Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 130 of 444
Found at i:34058756 original size:26 final size:26
Alignment explanation
Indices: 34058725--34058778 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
34058715 TGCCTCAACT
*
34058725 TATTCAAAACAACTTGCATTCGATTC
1 TATTCAAAACAACTTGCATTCAATTC
34058751 TATTCAAAACAACTTGCATTCAATTC
1 TATTCAAAACAACTTGCATTCAATTC
34058777 TA
1 TA
34058779 ACATACCTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.37, C:0.22, G:0.06, T:0.35
Consensus pattern (26 bp):
TATTCAAAACAACTTGCATTCAATTC
Found at i:34061097 original size:56 final size:56
Alignment explanation
Indices: 34061001--34061108 Score: 148
Period size: 56 Copynumber: 1.9 Consensus size: 56
34060991 CCATTGCATC
* * *
34061001 GATATATGTGTGCGAGTAAGACCACGTTTTATACGTTGGCATCGATATGTGACTCT
1 GATATATGTGTGCGAGTAAGACCACGTCTGAGACGTTGGCATCGATATGTGACTCT
*
34061057 GATATATGTGTGCGAGTAAGACC-CTGTCTGGGACAG-TGGCATCGATATGTGA
1 GATATATGTGTGCGAGTAAGACCAC-GTCTGAGAC-GTTGGCATCGATATGTGA
34061109 TTACATGTAA
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
55 1 0.02
56 44 0.96
57 1 0.02
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.31
Consensus pattern (56 bp):
GATATATGTGTGCGAGTAAGACCACGTCTGAGACGTTGGCATCGATATGTGACTCT
Found at i:34070433 original size:18 final size:19
Alignment explanation
Indices: 34070410--34070451 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
34070400 TACATTTTGG
*
34070410 AAAAACCT-TTATTTGCAT
1 AAAAACCTATTATTTGCAA
*
34070428 AAAAA-CTATTATTTTCAA
1 AAAAACCTATTATTTGCAA
34070446 AAAAAC
1 AAAAAC
34070452 TGTTTTGTCG
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 2 0.10
18 18 0.90
ACGTcount: A:0.50, C:0.14, G:0.02, T:0.33
Consensus pattern (19 bp):
AAAAACCTATTATTTGCAA
Found at i:34089573 original size:124 final size:124
Alignment explanation
Indices: 34089351--34089575 Score: 317
Period size: 124 Copynumber: 1.8 Consensus size: 124
34089341 GAATTATGTG
* * * * * * * *
34089351 AAATGAACTATGGATGTGTATTGATTATTGATTTATGTGTGTATGAGTATTTGAATGATACCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
* **
34089416 GCTAAGTCCCGAAGGCGATTATGCTAGTGATTATATTTGTGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGACGATTATGCTAGAAATTATATTTGTGTTTGAGCCTTAGTAACGA
*
34089475 AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATATCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
*
34089540 GCTAAGTCCCGAAGACG-TTATTGCTGGAAATTATAT
66 GCTAAGTCCCGAAGACGATTA-TGCTAGAAATTATAT
34089576 CCGGGTTAAG
Statistics
Matches: 87, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
123 3 0.03
124 84 0.97
ACGTcount: A:0.30, C:0.11, G:0.24, T:0.35
Consensus pattern (124 bp):
AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
GCTAAGTCCCGAAGACGATTATGCTAGAAATTATATTTGTGTTTGAGCCTTAGTAACGA
Found at i:34089697 original size:40 final size:40
Alignment explanation
Indices: 34089570--34089699 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
34089560 TTGCTGGAAA
* * *
34089570 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGCGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
34089610 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
34089650 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
34089690 TTATATCCGG
1 TTATATCCGG
34089700 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 4 0.05
40 73 0.95
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.23
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:34092536 original size:47 final size:46
Alignment explanation
Indices: 34092472--34092590 Score: 134
Period size: 47 Copynumber: 2.5 Consensus size: 46
34092462 TTCGTACCCC
* * * *
34092472 ATGCATGTCACAGACATGTCTTGCACTGGCT-TACAT-CTCGAGGCCG
1 ATGCATGTCCCAAACATGTCTTACACTGGCTCT-CATAAT-GAGGCCG
*
34092518 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATGTGGCCG
1 ATG-CATGTCCCAAACAT-GTCTTACACTGGCTCTCATAATGAGGCCG
*
34092566 ATGCATGTCCCATACATGTCTTACA
1 ATGCATGTCCCAAACATGTCTTACA
34092591 TTAGCGCACA
Statistics
Matches: 63, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
46 11 0.17
47 25 0.40
48 25 0.40
49 2 0.03
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.28
Consensus pattern (46 bp):
ATGCATGTCCCAAACATGTCTTACACTGGCTCTCATAATGAGGCCG
Found at i:34092548 original size:48 final size:48
Alignment explanation
Indices: 34092233--34092590 Score: 235
Period size: 48 Copynumber: 7.5 Consensus size: 48
34092223 ATAATACCAG
* * *
34092233 TGCCATGTCCCAGATATGGTCTTACACTGGCTTATC-TATC-AAGTCGA
1 TGCCATGTCCCAGACATGGTCTTACACTGGCTTA-CATATCGAGGCCGA
* * * *
34092280 TACCATGTACCAGACATGGTCTTACACTGAC-TATCGAAATCGAGGCCGA
1 TGCCATGTCCCAGACATGGTCTTACACTGGCTTA-C-ATATCGAGGCCGA
* * * * *
34092329 CGCCATGTCCTAAACATGGTCTTACACTAGCTCTCACATATCCG-TGCCGA
1 TGCCATGTCCCAGACATGGTCTTACACTGGCT-T-ACATAT-CGAGGCCGA
* * * * * *
34092379 TGCCATGTCCTAGAGATGGTCTTACACTGAC--ACCTCTATACG-TGTCGA
1 TGCCATGTCCCAGACATGGTCTTACACTGGCTTA-C-ATAT-CGAGGCCGA
* * * * *
34092427 TGCCATGTCCAAGACATGGTCTTACACTGAC--ACATTTCGTA-CCCCA
1 TGCCATGTCCCAGACATGGTCTTACACTGGCTTACATATCG-AGGCCGA
* * *
34092473 TG-CATGTCACAGACAT-GTCTTGCACTGGCTTACATCTCGAGGCCGA
1 TGCCATGTCCCAGACATGGTCTTACACTGGCTTACATATCGAGGCCGA
* *
34092519 TGCCATGTCCCAAACATGGTCTTACACTGGCTCT-CATAAT-GTGGCCGA
1 TGCCATGTCCCAGACATGGTCTTACACTGGCT-TACAT-ATCGAGGCCGA
*
34092567 TG-CATGTCCCATACAT-GTCTTACA
1 TGCCATGTCCCAGACATGGTCTTACA
34092591 TTAGCGCACA
Statistics
Matches: 249, Mismatches: 44, Indels: 37
0.75 0.13 0.11
Matches are distributed among these distances:
44 11 0.04
45 15 0.06
46 31 0.12
47 54 0.22
48 68 0.27
49 31 0.12
50 34 0.14
51 4 0.02
52 1 0.00
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (48 bp):
TGCCATGTCCCAGACATGGTCTTACACTGGCTTACATATCGAGGCCGA
Found at i:34097591 original size:20 final size:20
Alignment explanation
Indices: 34097566--34097611 Score: 83
Period size: 20 Copynumber: 2.2 Consensus size: 20
34097556 CTTATGCAAT
34097566 TGATCGAGTAGAAAACTCTC
1 TGATCGAGTAGAAAACTCTC
34097586 TGATCGAGTAGAAAACTCTC
1 TGATCGAGTAGAAAACTCTC
34097606 TCGATC
1 T-GATC
34097612 TCTTGGATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 21 0.84
21 4 0.16
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.26
Consensus pattern (20 bp):
TGATCGAGTAGAAAACTCTC
Found at i:34108196 original size:21 final size:20
Alignment explanation
Indices: 34108143--34108199 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
34108133 GTTAAAATGA
*
34108143 TTTTAATCAAGTACAAATT-T
1 TTTTAAACAAGT-CAAATTGT
* *
34108163 TTTTCAACTAGTCAAATTGT
1 TTTTAAACAAGTCAAATTGT
34108183 TTTTAAAACAAGTCAAA
1 TTTT-AAACAAGTCAAA
34108200 ATAGCTCCAA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
19 6 0.20
20 14 0.47
21 10 0.33
ACGTcount: A:0.40, C:0.12, G:0.07, T:0.40
Consensus pattern (20 bp):
TTTTAAACAAGTCAAATTGT
Found at i:34110355 original size:46 final size:47
Alignment explanation
Indices: 34110273--34110363 Score: 123
Period size: 46 Copynumber: 2.0 Consensus size: 47
34110263 CTAAATAAAG
*
34110273 TAAATGCTGCAAATTATGAGGTTTGAAAGTCGGAAATTT-AGGTAAT
1 TAAATGCTGCAAATTATCAGGTTTGAAAGTCGGAAATTTGAGGTAAT
* * *
34110319 TAAATGCTGCAATTTATCATGTTTTGAAAG-CTGAAATTTGAGGTA
1 TAAATGCTGCAAATTATCA-GGTTTGAAAGTCGGAAATTTGAGGTA
34110364 CTAATGTTGT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
46 25 0.64
47 14 0.36
ACGTcount: A:0.35, C:0.08, G:0.22, T:0.35
Consensus pattern (47 bp):
TAAATGCTGCAAATTATCAGGTTTGAAAGTCGGAAATTTGAGGTAAT
Found at i:34111945 original size:2 final size:2
Alignment explanation
Indices: 34111938--34111965 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
34111928 ATGTGGTAGT
34111938 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
34111966 GTTATACATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:34115980 original size:24 final size:24
Alignment explanation
Indices: 34115712--34115978 Score: 480
Period size: 24 Copynumber: 11.1 Consensus size: 24
34115702 GCAAAGACCA
*
34115712 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
34115736 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
34115760 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
34115784 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
34115808 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
**
34115832 TATGGCACTATGTGTGCGATACAC
1 TATGGCACTATGTGTGCGATTTAC
34115856 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
34115880 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
34115904 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
34115928 TATGGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
* *
34115952 TATAGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
34115976 TAT
1 TAT
34115979 AGTCACATTC
Statistics
Matches: 236, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 236 1.00
ACGTcount: A:0.21, C:0.17, G:0.25, T:0.37
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:34122598 original size:119 final size:119
Alignment explanation
Indices: 34122386--34122644 Score: 491
Period size: 119 Copynumber: 2.2 Consensus size: 119
34122376 GCAAAGACCA
34122386 TATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGC
1 TATGGCACTATGTGTGCGA-TCACTATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGC
34122451 GATTTACTATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTTAC
65 GATTTACTATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTTAC
34122506 TATGGCACTATGTGTGCGATCACTATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCG
1 TATGGCACTATGTGTGCGATCACTATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCG
*
34122571 ATTTACTATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTTGC
66 ATTTACTATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTTAC
*
34122625 TATAGCACTATGTGTGCGAT
1 TATGGCACTATGTGTGCGAT
34122645 TTGCTATAGT
Statistics
Matches: 137, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
119 118 0.86
120 19 0.14
ACGTcount: A:0.21, C:0.17, G:0.25, T:0.36
Consensus pattern (119 bp):
TATGGCACTATGTGTGCGATCACTATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCG
ATTTACTATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTTAC
Found at i:34122641 original size:143 final size:143
Alignment explanation
Indices: 34122386--34122651 Score: 496
Period size: 143 Copynumber: 1.9 Consensus size: 143
34122376 GCAAAGACCA
34122386 TATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGC
1 TATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGC
*
34122451 GATTTACTATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTTACTATGGCACTA
66 GATTTACTATGGCACTATGTGTGCGATTTACTATAGCACTATGTGTGCGATTTACTATGGCACTA
34122516 TGTGTGCGATCAC
131 TGTGTGCGATCAC
*
34122529 TATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGC
1 TATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGC
* *
34122594 GATTTACTATGGCACTATGTGTGCGATTTGCTATAGCACTATGTGTGCGATTTGCTAT
66 GATTTACTATGGCACTATGTGTGCGATTTACTATAGCACTATGTGTGCGATTTACTAT
34122652 AGTCACATTC
Statistics
Matches: 119, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
143 119 1.00
