Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 213 of 292
Found at i:62772559 original size:20 final size:20
Alignment explanation
Indices: 62772534--62772571 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
62772524 TATTTTGTGT
62772534 AATTACATAAAATATTACTA
1 AATTACATAAAATATTACTA
*
62772554 AATTACATAAATTATTAC
1 AATTACATAAAATATTAC
62772572 AACATTTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.37
Consensus pattern (20 bp):
AATTACATAAAATATTACTA
Found at i:62772600 original size:59 final size:58
Alignment explanation
Indices: 62772483--62772632 Score: 158
Period size: 59 Copynumber: 2.5 Consensus size: 58
62772473 TATTTAAAAA
* * ** * * * *
62772483 AAAATATTTCTCAATTACATAAATTATTATAATTTTTGTGATATTTTGTGTAATTACAT
1 AAAATATTACT-AATTACATAAATTATTACAACATTTATGATATTATGTATAAATACAT
*
62772542 AAAATATTACTAAATTACATAAATTATTACAACATTTAT-AGTGTTATGTATAAATACAT
1 AAAATATTACT-AATTACATAAATTATTACAACATTTATGA-TATTATGTATAAATACAT
* *
62772601 AAAATATTATCTAATTACACAAATTACTACAA
1 AAAATATTA-CTAATTACATAAATTATTACAA
62772633 ATCTAATATT
Statistics
Matches: 77, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
58 1 0.01
59 74 0.96
60 2 0.03
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.41
Consensus pattern (58 bp):
AAAATATTACTAATTACATAAATTATTACAACATTTATGATATTATGTATAAATACAT
Found at i:62774477 original size:25 final size:25
Alignment explanation
Indices: 62774449--62774499 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 25
62774439 GGTTTTGTCA
62774449 ATAG-TTTAATGGTTTTATGTT-GTTC
1 ATAGCTTT-ATGGTTTTAT-TTGGTTC
*
62774474 ATAGCTTTGTGGTTTTATTTGGTTC
1 ATAGCTTTATGGTTTTATTTGGTTC
62774499 A
1 A
62774500 CATTTTTCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
24 2 0.09
25 18 0.78
26 3 0.13
ACGTcount: A:0.18, C:0.06, G:0.22, T:0.55
Consensus pattern (25 bp):
ATAGCTTTATGGTTTTATTTGGTTC
Found at i:62775420 original size:19 final size:20
Alignment explanation
Indices: 62775383--62775419 Score: 51
Period size: 18 Copynumber: 1.9 Consensus size: 20
62775373 AAAATATTGT
*
62775383 AAAAAGTTATTAAAATTTTC
1 AAAAAGTTAGTAAAATTTTC
62775403 AAAAA-TTAGT-AAATTTT
1 AAAAAGTTAGTAAAATTTT
62775420 TTTGTATCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 7 0.44
19 4 0.25
20 5 0.31
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (20 bp):
AAAAAGTTAGTAAAATTTTC
Found at i:62775533 original size:20 final size:20
Alignment explanation
Indices: 62775503--62775563 Score: 68
Period size: 20 Copynumber: 2.9 Consensus size: 20
62775493 GTTAAAATAT
*
62775503 AATCAACTTTTTAATTTTTA
1 AATCAAATTTTTAATTTTTA
*
62775523 CATCAAATTTTTAATATTTTA
1 AATCAAATTTTTAAT-TTTTA
62775544 AATACATAAATTTTTAATTT
1 AAT-C--AAATTTTTAATTT
62775564 GTTCTAGTGT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
20 13 0.38
21 7 0.21
22 1 0.03
23 2 0.06
24 11 0.32
ACGTcount: A:0.39, C:0.08, G:0.00, T:0.52
Consensus pattern (20 bp):
AATCAAATTTTTAATTTTTA
Found at i:62776046 original size:20 final size:20
Alignment explanation
Indices: 62776010--62776049 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
62776000 AAAAATCTTA
*
62776010 TTTTATTTTAATTTTAAATT
1 TTTTATTTTAATATTAAATT
62776030 TTTTAATTTT-ATATTAAATT
1 TTTT-ATTTTAATATTAAATT
62776050 AATTTAGGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTTATTTTAATATTAAATT
Found at i:62780118 original size:17 final size:17
Alignment explanation
Indices: 62780093--62780127 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
62780083 ACCAGATGTT
*
62780093 AGAACGTTTAGTTGGGA
1 AGAACGTTTAGCTGGGA
*
62780110 AGAATGTTTAGCTGGGA
1 AGAACGTTTAGCTGGGA
62780127 A
1 A
62780128 ATCTTATTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.31, C:0.06, G:0.34, T:0.29
Consensus pattern (17 bp):
AGAACGTTTAGCTGGGA
Found at i:62785501 original size:20 final size:20
Alignment explanation
Indices: 62785473--62785511 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
62785463 TGTTTTTGTA
62785473 CATTATTATAAATATATATG
1 CATTATTATAAATATATATG
*
62785493 CATTTTTATAAATATATAT
1 CATTATTATAAATATATAT
62785512 ATACTTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.49
Consensus pattern (20 bp):
CATTATTATAAATATATATG
Found at i:62786047 original size:2 final size:2
Alignment explanation
Indices: 62786040--62786074 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
62786030 TTTTAATGAT
62786040 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
62786075 CTAGTTTGTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:62788625 original size:4 final size:4
Alignment explanation
Indices: 62788616--62788653 Score: 51
Period size: 4 Copynumber: 9.2 Consensus size: 4
62788606 TTGCTTGTAC
62788616 ATAA ATAA ATAA ATAAA ATGAA A-AA ATAA ATAA ATAA A
1 ATAA ATAA ATAA AT-AA AT-AA ATAA ATAA ATAA ATAA A
62788654 GGCTCAAGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
3 3 0.10
4 21 0.68
5 7 0.23
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (4 bp):
ATAA
Found at i:62788823 original size:15 final size:16
Alignment explanation
Indices: 62788805--62788841 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
62788795 CAAAAAAATG
*
62788805 AAAAATAAA-AATAA-
1 AAAAAAAAACAATAAC
62788819 AAAAAAAAACAATAAC
1 AAAAAAAAACAATAAC
62788835 AAAAAAA
1 AAAAAAA
62788842 CTATTGGAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 8 0.40
15 5 0.25
16 7 0.35
ACGTcount: A:0.86, C:0.05, G:0.00, T:0.08
Consensus pattern (16 bp):
AAAAAAAAACAATAAC
Found at i:62793316 original size:18 final size:18
Alignment explanation
Indices: 62793275--62793309 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
62793265 GTACTAGGTA
*
62793275 GATAAAAATGAATACTAC
1 GATAAAAATGAATAATAC
62793293 GATAAAAA-GAATAATAC
1 GATAAAAATGAATAATAC
62793310 ATATAAAGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.60, C:0.09, G:0.11, T:0.20
Consensus pattern (18 bp):
GATAAAAATGAATAATAC
Found at i:62793500 original size:3 final size:3
Alignment explanation
Indices: 62793492--62793525 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
62793482 AATATAACAT
62793492 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
62793526 CATTTAACAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:62793647 original size:7 final size:7
Alignment explanation
Indices: 62793635--62793689 Score: 53
Period size: 7 Copynumber: 8.1 Consensus size: 7
62793625 AAATAGTATT
62793635 TAATATA
1 TAATATA
62793642 TAATATA
1 TAATATA
62793649 TAATATA
1 TAATATA
62793656 TAATA-A
1 TAATATA
* *
62793662 CAAGA-A
1 TAATATA
62793668 TAATA-A
1 TAATATA
*
62793674 TTATATGA
1 TAATAT-A
62793682 TAATATA
1 TAATATA
62793689 T
1 T
62793690 TGGTTAAAGA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
6 13 0.32
7 21 0.52
8 6 0.15
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (7 bp):
TAATATA
Found at i:62793784 original size:19 final size:18
Alignment explanation
Indices: 62793744--62793782 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
62793734 TTTTAAAATG
*
62793744 AAATAATATATAATAGAT
1 AAATAATAAATAATAGAT
62793762 AAATAAATAAATAATA-AT
1 AAAT-AATAAATAATAGAT
62793780 AAA
1 AAA
62793783 ATGTGTATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (18 bp):
AAATAATAAATAATAGAT
Found at i:62793945 original size:24 final size:24
Alignment explanation
Indices: 62793895--62793948 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
62793885 TATAATATTT
*
62793895 ATAAAAATAATAAGTGGTATAGAA
1 ATAAAAATAATAAATGGTATAGAA
* *
62793919 ATAAAACATAATAAATGTTATA-TA
1 ATAAAA-ATAATAAATGGTATAGAA
62793943 ATAAAA
1 ATAAAA
62793949 TATATAGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 13 0.50
25 13 0.50
ACGTcount: A:0.61, C:0.02, G:0.09, T:0.28
Consensus pattern (24 bp):
ATAAAAATAATAAATGGTATAGAA
Found at i:62794038 original size:28 final size:28
Alignment explanation
Indices: 62793998--62794085 Score: 81
Period size: 28 Copynumber: 3.0 Consensus size: 28
62793988 AATGAAAGTT
* *
62793998 TAAATGTAAAATAATGTATAAATAATAA
1 TAAATATATAATAATGTATAAATAATAA
62794026 TAAATATATAATATATGTGA-AAAT-ATAA
1 TAAATATATAATA-ATGT-ATAAATAATAA
* *
62794054 CAATATATATAAAAATGATATAAAATAATAA
1 TAA-ATATATAATAATG-TAT-AAATAATAA
62794085 T
1 T
62794086 TTGAGAAAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
28 21 0.44
29 18 0.38
30 5 0.10
31 4 0.08
ACGTcount: A:0.60, C:0.01, G:0.06, T:0.33
Consensus pattern (28 bp):
TAAATATATAATAATGTATAAATAATAA
Found at i:62794068 original size:20 final size:19
Alignment explanation
Indices: 62794022--62794069 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
62794012 TGTATAAATA
*
62794022 ATAATAAATATATAATATAT
1 ATAA-AAATATACAATATAT
* *
62794042 GTGAAAATATAACAATATAT
1 ATAAAAATAT-ACAATATAT
62794062 ATAAAAAT
1 ATAAAAAT
62794070 GATATAAAAT
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.33
Consensus pattern (19 bp):
ATAAAAATATACAATATAT
Found at i:62795835 original size:83 final size:82
Alignment explanation
Indices: 62795710--62795891 Score: 224
Period size: 83 Copynumber: 2.2 Consensus size: 82
62795700 GATTTGTGGG
* * *
62795710 GATGCCAAATCAACTTGAGTCTGTTTTGAGAACATCAGAGAGTCAAATCTGCTACGTCCTTGATT
1 GATGCCAAATCATCTTGAGTCTGTTTTGAGAACATCAGAGAGTCAAATCTGCAACGTCCTCGATT
62795775 TG-TTCTTTGTAAGCACAAA
66 TGTTTC-TTGTAA--ACAAA
* ** * * *
62795794 GATGCCAAACCATCTTGAGTCTG-TTTGAGAACATTTGAGAGTCATATCTGCAATGTTCTCGATT
1 GATGCCAAATCATCTTGAGTCTGTTTTGAGAACATCAGAGAGTCAAATCTGCAACGTCCTCGATT
62795858 TGTTTCTTGTAAACAAA
66 TGTTTCTTGTAAACAAA
* *
62795875 AATACCAAATCATCTTG
1 GATGCCAAATCATCTTG
62795892 GATCTGCTTC
Statistics
Matches: 85, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
81 19 0.22
83 42 0.49
84 24 0.28
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.34
Consensus pattern (82 bp):
GATGCCAAATCATCTTGAGTCTGTTTTGAGAACATCAGAGAGTCAAATCTGCAACGTCCTCGATT
TGTTTCTTGTAAACAAA
Found at i:62796231 original size:118 final size:119
