Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 206 of 325
Found at i:64276571 original size:5 final size:5
Alignment explanation
Indices: 64276561--64276680 Score: 75
Period size: 5 Copynumber: 23.0 Consensus size: 5
64276551 ATTATTGTCC
* * *
64276561 ATTAT ATTAT ATCTATT ATTAT -TTACT TTTAA ATTAT ATGTA- ATTAA
1 ATTAT ATTAT AT-TA-T ATTAT ATTA-T ATTAT ATTAT AT-TAT ATTAT
* * * *
64276608 ATTTTT ATTAT ATTAT ATGAT ATTAT ATTATT CTCTAT AGTAT ATGTA-
1 A-TTAT ATTAT ATTAT ATTAT ATTAT ATTA-T AT-TAT ATTAT AT-TAT
*
64276656 ATTAT ATTAT ATGAT ATTAT ATTAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT
64276681 TCTCTATATT
Statistics
Matches: 90, Mismatches: 14, Indels: 22
0.71 0.11 0.17
Matches are distributed among these distances:
4 7 0.08
5 61 0.68
6 17 0.19
7 5 0.06
ACGTcount: A:0.37, C:0.03, G:0.04, T:0.56
Consensus pattern (5 bp):
ATTAT
Found at i:64277055 original size:206 final size:205
Alignment explanation
Indices: 64276695--64277361 Score: 1009
Period size: 206 Copynumber: 3.2 Consensus size: 205
64276685 TATATTAAGT
* *
64276695 AGATCTAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAA-TCATAGCTGATTTGG
1 AGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATC-AAAGACATAGCTGATTTGG
* * *
64276759 CTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGTATCTCTGTATTGTCAGAGAACAA
65 CTTCCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAA
* * *
64276824 ATCGAAGTTTGGCGTCTCCATATTCGATGGAAAGCAGATACATAGCAGATCTGGTCTTCAGATGT
130 ATCGAAGTTTGGAGTCTCCATATTCGA-GGAAAGCAAATACATAGCAGATCTGGCCTTCAGATGT
64276889 TTATACTGAAGC
194 TTATACTGAAGC
* *
64276901 AGATCCAAGATGATTTGGCATCCTTGTGCTTACAAAGAACAAATCAAAGACATAGCTGATTTGGC
1 AGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCAAAGACATAGCTGATTTGGC
*
64276966 TTCCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAAAGAACAAA
66 TTCCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAA
* * *
64277031 TCAAAGTTTGGAGTCTCCATATTCGACGGCGAA-CAAATACATAGTAGATCTGGCCTTCAGATGT
131 TCGAAGTTTGGAGTCTCCATATTCGA-GG-AAAGCAAATACATAGCAGATCTGGCCTTCAGATGT
64277095 TTATACTGAAGC
194 TTATACTGAAGC
*
64277107 AGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATTAAAGACATAGCTGATTTGGC
1 AGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCAAAGACATAGCTGATTTGGC
* * *
64277172 TTCCACGTGTTTGCGATGAAGCAAATCTAATATGATTTGGCATCTCTGTATTGTCAGAGAAAAAA
66 TTCCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAA
* * * ** *
64277237 TCGAAGTCTGGCA-TCTCCAT-TTCGACGAATAGCATATACATAGCAGATCTAACCTCCAGATGT
131 TCGAAGTTTGG-AGTCTCCATATTCGAGGAA-AGCAAATACATAGCAGATCTGGCCTTCAGATGT
64277300 TTATACTGAAGC
194 TTATACTGAAGC
* * *
64277312 AGATCCAAGATGATTTGGCATACTTGTGTTTACGAGGAACAAATCGAAGA
1 AGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCAAAGA
64277362 AGCAGATTTA
Statistics
Matches: 421, Mismatches: 35, Indels: 11
0.90 0.07 0.02
Matches are distributed among these distances:
203 1 0.00
204 2 0.00
205 92 0.22
206 323 0.77
207 3 0.01
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.30
Consensus pattern (205 bp):
AGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCAAAGACATAGCTGATTTGGC
TTCCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAA
TCGAAGTTTGGAGTCTCCATATTCGAGGAAAGCAAATACATAGCAGATCTGGCCTTCAGATGTTT
ATACTGAAGC
Found at i:64279267 original size:5 final size:5
Alignment explanation
Indices: 64279257--64279333 Score: 59
Period size: 5 Copynumber: 15.0 Consensus size: 5
64279247 ATTATTGTCC
* * *
64279257 ATTAT ATTAT ATCTATT ATTAT -TTACT TTTAA ATTAT ATGTA- ATTAA
1 ATTAT ATTAT AT-TA-T ATTAT ATTA-T ATTAT ATTAT AT-TAT ATTAT
* *
64279304 ATTTT ATTAT ATTAT ATGAT ATTAT ATTAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
64279334 TCTCTATAGT
Statistics
Matches: 58, Mismatches: 8, Indels: 12
0.74 0.10 0.15
Matches are distributed among these distances:
4 5 0.09
5 41 0.71
6 9 0.16
7 3 0.05
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (5 bp):
ATTAT
Found at i:64280358 original size:26 final size:26
Alignment explanation
Indices: 64280328--64280410 Score: 73
Period size: 26 Copynumber: 3.2 Consensus size: 26
64280318 ACCCATCCTT
64280328 TTTATTTCGTAGACCAAAACTAATGA
1 TTTATTTCGTAGACCAAAACTAATGA
* * * * **
64280354 TTTA-TTGGT-GATCC-AATCCATTCTT
1 TTTATTTCGTAGA-CCAAAACTAAT-GA
64280379 TTTATTTCGTAGACCAAAACTAATGA
1 TTTATTTCGTAGACCAAAACTAATGA
64280405 TTTATT
1 TTTATT
64280411 GGTGATCCAA
Statistics
Matches: 40, Mismatches: 12, Indels: 10
0.65 0.19 0.16
Matches are distributed among these distances:
24 7 0.17
25 10 0.25
26 16 0.40
27 7 0.17
ACGTcount: A:0.31, C:0.16, G:0.11, T:0.42
Consensus pattern (26 bp):
TTTATTTCGTAGACCAAAACTAATGA
Found at i:64280401 original size:51 final size:51
Alignment explanation
Indices: 64280320--64280422 Score: 197
Period size: 51 Copynumber: 2.0 Consensus size: 51
64280310 ACTCCCAAAC
64280320 CCATCCTTTTTATTTCGTAGACCAAAACTAATGATTTATTGGTGATCCAAT
1 CCATCCTTTTTATTTCGTAGACCAAAACTAATGATTTATTGGTGATCCAAT
*
64280371 CCATTCTTTTTATTTCGTAGACCAAAACTAATGATTTATTGGTGATCCAAT
1 CCATCCTTTTTATTTCGTAGACCAAAACTAATGATTTATTGGTGATCCAAT
64280422 C
1 C
64280423 ACACCTAAAA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.29, C:0.19, G:0.12, T:0.40
Consensus pattern (51 bp):
CCATCCTTTTTATTTCGTAGACCAAAACTAATGATTTATTGGTGATCCAAT
Found at i:64280420 original size:25 final size:25
Alignment explanation
Indices: 64280341--64280420 Score: 65
Period size: 25 Copynumber: 3.2 Consensus size: 25
64280331 ATTTCGTAGA
64280341 CCAAAACTAATGATTTATTGGTGAT
1 CCAAAACTAATGATTTATTGGTGAT
* * * ** *
64280366 CC-AATCCATTCTTTTTATTTCGTAGA-
1 CCAAAACTAAT-GATTTA-TTGGT-GAT
64280392 CCAAAACTAATGATTTATTGGTGAT
1 CCAAAACTAATGATTTATTGGTGAT
64280417 CCAA
1 CCAA
64280421 TCACACCTAA
Statistics
Matches: 38, Mismatches: 12, Indels: 10
0.63 0.20 0.17
Matches are distributed among these distances:
24 7 0.18
25 14 0.37
26 10 0.26
27 7 0.18
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (25 bp):
CCAAAACTAATGATTTATTGGTGAT
Found at i:64284840 original size:10 final size:10
Alignment explanation
Indices: 64284825--64284850 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
64284815 ATCTACAAAA
64284825 TAAAATATTT
1 TAAAATATTT
64284835 TAAAATATTT
1 TAAAATATTT
64284845 TAAAAT
1 TAAAAT
64284851 TTTAAAAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (10 bp):
TAAAATATTT
Found at i:64295201 original size:27 final size:26
Alignment explanation
Indices: 64295163--64295278 Score: 142
Period size: 27 Copynumber: 4.3 Consensus size: 26
64295153 CAGCATGGCT
* *
64295163 ACCAGAACAGATAATGTGACAGAGTC
1 ACCAGAACAGATAATGTGGCAGAGCC
64295189 ACCAGATACAGATAATCGTGGCAGAGCC
1 ACCAGA-ACAGATAAT-GTGGCAGAGCC
64295217 ACCAGAACAGATATATGTGGCAGAGCC
1 ACCAGAACAGATA-ATGTGGCAGAGCC
* * * *
64295244 ACCAGATCAGATATTTGTAGCATAGCC
1 ACCAGAACAGATA-ATGTGGCAGAGCC
64295271 ACCAGAAC
1 ACCAGAAC
64295279 GCTTCCTCCA
Statistics
Matches: 80, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
26 6 0.08
27 57 0.71
28 17 0.21
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.16
Consensus pattern (26 bp):
ACCAGAACAGATAATGTGGCAGAGCC
Found at i:64295222 original size:54 final size:54
Alignment explanation
Indices: 64295163--64295278 Score: 162
Period size: 54 Copynumber: 2.1 Consensus size: 54
64295153 CAGCATGGCT
* *
64295163 ACCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCC
1 ACCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTAGCAGAGCC
* * * *
64295217 ACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTAGCATAGCC
1 ACCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTAGCAGAGCC
64295271 ACCAGAAC
1 ACCAGAAC
64295279 GCTTCCTCCA
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.16
Consensus pattern (54 bp):
ACCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTAGCAGAGCC
Found at i:64296934 original size:26 final size:26
Alignment explanation
Indices: 64296898--64296981 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
64296888 CATGAAATTC
64296898 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
64296924 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
64296950 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
64296976 TTATCA
1 TTATCA
64296982 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:64297843 original size:34 final size:34
Alignment explanation
Indices: 64297802--64297871 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
64297792 TATTTTCGTT
64297802 ATTTCATATAATATCATAAAATAATAAGTTTTAC
1 ATTTCATATAATATCATAAAATAATAAGTTTTAC
64297836 ATTTCATATAATATCATAAAATAATAAGTTTTAC
1 ATTTCATATAATATCATAAAATAATAAGTTTTAC
64297870 AT
1 AT
64297872 ATAATAAGCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.47, C:0.09, G:0.03, T:0.41
Consensus pattern (34 bp):
ATTTCATATAATATCATAAAATAATAAGTTTTAC
Found at i:64301742 original size:38 final size:38
Alignment explanation
Indices: 64301695--64301771 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
64301685 GTGGCTTTGT
64301695 AATTGATTGTGATTTGAGCTGGAATTTAATATTATGTA
1 AATTGATTGTGATTTGAGCTGGAATTTAATATTATGTA
*
64301733 AATTGATTGTGATTTGAGTTGGAATTTAATATTATGTA
1 AATTGATTGTGATTTGAGCTGGAATTTAATATTATGTA
64301771 A
1 A
64301772 TTTTGGATTA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.01, G:0.21, T:0.45
Consensus pattern (38 bp):
AATTGATTGTGATTTGAGCTGGAATTTAATATTATGTA
Found at i:64307627 original size:72 final size:72
Alignment explanation
Indices: 64307510--64307653 Score: 270
Period size: 72 Copynumber: 2.0 Consensus size: 72
64307500 TTCCAAAAGC
64307510 TCATACGTTGAAAATTACAAAAGAATGTTCAATTATTTAGTCCAACGGGAAATCAAAACCCAGCA
1 TCATACGTTGAAAATTACAAAAGAATGTTCAATTATTTAGTCCAACGGGAAATCAAAACCCAGCA
64307575 CAGTAGG
66 CAGTAGG
* *
64307582 TCATACGTTGAAAATTACAAAAGGATGTTCAATTATTTAGTCCAACGGGAAATCGAAACCCAGCA
1 TCATACGTTGAAAATTACAAAAGAATGTTCAATTATTTAGTCCAACGGGAAATCAAAACCCAGCA
64307647 CAGTAGG
66 CAGTAGG
64307654 GCACGATTTC
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 70 1.00
ACGTcount: A:0.40, C:0.18, G:0.18, T:0.24
Consensus pattern (72 bp):
TCATACGTTGAAAATTACAAAAGAATGTTCAATTATTTAGTCCAACGGGAAATCAAAACCCAGCA
