Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032244.1 Gossypioides kirkii chromosome KI_01
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: 38174113
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1000 characters in sequence are not A, C, G, or T
File 38 of 126
Found at i:11454496 original size:5 final size:6
Alignment explanation
Indices: 11454473--11454504 Score: 55
Period size: 6 Copynumber: 5.2 Consensus size: 6
11454463 AATTAAACCC
11454473 GAAAAGA GAAAAA GAAAAA GAAAAA GAAAAA G
1 GAAAA-A GAAAAA GAAAAA GAAAAA GAAAAA G
11454505 CTACCGTGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 20 0.80
7 5 0.20
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (6 bp):
GAAAAA
Found at i:11467619 original size:31 final size:31
Alignment explanation
Indices: 11467578--11467639 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
11467568 TCAGATTATA
*
11467578 TTTTAGTCACTTATGTTAGTATTTTGTTACG
1 TTTTAATCACTTATGTTAGTATTTTGTTACG
11467609 TTTTAATCACTTATGTTAGTATTTTGTTACG
1 TTTTAATCACTTATGTTAGTATTTTGTTACG
11467640 AAGTGATCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.21, C:0.10, G:0.15, T:0.55
Consensus pattern (31 bp):
TTTTAATCACTTATGTTAGTATTTTGTTACG
Found at i:11468466 original size:17 final size:17
Alignment explanation
Indices: 11468444--11468488 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
11468434 TATAAGTAAT
*
11468444 TTTTATAATTTTGAATA
1 TTTTATAATTTTGAAAA
* *
11468461 TTTTATTATTTTTAAAA
1 TTTTATAATTTTGAAAA
11468478 TTTTAATAATT
1 TTTT-ATAATT
11468489 ATTTAATTCT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
17 18 0.78
18 5 0.22
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (17 bp):
TTTTATAATTTTGAAAA
Found at i:11469588 original size:5 final size:5
Alignment explanation
Indices: 11469578--11469612 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
11469568 TTTTTTTAAG
* *
11469578 AATTT AATTT AATTT AATTT AGTTT AATTT GATTT
1 AATTT AATTT AATTT AATTT AATTT AATTT AATTT
11469613 TCTTTTATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (5 bp):
AATTT
Found at i:11488488 original size:26 final size:26
Alignment explanation
Indices: 11488452--11488504 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
11488442 GAATATCTTA
11488452 TCCATTATTCCAAAATTGACATTGGT
1 TCCATTATTCCAAAATTGACATTGGT
11488478 TCCATTATTCCAAAATTGACATTGGT
1 TCCATTATTCCAAAATTGACATTGGT
11488504 T
1 T
11488505 GCTAATATAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.30, C:0.19, G:0.11, T:0.40
Consensus pattern (26 bp):
TCCATTATTCCAAAATTGACATTGGT
Found at i:11489742 original size:30 final size:30
Alignment explanation
Indices: 11489708--11489800 Score: 75
Period size: 30 Copynumber: 3.1 Consensus size: 30
11489698 AAATGATACA
*
11489708 AAATAAATATTTATTTTGTACCATTTTAGT
1 AAATAAATATATATTTTGTACCATTTTAGT
** * * * *
11489738 AAAT-AAT-GGT-GTGTGAATACTATTTTGGT
1 AAATAAATATATATTTTG--TACCATTTTAGT
*
11489767 ATATAAATATATATTTTGTACCATTTTAGT
1 AAATAAATATATATTTTGTACCATTTTAGT
11489797 AAAT
1 AAAT
11489801 GGTCCCCCCC
Statistics
Matches: 44, Mismatches: 14, Indels: 10
0.65 0.21 0.15
Matches are distributed among these distances:
27 3 0.07
28 1 0.02
29 16 0.36
30 20 0.45
31 1 0.02
32 3 0.07
ACGTcount: A:0.37, C:0.05, G:0.12, T:0.46
Consensus pattern (30 bp):
AAATAAATATATATTTTGTACCATTTTAGT
Found at i:11493105 original size:15 final size:15
Alignment explanation
Indices: 11493080--11493112 Score: 50
Period size: 14 Copynumber: 2.2 Consensus size: 15
11493070 AAAATTTAAT
11493080 TTTACTATTTTAATAA
1 TTTACTATTTT-ATAA
11493096 TTTA-TATTTTATAA
1 TTTACTATTTTATAA
11493110 TTT
1 TTT
11493113 TTAAAAGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.41
15 6 0.35
16 4 0.24
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (15 bp):
TTTACTATTTTATAA
Found at i:11498066 original size:31 final size:29
Alignment explanation
Indices: 11498027--11498102 Score: 84
Period size: 31 Copynumber: 2.6 Consensus size: 29
11498017 TTAAATTAGT
*
11498027 AAAA-ATAAAATTATATTTTAATTTTTCGTA
1 AAAATATAAAATTATAATTTAATTTTTC--A
11498057 AAAATATAAAAATT-TAATTTAATTTTTCA
1 AAAATAT-AAAATTATAATTTAATTTTTCA
*
11498086 AAAATGATAAAAATATA
1 AAAAT-ATAAAATTATA
11498103 GATTATTAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
29 11 0.28
30 8 0.20
31 15 0.38
32 6 0.15
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (29 bp):
AAAATATAAAATTATAATTTAATTTTTCA
Found at i:11498139 original size:26 final size:24
Alignment explanation
Indices: 11498085--11498140 Score: 58
Period size: 26 Copynumber: 2.2 Consensus size: 24
11498075 TTAATTTTTC
*
11498085 AAAAATGATAAAAATATAGATTAT
1 AAAAATAATAAAAATATAGATTAT
* * *
11498109 TAAAATAATAAAATTATATATATTGT
1 AAAAATAATAAAA--ATATAGATTAT
11498135 AAAAAT
1 AAAAAT
11498141 TACAATTTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
24 11 0.44
26 14 0.56
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (24 bp):
AAAAATAATAAAAATATAGATTAT
Found at i:11502740 original size:3 final size:3
Alignment explanation
Indices: 11502732--11502758 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
11502722 GCCTGTTCAT
11502732 TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC
11502759 CATTTCTCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:11503713 original size:2 final size:2
Alignment explanation
Indices: 11503706--11503741 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
11503696 CAGATGCTTG
11503706 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
11503742 GTATATATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:11504184 original size:2 final size:2
Alignment explanation
Indices: 11504177--11504208 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
11504167 CAAACATGTG
11504177 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11504209 TATGTCCTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11505683 original size:30 final size:29
Alignment explanation
Indices: 11505644--11505730 Score: 75
Period size: 30 Copynumber: 2.9 Consensus size: 29
11505634 CTTTTTAATG
* * *
11505644 TTTACAAATTCTATTAATTTAGTCTTAAT
1 TTTAAAAATTCTATAAATTTAGTCTTAAC
* *
11505673 TTTAAAAAATTCAATAAATTTAGCTCTCAAC
1 TTT-AAAAATTCTATAAATTTAG-TCTTAAC
** * *
11505704 TTTGCACATTCTATCAATTTAGTCTTA
1 TTTAAAAATTCTATAAATTTAGTCTTA
11505731 CTTCTTCAAA
Statistics
Matches: 45, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
29 7 0.16
30 30 0.67
31 8 0.18
ACGTcount: A:0.36, C:0.15, G:0.05, T:0.45
Consensus pattern (29 bp):
TTTAAAAATTCTATAAATTTAGTCTTAAC
Found at i:11506624 original size:256 final size:256
Alignment explanation
Indices: 11506169--11506681 Score: 902
Period size: 256 Copynumber: 2.0 Consensus size: 256
11506159 GCTAGGTCTC
* *
11506169 TATTAGAGTAGTAAAGTCAGTAGTATTAGAGTTAGTAGTGAGTTAGCAGTTATACTGAACAGTAA
1 TATTAGAGTAGTAAAGTCAGTAGTATTAGAGTTAGTAGTGAGTTAGCAATTATACCGAACAGTAA
*
11506234 TAGAATTCATTTGTGCAGCTGTGATTAGCTGGTGTTTGTTTAGTTAGTTTACAGTGTAGAGGTTG
66 CAGAATTCATTTGTGCAGCTGTGATTAGCTGGTGTTTGTTTAGTTAGTTTACAGTGTAGAGGTTG
*
11506299 TGTATATAAAGAAGGATAAGCAACAAGGAGAGACTGAGTATTATTCATTTCAATAGTAAACAAAT
131 TGTATATAAAGAAGGATAAGCAACAAGGAGAGACTAAGTATTATTCATTTCAATAGTAAACAAAT
11506364 ATTTCTTAGTGATTCTTTCAATTCTCTACTA-TAGTTACACACTATTTCATAAATTCTTTCA
196 ATTTCTTAGTGATTCTTTCAATTCTCTACTACT-GTTACACACTATTTCATAAATTCTTTCA
*
11506425 TATTAGAGTAGTAAAGTCAGTAGTATTAGAGTTAGTAGTGAGTTAGCAATTATACCGAATAGTAA
1 TATTAGAGTAGTAAAGTCAGTAGTATTAGAGTTAGTAGTGAGTTAGCAATTATACCGAACAGTAA
* *
11506490 CAGAATTCATTTGTGCAGTTGTGATTAGCTGGTGTTTGTTTAGTTAGTTTATAGTGTAGAGGTTG
66 CAGAATTCATTTGTGCAGCTGTGATTAGCTGGTGTTTGTTTAGTTAGTTTACAGTGTAGAGGTTG
* * *
11506555 TGTATATAAAGAAGGATAAGCAACGAGGAGAGATTAAGTATTATTCATTTTAATAGTAAACAAAT
131 TGTATATAAAGAAGGATAAGCAACAAGGAGAGACTAAGTATTATTCATTTCAATAGTAAACAAAT
* *
11506620 ATTTCTTAGTGATTCTTTCAATTCTCTACTACTGTTATACAGTATTTCATAAATTCTTTCA
196 ATTTCTTAGTGATTCTTTCAATTCTCTACTACTGTTACACACTATTTCATAAATTCTTTCA
11506681 T
1 T
11506682 GGTATCAGAG
Statistics
Matches: 244, Mismatches: 12, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
256 243 1.00
257 1 0.00
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.38
Consensus pattern (256 bp):
TATTAGAGTAGTAAAGTCAGTAGTATTAGAGTTAGTAGTGAGTTAGCAATTATACCGAACAGTAA
CAGAATTCATTTGTGCAGCTGTGATTAGCTGGTGTTTGTTTAGTTAGTTTACAGTGTAGAGGTTG
TGTATATAAAGAAGGATAAGCAACAAGGAGAGACTAAGTATTATTCATTTCAATAGTAAACAAAT
ATTTCTTAGTGATTCTTTCAATTCTCTACTACTGTTACACACTATTTCATAAATTCTTTCA
Found at i:11512427 original size:22 final size:20
Alignment explanation
Indices: 11512402--11512444 Score: 50
Period size: 20 Copynumber: 2.0 Consensus size: 20
11512392 CTATTCATTT
11512402 ATTTATAAATATTCTTTTATAA
1 ATTTATAAATA-T-TTTTATAA
* *
11512424 ATTTGTATATATTTTTATAA
1 ATTTATAAATATTTTTATAA
11512444 A
1 A
11512445 ATTTTATGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 9 0.47
21 1 0.05
22 9 0.47
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (20 bp):