Alignment explanation
Indices: 62795819--62796283 Score: 760
Period size: 119 Copynumber: 3.9 Consensus size: 119
62795809 TGAGTCTGTT
* * * *
62795819 TGAGAACATTTGAGAGTCATATCTGCAATGTTCTCGATTTGTTTCTTGTAAACA-AA-AATACCA
1 TGAGAACATTTGAGAGTCAAATCTACTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCA
62795882 AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGAT-TAGATCCGCTATATC
66 AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAG-TCTAGATCCGCTATATC
62795936 TGAGAACATTTGAGAGTCAAATCTACTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCA
1 TGAGAACATTTGAGAGTCAAATCTACTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCA
* ** *
62796001 AATCATCTTGGATCTGCTTCAATATAAATGTCTGAAGTCTAGATCTGCTATATC
66 AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGTCTAGATCCGCTATATC
62796055 TGAGAACATTTGAGAGTCAAATCTACTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCA
1 TGAGAACATTTGAGAGTCAAATCTACTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCA
62796120 AATCATCTTGGATCTG-TTCAGTATAAACATCTGAAGAT-TAGATCCGCTATATC
66 AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAG-TCTAGATCCGCTATATC
*
62796173 TGAGAACATCTGAGAGTCAAATCTACTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCA
1 TGAGAACATTTGAGAGTCAAATCTACTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCA
* * *
62796238 AATCATCTTAGAATCTGCTTCAGCATAAATATCTGAAGTCTAGATC
66 AATCATCTT-GGATCTGCTTCAGTATAAACATCTGAAGTCTAGATC
62796284 TGCTGTCTTC
Statistics
Matches: 325, Mismatches: 16, Indels: 11
0.92 0.05 0.03
Matches are distributed among these distances:
117 50 0.15
118 107 0.33
119 144 0.44
120 24 0.07
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Consensus pattern (119 bp):
TGAGAACATTTGAGAGTCAAATCTACTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCA
AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGTCTAGATCCGCTATATC
Found at i:62796233 original size:237 final size:237
Alignment explanation
Indices: 62795819--62796287 Score: 825
Period size: 237 Copynumber: 2.0 Consensus size: 237
62795809 TGAGTCTGTT
* * *
62795819 TGAGAACATTTGAGAGTCATATCTGCAATGTTCTCGATTTGTTTCTTGTAAACAAAAATACCAAA
1 TGAGAACATTTGAGAGTCAAATCTACAATGTCCTCGATTTGTTTCTTGTAAACAAAAATACCAAA
*
62795884 TCATCTTGGATCTGCTTCAGTATAAACATCTGAAGATTAGATCCGCTATATCTGAGAACATTTGA
66 TCATCTTGGATCTGCTTCAGTATAAACATCTGAAGATTAGATCCGCTATATCTGAGAACATCTGA
*
62795949 GAGTCAAATCTACTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCAAATCATCTT-GGA
131 GAGTCAAATCTACTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCAAATCATCTTAGAA
* *
62796013 TCTGCTTCAATATAAATGTCTGAAGTCTAGATCTGCTATATC
196 TCTGCTTCAACATAAATATCTGAAGTCTAGATCTGCTATATC
*
62796055 TGAGAACATTTGAGAGTCAAATCTACTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCA
1 TGAGAACATTTGAGAGTCAAATCTACAATGTCCTCGATTTGTTTCTTGTAAACA-AA-AATACCA
62796120 AATCATCTTGGATCTG-TTCAGTATAAACATCTGAAGATTAGATCCGCTATATCTGAGAACATCT
64 AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGATTAGATCCGCTATATCTGAGAACATCT
62796184 GAGAGTCAAATCTACTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCAAATCATCTTAG
129 GAGAGTCAAATCTACTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCAAATCATCTTAG
*
62796249 AATCTGCTTCAGCATAAATATCTGAAGTCTAGATCTGCT
194 AATCTGCTTCAACATAAATATCTGAAGTCTAGATCTGCT
62796288 GTCTTCAATT
Statistics
Matches: 221, Mismatches: 9, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
236 50 0.23
237 112 0.51
238 59 0.27
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Consensus pattern (237 bp):
TGAGAACATTTGAGAGTCAAATCTACAATGTCCTCGATTTGTTTCTTGTAAACAAAAATACCAAA
TCATCTTGGATCTGCTTCAGTATAAACATCTGAAGATTAGATCCGCTATATCTGAGAACATCTGA
GAGTCAAATCTACTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCAAATCATCTTAGAA
TCTGCTTCAACATAAATATCTGAAGTCTAGATCTGCTATATC
Found at i:62804996 original size:93 final size:93
Alignment explanation
Indices: 62804884--62805055 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
62804874 GCCCATAAGT
* * *
62804884 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTTGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
62804949 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
62804977 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
62805042 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
62805056 CAAATATCCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:62805051 original size:46 final size:46
Alignment explanation
Indices: 62804876--62805051 Score: 223
Period size: 46 Copynumber: 3.8 Consensus size: 46
62804866 TGTAACCCGC
* * *
62804876 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* * *
62804922 CCATAAGTGAACTTGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
62804972 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
62805015 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
62805052 TGCCCAAATA
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 67 0.61
47 31 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:62810505 original size:18 final size:18
Alignment explanation
Indices: 62810464--62810498 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
62810454 GTACTAGGTA
*
62810464 GATAAAAATGAATACTAC
1 GATAAAAATGAATAATAC
62810482 GATAAAAA-GAATAATAC
1 GATAAAAATGAATAATAC
62810499 ATATAAAGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.60, C:0.09, G:0.11, T:0.20
Consensus pattern (18 bp):
GATAAAAATGAATAATAC
Found at i:62810570 original size:2 final size:2
Alignment explanation
Indices: 62810526--62810562 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
62810516 GCAAACAAAG
62810526 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
62810563 GCATATATTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:62810848 original size:7 final size:7
Alignment explanation
Indices: 62810836--62810861 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
62810826 AAATAGTATT
62810836 TAATATA
1 TAATATA
62810843 TAATATA
1 TAATATA
62810850 TAATATA
1 TAATATA
62810857 TAATA
1 TAATA
62810862 ACAAGAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
TAATATA
Found at i:62810985 original size:19 final size:18
Alignment explanation
Indices: 62810945--62810983 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
62810935 TTTTAAAATG
*
62810945 AAATAATATATAATAGAT
1 AAATAATAAATAATAGAT
62810963 AAATAAATAAATAATA-AT
1 AAAT-AATAAATAATAGAT
62810981 AAA
1 AAA
62810984 ATGTGTATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (18 bp):
AAATAATAAATAATAGAT
Found at i:62811146 original size:24 final size:24
Alignment explanation
Indices: 62811096--62811149 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
62811086 TATAATATTT
*
62811096 ATAAAAATAATAAGTGGTATAGAA
1 ATAAAAATAATAAATGGTATAGAA
* *
62811120 ATAAAACATAATAAATGTTATA-TA
1 ATAAAA-ATAATAAATGGTATAGAA
62811144 ATAAAA
1 ATAAAA
62811150 TATATAGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 13 0.50
25 13 0.50
ACGTcount: A:0.61, C:0.02, G:0.09, T:0.28
Consensus pattern (24 bp):
ATAAAAATAATAAATGGTATAGAA
Found at i:62811266 original size:47 final size:44
Alignment explanation
Indices: 62811215--62811315 Score: 102
Period size: 47 Copynumber: 2.2 Consensus size: 44
62811205 TAAAATAATG
*
62811215 TATAAATAATA-AT-AAATATATAATATATGTGAAAATATAACAATATA
1 TATAAATAATATATAAAATA-ATAAT-T-TGAGAAAA-ATAACAA-ATA
*
62811262 TATAAAAAATGATATAAAATAATAATTTGAGAAAAATAACAAATA
1 TATAAATAAT-ATATAAAATAATAATTTGAGAAAAATAACAAATA
62811307 -AT-AATAATA
1 TATAAATAATA
62811316 CACATAATAA
Statistics
Matches: 48, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
42 1 0.02
43 5 0.10
44 2 0.04
45 3 0.06
46 7 0.15
47 16 0.33
48 2 0.04
49 7 0.15
50 5 0.10
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (44 bp):
TATAAATAATATATAAAATAATAATTTGAGAAAAATAACAAATA
Found at i:62811401 original size:2 final size:2
Alignment explanation
Indices: 62811394--62811426 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
62811384 AAAACAAATA
62811394 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
62811427 GGATAATAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:62814224 original size:18 final size:20
Alignment explanation
Indices: 62814201--62814238 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
62814191 CTTCTTACAC
62814201 AAACT-CAAAT-ACACCATT
1 AAACTCCAAATGACACCATT
*
62814219 AAACTCCCAATGACACCATT
1 AAACTCCAAATGACACCATT
62814239 TTGTCAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 4 0.24
20 8 0.47
ACGTcount: A:0.45, C:0.32, G:0.03, T:0.21
Consensus pattern (20 bp):
AAACTCCAAATGACACCATT
Found at i:62815926 original size:22 final size:22
Alignment explanation
Indices: 62815899--62815942 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
62815889 TTAACCAAAT
*
62815899 AAATTGATAAATATAAAGATTA
1 AAATTGATAAATATAAAAATTA
62815921 AAATTGATAAATATAAAAATTA
1 AAATTGATAAATATAAAAATTA
62815943 TAAAAACTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.32
Consensus pattern (22 bp):
AAATTGATAAATATAAAAATTA
Found at i:62820268 original size:132 final size:130
Alignment explanation
Indices: 62819905--62820280 Score: 468
Period size: 132 Copynumber: 2.9 Consensus size: 130
62819895 TAAGAATTCT
* * * *
62819905 TTAAAACGAAGGTAATATTCGATATTTGGCAATTCGCGGAATCGTGCCCTAACGTG-TTGCTTGT
1 TTAAAACGAAGGTAATATTCGATATTTGGCAATTCGCGGAATCGTGCCCTATCGTGCTAGGTTGC
* * *
62819969 AATTTCTCGTTTGCTCAAAGTAATCGAAGGTTCCTTTAGAATTTCACCCATGTCTTTAAAAAATC
66 AATTTCTCGTTTGTTCAAAATAATCGAAGGTTCCTTTAGAATTTCACTCATGTCTTTAAAAAAT-
62820034 C
130 C
* ** * *
62820035 TTTAAACGAAGGCGATGTTCGATATTTGGCGATTCGCGGAATCGTGCCCTATCGTGCTAGGTTGC
1 TTAAAACGAAGGTAATATTCGATATTTGGCAATTCGCGGAATCGTGCCCTATCGTGCTAGGTTGC
* * * *
62820100 AATTTCTCGATTGTTCAAAATAATCGAAGGTCCCTTTTGAATTGCACTCATGTCTTTAAAAAACT
66 AATTTCTCGTTTGTTCAAAATAATCGAAGGTTCCTTTAGAATTTCACTCATGTCTTTAAAAAA-T
62820165 C
130 C
* * * * * *