ACGTcount: A:0.21, C:0.17, G:0.25, T:0.37
Consensus pattern (143 bp):
TATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGC
GATTTACTATGGCACTATGTGTGCGATTTACTATAGCACTATGTGTGCGATTTACTATGGCACTA
TGTGTGCGATCAC
Found at i:34122653 original size:24 final size:24
Alignment explanation
Indices: 34122386--34122651 Score: 480
Period size: 24 Copynumber: 11.1 Consensus size: 24
34122376 GCAAAGACCA
*
34122386 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
34122410 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
34122434 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
34122458 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
34122482 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
34122506 TATGGCACTATGTGTGCGA-TCAC
1 TATGGCACTATGTGTGCGATTTAC
34122529 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
34122553 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
34122577 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
34122601 TATGGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
* *
34122625 TATAGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
34122649 TAT
1 TAT
34122652 AGTCACATTC
Statistics
Matches: 236, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
23 22 0.09
24 214 0.91
ACGTcount: A:0.21, C:0.17, G:0.25, T:0.37
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:34127603 original size:40 final size:40
Alignment explanation
Indices: 34127516--34127662 Score: 181
Period size: 40 Copynumber: 3.7 Consensus size: 40
34127506 TGAATGATAC
* * *
34127516 CCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATATAT
* * *
34127555 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATATAT
* *
34127595 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTT-ACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGA-TATAT
* *
34127635 CCGGGTTAAGACCCGAAGGCAATTGTGC
1 CCGGGCTAAGACCCGAAGGCATTTGTGC
34127663 TTTGGTTATA
Statistics
Matches: 94, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
39 27 0.29
40 67 0.71
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATATAT
Found at i:34127671 original size:79 final size:78
Alignment explanation
Indices: 34127516--34127681 Score: 203
Period size: 79 Copynumber: 2.1 Consensus size: 78
34127506 TGAATGATAC
* * * *
34127516 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATATATCCGGGCTAAGACCCGAAGGCATTCGT
1 CCGGGCTAAGACCCGAAGGCATTTATGCAAGTGACAAATCCGGGCTAAGACCCGAAGGCATTCGT
34127581 GCGAGTTGTTATAT
66 GC-AGTTGTTATAT
* * *
34127595 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCAATT-
1 CCGGGCTAAGACCCGAAGGCATTTATGCAAGTGA-CAAATCCGGGCTAAGACCCGAAGGC-ATTC
*
34127659 GTGC-TTTGGTTATAT
64 GTGCAGTT-GTTATAT
34127674 CC-GGCTAA
1 CCGGGCTAA
34127682 ATTTCGAAGA
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
78 8 0.11
79 39 0.51
80 26 0.34
81 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (78 bp):
CCGGGCTAAGACCCGAAGGCATTTATGCAAGTGACAAATCCGGGCTAAGACCCGAAGGCATTCGT
GCAGTTGTTATAT
Found at i:34135621 original size:40 final size:39
Alignment explanation
Indices: 34135565--34135690 Score: 135
Period size: 40 Copynumber: 3.2 Consensus size: 39
34135555 ATGATACCTG
* *
34135565 GGCTAAGTCCCGAAGGCATTTATGCTAGTGATCATATCC
1 GGCTAAGACCCGAAGGCATTTGTGCTAGTGATCATATCC
* * * *
34135604 GAGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCC
1 G-GCTAAGACCCGAAGGCATTTGTGCTAGTGATCATATCC
* * * *
34135644 GGGTTAAGACCCGAAGGCAATTGTGCTTGTGGATTATATCC
1 -GGCTAAGACCCGAAGGCATTTGTGCTAGT-GATCATATCC
34135685 GGCTAA
1 GGCTAA
34135691 ATTCCGAAGA
Statistics
Matches: 69, Mismatches: 15, Indels: 5
0.78 0.17 0.06
Matches are distributed among these distances:
39 1 0.01
40 61 0.88
41 7 0.10
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.25
Consensus pattern (39 bp):
GGCTAAGACCCGAAGGCATTTGTGCTAGTGATCATATCC
Found at i:34146254 original size:2 final size:2
Alignment explanation
Indices: 34146247--34146284 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
34146237 AACATGTTTA
34146247 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
34146285 TGTACTTTCT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:34161057 original size:19 final size:19
Alignment explanation
Indices: 34161016--34161056 Score: 61
Period size: 16 Copynumber: 2.3 Consensus size: 19
34161006 ATCCACAAAA
34161016 TTTTTTAATATTTTTTCTT
1 TTTTTTAATATTTTTTCTT
34161035 TTTTTTAA-A--TTTTCTT
1 TTTTTTAATATTTTTTCTT
34161051 TTTTTT
1 TTTTTT
34161057 TGTGTTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 13 0.59
18 1 0.05
19 8 0.36
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.80
Consensus pattern (19 bp):
TTTTTTAATATTTTTTCTT
Found at i:34161469 original size:14 final size:13
Alignment explanation
Indices: 34161441--34161485 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 13
34161431 ATTTGAGAAC
*
34161441 AAATAACAAATAA
1 AAATAAAAAATAA
34161454 AAATAAAAATATAA
1 AAATAAAAA-ATAA
34161468 AAATAAATAAATAGA
1 AAATAAA-AAATA-A
34161483 AAA
1 AAA
34161486 AATTTAAAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
13 8 0.29
14 14 0.50
15 6 0.21
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.18
Consensus pattern (13 bp):
AAATAAAAAATAA
Found at i:34161961 original size:18 final size:19
Alignment explanation
Indices: 34161938--34161979 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 19
34161928 AAAAAAATTT
34161938 TAATAAAAAATAATAAA-A
1 TAATAAAAAATAATAAATA
*
34161956 TAATAAAAGATAATAAATA
1 TAATAAAAAATAATAAATA
34161975 TAATA
1 TAATA
34161980 TTGGGCTCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 16 0.73
19 6 0.27
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.26
Consensus pattern (19 bp):
TAATAAAAAATAATAAATA
Found at i:34164566 original size:39 final size:38
Alignment explanation
Indices: 34164522--34164599 Score: 88
Period size: 39 Copynumber: 2.0 Consensus size: 38
34164512 ACCGTTTTTT
* *
34164522 TACTGAGATGAGC-TAAGGCTCAAACTG-GATTGATACTGA
1 TACTGAAAAGAGCTTAA-GCTCAAACTGTGATT-AT-CTGA
*
34164561 TACTGAAAAGAGCTTAAGCTCAGACTGTGATTATCTGA
1 TACTGAAAAGAGCTTAAGCTCAAACTGTGATTATCTGA
34164599 T
1 T
34164600 TGCTGTCTGT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
38 5 0.15
39 22 0.65
40 7 0.21
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.28
Consensus pattern (38 bp):
TACTGAAAAGAGCTTAAGCTCAAACTGTGATTATCTGA
Found at i:34166294 original size:14 final size:15
Alignment explanation
Indices: 34166277--34166308 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
34166267 AAAATATGTG
34166277 AATGAAATA-ATAGA
1 AATGAAATACATAGA
34166291 AATGAAATACATAGA
1 AATGAAATACATAGA
34166306 AAT
1 AAT
34166309 TTGATATGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.62, C:0.03, G:0.12, T:0.22
Consensus pattern (15 bp):
AATGAAATACATAGA
Found at i:34168764 original size:49 final size:50
Alignment explanation
Indices: 34168692--34168793 Score: 188
Period size: 49 Copynumber: 2.1 Consensus size: 50
34168682 ATGGCTAGAA
*
34168692 GTGTTAGTTCGGTTTAGAAATTAGGTTGAGTA-TTTTATGTTAAATTTTT
1 GTGTTAGTTCGGTTTAGAAATTAGGTTGAGTATTTTTATATTAAATTTTT
34168741 GTGTTAGTTCGGTTTAGAAATTAGGTTGAGTATTTTTATATTAAATTTTT
1 GTGTTAGTTCGGTTTAGAAATTAGGTTGAGTATTTTTATATTAAATTTTT
34168791 GTG
1 GTG
34168794 GATATTGAAA
Statistics
Matches: 51, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
49 32 0.63
50 19 0.37
ACGTcount: A:0.25, C:0.02, G:0.23, T:0.51
Consensus pattern (50 bp):
GTGTTAGTTCGGTTTAGAAATTAGGTTGAGTATTTTTATATTAAATTTTT
Found at i:34181120 original size:14 final size:14
Alignment explanation
Indices: 34181099--34181139 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
34181089 CTTACCTAAT
34181099 TGTGCAAGTTGTGA
1 TGTGCAAGTTGTGA
* *
34181113 TTTGCAAGTTGTAA
1 TGTGCAAGTTGTGA
34181127 TGTGCAAGTTGTG
1 TGTGCAAGTTGTG
34181140 CAAGTTGCAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.22, C:0.07, G:0.32, T:0.39
Consensus pattern (14 bp):
TGTGCAAGTTGTGA
Found at i:34185513 original size:21 final size:22
Alignment explanation
Indices: 34185476--34185520 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
34185466 ATGGATCTAC
*
34185476 TTTATTTAAAAATTTTTTATTT
1 TTTATTTAAAAATTTTTGATTT
34185498 TTTATTTAAAAA-TTTTGATTT
1 TTTATTTAAAAATTTTTGATTT
34185519 TT
1 TT
34185521 CCTTCTAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (22 bp):
TTTATTTAAAAATTTTTGATTT
Found at i:34187786 original size:28 final size:28
Alignment explanation
Indices: 34187754--34187808 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
34187744 CCACATGGTA
34187754 GATGAATGGGCCCATATTCATTTCAGAG
1 GATGAATGGGCCCATATTCATTTCAGAG
*
34187782 GATGAATGGGCCCATATTCGTTTCAGA
1 GATGAATGGGCCCATATTCATTTCAGA
34187809 AATGCAAGAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.29
Consensus pattern (28 bp):
GATGAATGGGCCCATATTCATTTCAGAG
Found at i:34191633 original size:21 final size:22
Alignment explanation
Indices: 34191608--34191655 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 22
34191598 TGCTCAGAAT
* *
34191608 ATACTGAATTCTTG-TTTGAAA
1 ATACTGAATGCTTGCTATGAAA
34191629 ATACT-AATGCTTGCTATGAAA
1 ATACTGAATGCTTGCTATGAAA
*
34191650 CTACTG
1 ATACTG
34191656 TAGTTGAAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.38
Consensus pattern (22 bp):
ATACTGAATGCTTGCTATGAAA
Found at i:34198875 original size:8 final size:7
Alignment explanation
Indices: 34198821--34198856 Score: 63
Period size: 7 Copynumber: 5.0 Consensus size: 7
34198811 ATTAAATTTT
34198821 CCTAAAC
1 CCTAAAC
34198828 CCTAAAC
1 CCTAAAC
34198835 CCTAAAC
1 CCTAAAC
34198842 CCTAAAC
1 CCTAAAC
34198849 CCATAAAC
1 CC-TAAAC
34198857 ACTCCCTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
7 23 0.82
8 5 0.18
ACGTcount: A:0.44, C:0.42, G:0.00, T:0.14
Consensus pattern (7 bp):
CCTAAAC
Found at i:34198953 original size:73 final size:73
Alignment explanation
Indices: 34198820--34199072 Score: 298
Period size: 80 Copynumber: 3.4 Consensus size: 73
34198810 AATTAAATTT
* * * * *
34198820 TCCT-AAACCCTAAACCCTAAACCCTAAACCCATAAACACT---CCCTTAAACCCTTAAATACAA
1 TCCTAAAACTCTAAACCTTAAACCCTAAACCC-GAATCACTAAACCCTTAAGCCCTTAAATACAA
* *
34198881 ATTTCTATA
65 ATTCCTAAA
* * * *
34198890 TCCTAAAGCTCTAAACCTTAAACCCTAAACTCGAATCAGTAAATCCTTAAGCCCTTAAATACAAA
1 TCCTAAAACTCTAAACCTTAAACCCTAAACCCGAATCACTAAACCCTTAAGCCCTTAAATAC-AA
34198955 ATACAAAATCCTAAA
65 AT------TCCTAAA
34198970 TCCTAAAACTCTAAACCTTAAACCCTAAACCCGAATCACTAAACCCTTAAGCCCTTAAATACAAA
1 TCCTAAAACTCTAAACCTTAAACCCTAAACCCGAATCACTAAACCCTTAAGCCCTTAAATACAAA
*
34199035 ATCCTAAA
66 TTCCTAAA
34199043 TCCTAAAACTCTAAACCTTAAACCCTAAAC
1 TCCTAAAACTCTAAACCTTAAACCCTAAAC
34199073 ACTAAACCCT
Statistics
Matches: 156, Mismatches: 16, Indels: 19
0.82 0.08 0.10
Matches are distributed among these distances:
70 9 0.06
71 23 0.15
73 54 0.35
74 4 0.03
79 3 0.02
80 63 0.40
ACGTcount: A:0.43, C:0.31, G:0.02, T:0.23
Consensus pattern (73 bp):
TCCTAAAACTCTAAACCTTAAACCCTAAACCCGAATCACTAAACCCTTAAGCCCTTAAATACAAA
TTCCTAAA
Found at i:34198970 original size:7 final size:7
Alignment explanation