ATTTATAAATATTTTTATAA
Found at i:11512439 original size:20 final size:20
Alignment explanation
Indices: 11512416--11512458 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
11512406 ATAAATATTC
11512416 TTTTAT-AAATTTGTATATAT
1 TTTTATAAAATTT-TATATAT
*
11512436 TTTTATAAAATTTTATGTAT
1 TTTTATAAAATTTTATATAT
11512456 TTT
1 TTT
11512459 ACCAAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 15 0.71
21 6 0.29
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.63
Consensus pattern (20 bp):
TTTTATAAAATTTTATATAT
Found at i:11515985 original size:17 final size:17
Alignment explanation
Indices: 11515963--11516042 Score: 65
Period size: 17 Copynumber: 4.6 Consensus size: 17
11515953 AATCTATTAG
* *
11515963 AAATCTAGTTAAGCTTA
1 AAATCTAATTAAACTTA
11515980 AAATCTAATTAAACTTAA
1 AAATCTAATTAAACTT-A
* *
11515998 AAATCTGAAAT-ATC-TA
1 AAATCT-AATTAAACTTA
* *
11516014 ATATCTAATTTTAACTTA
1 AAATCTAA-TTAAACTTA
11516032 AAATCTAATTA
1 AAATCTAATTA
11516043 CACTAAAAAA
Statistics
Matches: 49, Mismatches: 9, Indels: 10
0.72 0.13 0.15
Matches are distributed among these distances:
15 2 0.04
16 7 0.14
17 19 0.39
18 18 0.37
19 3 0.06
ACGTcount: A:0.47, C:0.11, G:0.04, T:0.38
Consensus pattern (17 bp):
AAATCTAATTAAACTTA
Found at i:11516065 original size:51 final size:53
Alignment explanation
Indices: 11515971--11516075 Score: 153
Period size: 52 Copynumber: 2.0 Consensus size: 53
11515961 AGAAATCTAG
* *
11515971 TTAAGCTTAAAATCTAATTAAACTTAAAAATCTGAAATATCTAATATCTAATT
1 TTAAGCTTAAAATCTAATTAAACTAAAAAATCTGAAATATCTAAAATCTAATT
*
11516024 TTAA-CTTAAAATCTAATTACACTAAAAAAATCT-AAAT-TCTAAAATCTAATT
1 TTAAGCTTAAAATCTAATTAAACT-AAAAAATCTGAAATATCTAAAATCTAATT
11516075 T
1 T
11516076 AAACCTAGAA
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
51 14 0.29
52 22 0.46
53 12 0.25
ACGTcount: A:0.49, C:0.12, G:0.02, T:0.37
Consensus pattern (53 bp):
TTAAGCTTAAAATCTAATTAAACTAAAAAATCTGAAATATCTAAAATCTAATT
Found at i:11516139 original size:18 final size:17
Alignment explanation
Indices: 11516114--11516184 Score: 61
Period size: 18 Copynumber: 3.9 Consensus size: 17
11516104 CTGAATTAAA
11516114 AATCTAAAATCTAATTT
1 AATCTAAAATCTAATTT
* *
11516131 AATTCTAAAATTTGAACTTAA
1 AA-TCTAAAATCT-AA-TT-T
*
11516152 AATCTAAAATCCAATTT
1 AATCTAAAATCTAATTT
*
11516169 AAACTTAAAATCTAAT
1 AATC-TAAAATCTAAT
11516185 GGATAGGATC
Statistics
Matches: 42, Mismatches: 7, Indels: 9
0.72 0.12 0.16
Matches are distributed among these distances:
17 5 0.12
18 21 0.50
19 4 0.10
20 10 0.24
21 2 0.05
ACGTcount: A:0.49, C:0.13, G:0.01, T:0.37
Consensus pattern (17 bp):
AATCTAAAATCTAATTT
Found at i:11519570 original size:17 final size:16
Alignment explanation
Indices: 11519545--11519581 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
11519535 TTATACCTTT
*
11519545 AAATCAAAATGAAACA
1 AAATAAAAATGAAACA
11519561 CAAATAAAAATGAAACA
1 -AAATAAAAATGAAACA
11519578 AAAT
1 AAAT
11519582 CAAACCTCAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.70, C:0.11, G:0.05, T:0.14
Consensus pattern (16 bp):
AAATAAAAATGAAACA
Found at i:11519640 original size:59 final size:59
Alignment explanation
Indices: 11519551--11520103 Score: 286
Period size: 59 Copynumber: 9.4 Consensus size: 59
11519541 CTTTAAATCA
* * * * * *
11519551 AAATGAAACACAAATAAAAATGAAAC-AAAATCAAACCTCACAACTAGGCCTCT-AATATG
1 AAATGTAACATAAATGAAATTGAAACAAAAAT-GAATCTCACAACTAGGCCTCTGAA-ATG
* * * * *
11519610 AAATGTAACA-AATTGAAATTGAAACGAAAAT-AATTTCACAACTAGGCATCAGAAATG
1 AAATGTAACATAAATGAAATTGAAACAAAAATGAATCTCACAACTAGGCCTCTGAAATG
* ** * * *
11519667 AAATGTCACATAAATGAAATTGAAATGAAAATGAATCTCACAATTAGGGCTTTGAAATG
1 AAATGTAACATAAATGAAATTGAAACAAAAATGAATCTCACAACTAGGCCTCTGAAATG
* * * * *
11519726 AAAGGCAACATAAATAAAATTAAAACAAAAATGAATCTTACAACTAGGCCTCTGAAATG
1 AAATGTAACATAAATGAAATTGAAACAAAAATGAATCTCACAACTAGGCCTCTGAAATG
* * * * * * * *
11519785 AAATGTCACATAATTTGAAATTGAAACAAAAATGGACCTCACAATTAAG-CTTTCGAAATA
1 AAATGTAACATAA-ATGAAATTGAAACAAAAATGAATCTCACAACTAGGCCTCT-GAAATG
* * * * * ** *
11519845 AAATGCAACATCAATGAAATT-AAAGTAGAAATTG-ACCTTTCAACTGGGCCTCT-AAATG
1 AAATGTAACATAAATGAAATTGAAA-CA-AAAATGAATCTCACAACTAGGCCTCTGAAATG
** * * * * * *
11519903 CAACATAAAACATAAATGAAATT-AAAGTAAAGATGAA-CTTTATAACTAGCCCTCTAAAATG
1 -AA-ATGTAACATAAATGAAATTGAAA-CAAAAATGAATC-TCACAACTAGGCCTCTGAAATG
** * * * * * * * *
11519964 AAATACAACATAAATGAAATT-AAATTAAGATTGGACCTCACCACTATGCCTCCGAAATG
1 AAATGTAACATAAATGAAATTGAAA-CAAAAATGAATCTCACAACTAGGCCTCTGAAATG
*** * * * * * *
11520023 AAACACAACATAAATGTAACTAAAACAAAAAAATGGA-CATC-CAACTAGACGTCTGAAATG
1 AAATGTAACATAAATGAAATTGAAAC--AAAAATGAATC-TCACAACTAGGCCTCTGAAATG
* *
11520083 AAACGCAACATAAATGAAATT
1 AAATGTAACATAAATGAAATT
11520104 AAAATGAAAA
Statistics
Matches: 385, Mismatches: 90, Indels: 37
0.75 0.18 0.07
Matches are distributed among these distances:
57 28 0.07
58 40 0.10
59 179 0.46
60 124 0.32
61 14 0.04
ACGTcount: A:0.49, C:0.16, G:0.12, T:0.23
Consensus pattern (59 bp):
AAATGTAACATAAATGAAATTGAAACAAAAATGAATCTCACAACTAGGCCTCTGAAATG
Found at i:11519865 original size:119 final size:117
Alignment explanation
Indices: 11519623--11519868 Score: 316
Period size: 119 Copynumber: 2.1 Consensus size: 117
11519613 TGTAACAAAT
* *
11519623 TGAAATTGAAACGAAAATAATTTCACAACTAGGCATCAGAAATGAAATGTCACATAAATGAAATT
1 TGAAATTAAAACAAAAATAATTTCACAACTAGGCATCAGAAATGAAATGTCACATAAATGAAATT
** * * *
11519688 GAAATGAAAATGAATCTCACAATTAGGGCTTTGAAATGAAAGGCAACATAAA
66 GAAACAAAAATGAACCTCACAATTAGAGCTTTGAAATAAAAGGCAACATAAA
* * * *
11519740 TAAAATTAAAACAAAAATGAATCTT-ACAACTAGGCCTCTGAAATGAAATGTCACATAATTTGAA
1 TGAAATTAAAACAAAAAT-AAT-TTCACAACTAGGCATCAGAAATGAAATGTCACATAA-ATGAA
* * *
11519804 ATTGAAACAAAAATGGACCTCACAATTA-AGCTTTCGAAATAAAATGCAACATCAA
63 ATTGAAACAAAAATGAACCTCACAATTAGAGCTTT-GAAATAAAAGGCAACATAAA
11519859 TGAAATTAAA
1 TGAAATTAAA
11519869 GTAGAAATTG
Statistics
Matches: 110, Mismatches: 15, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
117 15 0.14
118 39 0.35
119 56 0.51
ACGTcount: A:0.49, C:0.13, G:0.13, T:0.24
Consensus pattern (117 bp):
TGAAATTAAAACAAAAATAATTTCACAACTAGGCATCAGAAATGAAATGTCACATAAATGAAATT
GAAACAAAAATGAACCTCACAATTAGAGCTTTGAAATAAAAGGCAACATAAA
Found at i:11519889 original size:119 final size:118
Alignment explanation
Indices: 11519647--11519925 Score: 303
Period size: 119 Copynumber: 2.3 Consensus size: 118
11519637 AAATAATTTC
* * ** *
11519647 ACAACTAGGCATCAGAAATGAAATGTCACATAAATGAAATTGAAATGAAAATGAATCTCACAATT
1 ACAACTAGGCCTCTGAAATGAAATGTCACATAAATGAAATTGAAACAAAAATGAACCTCACAATT
* * *
11519712 AGGGCTTTGAAATGAAAGGCAACATAAATAAAATTAAAACAAAAATGAATCTT
66 AGAGCTTTGAAATAAAAGGCAACATAAATAAAATTAAAACAAAAATGAACCTT
* *
11519765 ACAACTAGGCCTCTGAAATGAAATGTCACATAATTTGAAATTGAAACAAAAATGGACCTCACAAT
1 ACAACTAGGCCTCTGAAATGAAATGTCACATAA-ATGAAATTGAAACAAAAATGAACCTCACAAT
* * * ** *
11519830 TA-AGCTTTCGAAATAAAATGCAACATCAATGAAATTAAAGTAGAAATTG-ACCTT
65 TAGAGCTTT-GAAATAAAAGGCAACATAAATAAAATTAAAACA-AAAATGAACCTT
* * ***
11519884 TCAACTGGGCCTCT-AAATGCAACATAAAACATAAATGAAATT
1 ACAACTAGGCCTCTGAAATG-AA-ATGTCACATAAATGAAATT
11519926 AAAGTAAAGA
Statistics
Matches: 134, Mismatches: 22, Indels: 9
0.81 0.13 0.05
Matches are distributed among these distances:
118 41 0.31
119 80 0.60
120 13 0.10
ACGTcount: A:0.48, C:0.15, G:0.14, T:0.24
Consensus pattern (118 bp):
ACAACTAGGCCTCTGAAATGAAATGTCACATAAATGAAATTGAAACAAAAATGAACCTCACAATT
AGAGCTTTGAAATAAAAGGCAACATAAATAAAATTAAAACAAAAATGAACCTT
Found at i:11519923 original size:60 final size:59
Alignment explanation
Indices: 11519851--11519987 Score: 163
Period size: 60 Copynumber: 2.3 Consensus size: 59
11519841 AATAAAATGC
* * * *
11519851 AACATCAATGAAATTAAAGTAGAA-ATTGACCTTT-CAACTGGGCCTCT-AAATGCAACATAA
1 AACATAAATGAAATTAAAGTA-AAGA-TGAACTTTACAACTAGCCCTCTAAAATG-AA-ATAA
* *
11519911 AACATAAATGAAATTAAAGTAAAGATGAACTTTATAACTAGCCCTCTAAAATGAAATAC
1 AACATAAATGAAATTAAAGTAAAGATGAACTTTACAACTAGCCCTCTAAAATGAAATAA
11519970 AACATAAATGAAATTAAA
1 AACATAAATGAAATTAAA
11519988 TTAAGATTGG
Statistics
Matches: 68, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
59 30 0.44
60 33 0.49
61 5 0.07
ACGTcount: A:0.50, C:0.15, G:0.11, T:0.25
Consensus pattern (59 bp):
AACATAAATGAAATTAAAGTAAAGATGAACTTTACAACTAGCCCTCTAAAATGAAATAA
Found at i:11524818 original size:29 final size:30
Alignment explanation
Indices: 11524763--11524842 Score: 99
Period size: 31 Copynumber: 2.6 Consensus size: 30
11524753 ACATCAAAAC
*
11524763 TATATATGAACTTTGATTTAATATGCAATGT
1 TATATATGAATTTTGATTT-ATATGCAATGT
* *
11524794 TATATATGAATTTTGATTT-TGTGCAATTT
1 TATATATGAATTTTGATTTATATGCAATGT
*
11524823 TATATATTAAATTTTGATTT
1 TATATA-TGAATTTTGATTT
11524843 GATTTGATTT
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
29 14 0.32
30 12 0.27
31 18 0.41
ACGTcount: A:0.33, C:0.04, G:0.11, T:0.53
Consensus pattern (30 bp):
TATATATGAATTTTGATTTATATGCAATGT
Found at i:11526568 original size:4 final size:4