62820166 TTCAAAACGAAGGTAATACTCGATGTTTGGCAATTCGGGGAATCATGCCTTATCGTGCTGGGTTG
1 TT-AAAACGAAGGTAATATTCGATATTTGGCAATTCGCGGAATCGTGCCCTATCGTGCTAGGTTG
* ** *
62820231 CGATTTC-CTGTTTGTTCAAAATAATCGAATATTCCTTTGGAATTTCACTC
65 CAATTTCTC-GTTTGTTCAAAATAATCGAAGGTTCCTTTAGAATTTCACTC
62820281 GTGCTTCCTA
Statistics
Matches: 208, Mismatches: 34, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
130 50 0.24
131 65 0.31
132 93 0.45
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.35
Consensus pattern (130 bp):
TTAAAACGAAGGTAATATTCGATATTTGGCAATTCGCGGAATCGTGCCCTATCGTGCTAGGTTGC
AATTTCTCGTTTGTTCAAAATAATCGAAGGTTCCTTTAGAATTTCACTCATGTCTTTAAAAAATC
Found at i:62827594 original size:3 final size:3
Alignment explanation
Indices: 62827579--62827615 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
62827569 ATAAAAGATG
* *
62827579 ATA ATA ATG ATA ATA ATA ATA ATA GTA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
62827616 AAAGTGAGAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:62827973 original size:26 final size:24
Alignment explanation
Indices: 62827944--62827993 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
62827934 AGTATAAAAG
*
62827944 ACATAACTAAAAATATTACAATATAT
1 ACATAA-TAAAAATAATA-AATATAT
*
62827970 ACATAATAACAATAATAAATATAT
1 ACATAATAAAAATAATAAATATAT
62827994 GTAAAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 7 0.32
25 9 0.41
26 6 0.27
ACGTcount: A:0.60, C:0.10, G:0.00, T:0.30
Consensus pattern (24 bp):
ACATAATAAAAATAATAAATATAT
Found at i:62828035 original size:2 final size:2
Alignment explanation
Indices: 62828028--62828052 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
62828018 CACATATAAA
62828028 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
62828053 CATAATACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:62828268 original size:31 final size:29
Alignment explanation
Indices: 62828232--62828298 Score: 82
Period size: 31 Copynumber: 2.3 Consensus size: 29
62828222 ATGTACACGA
* *
62828232 TATAATATATAAAAATATATATATATATATG
1 TATAATATATAAAAACATACATA-ATA-ATG
*
62828263 TATAATATTTAAAAACATACATAATAATG
1 TATAATATATAAAAACATACATAATAATG
62828292 T-TAATAT
1 TATAATAT
62828299 GTATATACAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
28 6 0.18
29 4 0.12
30 3 0.09
31 20 0.61
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (29 bp):
TATAATATATAAAAACATACATAATAATG
Found at i:62828458 original size:7 final size:7
Alignment explanation
Indices: 62828446--62828483 Score: 55
Period size: 7 Copynumber: 5.9 Consensus size: 7
62828436 ATACCAATGC
62828446 TAATAAA
1 TAATAAA
62828453 TAATAAA
1 TAATAAA
62828460 TAATAAA
1 TAATAAA
62828467 T-AT-AA
1 TAATAAA
62828472 TAAT-AA
1 TAATAAA
62828478 TAATAA
1 TAATAA
62828484 TAAACTATAG
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 3 0.10
6 10 0.34
7 16 0.55
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (7 bp):
TAATAAA
Found at i:62828473 original size:9 final size:10
Alignment explanation
Indices: 62828451--62828487 Score: 51
Period size: 9 Copynumber: 3.9 Consensus size: 10
62828441 AATGCTAATA
62828451 AATAATAAAT
1 AATAATAAAT
*
62828461 AATAA-ATAT
1 AATAATAAAT
62828470 AATAAT-AAT
1 AATAATAAAT
62828479 AATAATAAA
1 AATAATAAA
62828488 CTATAGTAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
9 16 0.70
10 7 0.30
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (10 bp):
AATAATAAAT
Found at i:62828476 original size:22 final size:23
Alignment explanation
Indices: 62828446--62828502 Score: 73
Period size: 22 Copynumber: 2.5 Consensus size: 23
62828436 ATACCAATGC
62828446 TAATAAATAATAAATAATAAA-TA
1 TAAT-AATAATAAATAATAAACTA
62828469 TAATAATAAT-AATAATAAACTA
1 TAATAATAATAAATAATAAACTA
* *
62828491 TAGTAGTAATAA
1 TAATAATAATAA
62828503 CGATAATGGT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 9 0.30
22 16 0.53
23 5 0.17
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.32
Consensus pattern (23 bp):
TAATAATAATAAATAATAAACTA
Found at i:62835376 original size:132 final size:133
Alignment explanation
Indices: 62835134--62835412 Score: 391
Period size: 132 Copynumber: 2.1 Consensus size: 133
62835124 GTGAATTCTA
* * * * * *
62835134 CAGAACTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGACGGTGGATCTTGTCTTCCTGAAG
1 CAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCAAAGACGGCGAATCTAGTCTTCCTGAAA
* *
62835199 TTGCAGTGAAGCAGATTTAAGCCACCACCCTAGGTCCCTAAAGTTGTAATGGAGTAGGCTCAA-A
66 TTGCAGTGAAGCAGATTTAAACCACCACCCTAGCTCCCTAAAGTTGTAATGGAGTAGGCTCAAGA
62835263 TTG
131 TTG
* * *
62835266 CAGATCTTGTTTCCCTGAAGTTGCAGTGGAGCAGATCAAAGACGGCGAATCTAGTCTTCTTGAAA
1 CAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCAAAGACGGCGAATCTAGTCTTCCTGAAA
* * * *
62835331 TTGCAGTGAAGCA-AGTTTAAACCACCATCCTATCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAG
66 TTGCAGTGAAGCAGA-TTTAAACCACCACCCTAGCTCCCTAAAGTTGTAATGGAGTAGGCTCAAG
62835395 ATTG
130 ATTG
*
62835399 CAGATCTCGTCTCC
1 CAGATCTTGTCTCC
62835413 AGTGGAGCAG
Statistics
Matches: 128, Mismatches: 17, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
131 1 0.01
132 111 0.87
133 16 0.12
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (133 bp):
CAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCAAAGACGGCGAATCTAGTCTTCCTGAAA
TTGCAGTGAAGCAGATTTAAACCACCACCCTAGCTCCCTAAAGTTGTAATGGAGTAGGCTCAAGA
TTG
Found at i:62838480 original size:131 final size:131
Alignment explanation
Indices: 62838306--62838683 Score: 463
Period size: 131 Copynumber: 2.9 Consensus size: 131
62838296 ATTTAAGAAT
* * * *
62838306 TCTTTAAAACGAATGCGATATTCGATATTTGGCAATTCACGGAATCGTGCCCTAACGTGTTGGGT
1 TCTTT-AAACGAAGGCGATATTCGATATTTGGCAATTCGCGGAATCGTGCCCTATCGTGCTGGGT
* * *
62838371 TACAATTTCTCGTTTGCTCAAAGTAATCGAAGGTCCCTTTAGAATTTCACCCATGTCTTTAAAAA
65 TGCAATTTCTCGTTTGTTCAAAATAATCGAAGGTCCCTTTAGAATTTCACCCATGTCTTTAAAAA
62838436 A-
130 AC
* * *
62838437 TCCTTTAAACGAAGGCGATGTTCGATATTTGGCGATTCGCGGAATCGTGCCCTATCGTGCTAGGT
1 T-CTTTAAACGAAGGCGATATTCGATATTTGGCAATTCGCGGAATCGTGCCCTATCGTGCTGGGT
* * * *
62838502 TGCAATTTCTCGATTGTTCAAAATAATCGAAGGTCCCTTTTGAATTGCACTCATGTCTTTAAAAA
65 TGCAATTTCTCGTTTGTTCAAAATAATCGAAGGTCCCTTTAGAATTTCACCCATGTCTTTAAAAA
62838567 AC
130 AC
* ** * * * * *
62838569 TCTTCAAAACGAAGGTAATACTCGATGTTTGGCAATTCGGGGAATCATGCCTTATCGTGCTGGGT
1 TCTT-TAAACGAAGGCGATATTCGATATTTGGCAATTCGCGGAATCGTGCCCTATCGTGCTGGGT
* ** * *
62838634 TGCGATTTC-CTGTTTGTTCAAAATAATCGAATATTCCTTTGGAATTTCAC
65 TGCAATTTCTC-GTTTGTTCAAAATAATCGAAGGTCCCTTTAGAATTTCAC
62838684 TCGTGCTTCC
Statistics
Matches: 211, Mismatches: 32, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
131 116 0.55
132 95 0.45
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.34
Consensus pattern (131 bp):
TCTTTAAACGAAGGCGATATTCGATATTTGGCAATTCGCGGAATCGTGCCCTATCGTGCTGGGTT
GCAATTTCTCGTTTGTTCAAAATAATCGAAGGTCCCTTTAGAATTTCACCCATGTCTTTAAAAAA
C
Found at i:62846266 original size:181 final size:176
Alignment explanation
Indices: 62845944--62846266 Score: 448
Period size: 176 Copynumber: 1.8 Consensus size: 176
62845934 AAAATGATTG
* * * * *
62845944 AACAACCTATGCATCACAAAGGCCCGGGCCTAGGAGAAGTGAAAACTCCAAAAGAATGAATAATA
1 AACAACCTATGCATCACAAAGACCAGGGCATAGGAGAAGTGAAAACTCCAAAAGAACGAAAAATA
**
62846009 ACAAATAACATTGCAGTTTAGACAACATAAGAAAGTTTGGAACAACCTCAGACATTTTCCATTTT
66 ACAAATAACATTGCAGTTTAGACAACATAAGAAAGCCTGGAACAACCTCAGACATTTTCCATTTT
*
62846074 AATCTTTTGACTCATCCTGAAGAGGTTCAGACAATGAGCAATGGCA
131 AATCATTTGACTCATCCTGAAGAGGTTCAGACAATGAGCAATGGCA
* * *
62846120 AACAACCTATGCTTCACAAAGACTAGGGCATAGGAGAAGTGAAAACTTCAAAAGAACGAAAAATA
1 AACAACCTATGCATCACAAAGACCAGGGCATAGGAGAAGTGAAAACTCCAAAAGAACGAAAAATA
* * * ** *
62846185 TTGCAAATGATATTGCAGTTGTTTAGACAACATAAGAAAGCCTGGAACAACCTCAGATGTTTTCT
66 --ACAAATAACATTGCA---GTTTAGACAACATAAGAAAGCCTGGAACAACCTCAGACATTTTCC
62846250 ATTTTAATCATTTGACT
126 ATTTTAATCATTTGACT
62846267 AACCTGCCAA
Statistics
Matches: 125, Mismatches: 17, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
176 57 0.46
178 12 0.10
181 56 0.45
ACGTcount: A:0.40, C:0.18, G:0.17, T:0.24
Consensus pattern (176 bp):
AACAACCTATGCATCACAAAGACCAGGGCATAGGAGAAGTGAAAACTCCAAAAGAACGAAAAATA
ACAAATAACATTGCAGTTTAGACAACATAAGAAAGCCTGGAACAACCTCAGACATTTTCCATTTT
AATCATTTGACTCATCCTGAAGAGGTTCAGACAATGAGCAATGGCA
Found at i:62847241 original size:3 final size:3
Alignment explanation
Indices: 62847235--62847287 Score: 52
Period size: 3 Copynumber: 17.7 Consensus size: 3
62847225 TCCTCCTCCG
* * * * * *
62847235 CTT CTT CTT CTT CTT CTT CAT CAT CAT CTA CAT CTT CGT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
62847283 CTT CT
1 CTT CT
62847288 CTCTCGTCGT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.09, C:0.34, G:0.02, T:0.55
Consensus pattern (3 bp):
CTT
Found at i:62847870 original size:22 final size:23
Alignment explanation
Indices: 62847822--62847870 Score: 57
Period size: 21 Copynumber: 2.2 Consensus size: 23
62847812 TTTAACCAAT
* * *
62847822 TTTGACTGAATTAATTTAGTTAA
1 TTTGACTGAATTAACTGAATTAA
62847845 -TTGACTG-ATTAACTGAATTAA
1 TTTGACTGAATTAACTGAATTAA
62847866 TTTGA
1 TTTGA
62847871 TTCAGTTGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.35, C:0.06, G:0.14, T:0.45
Consensus pattern (23 bp):
TTTGACTGAATTAACTGAATTAA
Found at i:62860380 original size:27 final size:27
Alignment explanation
Indices: 62860323--62860380 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 27
62860313 ACTATATTTT
* *
62860323 AAAAGTTAAAATGTTATAAAATTTTAC
1 AAAAGTTAAAATGATATAAAATTATAC
62860350 AAAAGTTAAAAATGAT-TAAAATATATA-
1 AAAAGTT-AAAATGATATAAAAT-TATAC
62860377 AAAA
1 AAAA
62860381 TTAGTTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 17 0.63
28 10 0.37
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.31
Consensus pattern (27 bp):
AAAAGTTAAAATGATATAAAATTATAC
Found at i:62865794 original size:53 final size:51
Alignment explanation