Indices: 34198960--34199252 Score: 66
Period size: 7 Copynumber: 40.3 Consensus size: 7
34198950 ACAAAATACA
34198960 AAATCCT
1 AAATCCT
34198967 AAATCCT
1 AAATCCT
*
34198974 AAAACTCT
1 AAATC-CT
34198982 AAA-CCTT
1 AAATCC-T
*
34198989 AAACCCT
1 AAATCCT
*
34198996 AAA-CCC
1 AAATCCT
*
34199002 GAATCACT
1 AAATC-CT
*
34199010 AAACCCTT
1 AAATCC-T
**
34199018 AAGCCCTT
1 AAATCC-T
* *
34199026 AAATACA
1 AAATCCT
34199033 AAATCCT
1 AAATCCT
34199040 AAATCCT
1 AAATCCT
*
34199047 AAAACTCT
1 AAATC-CT
34199055 AAA-CCTT
1 AAATCC-T
*
34199062 AAACCCT
1 AAATCCT
34199069 AAA-CACT
1 AAATC-CT
*
34199076 AAACCCT
1 AAATCCT
34199083 AAATCCT
1 AAATCCT
*
34199090 ATA-CCAT
1 AAATCC-T
*
34199097 AAAACCAT
1 AAATCC-T
34199105 AAA--CT
1 AAATCCT
34199110 ATAGA-CACT
1 A-A-ATC-CT
*
34199119 AAACCCTT
1 AAATCC-T
**
34199127 AAGCCCTT
1 AAATCC-T
*
34199135 AAATCCA
1 AAATCCT
34199142 AAATCCT
1 AAATCCT
*
34199149 AAATGCT
1 AAATCCT
*
34199156 AAAACTCT
1 AAATC-CT
34199164 AAA-CCT
1 AAATCCT
*
34199170 AAATCATT
1 AAATC-CT
*
34199178 AAACCCTT
1 AAATCC-T
**
34199186 AAGCCCTT
1 AAATCC-T
* *
34199194 AAATACG
1 AAATCCT
*
34199201 AAATCCG
1 AAATCCT
34199208 AAATCCT
1 AAATCCT
34199215 AAATCCT
1 AAATCCT
*
34199222 AAAACCAT
1 AAATCC-T
34199230 AAA-CCTT
1 AAATCC-T
*
34199237 AAACCCT
1 AAATCCT
34199244 AAATCCT
1 AAATCCT
34199251 AA
1 AA
34199253 CACATAAAAC
Statistics
Matches: 223, Mismatches: 38, Indels: 50
0.72 0.12 0.16
Matches are distributed among these distances:
5 2 0.01
6 16 0.07
7 124 0.56
8 78 0.35
9 3 0.01
ACGTcount: A:0.45, C:0.29, G:0.03, T:0.23
Consensus pattern (7 bp):
AAATCCT
Found at i:34198997 original size:14 final size:15
Alignment explanation
Indices: 34198964--34199250 Score: 89
Period size: 14 Copynumber: 19.7 Consensus size: 15
34198954 AATACAAAAT
*
34198964 CCTAAATCCTAAAAC
1 CCTAAATCCTTAAAC
*
34198979 TCTAAA-CCTTAAAC
1 CCTAAATCCTTAAAC
** *
34198993 CCTAAA-CCCGAATC
1 CCTAAATCCTTAAAC
* * *
34199007 ACTAAACCCTTAAGC
1 CCTAAATCCTTAAAC
* * *
34199022 CCTTAAATAC-AAAAT
1 CC-TAAATCCTTAAAC
*
34199037 CCTAAATCCTAAAAC
1 CCTAAATCCTTAAAC
*
34199052 TCTAAA-CCTTAAAC
1 CCTAAATCCTTAAAC
34199066 CCTAAA-CAC-TAAAC
1 CCTAAATC-CTTAAAC
*
34199080 CCTAAATCC-TATAC
1 CCTAAATCCTTAAAC
* * *
34199094 CATAAAACCATAAAC
1 CCTAAATCCTTAAAC
** *
34199109 TATAGA-CAC-TAAAC
1 CCTAAATC-CTTAAAC
** *
34199123 CCTTAAGCCCTTAAAT
1 CC-TAAATCCTTAAAC
* *
34199139 CCAAAATCC-TAAAT
1 CCTAAATCCTTAAAC
* *
34199153 GCTAAA-ACTCTAAA-
1 CCTAAATCCT-TAAAC
*
34199167 CCTAAATCATTAAAC
1 CCTAAATCCTTAAAC
** *
34199182 CCTTAAGCCCTTAAAT
1 CC-TAAATCCTTAAAC
* * * *
34199198 ACGAAATCC-GAAAT
1 CCTAAATCCTTAAAC
*
34199212 CCTAAATCCTAAAAC
1 CCTAAATCCTTAAAC
*
34199227 CATAAA-CCTTAAAC
1 CCTAAATCCTTAAAC
34199241 CCTAAATCCT
1 CCTAAATCCT
34199251 AACACATAAA
Statistics
Matches: 198, Mismatches: 57, Indels: 34
0.69 0.20 0.12
Matches are distributed among these distances:
13 1 0.01
14 111 0.56
15 64 0.32
16 22 0.11
ACGTcount: A:0.45, C:0.30, G:0.03, T:0.23
Consensus pattern (15 bp):
CCTAAATCCTTAAAC
Found at i:34199244 original size:22 final size:22
Alignment explanation
Indices: 34199214--34199290 Score: 61
Period size: 22 Copynumber: 3.5 Consensus size: 22
34199204 TCCGAAATCC
*
34199214 TAAATCCTAAAACCATAAACCT
1 TAAACCCTAAAACCATAAACCT
* *
34199236 TAAACCCTAAATCC-TAACACAT
1 TAAACCCTAAAACCATAA-ACCT
* *
34199258 AAAACCCT-AAATCAT-AACCT
1 TAAACCCTAAAACCATAAACCT
34199278 ATAAAACCCTAAA
1 -T-AAACCCTAAA
34199291 CTATAGACAC
Statistics
Matches: 42, Mismatches: 8, Indels: 9
0.71 0.14 0.15
Matches are distributed among these distances:
20 3 0.07
21 7 0.17
22 30 0.71
23 2 0.05
ACGTcount: A:0.51, C:0.29, G:0.00, T:0.21
Consensus pattern (22 bp):
TAAACCCTAAAACCATAAACCT
Found at i:34199262 original size:29 final size:29
Alignment explanation
Indices: 34199212--34199268 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
34199202 AATCCGAAAT
*
34199212 CCTAAATCCTAAAACCATAAACCTTAAAC
1 CCTAAATCCTAAAACCATAAACCCTAAAC
*
34199241 CCTAAATCCTAACA-CATAAAACCCTAAA
1 CCTAAATCCTAAAACCAT-AAACCCTAAA
34199269 TCATAACCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 3 0.12
29 22 0.88
ACGTcount: A:0.49, C:0.32, G:0.00, T:0.19
Consensus pattern (29 bp):
CCTAAATCCTAAAACCATAAACCCTAAAC
Found at i:34199659 original size:3 final size:3
Alignment explanation
Indices: 34199651--34199691 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
34199641 CATTTTAGTA
34199651 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
34199692 AGAGAAAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:34199926 original size:115 final size:115
Alignment explanation
Indices: 34199804--34200073 Score: 346
Period size: 117 Copynumber: 2.3 Consensus size: 115
34199794 TTTTGTAGCT
* *
34199804 TTGTTATTAGTGGCGCTTTTAAAAAAACGCCGCAAAAGGTATGTATTAC-CACGTTTTTACCTAA
1 TTGTTATTAGTGGCGCTTTT--AAAAACGCCGCAAAAGGTACGTATTACTCACGTTTTCACCTAA
* *
34199868 AACGCCACAAAA-CATCTATTAAGAGATTGTAAAACGGCGTCGTTTATAACC
64 AACGCCAAAAAAGCATCTATTAAGAGATTGTAAAACGGCATCGTTTATAACC
* * **
34199919 TTGTTATTAGTGGTGCTTTCTAAAAACGCCGCAAAATGTACGTATTACTGGCGTTTTCACCTAAA
1 TTGTTATTAGTGGCGCTTT-TAAAAACGCCGCAAAAGGTACGTATTACTCACGTTTTCACCTAAA
* * * *
34199984 ATGCCAAAAAAGGTATGTATTAAGAGATTGTAAAACGGCATCGTTTATAGCC
65 ACGCCAAAAAA-GCATCTATTAAGAGATTGTAAAACGGCATCGTTTATAACC
* * * *
34200036 TTGTTATAAGTGACGCTTTTATAAACACCGCAAAAGGT
1 TTGTTATTAGTGGCGCTTTTAAAAACGCCGCAAAAGGT
34200074 GTAAATTACC
Statistics
Matches: 133, Mismatches: 18, Indels: 7
0.84 0.11 0.04
Matches are distributed among these distances:
114 25 0.19
115 40 0.30
116 17 0.13
117 51 0.38
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (115 bp):
TTGTTATTAGTGGCGCTTTTAAAAACGCCGCAAAAGGTACGTATTACTCACGTTTTCACCTAAAA
CGCCAAAAAAGCATCTATTAAGAGATTGTAAAACGGCATCGTTTATAACC
Found at i:34202568 original size:9 final size:9
Alignment explanation
Indices: 34202550--34202800 Score: 242
Period size: 9 Copynumber: 28.0 Consensus size: 9
34202540 GTTTAAATTT
34202550 CATAACTTA
1 CATAACTTA
*
34202559 CATAATTTA
1 CATAACTTA
34202568 CATAACTTA
1 CATAACTTA
34202577 CATAA--TA
1 CATAACTTA
*
34202584 CATAA-ATA
1 CATAACTTA
* * *
34202592 TATATCATA
1 CATAACTTA
*
34202601 AATAACTTA
1 CATAACTTA
*
34202610 CATAACTCA
1 CATAACTTA
*
34202619 CACAACTTA
1 CATAACTTA
34202628 CATAACTTA
1 CATAACTTA
34202637 -ATAACTTA
1 CATAACTTA
*
34202645 CATATATCATA
1 CATA-A-CTTA
34202656 TCATAACTTA
1 -CATAACTTA
*
34202666 CATAACTCA
1 CATAACTTA
34202675 CATAACTTA
1 CATAACTTA
34202684 CATAACTTA
1 CATAACTTA
*
34202693 CATACCTTA
1 CATAACTTA
* *
34202702 CATACCTCA
1 CATAACTTA
34202711 CATAACTTA
1 CATAACTTA
*
34202720 CATAACTCA
1 CATAACTTA
34202729 CATAACTTA
1 CATAACTTA
34202738 CATAAC-TA
1 CATAACTTA
34202746 CATAACTTAA
1 CATAACTT-A
* *
34202756 CATACCTCA
1 CATAACTTA
* *
34202765 GAAAACTTA
1 CATAACTTA
** *
34202774 TGTAACTCA
1 CATAACTTA
34202783 CATAACTTA
1 CATAACTTA
34202792 CATAACTTA
1 CATAACTTA
34202801 TTCGTGTAAT
Statistics
Matches: 199, Mismatches: 35, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
7 7 0.04
8 21 0.11
9 152 0.76
10 11 0.06
11 4 0.02
12 4 0.02
ACGTcount: A:0.45, C:0.23, G:0.01, T:0.31
Consensus pattern (9 bp):
CATAACTTA
Found at i:34202732 original size:54 final size:54
Alignment explanation
Indices: 34202550--34202800 Score: 289
Period size: 54 Copynumber: 4.7 Consensus size: 54
34202540 GTTTAAATTT
* * * *
34202550 CATAACTTACATAATTTACATAACTTACATAA--TACATAA-ATATATATCAT-A
1 CATAACTTACATAACTCACATAACTTACATAACTTACATAACTTACATA-CATCA
* * *
34202601 AATAACTTACATAACTCACACAACTTACATAACTTA-ATAACTTACATATATCATA
1 CATAACTTACATAACTCACATAACTTACATAACTTACATAACTTACATACATC--A
* *
34202656 TCATAACTTACATAACTCACATAACTTACATAACTTACATACCTTACATACCTCA
1 -CATAACTTACATAACTCACATAACTTACATAACTTACATAACTTACATACATCA
*
34202711 CATAACTTACATAACTCACATAACTTACATAAC-TACATAACTTAACATACCTCA
1 CATAACTTACATAACTCACATAACTTACATAACTTACATAACTT-ACATACATCA
* * **
34202765 GAAAACTTATGTAACTCACATAACTTACATAACTTA
1 CATAACTTACATAACTCACATAACTTACATAACTTA
34202801 TTCGTGTAAT
Statistics
Matches: 173, Mismatches: 17, Indels: 16
0.84 0.08 0.08
Matches are distributed among these distances:
51 28 0.16
52 6 0.03
53 16 0.09
54 72 0.42
55 4 0.02
56 34 0.20
57 13 0.08
ACGTcount: A:0.45, C:0.23, G:0.01, T:0.31
Consensus pattern (54 bp):
CATAACTTACATAACTCACATAACTTACATAACTTACATAACTTACATACATCA
Found at i:34205218 original size:27 final size:27
Alignment explanation
Indices: 34205188--34205242 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
34205178 AGAAAGGTGC
34205188 TAATTTATTTGTAAAGTATTCATTCAT
1 TAATTTATTTGTAAAGTATTCATTCAT
34205215 TAATTTATTTGTAAAGTATTCATTCAT
1 TAATTTATTTGTAAAGTATTCATTCAT
34205242 T
1 T
34205243 CACCTCTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.33, C:0.07, G:0.07, T:0.53
Consensus pattern (27 bp):
TAATTTATTTGTAAAGTATTCATTCAT
Found at i:34207822 original size:13 final size:14
Alignment explanation
Indices: 34207806--34207834 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
34207796 TTTTAAATAT
34207806 TTATAATG-TTTAA
1 TTATAATGATTTAA
34207819 TTATAATGATTTAA
1 TTATAATGATTTAA
34207833 TT
1 TT
34207835 CGTCGTTAGT
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:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (14 bp):
TTATAATGATTTAA
Found at i:34208711 original size:42 final size:41
Alignment explanation
Indices: 34208582--34208807 Score: 222
Period size: 43 Copynumber: 5.3 Consensus size: 41
34208572 AACATACATT
* **
34208582 TTTAGCGGCATTTGAGATAAAAGCGCCGCTAAAGGTCACGTTC
1 TTTAGCGGCGTTTGTCA-AAAAGCGCCGCTAAA-GTCACGTTC
* * * *
34208625 TTTAGCAGCATTTGTCAAAAAAAG-GCTGCTCAAGGTCACGTTC
1 TTTAGCGGCGTTTGTC--AAAAAGCGCCGCT-AAAGTCACGTTC
* * * *
34208668 TTTAGCTGCGTTTGTCAAAAAGCACCGGTAAATGTCATGTTC
1 TTTAGCGGCGTTTGTCAAAAAGCGCCGCTAAA-GTCACGTTC
*
34208710 TTTAGCGGCGTTTGTCCAAAAAGCGCTGCTAAAGATCACGTTC
1 TTTAGCGGCGTTTGT-CAAAAAGCGCCGCTAAAG-TCACGTTC
* *
34208753 TTTAGTGGCGTTT-TCAAGAAAGCGCCGTTAAAAGTCACGTTC
1 TTTAGCGGCGTTTGTCAA-AAAGCGCCGCT-AAAGTCACGTTC
34208795 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
34208808 TCTTGAAATC
Statistics
Matches: 153, Mismatches: 21, Indels: 19
0.79 0.11 0.10
Matches are distributed among these distances:
41 11 0.07
42 56 0.37
43 78 0.51
44 7 0.05
45 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.30
Consensus pattern (41 bp):
TTTAGCGGCGTTTGTCAAAAAGCGCCGCTAAAGTCACGTTC
Found at i:34208801 original size:85 final size:85
Alignment explanation
Indices: 34208600--34208807 Score: 269
Period size: 85 Copynumber: 2.4 Consensus size: 85
34208590 CATTTGAGAT
* * * * *
34208600 AAAAGCGCCGCTAAAGGTCACGTTCTTTAGCAGCATTTGTCAAAAAAAGGCTGCTCAAGGTCACG
1 AAAAGCGCCGCTAAAAGTCACGTTCTTTAGCGGCGTTTGTCAAAAAAAGGCTGCTAAAGATCACG
34208665 TTCTTTAGCTGCGTTTGTCA
66 TTCTTTAGCTGCGTTTGTCA
* * * * *
34208685 AAAAGCACCGGTAAATGTCATGTTCTTTAGCGGCGTTTGTC-CAAAAAGCGCTGCTAAAGATCAC
1 AAAAGCGCCGCTAAAAGTCACGTTCTTTAGCGGCGTTTGTCAAAAAAAG-GCTGCTAAAGATCAC
34208749 GTTCTTTAG-TGGCGTTT-TCA
65 GTTCTTTAGCT-GCGTTTGTCA
*
34208769 AGAAAGCGCCGTTAAAAGTCACGTTCTTTAGCGGCGTTT
1 A-AAAGCGCCGCTAAAAGTCACGTTCTTTAGCGGCGTTT