Alignment explanation
Indices: 11526559--11526583 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
11526549 GATCTTTCTG
11526559 TACA TACA TACA TACA TACA TACA T
1 TACA TACA TACA TACA TACA TACA T
11526584 CCAAATTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.28
Consensus pattern (4 bp):
TACA
Found at i:11527240 original size:19 final size:20
Alignment explanation
Indices: 11527203--11527240 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
11527193 TTCCATTAAA
**
11527203 AAAATTTTGGTATTTGTTAG
1 AAAATTTTGGTATCCGTTAG
11527223 AAAATTTT-GTATCCGTTA
1 AAAATTTTGGTATCCGTTA
11527241 AAGTTATTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.32, C:0.05, G:0.16, T:0.47
Consensus pattern (20 bp):
AAAATTTTGGTATCCGTTAG
Found at i:11530521 original size:3 final size:3
Alignment explanation
Indices: 11530513--11530570 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
11530503 GAAAGGGTTT
11530513 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
11530561 TTA TTA TTA T
1 TTA TTA TTA T
11530571 ACCTTTAAAT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:11533843 original size:17 final size:17
Alignment explanation
Indices: 11533759--11533864 Score: 115
Period size: 17 Copynumber: 6.2 Consensus size: 17
11533749 TCCAACTTTA
11533759 ATTTTAAATTTTAAA-TT
1 ATTTTAAA-TTTAAATTT
*
11533776 ATTTTAAATTTGAATTT
1 ATTTTAAATTTAAATTT
*
11533793 ATTTTAAATTTAAATTC
1 ATTTTAAATTTAAATTT
* *
11533810 ATTTTGAGTTTAAATTT
1 ATTTTAAATTTAAATTT
**
11533827 ATTTTAAATTTGGATTT
1 ATTTTAAATTTAAATTT
* * *
11533844 ATTTTGAATTAAAAATT
1 ATTTTAAATTTAAATTT
11533861 ATTT
1 ATTT
11533865 AATATTAAAA
Statistics
Matches: 73, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
16 5 0.07
17 68 0.93
ACGTcount: A:0.37, C:0.01, G:0.06, T:0.57
Consensus pattern (17 bp):
ATTTTAAATTTAAATTT
Found at i:11534693 original size:12 final size:12
Alignment explanation
Indices: 11534676--11534700 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11534666 TAATAAGTAT
11534676 TATTATTAATAA
1 TATTATTAATAA
11534688 TATTATTAATAA
1 TATTATTAATAA
11534700 T
1 T
11534701 TATAATACAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TATTATTAATAA
Found at i:11534693 original size:15 final size:16
Alignment explanation
Indices: 11534666--11534700 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
11534656 ATTTATAACG
*
11534666 TAATAAGTATTATTAT
1 TAATAAGTATTATTAA
11534682 TAATAA-TATTATTAA
1 TAATAAGTATTATTAA
11534697 TAAT
1 TAAT
11534701 TATAATACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (16 bp):
TAATAAGTATTATTAA
Found at i:11534718 original size:21 final size:22
Alignment explanation
Indices: 11534677--11534723 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
11534667 AATAAGTATT
*
11534677 ATTATTAATAATATTATTAATA
1 ATTATTAATAATATTACTAATA
11534699 ATTA-TAATACAT-TTACTAATA
1 ATTATTAATA-ATATTACTAATA
11534720 ATTA
1 ATTA
11534724 ATAACAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 17 0.74
22 6 0.26
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (22 bp):
ATTATTAATAATATTACTAATA
Found at i:11536003 original size:30 final size:29
Alignment explanation
Indices: 11535937--11536130 Score: 153
Period size: 30 Copynumber: 6.5 Consensus size: 29
11535927 CTAAATTATC
*
11535937 CAAAAATTATA-TTTTGACCCCTAAACTTCT
1 CAAAAATTACATTTTTGACCCC-AAACTT-T
** *
11535967 TTAAAATTACATTTTTAACCCCAAAACTTT
1 CAAAAATTACATTTTTGACCCC-AAACTTT
* *
11535997 CAAAAATTACATTTTT-ACCCTCGAACTTC
1 CAAAAATTACATTTTTGACCC-CAAACTTT
* * *
11536026 CAAAAATTCCATTTTTGACCTCAAAACTTC
1 CAAAAATTACATTTTTGACC-CCAAACTTT
*
11536056 CAAAAATTACATTTTT-ACCCTCGAA-TTT
1 CAAAAATTACATTTTTGACCC-CAAACTTT
* * **
11536084 CTAAAAATTCCATATTTGACACTGAAACTTT
1 C-AAAAATTACATTTTTGAC-CCCAAACTTT
11536115 CAAAAATTACCATTTT
1 CAAAAATTA-CATTTT
11536131 ACCCCTGAAT
Statistics
Matches: 131, Mismatches: 23, Indels: 19
0.76 0.13 0.11
Matches are distributed among these distances:
28 4 0.03
29 42 0.32
30 59 0.45
31 26 0.20
ACGTcount: A:0.38, C:0.23, G:0.03, T:0.37
Consensus pattern (29 bp):
CAAAAATTACATTTTTGACCCCAAACTTT
Found at i:11536053 original size:59 final size:59
Alignment explanation
Indices: 11535969--11536199 Score: 238
Period size: 59 Copynumber: 3.9 Consensus size: 59
11535959 AAACTTCTTT
* * *
11535969 AAAATTACATTTTTAACCCCAAAACTTTCAAAAATTACATTTTTACCCTCGAACTTCCA
1 AAAATTCCATTTTTGACCTCAAAACTTTCAAAAATTACATTTTTACCCTCGAACTTCCA
* * *
11536028 AAAATTCCATTTTTGACCTCAAAACTTCCAAAAATTACATTTTTACCCTCGAATTTCTA
1 AAAATTCCATTTTTGACCTCAAAACTTTCAAAAATTACATTTTTACCCTCGAACTTCCA
* *
11536087 AAAATTCCATATTTGACACT-GAAACTTTCAAAAATTACCA-TTTTACCC-CTGAA-TGTCCA
1 AAAATTCCATTTTTGAC-CTCAAAACTTTCAAAAATTA-CATTTTTACCCTC-GAACT-TCCA
* * * ** * **
11536146 AAAATACCATTTTTTATCTC-AATTTTTCTCAAAATTACCGTTTTACCCTCGAAC
1 AAAATTCCATTTTTGACCTCAAAACTTTC-AAAAATTACATTTTTACCCTCGAAC
11536200 ATCTAAAATA
Statistics
Matches: 145, Mismatches: 18, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
58 11 0.08
59 129 0.89
60 5 0.03
ACGTcount: A:0.36, C:0.24, G:0.04, T:0.36
Consensus pattern (59 bp):
AAAATTCCATTTTTGACCTCAAAACTTTCAAAAATTACATTTTTACCCTCGAACTTCCA
Found at i:11536159 original size:29 final size:29
Alignment explanation
Indices: 11535969--11536159 Score: 146
Period size: 30 Copynumber: 6.5 Consensus size: 29
11535959 AAACTTCTTT
** *
11535969 AAAATTA-CATTTTTAACCCCAAAACTTTCA
1 AAAATTACCATTTTT-A-CCCTGAACTTCCA
11535999 AAAATTA-CATTTTTACCCTCGAACTTCCA
1 AAAATTACCATTTTTACCCT-GAACTTCCA
**
11536028 AAAATT-CCATTTTTGACCTCAAAACTTCCA
1 AAAATTACCATTTTT-ACC-CTGAACTTCCA
* *
11536058 AAAATTA-CATTTTTACCCTCGAATTTCTA
1 AAAATTACCATTTTTACCCT-GAACTTCCA
* * *
11536087 AAAATT-CCATATTTGACACTGAAACTTTCA
1 AAAATTACCAT-TTTTACCCTG-AACTTCCA
11536117 AAAATTACCA-TTTTACCCCTGAA-TGTCCA
1 AAAATTACCATTTTTA-CCCTGAACT-TCCA
11536146 AAAA-TACCATTTTT
1 AAAATTACCATTTTT
11536160 TATCTCAATT
Statistics
Matches: 131, Mismatches: 17, Indels: 27
0.75 0.10 0.15
Matches are distributed among these distances:
28 10 0.08
29 57 0.44
30 60 0.46
31 4 0.03
ACGTcount: A:0.38, C:0.24, G:0.04, T:0.35
Consensus pattern (29 bp):
AAAATTACCATTTTTACCCTGAACTTCCA
Found at i:11536167 original size:118 final size:118
Alignment explanation
Indices: 11535990--11536207 Score: 282
Period size: 118 Copynumber: 1.8 Consensus size: 118
11535980 TTTAACCCCA
*
11535990 AAACTTTCAAAAATTACATTTTTACCCTCGAACTTCCAAAAATTCCATTTTTGACCTCAAAACTT
1 AAACTTTCAAAAATTACATTTTTACCCTCGAACTTCCAAAAATACCATTTTTGACCTCAAAACTT
* **
11536055 C-CAAAAATTACATTTTTACCCTCGAATTTCTAAAAATTCCATATTTGACACTG
66 CTC-AAAATTACAGTTTTACCCTCGAACATCTAAAAATTCCATATTTGACACTG
* * **
11536108 AAACTTTCAAAAATTACCA-TTTTACCC-CTGAA-TGTCCAAAAATACCATTTTTTATCTCAATT
1 AAACTTTCAAAAATTA-CATTTTTACCCTC-GAACT-TCCAAAAATACCATTTTTGACCTCAAAA
* *
11536170 TTTCTCAAAATTACCGTTTTACCCTCGAACATCTAAAA
63 CTTCTCAAAATTACAGTTTTACCCTCGAACATCTAAAA
11536208 TATAGTTTTT
Statistics
Matches: 86, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
117 2 0.02
118 81 0.94
119 3 0.03
ACGTcount: A:0.36, C:0.24, G:0.04, T:0.36
Consensus pattern (118 bp):
AAACTTTCAAAAATTACATTTTTACCCTCGAACTTCCAAAAATACCATTTTTGACCTCAAAACTT
CTCAAAATTACAGTTTTACCCTCGAACATCTAAAAATTCCATATTTGACACTG
Found at i:11536367 original size:21 final size:19
Alignment explanation
Indices: 11536342--11536389 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 19
11536332 CTCATCAATA
11536342 TTTGCATT-TATTCTTAATTAT
1 TTTGCATTGTATT-TT-A-TAT
11536363 TTTGCACTTGTATTTTATAT
1 TTTGCA-TTGTATTTTATAT
11536383 TTTGCAT
1 TTTGCAT
11536390 ACCATTTATC
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
19 1 0.04
20 9 0.36
21 7 0.28
22 4 0.16
23 4 0.16
ACGTcount: A:0.21, C:0.10, G:0.08, T:0.60
Consensus pattern (19 bp):
TTTGCATTGTATTTTATAT
Found at i:11543512 original size:36 final size:36
Alignment explanation
Indices: 11543463--11543563 Score: 123
Period size: 36 Copynumber: 2.8 Consensus size: 36
11543453 TGGTAACAGG
* * *
11543463 CATGACCTTCGGGTCAATAGGGAGTAAAATGAGAAT
1 CATGACCTACGGGTCAACAGGGAGTAAAAGGAGAAT
* *
11543499 CATGACCTACGGGTCAACAGGGAGTAGAAGGAGCAT
1 CATGACCTACGGGTCAACAGGGAGTAAAAGGAGAAT
* *
11543535 CATGACCT-CAAGGTCAACAGGGAATAAAA
1 CATGACCTAC-GGGTCAACAGGGAGTAAAA
11543564 CAAATAACGA
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
35 1 0.02
36 55 0.98
ACGTcount: A:0.38, C:0.18, G:0.28, T:0.17
Consensus pattern (36 bp):
CATGACCTACGGGTCAACAGGGAGTAAAAGGAGAAT
Found at i:11548368 original size:29 final size:30
Alignment explanation
Indices: 11548323--11548395 Score: 87
Period size: 29 Copynumber: 2.4 Consensus size: 30
11548313 CATTATGCCT
* *
11548323 AAAATTTAATCCATTTAC-TTTTATTTCTA-
1 AAAATTTAGTCCATTTACTTTTTATGT-TAC
*
11548352 AAAATTTAGTCCCTTTACTTTTTATGTTAC
1 AAAATTTAGTCCATTTACTTTTTATGTTAC
11548382 AAAATTTAGATCCA
1 AAAATTTAG-TCCA
11548396 ACTATTAACC
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
29 18 0.49
30 16 0.43
31 3 0.08