Indices: 62865647--62865806 Score: 196
Period size: 52 Copynumber: 3.1 Consensus size: 51
62865637 TAACGGAAAA
* * *
62865647 GATGTGATATGTGCTTCCGTATAAGACCATAGCTAGGTTATGGCATCGGTAC
1 GATGTGATATGTG-TTCCGTATAAGACCATAGCTGGGATATGGCATCGGTAT
* * *
62865699 AATGTGAT-TCGTGTTCCTGTATAAGACCATAGCTGGGCTATGGCATCGGTGT
1 GATGTGATAT-GTGTTCC-GTATAAGACCATAGCTGGGATATGGCATCGGTAT
* *
62865751 GATGTGATAATGTGATTTCGTATAAGACCATATCTGGGATATGGCATCGGTAT
1 GATGTGAT-ATGTG-TTCCGTATAAGACCATAGCTGGGATATGGCATCGGTAT
62865804 GAT
1 GAT
62865807 ATGTGATCCG
Statistics
Matches: 93, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
51 5 0.05
52 47 0.51
53 37 0.40
54 4 0.04
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.33
Consensus pattern (51 bp):
GATGTGATATGTGTTCCGTATAAGACCATAGCTGGGATATGGCATCGGTAT
Found at i:62870978 original size:65 final size:66
Alignment explanation
Indices: 62870902--62871033 Score: 239
Period size: 66 Copynumber: 2.0 Consensus size: 66
62870892 TAAAAATAAT
*
62870902 TATATAAAGAAATTCAATTTAAA-TTTTTTATCCATATTTTAATTATCGAATTTTTATTTGGTTA
1 TATATAAAGAAATTCAATTTAAAGTTTTTTATCCATATTTTAATTATCAAATTTTTATTTGGTTA
62870966 A
66 A
*
62870967 TATATAAAGAAATTCAATTTAAAGTTTTTTATCCCTATTTTAATTATCAAATTTTTATTTGGTTA
1 TATATAAAGAAATTCAATTTAAAGTTTTTTATCCATATTTTAATTATCAAATTTTTATTTGGTTA
62871032 A
66 A
62871033 T
1 T
62871034 TTAGTCATTC
Statistics
Matches: 64, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
65 23 0.36
66 41 0.64
ACGTcount: A:0.36, C:0.07, G:0.06, T:0.51
Consensus pattern (66 bp):
TATATAAAGAAATTCAATTTAAAGTTTTTTATCCATATTTTAATTATCAAATTTTTATTTGGTTA
A
Found at i:62889953 original size:54 final size:55
Alignment explanation
Indices: 62889839--62889956 Score: 143
Period size: 54 Copynumber: 2.2 Consensus size: 55
62889829 CTTAAACTTT
* *
62889839 TAAGTCAGTATTGTCCACGGGTAGGCCACACGAGCATGTGCCATAGCTGTGTCTA
1 TAAGTCAGTATTGTCCACGGGTAGGCCACACGAGCATGTGCCATAGCCGTGCCTA
* * * *
62889894 TAAGTCAGTATTGTCCAC-GGTAGGCTACACG-GACGTGTGTCATGGCCGTGCCCTA
1 TAAGTCAGTATTGTCCACGGGTAGGCCACACGAG-CATGTGCCATAGCCGTG-CCTA
62889949 -AAGTCAGT
1 TAAGTCAGT
62889957 GTTGCACACG
Statistics
Matches: 55, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
53 1 0.02
54 33 0.60
55 21 0.38
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (55 bp):
TAAGTCAGTATTGTCCACGGGTAGGCCACACGAGCATGTGCCATAGCCGTGCCTA
Found at i:62891971 original size:25 final size:26
Alignment explanation
Indices: 62891929--62892005 Score: 72
Period size: 31 Copynumber: 2.9 Consensus size: 26
62891919 TTAAGCGCCC
*
62891929 ATATAAT-TTTTTA-ATATTTTTTTA
1 ATATAATATTTTTATTTATTTTTTTA
62891953 A-A-AATATTTTTATTTTATTTTATTTTA
1 ATATAATATTTTTA-TTTA-TTT-TTTTA
62891980 ATATTTAATATTTTTATTTATTTTTT
1 ATA--TAATATTTTTATTTATTTTTT
62892006 ATTTATTGAA
Statistics
Matches: 43, Mismatches: 1, Indels: 14
0.74 0.02 0.24
Matches are distributed among these distances:
22 3 0.07
23 7 0.16
24 1 0.02
25 2 0.05
26 3 0.07
27 6 0.14
28 4 0.09
29 3 0.07
30 4 0.09
31 10 0.23
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (26 bp):
ATATAATATTTTTATTTATTTTTTTA
Found at i:62892068 original size:19 final size:19
Alignment explanation
Indices: 62892044--62892082 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
62892034 TTAACATTAC
62892044 TTTAATGTTTATATTAGAG
1 TTTAATGTTTATATTAGAG
62892063 TTTAATGTTTATATTAGAG
1 TTTAATGTTTATATTAGAG
62892082 T
1 T
62892083 AGTATTATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (19 bp):
TTTAATGTTTATATTAGAG
Found at i:62897095 original size:18 final size:20
Alignment explanation
Indices: 62897054--62897090 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
62897044 ATATTTTATG
*
62897054 ATTA-TTTAATTAGATATAT
1 ATTATTTTAATGAGATATAT
62897073 ATTATTTTAATGAGATAT
1 ATTATTTTAATGAGATAT
62897091 TTTATCATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (20 bp):
ATTATTTTAATGAGATATAT
Found at i:62897111 original size:11 final size:11
Alignment explanation
Indices: 62897092--62897130 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
62897082 ATGAGATATT
*
62897092 TTATCATTTTA
1 TTATTATTTTA
**
62897103 TTATTATTTCG
1 TTATTATTTTA
62897114 TTATTATTTTA
1 TTATTATTTTA
62897125 TTATTA
1 TTATTA
62897131 ATTATTTAGT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.26, C:0.05, G:0.03, T:0.67
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:62899314 original size:23 final size:23
Alignment explanation
Indices: 62899283--62899409 Score: 80
Period size: 23 Copynumber: 5.4 Consensus size: 23
62899273 GATATATGGC
62899283 TCTTCGTGAGCTTCCCGATAGGA
1 TCTTCGTGAGCTTCCCGATAGGA
* *
62899306 TCTTTGTGAGCTTTCCGATA-G-
1 TCTTCGTGAGCTTCCCGATAGGA
* * *
62899327 TGCTTGCTTGAACTTCCCGATATATGGC
1 T-CTT-CGTGAGCTTCCCG--ATA-GGA
* *
62899355 TATTCG-GAGCTTCCCGATAGGC
1 TCTTCGTGAGCTTCCCGATAGGA
** * *
62899377 TCTTTATGAGCTTCCCAATATGGT
1 TCTTCGTGAGCTTCCCGATA-GGA
62899401 TCTTCGTGA
1 TCTTCGTGA
62899410 ACTACCTGAT
Statistics
Matches: 79, Mismatches: 16, Indels: 17
0.71 0.14 0.15
Matches are distributed among these distances:
21 1 0.01
22 10 0.13
23 42 0.53
24 9 0.11
25 12 0.15
26 1 0.01
27 3 0.04
28 1 0.01
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (23 bp):
TCTTCGTGAGCTTCCCGATAGGA
Found at i:62901741 original size:15 final size:15
Alignment explanation
Indices: 62901721--62901749 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
62901711 ATGATCGATG
62901721 AAAAGCTTGTTCACC
1 AAAAGCTTGTTCACC
62901736 AAAAGCTTGTTCAC
1 AAAAGCTTGTTCAC
62901750 TATATTCTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.28
Consensus pattern (15 bp):
AAAAGCTTGTTCACC
Found at i:62910017 original size:12 final size:13
Alignment explanation
Indices: 62910002--62910030 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
62909992 AACTTTAAAA
62910002 ATTTAAATAA-TT
1 ATTTAAATAATTT
62910014 ATTTAAATAATTT
1 ATTTAAATAATTT
62910027 ATTT
1 ATTT
62910031 TTATAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
ATTTAAATAATTT
Found at i:62910467 original size:29 final size:27
Alignment explanation
Indices: 62910388--62910469 Score: 71
Period size: 29 Copynumber: 2.9 Consensus size: 27
62910378 TCTTTCTTTC
* *
62910388 TTTTTATTTAT-TTACTTTT-TTTAAGTT
1 TTTTTATTTGTCTTA-TTTTATTTTA-TT
62910415 TTTTTATTTGTCCTTATTTTATTTTATT
1 TTTTTATTTGT-CTTATTTTATTTTATT
62910443 TTATTTATTTGT-TTATTATTGATTTTA
1 TT-TTTATTTGTCTTATT-TT-ATTTTA
62910470 AAAAACTTGA
Statistics
Matches: 47, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
27 15 0.32
28 10 0.21
29 22 0.47
ACGTcount: A:0.18, C:0.04, G:0.05, T:0.73
Consensus pattern (27 bp):
TTTTTATTTGTCTTATTTTATTTTATT
Found at i:62910579 original size:20 final size:19
Alignment explanation
Indices: 62910540--62910583 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
62910530 TTTTTGAAAT
* *
62910540 TATTTTTTAAAATTTTAAA
1 TATTTTTTAAAATATAAAA
62910559 TATTTTTTAATAATATAAAA
1 TATTTTTTAA-AATATAAAA
62910579 TATTT
1 TATTT
62910584 AAATATTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 10 0.45
20 12 0.55
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TATTTTTTAAAATATAAAA
Found at i:62910663 original size:12 final size:13
Alignment explanation
Indices: 62910632--62910699 Score: 50
Period size: 15 Copynumber: 4.8 Consensus size: 13
62910622 GTTTTATAAT
*
62910632 ATTTTAAATGTTAAA
1 ATTTTAAATATT--A
62910647 ATTTTAAATA-TA
1 ATTTTAAATATTA
62910659 ATTTTTTTAAAATTATTA
1 A---TTTT-AAA-TATTA
62910677 ATTTTAAA-ATTA
1 ATTTTAAATATTA
62910689 ATTTTAAATAT
1 ATTTTAAATAT
62910700 ATTCAAACAT
Statistics
Matches: 45, Mismatches: 1, Indels: 16
0.73 0.02 0.26
Matches are distributed among these distances:
12 14 0.31
13 2 0.04
14 4 0.09
15 17 0.38
16 3 0.07
17 2 0.04
18 3 0.07
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (13 bp):
ATTTTAAATATTA
Found at i:62910739 original size:15 final size:15
Alignment explanation
Indices: 62910721--62910750 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
62910711 TTTTTAAATT
62910721 AAATTTAAAATTTTA
1 AAATTTAAAATTTTA
*
62910736 AAATTTAATATTTTA
1 AAATTTAAAATTTTA
62910751 TTTGGTGGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
AAATTTAAAATTTTA
Found at i:62916887 original size:18 final size:17
Alignment explanation
Indices: 62916866--62916920 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 17
62916856 TTTACTTTTT
62916866 AATATACTTTTTTAAAT-
1 AATATA-TTTTTTAAATA
*
62916883 AA-ATATTTTTAAAATA
1 AATATATTTTTTAAATA
62916899 AAGTCATATTTTTT-AATA
1 AA-T-ATATTTTTTAAATA
62916917 AATA
1 AATA
62916921 AATCTTTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
15 9 0.28
16 6 0.19
17 3 0.09
18 6 0.19
19 8 0.25
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (17 bp):
AATATATTTTTTAAATA
Found at i:62917184 original size:20 final size:18
Alignment explanation
Indices: 62917159--62917210 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 18
62917149 TAAAATATTT
*
62917159 AAATATTTTATATTATTAAA
1 AAATATTTTA-A-AATTAAA
62917179 AAATATATTTAAAATTAAA
1 AAATAT-TTTAAAATTAAA
62917198 AAA-ATTTTCAAAA
1 AAATATTTT-AAAA
62917211 ATATATATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
17 3 0.10
18 6 0.21
19 9 0.31
20 7 0.24
21 4 0.14
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (18 bp):
AAATATTTTAAAATTAAA
Found at i:62917298 original size:4 final size:4
Alignment explanation
Indices: 62917282--62917353 Score: 67
Period size: 4 Copynumber: 17.2 Consensus size: 4
62917272 TAAAATCAAT
* *
62917282 AATA AACA AATA AATAA AATA AATA AATA AAGA CAATA AA-A AACTTA
1 AATA AATA AATA AAT-A AATA AATA AATA AATA -AATA AATA AA--TA
62917329 AA-A AAGTA AATA AATA AATA AATA A
1 AATA AA-TA AATA AATA AATA AATA A
62917354 GAAAGAAAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 14
0.76 0.05 0.19
Matches are distributed among these distances:
3 6 0.11
4 38 0.67
5 10 0.18
6 3 0.05
ACGTcount: A:0.74, C:0.04, G:0.03, T:0.19