34208808 TCTTGAAATC
Statistics
Matches: 107, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
84 11 0.10
85 96 0.90
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.29
Consensus pattern (85 bp):
AAAAGCGCCGCTAAAAGTCACGTTCTTTAGCGGCGTTTGTCAAAAAAAGGCTGCTAAAGATCACG
TTCTTTAGCTGCGTTTGTCA
Found at i:34208808 original size:42 final size:42
Alignment explanation
Indices: 34208582--34208849 Score: 229
Period size: 42 Copynumber: 6.3 Consensus size: 42
34208572 AACATACATT
* ** *
34208582 TTTAGCGGCATTTGAGATAAAAGCGCCGCTAAAGGTCACGTTC
1 TTTAGCGGCGTTTGTCA-AAAAGCGCCGCTAAAAGTCACGTTC
* * * * *
34208625 TTTAGCAGCATTTGTCAAAAAAAG-GCTGCTCAAGGTCACGTTC
1 TTTAGCGGCGTTTGTC--AAAAAGCGCCGCTAAAAGTCACGTTC
* * * * *
34208668 TTTAGCTGCGTTTGTCAAAAAGCACCGGTAAATGTCATGTTC
1 TTTAGCGGCGTTTGTCAAAAAGCGCCGCTAAAAGTCACGTTC
*
34208710 TTTAGCGGCGTTTGTCCAAAAAGCGCTGCT-AAAGATCACGTTC
1 TTTAGCGGCGTTTGT-CAAAAAGCGCCGCTAAAAG-TCACGTTC
* *
34208753 TTTAGTGGCGTTT-TCAAGAAAGCGCCGTTAAAAGTCACGTTC
1 TTTAGCGGCGTTTGTCAA-AAAGCGCCGCTAAAAGTCACGTTC
** * * * *
34208795 TTTAGCGGCGTTT-TCTTGAAATCGTCGCTAAAAATCATGTTC
1 TTTAGCGGCGTTTGTC-AAAAAGCGCCGCTAAAAGTCACGTTC
*
34208837 TTTAGCAGCGTTT
1 TTTAGCGGCGTTT
34208850 TTTTTTACAT
Statistics
Matches: 186, Mismatches: 31, Indels: 17
0.79 0.13 0.07
Matches are distributed among these distances:
41 9 0.05
42 93 0.50
43 78 0.42
44 5 0.03
45 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.31
Consensus pattern (42 bp):
TTTAGCGGCGTTTGTCAAAAAGCGCCGCTAAAAGTCACGTTC
Found at i:34210752 original size:14 final size:15
Alignment explanation
Indices: 34210727--34210756 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
34210717 AAAACTTATA
34210727 ATTTTGTTAAAAAAT
1 ATTTTGTTAAAAAAT
34210742 ATTTT-TTAAAAAAT
1 ATTTTGTTAAAAAAT
34210756 A
1 A
34210757 AAAATTAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (15 bp):
ATTTTGTTAAAAAAT
Found at i:34212223 original size:21 final size:21
Alignment explanation
Indices: 34212194--34212233 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
34212184 AATAGGTCTA
34212194 CTGACGTGG-CAAGTTAACTAG
1 CTGACGTGGCCAA-TTAACTAG
*
34212215 CTGATGTGGCCAATTAACT
1 CTGACGTGGCCAATTAACT
34212234 TGCCACGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.28
Consensus pattern (21 bp):
CTGACGTGGCCAATTAACTAG
Found at i:34214270 original size:27 final size:27
Alignment explanation
Indices: 34214214--34214415 Score: 103
Period size: 29 Copynumber: 7.1 Consensus size: 27
34214204 TTTTTTTACC
* *
34214214 TTATTTTTTATATTA--TATATTATAAAA
1 TTATTTTATATATTATTTATATTAT--TA
34214241 TTATTTTATATATTATTTATATTATTA
1 TTATTTTATATATTATTTATATTATTA
* *
34214268 TTATTCATTATATGTTATTCTTCACAAGTTATTA
1 TTATT--TTATATATTA-T-TT-A-TA-TTATTA
**
34214302 TTATTTTGCATCATTATTTATATATTATTA
1 TTATTTTATAT-ATTA-TT-TATATTATTA
* *
34214332 TTATATTATATGTTTATTATATATTATATA
1 TTATTTTATAT-ATTATT-TATATTAT-TA
* *
34214362 TTATTTT-TATA-TATATGATTTTA-TA
1 TTATTTTATATATTAT-TTATATTATTA
*
34214387 TTATATTATA-ATTATTT-TATATATTA
1 TTATTTTATATATTATTTATAT-TATTA
34214413 TTA
1 TTA
34214416 AGTCATTTTT
Statistics
Matches: 138, Mismatches: 20, Indels: 35
0.72 0.10 0.18
Matches are distributed among these distances:
24 2 0.01
25 12 0.09
26 10 0.07
27 28 0.20
28 1 0.01
29 31 0.22
30 26 0.19
31 3 0.02
32 7 0.05
33 7 0.05
34 11 0.08
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.60
Consensus pattern (27 bp):
TTATTTTATATATTATTTATATTATTA
Found at i:34214332 original size:30 final size:29
Alignment explanation
Indices: 34214296--34214368 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 29
34214286 TCTTCACAAG
*
34214296 TTATTATTATTTTGCATCATTATTTATATA
1 TTATTATTATTTTACATCATTA-TTATATA
* * **
34214326 TTATTATTATATTATATGTTTATTATATA
1 TTATTATTATTTTACATCATTATTATATA
34214355 TTATATATTATTTT
1 TTAT-TATTATTTT
34214369 TATATATATG
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
29 11 0.31
30 25 0.69
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.63
Consensus pattern (29 bp):
TTATTATTATTTTACATCATTATTATATA
Found at i:34214366 original size:36 final size:37
Alignment explanation
Indices: 34214314--34214408 Score: 121
Period size: 36 Copynumber: 2.6 Consensus size: 37
34214304 ATTTTGCATC
34214314 ATTAT-TTATATATTATTATTATATTATATG--TTTAT
1 ATTATATTATATATTATT-TTATATTATATGATTTTAT
34214349 -TATATATTATATATTATTTT-TATATATATGATTTTAT
1 AT-TATATTATATATTATTTTATAT-TATATGATTTTAT
34214386 ATTATATTATA-ATTATTTTATAT
1 ATTATATTATATATTATTTTATAT
34214409 ATTATTAAGT
Statistics
Matches: 53, Mismatches: 0, Indels: 12
0.82 0.00 0.18
Matches are distributed among these distances:
34 4 0.08
35 11 0.21
36 20 0.38
37 17 0.32
38 1 0.02
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (37 bp):
ATTATATTATATATTATTTTATATTATATGATTTTAT
Found at i:34214371 original size:20 final size:20
Alignment explanation
Indices: 34214226--34214413 Score: 80
Period size: 20 Copynumber: 9.6 Consensus size: 20
34214216 ATTTTTTATA
*
34214226 TTATATATTATAAAATTA-TT
1 TTATATATTAT-ATATTATTT
*
34214246 TTATATATTATTTATATTATTA
1 TTATATATTA--TATATTATTT
*
34214268 TTAT-TCATTATATGTTATTCT
1 TTATAT-ATTATATATTATT-T
* *
34214289 TCACA-AGTTAT-TATTATTT
1 TTATATA-TTATATATTATTT
* *
34214308 TGCATCATTATT-TATA-TATTA
1 T-TAT-A-TATTATATATTATTT
* *
34214329 TTATTATATTATAT-GT-TTA
1 TTA-TATATTATATATTATTT
34214348 TTATATATTATATATTATTT
1 TTATATATTATATATTATTT
*
34214368 TTATATA-TAT-GA-T-TTT
1 TTATATATTATATATTATTT
*
34214384 ATATTATATTATA-ATTA-TT
1 TTA-TATATTATATATTATTT
34214403 TTATATATTAT
1 TTATATATTAT
34214414 TAAGTCATTT
Statistics
Matches: 131, Mismatches: 15, Indels: 46
0.68 0.08 0.24
Matches are distributed among these distances:
16 5 0.04
17 5 0.04
18 23 0.18
19 21 0.16
20 42 0.32
21 20 0.15
22 14 0.11
23 1 0.01
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.60
Consensus pattern (20 bp):
TTATATATTATATATTATTT
Found at i:34214433 original size:3 final size:3
Alignment explanation
Indices: 34214240--34214415 Score: 68
Period size: 3 Copynumber: 57.3 Consensus size: 3
34214230 ATATTATAAA
*
34214240 ATT ATT -TT ATAT ATT ATT -TAT ATT ATT ATT ATT CATT ATAT GTT ATT
1 ATT ATT ATT AT-T ATT ATT AT-T ATT ATT ATT ATT -ATT AT-T ATT ATT
* ** *
34214287 CTT CACA AGTT ATT ATT ATT -TT GCATC ATT ATTT ATAT ATT ATT ATT
1 ATT -ATT A-TT ATT ATT ATT ATT --ATT ATT A-TT AT-T ATT ATT ATT
* *
34214334 A-T ATT A-T ATGT -TT ATT ATAT ATT ATAT ATT ATT TTT A-T ATAT ATG
1 ATT ATT ATT AT-T ATT ATT AT-T ATT AT-T ATT ATT ATT ATT AT-T ATT
*
34214379 ATT -TT A-T ATT A-T ATT ATA ATT ATT -TT ATAT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT A
34214416 AGTCATTTTT
Statistics
Matches: 131, Mismatches: 16, Indels: 52
0.66 0.08 0.26
Matches are distributed among these distances:
2 20 0.15
3 81 0.62
4 29 0.22
5 1 0.01
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:34218400 original size:14 final size:16
Alignment explanation
Indices: 34218381--34218417 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
34218371 CGATATCTTT
34218381 TTTGCAT-TCAT-GCA
1 TTTGCATCTCATAGCA
34218395 TTTGCATCTCATAGCA
1 TTTGCATCTCATAGCA
34218411 TTT-CATC
1 TTTGCATC
34218418 ACATCATTGC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 7 0.33
15 8 0.38
16 6 0.29
ACGTcount: A:0.22, C:0.24, G:0.11, T:0.43
Consensus pattern (16 bp):
TTTGCATCTCATAGCA
Found at i:34218417 original size:15 final size:15
Alignment explanation
Indices: 34218381--34218429 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
34218371 CGATATCTTT
34218381 TTTGCAT-TCATGCA
1 TTTGCATCTCATGCA
34218395 TTTGCATCTCATAGCA
1 TTTGCATCTCAT-GCA
*
34218411 TTT-CATCACAT-CA
1 TTTGCATCTCATGCA
34218424 -TTGCAT
1 TTTGCAT
34218430 TCAAAGTTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
12 2 0.06
13 5 0.16
14 7 0.23
15 11 0.35
16 6 0.19
ACGTcount: A:0.24, C:0.24, G:0.10, T:0.41
Consensus pattern (15 bp):
TTTGCATCTCATGCA
Found at i:34227016 original size:210 final size:210
Alignment explanation
Indices: 34226443--34227423 Score: 1642
Period size: 210 Copynumber: 4.7 Consensus size: 210
34226433 CTTCATCAGG
*
34226443 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAGAAAATCGAAGACATAGCTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAGAAGATCGAAGACATAGCTG
* *
34226508 ATTTGGCTTTCATGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTTTGTATTGTCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
34226573 GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAGAGCAGATACATAGCAGATCTTACCTTCA
131 GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAGAGCAGATACATAGCAGATCTTACCTTCA
*
34226638 AATGTTTACGCTGAA
196 GATGTTTACGCTGAA
* ** *
34226653 GCAGATCCAAGATGACAGATCTTATCTCTCGGTATTCAAC-GGGAGCAGATCGAAGACATAGCTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAGAAGATCGAAGACATAGCTG
* *
34226717 ATTTGGCTTTCACGTGTTTACGAAGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTTAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
* *
34226782 GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAGAGTAGATACATAGTAGATCTTACCTTCA
131 GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAGAGCAGATACATAGCAGATCTTACCTTCA
34226847 GATGTTTACGCTGAA
196 GATGTTTACGCTGAA
* * * *
34226862 GCAGATCCAAGATGATAGATCTTATCTCTCTATATTCGGTGGGGAGCAGATCGAAGACATAGCTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAGAAGATCGAAGACATAGCTG
34226927 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
*
34226992 GAACAAATCGAAGTCTGTCATTTCCACTTTGATGGAGAGCAGATACATAGCAGATCTTACCTTCA
131 GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAGAGCAGATACATAGCAGATCTTACCTTCA
34227057 GATGTTTACGCTGAA
196 GATGTTTACGCTGAA
*
34227072 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAGAAAATCGAAGACATAGCTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAGAAGATCGAAGACATAGCTG
*
34227137 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTTAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
* * * *
34227202 GAACAAATCAAAGTCTGGCATTTCCACTTTGATGGAAAGCAGACACATAGCAGATCTTACCTTTA
131 GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAGAGCAGATACATAGCAGATCTTACCTTCA
34227267 GATGTTTACGCTGAA
196 GATGTTTACGCTGAA
* * * *
34227282 GCAGATCCATGGTGACAGATCTTATCTCTCTGTATTCGGTGGGGAGTAGATCGAAGACATAGCTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAGAAGATCGAAGACATAGCTG
* * * * * * *
34227347 ATTTGGTTTTCACGTG-CTACAATGAAGCAAATCTAAGATAATTTGGCATCTCTGTATTATCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
34227411 GAACAAATCGAAG
131 GAACAAATCGAAG
34227424 AAGCAGATTT
Statistics
Matches: 722, Mismatches: 48, Indels: 3
0.93 0.06 0.00
Matches are distributed among these distances:
209 247 0.34
210 475 0.66
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (210 bp):
GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAGAAGATCGAAGACATAGCTG
ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAGAGCAGATACATAGCAGATCTTACCTTCA
GATGTTTACGCTGAA
Found at i:34227374 original size:419 final size:419
Alignment explanation
Indices: 34226443--34227423 Score: 1667