ACGTcount: A:0.34, C:0.15, G:0.04, T:0.47
Consensus pattern (30 bp):
AAAATTTAGTCCATTTACTTTTTATGTTAC
Found at i:11550540 original size:28 final size:30
Alignment explanation
Indices: 11550491--11550547 Score: 75
Period size: 29 Copynumber: 1.9 Consensus size: 30
11550481 GATGTTTTTT
11550491 AAATATATTTTAATTTATAA-TTTAACATAA
1 AAATATATTTTAA-TTATAATTTTAACATAA
11550521 AAATATATTATTAA-TA-AATTTTAACAT
1 AAATATATT-TTAATTATAATTTTAACAT
11550548 TTTGTAATTC
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
28 2 0.08
29 10 0.40
30 9 0.36
31 4 0.16
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.46
Consensus pattern (30 bp):
AAATATATTTTAATTATAATTTTAACATAA
Found at i:11559933 original size:20 final size:19
Alignment explanation
Indices: 11559908--11559946 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
11559898 CAAGAGTATG
11559908 ATGTCTAAAGTATTGGAAAA
1 ATGTCTAAAGTATT-GAAAA
11559928 ATGTCTAAAGTATTGAAAA
1 ATGTCTAAAGTATTGAAAA
11559947 CATTGTACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.46, C:0.05, G:0.18, T:0.31
Consensus pattern (19 bp):
ATGTCTAAAGTATTGAAAA
Found at i:11560288 original size:37 final size:37
Alignment explanation
Indices: 11560247--11560325 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
11560237 GAATTAAATC
* *
11560247 GTAAAAATTATAAAATTTGAATTTTAGGGA-CTATTTT
1 GTAAAAATTATAAAATTTGAAGTATA-GGATCTATTTT
*
11560284 GTAAAAATTATAAAATTTGAGGTATAGGATCTATTTT
1 GTAAAAATTATAAAATTTGAAGTATAGGATCTATTTT
11560321 GTAAA
1 GTAAA
11560326 TTTTGAAACA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
36 3 0.08
37 35 0.92
ACGTcount: A:0.42, C:0.03, G:0.15, T:0.41
Consensus pattern (37 bp):
GTAAAAATTATAAAATTTGAAGTATAGGATCTATTTT
Found at i:11561713 original size:18 final size:18
Alignment explanation
Indices: 11561672--11561720 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
11561662 CAATTAGATC
*
11561672 CTAATTAATTAAGGATTAG
1 CTAATTAA-TAAGGATTAA
*
11561691 CTAATTAATAAGGTTTAA
1 CTAATTAATAAGGATTAA
* *
11561709 TTAATTATTAAG
1 CTAATTAATAAG
11561721 CTAAGTATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
18 18 0.69
19 8 0.31
ACGTcount: A:0.43, C:0.04, G:0.12, T:0.41
Consensus pattern (18 bp):
CTAATTAATAAGGATTAA
Found at i:11563343 original size:141 final size:139
Alignment explanation
Indices: 11563029--11563457 Score: 610
Period size: 141 Copynumber: 3.1 Consensus size: 139
11563019 GTCCTAAGAC
* * * * *
11563029 GACACTTTTGGGCAACACTTTTCTAAATGTCGGGATAGACTTGCCAACATACGCTTTAGCCAACT
1 GACACTTTTGGGCAACACTTTCCTAAGTGTTGGGATAGACTTGCCGACATACGCTTTTGCCAACT
* *
11563094 CTTTGTATAAGGGTTGGGATATGCATGCCTAAAACAACGCTTAAATAAGAGTTGGCTTTGTCCAA
66 CTTTGTATAAGGGTTGGGATATGCATGCCTAAAGCAACACTTAAATAAGAGTTGGCTTTGTCCAA
11563159 CACTAT-GT
131 CACTATGGT
** *
11563167 AAGACACTTTTGGGGTGACACTTTCATAAGTGTTGGGATAGACTTGCCGACATACGCTTTTGCCA
1 --GACACTTTT-GGGCAACACTTTCCTAAGTGTTGGGATAGACTTGCCGACATACGCTTTTGCCA
* * *
11563232 ACACTTTTGTATAAGGGTTGGGATATGCATGCCTAAGGCAACACTTAAATAAGAGTCGGCTTTGT
63 ACTC-TTTGTATAAGGGTTGGGATATGCATGCCTAAAGCAACACTTAAATAAGAGTTGGCTTTGT
*
11563297 CCAACACCATGGT
127 CCAACACTATGGT
* * ***
11563310 GGCACTTTTGGGCCAACACTTTCCTAAGTGTTGGGATCGACTTATTGACATACGC-TTTGACCAA
1 GACACTTTTGGG-CAACACTTTCCTAAGTGTTGGGATAGACTTGCCGACATACGCTTTTG-CCAA
11563374 CTCTTTGTATAAGGGTTGGGATATGCATGCCTAAAGCAACACTTAAATAAGAGTTGGCTTTGTCC
64 CTCTTTGTATAAGGGTTGGGATATGCATGCCTAAAGCAACACTTAAATAAGAGTTGGCTTTGTCC
*
11563439 AACACTATGCT
129 AACACTATGGT
11563450 GACACTTT
1 GACACTTT
11563458 CCTAAGTGTT
Statistics
Matches: 256, Mismatches: 28, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
140 92 0.36
141 97 0.38
142 65 0.25
143 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.31
Consensus pattern (139 bp):
GACACTTTTGGGCAACACTTTCCTAAGTGTTGGGATAGACTTGCCGACATACGCTTTTGCCAACT
CTTTGTATAAGGGTTGGGATATGCATGCCTAAAGCAACACTTAAATAAGAGTTGGCTTTGTCCAA
CACTATGGT
Found at i:11564732 original size:16 final size:17
Alignment explanation
Indices: 11564696--11564732 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
11564686 TAAAATAAAT
*
11564696 TATTATATTTACGTTAA
1 TATTATATTTACATTAA
11564713 -ATTATATTTA-ATTAA
1 TATTATATTTACATTAA
11564728 TATTA
1 TATTA
11564733 AACTTTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (17 bp):
TATTATATTTACATTAA
Found at i:11568308 original size:21 final size:21
Alignment explanation
Indices: 11568282--11568321 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
11568272 TACTCTGTAC
* *
11568282 TTCTACCGATACATGCATGAA
1 TTCTACCGAAACAAGCATGAA
11568303 TTCTACCGAAACAAGCATG
1 TTCTACCGAAACAAGCATG
11568322 CAGAATCTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (21 bp):
TTCTACCGAAACAAGCATGAA
Found at i:11569573 original size:16 final size:16
Alignment explanation
Indices: 11569549--11569580 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
11569539 TCCTTACAAA
*
11569549 TTTATTCCTTTAACAT
1 TTTAGTCCTTTAACAT
11569565 TTTAGTCCTTTAACAT
1 TTTAGTCCTTTAACAT
11569581 AAAAATTTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.19, G:0.03, T:0.53
Consensus pattern (16 bp):
TTTAGTCCTTTAACAT
Found at i:11578298 original size:16 final size:16
Alignment explanation
Indices: 11578275--11578330 Score: 94
Period size: 16 Copynumber: 3.5 Consensus size: 16
11578265 CGTTTGGTTC
11578275 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
*
11578291 GGTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
*
11578307 ACTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
11578323 GCTGTAAT
1 GCTGTAAT
11578331 CAGTAATTCA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.38, C:0.05, G:0.30, T:0.27
Consensus pattern (16 bp):
GCTGTAATGGAATAGA
Found at i:11578569 original size:58 final size:56
Alignment explanation
Indices: 11578500--11578645 Score: 179
Period size: 58 Copynumber: 2.5 Consensus size: 56
11578490 AATTTTAATG
*
11578500 ATTATTATTAAATATAATTTAATAAAAATAT-TAATTTATTTAATTATATTTTAACATA
1 ATTATTATTAAATATAATTTAATAAAAATATGTAATTTA-ATAA-TAT-TTTTAACATA
* *
11578558 ATTATTATTAAATACAATTTAATAAAATAATATGTAATTTAATAATATTTTTAATATA
1 ATTATTATTAAATATAATTTAAT-AAA-AATATGTAATTTAATAATATTTTTAACATA
*
11578616 ATTATTATTAAAATATGAA-TTAGTAAAAAT
1 ATTATTATT-AAATAT-AATTTAATAAAAAT
11578646 TATAATATAT
Statistics
Matches: 78, Mismatches: 5, Indels: 11
0.83 0.05 0.12
Matches are distributed among these distances:
57 3 0.04
58 43 0.55
59 15 0.19
60 10 0.13
61 7 0.09
ACGTcount: A:0.50, C:0.01, G:0.02, T:0.47
Consensus pattern (56 bp):
ATTATTATTAAATATAATTTAATAAAAATATGTAATTTAATAATATTTTTAACATA
Found at i:11582086 original size:2 final size:2
Alignment explanation
Indices: 11582081--11582114 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
11582071 TTTTTTCACT
11582081 TA TA 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
11582115 AGAATATCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:11590258 original size:14 final size:15
Alignment explanation
Indices: 11590230--11590259 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
11590220 ATTGCATGTG
11590230 ATTTTATATATTTAA
1 ATTTTATATATTTAA
11590245 ATTTTATA-ATTTAA
1 ATTTTATATATTTAA
11590259 A
1 A
11590260 CAAAATAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
ATTTTATATATTTAA
Found at i:11593646 original size:31 final size:32
Alignment explanation
Indices: 11593611--11593677 Score: 93
Period size: 31 Copynumber: 2.1 Consensus size: 32
11593601 ATAAATGGGG
*
11593611 TTTTAGGTTCCTTAAAAGTTGG-AGAAAAAA-A
1 TTTTAGGTCCCTTAAAAGTTGGTA-AAAAAATA
*
11593642 TTTTATGTCCCTTAAAAGTTGGTAAAAAAATA
1 TTTTAGGTCCCTTAAAAGTTGGTAAAAAAATA
11593674 TTTT
1 TTTT
11593678 TGAGACCTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
31 26 0.81
32 6 0.19
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (32 bp):
TTTTAGGTCCCTTAAAAGTTGGTAAAAAAATA
Found at i:11593687 original size:32 final size:31
Alignment explanation
Indices: 11593620--11593691 Score: 85
Period size: 31 Copynumber: 2.3 Consensus size: 31
11593610 GTTTTAGGTT
**
11593620 CCTTAAAAGTTGGAGAAAAAAATTTTATGTC
1 CCTTAAAAGTTGGAGAAAAAAATTTTATGGA
11593651 CCTTAAAAGTTGGTA-AAAAAATATTTT-TGAGA
1 CCTTAAAAGTTGG-AGAAAAAA-ATTTTATG-GA
11593683 CCTTAAAAG
1 CCTTAAAAG
11593692 CTAAAAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
31 21 0.58
32 15 0.42
ACGTcount: A:0.43, C:0.10, G:0.15, T:0.32
Consensus pattern (31 bp):
CCTTAAAAGTTGGAGAAAAAAATTTTATGGA
Found at i:11598704 original size:10 final size:10
Alignment explanation
Indices: 11598691--11598720 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
11598681 TTTAACTAAC
*
11598691 TTTATAAAAT
1 TTTAAAAAAT
11598701 TTTAAAAAAT
1 TTTAAAAAAT
11598711 TTTAAAAAAT
1 TTTAAAAAAT
11598721 AATTTTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (10 bp):
TTTAAAAAAT
Found at i:11599296 original size:87 final size:87
Alignment explanation
Indices: 11599195--11599361 Score: 291
Period size: 87 Copynumber: 1.9 Consensus size: 87
11599185 GAACATCAAT