Consensus pattern (4 bp):
AATA
Found at i:62917303 original size:9 final size:9
Alignment explanation
Indices: 62917289--62917350 Score: 51
Period size: 9 Copynumber: 7.2 Consensus size: 9
62917279 AATAATAAAC
62917289 AAATAAATA
1 AAATAAATA
62917298 AAATAAAT-
1 AAATAAATA
*
62917306 AAATAAAGA
1 AAATAAATA
*
62917315 CAATAAA-A
1 AAATAAATA
*
62917323 AACTTAAA-A
1 AA-ATAAATA
*
62917332 AAGTAAAT-
1 AAATAAATA
62917340 AAATAAATA
1 AAATAAATA
62917349 AA
1 AA
62917351 TAAGAAAGAA
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
8 20 0.47
9 23 0.53
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.19
Consensus pattern (9 bp):
AAATAAATA
Found at i:62917321 original size:34 final size:33
Alignment explanation
Indices: 62917282--62917346 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 33
62917272 TAAAATCAAT
62917282 AATAAACAAA-TAAATAAAATAAATAAATAAAGAC
1 AATAAA-AAACTAAA-AAAATAAATAAATAAAGAC
*
62917316 AATAAAAAACTTAAAAAAGTAAATAAATAAA
1 AATAAAAAAC-TAAAAAAATAAATAAATAAA
62917347 TAAATAAGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 3 0.11
34 21 0.75
35 4 0.14
ACGTcount: A:0.74, C:0.05, G:0.03, T:0.18
Consensus pattern (33 bp):
AATAAAAAACTAAAAAAATAAATAAATAAAGAC
Found at i:62917365 original size:42 final size:43
Alignment explanation
Indices: 62917284--62917366 Score: 109
Period size: 42 Copynumber: 2.0 Consensus size: 43
62917274 AAATCAATAA
* *
62917284 TAAACAAATAAATAAAATAAATAAATAAAGACAATAAAAAACT
1 TAAACAAATAAATAAAATAAATAAATAAAGAAAAAAAAAAACT
62917327 TAAA-AAAGTAAAT-AAATAAATAAAT-AAGAAAGAAAAAAAA
1 TAAACAAA-TAAATAAAATAAATAAATAAAGAAA-AAAAAAAA
62917367 AGTAATAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
41 5 0.14
42 22 0.61
43 9 0.25
ACGTcount: A:0.75, C:0.04, G:0.05, T:0.17
Consensus pattern (43 bp):
TAAACAAATAAATAAAATAAATAAATAAAGAAAAAAAAAAACT
Found at i:62926142 original size:13 final size:13
Alignment explanation
Indices: 62926124--62926158 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
62926114 ATAATAAAAA
* *
62926124 TTATAAACAAATT
1 TTATAAAAAAATG
62926137 TTATAAAAAAATG
1 TTATAAAAAAATG
62926150 TTATAAAAA
1 TTATAAAAA
62926159 TTTTTAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (13 bp):
TTATAAAAAAATG
Found at i:62928171 original size:12 final size:12
Alignment explanation
Indices: 62928150--62928179 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
62928140 AAATTATTTT
*
62928150 TTAATGAAAATA
1 TTAATTAAAATA
62928162 TTAATTAAAATA
1 TTAATTAAAATA
62928174 TTAATT
1 TTAATT
62928180 TTTAACAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.43
Consensus pattern (12 bp):
TTAATTAAAATA
Found at i:62932504 original size:6 final size:5
Alignment explanation
Indices: 62932490--62932520 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
62932480 TAGGAAGATA
62932490 TTATT TTATTT TTATT TTATT TTATT TTATT
1 TTATT TTA-TT TTATT TTATT TTATT TTATT
62932521 AAATTAGTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 20 0.80
6 5 0.20
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:62937050 original size:11 final size:11
Alignment explanation
Indices: 62937036--62937075 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
62937026 TTTTTTCTCT
62937036 CTATTTTACTA
1 CTATTTTACTA
62937047 CTATTTTACTA
1 CTATTTTACTA
* * *
62937058 TTATGTTGCTA
1 CTATTTTACTA
62937069 CTATTTT
1 CTATTTT
62937076 GTTGTTATTG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.23, C:0.15, G:0.05, T:0.57
Consensus pattern (11 bp):
CTATTTTACTA
Found at i:62937330 original size:12 final size:12
Alignment explanation
Indices: 62937300--62937332 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
62937290 TATATATTTT
62937300 AAAATT-ATATA
1 AAAATTAATATA
62937311 AAAA-TAATATA
1 AAAATTAATATA
62937322 AAAATTAATAT
1 AAAATTAATAT
62937333 GGGCGAGCCG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:62938093 original size:18 final size:18
Alignment explanation
Indices: 62938070--62938104 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
62938060 TTTTTTTGAA
62938070 GAAGAAGATAGAGAAAAT
1 GAAGAAGATAGAGAAAAT
*
62938088 GAAGAAGATGGAGAAAA
1 GAAGAAGATAGAGAAAA
62938105 AGTTTGGGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.31, T:0.09
Consensus pattern (18 bp):
GAAGAAGATAGAGAAAAT
Found at i:62944861 original size:43 final size:43
Alignment explanation
Indices: 62944801--62944901 Score: 157
Period size: 43 Copynumber: 2.3 Consensus size: 43
62944791 TTTATTGGAA
* **
62944801 AAAAACGCCGCTAAAGGTCAAGGCCTGTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCAAGGCCTGTAGCGGCACTTGTGGG
* *
62944844 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCACTTGTGGG
1 AAAAGCGCCGCTAAAGGTCAAGGCCTGTAGCGGCACTTGTGGG
62944887 AAAAGCGCCGCTAAA
1 AAAAGCGCCGCTAAA
62944902 TTTGGCAGAT
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 53 1.00
ACGTcount: A:0.29, C:0.22, G:0.32, T:0.18
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAGGTCAAGGCCTGTAGCGGCACTTGTGGG
Found at i:62944988 original size:31 final size:31
Alignment explanation
Indices: 62944953--62945033 Score: 90
Period size: 31 Copynumber: 2.5 Consensus size: 31
62944943 CTTCCTGCAT
* *
62944953 TAAAATCCAACCAAATACAACAAATATAATA
1 TAAAATCCAACCAAAAACAACAAATATAACA
* * *
62944984 TAAAATGCAGCCAAAAACAACAAATTTAACA
1 TAAAATCCAACCAAAAACAACAAATATAACA
*
62945015 TAAAAAATACAACCAAAAA
1 T--AAAATCCAACCAAAAA
62945034 TATTAATTCT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
31 27 0.66
33 14 0.34
ACGTcount: A:0.63, C:0.19, G:0.02, T:0.16
Consensus pattern (31 bp):
TAAAATCCAACCAAAAACAACAAATATAACA
Found at i:62945306 original size:21 final size:21
Alignment explanation
Indices: 62945280--62945324 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
62945270 GCTCGTGCCT
62945280 TGCCT-CTCTCGCTGCTGCCGC
1 TGCCTCCT-TCGCTGCTGCCGC
* *
62945301 TGCCTCCTTCTCTGCTGCCTC
1 TGCCTCCTTCGCTGCTGCCGC
62945322 TGC
1 TGC
62945325 TCTAAATTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 19 0.90
22 2 0.10
ACGTcount: A:0.00, C:0.47, G:0.20, T:0.33
Consensus pattern (21 bp):
TGCCTCCTTCGCTGCTGCCGC
Found at i:62950974 original size:9 final size:9
Alignment explanation
Indices: 62950960--62951141 Score: 116
Period size: 9 Copynumber: 19.6 Consensus size: 9
62950950 TATTTAAGTA
62950960 TTATGTAAG
1 TTATGTAAG
*
62950969 TTATGTAAT
1 TTATGTAAG
*
62950978 TTATGATATG
1 TTATG-TAAG
* * *
62950988 ATATAT-AT
1 TTATGTAAG
*
62950996 TTATGTAAA
1 TTATGTAAG
* *
62951005 TTATAT-AT
1 TTATGTAAG
*
62951013 TTATCTAAG
1 TTATGTAAG
*
62951022 TTATATAAG
1 TTATGTAAG
62951031 TTATGTAAG
1 TTATGTAAG
*
62951040 TTATGTAAA
1 TTATGTAAG
*
62951049 TTATGATATAAAA
1 TTATG---T-AAG
*
62951062 TATATTTAAG
1 T-TATGTAAG
62951072 TATTATGTAAG
1 --TTATGTAAG
62951083 TTATGTAAG
1 TTATGTAAG
*
62951092 TTATATAAG
1 TTATGTAAG
62951101 TTATGTAAG
1 TTATGTAAG
* *
62951110 TTATATATG
1 TTATGTAAG
*
62951119 TTATCTAAG
1 TTATGTAAG
*
62951128 TTATGTAAA
1 TTATGTAAG
62951137 TTATG
1 TTATG
62951142 ATATCAAATA
Statistics
Matches: 135, Mismatches: 28, Indels: 20
0.74 0.15 0.11
Matches are distributed among these distances:
8 10 0.07
9 101 0.75
10 7 0.05
11 8 0.06
12 2 0.01
13 4 0.03
14 3 0.02
ACGTcount: A:0.38, C:0.01, G:0.13, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:62951038 original size:71 final size:70
Alignment explanation
Indices: 62950960--62951113 Score: 220
Period size: 71 Copynumber: 2.2 Consensus size: 70
62950950 TATTTAAGTA
* * * * *
62950960 TTATGTAAGTTATGTAATTTATGATATGATATATATTTATGTAAATTATAT-ATTTATCTAAGTT
1 TTATGTAAGTTATGTAAATTATGATATAAAATATATTTAAGT--ATTATATAAGTTATCTAAGTT
62951024 ATATAAG
64 ATATAAG
* *
62951031 TTATGTAAGTTATGTAAATTATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTAT
1 TTATGTAAGTTATGTAAATTATGATATAAAATATATTTAAGTATTATATAAGTTATCTAAGTTAT
62951096 ATAAG
66 ATAAG
62951101 TTATGTAAGTTAT
1 TTATGTAAGTTAT
62951114 ATATGTTATC
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
69 6 0.08
70 31 0.41
71 38 0.51
ACGTcount: A:0.39, C:0.01, G:0.13, T:0.47
Consensus pattern (70 bp):
TTATGTAAGTTATGTAAATTATGATATAAAATATATTTAAGTATTATATAAGTTATCTAAGTTAT
ATAAG
Found at i:62951122 original size:88 final size:87
Alignment explanation
Indices: 62950996--62951172 Score: 282
Period size: 88 Copynumber: 2.0 Consensus size: 87
62950986 TGATATATAT
* *
62950996 TTATGTAAATTATATATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAATTATGATATAAA
1 TTATGTAAATTATATAGTTATCTAAGTTATATAAGTTATCTAAGTTATGTAAATTATGATATAAA
62951061 ATATATTTAAGTATTATGTAAG
66 ATATATTTAAGTATTATGTAAG
* * * *
62951083 TTATGTAAGTTATATAAGTTATGTAAGTTATATATGTTATCTAAGTTATGTAAATTATGATATCA
1 TTATGTAAATTATAT-AGTTATCTAAGTTATATAAGTTATCTAAGTTATGTAAATTATGATATAA
*
62951148 AATATATTTATGTATTATGTAAG
65 AATATATTTAAGTATTATGTAAG
62951171 TT
1 TT
62951173 TTTTATTTCA
Statistics
Matches: 82, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
87 14 0.17
88 68 0.83
ACGTcount: A:0.39, C:0.02, G:0.12, T:0.47
Consensus pattern (87 bp):
TTATGTAAATTATATAGTTATCTAAGTTATATAAGTTATCTAAGTTATGTAAATTATGATATAAA
ATATATTTAAGTATTATGTAAG
Found at i:62951495 original size:24 final size:24
Alignment explanation
Indices: 62951463--62951530 Score: 102
Period size: 24 Copynumber: 2.8 Consensus size: 24
62951453 ACTTAAACGG
*
62951463 TAAAACGGACGATAATATTTTTGA
1 TAAAACGGACGATAATATTTGTGA
62951487 TAAAACGGA-GAATAATATTTGTGA
1 TAAAACGGACG-ATAATATTTGTGA
*
62951511 TAAAACGGACGAGAATATTT
1 TAAAACGGACGATAATATTT
62951531 CAATAATAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
23 1 0.03
24 38 0.95
25 1 0.03
ACGTcount: A:0.44, C:0.07, G:0.19, T:0.29
Consensus pattern (24 bp):
TAAAACGGACGATAATATTTGTGA
Found at i:62953751 original size:19 final size:19
Alignment explanation
Indices: 62953729--62953767 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
62953719 ACTCCTAATG
62953729 ATATAAAATACTCATAAAT