Period size: 419 Copynumber: 2.3 Consensus size: 419
34226433 CTTCATCAGG
* *
34226443 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAGAAAATCGAAGACATAGCTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGTGGGGAGAAGATCGAAGACATAGCTG
* *
34226508 ATTTGGCTTTCATGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTTTGTATTGTCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
34226573 GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAGAGCAGATACATAGCAGATCTTACCTTCA
131 GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAGAGCAGATACATAGCAGATCTTACCTTCA
* *
34226638 AATGTTTACGCTGAAGCAGATCCAAGATGACAGATCTTATCTCTCGGTATTCAACGGGAGCAGAT
196 AATGTTTACGCTGAAGCAGATCCAAGATGACAGATCTTATCTCTCGGTATTCAACGGGAGAAAAT
34226703 CGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGAAGAAGCAAATCTAAGATGATTTGTCGTC
261 CGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGAAGAAGCAAATCTAAGATGATTTGTCGTC
* * * * *
34226768 TCTGTATTGTTAGAGAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAGAGTAGATACATAGT
326 TCTGTATTGTTAGAGAACAAATCAAAGTCTGGCATTTCCACTTTGATGGAAAGCAGACACATAGC
34226833 AGATCTTACCTTCAGATGTTTACGCTGAA
391 AGATCTTACCTTCAGATGTTTACGCTGAA
* * *
34226862 GCAGATCCAAGATGATAGATCTTATCTCTCTATATTCGGTGGGGAGCAGATCGAAGACATAGCTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGTGGGGAGAAGATCGAAGACATAGCTG
34226927 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
*
34226992 GAACAAATCGAAGTCTGTCATTTCCACTTTGATGGAGAGCAGATACATAGCAGATCTTACCTTCA
131 GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAGAGCAGATACATAGCAGATCTTACCTTCA
* * **
34227057 GATGTTTACGCTGAAGCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAGAAAA
196 AATGTTTACGCTGAAGCAGATCCAAGATGACAGATCTTATCTCTCGGTATTCAAC-GGGAGAAAA
*
34227122 TCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGT
260 TCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGAAGAAGCAAATCTAAGATGATTTGTCGT
34227187 CTCTGTATTGTTAGAGAACAAATCAAAGTCTGGCATTTCCACTTTGATGGAAAGCAGACACATAG
325 CTCTGTATTGTTAGAGAACAAATCAAAGTCTGGCATTTCCACTTTGATGGAAAGCAGACACATAG
*
34227252 CAGATCTTACCTTTAGATGTTTACGCTGAA
390 CAGATCTTACCTTCAGATGTTTACGCTGAA
* * *
34227282 GCAGATCCATGGTGACAGATCTTATCTCTCTGTATTCGGTGGGGAGTAGATCGAAGACATAGCTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGTGGGGAGAAGATCGAAGACATAGCTG
* * * * * * *
34227347 ATTTGGTTTTCACGTG-CTACAATGAAGCAAATCTAAGATAATTTGGCATCTCTGTATTATCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
34227411 GAACAAATCGAAG
131 GAACAAATCGAAG
34227424 AAGCAGATTT
Statistics
Matches: 528, Mismatches: 33, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
419 293 0.55
420 235 0.45
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (419 bp):
GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGTGGGGAGAAGATCGAAGACATAGCTG
ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAGAGCAGATACATAGCAGATCTTACCTTCA
AATGTTTACGCTGAAGCAGATCCAAGATGACAGATCTTATCTCTCGGTATTCAACGGGAGAAAAT
CGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGAAGAAGCAAATCTAAGATGATTTGTCGTC
TCTGTATTGTTAGAGAACAAATCAAAGTCTGGCATTTCCACTTTGATGGAAAGCAGACACATAGC
AGATCTTACCTTCAGATGTTTACGCTGAA
Found at i:34230545 original size:29 final size:29
Alignment explanation
Indices: 34230512--34230585 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
34230502 GTGACGAGAT
34230512 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
34230541 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
34230570 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
34230586 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:34230601 original size:29 final size:29
Alignment explanation
Indices: 34230569--34230644 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
34230559 CTGGAAATAT
* *
34230569 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * * *
34230598 ATGGCACTGTGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
34230627 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
34230645 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:34230612 original size:58 final size:58
Alignment explanation
Indices: 34230512--34230644 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
34230502 GTGACGAGAT
* * * * * *
34230512 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * ** * * *
34230570 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
34230628 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
34230645 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:34238423 original size:29 final size:29
Alignment explanation
Indices: 34238390--34238463 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
34238380 GTGACGAGAT
34238390 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
34238419 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
34238448 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
34238464 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:34238479 original size:29 final size:29
Alignment explanation
Indices: 34238447--34238522 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
34238437 CTGGAAATAT
* *
34238447 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * * *
34238476 ATGGCACTGTGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
34238505 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
34238523 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:34238490 original size:58 final size:58
Alignment explanation
Indices: 34238390--34238522 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
34238380 GTGACGAGAT
* * * * * *
34238390 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * ** * * *
34238448 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
34238506 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
34238523 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:34240001 original size:12 final size:12
Alignment explanation
Indices: 34239962--34240038 Score: 52
Period size: 12 Copynumber: 6.5 Consensus size: 12
34239952 TTATTATATC
34239962 ATTATTTGTTT-T
1 ATTATTT-TTTAT
*
34239974 ATT-TTTTTTAC
1 ATTATTTTTTAT
*
34239985 CTTATTTTTTAT
1 ATTATTTTTTAT
* *
34239997 ATTATATATTAT
1 ATTATTTTTTAT
**
34240009 AAAATTATTTTAT
1 ATTATT-TTTTAT
*
34240022 A-TATTATTTAT
1 ATTATTTTTTAT
34240033 ATTATT
1 ATTATT
34240039 ATTATTCATT
Statistics
Matches: 49, Mismatches: 12, Indels: 8
0.71 0.17 0.12
Matches are distributed among these distances:
10 3 0.06
11 11 0.22
12 29 0.59
13 6 0.12
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (12 bp):
ATTATTTTTTAT
Found at i:34240038 original size:3 final size:3
Alignment explanation
Indices: 34240012--34240232 Score: 65
Period size: 3 Copynumber: 71.3 Consensus size: 3
34240002 ATATTATAAA
*
34240012 ATT ATT -TT ATAT ATT ATT -TAT ATT ATT ATT ATT CATT ATAT GTT ATT
1 ATT ATT ATT AT-T ATT ATT AT-T ATT ATT ATT ATT -ATT AT-T ATT ATT
* ** *
34240059 CTT CACA AGTT ATT ATT ATT -TT GCATC ATT ATTT ATAT ATT ATT A-T
1 ATT -ATT A-TT ATT ATT ATT ATT --ATT ATT A-TT AT-T ATT ATT ATT
*
34240105 ATT A-T ATGT -TT ATT ATAT ATT ATAT ATT ATT -TT A-T ATAT ATG ATT
1 ATT ATT AT-T ATT ATT AT-T ATT AT-T ATT ATT ATT ATT AT-T ATT ATT
* *
34240150 -TT A-T ATT A-T ATT ATA ATT ATT -TT ATAT ATT ATT AAGTC ATT -TT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT -A-TT ATT ATT
* *
34240193 -TGT ATT ATT ATAT ATT TTT ATCT ATAT ATT ATT ATC ATT A
1 AT-T ATT ATT AT-T ATT ATT AT-T AT-T ATT ATT ATT ATT A
34240233 AAGGTCTTAA
Statistics
Matches: 164, Mismatches: 21, Indels: 66
0.65 0.08 0.26
Matches are distributed among these distances:
2 25 0.15
3 96 0.59
4 41 0.25
5 2 0.01
ACGTcount: A:0.33, C:0.04, G:0.03, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:34240039 original size:12 final size:12
Alignment explanation
Indices: 34239986--34240041 Score: 53
Period size: 12 Copynumber: 4.7 Consensus size: 12
34239976 TTTTTTTACC
*
34239986 TTATTTTTTATA
1 TTATTATTTATA
34239998 TTA-TATATTATA
1 TTATTAT-TTATA
**
34240010 AAATTATTT-TA
1 TTATTATTTATA
34240021 TATATTATTTATA
1 T-TATTATTTATA
34240034 TTATTATT
1 TTATTATT
34240042 ATTCATTATA
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
11 4 0.11
12 25 0.71
13 6 0.17
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
TTATTATTTATA
Found at i:34240051 original size:54 final size:54
Alignment explanation
Indices: 34239993--34240213 Score: 130
Period size: 54 Copynumber: 3.9 Consensus size: 54
34239983 ACCTTATTTT
*
34239993 TTATATTATATATTATAAAATTATTTTATATATTATTTATATTATTATTATTCA
1 TTATATTATATATTATAAAATTATTTTATATATTATTTATATTATTATTATTAA
* * **
34240047 TTATATGT-TATTCTTCACAAGTTATTATTATTTTGCATCATTATTTATA-TATTATTATATTAT
1 TTATAT-TATA-TATT-ATAA---A--ATTATTTTATAT-ATTATTTATATTATTA-T-TATTA-
34240110 A
54 A
* *
34240111 TGTTTATTATATATTAT-ATATTATTTTATATATATGATTTTATATTA-TATTA-TAA
1 T-TATATTATATATTATAAAATTATTTTATATAT-T-A-TTTATATTATTATTATTAA
* * * * * *
34240166 TTATTTTATATATTATTAAGTCATTTT-TGTATTATTATATATTTTTAT
1 TTATATTATATATTATAAAATTATTTTATATATTATT-TATATTATTAT
34240214 CTATATATTA
Statistics
Matches: 128, Mismatches: 18, Indels: 43
0.68 0.10 0.23
Matches are distributed among these distances:
51 2 0.02
52 7 0.05
53 4 0.03
54 25 0.20
55 13 0.10
56 7 0.05
57 13 0.10
58 2 0.02
59 9 0.07
60 2 0.02
61 15 0.12
62 12 0.09
63 5 0.04
64 6 0.05
65 6 0.05
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.60
Consensus pattern (54 bp):
TTATATTATATATTATAAAATTATTTTATATATTATTTATATTATTATTATTAA
Found at i:34240104 original size:30 final size:27
Alignment explanation
Indices: 34240068--34240183 Score: 82
Period size: 26 Copynumber: 4.3 Consensus size: 27
34240058 TCTTCACAAG
34240068 TTATTATTATTTTGCATCATTATTTATATA
1 TTATTATTATTTT--ATCATTA-TTATATA
* **
34240098 TTATTA-TATTATATGTTTATTATATA
1 TTATTATTATTTTATCATTATTATATA
*
34240124 TTATATATTATTTTAT-A-TA-TATGATT
1 TTAT-TATTATTTTATCATTATTAT-ATA
* * *
34240150 TTA-TATTATATTATAATTATTTTATA
1 TTATTATTATTTTATCATTATTATATA
34240176 -TATTATTA
1 TTATTATTA
34240184 AGTCATTTTT
Statistics
Matches: 70, Mismatches: 9, Indels: 18
0.72 0.09 0.19
Matches are distributed among these distances:
24 10 0.14
25 6 0.09
26 27 0.39
27 9 0.13
28 7 0.10
29 5 0.07
30 6 0.09
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (27 bp):
TTATTATTATTTTATCATTATTATATA
Found at i:34240109 original size:5 final size:5
Alignment explanation
Indices: 34240086--34240176 Score: 66
Period size: 5 Copynumber: 18.4 Consensus size: 5
34240076 ATTTTGCATC
*
34240086 ATTAT -TTAT A-TATT ATTAT ATTAT ATGTTT ATTAT A-TAT -TATAT
1 ATTAT ATTAT ATTA-T ATTAT ATTAT AT-TAT ATTAT ATTAT AT-TAT
* * * *
34240130 ATTAT TTTAT A-TAT ATGAT TTTAT ATTAT ATTAT AATTAT TTTAT AT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT -ATTAT ATTAT AT
34240177 ATTATTAAGT
Statistics
Matches: 67, Mismatches: 10, Indels: 18
0.71 0.11 0.19
Matches are distributed among these distances:
4 13 0.19
5 42 0.63
6 12 0.18
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (5 bp):
ATTAT
Found at i:34240133 original size:33 final size:35
Alignment explanation
Indices: 34240086--34240178 Score: 117