11599195 CCCTTCCCTTCTCTTGTAATGGAAATAGAAAATTGATTATTTATTTC-TATTATTTTTAATATTT
1 CCCTTCCCTTCTCTTGTAATGGAAATAGAAAATTGATTATTTATTTCTTATTATTTTTAATATTT
*
11599259 TTTTGGTGGATTATAGTAACAAG
66 TTTT-ATGGATTATAGTAACAAG
*
11599282 CCCTTCCCTTCTCTTGTAGTGGAAATAGAAAATTGATTATTTATTTCTTTATTATTTTTAATATT
1 CCCTTCCCTTCTCTTGTAATGGAAATAGAAAATTGATTATTTATTTC-TTATTATTTTTAATATT
11599347 TTTTTATGGATTATA
65 TTTTTATGGATTATA
11599362 ATAATAACAT
Statistics
Matches: 76, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
87 46 0.61
88 9 0.12
89 21 0.28
ACGTcount: A:0.28, C:0.11, G:0.11, T:0.50
Consensus pattern (87 bp):
CCCTTCCCTTCTCTTGTAATGGAAATAGAAAATTGATTATTTATTTCTTATTATTTTTAATATTT
TTTTATGGATTATAGTAACAAG
Found at i:11599776 original size:14 final size:13
Alignment explanation
Indices: 11599757--11599790 Score: 59
Period size: 13 Copynumber: 2.5 Consensus size: 13
11599747 ACATAGAAGA
11599757 TTTGAATACTAGAT
1 TTTGAAT-CTAGAT
11599771 TTTGAATCTAGAT
1 TTTGAATCTAGAT
11599784 TTTGAAT
1 TTTGAAT
11599791 GCCCTAGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 13 0.65
14 7 0.35
ACGTcount: A:0.32, C:0.06, G:0.15, T:0.47
Consensus pattern (13 bp):
TTTGAATCTAGAT
Found at i:11606736 original size:13 final size:14
Alignment explanation
Indices: 11606711--11606743 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
11606701 CATAGAAAAC
11606711 TTGAATACTAGATT
1 TTGAATACTAGATT
11606725 TTGAAT-CTAGATT
1 TTGAATACTAGATT
11606738 TTGAAT
1 TTGAAT
11606744 GCCCTAGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 13 0.68
14 6 0.32
ACGTcount: A:0.33, C:0.06, G:0.15, T:0.45
Consensus pattern (14 bp):
TTGAATACTAGATT
Found at i:11613851 original size:25 final size:26
Alignment explanation
Indices: 11613823--11613872 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
11613813 GGAGAAAAAG
11613823 AAAAAA-ATGGTTGCTTAAACTTCTA
1 AAAAAACATGGTTGCTTAAACTTCTA
*
11613848 AAAAAACATGGTTGCTTAAATTTCT
1 AAAAAACATGGTTGCTTAAACTTCT
11613873 TTGCTTGTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 6 0.26
26 17 0.74
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.34
Consensus pattern (26 bp):
AAAAAACATGGTTGCTTAAACTTCTA
Found at i:11620954 original size:27 final size:27
Alignment explanation
Indices: 11620924--11620986 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
11620914 ATAATCACGG
* **
11620924 AGGCATCCATTTAGAAGATAGTTATGA
1 AGGCATCCATTCAGAAGATAGCCATGA
* * *
11620951 AGGCGTTCATTCATAAGATAGCCATGA
1 AGGCATCCATTCAGAAGATAGCCATGA
11620978 AGGCATCCA
1 AGGCATCCA
11620987 ATAACTACGC
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.25
Consensus pattern (27 bp):
AGGCATCCATTCAGAAGATAGCCATGA
Found at i:11621142 original size:29 final size:28
Alignment explanation
Indices: 11621092--11621176 Score: 79
Period size: 29 Copynumber: 3.1 Consensus size: 28
11621082 ATGTTCTTTC
*
11621092 ATAACAGA-TTCAGCCACGAAGGTTCACAT
1 ATAACAGAGTT-AGCCACAAAGG-TCACAT
* *
11621121 ATAACAGAGTTAGTCACAAAGG--A-TT
1 ATAACAGAGTTAGCCACAAAGGTCACAT
*
11621146 ATAACAGAGTTAGCCACAAAAGCTCACAT
1 ATAACAGAGTTAGCCAC-AAAGGTCACAT
11621175 AT
1 AT
11621177 CACGGAATCA
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
25 17 0.38
26 5 0.11
28 1 0.02
29 20 0.44
30 2 0.04
ACGTcount: A:0.42, C:0.20, G:0.16, T:0.21
Consensus pattern (28 bp):
ATAACAGAGTTAGCCACAAAGGTCACAT
Found at i:11621243 original size:26 final size:25
Alignment explanation
Indices: 11621182--11621254 Score: 74
Period size: 25 Copynumber: 2.8 Consensus size: 25
11621172 CATATCACGG
* * *
11621182 AATCAACCATAAAGGCTCTTTAACA
1 AATCAATCACAAAGGCTTTTTAACA
*
11621207 AATCAATCACAAAGGCTTTTTAATA
1 AATCAATCACAAAGGCTTTTTAACA
* *
11621232 GAATCAGTCACAAAAGCTCTTTT
1 -AATCAATCACAAAGGCT-TTTT
11621255 TGAGTTAATG
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
25 21 0.52
26 15 0.38
27 4 0.10
ACGTcount: A:0.41, C:0.21, G:0.10, T:0.29
Consensus pattern (25 bp):
AATCAATCACAAAGGCTTTTTAACA
Found at i:11623271 original size:24 final size:24
Alignment explanation
Indices: 11623215--11623271 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
11623205 ATTTTTATAA
*
11623215 AAAATATTTAAATAAATTTTCTACG
1 AAAAT-TTTAAATAAATTTTCAACG
** * *
11623240 AACTTTTTAACTAAATTTTCAATG
1 AAAATTTTAAATAAATTTTCAACG
11623264 AAAATTTT
1 AAAATTTT
11623272 TATTTTTCAA
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
24 22 0.88
25 3 0.12
ACGTcount: A:0.44, C:0.09, G:0.04, T:0.44
Consensus pattern (24 bp):
AAAATTTTAAATAAATTTTCAACG
Found at i:11623455 original size:22 final size:22
Alignment explanation
Indices: 11623412--11623455 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
11623402 ATTAAATATT
*
11623412 AAAAAAACAATAAATTTAAATA
1 AAAAAAACAATAAATATAAATA
* *
11623434 AAAAAAACAATATATATCAATA
1 AAAAAAACAATAAATATAAATA
11623456 TCAATAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.23
Consensus pattern (22 bp):
AAAAAAACAATAAATATAAATA
Found at i:11624291 original size:44 final size:43
Alignment explanation
Indices: 11624222--11624311 Score: 144
Period size: 44 Copynumber: 2.1 Consensus size: 43
11624212 TAATTTAGTC
**
11624222 TTATGTCATTTTTTAATTGACTAAAAAGTTTTTTTTTTAAGAT
1 TTATGTCATTTTTTAATTGACTAAAAAGTCCTTTTTTTAAGAT
*
11624265 TTATGTCATTTTTTTAATTGATTAAAAAGTCCTTTTTTTAAGAT
1 TTATGTCA-TTTTTTAATTGACTAAAAAGTCCTTTTTTTAAGAT
11624309 TTA
1 TTA
11624312 AAAAAATATG
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
43 8 0.19
44 35 0.81
ACGTcount: A:0.30, C:0.06, G:0.09, T:0.56
Consensus pattern (43 bp):
TTATGTCATTTTTTAATTGACTAAAAAGTCCTTTTTTTAAGAT
Found at i:11624300 original size:24 final size:24
Alignment explanation
Indices: 11624226--11624305 Score: 71
Period size: 24 Copynumber: 3.5 Consensus size: 24
11624216 TTAGTCTTAT
*
11624226 GTCA-TTTTTTAATTGACTAAAAA
1 GTCATTTTTTTAATTGATTAAAAA
** * *
11624249 GTTTTTTTTTTAA--GATT--TAT
1 GTCATTTTTTTAATTGATTAAAAA
11624269 GTCATTTTTTTAATTGATTAAAAA
1 GTCATTTTTTTAATTGATTAAAAA
*
11624293 GTCCTTTTTTTAA
1 GTCATTTTTTTAA
11624306 GATTTAAAAA
Statistics
Matches: 42, Mismatches: 10, Indels: 9
0.69 0.16 0.15
Matches are distributed among these distances:
20 12 0.29
22 7 0.17
23 2 0.05
24 21 0.50
ACGTcount: A:0.30, C:0.06, G:0.09, T:0.55
Consensus pattern (24 bp):
GTCATTTTTTTAATTGATTAAAAA
Found at i:11635771 original size:60 final size:58
Alignment explanation
Indices: 11635662--11635821 Score: 169
Period size: 60 Copynumber: 2.7 Consensus size: 58
11635652 TTGGTACTTG
* * **
11635662 AACTTGACACTTTTTCCTAATTTGGTACTTAAAACTTTTTTTTACCCAATTTGATACCTA
1 AACTTGACATTTTTTCCTAATTTGGTACCT-AAACTTTTTTGGACCCAATTTGATA-CTA
* * * * * *
11635722 AATTTGATATATTTTT-TTAATTTGGTACCTAAACTTTTTTCGGATCCAATTTGGTACTG
1 AACTTGACAT-TTTTTCCTAATTTGGTACCTAAACTTTTTT-GGACCCAATTTGATACTA
*
11635781 AACTTGACATTTTTTCCCTAATTTGGTACCTAAGCTTTTTT
1 AACTTGACATTTTTT-CCTAATTTGGTACCTAAACTTTTTT
11635822 TTAGATTCAA
Statistics
Matches: 82, Mismatches: 14, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
58 5 0.06
59 20 0.24
60 52 0.63
61 5 0.06
ACGTcount: A:0.26, C:0.17, G:0.10, T:0.47
Consensus pattern (58 bp):
AACTTGACATTTTTTCCTAATTTGGTACCTAAACTTTTTTGGACCCAATTTGATACTA
Found at i:11636102 original size:29 final size:29
Alignment explanation
Indices: 11636067--11636125 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 29
11636057 AATTTAAAAA
*
11636067 AAAAGTGTTAAGTTT-AGGTACCAAATTAG
1 AAAAGTGTCAAGTTTGA-GTACCAAATTAG
11636096 AAAAGTGTCAAGTTTGAGTACCAAATTAG
1 AAAAGTGTCAAGTTTGAGTACCAAATTAG
11636125 A
1 A
11636126 CAAAAAAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 27 0.96
30 1 0.04
ACGTcount: A:0.42, C:0.08, G:0.20, T:0.29
Consensus pattern (29 bp):
AAAAGTGTCAAGTTTGAGTACCAAATTAG
Found at i:11636167 original size:26 final size:27
Alignment explanation
Indices: 11636114--11636167 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
11636104 CAAGTTTGAG
*
11636114 TACCAAATTAGACAAAAAAAATTTAAA
1 TACCAAATTAGACAAAAAAAATTCAAA
*
11636141 TACCAAATTA-A-GAAAAAAATGTCAAA
1 TACCAAATTAGACAAAAAAAAT-TCAAA
11636167 T
1 T
11636168 TTAGACACCA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 8 0.33
26 6 0.25
27 10 0.42
ACGTcount: A:0.61, C:0.11, G:0.06, T:0.22
Consensus pattern (27 bp):
TACCAAATTAGACAAAAAAAATTCAAA
Found at i:11645696 original size:17 final size:17
Alignment explanation
Indices: 11645674--11645712 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
11645664 AGATGGAGAA
*
11645674 CTTGTTCGTTA-AGAGTT
1 CTTGTTCG-TAGAGAATT
11645691 CTTGTTCGTAGAGAATT
1 CTTGTTCGTAGAGAATT
11645708 CTTGT
1 CTTGT
11645713 CAAGGTGGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 2 0.10
17 18 0.90
ACGTcount: A:0.18, C:0.13, G:0.23, T:0.46
Consensus pattern (17 bp):
CTTGTTCGTAGAGAATT
Found at i:11649071 original size:20 final size:21
Alignment explanation
Indices: 11649025--11649075 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
11649015 TATTGGTTGT
11649025 TGTTTTGGTGTTGTTTTATGA
