAAAAAAAGATAATTTAAATGAAATGAGAAAAAAAATTA
7220179 AATTTAAATGGAAAAAAAATAATTTAAATGAA
64 AATTTAAATGGAAAAAAAATAATTTAAATGAA
*
7220211 ATGAGAAAAAAATTAAATTTAAAAGGAAAAAAAGATAATTTAAATGAAATGAGAAACAAAAATTA
1 ATGAGAAAAAAA-TAAATTTAAATGGAAAAAAAGATAATTTAAATGAAATGAGAAA-AAAAATTA
*
7220276 AATTTAAATGGAAAGAAAGATAATTTAAATGAA
64 AATTTAAATGGAAA-AAAAATAATTTAAATGAA
7220309 ATGAG-AAAAAA-AAATTTAAATGGAAAAAAAAGATAATTTAAATGAAATG-GAAA
1 ATGAGAAAAAAATAAATTTAAATGG-AAAAAAAGATAATTTAAATGAAATGAGAAA
7220362 TGAAAATGAA
Statistics
Matches: 141, Mismatches: 6, Indels: 9
0.90 0.04 0.06
Matches are distributed among these distances:
95 15 0.11
96 69 0.49
97 35 0.25
98 22 0.16
ACGTcount: A:0.63, C:0.01, G:0.13, T:0.23
Consensus pattern (95 bp):
ATGAGAAAAAAATAAATTTAAATGGAAAAAAAGATAATTTAAATGAAATGAGAAAAAAAATTAAA
TTTAAATGGAAAAAAAATAATTTAAATGAA
Found at i:7220579 original size:25 final size:25
Alignment explanation
Indices: 7220545--7220610 Score: 73
Period size: 25 Copynumber: 2.7 Consensus size: 25
7220535 TGAAATGAGA
7220545 AAAATTTTGAATTTAAATGAAATTT
1 AAAATTTTGAATTTAAATGAAATTT
* ** *
7220570 AAAATTTTGAAATGGAATGATATTT
1 AAAATTTTGAATTTAAATGAAATTT
*
7220595 -AAA-TTTCAATTTAAAT
1 AAAATTTTGAATTTAAAT
7220611 AAGATATGAA
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
23 9 0.27
24 3 0.09
25 21 0.64
ACGTcount: A:0.47, C:0.02, G:0.09, T:0.42
Consensus pattern (25 bp):
AAAATTTTGAATTTAAATGAAATTT
Found at i:7220690 original size:21 final size:21
Alignment explanation
Indices: 7220664--7220705 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
7220654 TTAATTAATA
*
7220664 TGAAAAAAATATGAAATGAAT
1 TGAAAAAAAAATGAAATGAAT
*
7220685 TGAAAAAAAAATGAATTGAAT
1 TGAAAAAAAAATGAAATGAAT
7220706 AAAGATAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.14, T:0.24
Consensus pattern (21 bp):
TGAAAAAAAAATGAAATGAAT
Found at i:7220800 original size:5 final size:5
Alignment explanation
Indices: 7220790--7220828 Score: 51
Period size: 5 Copynumber: 7.2 Consensus size: 5
7220780 AAAAATAATT
7220790 AATGA AATGA AATGA AATGTTA AATGA ATATGA AATGA A
1 AATGA AATGA AATGA AATG--A AATGA A-ATGA AATGA A
7220829 TGATGATTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
5 21 0.68
6 5 0.16
7 5 0.16
ACGTcount: A:0.56, C:0.00, G:0.18, T:0.26
Consensus pattern (5 bp):
AATGA
Found at i:7220834 original size:18 final size:19
Alignment explanation
Indices: 7220813--7220850 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
7220803 GAAATGTTAA
7220813 ATGAATATGAAAT-GAATG
1 ATGAATATGAAATGGAATG
* *
7220831 ATGATTTTGAAATGGAATG
1 ATGAATATGAAATGGAATG
7220850 A
1 A
7220851 AAGTTTAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.45, C:0.00, G:0.24, T:0.32
Consensus pattern (19 bp):
ATGAATATGAAATGGAATG
Found at i:7220899 original size:18 final size:17
Alignment explanation
Indices: 7220878--7220943 Score: 71
Period size: 17 Copynumber: 3.9 Consensus size: 17
7220868 AATTATAAAT
*
7220878 TGAAATGGAAACAAAAAC
1 TGAAATGGAAA-AAAAAA
* *
7220896 TGAAATGG-AATAAAAT
1 TGAAATGGAAAAAAAAA