CAGTAGG
Found at i:64308983 original size:12 final size:12
Alignment explanation
Indices: 64308964--64308997 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
64308954 GTTTTTAAAA
*
64308964 AAATAAATAATT
1 AAATAAATAACT
*
64308976 ACATAAATAACT
1 AAATAAATAACT
64308988 AAATAAATAA
1 AAATAAATAA
64308998 ATCCAAAAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (12 bp):
AAATAAATAACT
Found at i:64312185 original size:51 final size:50
Alignment explanation
Indices: 64312114--64312287 Score: 285
Period size: 51 Copynumber: 3.4 Consensus size: 50
64312104 CTGATCACAT
64312114 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCAC
* *
64312165 TTATCACTTGTCACTGATCAGATAAGAGTAGCTAAGCTACCACTTATCAT
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCAC
* * *
64312215 TTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCAC
64312266 TTATCACTTGTCACTGATCAGA
1 TTATCACTTGTCACTGATCAGA
64312288 AGTACTCAAA
Statistics
Matches: 113, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
50 46 0.41
51 67 0.59
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (50 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCAC
Found at i:64314752 original size:143 final size:143
Alignment explanation
Indices: 64314494--64314779 Score: 509
Period size: 143 Copynumber: 2.0 Consensus size: 143
64314484 GTTAACTCTT
*
64314494 TAATTGAGCTATGAATTCCACTGTTGCTAGTAAAGTCATGCCATACACAAGTCATGTACCCAACG
1 TAATTGAGCTATGAATTCCACTGTTGCTAGTAAAGTCATGCCATACAAAAGTCATGTACCCAACG
64314559 TACCAACTATCGGCTTGATCATCTTTAAAGCATAAGCCTCCACTTATTTCAAAGCACATGAGTTA
66 TACCAACTATCGGCTTGATCATCTTTAAAGCATAAGCCTCCACTTATTTCAAAGCACATGAGTTA
*
64314624 CATATGCATGGTC
131 CATACGCATGGTC
* * *
64314637 TAATTGAGCTATGAATTCCATTTTTGCTAGTAAAGTCATGCCATACAAAAGTCATGTACCCAATG
1 TAATTGAGCTATGAATTCCACTGTTGCTAGTAAAGTCATGCCATACAAAAGTCATGTACCCAACG
* *
64314702 TACTAACTATCGGCTTGATCATCTTTAGAGCATAAGCCTCCACTTATTTCAAAGCACATGAGTTA
66 TACCAACTATCGGCTTGATCATCTTTAAAGCATAAGCCTCCACTTATTTCAAAGCACATGAGTTA
64314767 CATACGCATGGTC
131 CATACGCATGGTC
64314780 AGTGACTAAC
Statistics
Matches: 136, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
143 136 1.00
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.30
Consensus pattern (143 bp):
TAATTGAGCTATGAATTCCACTGTTGCTAGTAAAGTCATGCCATACAAAAGTCATGTACCCAACG
TACCAACTATCGGCTTGATCATCTTTAAAGCATAAGCCTCCACTTATTTCAAAGCACATGAGTTA
CATACGCATGGTC
Found at i:64317053 original size:29 final size:28
Alignment explanation
Indices: 64317020--64317097 Score: 77
Period size: 29 Copynumber: 2.7 Consensus size: 28
64317010 ATAGTTGAAT
64317020 CTAGATTTTGAAATCTAAAAATAGAGAGA
1 CTAGATTTTGAAAT-TAAAAATAGAGAGA
* *
64317049 CTAGATTTCTAGAAA-TAAAAGTATAGAGA
1 CTAGATTT-T-GAAATTAAAAATAGAGAGA
* * *
64317078 CTAAATTTTAAAATTTAAAA
1 CTAGATTTTGAAATTAAAAA
64317098 GAGCACATAG
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
27 3 0.08
28 5 0.12
29 27 0.68
30 1 0.03
31 4 0.10
ACGTcount: A:0.50, C:0.06, G:0.13, T:0.31
Consensus pattern (28 bp):
CTAGATTTTGAAATTAAAAATAGAGAGA
Found at i:64317378 original size:8 final size:8
Alignment explanation
Indices: 64317367--64317489 Score: 52
Period size: 8 Copynumber: 14.0 Consensus size: 8
64317357 AAAATTAGAA
64317367 AAAAATAT
1 AAAAATAT
64317375 AAAAATAT
1 AAAAATAT
*
64317383 -AAGATCAT
1 AAAAAT-AT
*
64317391 -TAAATATT
1 AAAAATA-T
64317399 AAAAATAT
1 AAAAATAT
64317407 GAAAATAGATAT
1 --AAA-A-ATAT
***
64317419 AATTTTAT
1 AAAAATAT
64317427 AAAAATAT
1 AAAAATAT
*
64317435 AAAAAATCT
1 -AAAAATAT
64317444 AATAAATTAT
1 AA-AAA-TAT
64317454 AAAAAGTTAT
1 AAAAA--TAT
64317464 AAAAATAT
1 AAAAATAT
*
64317472 AAAATTAGT
1 AAAAATA-T
64317481 AAAACATAT
1 AAAA-ATAT
64317490 TCAAAATATT
Statistics
Matches: 88, Mismatches: 14, Indels: 25
0.69 0.11 0.20
Matches are distributed among these distances:
7 5 0.06
8 34 0.39
9 24 0.27
10 20 0.23
11 1 0.01
12 4 0.05
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (8 bp):
AAAAATAT
Found at i:64317545 original size:9 final size:9
Alignment explanation
Indices: 64317531--64317582 Score: 50
Period size: 9 Copynumber: 5.6 Consensus size: 9
64317521 TAAAATTCTA
64317531 TAAAATGAT
1 TAAAATGAT
64317540 TAAAATGAT
1 TAAAATGAT
64317549 TAAAATTGAT
1 TAAAA-TGAT
* *
64317559 ATAAACTTAT
1 -TAAAATGAT
* *
64317569 GAAAATTAT
1 TAAAATGAT
64317578 TAAAA
1 TAAAA
64317583 AAAGTCATAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
9 25 0.69
10 7 0.19
11 4 0.11
ACGTcount: A:0.56, C:0.02, G:0.08, T:0.35
Consensus pattern (9 bp):
TAAAATGAT
Found at i:64317562 original size:29 final size:28
Alignment explanation
Indices: 64317519--64317582 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 28
64317509 ATAAAAACGT
* *
64317519 ATTAAAATTCTATAAAATGATTAAAATG
1 ATTAAAATTATATAAAATGATGAAAATG
* * *
64317547 ATTAAAATTGATATAAACTTATGAAAATT
1 ATTAAAATT-ATATAAAATGATGAAAATG
64317576 ATTAAAA
1 ATTAAAA
64317583 AAAGTCATAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 9 0.30
29 21 0.70
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.36
Consensus pattern (28 bp):
ATTAAAATTATATAAAATGATGAAAATG
Found at i:64318135 original size:9 final size:9
Alignment explanation
Indices: 64318107--64318227 Score: 75
Period size: 9 Copynumber: 12.3 Consensus size: 9
64318097 GTTCAATTAA
64318107 TTTTATAATT
1 TTTTAT-ATT
* *
64318117 TATTAGATT
1 TTTTATATT
64318126 TTTTATATT
1 TTTTATATT
64318135 TTTATAATATT
1 TTT-T-ATATT
*
64318146 TTTAATATT
1 TTTTATATT
64318155 TAATTTAAATATT
1 T--TTT--ATATT
*
64318168 TTTAATATT
1 TTTTATATT
64318177 TAGTTTATATAT
1 T--TTTATAT-T
64318189 TTTTAATATT
1 TTTT-ATATT
64318199 TTTT-TATT
1 TTTTATATT
64318207 TTTT-TATT
1 TTTTATATT
*
64318215 GTTTAATATT
1 -TTTTATATT
64318225 TTT
1 TTT
64318228 ATAGAAAAAT
Statistics
Matches: 90, Mismatches: 9, Indels: 25
0.73 0.07 0.20
Matches are distributed among these distances:
8 12 0.13
9 31 0.34
10 17 0.19
11 22 0.24
12 2 0.02
13 6 0.07
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (9 bp):
TTTTATATT
Found at i:64318136 original size:8 final size:8
Alignment explanation
Indices: 64318125--64318230 Score: 58
Period size: 8 Copynumber: 13.0 Consensus size: 8
64318115 TTTATTAGAT
64318125 TTTTTATA
1 TTTTTATA
64318133 TTTTTATAA
1 TTTTTAT-A
64318142 TATTTT-TAA
1 T-TTTTAT-A
*
64318151 TATTTA-A
1 TTTTTATA
**
64318158 TTTAAATA
1 TTTTTATA
64318166 TTTTTA-A
1 TTTTTATA
* *
64318173 TATTTA-G
1 TTTTTATA
*
64318180 TTTATATA
1 TTTTTATA
64318188 TTTTTAATA
1 TTTTT-ATA
*
64318197 TTTTTTTA
1 TTTTTATA
*
64318205 TTTTTTTA
1 TTTTTATA
64318213 TTGTTTAATA
1 TT-TTT-ATA
64318223 TTTTTATA
1 TTTTTATA
64318231 GAAAAATATT
Statistics
Matches: 76, Mismatches: 14, Indels: 16
0.72 0.13 0.15
Matches are distributed among these distances:
7 14 0.18
8 34 0.45
9 20 0.26
10 8 0.11
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (8 bp):
TTTTTATA
Found at i:64318151 original size:44 final size:43
Alignment explanation
Indices: 64318103--64318199 Score: 108
Period size: 44 Copynumber: 2.2 Consensus size: 43
64318093 ATAAGTTCAA
* * *
64318103 TTAATTTTATAATTTATTAGATTTTTTATA-TT-TTTATAATATTT
1 TTAATATT-TAATTTA-AAGATTTTTAATATTTATTTAT-ATATTT
*
64318147 TTAATATTTAATTTAAATATTTTTAATATTTAGTTTATATATTT
1 TTAATATTTAATTTAAAGATTTTTAATATTTA-TTTATATATTT
64318191 TTAATATTT
1 TTAATATTT
64318200 TTTTATTTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
42 10 0.22
43 9 0.20
44 22 0.48
45 5 0.11
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (43 bp):
TTAATATTTAATTTAAAGATTTTTAATATTTATTTATATATTT
Found at i:64318168 original size:22 final size:22
Alignment explanation
Indices: 64318135--64318199 Score: 103
Period size: 22 Copynumber: 2.9 Consensus size: 22
64318125 TTTTTATATT
64318135 TTTATAATATTTTTAATATTTAA
1 TTTA-AATATTTTTAATATTTAA
*
64318158 TTTAAATATTTTTAATATTTAG
1 TTTAAATATTTTTAATATTTAA
*
64318180 TTTATATATTTTTAATATTT
1 TTTAAATATTTTTAATATTT
64318200 TTTTATTTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
22 36 0.90
23 4 0.10
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (22 bp):
TTTAAATATTTTTAATATTTAA
Found at i:64318204 original size:26 final size:26
Alignment explanation
Indices: 64318175--64318227 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
64318165 ATTTTTAATA
64318175 TTTAGTTTATATATT-TTTAATATTTT
1 TTTA-TTTATATATTGTTTAATATTTT
* *
64318201 TTTATTTTTTTATTGTTTAATATTTT
1 TTTATTTATATATTGTTTAATATTTT
64318227 T
1 T
64318228 ATAGAAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 8 0.33
26 16 0.67
ACGTcount: A:0.23, C:0.00, G:0.04, T:0.74
Consensus pattern (26 bp):
TTTATTTATATATTGTTTAATATTTT
Found at i:64321264 original size:22 final size:22
Alignment explanation
Indices: 64321239--64321283 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
64321229 TTTAATAAAA
64321239 AAAATATTTACAAAATATTCCT
1 AAAATATTTACAAAATATTCCT
*
64321261 AAAATATTTACAGAATATTCCT
1 AAAATATTTACAAAATATTCCT
64321283 A
1 A
64321284 CACTCCCCCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.49, C:0.13, G:0.02, T:0.36
Consensus pattern (22 bp):
AAAATATTTACAAAATATTCCT
Found at i:64325042 original size:22 final size:22
Alignment explanation
Indices: 64325017--64325061 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
64325007 TTTAATAAAA
64325017 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
64325039 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
64325061 A
1 A
64325062 CAAAAACAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:64336273 original size:5 final size:5
Alignment explanation
Indices: 64336263--64336299 Score: 67
Period size: 5 Copynumber: 7.6 Consensus size: 5
64336253 CAATTTGTGA
64336263 AAAAT AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
64336300 GAACACACAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 4 0.13
5 27 0.87
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:64336283 original size:15 final size:14
Alignment explanation
Indices: 64336263--64336299 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
64336253 CAATTTGTGA
64336263 AAAATAAAATAAAAT