Period size: 33 Copynumber: 2.8 Consensus size: 35
34240076 ATTTTGCATC
*
34240086 ATTAT-TTATATATTATTATATTATATG--TTTAT
1 ATTATATTATATATTATTTTATTATATGATTTTAT
34240118 -TATATATTATATATTATTTTATATATATGATTTTAT
1 AT-TATATTATATATTATTTTAT-TATATGATTTTAT
34240154 ATTATATTATA-ATTATTTTA-TATAT
1 ATTATATTATATATTATTTTATTATAT
34240179 TATTAAGTCA
Statistics
Matches: 54, Mismatches: 1, Indels: 11
0.82 0.02 0.17
Matches are distributed among these distances:
31 1 0.02
32 3 0.06
33 20 0.37
34 6 0.11
35 9 0.17
36 14 0.26
37 1 0.02
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (35 bp):
ATTATATTATATATTATTTTATTATATGATTTTAT
Found at i:34240176 original size:47 final size:49
Alignment explanation
Indices: 34240087--34240182 Score: 128
Period size: 49 Copynumber: 2.0 Consensus size: 49
34240077 TTTTGCATCA
* *
34240087 TTATTTATATATTATTATATTATATGTTTATTATATATTATATATTATT
1 TTATATATATATTATTATATTATATGTTAATTATATATTATATATTATT
34240136 TTATATATATGATT-TTATATTATAT-TATAATTAT-T-TTATATATTATT
1 TTATATATAT-ATTATTATATTATATGT-TAATTATATATTATATATTATT
34240183 AAGTCATTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
47 12 0.28
48 2 0.05
49 26 0.60
50 3 0.07
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.62
Consensus pattern (49 bp):
TTATATATATATTATTATATTATATGTTAATTATATATTATATATTATT
Found at i:34240220 original size:14 final size:14
Alignment explanation
Indices: 34240086--34240228 Score: 63
Period size: 14 Copynumber: 10.4 Consensus size: 14
34240076 ATTTTGCATC
*
34240086 ATTATTTATATATT
1 ATTATCTATATATT
* *
34240100 ATTATATTATATGTTT
1 ATTAT-CTATAT-ATT
*
34240116 ATTATATAT-TATAT
1 ATTATCTATATAT-T
*
34240130 ATTAT-TTTATATAT
1 ATTATCTATATAT-T
* *
34240144 ATGAT-TTTATATT
1 ATTATCTATATATT
34240157 A-TAT-TATA-ATT
1 ATTATCTATATATT
34240168 ATT-T-TATATATT
1 ATTATCTATATATT
* *
34240180 ATTAAGTC-ATTTTTGT
1 ATT-A-TCTATATAT-T
34240196 ATTAT-TATATATT
1 ATTATCTATATATT
*
34240209 TTTATCTATATATT
1 ATTATCTATATATT
34240223 ATTATC
1 ATTATC
34240229 ATTAAAGGTC
Statistics
Matches: 103, Mismatches: 13, Indels: 26
0.73 0.09 0.18
Matches are distributed among these distances:
11 9 0.09
12 12 0.12
13 10 0.10
14 46 0.45
15 15 0.15
16 11 0.11
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (14 bp):
ATTATCTATATATT
Found at i:34252279 original size:28 final size:28
Alignment explanation
Indices: 34252248--34252303 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
34252238 TATTTTCGTC
* *
34252248 CACACAAGCGTGTGTCTTAGCCGTGTGT
1 CACACAAGCGTGTGGCCTAGCCGTGTGT
* *
34252276 CACATAGGCGTGTGGCCTAGCCGTGTGT
1 CACACAAGCGTGTGGCCTAGCCGTGTGT
34252304 TCCCTACATC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.16, C:0.25, G:0.32, T:0.27
Consensus pattern (28 bp):
CACACAAGCGTGTGGCCTAGCCGTGTGT
Found at i:34259176 original size:21 final size:21
Alignment explanation
Indices: 34259066--34259179 Score: 70
Period size: 21 Copynumber: 5.4 Consensus size: 21
34259056 ACTCATATTA
* *
34259066 GTTTCCGTTCAACCCTAACAG
1 GTTTCTGTTCAACCCTTACAG
* * *
34259087 GTTTCCGTTCAACTCTT-CTAA
1 GTTTCTGTTCAACCCTTAC-AG
* * * *
34259108 GCTTCTGTTTAACCCTTATAT
1 GTTTCTGTTCAACCCTTACAG
* * * *
34259129 GTTTCTATTCAGCTCTTA-TG
1 GTTTCTGTTCAACCCTTACAG
*
34259149 AGCTTCTGTTCAACCCTTACAG
1 -GTTTCTGTTCAACCCTTACAG
34259171 GTTTCTGTT
1 GTTTCTGTT
34259180 TAGCACTTAT
Statistics
Matches: 67, Mismatches: 22, Indels: 8
0.69 0.23 0.08
Matches are distributed among these distances:
20 1 0.01
21 65 0.97
22 1 0.01
ACGTcount: A:0.18, C:0.26, G:0.13, T:0.42
Consensus pattern (21 bp):
GTTTCTGTTCAACCCTTACAG
Found at i:34259176 original size:42 final size:42
Alignment explanation
Indices: 34259072--34259197 Score: 144
Period size: 42 Copynumber: 3.0 Consensus size: 42
34259062 ATTAGTTTCC
* * * * *
34259072 GTTCAACCCTAACAGGTTTCCGTTCAACTCTTCTAAGCTTCT
1 GTTCAACCCTTACAGGTTTCTGTTCAGCTCTTATGAGCTTCT
* * * *
34259114 GTTTAACCCTTATATGTTTCTATTCAGCTCTTATGAGCTTCT
1 GTTCAACCCTTACAGGTTTCTGTTCAGCTCTTATGAGCTTCT
* * *
34259156 GTTCAACCCTTACAGGTTTCTGTTTAGCACTTATGTGCTTCT
1 GTTCAACCCTTACAGGTTTCTGTTCAGCTCTTATGAGCTTCT
34259198 ATTTAGACTT
Statistics
Matches: 68, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 68 1.00
ACGTcount: A:0.19, C:0.25, G:0.13, T:0.42
Consensus pattern (42 bp):
GTTCAACCCTTACAGGTTTCTGTTCAGCTCTTATGAGCTTCT
Found at i:34261417 original size:25 final size:23
Alignment explanation
Indices: 34261389--34261445 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 23
34261379 TACCGATCAA
34261389 GATGCTCACAGGAA-CTATATAACAG
1 GATGCTCA-A-GAAGCT-TATAACAG
*
34261414 GATGCTCAAGAAGGCTTTTAACAG
1 GATGCTCAAGAA-GCTTATAACAG
34261438 GATGCTCA
1 GATGCTCA
34261446 TCCGAGCTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
23 3 0.10
24 16 0.55
25 10 0.34
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (23 bp):
GATGCTCAAGAAGCTTATAACAG
Found at i:34263450 original size:22 final size:20
Alignment explanation
Indices: 34263413--34263452 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
34263403 GCACCTAAGG
34263413 AAAATTTTAAAATTTTGGGA
1 AAAATTTTAAAATTTTGGGA
*
34263433 AAAATTCTCTAAACTTTTGG
1 AAAATT-T-TAAAATTTTGG
34263453 TTTAGTCCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 1 0.06
22 10 0.59
ACGTcount: A:0.40, C:0.07, G:0.12, T:0.40
Consensus pattern (20 bp):
AAAATTTTAAAATTTTGGGA
Found at i:34268769 original size:17 final size:18
Alignment explanation
Indices: 34268749--34268783 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
34268739 AGATTTAGGT
34268749 TTAAAAA-TTTTAATTAA
1 TTAAAAATTTTTAATTAA
34268766 TTAAAAATTTTTAATTAA
1 TTAAAAATTTTTAATTAA
34268784 AAATCTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TTAAAAATTTTTAATTAA
Found at i:34278255 original size:126 final size:125
Alignment explanation
Indices: 34278030--34278424 Score: 535
Period size: 126 Copynumber: 3.1 Consensus size: 125
34278020 GGCCAAACAG
34278030 GAACTACTATAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCA-TCAATTTTGCTGACAGTGCAA
1 GAACTACTATAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGT-AATTTTGCTGACAGTGC-A
*
34278094 CTTGT-TTGAAGCGTTTTTGACACTATTTGTTTAGAACCATCTTCTCAAAATTATTTTTTCAA
64 -TTCTCTTGAAGCGTTTTTGACACTATTTGTTTAGAACCATCTTCTCAAAATTATTTTTTCAA
* * * * *
34278156 GAACTATTATAGAAAAAAAAG-GTCCACGTGGGAGATTTTTTCAGTATTTTTGCTGACTGTGCAT
1 GAACTACTATAG-AAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCAT
* * *
34278220 TCTACTTGAAGCGTTTTTAACACTATTTATTTAGAACCATCTTCTCAAAATTATTTTTTCAG
65 TCT-CTTGAAGCGTTTTTGACACTATTTGTTTAGAACCATCTTCTCAAAATTATTTTTTCAA
* * * *
34278282 GAACTACTGTAGAAAAAGAGCATCCACGTCGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
1 GAACTACTATAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATT
* * * *
34278347 CTGCTTGAAGCATTTTTGACATTATTTGTTTAGAACCATCTCCTCAAAATTATTTTTTCAG
66 CT-CTTGAAGCGTTTTTGACACTATTTGTTTAGAACCATCTTCTCAAAATTATTTTTTCAA
* * *
34278408 GAATTACTGTAAAAAAA
1 GAACTACTATAGAAAAA
34278425 ACAAAATCCT
Statistics
Matches: 238, Mismatches: 26, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
124 3 0.01
125 8 0.03
126 219 0.92
127 8 0.03
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.37
Consensus pattern (125 bp):
GAACTACTATAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATT
CTCTTGAAGCGTTTTTGACACTATTTGTTTAGAACCATCTTCTCAAAATTATTTTTTCAA
Found at i:34278540 original size:34 final size:34
Alignment explanation
Indices: 34278499--34278618 Score: 143
Period size: 34 Copynumber: 3.4 Consensus size: 34
34278489 TTTAAAAAAA
34278499 CTAAACCCTAATTTAATTAATTTTTTTTAAAACT
1 CTAAACCCTAATTTAATTAATTTTTTTTAAAACT
* * *
34278533 CTAAACCCTAATTTAATTTA-TTTATTTAAAACCC
1 CTAAACCCTAATTTAATTAATTTTTTTTAAAA-CT
* *
34278567 CTAAAAAACCTAATATAATTAATTTTTTTTAAAAACT
1 CT--AAACCCTAATTTAATTAATTTTTTTT-AAAACT
*
34278604 ATAAACCCTAATTTA
1 CTAAACCCTAATTTA
34278619 TTTTTTAAAA
Statistics
Matches: 70, Mismatches: 11, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
33 10 0.14
34 22 0.31
35 11 0.16
36 15 0.21
37 8 0.11
38 4 0.06
ACGTcount: A:0.42, C:0.16, G:0.00, T:0.42
Consensus pattern (34 bp):
CTAAACCCTAATTTAATTAATTTTTTTTAAAACT
Found at i:34278692 original size:41 final size:41
Alignment explanation
Indices: 34278633--34278725 Score: 143
Period size: 41 Copynumber: 2.3 Consensus size: 41
34278623 TTAAAATTCT
*
34278633 TAAACCCTAAACCTAAATTA-TTTTAATAAAACCCTAACCC
1 TAAACCCTAAACCTAAATTATTTTTAACAAAACCCTAACCC
* *
34278673 TACAACCCTAAACCTAAATTATTTTTAACAAAATCCTAACCT
1 TA-AACCCTAAACCTAAATTATTTTTAACAAAACCCTAACCC
34278715 TAAACCCTAAA
1 TAAACCCTAAA
34278726 AACCCTAAAC
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
40 2 0.04
41 27 0.56
42 19 0.40
ACGTcount: A:0.45, C:0.27, G:0.00, T:0.28
Consensus pattern (41 bp):
TAAACCCTAAACCTAAATTATTTTTAACAAAACCCTAACCC
Found at i:34279112 original size:27 final size:26
Alignment explanation
Indices: 34279064--34279121 Score: 62
Period size: 27 Copynumber: 2.2 Consensus size: 26
34279054 TTAAAATTGA
**
34279064 TTTTATTTTGAAATTTAAATCTTATTT
1 TTTTATTTAAAAATTTAAATCTT-TTT
**
34279091 TTTTATTTAAAAATTTTGATCTTTTT
1 TTTTATTTAAAAATTTAAATCTTTTT
*
34279117 ATTTA
1 TTTTA
34279122 GTTTTTTCAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 7 0.27
27 19 0.73
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.64
Consensus pattern (26 bp):
TTTTATTTAAAAATTTAAATCTTTTT
Found at i:34280349 original size:27 final size:28
Alignment explanation
Indices: 34280318--34280388 Score: 85
Period size: 26 Copynumber: 2.5 Consensus size: 28
34280308 TATAATTTTT
*
34280318 TAAAACAATAAAAAA-ATCTTT-AAAA-A
1 TAAAAAAATAAAAAACAT-TTTAAAAATA
34280344 TAAAAAAATAAAAATACATTTTAAAAATA
1 TAAAAAAATAAAAA-ACATTTTAAAAATA
34280373 TAAAAAAAATAAAAAA
1 T-AAAAAAATAAAAAA
34280389 TTCAATGTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
26 13 0.33
27 4 0.10
28 6 0.15
29 3 0.08
30 13 0.33
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.23
Consensus pattern (28 bp):
TAAAAAAATAAAAAACATTTTAAAAATA
Found at i:34282939 original size:46 final size:45
Alignment explanation
Indices: 34282886--34283061 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 45
34282876 TATTTGGGCA
34282886 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *** * *
34282932 TCCGAACTCGTTGAGTTGAGTCTGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* *
34282979 TCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
34283025 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
34283062 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 67 0.63
47 30 0.28
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:34283041 original size:93 final size:93
Alignment explanation
Indices: 34282882--34283053 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
34282872 AGGATATTTG
* *
34282882 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
*
34282947 TTGAGTCTGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
34282975 GGCATCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
34283040 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
34283054 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:34286776 original size:28 final size:31