*
7220912 TGAAATGAAAAAAAAAA
1 TGAAATGGAAAAAAAAA
*
7220929 TTAAATGGAAAAAAA
1 TGAAATGGAAAAAAA
7220944 TAATTTAAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
16 11 0.28
17 21 0.52
18 8 0.20
ACGTcount: A:0.65, C:0.03, G:0.15, T:0.17
Consensus pattern (17 bp):
TGAAATGGAAAAAAAAA
Found at i:7220912 original size:34 final size:33
Alignment explanation
Indices: 7220874--7220944 Score: 97
Period size: 33 Copynumber: 2.1 Consensus size: 33
7220864 AATAAATTAT
* * *
7220874 AAATTGAAATGGAAACAAAAACTGAAATGGAATA
1 AAATTGAAAT-GAAAAAAAAAATGAAATGGAAAA
*
7220908 AAATTGAAATGAAAAAAAAAATTAAATGGAAAA
1 AAATTGAAATGAAAAAAAAAATGAAATGGAAAA
7220941 AAAT
1 AAAT
7220945 AATTTAAATG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
33 23 0.70
34 10 0.30
ACGTcount: A:0.65, C:0.03, G:0.14, T:0.18
Consensus pattern (33 bp):
AAATTGAAATGAAAAAAAAAATGAAATGGAAAA
Found at i:7220948 original size:18 final size:18
Alignment explanation
Indices: 7220875--7220954 Score: 60
Period size: 18 Copynumber: 4.5 Consensus size: 18
7220865 ATAAATTATA
7220875 AATTGAAATGGAAACAAAA-
1 AATT-AAATGGAAA-AAAAT
* * *
7220894 ACTGAAATGGAATAAAAT
1 AATTAAATGGAAAAAAAT
* *
7220912 --TGAAAT-GAAAAAAAA
1 AATTAAATGGAAAAAAAT
7220927 AATTAAATGGAAAAAAAT
1 AATTAAATGGAAAAAAAT
7220945 AATTTAAATG
1 AA-TTAAATG
7220955 AAATGGAAAT
Statistics
Matches: 49, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
15 7 0.14
16 6 0.12
17 9 0.18
18 18 0.37
19 9 0.18
ACGTcount: A:0.62, C:0.03, G:0.14, T:0.21
Consensus pattern (18 bp):
AATTAAATGGAAAAAAAT
Found at i:7220957 original size:18 final size:17
Alignment explanation
Indices: 7220907--7220957 Score: 66
Period size: 18 Copynumber: 2.9 Consensus size: 17
7220897 GAAATGGAAT
*
7220907 AAAATTGAAATGAAAAA
1 AAAATTTAAATGAAAAA
*
7220924 AAAAATTAAATGGAAAAA
1 AAAATTTAAAT-GAAAAA
7220942 AATAATTTAAATGAAA
1 AA-AATTTAAATGAAA
7220958 TGGAAATGGA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
17 9 0.31
18 12 0.41
19 8 0.28
ACGTcount: A:0.69, C:0.00, G:0.10, T:0.22
Consensus pattern (17 bp):
AAAATTTAAATGAAAAA
Found at i:7223731 original size:91 final size:90
Alignment explanation
Indices: 7223549--7223828 Score: 316
Period size: 91 Copynumber: 3.1 Consensus size: 90
7223539 AGTCTAGAAT
* * * * ** *
7223549 ATTAATACA-CAAAAATATAAAATTCAAAC-AAAAATAATGCACACTAAATTAAA-TTAAACACC
1 ATTAATACACCAAAATTTTAAAATTCAAACTACATATAACACAGACTAAATTAAATTTAAACACC
*
7223611 CAACAAACTATAAACAGATAGGTAAA
66 CAACAAACTACAAACAGAT-GGTAAA
* * * *
7223637 ATTAATACACGAAAATTTT-AAATTCAAACTGCATATAATACGGACTAAATTAAATTTAAACACC
1 ATTAATACACCAAAATTTTAAAATTCAAACTACATATAACACAGACTAAATTAAATTTAAACACC
7223701 CAAACAAACTACAAACAGATGGATAAA
66 C-AACAAACTACAAACAGATGG-TAAA
* * * * * * * *
7223728 ATTAGTGCACCAAATTTTTAAAATTTAAACTATATATAACATAGACTAAATTGAATTTAAGCACC
1 ATTAATACACCAAAATTTTAAAATTCAAACTACATATAACACAGACTAAATTAAATTTAAACACC
7223793 CAACAAACTACAAACAGATGGGTAAA
66 CAACAAACTACAAACAGAT-GGTAAA
7223819 ATTAATACAC
1 ATTAATACAC
7223829 TAAATTAAAT
Statistics