1 AAAATAAAAT-AAAT
64336278 AAAATAAAATAAAT
1 AAAATAAAATAAAT
64336292 AAAATAAA
1 AAAATAAA
64336300 GAACACACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 12 0.55
15 10 0.45
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (14 bp):
AAAATAAAATAAAT
Found at i:64347448 original size:7 final size:7
Alignment explanation
Indices: 64347417--64347461 Score: 56
Period size: 7 Copynumber: 6.3 Consensus size: 7
64347407 ATTATTAACT
64347417 AAATAAA
1 AAATAAA
*
64347424 AAACAAA
1 AAATAAA
64347431 ACAA-AATA
1 A-AATAA-A
64347439 AAATAAA
1 AAATAAA
64347446 AAATAAA
1 AAATAAA
64347453 AAATAAA
1 AAATAAA
64347460 AA
1 AA
64347462 GGCTTTCCAA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
7 28 0.82
8 6 0.18
ACGTcount: A:0.84, C:0.04, G:0.00, T:0.11
Consensus pattern (7 bp):
AAATAAA
Found at i:64349943 original size:40 final size:40
Alignment explanation
Indices: 64349899--64350017 Score: 152
Period size: 40 Copynumber: 3.0 Consensus size: 40
64349889 TGAGTTACCA
* * *
64349899 TAGTGAATCAAGAACAAATCCTATCCACTTTATATAT-TTC
1 TAGTGAATCAGGAATAAATCCTATTCACTTTA-ATATCTTC
* *
64349939 TAGTGAATCAGGAATAAATCCTATTCACTTTAATTTCTTT
1 TAGTGAATCAGGAATAAATCCTATTCACTTTAATATCTTC
*
64349979 TAGTGAATTAGGAATAAATCCTATTCACTTTTAAT-TCTT
1 TAGTGAATCAGGAATAAATCCTATTCAC-TTTAATATCTT
64350018 GAGAAGGCTT
Statistics
Matches: 71, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
39 3 0.04
40 62 0.87
41 6 0.08
ACGTcount: A:0.34, C:0.16, G:0.09, T:0.40
Consensus pattern (40 bp):
TAGTGAATCAGGAATAAATCCTATTCACTTTAATATCTTC
Found at i:64350902 original size:17 final size:15
Alignment explanation
Indices: 64350874--64350907 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 15
64350864 CTCTAATTTC
64350874 TCCCTTTTCTTTCTT
1 TCCCTTTTCTTTCTT
64350889 TCCCTTTTTCCTTTCTT
1 TCCC-TTTT-CTTTCTT
64350906 TC
1 TC
64350908 TTTCTCCCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 4 0.24
17 9 0.53
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (15 bp):
TCCCTTTTCTTTCTT
Found at i:64350924 original size:21 final size:21
Alignment explanation
Indices: 64350878--64350935 Score: 57
Period size: 21 Copynumber: 2.7 Consensus size: 21
64350868 AATTTCTCCC
*
64350878 TTTTCTTTC-TT-TCCCTTTT
1 TTTTCTTTCTTTCTCCCCTTT
64350897 TCCTTTCTTTCTTTCTCCCCTTT
1 T--TTTCTTTCTTTCTCCCCTTT
64350920 TTTTCGTTTCTATTCT
1 TTTTC-TTTCT-TTCT
64350936 GTTCTTCCTT
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
19 1 0.03
21 12 0.38
22 7 0.22
23 12 0.38
ACGTcount: A:0.02, C:0.29, G:0.02, T:0.67
Consensus pattern (21 bp):
TTTTCTTTCTTTCTCCCCTTT
Found at i:64350963 original size:17 final size:17
Alignment explanation
Indices: 64350878--64350972 Score: 64
Period size: 17 Copynumber: 5.5 Consensus size: 17
64350868 AATTTCTCCC
**
64350878 TTTTCTTTCTTTCCCTT
1 TTTTCTTTCTTTCTTTT
* *
64350895 TTTCCTTTCTTTCTTTC
1 TTTTCTTTCTTTCTTTT
*** * *
64350912 TCCCCTTTTTTTCGTTTC
1 TTTTCTTTCTTTC-TTTT
* *
64350930 TATTCTGTTCTTCCTTTT
1 TTTTCT-TTCTTTCTTTT
64350948 TTTTCTTTCTTTCTTTT
1 TTTTCTTTCTTTCTTTT
*
64350965 GTTTCTTT
1 TTTTCTTT
64350973 TGTTTATTTA
Statistics
Matches: 60, Mismatches: 16, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
17 40 0.67
18 15 0.25
19 5 0.08
ACGTcount: A:0.01, C:0.25, G:0.03, T:0.71
Consensus pattern (17 bp):
TTTTCTTTCTTTCTTTT
Found at i:64350964 original size:13 final size:13
Alignment explanation
Indices: 64350877--64350972 Score: 61
Period size: 13 Copynumber: 7.0 Consensus size: 13
64350867 TAATTTCTCC
64350877 CTTTTCTTTCTTT
1 CTTTTCTTTCTTT
64350890 CCCTTTTTCCTTTCTTT
1 --C-TTTT-CTTTCTTT
**
64350907 C-TTTCTCCCCTTT
1 CTTTTCT-TTCTTT
64350920 -TTTTCGTTTCTATT
1 CTTTTC-TTTCT-TT
* *
64350934 CTGTTCTTCCTTT
1 CTTTTCTTTCTTT
*
64350947 TTTTTCTTTCTTT
1 CTTTTCTTTCTTT
*
64350960 CTTTTGTTTCTTT
1 CTTTTCTTTCTTT
64350973 TGTTTATTTA
Statistics
Matches: 63, Mismatches: 11, Indels: 16
0.70 0.12 0.18
Matches are distributed among these distances:
12 2 0.03
13 36 0.57
14 7 0.11
15 6 0.10
16 4 0.06
17 8 0.13
ACGTcount: A:0.01, C:0.26, G:0.03, T:0.70
Consensus pattern (13 bp):
CTTTTCTTTCTTT
Found at i:64351064 original size:23 final size:23
Alignment explanation
Indices: 64351038--64351084 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
64351028 TATCTATAAT
*
64351038 AAATAAATATATATATGTATTAC
1 AAATAAACATATATATGTATTAC
** *
64351061 AAATGTACATATATATTTATTAC
1 AAATAAACATATATATGTATTAC
64351084 A
1 A
64351085 CATTTACATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.49, C:0.06, G:0.04, T:0.40
Consensus pattern (23 bp):
AAATAAACATATATATGTATTAC
Found at i:64351100 original size:23 final size:23
Alignment explanation
Indices: 64351046--64351093 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
64351036 ATAAATAAAT
*
64351046 ATATATATGTATTACAAATGTAC
1 ATATATATTTATTACAAATGTAC
* *
64351069 ATATATATTTATTACACATTTAC
1 ATATATATTTATTACAAATGTAC
64351092 AT
1 AT
64351094 TATTATTACC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.42, C:0.10, G:0.04, T:0.44
Consensus pattern (23 bp):
ATATATATTTATTACAAATGTAC
Found at i:64351170 original size:8 final size:8
Alignment explanation
Indices: 64351157--64351185 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
64351147 TTAATATAAT
64351157 ATAATATA
1 ATAATATA
64351165 ATAATATA
1 ATAATATA
64351173 ATAATATA
1 ATAATATA
64351181 ATAAT
1 ATAAT
64351186 TTTTACTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATAATATA
Found at i:64351170 original size:13 final size:13
Alignment explanation
Indices: 64351148--64351183 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
64351138 TTCATTTAAT
64351148 TAATATAATATAA
1 TAATATAATATAA
64351161 T-ATAATAATATAA
1 TAAT-ATAATATAA
64351174 TAATATAATA
1 TAATATAATA
64351184 ATTTTTACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 2 0.10
13 17 0.81
14 2 0.10
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
TAATATAATATAA
Found at i:64355151 original size:17 final size:17
Alignment explanation
Indices: 64355129--64355162 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
64355119 AAAGAGAAAT
64355129 AAAAAAACAAAAGGAAG
1 AAAAAAACAAAAGGAAG
64355146 AAAAAAACAAAAGGAAG
1 AAAAAAACAAAAGGAAG
64355163 GACAACCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.76, C:0.06, G:0.18, T:0.00
Consensus pattern (17 bp):
AAAAAAACAAAAGGAAG
Found at i:64356747 original size:9 final size:9
Alignment explanation
Indices: 64356733--64356784 Score: 58
Period size: 9 Copynumber: 6.1 Consensus size: 9
64356723 TTACTAAATG
64356733 ACTAAAGTA
1 ACTAAAGTA
64356742 ACTAAAGTA
1 ACTAAAGTA
64356751 ACTAAAGT-
1 ACTAAAGTA
*
64356759 A--AGAGTA
1 ACTAAAGTA
64356766 ACTACAA-TA
1 ACTA-AAGTA
64356775 ACTAAAGTA
1 ACTAAAGTA
64356784 A
1 A
64356785 AAAGTTTTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
6 4 0.11
7 1 0.03
8 3 0.08
9 27 0.75
10 1 0.03
ACGTcount: A:0.56, C:0.12, G:0.12, T:0.21
Consensus pattern (9 bp):
ACTAAAGTA
Found at i:64356767 original size:24 final size:24
Alignment explanation
Indices: 64356738--64356784 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
64356728 AAATGACTAA
64356738 AGTAACTA-AAGTAACTAAAGTAAG
1 AGTAACTACAA-TAACTAAAGTAAG
64356762 AGTAACTACAATAACTAAAGTAA
1 AGTAACTACAATAACTAAAGTAA
64356785 AAAGTTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 20 0.91
25 2 0.09
ACGTcount: A:0.55, C:0.11, G:0.13, T:0.21
Consensus pattern (24 bp):
AGTAACTACAATAACTAAAGTAAG
Found at i:64363479 original size:14 final size:14
Alignment explanation
Indices: 64363443--64363492 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
64363433 GAAGATAAAT
*
64363443 GAAATGAAAAG-GA
1 GAAAAGAAAAGAGA
* *
64363456 TAAAATAAAAGAGA
1 GAAAAGAAAAGAGA
*
64363470 GGAAAGAAAAGAGA
1 GAAAAGAAAAGAGA
64363484 GAAAAGAAA
1 GAAAAGAAA
64363493 TAAATAATAT
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
13 8 0.28
14 21 0.72
ACGTcount: A:0.68, C:0.00, G:0.26, T:0.06
Consensus pattern (14 bp):
GAAAAGAAAAGAGA
Found at i:64363604 original size:11 final size:11
Alignment explanation
Indices: 64363588--64363619 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
64363578 AGGTGGCAAG
*
64363588 TGGTGGTGGAA
1 TGGTGGGGGAA
64363599 TGGTGGGGGAA
1 TGGTGGGGGAA
64363610 TGGTGGGGGA
1 TGGTGGGGGA
64363620 GAAGTGTTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.16, C:0.00, G:0.62, T:0.22
Consensus pattern (11 bp):
TGGTGGGGGAA
Found at i:64365913 original size:21 final size:21
Alignment explanation
Indices: 64365887--64365928 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
64365877 GGCTCTTAAG
64365887 ATAGAAACTTCTTGAGATGCT
1 ATAGAAACTTCTTGAGATGCT
64365908 ATAGAAACTTCTTGAGATGCT
1 ATAGAAACTTCTTGAGATGCT
64365929 CCTTCCGGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.33
Consensus pattern (21 bp):
ATAGAAACTTCTTGAGATGCT
Found at i:64372732 original size:28 final size:29
Alignment explanation
Indices: 64372700--64372754 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
64372690 TAATAAAAAT
*
64372700 GTAAATTAAG-GGCTAAATTGTGAAATGC
1 GTAAATTAAGTGGCTAAAATGTGAAATGC
* *
64372728 GTAAATTTAGTGGTTAAAATGTGAAAT
1 GTAAATTAAGTGGCTAAAATGTGAAAT
64372755 AAATGAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 9 0.39
29 14 0.61
ACGTcount: A:0.40, C:0.04, G:0.24, T:0.33
Consensus pattern (29 bp):
GTAAATTAAGTGGCTAAAATGTGAAATGC
Found at i:64373408 original size:48 final size:48
Alignment explanation
Indices: 64373215--64373397 Score: 249
Period size: 48 Copynumber: 3.8 Consensus size: 48
64373205 GTCATTACGG
* * *
64373215 GATACATTGATTTGGTTTCAGGCTATGATATTAGCACTTCAAGTGCAA
1 GATACATTGATTTGGCTTCAGGCCATGATATTAGCACTTCAGGTGCAA
* * *
64373263 GATACATTGATTTGGCTTCGGGCCATAATATTAGCACTTCGGGTGCAA
1 GATACATTGATTTGGCTTCAGGCCATGATATTAGCACTTCAGGTGCAA
* * * *
64373311 GATACATTGATTTGGCTTCGGGCCATGGTATTAGCACTTCCGGTGCGA
1 GATACATTGATTTGGCTTCAGGCCATGATATTAGCACTTCAGGTGCAA
* * *
64373359 GATACATTGAGTTGGCTTCAGGTCATGATATTAACACTT
1 GATACATTGATTTGGCTTCAGGCCATGATATTAGCACTT
64373398 AGTGTGCGAG
Statistics
Matches: 120, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 120 1.00