Alignment explanation
Indices: 34286718--34286778 Score: 76
Period size: 28 Copynumber: 2.1 Consensus size: 31
34286708 ATAATAATAT
*
34286718 AATAATATAGAATAAAAAGAACTAAATAAAG
1 AATAATATAGAATAAAAAGAAATAAATAAAG
34286749 AATAA-ATA-AAT-AAAAGAAATAGAA-AAAG
1 AATAATATAGAATAAAAAGAAATA-AATAAAG
34286777 AA
1 AA
34286779 ACAGAGATAG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
28 15 0.54
29 5 0.18
30 3 0.11
31 5 0.18
ACGTcount: A:0.72, C:0.02, G:0.10, T:0.16
Consensus pattern (31 bp):
AATAATATAGAATAAAAAGAAATAAATAAAG
Found at i:34294681 original size:24 final size:24
Alignment explanation
Indices: 34294654--34294764 Score: 136
Period size: 24 Copynumber: 4.6 Consensus size: 24
34294644 AAGGAAATTA
* *
34294654 GCACACATAGTGCCATACTAACCC
1 GCACACATAGTGCCATTCTAATCC
34294678 GCACACATAGTGCC-TTGCTAATCC
1 GCACACATAGTGCCATT-CTAATCC
* * *
34294702 ACACACGTAGTGCCATTCAAATCC
1 GCACACATAGTGCCATTCTAATCC
*
34294726 GCACACATAGTGCCATTC-AGATCT
1 GCACACATAGTGCCATTCTA-ATCC
34294750 GCACACATAGTGCCA
1 GCACACATAGTGCCA
34294765 ATGTCATTTC
Statistics
Matches: 76, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
23 2 0.03
24 72 0.95
25 2 0.03
ACGTcount: A:0.31, C:0.33, G:0.15, T:0.21
Consensus pattern (24 bp):
GCACACATAGTGCCATTCTAATCC
Found at i:34296066 original size:17 final size:17
Alignment explanation
Indices: 34296044--34296077 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
34296034 CCCCACTTAA
*
34296044 TATATTATAACTTATTT
1 TATATTATAACATATTT
34296061 TATATTATAACATATTT
1 TATATTATAACATATTT
34296078 CAAATATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (17 bp):
TATATTATAACATATTT
Found at i:34300283 original size:19 final size:20
Alignment explanation
Indices: 34300259--34300296 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
34300249 ATGATATACC
*
34300259 ACATTTAACCATC-ACATGA
1 ACATTTAAACATCAACATGA
34300278 ACATTTAAACATCAACATG
1 ACATTTAAACATCAACATG
34300297 CATAATTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.45, C:0.24, G:0.05, T:0.26
Consensus pattern (20 bp):
ACATTTAAACATCAACATGA
Found at i:34301250 original size:14 final size:14
Alignment explanation
Indices: 34301231--34301261 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
34301221 CATGCAATCA
34301231 ATATCTAAATTAAC
1 ATATCTAAATTAAC
34301245 ATATCTAAATTAAC
1 ATATCTAAATTAAC
34301259 ATA
1 ATA
34301262 CATTTAAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (14 bp):
ATATCTAAATTAAC
Found at i:34303247 original size:39 final size:39
Alignment explanation
Indices: 34303204--34303326 Score: 210
Period size: 39 Copynumber: 3.2 Consensus size: 39
34303194 GCAATTAGCA
*
34303204 TGCTAGGTATAAACCTGAACTTATCACCGGCACGAGGCC
1 TGCTAGGTATAAACATGAACTTATCACCGGCACGAGGCC
* * *
34303243 TGCTAGGTATAAACTTGAACTTATCACTGGAACGAGGCC
1 TGCTAGGTATAAACATGAACTTATCACCGGCACGAGGCC
34303282 TGCTAGGTATAAACATGAACTTATCACCGGCACGAGGCC
1 TGCTAGGTATAAACATGAACTTATCACCGGCACGAGGCC
34303321 TGCTAG
1 TGCTAG
34303327 ACATTAAGTC
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 78 1.00
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.23
Consensus pattern (39 bp):
TGCTAGGTATAAACATGAACTTATCACCGGCACGAGGCC
Found at i:34311051 original size:39 final size:39
Alignment explanation
Indices: 34311008--34311091 Score: 150
Period size: 39 Copynumber: 2.2 Consensus size: 39
34310998 GCAATTAGCA
34311008 TGCTAGGTATAAACCTGAACTTATCACCGGCACGAGGCC
1 TGCTAGGTATAAACCTGAACTTATCACCGGCACGAGGCC
* *
34311047 TGCTAGGTATAAACCTGAACTTATCACCGGCATGAGGCT
1 TGCTAGGTATAAACCTGAACTTATCACCGGCACGAGGCC
34311086 TGCTAG
1 TGCTAG
34311092 ACATTAAGTC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.27, C:0.25, G:0.24, T:0.24
Consensus pattern (39 bp):
TGCTAGGTATAAACCTGAACTTATCACCGGCACGAGGCC
Found at i:34312576 original size:25 final size:25
Alignment explanation
Indices: 34312542--34312591 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
34312532 TCCAAATATA
34312542 CAAAGATTTTAAATGAAAGAGCATT
1 CAAAGATTTTAAATGAAAGAGCATT
34312567 CAAAGATTTTAAATGAAAGAGCATT
1 CAAAGATTTTAAATGAAAGAGCATT
34312592 AAACATACCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.48, C:0.08, G:0.16, T:0.28
Consensus pattern (25 bp):
CAAAGATTTTAAATGAAAGAGCATT
Found at i:34313750 original size:121 final size:121
Alignment explanation
Indices: 34313555--34313789 Score: 317
Period size: 121 Copynumber: 1.9 Consensus size: 121
34313545 TGAGGCGCAG
* **
34313555 AAGCCTAGGACCAGCCAACAAAGAAAAAGAGCCGATGTGAGCTATAGAAACAGATTCACTGTTAC
1 AAGCCTAGGACCAGCCAACAAAGAAAAAGAGCCGATGTGAGCTATAAAAACAGATTCACCATTAC
** * * *
34313620 TTATAGACACTTGATTTGTACCTGTATTGGGAGAATCAAACATGAGAGTTGTGCAA
66 CCATAGACACTTGATTTGTACCTATATAGGGAGAAGCAAACATGAGAGTTGTGCAA
* * * * * * *
34313676 AAGCTTAGGACTAGCCAATAAAGAAGAAGGGCCTATGTGAGCTATAAAAATAGATTCACCATTAC
1 AAGCCTAGGACCAGCCAACAAAGAAAAAGAGCCGATGTGAGCTATAAAAACAGATTCACCATTAC
* *
34313741 CCATAGACACTTGATTTGTACCTATATAGGGAGAAGCAGACGTGAGAGT
66 CCATAGACACTTGATTTGTACCTATATAGGGAGAAGCAAACATGAGAGT
34313790 AGCCATGTCA
Statistics
Matches: 97, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
121 97 1.00
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.23
Consensus pattern (121 bp):
AAGCCTAGGACCAGCCAACAAAGAAAAAGAGCCGATGTGAGCTATAAAAACAGATTCACCATTAC
CCATAGACACTTGATTTGTACCTATATAGGGAGAAGCAAACATGAGAGTTGTGCAA
Found at i:34315174 original size:21 final size:20
Alignment explanation
Indices: 34315148--34315195 Score: 69
Period size: 21 Copynumber: 2.4 Consensus size: 20
34315138 CAGATAATAA
* *
34315148 TTAACTATTAACTAACTGTGT
1 TTAACTACTAACTAACTCT-T
34315169 TTAACTACTAACTAACTCTT
1 TTAACTACTAACTAACTCTT
34315189 TTAACTA
1 TTAACTA
34315196 ACTTTATCAG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 8 0.32
21 17 0.68
ACGTcount: A:0.35, C:0.19, G:0.04, T:0.42
Consensus pattern (20 bp):
TTAACTACTAACTAACTCTT
Found at i:34317864 original size:10 final size:10
Alignment explanation
Indices: 34317839--34317883 Score: 65
Period size: 10 Copynumber: 4.5 Consensus size: 10
34317829 TCTTAAAAAA
34317839 TAAAAAAGATT
1 TAAAAAA-ATT
*
34317850 T-AAAAATTT
1 TAAAAAAATT
34317859 TAAAAAAATT
1 TAAAAAAATT
34317869 TAAAAAAATT
1 TAAAAAAATT
34317879 TAAAA
1 TAAAA
34317884 CTCAAAGTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
9 3 0.10
10 27 0.87
11 1 0.03
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (10 bp):
TAAAAAAATT
Found at i:34328561 original size:24 final size:24
Alignment explanation
Indices: 34328526--34328573 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
34328516 AAGCCAGAGT
34328526 AAGAACCACGTCAAACTCTGATGA
1 AAGAACCACGTCAAACTCTGATGA
*
34328550 AAGAACCCCGTCAAACTCTGATGA
1 AAGAACCACGTCAAACTCTGATGA
34328574 GAGTCTGGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.40, C:0.27, G:0.17, T:0.17
Consensus pattern (24 bp):
AAGAACCACGTCAAACTCTGATGA
Found at i:34333944 original size:30 final size:30
Alignment explanation
Indices: 34333910--34333971 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
34333900 ACTGAATTGG
34333910 TTGAAATTCGGAGACAGAAATACATCATTT
1 TTGAAATTCGGAGACAGAAATACATCATTT
34333940 TTGAAATTCGGAGACAGAAATACATCATTT
1 TTGAAATTCGGAGACAGAAATACATCATTT
34333970 TT
1 TT
34333972 TCACATCCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (30 bp):
TTGAAATTCGGAGACAGAAATACATCATTT
Found at i:34341249 original size:9 final size:9
Alignment explanation
Indices: 34341225--34341302 Score: 120
Period size: 9 Copynumber: 8.3 Consensus size: 9
34341215 TTCATTTAAC
34341225 AAACACATT
1 AAACACATT
34341234 GAAACACATT
1 -AAACACATT
34341244 AAACACATT
1 AAACACATT
34341253 AAACACATT
1 AAACACATT
34341262 AAACACATT
1 AAACACATT
*
34341271 AATCAGGCATT
1 AAACA--CATT
34341282 AAACACATT
1 AAACACATT
34341291 AAACACATT
1 AAACACATT
34341300 AAA
1 AAA
34341303 TTATTCCAGC
Statistics
Matches: 64, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
9 47 0.73
10 9 0.14
11 8 0.12
ACGTcount: A:0.54, C:0.21, G:0.04, T:0.22
Consensus pattern (9 bp):
AAACACATT
Found at i:34343764 original size:24 final size:23
Alignment explanation
Indices: 34343723--34343802 Score: 99
Period size: 24 Copynumber: 3.4 Consensus size: 23
34343713 AAGCTCCTCC
*
34343723 TGAGCTGGTAAATAGTAAGCTCTAT
1 TGAGCT-GAAAAT-GTAAGCTCTAT
34343748 TGAGCTGAAAATGGTAAGCTCTAT
1 TGAGCTGAAAAT-GTAAGCTCTAT
*
34343772 TGAGCTGAACA-GTAAGCTCTAT
1 TGAGCTGAAAATGTAAGCTCTAT
*
34343794 CGAGCTGAA
1 TGAGCTGAA
34343803 TCGTTAAGCT
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
22 19 0.37
24 26 0.51
25 6 0.12
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.28
Consensus pattern (23 bp):
TGAGCTGAAAATGTAAGCTCTAT
Found at i:34343829 original size:46 final size:45
Alignment explanation
Indices: 34343736--34343858 Score: 126
Period size: 46 Copynumber: 2.7 Consensus size: 45
34343726 GCTGGTAAAT
* * * *
34343736 AGTAAGCTCTATTGAGCTGAAAATGGTAAGC-TCTATTGAGCTGAAC
1 AGTAAGCTCTATCGAGCTG--AATCGTAAGCTTCTAATGAACTGAAC
34343782 AGTAAGCTCTATCGAGCTGAATCGTTAAGCTTC-AATGAACTGAAAC
1 AGTAAGCTCTATCGAGCTGAATCG-TAAGCTTCTAATGAACTG-AAC
*
34343828 AGTAAGCTCT-TACAAGCTGAATCAGTAAGCT
1 AGTAAGCTCTAT-CGAGCTGAATC-GTAAGCT
34343859 CATATGAGTT
Statistics
Matches: 67, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
44 4 0.06
45 13 0.19
46 49 0.73
47 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (45 bp):
AGTAAGCTCTATCGAGCTGAATCGTAAGCTTCTAATGAACTGAAC
Found at i:34358997 original size:40 final size:39
Alignment explanation
Indices: 34358906--34359056 Score: 128
Period size: 40 Copynumber: 3.8 Consensus size: 39
34358896 ATAACCATGT
* *
34358906 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
*
34358946 GCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTA-GCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAATG--ACTA
* * ** *
34358986 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
* *
34359026 GCATAATTGTCTTCGGGAT-TTAGCCCGGATA
1 GCACAA-TGCCTTCGGG-TCTTAGCCCGGATA
34359057 TCATTCAATT
Statistics
Matches: 92, Mismatches: 13, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
38 1 0.01
39 4 0.04
40 85 0.92
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
Found at i:34359040 original size:80 final size:80
Alignment explanation
Indices: 34358906--34359055 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
34358896 ATAACCATGT
*
34358906 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
34358970 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
34358986 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
34359049 CCCGGAT
64 CCCGGAT
34359056 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:34361125 original size:27 final size:27
Alignment explanation
Indices: 34361071--34361130 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
34361061 ATTACCAAAG
* * *
34361071 TACCCTCGATTTATAGAATCACTATTT
1 TACCCTCGATTTACAAAATCACCATTT
* *
34361098 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAAAATCACCATTT
34361125 TACCCT
1 TACCCT
34361131 TGTTTGTGAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.28, C:0.27, G:0.07, T:0.38