Matches: 161, Mismatches: 24, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
88 19 0.12
89 24 0.15
90 12 0.07
91 66 0.41
92 40 0.25
ACGTcount: A:0.53, C:0.16, G:0.07, T:0.24
Consensus pattern (90 bp):
ATTAATACACCAAAATTTTAAAATTCAAACTACATATAACACAGACTAAATTAAATTTAAACACC
CAACAAACTACAAACAGATGGTAAA
Found at i:7234000 original size:23 final size:25
Alignment explanation
Indices: 7233955--7234001 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 25
7233945 CTTAAACATA
7233955 AAACAAATCAAACTCAAAATGATCT
1 AAACAAATCAAACTCAAAATGATCT
*
7233980 AAACAAAT-AATCT-AAAATGATC
1 AAACAAATCAAACTCAAAATGATC
7234002 CGAACTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 9 0.43
24 4 0.19
25 8 0.38
ACGTcount: A:0.57, C:0.17, G:0.04, T:0.21
Consensus pattern (25 bp):
AAACAAATCAAACTCAAAATGATCT
Found at i:7235994 original size:24 final size:24
Alignment explanation
Indices: 7235962--7236010 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
7235952 CTTTCAAAGT
7235962 AATAGAATACTTTTGAGAGCATTA
1 AATAGAATACTTTTGAGAGCATTA
*
7235986 AATAGAATACTTTTGAGAGTATTA
1 AATAGAATACTTTTGAGAGCATTA
7236010 A
1 A
7236011 TTTAATCATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.43, C:0.06, G:0.16, T:0.35
Consensus pattern (24 bp):
AATAGAATACTTTTGAGAGCATTA
Found at i:7237781 original size:37 final size:37
Alignment explanation
Indices: 7237729--7237799 Score: 124
Period size: 37 Copynumber: 1.9 Consensus size: 37
7237719 AACATTGCAG
*
7237729 GTCAAAGAAAAAGTGCTCTTGTTGATATGAGGGCATC
1 GTCAAAGAAAAAGTGCTCTTGTTGATACGAGGGCATC
*
7237766 GTCAAAGAAAGAGTGCTCTTGTTGATACGAGGGC
1 GTCAAAGAAAAAGTGCTCTTGTTGATACGAGGGC
7237800 GTCAAATTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.31, C:0.14, G:0.30, T:0.25
Consensus pattern (37 bp):
GTCAAAGAAAAAGTGCTCTTGTTGATACGAGGGCATC
Found at i:7244332 original size:12 final size:12
Alignment explanation
Indices: 7244315--7244340 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
7244305 TTGAATAATA
7244315 TAATATATATTT
1 TAATATATATTT
7244327 TAATATATATTT
1 TAATATATATTT
7244339 TA
1 TA
7244341 GGGATTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (12 bp):
TAATATATATTT
Found at i:7250999 original size:9 final size:9
Alignment explanation
Indices: 7250985--7251019 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
7250975 ATCTTCACCT
*
7250985 TCATCATTG
1 TCATCATCG
7250994 TCATCATCG
1 TCATCATCG
*
7251003 TCATCATCA
1 TCATCATCG
7251012 TCATCATC
1 TCATCATC
7251020 ATCTTCATCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.26, C:0.31, G:0.06, T:0.37
Consensus pattern (9 bp):
TCATCATCG
Found at i:7251000 original size:3 final size:3
Alignment explanation
Indices: 7250994--7251029 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
7250984 TTCATCATTG
* *
7250994 TCA TCA TCG TCA TCA TCA TCA TCA TCA TCT TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
7251030 CCTTCATTCT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.28, C:0.33, G:0.03, T:0.36
Consensus pattern (3 bp):
TCA
Done.