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.33
Consensus pattern (48 bp):
GATACATTGATTTGGCTTCAGGCCATGATATTAGCACTTCAGGTGCAA
Found at i:64377219 original size:3 final size:3
Alignment explanation
Indices: 64377213--64377241 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
64377203 TAATAATAAC
64377213 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
64377242 AATATTAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:64377380 original size:31 final size:32
Alignment explanation
Indices: 64377324--64377383 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
64377314 CATTTGTATT
64377324 ATTTATGTATAATTAGTGAAAAGATATTTTAA
1 ATTTATGTATAATTAGTGAAAAGATATTTTAA
64377356 ATTTAT-TATTAATTAGT-AAAAGATATTT
1 ATTTATGTA-TAATTAGTGAAAAGATATTT
64377384 ATTAGATGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
31 13 0.48
32 14 0.52
ACGTcount: A:0.43, C:0.00, G:0.10, T:0.47
Consensus pattern (32 bp):
ATTTATGTATAATTAGTGAAAAGATATTTTAA
Found at i:64403785 original size:2 final size:2
Alignment explanation
Indices: 64403736--64403770 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
64403726 TGGGTTGTTC
64403736 TA TA T- TA 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 TA TA TA TA
64403771 ATCAGAACCT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:64404057 original size:19 final size:19
Alignment explanation
Indices: 64404035--64404071 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
64404025 TTTAAAAAAT
64404035 TTAAAAAAATATAAATTTC
1 TTAAAAAAATATAAATTTC
*
64404054 TTAAAAAAGTATAAATTT
1 TTAAAAAAATATAAATTT
64404072 TAATTAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.38
Consensus pattern (19 bp):
TTAAAAAAATATAAATTTC
Found at i:64423245 original size:93 final size:93
Alignment explanation
Indices: 64423086--64423256 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
64423076 GCCCCTAAGT
*
64423086 GAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCATCCATTAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATTAGTGAACTCGGACTCAACTCAA
64423151 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
64423179 GAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCATCCA-TAGGTGAACTCGGACTCAACTC
1 GAACTCGGACTCAACTCAACGAGCTCAGG-CATTCGCATCCATTA-GTGAACTCGGACTCAACTC
64423242 AACGAGTTCGGATGC
64 AACGAGTTCGGATGC
64423257 TCAACCATCC
Statistics
Matches: 74, Mismatches: 2, Indels: 4
0.93 0.03 0.05
Matches are distributed among these distances:
92 4 0.05
93 70 0.95
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATTAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:64423251 original size:46 final size:45
Alignment explanation
Indices: 64423083--64423253 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 45
64423073 CCCGCCCCTA
* *
64423083 AGTGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATT
1 AGTGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCATCCA-T
*
64423129 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-T
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCAT
*
64423176 CA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT
64423221 AGGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 A-GTGAACTCGGACTCAACTCAACGAGTTCGGA
64423254 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 6, Indels: 24
0.78 0.04 0.18
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 3 0.03
45 3 0.03
46 57 0.53
47 30 0.28
48 1 0.01
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT
Found at i:64423708 original size:30 final size:30
Alignment explanation
Indices: 64423674--64423733 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
64423664 ATTTAATACG
64423674 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
64423704 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
64423734 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:64425589 original size:45 final size:45
Alignment explanation
Indices: 64425539--64425675 Score: 238
Period size: 45 Copynumber: 3.0 Consensus size: 45
64425529 AAATGGGAGC
*
64425539 ACATGGCCATGTCCCAGCCTGTGTCCGACCCCGTGTAACTCTCTG
1 ACATGGCCATGTCCCAGCCTGTGTCTGACCCCGTGTAACTCTCTG
* *
64425584 ACATGGCCATGTCCCAGCCCGTGTCTGACCCTGTGTAACTCTCTG
1 ACATGGCCATGTCCCAGCCTGTGTCTGACCCCGTGTAACTCTCTG
*
64425629 ACATGGCCATGTCCCAGCCTGTGTCTGATCCCGTGTAACTCTCTG
1 ACATGGCCATGTCCCAGCCTGTGTCTGACCCCGTGTAACTCTCTG
64425674 AC
1 AC
64425676 TTAGGTTACA
Statistics
Matches: 86, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 86 1.00
ACGTcount: A:0.16, C:0.36, G:0.22, T:0.26
Consensus pattern (45 bp):
ACATGGCCATGTCCCAGCCTGTGTCTGACCCCGTGTAACTCTCTG
Found at i:64427511 original size:21 final size:20
Alignment explanation
Indices: 64427487--64427525 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
64427477 AAACTTGTAT
64427487 ATCTATCAACAAGCATTCATA
1 ATCTATCAACAAGC-TTCATA
*
64427508 ATCTATCAAGAAGCTTCA
1 ATCTATCAACAAGCTTCA
64427526 AAGTACATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.41, C:0.23, G:0.08, T:0.28
Consensus pattern (20 bp):
ATCTATCAACAAGCTTCATA
Found at i:64434662 original size:42 final size:42
Alignment explanation
Indices: 64434547--64434708 Score: 177
Period size: 42 Copynumber: 3.8 Consensus size: 42
64434537 TACGATACCA
* *
64434547 ATGCCATATCCCAGATATGGTCTTACATGTAA-TCTCATATCG
1 ATGCCATATCCCAGACATGGTCTTACACG-AAGTCTCATATCG
* * *
64434589 ATGCTAATAGCCTAG-CTATGGTCTTACACGAAGTCTCATATCG
1 ATGC-CATATCCCAGAC-ATGGTCTTACACGAAGTCTCATATCG
** *
64434632 ATGCCATATCTTAGACATGGTTTTACACGAAGTCTCATA-CTG
1 ATGCCATATCCCAGACATGGTCTTACACGAAGTCTCATATC-G
* *
64434674 ATGCCATATCCCAGATATGGTCTTACACGTAGTCT
1 ATGCCATATCCCAGACATGGTCTTACACGAAGTCT
64434709 TAGTAACCCT
Statistics
Matches: 101, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
41 1 0.01
42 66 0.65
43 34 0.34
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (42 bp):
ATGCCATATCCCAGACATGGTCTTACACGAAGTCTCATATCG
Found at i:64434677 original size:85 final size:84
Alignment explanation
Indices: 64434547--64434708 Score: 193
Period size: 85 Copynumber: 1.9 Consensus size: 84
64434537 TACGATACCA
* * * *
64434547 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCATATCGATGCTAATAGCCTAGCTATGGTC
1 ATGCCATATCCCAGACATGGTCTTACACGTAATCTCATATCGATGC-AATAGCCCAGATATGGTC
64434612 TTACACGAAGTCTCATATCG
65 TTACACGAAGTCTCATATCG
** * * *
64434632 ATGCCATATCTTAGACATGGTTTTACACG-AAGTCTCATA-CTGATGCCATATCCCAGATATGGT
1 ATGCCATATCCCAGACATGGTCTTACACGTAA-TCTCATATC-GATGCAATAGCCCAGATATGGT
*
64434695 CTTACACGTAGTCT
64 CTTACACGAAGTCT
64434709 TAGTAACCCT
Statistics
Matches: 65, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
84 29 0.45
85 36 0.55
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (84 bp):
ATGCCATATCCCAGACATGGTCTTACACGTAATCTCATATCGATGCAATAGCCCAGATATGGTCT
TACACGAAGTCTCATATCG
Found at i:64435194 original size:22 final size:22
Alignment explanation
Indices: 64435169--64435210 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
64435159 CTACATTTTT
*
64435169 CATTTAATCACACTTTTACACA
1 CATTTAATAACACTTTTACACA
* *
64435191 CATTTTATAACATTTTTACA
1 CATTTAATAACACTTTTACA
64435211 AATTGGTCCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.43
Consensus pattern (22 bp):
CATTTAATAACACTTTTACACA
Found at i:64436626 original size:11 final size:12
Alignment explanation
Indices: 64436603--64436632 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
64436593 AATCAAATGG
64436603 CCAAAATCATTA
1 CCAAAATCATTA
64436615 CCAAAA-CATTA
1 CCAAAATCATTA
64436626 CCAAAAT
1 CCAAAAT
64436633 GACTCAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.53, C:0.27, G:0.00, T:0.20
Consensus pattern (12 bp):
CCAAAATCATTA
Found at i:64437813 original size:21 final size:20
Alignment explanation
Indices: 64437789--64437827 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
64437779 AAACCTATAT
64437789 ATCTATCAACAAAGATTCATA
1 ATCTATCAACAAA-ATTCATA
*
64437810 ATCTATCAAGAAAATTCA
1 ATCTATCAACAAAATTCA
64437828 AATTGCACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.49, C:0.18, G:0.05, T:0.28
Consensus pattern (20 bp):
ATCTATCAACAAAATTCATA
Found at i:64442045 original size:39 final size:39
Alignment explanation
Indices: 64442002--64442090 Score: 142
Period size: 39 Copynumber: 2.3 Consensus size: 39
64441992 TAATTTATTT
64442002 TAGGAGTAGTTCTCTAAATTATAGGAAGTAGAGGGTGAA
1 TAGGAGTAGTTCTCTAAATTATAGGAAGTAGAGGGTGAA
* * *
64442041 TAGGAATAGTTTTCTATATTATAGGAAGTAGAGGGTGAA
1 TAGGAGTAGTTCTCTAAATTATAGGAAGTAGAGGGTGAA
*
64442080 TAAGAGTAGTT
1 TAGGAGTAGTT
64442091 TTACTATTTC
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.36, C:0.03, G:0.29, T:0.31
Consensus pattern (39 bp):
TAGGAGTAGTTCTCTAAATTATAGGAAGTAGAGGGTGAA
Found at i:64453843 original size:42 final size:41
Alignment explanation
Indices: 64453796--64453892 Score: 126
Period size: 40 Copynumber: 2.4 Consensus size: 41
64453786 AGCATTAGCG
*
64453796 TTTCTAAACAAACGCCACTATAGATCG-GACATTAGCGGCGTT
1 TTTCTAAA-AAACGCCACTATAGATCGAG-CATTAGCGGCGCT
* *
64453838 TTTCT-AAAAGCGCCGCTATAGATCGAGCATTAGCGGCGCT
1 TTTCTAAAAAACGCCACTATAGATCGAGCATTAGCGGCGCT
*
64453878 TTTATAAAAAACGCC
1 TTTCTAAAAAACGCC
64453893 GCAAATGCTC
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
40 32 0.67
41 11 0.23
42 5 0.10
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.26
Consensus pattern (41 bp):
TTTCTAAAAAACGCCACTATAGATCGAGCATTAGCGGCGCT
Found at i:64454591 original size:21 final size:21
Alignment explanation
Indices: 64454550--64454592 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
64454540 GGGATTATGG
* *
64454550 GTTTAGGGGTTGTGGTTTAAA
1 GTTTAGGGATTGTGGTGTAAA
64454571 GTTTAGGGATTAGTGG-GTAAA
1 GTTTAGGGATT-GTGGTGTAAA
64454592 G
1 G
64454593 GTTAAGGGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.23, C:0.00, G:0.40, T:0.37
Consensus pattern (21 bp):
GTTTAGGGATTGTGGTGTAAA
Found at i:64454635 original size:29 final size:28
Alignment explanation
Indices: 64454577--64454655 Score: 97
Period size: 29 Copynumber: 2.8 Consensus size: 28
64454567 TAAAGTTTAG
* *
64454577 GGATTAGTGGG-TAAAGGTTAAGGGTTAT
1 GGATTA-TGGGTTTAAGGTTAAGGGTCAT