1 TGTTTTGGTGTTGTTTTATGA
*
11649046 TGTTTTGTTGTTGTTTT-T-A
1 TGTTTTGGTGTTGTTTTATGA
11649065 CTGTTTTGGTG
1 -TGTTTTGGTG
11649076 CTACTTTTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 1 0.04
20 10 0.37
21 16 0.59
ACGTcount: A:0.06, C:0.02, G:0.27, T:0.65
Consensus pattern (21 bp):
TGTTTTGGTGTTGTTTTATGA
Found at i:11649096 original size:11 final size:11
Alignment explanation
Indices: 11649020--11649097 Score: 54
Period size: 11 Copynumber: 7.3 Consensus size: 11
11649010 TGCTATATTG
11649020 GTTGTTGTTTT
1 GTTGTTGTTTT
*
11649031 GGTGTTGTTTT
1 GTTGTTGTTTT
* *
11649042 -ATGATGTTTT
1 GTTGTTGTTTT
11649052 GTTGTTG-TTT
1 GTTGTTGTTTT
**
11649062 -TTACTGTTTT
1 GTTGTTGTTTT
* **
11649072 GGTGCTACTTTT
1 GTTG-TTGTTTT
11649084 GTTGTTGTTTT
1 GTTGTTGTTTT
11649095 GTT
1 GTT
11649098 ATTTGGATGT
Statistics
Matches: 48, Mismatches: 15, Indels: 8
0.68 0.21 0.11
Matches are distributed among these distances:
9 4 0.08
10 14 0.29
11 23 0.48
12 7 0.15
ACGTcount: A:0.05, C:0.04, G:0.26, T:0.65
Consensus pattern (11 bp):
GTTGTTGTTTT
Found at i:11652014 original size:18 final size:19
Alignment explanation
Indices: 11651991--11652026 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
11651981 TTATAATTTG
*
11651991 TAAAATT-TATTATTAAAA
1 TAAAATTGTAATATTAAAA
11652009 TAAAATTGTAATATTAAA
1 TAAAATTGTAATATTAAA
11652027 TAATTTGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.42
Consensus pattern (19 bp):
TAAAATTGTAATATTAAAA
Found at i:11654531 original size:64 final size:64
Alignment explanation
Indices: 11654455--11654582 Score: 213
Period size: 64 Copynumber: 2.0 Consensus size: 64
11654445 TCGGATTAGA
** *
11654455 GTCAAATCTAATAAGGGAATCCATAGATCGTATTAATGCGATAATA-GAGGTTTTAATTAGAAAG
1 GTCAAATCTAATAAAAGAATCCATAGATCGTATTAATGCGACAATAGGA-GTTTTAATTAGAAAG
11654519 GTCAAATCTAATAAAAGAATCCATAGATCGTATTAATGCGACAATAGGAGTTTTAATTAGAAAG
1 GTCAAATCTAATAAAAGAATCCATAGATCGTATTAATGCGACAATAGGAGTTTTAATTAGAAAG
11654583 AAATTTCAAT
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
64 58 0.97
65 2 0.03
ACGTcount: A:0.42, C:0.10, G:0.19, T:0.29
Consensus pattern (64 bp):
GTCAAATCTAATAAAAGAATCCATAGATCGTATTAATGCGACAATAGGAGTTTTAATTAGAAAG
Found at i:11661155 original size:2 final size:2
Alignment explanation
Indices: 11661148--11661217 Score: 140
Period size: 2 Copynumber: 35.0 Consensus size: 2
11661138 TCCCTTCGTA
11661148 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11661190 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11661218 GTGTGTGCGC
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 68 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11664189 original size:17 final size:17
Alignment explanation
Indices: 11664167--11664245 Score: 70
Period size: 17 Copynumber: 4.6 Consensus size: 17
11664157 AATTTTTAAA
* *
11664167 TAAATTTGAGTTTATTT
1 TAAATTTAAATTTATTT
* *
11664184 TAAATTCAAATTCATTT
1 TAAATTTAAATTTATTT
* * *
11664201 TAAGTTTGAATTTATCT
1 TAAATTTAAATTTATTT
*
11664218 TAAAATTAAATTTATTTT
1 TAAATTTAAATTTA-TTT
11664236 TAAA-TTAAAT
1 TAAATTTAAAT
11664246 AATAAGAATG
Statistics
Matches: 48, Mismatches: 13, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
17 42 0.88
18 6 0.12
ACGTcount: A:0.39, C:0.04, G:0.05, T:0.52
Consensus pattern (17 bp):
TAAATTTAAATTTATTT
Found at i:11664215 original size:34 final size:34
Alignment explanation
Indices: 11664171--11664235 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
11664161 TTTAAATAAA
* *
11664171 TTTGAGTTTAT-TTTAAATTCAAATTCATTTTAAG
1 TTTGAATTTATCTTAAAATT-AAATTCATTTTAAG
*
11664205 TTTGAATTTATCTTAAAATTAAATTTATTTT
1 TTTGAATTTATCTTAAAATTAAATTCATTTT
11664236 TAAATTAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
34 20 0.74
35 7 0.26
ACGTcount: A:0.34, C:0.05, G:0.06, T:0.55
Consensus pattern (34 bp):
TTTGAATTTATCTTAAAATTAAATTCATTTTAAG
Found at i:11665008 original size:3 final size:3
Alignment explanation
Indices: 11665000--11665027 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
11664990 TAACTGTCTT
11665000 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
11665028 GAACGTTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:11666278 original size:59 final size:60
Alignment explanation
Indices: 11666159--11666318 Score: 209
Period size: 59 Copynumber: 2.7 Consensus size: 60
11666149 CACTGTTTAG
* *
11666159 AAATTATA-TTTTGACCCCGAAACTTCTAAAAATTACATTTTTAACCTTAAAACTTCCAA
1 AAATTACATTTTTGACCCCGAAACTTCTAAAAATTACATTTTTAACCCTAAAACTTCCAA
* * * * *
11666218 AAATTACATTTTTAACCCCGAAACTTCTAAAAATTACGTTTTTGACCCT-GAACTTTCAA
1 AAATTACATTTTTGACCCCGAAACTTCTAAAAATTACATTTTTAACCCTAAAACTTCCAA
* *
11666277 AAATTTCATTTTTGACCCCGAAACTCCT-AAAATTACCATTTT
1 AAATTACATTTTTGACCCCGAAACTTCTAAAAATTA-CATTTT
11666319 ACCCTTTTGG
Statistics
Matches: 88, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
58 7 0.08
59 45 0.51
60 36 0.41
ACGTcount: A:0.37, C:0.22, G:0.05, T:0.36
Consensus pattern (60 bp):
AAATTACATTTTTGACCCCGAAACTTCTAAAAATTACATTTTTAACCCTAAAACTTCCAA
Found at i:11666318 original size:29 final size:29
Alignment explanation
Indices: 11666159--11666318 Score: 153
Period size: 30 Copynumber: 5.4 Consensus size: 29
11666149 CACTGTTTAG
*
11666159 AAATTATA-TTTTGACCCCGAAACTTCTAA
1 AAATTACATTTTTGACCCCGAAACTTCT-A
* *** *
11666188 AAATTACATTTTTAACCTTAAAACTTCCAA
1 AAATTACATTTTTGACCCCGAAACTT-CTA
*
11666218 AAATTACATTTTTAACCCCGAAACTTCTAA
1 AAATTACATTTTTGACCCCGAAACTTCT-A
* * *
11666248 AAATTACGTTTTTGACCCTG-AACTTTCAA
1 AAATTACATTTTTGACCCCGAAAC-TTCTA
* *
11666277 AAATTTCATTTTTGACCCCGAAACTCCTA
1 AAATTACATTTTTGACCCCGAAACTTCTA
11666306 AAATTACCATTTT
1 AAATTA-CATTTT
11666319 ACCCTTTTGG
Statistics
Matches: 105, Mismatches: 20, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
29 37 0.35
30 67 0.64
31 1 0.01
ACGTcount: A:0.37, C:0.22, G:0.05, T:0.36
Consensus pattern (29 bp):
AAATTACATTTTTGACCCCGAAACTTCTA
Found at i:11667408 original size:31 final size:32
Alignment explanation
Indices: 11667372--11667433 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 32
11667362 TATGCAATCG
*
11667372 GTCCTTCCGTATTTTTAATT-ATTTCAATTTA
1 GTCCTTCCGTACTTTTAATTAATTTCAATTTA
** *
11667403 GTCCTTTTGTACTTTTAATTAATTTTAATTT
1 GTCCTTCCGTACTTTTAATTAATTTCAATTT
11667434 GGCCCAATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
31 17 0.65
32 9 0.35
ACGTcount: A:0.23, C:0.13, G:0.06, T:0.58
Consensus pattern (32 bp):
GTCCTTCCGTACTTTTAATTAATTTCAATTTA
Found at i:11667765 original size:29 final size:29
Alignment explanation
Indices: 11667700--11667963 Score: 191
Period size: 29 Copynumber: 9.0 Consensus size: 29
11667690 TAAAAGTCCT
**
11667700 TAAACTATCCAAAAATTGTATTTTGACCCCC
1 TAAACT-TCCAAAAATTACATTTTGA-CCCC
*
11667731 AAAACTTCCAAAAATTACATTTTGA-CCC
1 TAAACTTCCAAAAATTACATTTTGACCCC
*
11667759 TCAAACTTCCAAAAATTACATTTTTACCCC
1 T-AAACTTCCAAAAATTACATTTTGACCCC
* *
11667789 TAAACTTTCAAAAATT-CAATTTTTGATCCC
1 TAAACTTCCAAAAATTAC-A-TTTTGACCCC
* ***
11667819 GAAACTTTTGAAAATTACAATTTT-ACCCC
1 TAAACTTCCAAAAATTAC-ATTTTGACCCC
** *
11667848 CGAACTCCCAAAAATTACATATTT-ACCCC
1 TAAACTTCCAAAAATTACAT-TTTGACCCC
* * *
11667877 TAAACTTCTAAAAATT-CTATTTTTTACCCT
1 TAAACTTCCAAAAATTAC-A-TTTTGACCCC
* * *
11667907 TGAACTTTCAAAAATTCCATTTTTGACCCC
1 TAAACTTCCAAAAATTACA-TTTTGACCCC
* *
11667937 GATACTTCC-AAAATTACCATTTT-ACCC
1 TAAACTTCCAAAAATTA-CATTTTGACCC
11667964 TCGAATATTT
Statistics
Matches: 189, Mismatches: 33, Indels: 25
0.77 0.13 0.10
Matches are distributed among these distances:
28 11 0.06
29 88 0.47
30 81 0.43
31 9 0.05
ACGTcount: A:0.36, C:0.26, G:0.04, T:0.34
Consensus pattern (29 bp):
TAAACTTCCAAAAATTACATTTTGACCCC
Found at i:11667902 original size:59 final size:57
Alignment explanation
Indices: 11667700--11667963 Score: 196
Period size: 59 Copynumber: 4.5 Consensus size: 57
11667690 TAAAAGTCCT
** *
11667700 TAAACTATCCAAAAATTGTATTTTGACCCCCAAAACTTCCAAAAATTACATTTTGACCC
1 TAAACT-TCCAAAAATTACATTTTTACCCCC-AAACTTCCAAAAATTACATTTTGACCC
* *
11667759 TCAAACTTCCAAAAATTACATTTTTACCCCTAAACTTTCAAAAATT-CAATTTTTGATCCC
1 T-AAACTTCCAAAAATTACATTTTTACCCCCAAACTTCCAAAAATTAC-A-TTTTGA-CCC
* *** * * *
11667819 GAAACTTTTGAAAATTACAATTTTACCCCCGAACTCCCAAAAATTACATATTT-ACCCC
1 TAAACTTCCAAAAATTACATTTTTACCCCCAAACTTCCAAAAATTACAT-TTTGA-CCC
* *** * *
11667877 TAAACTTCTAAAAATT-CTATTTTTTACCCTTGAACTTTCAAAAATTCCATTTTTGACCCC
1 TAAACTTCCAAAAATTAC-A-TTTTTACCCCCAAACTTCCAAAAATTACA-TTTTGA-CCC
* *
11667937 GATACTTCC-AAAATTACCA-TTTTACCC
1 TAAACTTCCAAAAATTA-CATTTTTACCC
11667964 TCGAATATTT
Statistics
Matches: 166, Mismatches: 27, Indels: 25
0.76 0.12 0.11
Matches are distributed among these distances:
57 2 0.01
58 42 0.25
59 99 0.60
60 22 0.13
61 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.04, T:0.34
Consensus pattern (57 bp):
TAAACTTCCAAAAATTACATTTTTACCCCCAAACTTCCAAAAATTACATTTTGACCC
Found at i:11667913 original size:88 final size:88
Alignment explanation
Indices: 11667732--11667963 Score: 262