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATCACCATTT
Found at i:34361197 original size:27 final size:27
Alignment explanation
Indices: 34361127--34361290 Score: 93
Period size: 27 Copynumber: 6.1 Consensus size: 27
34361117 TACCGTTTTA
* * **
34361127 CCCTTGTTTGTGAAATTACTGAAATAC
1 CCCTAGTTTGTAAAATTACAAAAATAC
** *
34361154 CCCTA-TAGGGTAGAATTACAAAAATAC
1 CCCTAGT-TTGTAAAATTACAAAAATAC
*
34361181 CCCTAGTTTGTAAAATTACCAAAATAC
1 CCCTAGTTTGTAAAATTACAAAAATAC
* * * * * *
34361208 CACTGGTTTTTGAAATGATC-GAAATA-
1 CCCTAGTTTGTAAAATTA-CAAAAATAC
* *
34361234 CCCTCAATTTGTAAAATTACCAAAATAC
1 CCCT-AGTTTGTAAAATTACAAAAATAC
* **
34361262 CCCT-GACTTACAAAATTACAAAAATAC
1 CCCTAG-TTTGTAAAATTACAAAAATAC
34361289 CC
1 CC
34361291 TTGACTTTCT
Statistics
Matches: 101, Mismatches: 29, Indels: 14
0.70 0.20 0.10
Matches are distributed among these distances:
26 5 0.05
27 90 0.89
28 6 0.06
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (27 bp):
CCCTAGTTTGTAAAATTACAAAAATAC
Found at i:34361287 original size:54 final size:55
Alignment explanation
Indices: 34361167--34361291 Score: 139
Period size: 54 Copynumber: 2.3 Consensus size: 55
34361157 TATAGGGTAG
* ** ***
34361167 AATTACAAAAATACCC-CTAGTTTGTAAAATTACCAAAATACCACTGGTTTTTGA
1 AATTACAAAAATACCCTCTAATTTGTAAAATTACCAAAATACCACTGACTTACAA
* * *
34361221 AATGATC-GAAATACCCTC-AATTTGTAAAATTACCAAAATACCCCTGACTTACAA
1 AATTA-CAAAAATACCCTCTAATTTGTAAAATTACCAAAATACCACTGACTTACAA
34361275 AATTACAAAAATACCCT
1 AATTACAAAAATACCCT
34361292 TGACTTTCTA
Statistics
Matches: 57, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
53 1 0.02
54 54 0.95
55 2 0.04
ACGTcount: A:0.43, C:0.22, G:0.07, T:0.28
Consensus pattern (55 bp):
AATTACAAAAATACCCTCTAATTTGTAAAATTACCAAAATACCACTGACTTACAA
Found at i:34361295 original size:27 final size:27
Alignment explanation
Indices: 34361246--34361345 Score: 92
Period size: 27 Copynumber: 3.6 Consensus size: 27
34361236 CTCAATTTGT
* *
34361246 AAAATTACCAAAATACCCCTGACTTAC
1 AAAATTACAAAAATACCCTTGACTTAC
*
34361273 AAAATTACAAAAATACCCTTGACTTTC
1 AAAATTACAAAAATACCCTTGACTTAC
* * * **
34361300 TAAAAATTATAGAAATACCATTGGTTTAC
1 --AAAATTACAAAAATACCCTTGACTTAC
**
34361329 AAAATTACTGAAATACC
1 AAAATTACAAAAATACC
34361346 TTTGGTTTGT
Statistics
Matches: 60, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
27 39 0.65
29 21 0.35
ACGTcount: A:0.46, C:0.20, G:0.06, T:0.28
Consensus pattern (27 bp):
AAAATTACAAAAATACCCTTGACTTAC
Found at i:34361350 original size:27 final size:27
Alignment explanation
Indices: 34361302--34361353 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
34361292 TGACTTTCTA
34361302 AAAATTATAGAAATACCATTGGTTTAC
1 AAAATTATAGAAATACCATTGGTTTAC
*
34361329 AAAATTACT-GAAATACCTTTGGTTT
1 AAAATTA-TAGAAATACCATTGGTTT
34361354 GTAGATTAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.37
Consensus pattern (27 bp):
AAAATTATAGAAATACCATTGGTTTAC
Found at i:34362308 original size:25 final size:25
Alignment explanation
Indices: 34362275--34362344 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
34362265 AGGAAGTGCT
*
34362275 AAAAGGGCTATGCCCCAGTTTACCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
34362300 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
* *
34362325 AAAAGGCCTTTACCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
34362345 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:34362525 original size:42 final size:42
Alignment explanation
Indices: 34362478--34362569 Score: 175
Period size: 42 Copynumber: 2.2 Consensus size: 42
34362468 TAGTCTCCCC
*
34362478 AAATGGGCTTGCATGCATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
34362520 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
34362562 AAATGGGC
1 AAATGGGC
34362570 CTAAGGGCCA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.34
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
Found at i:34362628 original size:31 final size:31
Alignment explanation
Indices: 34362593--34362671 Score: 149
Period size: 31 Copynumber: 2.5 Consensus size: 31
34362583 CGTTTACAGT
34362593 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
34362624 AAAGGCTTCGGCTCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
34362655 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
34362672 AACCGTTAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:34370700 original size:5 final size:5
Alignment explanation
Indices: 34370685--34370776 Score: 55
Period size: 5 Copynumber: 17.2 Consensus size: 5
34370675 TTTTTAGTTC
* *
34370685 TTTATT TTTAT TTTAT TTTAT TATT-T GTTAT TGTT-T GTTATT TTATAT
1 TTTA-T TTTAT TTTAT TTTAT T-TTAT TTTAT T-TTAT TTTA-T TT-TAT
*
34370733 TTTAT ATTTAT TTTAGT TTCT-T TCTTAA TTTAT TTTAT TTTAT T
1 TTTAT -TTTAT TTTA-T TT-TAT T-TTAT TTTAT TTTAT TTTAT T
34370777 ATTCTGCTTC
Statistics
Matches: 69, Mismatches: 6, Indels: 23
0.70 0.06 0.23
Matches are distributed among these distances:
4 4 0.06
5 39 0.57
6 23 0.33
7 3 0.04
ACGTcount: A:0.20, C:0.02, G:0.04, T:0.74
Consensus pattern (5 bp):
TTTAT
Found at i:34370947 original size:12 final size:12
Alignment explanation
Indices: 34370932--34370982 Score: 66
Period size: 12 Copynumber: 4.2 Consensus size: 12
34370922 TTACTATATA
*
34370932 TTTTATTATTCT
1 TTTTATTCTTCT
34370944 TTTTATTCTTCT
1 TTTTATTCTTCT
*
34370956 TCTTATTCTTCT
1 TTTTATTCTTCT
* *
34370968 TATTATTCTTAT
1 TTTTATTCTTCT
34370980 TTT
1 TTT
34370983 AAGTATGTCA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 34 1.00
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.73
Consensus pattern (12 bp):
TTTTATTCTTCT
Found at i:34372473 original size:5 final size:5
Alignment explanation
Indices: 34372454--34372487 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
34372444 TTTTATTCGT
*
34372454 TTTAT TTTAA TTTTAA TTTAA TTTAA TTTAA TTT
1 TTTAA TTTAA -TTTAA TTTAA TTTAA TTTAA TTT
34372488 TTATGTTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
5 22 0.81
6 5 0.19
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (5 bp):
TTTAA
Found at i:34372473 original size:11 final size:11
Alignment explanation
Indices: 34372453--34372488 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
34372443 ATTTTATTCG
*
34372453 TTTTATTTTAA
1 TTTTAATTTAA
34372464 TTTTAATTTAA
1 TTTTAATTTAA
34372475 -TTTAATTTAA
1 TTTTAATTTAA
34372485 TTTT
1 TTTT
34372489 TATGTTTATG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 10 0.43
11 13 0.57
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (11 bp):
TTTTAATTTAA
Found at i:34372528 original size:26 final size:24
Alignment explanation
Indices: 34372484--34372538 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 24
34372474 ATTTAATTTA
34372484 ATTTTTATGTTTATGTTTATTTCT
1 ATTTTTATGTTTATGTTTATTTCT
*
34372508 ATTTTTAGTTGTTT-TGTTTTATTTTT
1 ATTTTTA--TGTTTATG-TTTATTTCT
34372534 ATTTT
1 ATTTT
34372539 CTTGTACTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 7 0.26
25 2 0.07
26 18 0.67
ACGTcount: A:0.15, C:0.02, G:0.09, T:0.75
Consensus pattern (24 bp):
ATTTTTATGTTTATGTTTATTTCT
Found at i:34374412 original size:10 final size:9
Alignment explanation
Indices: 34374391--34374460 Score: 63
Period size: 9 Copynumber: 7.6 Consensus size: 9
34374381 TTTTTAACAA
*
34374391 TTTTACAAT
1 TTTTATAAT
34374400 TTTTATAAT
1 TTTTATAAT
34374409 TTTTAGTAA-
1 TTTTA-TAAT
*
34374418 TTTTACAAT
1 TTTTATAAT
34374427 TTTTA-ATAT
1 TTTTATA-AT
*
34374436 TTTTAAATAT
1 TTTTATA-AT
34374446 TTGTTATAAT
1 TT-TTATAAT
34374456 TTTTA
1 TTTTA
34374461 ATTTTAAAAT
Statistics
Matches: 53, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
8 3 0.06
9 33 0.62
10 13 0.25
11 4 0.08
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (9 bp):
TTTTATAAT
Found at i:34374412 original size:18 final size:18
Alignment explanation
Indices: 34374381--34374460 Score: 67
Period size: 18 Copynumber: 4.3 Consensus size: 18
34374371 ATTGTTAATG
*
34374381 TTTTTAACAA-TTTTACAA
1 TTTTT-ACAATTTTTATAA
*
34374399 TTTTTATAATTTTTAGTAA
1 TTTTTACAATTTTTA-TAA
34374418 -TTTTACAATTTTTA-ATA
1 TTTTTACAATTTTTATA-A
*
34374435 TTTTTAAATATTTGTTATAA
1 TTTTTACA-ATTT-TTATAA
34374455 TTTTTA
1 TTTTTA
34374461 ATTTTAAAAT
Statistics
Matches: 51, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
16 1 0.02
17 4 0.08
18 29 0.57
19 6 0.12
20 10 0.20
21 1 0.02
ACGTcount: A:0.34, C:0.04, G:0.03, T:0.60
Consensus pattern (18 bp):
TTTTTACAATTTTTATAA
Found at i:34374430 original size:9 final size:9
Alignment explanation
Indices: 34374381--34374460 Score: 58
Period size: 9 Copynumber: 8.7 Consensus size: 9
34374371 ATTGTTAATG
34374381 TTTTTAACAA
1 TTTTT-ACAA
34374391 -TTTTACAA
1 TTTTTACAA
*
34374399 TTTTTATAA
1 TTTTTACAA
*
34374408 TTTTTAGTAA
1 TTTTTA-CAA
34374418 -TTTTACAA
1 TTTTTACAA
34374426 TTTTTA-ATA
1 TTTTTACA-A
*
34374435 TTTTTAAATA
1 TTTTTACA-A
*
34374445 TTTGTTATAA
1 TTT-TTACAA
34374455 TTTTTA
1 TTTTTA
34374461 ATTTTAAAAT
Statistics
Matches: 61, Mismatches: 3, Indels: 13
0.79 0.04 0.17
Matches are distributed among these distances:
8 7 0.11
9 37 0.61
10 13 0.21
11 4 0.07
ACGTcount: A:0.34, C:0.04, G:0.03, T:0.60
Consensus pattern (9 bp):
TTTTTACAA
Found at i:34374447 original size:27 final size:27
Alignment explanation
Indices: 34374364--34374462 Score: 87
Period size: 27 Copynumber: 3.6 Consensus size: 27
34374354 ATTTTTTTTA
* *
34374364 TTTACAAATTGTTAATGTTTTTAACA-AT
1 TTTAC-AATTTTTAATATTTTTAA-ATAT
*
34374392 TTTACAATTTTT-ATAATTTTT-AGTAAT
1 TTTACAATTTTTAAT-ATTTTTAAAT-AT
34374419 TTTACAATTTTTAATATTTTTAAATATT
1 TTTACAATTTTTAATATTTTTAAATA-T
*
34374447 TGTTATAATTTTTAAT
1 T-TTACAATTTTTAAT
34374463 TTTAAAATAA
Statistics
Matches: 59, Mismatches: 5, Indels: 13
0.77 0.06 0.17
Matches are distributed among these distances:
26 3 0.05
27 32 0.54
28 11 0.19
29 13 0.22
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.58
Consensus pattern (27 bp):
TTTACAATTTTTAATATTTTTAAATAT
Found at i:34374609 original size:19 final size:22
Alignment explanation
Indices: 34374585--34374635 Score: 63
Period size: 19 Copynumber: 2.5 Consensus size: 22
34374575 ACATACCACA
34374585 TCATCAGTCAAGTG-T-CA-TT
1 TCATCAGTCAAGTGATACATTT
* *
34374604 TCATCAGTGACGTGATACATTT
1 TCATCAGTCAAGTGATACATTT
34374626 TCATCAGTCA
1 TCATCAGTCA
34374636 GCATTTTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
19 12 0.46
20 1 0.04
21 2 0.08
22 11 0.42
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (22 bp):
TCATCAGTCAAGTGATACATTT
Found at i:34376364 original size:9 final size:8
Alignment explanation
Indices: 34376346--34376392 Score: 51
Period size: 8 Copynumber: 5.9 Consensus size: 8
34376336 ACATCTTTAT
34376346 TTTTTCTC
1 TTTTTCTC
34376354 TTTTTCATC
1 TTTTTC-TC
34376363 TTTTTCTC
1 TTTTTCTC
*
34376371 TTCTTCT-
1 TTTTTCTC
*
34376378 TTTTTTTC
1 TTTTTCTC
*
34376386 TTCTTCT
1 TTTTTCT
34376393 ACTACTCTGG
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
7 5 0.16
8 19 0.59
9 8 0.25
ACGTcount: A:0.02, C:0.23, G:0.00, T:0.74
Consensus pattern (8 bp):
TTTTTCTC
Done.