64454605 GGATTATGGGTTTAAGGATTAAGGGTCAT
1 GGATTATGGGTTTAAGG-TTAAGGGTCAT
*
64454634 GGGTTATGGGTTTAATGGTTAA
1 GGATTATGGGTTTAA-GGTTAA
64454656 AGGGATAGGG
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
27 4 0.09
28 11 0.24
29 28 0.62
30 2 0.04
ACGTcount: A:0.27, C:0.01, G:0.37, T:0.35
Consensus pattern (28 bp):
GGATTATGGGTTTAAGGTTAAGGGTCAT
Found at i:64454715 original size:42 final size:41
Alignment explanation
Indices: 64454645--64454726 Score: 101
Period size: 42 Copynumber: 2.0 Consensus size: 41
64454635 GGTTATGGGT
* **
64454645 TTAATGGTTAAAGGGATAGGGGTTAGGGGTTAATGGGTTTAA
1 TTAATGGTTAAAGGGACAGGGGAAAGGGGTTAAT-GGTTTAA
* * *
64454687 TTAATGGTTAAGGGGACATGGGAAAGGGGTTTATGGTTTA
1 TTAATGGTTAAAGGGACAGGGGAAAGGGGTTAATGGTTTA
64454727 TGAGCTAATT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
41 6 0.18
42 28 0.82
ACGTcount: A:0.28, C:0.01, G:0.38, T:0.33
Consensus pattern (41 bp):
TTAATGGTTAAAGGGACAGGGGAAAGGGGTTAATGGTTTAA
Found at i:64454825 original size:15 final size:15
Alignment explanation
Indices: 64454807--64454848 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
64454797 AGTGGATTAG
64454807 GGTTTAGGGTTTCAT
1 GGTTTAGGGTTTCAT
*
64454822 GGTTTA-GGTATTTAT
1 GGTTTAGGGT-TTCAT
*
64454837 GGTTTGGGGTTT
1 GGTTTAGGGTTT
64454849 AAAGGGTATG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 3 0.13
15 17 0.74
16 3 0.13
ACGTcount: A:0.12, C:0.02, G:0.36, T:0.50
Consensus pattern (15 bp):
GGTTTAGGGTTTCAT
Found at i:64456652 original size:20 final size:20
Alignment explanation
Indices: 64456629--64456667 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
64456619 TAAACATGGT
64456629 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
64456649 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
64456668 TGTATTCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:64456747 original size:25 final size:25
Alignment explanation
Indices: 64456719--64456847 Score: 167
Period size: 25 Copynumber: 5.2 Consensus size: 25
64456709 AGGAAGTGTA
64456719 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
64456744 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
*
64456769 AAAGGGCTTATGCCCCAGTTATTA-
1 AAAGGGCTTATGCCCCAGTTATGAT
*
64456793 AAAGGGCTT-TGCCCCAGTTATTA-
1 AAAGGGCTTATGCCCCAGTTATGAT
*
64456816 AAAGAGGC-TAGGCCTCCAGTTATATGAT
1 AAAG-GGCTTATGCC-CCAG-T-TATGAT
64456844 AAAG
1 AAAG
64456848 TAGCTATGCT
Statistics
Matches: 95, Mismatches: 3, Indels: 9
0.89 0.03 0.08
Matches are distributed among these distances:
23 19 0.20
24 15 0.16
25 52 0.55
26 1 0.01
27 4 0.04
28 4 0.04
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.27
Consensus pattern (25 bp):
AAAGGGCTTATGCCCCAGTTATGAT
Found at i:64457070 original size:31 final size:31
Alignment explanation
Indices: 64457032--64457095 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
64457022 CGTTTATAGT
64457032 AAAGGCTTCAGCCCAGTAATATGAAATATGA
1 AAAGGCTTCAGCCCAGTAATATGAAATATGA
* ** *
64457063 AAAGGCTTCGGCCCAGTGTTATGAAATGTGA
1 AAAGGCTTCAGCCCAGTAATATGAAATATGA
64457094 AA
1 AA
64457096 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCAGCCCAGTAATATGAAATATGA
Found at i:64464617 original size:25 final size:25
Alignment explanation
Indices: 64464588--64464635 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
64464578 TCATAATATG
* * *
64464588 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
64464613 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
64464636 GTTTAAATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:64464719 original size:11 final size:11
Alignment explanation
Indices: 64464683--64464738 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
64464673 CATGGTATGT
64464683 ATGATATGCAC
1 ATGATATGCAC
* *
64464694 ATGACATG--T
1 ATGATATGCAC
64464703 ATGATATGCAC
1 ATGATATGCAC
*
64464714 ATGATATG--T
1 ATGATATGCAC
64464723 ATGATATGCAC
1 ATGATATGCAC
64464734 ATGAT
1 ATGAT
64464739 GTATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:64464738 original size:20 final size:20
Alignment explanation
Indices: 64464672--64464738 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
64464662 ATTTTGATAA
*
64464672 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
64464692 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
64464712 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
64464732 ACATGAT
1 ACATGAT
64464739 GTATTCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:64464853 original size:23 final size:24
Alignment explanation
Indices: 64464787--64464892 Score: 171
Period size: 23 Copynumber: 4.4 Consensus size: 24
64464777 GGAGGAAGTG
64464787 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
64464811 GATAAAGGGCTTATGCCCCAGTTAT
1 TA-AAAGGGCTTATGCCCCAGTTAT
64464836 TAAAAGGGCTTATG-CCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
64464859 TAAAAGGGCTT-TGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
64464882 TAAAAGAGGCT
1 TAAAAG-GGCT
64464893 AGGTCTCCAA
Statistics
Matches: 77, Mismatches: 2, Indels: 6
0.91 0.02 0.07
Matches are distributed among these distances:
22 2 0.03
23 35 0.45
24 17 0.22
25 23 0.30
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (24 bp):
TAAAAGGGCTTATGCCCCAGTTAT
Found at i:64465135 original size:31 final size:31
Alignment explanation
Indices: 64465100--64465163 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
64465090 CGTTTACAGT
64465100 AAAGGCTTCGGCCCAATAATATGAAATATGA
1 AAAGGCTTCGGCCCAATAATATGAAATATGA
* ** *
64465131 AAAGGCTTCGGCCCAGTGTTATGAAATGTGA
1 AAAGGCTTCGGCCCAATAATATGAAATATGA
64465162 AA
1 AA
64465164 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAATAATATGAAATATGA
Found at i:64466080 original size:15 final size:15
Alignment explanation
Indices: 64466060--64466106 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
64466050 AATAATTTAA
64466060 AAATTTAAAGATTTC
1 AAATTTAAAGATTTC
64466075 AAATTTAAA-A--T-
1 AAATTTAAAGATTTC
*
64466086 AAATTTCAAGATTTC
1 AAATTTAAAGATTTC
64466101 AAATTT
1 AAATTT
64466107 TAAATAATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 8
0.75 0.03 0.22
Matches are distributed among these distances:
11 8 0.30
12 2 0.07
14 2 0.07
15 15 0.56
ACGTcount: A:0.49, C:0.06, G:0.04, T:0.40
Consensus pattern (15 bp):
AAATTTAAAGATTTC
Found at i:64466133 original size:26 final size:26
Alignment explanation
Indices: 64466060--64466134 Score: 105
Period size: 26 Copynumber: 2.9 Consensus size: 26
64466050 AATAATTTAA
* *
64466060 AAATTTAAAGATTTCAAATTTAAAAT
1 AAATTTCAAGATTTCAAATTTTAAAT
64466086 AAATTTCAAGATTTCAAATTTTAAAT
1 AAATTTCAAGATTTCAAATTTTAAAT
* **
64466112 AATTTTCATTATTTCAAATTTTA
1 AAATTTCAAGATTTCAAATTTTA
64466135 TCTAATTCTT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 44 1.00
ACGTcount: A:0.45, C:0.07, G:0.03, T:0.45
Consensus pattern (26 bp):
AAATTTCAAGATTTCAAATTTTAAAT
Found at i:64466280 original size:18 final size:17
Alignment explanation
Indices: 64466249--64466283 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
64466239 TAGTTGATTG
*
64466249 TTTTTTAATTTATATTA
1 TTTTTAAATTTATATTA
64466266 TTTTTAAATTATATATTA
1 TTTTTAAATT-TATATTA
64466284 AATAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTTTAAATTTATATTA
Found at i:64466824 original size:13 final size:13
Alignment explanation
Indices: 64466792--64466823 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
64466782 CTTAAGTGTT
64466792 TTTCCCCTAAAAC
1 TTTCCCCTAAAAC
64466805 TTTCCCCTAAAA-
1 TTTCCCCTAAAAC
64466817 TTTCCCC
1 TTTCCCC
64466824 CCTAACCCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.25, C:0.41, G:0.00, T:0.34
Consensus pattern (13 bp):
TTTCCCCTAAAAC
Found at i:64469806 original size:10 final size:10
Alignment explanation
Indices: 64469791--64469818 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
64469781 TTCAATCAAG
64469791 GTATGAATAA
1 GTATGAATAA
64469801 GTATGAATAA
1 GTATGAATAA
64469811 GTATGAAT
1 GTATGAAT
64469819 TAATTTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.21, T:0.32
Consensus pattern (10 bp):
GTATGAATAA
Found at i:64470267 original size:244 final size:244
Alignment explanation
Indices: 64469838--64470323 Score: 902
Period size: 244 Copynumber: 2.0 Consensus size: 244
64469828 TACCATGTAG
*
64469838 CTTGCTTGTCCATTAAAATTACAACAATAGTTGACCTTCTCTCCAACCTTATTTTAAATATTTTA
1 CTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTA
* *
64469903 AAGATTCAAAGTATATAGGCTGGAAACCTGATGGGTTGCCTTATATCGAGCTGTAAGATATAATG
66 AAGATTCAAAGTATATAGGCTGGAAACCTAACGGGTTGCCTTATATCGAGCTGTAAGATATAATG
*
64469968 GATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAGTATCAAAAAGACTTGAAAA
131 GATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAATATCAAAAAGACTTGAAAA
*
64470033 AAGTTCTATCGTGCTCATTTACTATTGAATATTTATATAACCTTAATAC
196 AAGTTCTATCGAGCTCATTTACTATTGAATATTTATATAACCTTAATAC
64470082 CTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTA
1 CTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTA
64470147 AAGATTCAAAGTATATAGGCTGGAAACCTAACGGGTTGCCTTATATCGAGCTGTAAGATATAATG
66 AAGATTCAAAGTATATAGGCTGGAAACCTAACGGGTTGCCTTATATCGAGCTGTAAGATATAATG
*
64470212 GATCCTCCCTAGTTGTAACAACGCCACGTATGATGAATCTTAAAAA-ATTCAAAAAGACTTGAAA
131 GATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAATA-TCAAAAAGACTTGAAA
64470276 AAAGTTCTATCGAGCTCATTTACTATTGAATATTTATATAACCTTAAT
195 AAAGTTCTATCGAGCTCATTTACTATTGAATATTTATATAACCTTAAT
64470324 TTATTTTAAA
Statistics
Matches: 235, Mismatches: 6, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
243 1 0.00
244 234 1.00
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.33
Consensus pattern (244 bp):
CTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTA
AAGATTCAAAGTATATAGGCTGGAAACCTAACGGGTTGCCTTATATCGAGCTGTAAGATATAATG
GATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAATATCAAAAAGACTTGAAAA
AAGTTCTATCGAGCTCATTTACTATTGAATATTTATATAACCTTAATAC
Found at i:64470773 original size:9 final size:9
Alignment explanation
Indices: 64470750--64470877 Score: 121
Period size: 9 Copynumber: 13.6 Consensus size: 9