Period size: 88 Copynumber: 2.6 Consensus size: 88
11667722 TTGACCCCCA
* * *
11667732 AAACTTCCAAAAATTAC-ATTTTGACCCTCAAACTTCCAAAAATTACATTTTTACCCCTAAACTT
1 AAACTTTCAAAAATTACAATTTTGACCCCCGAACTTCCAAAAATTACA-TTTTACCCCTAAACTT
11667796 TCAAAAATTCAATTTTTGATCCCG
65 TCAAAAATTCAATTTTTGATCCCG
** *
11667820 AAACTTTTGAAAATTACAATTTT-ACCCCCGAACTCCCAAAAATTACATATTTACCCCTAAAC-T
1 AAACTTTCAAAAATTACAATTTTGACCCCCGAACTTCCAAAAATTACAT-TTTACCCCTAAACTT
* *
11667883 TCTAAAAATTCTATTTTTTA-CCCTTG
65 TC-AAAAATTCAATTTTTGATCCC--G
* *
11667909 -AACTTTCAAAAATTCCATTTTTGA-CCCCGATACTTCC-AAAATTACCATTTTACCC
1 AAACTTTCAAAAATTACAATTTTGACCCCCGA-ACTTCCAAAAATTA-CATTTTACCC
11667964 TCGAATATTT
Statistics
Matches: 123, Mismatches: 13, Indels: 16
0.81 0.09 0.11
Matches are distributed among these distances:
87 7 0.06
88 101 0.82
89 15 0.12
ACGTcount: A:0.36, C:0.26, G:0.03, T:0.35
Consensus pattern (88 bp):
AAACTTTCAAAAATTACAATTTTGACCCCCGAACTTCCAAAAATTACATTTTACCCCTAAACTTT
CAAAAATTCAATTTTTGATCCCG
Found at i:11667977 original size:29 final size:29
Alignment explanation
Indices: 11667887--11667988 Score: 77
Period size: 29 Copynumber: 3.5 Consensus size: 29
11667877 TAAACTTCTA
* * *
11667887 AAAATTCTATTTTTTACCCTTGAA-CTTTC
1 AAAATTCCA-TTTTTACCCTCGAATATTTC
*
11667916 AAAAATTCCATTTTTGACCC-CG-ATACTTCC
1 -AAAATTCCATTTTT-ACCCTCGAATA-TTTC
11667946 AAAATTACCA-TTTTACCCTCGAATATTTC
1 AAAATT-CCATTTTTACCCTCGAATATTTC
* *
11667975 AAAATCCCGTTTTT
1 AAAATTCCATTTTT
11667989 GATTCTGATT
Statistics
Matches: 58, Mismatches: 7, Indels: 15
0.73 0.09 0.19
Matches are distributed among these distances:
28 7 0.12
29 30 0.52
30 21 0.36
ACGTcount: A:0.30, C:0.25, G:0.05, T:0.40
Consensus pattern (29 bp):
AAAATTCCATTTTTACCCTCGAATATTTC
Found at i:11667988 original size:58 final size:59
Alignment explanation
Indices: 11667750--11668025 Score: 170
Period size: 59 Copynumber: 4.7 Consensus size: 59
11667740 AAAAATTACA
* * * *
11667750 TTTTGACCCTC-AAACTTCCAAAAATTA-CATTTTTACCC-CTAAACTTTCAAAAATTCAAT
1 TTTTGACCC-CGATACTTCCAAAAATTACCA-TTTTACCCTCGAAA-TTTCAAAAATCCCAT
* * *** * * * ** **
11667809 TTTTGATCCCGAAACTTTTGAAAATTACAATTTTACCCCCGAACTCCCAAAAATTACAT
1 TTTTGACCCCGATACTTCCAAAAATTACCATTTTACCCTCGAAATTTCAAAAATCCCAT
* * * * * * * *
11667868 ATTT-ACCCCTAAACTTCTAAAAATT-CTATTTTTTACCCTTGAACTTTCAAAAATTCCAT
1 TTTTGACCCCGATACTTCCAAAAATTACCA--TTTTACCCTCGAAATTTCAAAAATCCCAT
*
11667927 TTTTGACCCCGATACTTCC-AAAATTACCATTTTACCCTCGAATATTTC-AAAATCCCGT
1 TTTTGACCCCGATACTTCCAAAAATTACCATTTTACCCTCGAA-ATTTCAAAAATCCCAT
** * ** *
11667985 TTTTGATTCTGATTTTTCCAAAAATTATCATTTTACCCTCG
1 TTTTGACCCCGATACTTCCAAAAATTACCATTTTACCCTCG
11668026 GATGTCCGAA
Statistics
Matches: 171, Mismatches: 37, Indels: 18
0.76 0.16 0.08
Matches are distributed among these distances:
57 2 0.01
58 52 0.30
59 100 0.58
60 17 0.10
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.38
Consensus pattern (59 bp):
TTTTGACCCCGATACTTCCAAAAATTACCATTTTACCCTCGAAATTTCAAAAATCCCAT
Found at i:11668777 original size:157 final size:158
Alignment explanation
Indices: 11668589--11668906 Score: 376
Period size: 156 Copynumber: 2.0 Consensus size: 158
11668579 GTTCTCAAAA
* * * *
11668589 TATATATCTATATATCACAAATGATTTTAAAACAAAAACGAGGCAATGTCCTTTTATGTGAAAAC
1 TATATATC-ATATATCACAAAGGATTTTAAAAC-AAAACGAGACAATGTCCTTTCATGCGAAAAC
* * * * *
11668654 CTCGAAGA-ATCGTGCTCTAACGTGCTGAGTGTGATTTTCG-TAATTCATGCAAATCGGATATCC
64 CTCGAA-ACACCATGCCCTAACGTGCTGAGTGTGATTTTCGATAATTCACGC-AATAGGATATCC
11668717 TCTTCAAAAGTTT-TCAAAACATCCTTCAATTT
127 TCTTCAAAA-TTTCTCAAAACATCCTTCAATTT
* * *
11668749 TATATATC-TATAT-ACAAAGGATTTTAAAACAAAATGAGACAATGTCCTTTCGTGCGAAGACCT
1 TATATATCATATATCACAAAGGATTTTAAAACAAAACGAGACAATGTCCTTTCATGCGAAAACCT
* * * *
11668812 CGAAACACCATGCCCTAATGTGCTGGGTGTGATTTTCGTATAATTCACGCGATAGGATATTCTCT
66 CGAAACACCATGCCCTAACGTGCTGAGTGTGATTTTCG-ATAATTCACGCAATAGGATATCCTCT
* * *
11668877 TCAAAATTTCTCGAAACGTCTTTCAATTT
130 TCAAAATTTCTCAAAACATCCTTCAATTT
11668906 T
1 T
11668907 GAAACTCCGA
Statistics
Matches: 135, Mismatches: 19, Indels: 11
0.82 0.12 0.07
Matches are distributed among these distances:
155 1 0.01
156 61 0.45
157 51 0.38
158 14 0.10
160 8 0.06
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.34
Consensus pattern (158 bp):
TATATATCATATATCACAAAGGATTTTAAAACAAAACGAGACAATGTCCTTTCATGCGAAAACCT
CGAAACACCATGCCCTAACGTGCTGAGTGTGATTTTCGATAATTCACGCAATAGGATATCCTCTT
CAAAATTTCTCAAAACATCCTTCAATTT
Found at i:11679526 original size:46 final size:46
Alignment explanation
Indices: 11679459--11679680 Score: 302
Period size: 46 Copynumber: 4.8 Consensus size: 46
11679449 TATTGTTCAA
*
11679459 GTTCCCAGCTCCTGCATATGTTGCGGACTGGAGAATACGAATTTAG
1 GTTCCCAGCTCTTGCATATGTTGCGGACTGGAGAATACGAATTTAG
* * *
11679505 GTTCCCAGCTCTTGCATATGTTGCAGACTGGAGAATATGGAA-TTAA
1 GTTCCCAGCTCTTGCATATGTTGCGGACTGGAGAATA-CGAATTTAG
* * *
11679551 GTTCCTAGCTCCTGCATATGTTGCGGACTGAAGAATACGAATTTAG
1 GTTCCCAGCTCTTGCATATGTTGCGGACTGGAGAATACGAATTTAG
** * * *
11679597 GTTCCCAGCTCTTGCATATGTTGCAAACTGGAGAACATGGATTTAG
1 GTTCCCAGCTCTTGCATATGTTGCGGACTGGAGAATACGAATTTAG
* *
11679643 GTTCCTAGTTCTTGCATATGTTGCGGACTGGAGAATAC
1 GTTCCCAGCTCTTGCATATGTTGCGGACTGGAGAATAC
11679681 AAAATAATAA
Statistics
Matches: 150, Mismatches: 24, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
45 3 0.02
46 144 0.96
47 3 0.02
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (46 bp):
GTTCCCAGCTCTTGCATATGTTGCGGACTGGAGAATACGAATTTAG
Found at i:11679614 original size:92 final size:92
Alignment explanation
Indices: 11679457--11679680 Score: 376
Period size: 92 Copynumber: 2.4 Consensus size: 92
11679447 ATTATTGTTC
*
11679457 AAGTTCCCAGCTCCTGCATATGTTGCGGACTGGAGAATACGAATTTAGGTTCCCAGCTCTTGCAT
1 AAGTTCCTAGCTCCTGCATATGTTGCGGACTGGAGAATACGAATTTAGGTTCCCAGCTCTTGCAT
* *
11679522 ATGTTGCAGACTGGAGAATATGGAATT
66 ATGTTGCAAACTGGAGAACATGGAATT
*
11679549 AAGTTCCTAGCTCCTGCATATGTTGCGGACTGAAGAATACGAATTTAGGTTCCCAGCTCTTGCAT
1 AAGTTCCTAGCTCCTGCATATGTTGCGGACTGGAGAATACGAATTTAGGTTCCCAGCTCTTGCAT
*
11679614 ATGTTGCAAACTGGAGAACATGGATTT
66 ATGTTGCAAACTGGAGAACATGGAATT
* * *
11679641 AGGTTCCTAGTTCTTGCATATGTTGCGGACTGGAGAATAC
1 AAGTTCCTAGCTCCTGCATATGTTGCGGACTGGAGAATAC
11679681 AAAATAATAA
Statistics
Matches: 123, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
92 123 1.00
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (92 bp):
AAGTTCCTAGCTCCTGCATATGTTGCGGACTGGAGAATACGAATTTAGGTTCCCAGCTCTTGCAT
ATGTTGCAAACTGGAGAACATGGAATT
Found at i:11680591 original size:17 final size:17
Alignment explanation
Indices: 11680569--11680607 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
11680559 CACGGGCTGC
11680569 CACACGATCT-TGTGCCA
1 CACACGAT-TGTGTGCCA
*
11680586 CACACGGTTGTGTGCCA
1 CACACGATTGTGTGCCA
11680603 CACAC
1 CACAC
11680608 AGCTTCCTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 1 0.05
17 19 0.95
ACGTcount: A:0.23, C:0.36, G:0.21, T:0.21
Consensus pattern (17 bp):
CACACGATTGTGTGCCA
Found at i:11685647 original size:29 final size:29
Alignment explanation
Indices: 11685605--11685755 Score: 132
Period size: 29 Copynumber: 5.1 Consensus size: 29
11685595 AAACTTTTTT
*
11685605 AAAATTATATTTTTACCCTCAAAACTTTCC
1 AAAATTACATTTTTACCCTC-AAACTTTCC
* *
11685635 AAAATTACATTTTTACCTTC-AATTTTCCC
1 AAAATTACATTTTTACCCTCAAACTTT-CC
*
11685664 AAAATTACATTTTTGA-CCTTAAACTTTCC
1 AAAATTACATTTTT-ACCCTCAAACTTTCC
* *
11685693 AAAAATTACCA-TTTTACCCTCGAA-TGTCCC
1 -AAAATTA-CATTTTTACCCTCAAACT-TTCC
* *
11685723 AAAATTACATTTTTGA-CCACGAACTTTCC
1 AAAATTACATTTTT-ACCCTCAAACTTTCC
11685752 AAAA
1 AAAA
11685756 ATCTGAATAT
Statistics
Matches: 100, Mismatches: 11, Indels: 21
0.76 0.08 0.16
Matches are distributed among these distances:
28 7 0.07
29 46 0.46
30 45 0.45
31 2 0.02
ACGTcount: A:0.36, C:0.24, G:0.03, T:0.37
Consensus pattern (29 bp):
AAAATTACATTTTTACCCTCAAACTTTCC
Found at i:11685676 original size:59 final size:59
Alignment explanation
Indices: 11685605--11685757 Score: 181
Period size: 59 Copynumber: 2.6 Consensus size: 59
11685595 AAACTTTTTT
* * *
11685605 AAAATTATATTTTT-ACCCTCAAAACTTTCC-AAAATTA-CATTTTTACCTTC-AATTTTCCC
1 AAAATTACATTTTTGA-CCT-AAAACTTTCCAAAAATTACCA-TTTTACCCTCGAA-TGTCCC
*
11685664 AAAATTACATTTTTGACCTTAAACTTTCCAAAAATTACCATTTTACCCTCGAATGTCCC
1 AAAATTACATTTTTGACCTAAAACTTTCCAAAAATTACCATTTTACCCTCGAATGTCCC
*
11685723 AAAATTACATTTTTGACC-ACGAACTTTCCAAAAAT
1 AAAATTACATTTTTGACCTA-AAACTTTCCAAAAAT
11685758 CTGAATATCC
Statistics
Matches: 83, Mismatches: 6, Indels: 10
0.84 0.06 0.10
Matches are distributed among these distances:
58 9 0.11
59 69 0.83
60 5 0.06
ACGTcount: A:0.36, C:0.24, G:0.03, T:0.37
Consensus pattern (59 bp):
AAAATTACATTTTTGACCTAAAACTTTCCAAAAATTACCATTTTACCCTCGAATGTCCC
Found at i:11685780 original size:75 final size:76
Alignment explanation
Indices: 11685690--11685831 Score: 209
Period size: 75 Copynumber: 1.9 Consensus size: 76
11685680 CCTTAAACTT