1 ATATAAAATACTCATAAAT
62953748 ATATAAAATACTCATAAAT
1 ATATAAAATACTCATAAAT
62953767 A
1 A
62953768 AAATCTTCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.59, C:0.10, G:0.00, T:0.31
Consensus pattern (19 bp):
ATATAAAATACTCATAAAT
Found at i:62953771 original size:15 final size:18
Alignment explanation
Indices: 62953719--62953764 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 18
62953709 CTAAGTAAAG
*
62953719 ACTCCTAATGATATAAAAT
1 ACTCATAAT-ATATAAAAT
62953738 ACTCATAAATATATAAAAT
1 ACTCAT-AATATATAAAAT
62953757 ACTCATAA
1 ACTCATAA
62953765 ATAAAATCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 2 0.08
19 20 0.80
20 3 0.12
ACGTcount: A:0.52, C:0.15, G:0.02, T:0.30
Consensus pattern (18 bp):
ACTCATAATATATAAAAT
Found at i:62954875 original size:6 final size:6
Alignment explanation
Indices: 62954864--62954898 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
62954854 AACAAATATT
62954864 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAA
62954899 GTATAAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (6 bp):
TTTAAA
Found at i:62954905 original size:18 final size:18
Alignment explanation
Indices: 62954866--62954905 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
62954856 CAAATATTTT
*
62954866 TAAATTTAAATTTAAATT
1 TAAATTTAAATTTAAATA
*
62954884 TAAATTTAAATTTAAGTA
1 TAAATTTAAATTTAAATA
62954902 TAAA
1 TAAA
62954906 AATATATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (18 bp):
TAAATTTAAATTTAAATA
Found at i:62956688 original size:17 final size:17
Alignment explanation
Indices: 62956666--62956701 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
62956656 AGAAGAACCG
62956666 AGGAAAGAAGAAA-AGAA
1 AGGAAAG-AGAAAGAGAA
62956683 AGGAAAGAGAAAGAGAA
1 AGGAAAGAGAAAGAGAA
62956700 AG
1 AG
62956702 AGAGGGAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (17 bp):
AGGAAAGAGAAAGAGAA
Found at i:62956696 original size:6 final size:6
Alignment explanation
Indices: 62956668--62956704 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
62956658 AAGAACCGAG
62956668 GAAAGAA GAAA-A GAAAG- GAAAGA GAAAGA GAAAGA GA
1 GAAAG-A GAAAGA GAAAGA GAAAGA GAAAGA GAAAGA GA
62956705 GGGAAGAAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
5 10 0.36
6 14 0.50
7 4 0.14
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (6 bp):
GAAAGA
Found at i:62957283 original size:19 final size:18
Alignment explanation
Indices: 62957249--62957290 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
62957239 TTTTTCTATT
*
62957249 ATTATATATATTTTTAC-
1 ATTATATATATATTTACA
62957266 ATTATATATGATAATTTACA
1 ATTATATAT-AT-ATTTACA
62957286 ATTAT
1 ATTAT
62957291 TTTGATGTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 9 0.43
18 2 0.10
19 5 0.24
20 5 0.24
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.52
Consensus pattern (18 bp):
ATTATATATATATTTACA
Found at i:62965918 original size:22 final size:21
Alignment explanation
Indices: 62965891--62965932 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
62965881 AATTTTAGAT
*
62965891 ATAATTTAATTATTTTATAAAA
1 ATAATTTAAATATTTT-TAAAA
62965913 ATAATTTAAATATTTTTAAA
1 ATAATTTAAATATTTTTAAA
62965933 TGCAAACTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
ATAATTTAAATATTTTTAAAA
Found at i:62970044 original size:29 final size:28
Alignment explanation
Indices: 62970011--62970066 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
62970001 AAATTAGAAG
62970011 AAATAAAAAAAAGTA-TAAAATATAATATT
1 AAATAAAAAAAA-TATTAAAAT-TAATATT
**
62970040 AAATATTAAAAATATTAAAATTAATAT
1 AAATAAAAAAAATATTAAAATTAATAT
62970067 AAACTTATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 8 0.33
29 16 0.67
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (28 bp):
AAATAAAAAAAATATTAAAATTAATATT
Found at i:62970050 original size:28 final size:27
Alignment explanation
Indices: 62970018--62970087 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 27
62970008 AAGAAATAAA
62970018 AAAAAGTATAAAATATAATATTAAA-TATT
1 AAAAA-TATAAAAT-TAATA-TAAACTATT
62970047 AAAAATATTAAAATTAATATAAACTTATT
1 AAAAATA-TAAAATTAATATAAAC-TATT
*
62970076 AAAATTATAAAA
1 AAAAATATAAAA
62970088 AATATTATAT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
27 4 0.11
28 12 0.32
29 21 0.57
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.34
Consensus pattern (27 bp):
AAAAATATAAAATTAATATAAACTATT
Found at i:62970055 original size:16 final size:15
Alignment explanation
Indices: 62970034--62970063 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
62970024 TATAAAATAT
62970034 AATATTAAATATTAAA
1 AATATTAAA-ATTAAA
62970050 AATATTAAAATTAA
1 AATATTAAAATTAA
62970064 TATAAACTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
AATATTAAAATTAAA
Found at i:62970075 original size:29 final size:29
Alignment explanation
Indices: 62970018--62970115 Score: 78
Period size: 29 Copynumber: 3.3 Consensus size: 29
62970008 AAGAAATAAA
62970018 AAAAAGTA-TAAAATATAATATTAAATATT
1 AAAAA-TATTAAAATATAATATTAAATATT
62970047 AAAAATATTAAAAT-TAATA-TAAACTTATT
1 AAAAATATTAAAATATAATATTAAA--TATT
* * * *
62970076 AAAATTA-TAAAAAATATTATATAAAAACTT
1 AAAAATATTAAAATATAATAT-TAAATA-TT
*
62970106 ATAAATATTA
1 AAAAATATTA
62970116 TAAAAAATAA
Statistics
Matches: 55, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
27 4 0.07
28 12 0.22
29 26 0.47
30 7 0.13
31 6 0.11
ACGTcount: A:0.61, C:0.02, G:0.01, T:0.36
Consensus pattern (29 bp):
AAAAATATTAAAATATAATATTAAATATT
Found at i:62970108 original size:10 final size:9
Alignment explanation
Indices: 62969978--62970188 Score: 72
Period size: 9 Copynumber: 21.9 Consensus size: 9
62969968 ATTTTTTCTC
*
62969978 ATAAAAATG
1 ATAAAAATT
62969987 ATTAAAAATT
1 A-TAAAAATT
62969997 ATAAAAATT
1 ATAAAAATT
* *
62970006 AGAAGAAATA
1 ATAA-AAATT
* *
62970016 AAAAAAAGT
1 ATAAAAATT
*
62970025 ATAAAATATA
1 ATAAAA-ATT
*
62970035 ATATTAAA-T
1 ATA-AAAATT
62970044 ATTAAAAA-T
1 A-TAAAAATT
*
62970053 ATTAAAATT
1 ATAAAAATT
*
62970062 AATATAAACTT
1 -ATA-AAAATT
*
62970073 ATTAAAATT
1 ATAAAAATT
62970082 ATAAAAAATATTAT
1 AT--AAAA-A-T-T
62970096 ATAAAAACTT
1 ATAAAAA-TT
*
62970106 ATAAATATT
1 ATAAAAATT
*
62970115 ATAAAAAAT
1 ATAAAAATT
*
62970124 AAAAAAATCT
1 ATAAAAAT-T
*
62970134 A-ATAAATT
1 ATAAAAATT
62970142 ATAAAAAAAATT
1 AT---AAAAATT
62970154 AT-AAAATT
1 ATAAAAATT
*
62970162 AATAAAACTT
1 -ATAAAAATT
*
62970172 ATTTAAAATT
1 A-TAAAAATT
62970182 A-AAAAAT
1 ATAAAAAT
62970189 GTGTTAGAAT
Statistics
Matches: 151, Mismatches: 30, Indels: 43
0.67 0.13 0.19
Matches are distributed among these distances:
8 18 0.12
9 57 0.38
10 47 0.31
11 12 0.08
12 13 0.09
13 1 0.01
14 3 0.02
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (9 bp):
ATAAAAATT
Found at i:62970116 original size:33 final size:32
Alignment explanation
Indices: 62970059--62970159 Score: 99
Period size: 33 Copynumber: 3.3 Consensus size: 32
62970049 AAATATTAAA
*
62970059 ATTAATATAAACTTATTAAAATTATAAAAAAT
1 ATTAATAAAAACTTATTAAAATTATAAAAAAT
62970091 ATTATATAAAAACTTA-TAAATATTATAAAAAAT
1 ATTA-ATAAAAACTTATTAAA-ATTATAAAAAAT
* * *
62970124 A--AA-AAAATC-TAAT-AAATTATAAAAAAA
1 ATTAATAAAAACTTATTAAAATTATAAAAAAT
62970151 ATT-ATAAAA
1 ATTAATAAAA
62970160 TTAATAAAAC
Statistics
Matches: 60, Mismatches: 3, Indels: 15
0.77 0.04 0.19
Matches are distributed among these distances:
27 12 0.20
28 5 0.08
29 10 0.17
30 1 0.02
31 1 0.02
32 8 0.13
33 23 0.38
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (32 bp):
ATTAATAAAAACTTATTAAAATTATAAAAAAT
Found at i:62970160 original size:20 final size:20
Alignment explanation
Indices: 62970075--62970168 Score: 61
Period size: 21 Copynumber: 4.7 Consensus size: 20
62970065 ATAAACTTAT
*
62970075 TAAAATTATAAAAAATATTA
1 TAAAATTATAAAAAAAATTA
* * * *
62970095 TATAAA-AACTTATAAATATTA
1 TA-AAATTA-TAAAAAAAATTA
*
62970116 TAAAA-AAT-AAAAAAATCTA
1 TAAAATTATAAAAAAAAT-TA
62970135 -ATAAATTATAAAAAAAATTA
1 TA-AAATTATAAAAAAAATTA
62970155 TAAAATTAATAAAA
1 TAAAATT-ATAAAA
62970169 CTTATTTAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 15
0.74 0.07 0.19
Matches are distributed among these distances:
18 7 0.12
19 6 0.10
20 17 0.28
21 30 0.50
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (20 bp):
TAAAATTATAAAAAAAATTA
Found at i:62970216 original size:15 final size:15
Alignment explanation
Indices: 62970196--62970225 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
62970186 AATGTGTTAG
62970196 AATTCTTAAAAAATA
1 AATTCTTAAAAAATA
62970211 AATTCTTAAAAAATA
1 AATTCTTAAAAAATA
62970226 TTAAGTTGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (15 bp):
AATTCTTAAAAAATA
Found at i:62970734 original size:21 final size:23
Alignment explanation
Indices: 62970705--62970751 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
62970695 TAATATGTTT
* *
62970705 TATGATTTTTTTAGAA-TTTAAA
1 TATGATTTTTATAAAATTTTAAA
62970727 TATG-TTTTTATAAAATTTTAAA
1 TATGATTTTTATAAAATTTTAAA
62970749 TAT
1 TAT
62970752 TTTATATATG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.55
Consensus pattern (23 bp):
TATGATTTTTATAAAATTTTAAA
Found at i:62970784 original size:10 final size:10
Alignment explanation
Indices: 62970771--62970816 Score: 56
Period size: 10 Copynumber: 4.6 Consensus size: 10
62970761 GTTTTATTAA
62970771 TTTATATTTT
1 TTTATATTTT
*
62970781 TTTATAATTT
1 TTTATATTTT
* * *
62970791 ATTAGATTCT
1 TTTATATTTT
62970801 TTTATATTTT
1 TTTATATTTT
62970811 TTTATA
1 TTTATA
62970817 AAATTTATAA
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
10 28 1.00
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (10 bp):
TTTATATTTT
Found at i:62975664 original size:20 final size:20
Alignment explanation
Indices: 62975620--62975665 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
62975610 ATTTTTATAT
*
62975620 TATATTATTAAAAATATTTA
1 TATATTATTAAAAATATTAA
*
62975640 TATATTTTTAAAAAT-TTAA