64470740 ATTGATCATT
*
64470750 ACTTAAATA
1 ACTTACATA
*
64470759 AATTACATA
1 ACTTACATA
64470768 ACTTACATA
1 ACTTACATA
* *
64470777 ACTCATATA
1 ACTTACATA
64470786 ACTTACATA
1 ACTTACATA
*
64470795 ATTTACATAACA
1 ACTTACAT---A
64470807 ACTTACATA
1 ACTTACATA
*
64470816 ACTCACATA
1 ACTTACATA
64470825 ACTTACATA
1 ACTTACATA
*
64470834 ATTTACATA
1 ACTTACATA
*
64470843 ACTCACATA
1 ACTTACATA
*
64470852 ACGTACATAACA
1 ACTTACAT---A
64470864 ACTTACATA
1 ACTTACATA
64470873 ACTTA
1 ACTTA
64470878 ACTAATACAT
Statistics
Matches: 96, Mismatches: 17, Indels: 12
0.77 0.14 0.10
Matches are distributed among these distances:
9 80 0.83
12 16 0.17
ACGTcount: A:0.47, C:0.21, G:0.01, T:0.31
Consensus pattern (9 bp):
ACTTACATA
Found at i:64470819 original size:39 final size:39
Alignment explanation
Indices: 64470767--64470844 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
64470757 TAAATTACAT
*
64470767 AACTTACATAACTCATATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
64470806 AACTTACATAACTCACATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
64470845 TCACATAACG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (39 bp):
AACTTACATAACTCACATAACTTACATAATTTACATAAC
Found at i:64470844 original size:57 final size:57
Alignment explanation
Indices: 64470763--64470875 Score: 172
Period size: 57 Copynumber: 2.0 Consensus size: 57
64470753 TAAATAAATT
* * **
64470763 ACATAACTTACATAACTCATATAACTTACATAATTTACATAACAACTTACATAACTC
1 ACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACTTACATAACTC
* *
64470820 ACATAACTTACATAATTTACATAACTCACATAACGTACATAACAACTTACATAACT
1 ACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACTTACATAACT
64470876 TAACTAATAC
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
57 50 1.00
ACGTcount: A:0.46, C:0.23, G:0.01, T:0.30
Consensus pattern (57 bp):
ACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACTTACATAACTC
Found at i:64473984 original size:40 final size:40
Alignment explanation
Indices: 64473916--64474092 Score: 207
Period size: 40 Copynumber: 4.5 Consensus size: 40
64473906 ACCCAAGTAT
**
64473916 CTTCGGGAT-TTAG-CCGGATATAAAAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
64473955 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * *
64473995 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* * * * *
64474035 CTTCGGGACATAGCCCAGATTTAGCAACTCGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* *
64474075 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
64474093 TTATCATCCG
Statistics
Matches: 116, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
38 1 0.01
39 13 0.11
40 100 0.86
41 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:64474049 original size:80 final size:79
Alignment explanation
Indices: 64473916--64474092 Score: 230
Period size: 80 Copynumber: 2.2 Consensus size: 79
64473906 ACCCAAGTAT
* * * *
64473916 CTTCGGGAT-TTAGCCGGATATAAAAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGC
1 CTTCGGG-TCTTAGCCGGATATAAAAACTAGCACAAATGCCTTCGGGACATAGCCCAGATATAGC
64473980 AACTCGCACAAATGC
65 AACTCGCACAAATGC
** * *
64473995 CTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGACATAGCCCAGATTTAGC
1 CTTCGGGTCTTAG-CCGGATATAAAAACTAGCACAAATGCCTTCGGGACATAGCCCAGATATAGC
*
64474060 AACTCGCACGAATGC
65 AACTCGCACAAATGC
*
64474075 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAG-CCGG
64474093 TTATCATCCG
Statistics
Matches: 85, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
78 1 0.01
79 11 0.13
80 73 0.86
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (79 bp):
CTTCGGGTCTTAGCCGGATATAAAAACTAGCACAAATGCCTTCGGGACATAGCCCAGATATAGCA
ACTCGCACAAATGC
Found at i:64497014 original size:40 final size:40
Alignment explanation
Indices: 64496959--64497053 Score: 172
Period size: 40 Copynumber: 2.4 Consensus size: 40
64496949 TATGTGCATA
64496959 GCATTCGTGCAGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCAGGTTATTATAACCGGGTTAAGTCCCGAAG
*
64496999 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCAGGTTATTATAACCGGGTTAAGTCCCGAAG
*
64497039 GCATTCGTGCTGGTT
1 GCATTCGTGCAGGTT
64497054 GTTACATCCG
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 53 1.00
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.29
Consensus pattern (40 bp):
GCATTCGTGCAGGTTATTATAACCGGGTTAAGTCCCGAAG
Found at i:64502974 original size:41 final size:41
Alignment explanation
Indices: 64502917--64502998 Score: 123
Period size: 41 Copynumber: 2.0 Consensus size: 41
64502907 TACCACTAAA
*
64502917 TGTAACACCCCAAACCC-G-ACCTAGACGTTATGGCTGAATCT
1 TGTAACACCCCAAACCCAGCA-C-AGACGTTATGGCCGAATCT
64502958 TGTAACACCCCAAACCCAGCACAGACGTTATGGCCGAATCT
1 TGTAACACCCCAAACCCAGCACAGACGTTATGGCCGAATCT
64502999 GATGTGTCAT
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
41 35 0.92
42 2 0.05
43 1 0.03
ACGTcount: A:0.30, C:0.33, G:0.17, T:0.20
Consensus pattern (41 bp):
TGTAACACCCCAAACCCAGCACAGACGTTATGGCCGAATCT
Found at i:64504048 original size:11 final size:11
Alignment explanation
Indices: 64504034--64504087 Score: 67
Period size: 11 Copynumber: 5.1 Consensus size: 11
64504024 ATATATCATA
64504034 GCATATCATGT
1 GCATATCATGT
*
64504045 GCATATCAT-A
1 GCATATCATGT
*
64504055 ACATATCATGT
1 GCATATCATGT
*
64504066 GCATATCACGT
1 GCATATCATGT
64504077 -CATATCATGT
1 GCATATCATGT
64504087 G
1 G
64504088 TATCAGTGTT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
10 17 0.49
11 18 0.51
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.33
Consensus pattern (11 bp):
GCATATCATGT
Found at i:64504050 original size:21 final size:21
Alignment explanation
Indices: 64504026--64504087 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
64504016 TATAGTGAAT
64504026 ATATCATAGCATATCATGTGC
1 ATATCATAGCATATCATGTGC
*
64504047 ATATCATAACATATCATGTGC
1 ATATCATAGCATATCATGTGC
*
64504068 ATATCA-CGTCATATCATGTG
1 ATATCATAG-CATATCATGTG
64504088 TATCAGTGTT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.34, C:0.19, G:0.13, T:0.34
Consensus pattern (21 bp):
ATATCATAGCATATCATGTGC
Found at i:64511945 original size:11 final size:11
Alignment explanation
Indices: 64511931--64511984 Score: 67
Period size: 11 Copynumber: 5.1 Consensus size: 11
64511921 ATATATCATA
64511931 GCATATCATGT
1 GCATATCATGT
*
64511942 GCATATCAT-A
1 GCATATCATGT
*
64511952 ACATATCATGT
1 GCATATCATGT
*
64511963 GCATATCACGT
1 GCATATCATGT
64511974 -CATATCATGT
1 GCATATCATGT
64511984 G
1 G
64511985 TATCAGTGTT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
10 17 0.49
11 18 0.51
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.33
Consensus pattern (11 bp):
GCATATCATGT
Found at i:64511947 original size:21 final size:21
Alignment explanation
Indices: 64511923--64511984 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
64511913 TATAGTGAAT
64511923 ATATCATAGCATATCATGTGC
1 ATATCATAGCATATCATGTGC
*
64511944 ATATCATAACATATCATGTGC
1 ATATCATAGCATATCATGTGC
*
64511965 ATATCA-CGTCATATCATGTG
1 ATATCATAG-CATATCATGTG
64511985 TATCAGTGTT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.34, C:0.19, G:0.13, T:0.34
Consensus pattern (21 bp):
ATATCATAGCATATCATGTGC
Found at i:64522503 original size:26 final size:28
Alignment explanation
Indices: 64522459--64522510 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
64522449 TACAAGGGTA
64522459 TTACGGTCACTTTACCCTA-TAGGGGCT
1 TTACGGTCACTTTACCCTATTAGGGGCT
**
64522486 TTACGGTCTTTTTA-CCTATTAGGGG
1 TTACGGTCACTTTACCCTATTAGGGG
64522511 TATTTTAGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.17, C:0.21, G:0.23, T:0.38
Consensus pattern (28 bp):
TTACGGTCACTTTACCCTATTAGGGGCT
Found at i:64522606 original size:27 final size:27
Alignment explanation
Indices: 64522540--64522740 Score: 160
Period size: 27 Copynumber: 7.4 Consensus size: 27
64522530 TACAATGGTG
* * *
64522540 TTTTGGTAAATCTACAAATCAAGGGTA
1 TTTTGGTAATTTTACAAATCAGGGGTA
**
64522567 TTTCT-GTAATTTTGTAAATCAGGGGTA
1 TTT-TGGTAATTTTACAAATCAGGGGTA
* *
64522594 TTTTGGTACTTTTACAAAT-TGAGGGTA
1 TTTTGGTAATTTTACAAATCAG-GGGTA
* * *
64522621 TTTTGGTAATTTCACAAACCAGTGGTA
1 TTTTGGTAATTTTACAAATCAGGGGTA
* * *
64522648 TTTTGGTAATTTTACTAA-CTAGGGATG
1 TTTTGGTAATTTTACAAATC-AGGGGTA
64522675 TTTTGGTAATTTTACAAA-CTAGGGGTA
1 TTTTGGTAATTTTACAAATC-AGGGGTA
* * **
64522702 TTATGGTAATTCTATCCTA-CAGGGGTA
1 TTTTGGTAATTTTA-CAAATCAGGGGTA
*
64522729 TTTTAGTAATTT
1 TTTTGGTAATTT
64522741 CGCAATCGAG
Statistics
Matches: 139, Mismatches: 29, Indels: 12
0.77 0.16 0.07
Matches are distributed among these distances:
26 3 0.02
27 131 0.94
28 5 0.04
ACGTcount: A:0.28, C:0.09, G:0.20, T:0.42
Consensus pattern (27 bp):
TTTTGGTAATTTTACAAATCAGGGGTA
Found at i:64522648 original size:81 final size:81
Alignment explanation
Indices: 64522563--64522712 Score: 189
Period size: 81 Copynumber: 1.9 Consensus size: 81
64522553 ACAAATCAAG
* * * * *
64522563 GGTATTTCT-GTAATTTT-GTAAATCAGGGGTATTTTGGTACTTTTACAAA-TTGAGGGTATTTT
1 GGTATTT-TGGTAATTTTACTAAAT-AGGGATATTTTGGTAATTTTACAAACTAG-GGGTATTAT
64522625 GGTAATTTCACAAACCAGT
63 GGTAATTTCACAAACCAGT
* *
64522644 GGTATTTTGGTAATTTTACTAACTAGGGATGTTTTGGTAATTTTACAAACTAGGGGTATTATGGT
1 GGTATTTTGGTAATTTTACTAAATAGGGATATTTTGGTAATTTTACAAACTAGGGGTATTATGGT
64522709 AATT
66 AATT
64522713 CTATCCTACA
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
80 1 0.02
81 52 0.88
82 6 0.10
ACGTcount: A:0.27, C:0.08, G:0.22, T:0.43
Consensus pattern (81 bp):
GGTATTTTGGTAATTTTACTAAATAGGGATATTTTGGTAATTTTACAAACTAGGGGTATTATGGT
AATTTCACAAACCAGT
Found at i:64522778 original size:27 final size:27
Alignment explanation
Indices: 64522744--64522941 Score: 220
Period size: 27 Copynumber: 7.3 Consensus size: 27
64522734 GTAATTTCGC
* *
64522744 AATCGAGGGTAAAACAGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTATA
* *
64522771 AA-CTGAGGGTAAAACGATAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTTTATA
* * *
64522798 AA-CTGAGGGTAAAATGGTTATTTTACA
1 AATC-GAGGGTAAAACGGTAATTTTATA
*
64522825 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTATA
* * *
64522852 AATCGAAGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTATA
*
64522879 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTATA
* * * *
64522906 AATCGAGGGTGAAATGGTAATTCTACA
1 AATCGAGGGTAAAACGGTAATTTTATA
64522933 AATCGAGGG
1 AATCGAGGG
64522942 CATTTCAGTA
Statistics
Matches: 147, Mismatches: 22, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
26 1 0.01
27 145 0.99
28 1 0.01
ACGTcount: A:0.39, C:0.09, G:0.24, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTTTATA
Found at i:64522961 original size:54 final size:54
Alignment explanation
Indices: 64522744--64522941 Score: 247
Period size: 54 Copynumber: 3.7 Consensus size: 54
64522734 GTAATTTCGC
** * ** *
64522744 AATCGAGGGTAAAACAGTAATTTTGTAAA-CTGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTACAAATC-GAGGGTAAAACGGTAATTTTGTA
* * * *
64522798 AA-CTGAGGGTAAAATGGTTATTTTACAAATCGAGGGTAAAACGGTAATTCTATA
1 AATC-GAGGGTAAAATGGTAATTCTACAAATCGAGGGTAAAACGGTAATTTTGTA
* *
64522852 AATCGAAGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTACAAATCGAGGGTAAAACGGTAATTTTGTA
*
64522906 AATCGAGGGTGAAATGGTAATTCTACAAATCGAGGG
1 AATCGAGGGTAAAATGGTAATTCTACAAATCGAGGG
64522942 CATTTCAGTA
Statistics
Matches: 124, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
53 1 0.01
54 121 0.98
55 2 0.02
ACGTcount: A:0.39, C:0.09, G:0.24, T:0.28
Consensus pattern (54 bp):
AATCGAGGGTAAAATGGTAATTCTACAAATCGAGGGTAAAACGGTAATTTTGTA
Found at i:64525214 original size:31 final size:31
Alignment explanation
Indices: 64525174--64525319 Score: 249
Period size: 31 Copynumber: 4.7 Consensus size: 31
64525164 TTAGTCTTGA
*
64525174 CATAT-ACTGGGCTGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
64525204 CATATCACTGGACCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
64525235 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
64525266 CATATCACTGGGCCAAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
64525297 CATTTCACTGGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
64525320 ACTGTAAATG
Statistics
Matches: 109, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 5 0.05
31 104 0.95
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:64525394 original size:42 final size:42
Alignment explanation
Indices: 64525343--64525433 Score: 121
Period size: 42 Copynumber: 2.2 Consensus size: 42
64525333 TGGCCCATAG
* ** *
64525343 GCCCA-TTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
* *
64525384 GCTCATTTCAATATCATATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
64525426 GCCCATTT
1 GCCCATTT
64525434 GGGGAGACTA
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
41 4 0.10
42 38 0.90
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.31
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:64525614 original size:25 final size:26
Alignment explanation
Indices: 64525566--64525701 Score: 163
Period size: 26 Copynumber: 5.3 Consensus size: 26
64525556 CTAGAGGCCT
*
64525566 AGCCTCTTTT-AAT-AACTGGAGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
***
64525590 AGCCCTTTTTGGTAAACTGGGGCA-A
1 AGCCCTTTTCAATAAACTGGGGCATA
* *
64525615 AGCCCTTTTCAATAAACTCGGTCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
*
64525641 AGCCCTTTTCAGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
*
64525667 AGCCCTTTTCAATAAACTAGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
64525693 AGCCCTTTT
1 AGCCCTTTT
64525702 GAACTTCCTC
Statistics
Matches: 96, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
23 5 0.05
24 5 0.05
25 29 0.30
26 57 0.59
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:64525644 original size:51 final size:52
Alignment explanation
Indices: 64525566--64525701 Score: 183
Period size: 52 Copynumber: 2.7 Consensus size: 52
64525556 CTAGAGGCCT
**
64525566 AGCCTCTTTT-AAT-AACT-GGAGCA-AAGCCCTTTTTGGTAAACTGGGGCA-A
1 AGCC-CTTTTCAATAAACTAGG-GCATAAGCCCTTTTCAGTAAACTGGGGCATA
* *
64525615 AGCCCTTTTCAATAAACTCGGTCATAAGCCCTTTTCAGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTAGGGCATAAGCCCTTTTCAGTAAACTGGGGCATA
64525667 AGCCCTTTTCAATAAACTAGGGCATAAGCCCTTTT
1 AGCCCTTTTCAATAAACTAGGGCATAAGCCCTTTT
64525702 GAACTTCCTC
Statistics
Matches: 77, Mismatches: 5, Indels: 7
0.87 0.06 0.08
Matches are distributed among these distances:
48 5 0.06
49 7 0.09
50 6 0.08
51 25 0.32
52 34 0.44
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (52 bp):
AGCCCTTTTCAATAAACTAGGGCATAAGCCCTTTTCAGTAAACTGGGGCATA
Found at i:64525776 original size:20 final size:20
Alignment explanation
Indices: 64525751--64525817 Score: 100
Period size: 20 Copynumber: 3.4 Consensus size: 20
64525741 TTATGAATAC
*
64525751 ATCATGTGTATTTCATACAT
1 ATCATGTGCATTTCATACAT
64525771 ATCATGTGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
*
64525791 ATCATGTGCATATCATATCA-
1 ATCATGTGCATTTCATA-CAT
64525811 ATCATGT
1 ATCATGT
64525818 ATATCATATC
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
20 42 0.95
21 2 0.05
ACGTcount: A:0.31, C:0.18, G:0.10, T:0.40
Consensus pattern (20 bp):
ATCATGTGCATTTCATACAT
Found at i:64526707 original size:81 final size:80
Alignment explanation
Indices: 64526622--64526779 Score: 180
Period size: 81 Copynumber: 2.0 Consensus size: 80
64526612 TTATCCTACA
* * * *
64526622 AGGGTGTTTTGGTAAATCT-ACAAATCAAG-GGTATTTCT-GTAATTTT-GTAAATTAGGGGTAT
1 AGGGTATTTCGGT-AATCTCACAAA-CAAGTGGTATTT-TGGTAATTTTACT-AACTAGGGGTAT
64526683 TTTGGTAATTTTACAAATTG
62 TTTGGTAA-TTTACAAATTG
* * *
64526703 AGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTTGGTAATTTTACTAACTAGGGGTGTTTTG
1 AGGGTATTTCGGTAATCTCACAAACAAGTGGTATTTTGGTAATTTTACTAACTAGGGGTATTTTG
64526768 GTAATTTACAAA
66 GTAATTTACAAA
64526780 CTAGGGGTAC
Statistics
Matches: 66, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
80 16 0.24
81 49 0.74
82 1 0.02
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.41
Consensus pattern (80 bp):
AGGGTATTTCGGTAATCTCACAAACAAGTGGTATTTTGGTAATTTTACTAACTAGGGGTATTTTG
GTAATTTACAAATTG
Found at i:64526782 original size:26 final size:27
Alignment explanation
Indices: 64526623--64526798 Score: 155
Period size: 27 Copynumber: 6.6 Consensus size: 27
64526613 TATCCTACAA
* * * *
64526623 GGGTGTTTTGGTAAATCTACAAA-TCAA
1 GGGTATTTTGGTAATTTTACAAACT-AG
** *
64526650 GGGTATTTCT-GTAATTTTGTAAATTAG
1 GGGTATTT-TGGTAATTTTACAAACTAG
*
64526677 GGGTATTTTGGTAATTTTACAAA-TTG
1 GGGTATTTTGGTAATTTTACAAACTAG
* * *
64526703 AGGGTATTTCGGTAATTTCACAAACCAG
1 -GGGTATTTTGGTAATTTTACAAACTAG
* *
64526731 TGGTATTTTGGTAATTTTACTAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
*
64526758 GGGTGTTTTGGTAA-TTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
*
64526784 GGGTA-CTTGGTAATT
1 GGGTATTTTGGTAATT
64526799 CTATCCTACA
Statistics
Matches: 120, Mismatches: 23, Indels: 13
0.77 0.15 0.08
Matches are distributed among these distances:
25 7 0.06
26 19 0.16
27 91 0.76
28 3 0.03
ACGTcount: A:0.28, C:0.09, G:0.23, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:64526863 original size:27 final size:27
Alignment explanation
Indices: 64526830--64526969 Score: 190
Period size: 27 Copynumber: 5.2 Consensus size: 27
64526820 AATTTACATT
*
64526830 GAGGGTAAAATGGTAATTTTGTAAATC
1 GAGGGTAAAATGGTAATTCTGTAAATC
*
64526857 GAGGGTAAAACGGTAATTCTGTAAATC
1 GAGGGTAAAATGGTAATTCTGTAAATC
* * *
64526884 GAAGGTAAAATGGTAATTCTATAAATT
1 GAGGGTAAAATGGTAATTCTGTAAATC
* *
64526911 GAGGGTAAAACGGTAATTTTGTAAATC
1 GAGGGTAAAATGGTAATTCTGTAAATC
* **
64526938 GAGGGTGAAATGGTAATTCTACAAATC
1 GAGGGTAAAATGGTAATTCTGTAAATC
64526965 GAGGG
1 GAGGG
64526970 CATTTCAGTA
Statistics
Matches: 97, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 97 1.00
ACGTcount: A:0.38, C:0.07, G:0.26, T:0.29
Consensus pattern (27 bp):
GAGGGTAAAATGGTAATTCTGTAAATC
Found at i:64526894 original size:54 final size:54
Alignment explanation
Indices: 64526833--64526969 Score: 211
Period size: 54 Copynumber: 2.5 Consensus size: 54
64526823 TTACATTGAG
* *
64526833 GGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAA
1 GGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAA
* * *
64526887 GGTAAAATGGTAATTCTATAAATTGAGGGTAAAACGGTAATTTTGTAAATCGAG
1 GGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAA
* *
64526941 GGTGAAATGGTAATTCTACAAATCGAGGG
1 GGTAAAATGGTAATTCTATAAATCGAGGG
64526970 CATTTCAGTA
Statistics
Matches: 75, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 75 1.00
ACGTcount: A:0.38, C:0.07, G:0.26, T:0.29
Consensus pattern (54 bp):
GGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAA
Found at i:64526981 original size:54 final size:54
Alignment explanation
Indices: 64526833--64526989 Score: 170
Period size: 54 Copynumber: 2.9 Consensus size: 54
64526823 TTACATTGAG
* ** * * *
64526833 GGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAA
1 GGTAAAATGGTAATTCTACAAATCGAGGGCAAAACAGTAATTTTGTAAATCGAA
* * * * *
64526887 GGTAAAATGGTAATTCTATAAATTGAGGGTAAAACGGTAATTTTGTAAATCGAG
1 GGTAAAATGGTAATTCTACAAATCGAGGGCAAAACAGTAATTTTGTAAATCGAA
* *** *
64526941 GGTGAAATGGTAATTCTACAAATCGAGGGCATTTCAGTAATTTGGTAAA
1 GGTAAAATGGTAATTCTACAAATCGAGGGCAAAACAGTAATTTTGTAAA
64526990 CTAAAGTATT
Statistics
Matches: 89, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 89 1.00
ACGTcount: A:0.38, C:0.08, G:0.24, T:0.31
Consensus pattern (54 bp):
GGTAAAATGGTAATTCTACAAATCGAGGGCAAAACAGTAATTTTGTAAATCGAA
Found at i:64529234 original size:31 final size:31
Alignment explanation
Indices: 64529191--64529305 Score: 205
Period size: 31 Copynumber: 3.7 Consensus size: 31
64529181 TTAGTCTTGA
64529191 CATAT-ACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
64529221 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
64529252 CATATCACTGGGCTGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
64529283 CATTTCACTGGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
64529306 ACTGTAAACG
Statistics
Matches: 81, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
30 5 0.06
31 76 0.94
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.30
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:64529379 original size:42 final size:42
Alignment explanation
Indices: 64529329--64529420 Score: 130