1 TATATTATTAAAAATATTAA
62975659 TGATATT
1 T-ATATT
62975666 CTTATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 4 0.17
20 19 0.83
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (20 bp):
TATATTATTAAAAATATTAA
Found at i:62975698 original size:28 final size:28
Alignment explanation
Indices: 62975662--62975716 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
62975652 AATTTAATGA
*
62975662 TATTCTTATT-TCATATTTTTATATTATT
1 TATTCTTATTATCAT-TTTTTAAATTATT
* *
62975690 TATTTTTATTATTATTTTTTAAATTAT
1 TATTCTTATTATCATTTTTTAAATTAT
62975717 GCGGTCATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 20 0.87
29 3 0.13
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (28 bp):
TATTCTTATTATCATTTTTTAAATTATT
Found at i:62975702 original size:16 final size:15
Alignment explanation
Indices: 62975675--62975706 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
62975665 TCTTATTTCA
62975675 TATTTTTATATTATT
1 TATTTTTATATTATT
62975690 TATTTTTATTATTATT
1 TATTTTTA-TATTATT
62975706 T
1 T
62975707 TTTAAATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (15 bp):
TATTTTTATATTATT
Found at i:62977687 original size:11 final size:11
Alignment explanation
Indices: 62977663--62977705 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
62977653 TTCTAATACG
*
62977663 TATATATATTA
1 TATATATTTTA
*
62977674 TATGTATTTTA
1 TATATATTTTA
* *
62977685 TATATATTATG
1 TATATATTTTA
62977696 TATATATTTT
1 TATATATTTT
62977706 TAATGCCATT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (11 bp):
TATATATTTTA
Found at i:62977842 original size:3 final size:3
Alignment explanation
Indices: 62977834--62977885 Score: 50
Period size: 3 Copynumber: 17.0 Consensus size: 3
62977824 GTTGTGTATA
* ** * *
62977834 TAT TAT TAT TACT AAT TAT TAT TAT TGC TAG TAT TAT TAT AAT TAT
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
62977880 TAT TAT
1 TAT TAT
62977886 GTTAGTGTAT
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
3 37 0.95
4 2 0.05
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:62977855 original size:16 final size:15
Alignment explanation
Indices: 62977834--62977873 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
62977824 GTTGTGTATA
*
62977834 TATTATTATTACTAAT
1 TATTATTATTACT-AG
*
62977850 TATTATTATTGCTAG
1 TATTATTATTACTAG
62977865 TATTATTAT
1 TATTATTAT
62977874 AATTATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 10 0.45
16 12 0.55
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.57
Consensus pattern (15 bp):
TATTATTATTACTAG
Found at i:62977996 original size:3 final size:3
Alignment explanation
Indices: 62977983--62978081 Score: 50
Period size: 3 Copynumber: 34.3 Consensus size: 3
62977973 TGTATTTTAA
* *
62977983 TAT TGT TAT TAT TA- TAT CAT TAT TAT T-T T-T TAT ATAT TAT TCA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT T-AT
* * * * *
62978026 TAC TAT CAT TAT TA- TAT TAT TAT CAC TAT TA- CATT TAT TA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT
*
62978069 TAG TAT TAT TAT T
1 TAT TAT TAT TAT T
62978082 GCTATCATTA
Statistics
Matches: 72, Mismatches: 15, Indels: 18
0.69 0.14 0.17
Matches are distributed among these distances:
2 12 0.17
3 55 0.76
4 5 0.07
ACGTcount: A:0.32, C:0.07, G:0.02, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:62978006 original size:11 final size:11
Alignment explanation
Indices: 62977988--62978081 Score: 65
Period size: 11 Copynumber: 8.7 Consensus size: 11
62977978 TTTAATATTG
62977988 TTATTATTATA
1 TTATTATTATA
*
62977999 TCATTATTAT-
1 TTATTATTATA
*
62978009 TTTTTA-TATA
1 TTATTATTATA
62978019 TTATTCA-TACTA
1 TTATT-ATTA-TA
*
62978031 TCATTATTATA
1 TTATTATTATA
*
62978042 TTATTATCACTA
1 TTATTATTA-TA
*
62978054 TTA-CATT-TA
1 TTATTATTATA
62978063 TTA-TATTAGTA
1 TTATTATTA-TA
62978074 TTATTATT
1 TTATTATT
62978082 GCTATCATTA
Statistics
Matches: 65, Mismatches: 10, Indels: 15
0.72 0.11 0.17
Matches are distributed among these distances:
9 11 0.17
10 8 0.12
11 29 0.45
12 17 0.26
ACGTcount: A:0.33, C:0.07, G:0.01, T:0.59
Consensus pattern (11 bp):
TTATTATTATA
Found at i:62978045 original size:23 final size:26
Alignment explanation
Indices: 62978011--62978070 Score: 76
Period size: 23 Copynumber: 2.5 Consensus size: 26
62978001 ATTATTATTT
62978011 TTTA-TATATTATTCAT-ACTA-T-CA
1 TTTATTATATTATT-ATCACTATTACA
62978034 -TTATTATATTATTATCACTATTACA
1 TTTATTATATTATTATCACTATTACA
62978059 TTTATTATATTA
1 TTTATTATATTA
62978071 GTATTATTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
22 5 0.16
23 13 0.41
24 1 0.03
25 2 0.06
26 11 0.34
ACGTcount: A:0.35, C:0.10, G:0.00, T:0.55
Consensus pattern (26 bp):
TTTATTATATTATTATCACTATTACA
Found at i:62980058 original size:12 final size:12
Alignment explanation
Indices: 62980023--62980052 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
62980013 ATTCATTTGA
*
62980023 CATTTATGCATT
1 CATTCATGCATT
62980035 CATTCATGCATT
1 CATTCATGCATT
62980047 CATTCA
1 CATTCA
62980053 CTCATTGCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.27, C:0.23, G:0.07, T:0.43
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:62988597 original size:147 final size:144
Alignment explanation
Indices: 62988329--62989047 Score: 703
Period size: 147 Copynumber: 5.0 Consensus size: 144
62988319 TCTGTTTTTT
* *
62988329 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGACACGCTGAGGTATTGTCAATTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGACACGCTGAGGTATTTTCAATTTC
* * * * **
62988394 TGTGTTT-----TAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGTCACATTGAGGTAT
66 TGT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGACACGCTGAGGTAT
*
62988454 TTTCAATTTATCATA
130 TTTCAATTTATCTTA
* ** * * *
62988469 AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGTTTCACATGTTGAGGTGTTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG--AGACACGCTGAGGTATTTTCAATT
62988534 TCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGACACGCTGAGGT
64 TCTG-TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGACACGCTGAGGT
*
62988599 AATTTT--ATTTGTC---
128 -ATTTTCAATTTATCTTA
* * *
62988612 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGGGCACGCTGATGTAATTTCAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGA-GACACGCTGAGGTATTTTCAATTT
* ** * * *
62988676 CTGTTTTC--AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAT
65 CTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGACACGCTGAGGTAT
62988739 TTTCAATTTCCATCTTTTAA
130 TTTCAATTT--ATC--TT-A
* * * *
62988759 AAAAATCAACTCATATTGGGAGAGGTGAGTTGAGCATC-AGGACACGCTGAGGTAATTTCGATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGA-GACACGCTGAGGTATTTTCAATTT
* *
62988823 CTGTTGTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TCGAGACACGCTGAGGT
65 CTGTTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAG-GACACGCTGAGGT
* * * *
62988887 AATTTCAATTTCTGTTTTC
128 ATTTTCAA-TT-TATCTTA
* * ** * * * * *
62988906 AAAATTCAACTCATATTGTGAGAAATGAGTTGAGTCTCAAGACATGTTGAGGTATTTTCAATTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGACACGCTGAGGTATTTTCAATTTC
** * *
62988971 TGCCTTTAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCATACGCTGAGG
66 TG--TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGG--ACACGCTGAGG
* *
62989036 TGTTTTCCATTT
127 TATTTTCAATTT
62989048 CTGTTCTTCA
Statistics
Matches: 480, Mismatches: 67, Indels: 56
0.80 0.11 0.09
Matches are distributed among these distances:
137 5 0.01
138 47 0.10
139 4 0.01
140 43 0.09
141 22 0.05
142 24 0.05
143 38 0.08
146 6 0.01
147 165 0.34
148 48 0.10
149 6 0.01
150 69 0.14
151 2 0.00
152 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.33
Consensus pattern (144 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGACACGCTGAGGTATTTTCAATTTC
TGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGACACGCTGAGGTATT
TTCAATTTATCTTA
Found at i:62988803 original size:75 final size:73
Alignment explanation
Indices: 62988316--62989018 Score: 699
Period size: 75 Copynumber: 9.7 Consensus size: 73
62988306 TGATATTTTT
**
62988316 ATTTCTGTTTTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GAGACACGCTGAG
1 ATTTCTGTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG-GACACGCTGAG
62988380 GT-ATTGTCA
65 GTAATT-TCA
* * * * **
62988389 ATTTTTGTGTTT----TAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGTCACATTGAG
1 ATTTCTGT-TTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
*
62988450 GTATTTTCA
65 GTAATTTCA
* ** * * * *
62988459 A-TT-TATCAT-AAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GTTTCACATGTTG
1 ATTTCTGTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG---GACACGCTG
**
62988520 AGGTGTTTTCA
63 AGGTAATTTCA
*
62988531 ATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGACACGCTGA
1 ATTTCTG-TTTT-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
*
62988596 GGTAATTT-T
64 GGTAATTTCA
* * *
62988605 A-TT-TG---T-CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGATG
1 ATTTCTGTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
62988664 TAATTTCA
66 TAATTTCA
* * ** * *
62988672 ATTTCTGTTTT-CAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 ATTTCTGTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
*
62988736 TATTTTCA
66 TAATTTCA
* * *
62988744 ATTTCCATCTTTTAAAAAAATCAACTCATATTGGGAGAGGTGAGTTGAGCATCAGGACACGCTGA
1 ATTT-C-TGTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
*
62988809 GGTAATTTCG
64 GGTAATTTCA
*
62988819 ATTTCTGTTGTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GAGACACGCTG
1 ATTTCTGTT-T-TAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG-GACACGCTG
62988883 AGGTAATTTCA
63 AGGTAATTTCA
* * * ** * * * *
62988894 ATTTCTGTTTT-CAAAATTCAACTCATATTGTGAGAAATGAGTTGAGTCTCAAGACATGTTGAGG
1 ATTTCTGTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
*
62988958 TATTTTCA
66 TAATTTCA
* *
62988966 ATTTTTGCCTTTAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 ATTTCTG--TTT-TAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
62989019 TGGGTCATAC
Statistics
Matches: 521, Mismatches: 77, Indels: 61
0.79 0.12 0.09
Matches are distributed among these distances:
66 55 0.11
67 2 0.00
68 5 0.01
69 4 0.01
70 83 0.16
71 2 0.00
72 132 0.25
73 15 0.03
74 17 0.03
75 136 0.26
76 32 0.06
77 37 0.07
78 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (73 bp):
ATTTCTGTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
TAATTTCA
Found at i:62988913 original size:222 final size:217
Alignment explanation
Indices: 62988316--62989018 Score: 876
Period size: 222 Copynumber: 3.2 Consensus size: 217
62988306 TGATATTTTT
*
62988316 ATTTCTGT-TTTT-TAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GAGACACGCTG
1 ATTTCTGTCTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG-GACACGCTG
* ***
62988378 AGGT-ATTGTCAATTTTTG-TGT-TTTAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG
65 AGGTAATT-TC-ATTTATGTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AG
* ** * * ** ** **
62988440 TCACATTGAGGTATTTTCAATTTAT-CATAAAAAATT-AACTCATATTGCGAGAGGTGAGTTGAG
127 ACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAG
*** *
62988503 CCTCGTTTCACATGTTGAGGTGTTTTCA
192 CCTC--AAGACATGTTGAGGTATTTTCA
*
62988531 ATTTCTGT-TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGACACGCTG
1 ATTTCTGTCTTTT-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTG
*
62988595 AGGTAA--T--TTTAT-TTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGC
65 AGGTAATTTCATTTATGTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-GAC
*
62988655 ACGCTGATGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCC
129 ACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCC
*
62988720 TCAAGACACGTTGAGGTATTTTCA
194 TCAAGACATGTTGAGGTATTTTCA
** * *
62988744 ATTTCCATCTTTTAAAAAAATCAACTCATATTGGGAGAGGTGAGTTGAGCATCAGGACACGCTGA
1 ATTTCTGTCTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
*
62988809 GGTAATTTCGATTTCTGTTGTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGA
66 GGTAATTTC-ATTTATGTTGTC---AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-A
*
62988874 GACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGTGAGAAATGAGTTGA
126 GACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGA
*
62988939 GTCTCAAGACATGTTGAGGTATTTTCA
191 GCCTCAAGACATGTTGAGGTATTTTCA
* * *
62988966 ATTTTTGCCTTTAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 ATTTCTGTCTTT-TAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
62989019 TGGGTCATAC
Statistics
Matches: 426, Mismatches: 41, Indels: 34
0.85 0.08 0.07
Matches are distributed among these distances:
212 8 0.02
213 132 0.31
214 11 0.03
215 43 0.10
217 50 0.12
218 6 0.01
219 5 0.01
222 133 0.31
223 38 0.09
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (217 bp):
ATTTCTGTCTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
GGTAATTTCATTTATGTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACAC
GCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTC
AAGACATGTTGAGGTATTTTCA
Found at i:62989226 original size:57 final size:56
Alignment explanation
Indices: 62989132--62989311 Score: 233
Period size: 57 Copynumber: 3.2 Consensus size: 56
62989122 TGCTGAGCTA
*
62989132 TTTTCAATTTCTGTTTTTTTCAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCC
1 TTTT-AATTTCT-TTTTTTT-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
**
62989191 TTTTAATTTCTATTTTTTTAAAAAAAAAAACTCATATTGCGAGAGGTGAGTTGAGCC
1 TTTTAATTTCT-TTTTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
* * *
62989248 TTTTAATTTC--TGTTTT-CAAAAATCAACTCATATTAG-GAGAGGTGAGTTGAGCT
1 TTTTAATTTCTTTTTTTTAAAAAAATCAACTCATATT-GCGAGAGGTGAGTTGAGCC
62989301 TTTTAATTTCT
1 TTTTAATTTCT
62989312 GCGAGAGGTG
Statistics
Matches: 110, Mismatches: 9, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
53 41 0.37
54 6 0.05
57 45 0.41
58 14 0.13
59 4 0.04
ACGTcount: A:0.30, C:0.12, G:0.16, T:0.42
Consensus pattern (56 bp):
TTTTAATTTCTTTTTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
Found at i:62989292 original size:53 final size:53
Alignment explanation
Indices: 62989148--62989312 Score: 215
Period size: 53 Copynumber: 3.0 Consensus size: 53
62989138 ATTTCTGTTT
*
62989148 TTTTCAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTATTT
1 TTTTC-AAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTC---TG
* **
62989206 TTTTAAAAAAAAAAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTG
1 TTTT-CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTG
*
62989260 TTTTCAAAAATCAACTCATATTAG-GAGAGGTGAGTTGAGCTTTTTAATTTCTG
1 TTTTCAAAAATCAACTCATATT-GCGAGAGGTGAGTTGAGCCTTTTAATTTCTG
62989313 CGAGAGGTGA
Statistics
Matches: 97, Mismatches: 8, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
53 43 0.44
54 6 0.06
57 39 0.40
58 9 0.09
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.39
Consensus pattern (53 bp):
TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTG
Found at i:62989380 original size:84 final size:83
Alignment explanation
Indices: 62989228--62989383 Score: 278
Period size: 84 Copynumber: 1.9 Consensus size: 83
62989218 AAACTCATAT
*
62989228 TGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTCAAAAATCAACTCATATTAGGAGAGGTGA
1 TGCGAGAGGTGAGTTGAGCCTTTTAATTTATGTTTTCAAAAATCAACTCATATTAGGAGAGGTGA
62989293 GTTGAGCTTTTTAATTTC
66 GTTGAGCTTTTTAATTTC
62989311 TGCGAGAGGTGAGTTGAGCCTTTTAATTTATGTTTTTCAAAAATCAACTCATATT-GCGAGAGGT
1 TGCGAGAGGTGAGTTGAGCCTTTTAATTTATG-TTTTCAAAAATCAACTCATATTAG-GAGAGGT
62989375 GAGTTGAGC
64 GAGTTGAGC
62989384 CTCGAGTCAC
Statistics
Matches: 70, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
83 32 0.46
84 38 0.54
ACGTcount: A:0.27, C:0.12, G:0.24, T:0.37
Consensus pattern (83 bp):
TGCGAGAGGTGAGTTGAGCCTTTTAATTTATGTTTTCAAAAATCAACTCATATTAGGAGAGGTGA
GTTGAGCTTTTTAATTTC
Found at i:62989523 original size:89 final size:88
Alignment explanation
Indices: 62989349--62989559 Score: 232
Period size: 89 Copynumber: 2.4 Consensus size: 88
62989339 TATGTTTTTC
** *
62989349 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGTCACATGTCGAGGTATTTTCAAAA
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGAGTCACATGTCGAGCTATTTTCAAAA
62989414 TCTGCTTTTCAAGTTAAGTTTCAA
66 TCTGCTTTTCAAGTTAAGTTT-AA
* * *
62989438 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTTG-GCTCACGTG-CTGAGCTATTTTTAA
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGAG-TCACATGTC-GAGCTATTTTCAA
** * *
62989501 TTTCTG-TTTTTAATGTCT-AGTTTTA
64 AATCTGCTTTTCAA-GT-TAAGTTTAA
* * *
62989526 AAGAGTCAATTCATATTGCGAGAAATGAGTTGAG
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAG
62989560 TTGAGTCAAT
Statistics
Matches: 105, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
88 40 0.38
89 64 0.61
90 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.34
Consensus pattern (88 bp):
AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGAGTCACATGTCGAGCTATTTTCAAAA
TCTGCTTTTCAAGTTAAGTTTAA
Found at i:62990141 original size:8 final size:8
Alignment explanation
Indices: 62990128--62990152 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
62990118 ATCAAGAAAC
62990128 CCTAGCCA
1 CCTAGCCA
62990136 CCTAGCCA
1 CCTAGCCA
62990144 CCTAGCCA
1 CCTAGCCA
62990152 C
1 C
62990153 TTTCCCACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.52, G:0.12, T:0.12
Consensus pattern (8 bp):
CCTAGCCA
Found at i:62990531 original size:14 final size:14
Alignment explanation
Indices: 62990512--62990541 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
62990502 CTTCTATATC
*
62990512 TATAAATAAATAAA
1 TATAAATAAAAAAA
62990526 TATAAATAAAAAAA
1 TATAAATAAAAAAA
62990540 TA
1 TA
62990542 ATATTATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (14 bp):
TATAAATAAAAAAA
Found at i:62991176 original size:11 final size:11
Alignment explanation
Indices: 62991152--62991194 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
62991142 TTCTAATACG
*
62991152 TATATATATTA
1 TATATATTTTA
*
62991163 TATGTATTTTA
1 TATATATTTTA
* *
62991174 TATATATTATG
1 TATATATTTTA
62991185 TATATATTTT
1 TATATATTTT
62991195 TAATGCCATT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (11 bp):
TATATATTTTA
Found at i:62991332 original size:3 final size:3
Alignment explanation
Indices: 62991324--62991375 Score: 50
Period size: 3 Copynumber: 17.0 Consensus size: 3
62991314 GTTGTGTATA
* ** * *
62991324 TAT TAT TAT TACT AAT TAT TAT TAT TGC TAG TAT TAT TAT AAT TAT
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
62991370 TAT TAT
1 TAT TAT
62991376 GTTAGTGTAT
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
3 37 0.95
4 2 0.05
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:62991345 original size:16 final size:15
Alignment explanation
Indices: 62991324--62991363 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
62991314 GTTGTGTATA
*
62991324 TATTATTATTACTAAT
1 TATTATTATTACT-AG
*
62991340 TATTATTATTGCTAG
1 TATTATTATTACTAG
62991355 TATTATTAT
1 TATTATTAT
62991364 AATTATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 10 0.45
16 12 0.55
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.57
Consensus pattern (15 bp):
TATTATTATTACTAG
Found at i:62991541 original size:23 final size:26
Alignment explanation
Indices: 62991507--62991566 Score: 76
Period size: 23 Copynumber: 2.5 Consensus size: 26
62991497 TTATTTTTTT
62991507 TTTA-TATATTATTCAT-ACTA-T-CA
1 TTTATTATATTATT-ATCACTATTACA
62991530 -TTATTATATTATTATCACTATTACA
1 TTTATTATATTATTATCACTATTACA
62991555 TTTATTATATTA
1 TTTATTATATTA
62991567 GTATTATTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
22 5 0.16
23 13 0.41
24 1 0.03
25 2 0.06
26 11 0.34
ACGTcount: A:0.35, C:0.10, G:0.00, T:0.55
Consensus pattern (26 bp):
TTTATTATATTATTATCACTATTACA
Done.