Period size: 42 Copynumber: 2.2 Consensus size: 42
64529319 TGGCCCATAG
* ** *
64529329 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
* *
64529371 GCTCATTTCAATATCATATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
64529413 GCCCATTT
1 GCCCATTT
64529421 GGGGAGACTA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.32
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:64529637 original size:26 final size:26
Alignment explanation
Indices: 64529553--64529688 Score: 172
Period size: 26 Copynumber: 5.3 Consensus size: 26
64529543 CTGGAGGCCT
*
64529553 AGCCTCTTTT-AAT-AACTGGAGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
**
64529577 AGCCCTTTTCGGTAAACTGGGGCA-A
1 AGCCCTTTTCAATAAACTGGGGCATA
64529602 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
**
64529628 AGCCCTTTTCGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
**
64529654 AGCCCTTTTCAATAAACAAGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
64529680 AGCCCTTTT
1 AGCCCTTTT
64529689 ACACTTCCTC
Statistics
Matches: 98, Mismatches: 11, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
23 5 0.05
24 5 0.05
25 32 0.33
26 56 0.57
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.27
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:64529679 original size:52 final size:51
Alignment explanation
Indices: 64529576--64529688 Score: 199
Period size: 52 Copynumber: 2.2 Consensus size: 51
64529566 AACTGGAGCA
**
64529576 AAGCCCTTTTCGGTAAACTGGGGCAAAGCCCTTTTCAATAAACTGGGGCAT
1 AAGCCCTTTTCGGTAAACTGGGGCAAAGCCCTTTTCAATAAACAAGGGCAT
64529627 AAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATAAACAAGGGCAT
1 AAGCCCTTTTCGGTAAACTGGGGCA-AAGCCCTTTTCAATAAACAAGGGCAT
64529679 AAGCCCTTTT
1 AAGCCCTTTT
64529689 ACACTTCCTC
Statistics
Matches: 59, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
51 25 0.42
52 34 0.58
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (51 bp):
AAGCCCTTTTCGGTAAACTGGGGCAAAGCCCTTTTCAATAAACAAGGGCAT
Found at i:64529767 original size:20 final size:20
Alignment explanation
Indices: 64529738--64529788 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
64529728 TTATGAATAC
64529738 ATCATATGCATTTCATACAT
1 ATCATATGCATTTCATACAT
* *
64529758 ATCATGTGCATTTTATACAT
1 ATCATATGCATTTCATACAT
*
64529778 ACCATATGCAT
1 ATCATATGCAT
64529789 ATCACATCAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.33, C:0.20, G:0.08, T:0.39
Consensus pattern (20 bp):
ATCATATGCATTTCATACAT
Found at i:64530675 original size:54 final size:54
Alignment explanation
Indices: 64530614--64530819 Score: 173
Period size: 54 Copynumber: 3.8 Consensus size: 54
64530604 TACAAGAGTG
* *** *
64530614 TTTTGGTAAATCTACAAATCAAGGGTATTTCTGTAATTTTGTAAATCAGGGGTA
1 TTTTGGTAAATCTACAAATCAAGGGTATTTCGGTAATTTCACAAACCAGGGGTA
* * ** *
64530668 TTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAGTGGTA
1 TTTTGGTAAATCTACAAATCAAGGGTATTTCGGTAATTTCACAAACCAGGGGTA
* * * * * * *
64530722 TTTTGGTAATTTTACTAA-CTAAGGGTGTTTTGGTAATTTTACAAACTAGGGGTA
1 TTTTGGTAAATCTACAAATC-AAGGGTATTTCGGTAATTTCACAAACCAGGGGTA
* * ** * *
64530776 TTGTGGTAATTCTATCCTA-CAGGGGTATTTCAGTAATTTCACAA
1 TTTTGGTAAATCTA-CAAATCAAGGGTATTTCGGTAATTTCACAA
64530820 TTGAGGGTAA
Statistics
Matches: 123, Mismatches: 27, Indels: 4
0.80 0.18 0.03
Matches are distributed among these distances:
54 120 0.98
55 3 0.02
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.40
Consensus pattern (54 bp):
TTTTGGTAAATCTACAAATCAAGGGTATTTCGGTAATTTCACAAACCAGGGGTA
Found at i:64530768 original size:27 final size:27
Alignment explanation
Indices: 64530614--64530786 Score: 156
Period size: 27 Copynumber: 6.4 Consensus size: 27
64530604 TACAAGAGTG
* *
64530614 TTTTGGTAAATCTACAAA-TCAAGGGTA
1 TTTTGGTAATTTTACAAACT-AAGGGTA
** *
64530641 TTTCT-GTAATTTTGTAAA-TCAGGGGTA
1 TTT-TGGTAATTTTACAAACT-AAGGGTA
* *
64530668 TTTTGGTAATTTTACAAATTGAGGGTA
1 TTTTGGTAATTTTACAAACTAAGGGTA
* * *
64530695 TTTCGGTAATTTCACAAAC-CAGTGGTA
1 TTTTGGTAATTTTACAAACTAAG-GGTA
* *
64530722 TTTTGGTAATTTTACTAACTAAGGGTG
1 TTTTGGTAATTTTACAAACTAAGGGTA
*
64530749 TTTTGGTAATTTTACAAACTAGGGGTA
1 TTTTGGTAATTTTACAAACTAAGGGTA
*
64530776 TTGTGGTAATT
1 TTTTGGTAATT
64530787 CTATCCTACA
Statistics
Matches: 119, Mismatches: 22, Indels: 10
0.79 0.15 0.07
Matches are distributed among these distances:
26 3 0.03
27 112 0.94
28 4 0.03
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (27 bp):
TTTTGGTAATTTTACAAACTAAGGGTA
Found at i:64530803 original size:81 final size:81
Alignment explanation
Indices: 64530627--64530814 Score: 179
Period size: 81 Copynumber: 2.3 Consensus size: 81
64530617 TGGTAAATCT
* * * * * * *
64530627 ACAAATCAAGGGTATTTCTGTAATTTT-GTAAATCAGGGGTATTTTGGTAATTTTACAAATTGAG
1 ACAAACCAGGGGTATTTCAGTAATTTTACTAACT-AAGGGTATTTTGGTAATTTTACAAATAGAG
64530691 GGTATTTCGGTAATTTC
65 GGTATTTCGGTAATTTC
* ** *
64530708 ACAAACCAGTGGTATTTTGGTAATTTTACTAACTAAGGGTGTTTTGGTAATTTTACAAACTAG-G
1 ACAAACCAGGGGTATTTCAGTAATTTTACTAACTAAGGGTATTTTGGTAATTTTACAAA-TAGAG
64530772 GGTATTGT-GGTAA-TTC
65 GGTATT-TCGGTAATTTC
**
64530788 TATCCTA-CAGGGGTATTTCAGTAATTT
1 -A-CAAACCAGGGGTATTTCAGTAATTT
64530815 CACAATTGAG
Statistics
Matches: 87, Mismatches: 15, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
80 3 0.03
81 75 0.86
82 9 0.10
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.40
Consensus pattern (81 bp):
ACAAACCAGGGGTATTTCAGTAATTTTACTAACTAAGGGTATTTTGGTAATTTTACAAATAGAGG
GTATTTCGGTAATTTC
Found at i:64530856 original size:27 final size:27
Alignment explanation
Indices: 64530822--64530966 Score: 182
Period size: 27 Copynumber: 5.4 Consensus size: 27
64530812 TTTCACAATT
* *
64530822 GAGGGTAAAACGGTAATTTTTTAGATC
1 GAGGGTAAAACGGTAATTTTGTAAATC
* ** *
64530849 AAGGGTAAAATAGTAATTCTGTAAATC
1 GAGGGTAAAACGGTAATTTTGTAAATC
* *
64530876 GAGGGTAAAATGGTAATTTTATAAATC
1 GAGGGTAAAACGGTAATTTTGTAAATC
64530903 GAGGGTAAAACGGTAATTTTGTAAATC
1 GAGGGTAAAACGGTAATTTTGTAAATC
* * *
64530930 GAGGGTGAAACGGTAATTCTATAAATC
1 GAGGGTAAAACGGTAATTTTGTAAATC
*
64530957 GATGGTAAAA
1 GAGGGTAAAA
64530967 TGATAATTCT
Statistics
Matches: 101, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 101 1.00
ACGTcount: A:0.39, C:0.07, G:0.24, T:0.30
Consensus pattern (27 bp):
GAGGGTAAAACGGTAATTTTGTAAATC
Found at i:64530935 original size:81 final size:81
Alignment explanation
Indices: 64530822--64530988 Score: 226
Period size: 81 Copynumber: 2.1 Consensus size: 81
64530812 TTTCACAATT
* * * *
64530822 GAGGGTAAAACGGTAATTTTTTAGATCAAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAAT
1 GAGGGTAAAACGGTAATTTTGTAAATCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAAT
* * *
64530887 GGTAATTTTATAAATC
66 GATAATTCTACAAATC
* * * *
64530903 GAGGGTAAAACGGTAATTTTGTAAATCGAGGGTGAAACGGTAATTCTATAAATCGATGGTAAAAT
1 GAGGGTAAAACGGTAATTTTGTAAATCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAAT
64530968 GATAATTCTACAAATC
66 GATAATTCTACAAATC
*
64530984 AAGGG
1 GAGGG
64530989 CATTTCAGTA
Statistics
Matches: 74, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
81 74 1.00
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (81 bp):
GAGGGTAAAACGGTAATTTTGTAAATCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAAT
GATAATTCTACAAATC
Found at i:64530973 original size:27 final size:27
Alignment explanation
Indices: 64530822--64530988 Score: 181
Period size: 27 Copynumber: 6.2 Consensus size: 27
64530812 TTTCACAATT
* * * *
64530822 GAGGGTAAAACGGTAATTTTTTAGATC
1 GAGGGTAAAATGGTAATTCTATAAATC
* * *
64530849 AAGGGTAAAATAGTAATTCTGTAAATC
1 GAGGGTAAAATGGTAATTCTATAAATC
*
64530876 GAGGGTAAAATGGTAATTTTATAAATC
1 GAGGGTAAAATGGTAATTCTATAAATC
* * *
64530903 GAGGGTAAAACGGTAATTTTGTAAATC
1 GAGGGTAAAATGGTAATTCTATAAATC
* *
64530930 GAGGGTGAAACGGTAATTCTATAAATC
1 GAGGGTAAAATGGTAATTCTATAAATC
* * *
64530957 GATGGTAAAATGATAATTCTACAAATC
1 GAGGGTAAAATGGTAATTCTATAAATC
*
64530984 AAGGG
1 GAGGG
64530989 CATTTCAGTA
Statistics
Matches: 118, Mismatches: 22, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 118 1.00
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (27 bp):
GAGGGTAAAATGGTAATTCTATAAATC
Found at i:64530983 original size:54 final size:54
Alignment explanation
Indices: 64530822--64530976 Score: 204
Period size: 54 Copynumber: 2.9 Consensus size: 54
64530812 TTTCACAATT
* * *
64530822 GAGGGTAAAACGGTAATTTTTTAGATCAAGGGTAAAAT-AGTAATTCTGTAAATC
1 GAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAATGA-TAATTCTGTAAATC
* * * *
64530876 GAGGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACGGTAATTTTGTAAATC
1 GAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAATGATAATTCTGTAAATC
* * *
64530930 GAGGGTGAAACGGTAATTCTATAAATCGATGGTAAAATGATAATTCT
1 GAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAATGATAATTCT
64530977 ACAAATCAAG
Statistics
Matches: 86, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
54 86 1.00
ACGTcount: A:0.39, C:0.07, G:0.23, T:0.31
Consensus pattern (54 bp):
GAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAATGATAATTCTGTAAATC
Found at i:64531000 original size:81 final size:81
Alignment explanation
Indices: 64530823--64531008 Score: 192
Period size: 81 Copynumber: 2.3 Consensus size: 81
64530813 TTCACAATTG
* * * * * *
64530823 AGGGTAAAACGGTAATTTTTTAGATCAAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAATG
1 AGGGCAAAACAGTAATTTTGTAAATCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAATG
* * * *
64530888 GTAATTTTATAAATCG
66 ATAATTCTACAAATCA
* * * * * *
64530904 AGGGTAAAACGGTAATTTTGTAAATCGAGGGTGAAACGGTAATTCTATAAATCGATGGTAAAATG
1 AGGGCAAAACAGTAATTTTGTAAATCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAATG
64530969 ATAATTCTACAAATCA
66 ATAATTCTACAAATCA
*** *
64530985 AGGGCATTTCAGTAATTTGGTAAA
1 AGGGCAAAACAGTAATTTTGTAAA
64531009 CTAAAGTATT
Statistics
Matches: 87, Mismatches: 18, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
81 87 1.00
ACGTcount: A:0.39, C:0.08, G:0.22, T:0.31
Consensus pattern (81 bp):
AGGGCAAAACAGTAATTTTGTAAATCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAATG
ATAATTCTACAAATCA
Done.