** *
11685690 TCCAAAAATTACCATTTTACCCTCGAATGTCCCAAAATTA-CA-TTTTTGACCACGAA-CTTTCC
1 TCCAAAAATTACCATTTTACCCTCGAACAT-CCAAAATTACCATTTTTTGACC-CCAAGCTTTCC
11685752 AAAAATCTGAATA
64 AAAAATCTGAATA
*
11685765 TCCAAAAATTACCATTTTATCCTCGAACATCCAAAATTACCATTTTTTGACCCCAAGCTTTCCAA
1 TCCAAAAATTACCATTTTACCCTCGAACATCCAAAATTACCATTTTTTGACCCCAAGCTTTCCAA
11685830 AA
66 AA
11685832 TTACCATTTT
Statistics
Matches: 60, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
74 9 0.15
75 32 0.53
76 19 0.32
ACGTcount: A:0.37, C:0.27, G:0.06, T:0.31
Consensus pattern (76 bp):
TCCAAAAATTACCATTTTACCCTCGAACATCCAAAATTACCATTTTTTGACCCCAAGCTTTCCAA
AAATCTGAATA
Found at i:11685811 original size:29 final size:28
Alignment explanation
Indices: 11685764--11686068 Score: 169
Period size: 29 Copynumber: 10.6 Consensus size: 28
11685754 AAATCTGAAT
*
11685764 ATCCAAAAATTACCATTTTATCCTCGAAC
1 ATCC-AAAATTACCATTTTACCCTCGAAC
11685793 ATCCAAAATTACCATTTTTTGACCC-C-AAGC
1 ATCCAAAATTACCA--TTTT-ACCCTCGAA-C
* * *
11685823 TTTCCAAAATTACCATTTTACACTCGAGC
1 -ATCCAAAATTACCATTTTACCCTCGAAC
* * *
11685852 ATTCAAAATTA-CATCTTTGCCCCCTGAAC
1 ATCCAAAATTACCAT-TTTACCCTC-GAAC
* *
11685881 ATCCAAAATTCCCATTTTACCCTCGAATG
1 ATCCAAAATTACCATTTTACCCTCGAA-C
* * ** **
11685910 TTCAAAAATTACTTTTTTGA-CCTTAAAC
1 ATCCAAAATTACCATTTT-ACCCTCGAAC
* * *
11685938 TTTTCAAAAATTACCA-TTTACCCCCGAAC
1 --ATCCAAAATTACCATTTTACCCTCGAAC
* * **
11685967 ATCCAAAATTTACGATTTTACCCCCGAGT
1 ATCCAAAA-TTACCATTTTACCCTCGAAC
* *
11685996 GTCCAAAAATTACCGTTTTACCC-CGAAC
1 ATCC-AAAATTACCATTTTACCCTCGAAC
* *
11686024 ATCCAAAAATACCATTTTGCCC-CTG-AC
1 ATCCAAAATTACCATTTTACCCTC-GAAC
11686051 ATCCAAAAATTA-CATTTT
1 ATCC-AAAATTACCATTTT
11686069 TGACTCCATT
Statistics
Matches: 213, Mismatches: 43, Indels: 42
0.71 0.14 0.14
Matches are distributed among these distances:
27 37 0.17
28 50 0.23
29 83 0.39
30 27 0.13
31 16 0.08
ACGTcount: A:0.34, C:0.28, G:0.06, T:0.32
Consensus pattern (28 bp):
ATCCAAAATTACCATTTTACCCTCGAAC
Found at i:11685859 original size:59 final size:56
Alignment explanation
Indices: 11685769--11686041 Score: 173
Period size: 57 Copynumber: 4.7 Consensus size: 56
11685759 TGAATATCCA
*
11685769 AAAATTACCATTTTATCCTCGAACATCCAAAATTACCATTTTTTGACCCCAAGCTTTCC
1 AAAATTACCATTTTA-CCTCGAACATTCAAAATTA-CATTTTTTGACCCCAA-CTTTCC
* * * *
11685828 AAAATTACCATTTTACACTCGAGCATTCAAAATTACA-TCTTTGCCCCCTGAAC-ATCC
1 AAAATTACCATTTTAC-CTCGAACATTCAAAATTACATTTTTTGACCCC--AACTTTCC
* ** ** *
11685885 AAAATTCCCATTTTACCCTCGAATGTTCAAAAATTAC-TTTTTTGACCTTAAACTTTTCA
1 AAAATTACCATTTTA-CCTCGAACATTC-AAAATTACATTTTTTGACC-CCAAC-TTTCC
* * * * *
11685944 AAAATTACCA-TTTACCCCCGAACATCCAAAATTTACGA--TTTT-ACCCCCGAGTGTCC
1 AAAATTACCATTTTA-CCTCGAACATTCAAAA-TTAC-ATTTTTTGA-CCCCAACTTTCC
* * * *
11686000 AAAAATTACCGTTTTACCCCGAACATCCAAAAATACCATTTT
1 -AAAATTACCATTTTACCTCGAACATTCAAAATTA-CATTTT
11686042 GCCCCTGACA
Statistics
Matches: 168, Mismatches: 28, Indels: 37
0.72 0.12 0.16
Matches are distributed among these distances:
56 6 0.04
57 69 0.41
58 49 0.29
59 44 0.26
ACGTcount: A:0.34, C:0.28, G:0.06, T:0.32
Consensus pattern (56 bp):
AAAATTACCATTTTACCTCGAACATTCAAAATTACATTTTTTGACCCCAACTTTCC
Found at i:11685991 original size:116 final size:117
Alignment explanation
Indices: 11685758--11686041 Score: 296
Period size: 116 Copynumber: 2.5 Consensus size: 117
11685748 TTCCAAAAAT
* * * *
11685758 CTGAATATCCAAAAATTACCATTTTATCCTCGAACATCCAAAATTACCATTTTTTGACCCCAAGC
1 CTGAACATCCAAAAATTACCATTTTACCCTCGAACATCAAAAATTACCATTTTTTGACCCCAAAC
* * * * *
11685823 TTTCCAAAATTACCATTTTACACTCGAGCATTCAAAATTACATCTTTGCCCC
66 TTTCAAAAATTACCATTTTACACCCGAACATCCAAAATTACATCTTTACCCC
* ** **
11685875 CTGAACATCC-AAAATTCCCATTTTACCCTCGAATGTTCAAAAATTA-C-TTTTTTGACCTTAAA
1 CTGAACATCCAAAAATTACCATTTTACCCTCGAA-CATCAAAAATTACCATTTTTTGACCCCAAA
*
11685937 CTTTTCAAAAATTACCA-TTTACCCCCGAACATCCAAAATTTACGAT-TTTACCCC
65 C-TTTCAAAAATTACCATTTTACACCCGAACATCCAAAA-TTAC-ATCTTTACCCC
*** *
11685991 C-GAGTGTCCAAAAATTACCGTTTTACCC-CGAACATCCAAAAA-TACCATTTT
1 CTGAACATCCAAAAATTACCATTTTACCCTCGAACAT-CAAAAATTACCATTTT
11686042 GCCCCTGACA
Statistics
Matches: 137, Mismatches: 22, Indels: 17
0.78 0.12 0.10
Matches are distributed among these distances:
114 3 0.02
115 46 0.34
116 68 0.50
117 20 0.15
ACGTcount: A:0.34, C:0.28, G:0.06, T:0.32
Consensus pattern (117 bp):
CTGAACATCCAAAAATTACCATTTTACCCTCGAACATCAAAAATTACCATTTTTTGACCCCAAAC
TTTCAAAAATTACCATTTTACACCCGAACATCCAAAATTACATCTTTACCCC
Found at i:11686070 original size:28 final size:27
Alignment explanation
Indices: 11685942--11686068 Score: 105
Period size: 27 Copynumber: 4.6 Consensus size: 27
11685932 TTAAACTTTT
**
11685942 CAAAAATTACCATTTACCCCCGAACATC
1 CAAAAATTA-CATTTTGCCCCGAACATC
* * ***
11685970 CAAAATTTACGATTTTACCCCCGAGTGTC
1 CAAAAATTAC-ATTTT-GCCCCGAACATC
* *
11685999 CAAAAATTACCGTTTTACCCCGAACATC
1 CAAAAATTA-CATTTTGCCCCGAACATC
11686027 CAAAAA-TACCATTTTGCCCCTG-ACATC
1 CAAAAATTA-CATTTTGCCCC-GAACATC
11686054 CAAAAATTACATTTT
1 CAAAAATTACATTTT
11686069 TGACTCCATT
Statistics
Matches: 81, Mismatches: 13, Indels: 11
0.77 0.12 0.10
Matches are distributed among these distances:
27 30 0.37
28 29 0.36
29 21 0.26
30 1 0.01
ACGTcount: A:0.35, C:0.30, G:0.07, T:0.28
Consensus pattern (27 bp):
CAAAAATTACATTTTGCCCCGAACATC
Found at i:11690105 original size:17 final size:17
Alignment explanation
Indices: 11690083--11690152 Score: 63
Period size: 17 Copynumber: 4.1 Consensus size: 17
11690073 TTCAATGAAG
* *
11690083 AAAAAATAAAAAATAAA
1 AAAAAAGAAAAAAGAAA
11690100 AAAAAAGAAAAAAGAAA
1 AAAAAAGAAAAAAGAAA
11690117 AAAGAAA-AAGAAAA-AAA
1 AAA-AAAGAA-AAAAGAAA
* *
11690134 GGAAAAAGAAAATAGAAA
1 -AAAAAAGAAAAAAGAAA
11690152 A
1 A
11690153 TGAGAAAAAG
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
17 29 0.67
18 14 0.33
ACGTcount: A:0.84, C:0.00, G:0.11, T:0.04
Consensus pattern (17 bp):
AAAAAAGAAAAAAGAAA
Found at i:11690110 original size:7 final size:7
Alignment explanation
Indices: 11690100--11690166 Score: 75
Period size: 7 Copynumber: 9.6 Consensus size: 7
11690090 AAAAAATAAA
11690100 AAAAAAG
1 AAAAAAG
11690107 AAAAAAG
1 AAAAAAG
11690114 AAAAAAG
1 AAAAAAG
11690121 -AAAAAG
1 AAAAAAG
11690127 AAAAAAAG
1 -AAAAAAG
*
11690135 GAAAAAG
1 AAAAAAG
*
11690142 AAAATAG
1 AAAAAAG
*
11690149 -AAAATG
1 AAAAAAG
11690155 AGAAAAAG
1 A-AAAAAG
11690163 AAAA
1 AAAA
11690167 GGAGAGGTCA
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
6 10 0.20
7 28 0.56
8 12 0.24
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.03
Consensus pattern (7 bp):
AAAAAAG
Found at i:11690112 original size:24 final size:25
Alignment explanation
Indices: 11690080--11690166 Score: 85
Period size: 24 Copynumber: 3.6 Consensus size: 25
11690070 GGTTTCAATG
* *
11690080 AAGAAAAAATAAAAAATAAAAA-AA
1 AAGAAAAAAGAAAAAAGAAAAAGAA
11690104 AAGAAAAAAGAAAAAAGAAAAAG--
1 AAGAAAAAAGAAAAAAGAAAAAGAA
*
11690127 -A-AAAAAAGGAAAAAGAAAATAGAA
1 AAGAAAAAAGAAAAAAGAAAA-AGAA
11690151 AATGAGAAAAAGAAAA
1 AA-GA-AAAAAGAAAA
11690167 GGAGAGGTCA
Statistics
Matches: 51, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
21 17 0.33
22 3 0.06
24 20 0.39
25 1 0.02
27 1 0.02
28 9 0.18
ACGTcount: A:0.82, C:0.00, G:0.14, T:0.05
Consensus pattern (25 bp):
AAGAAAAAAGAAAAAAGAAAAAGAA
Found at i:11690131 original size:21 final size:21
Alignment explanation
Indices: 11690080--11690166 Score: 85
Period size: 21 Copynumber: 4.3 Consensus size: 21
11690070 GGTTTCAATG
* *
11690080 AAGAAAAA-ATAAAAA-ATAA
1 AAGAAAAAGAAAAAAAGAAAA
11690099 AA-AAAAAG-AAAAAAGAAAA
1 AAGAAAAAGAAAAAAAGAAAA
*
11690118 AAGAAAAAGAAAAAAAGGAAA
1 AAGAAAAAGAAAAAAAGAAAA
**
11690139 AAGAAAATAGAAAATGAG-AAA
1 AAGAAAA-AGAAAAAAAGAAAA
11690160 AAGAAAA
1 AAGAAAA
11690167 GGAGAGGTCA
Statistics
Matches: 58, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
18 10 0.17
19 7 0.12
20 6 0.10
21 27 0.47
22 8 0.14
ACGTcount: A:0.82, C:0.00, G:0.14, T:0.05
Consensus pattern (21 bp):
AAGAAAAAGAAAAAAAGAAAA
Found at i:11690138 original size:9 final size:8
Alignment explanation
Indices: 11690080--11690145 Score: 56
Period size: 7 Copynumber: 8.9 Consensus size: 8
11690070 GGTTTCAATG
11690080 AAGAAAAA
1 AAGAAAAA
11690088 ATA-AAAAA
1 A-AGAAAAA
11690096 TAA-AAAAA
1 -AAGAAAAA
11690104 AAG-AAAA
1 AAGAAAAA
11690111 AAG-AAAA
1 AAGAAAAA
11690118 AAG--AAA
1 AAGAAAAA
11690124 AAGAAAAA
1 AAGAAAAA
*
11690132 AAG-GAAA
1 AAGAAAAA
11690139 AAGAAAA
1 AAGAAAA
11690146 TAGAAAATGA
Statistics
Matches: 50, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
6 6 0.12
7 22 0.44
8 20 0.40
9 2 0.04
ACGTcount: A:0.85, C:0.00, G:0.12, T:0.03
Consensus pattern (8 bp):
AAGAAAAA
Found at i:11690139 original size:28 final size:28
Alignment explanation
Indices: 11690099--11690166 Score: 93
Period size: 28 Copynumber: 2.5 Consensus size: 28
11690089 TAAAAAATAA
*
11690099 AAAAAAAGAAAAAAGAAAAAAGAAAAAG
1 AAAAAAAGGAAAAAGAAAAAAGAAAAAG
* *
11690127 AAAAAAAGGAAAAAGAAAATAGAAAATG
1 AAAAAAAGGAAAAAGAAAAAAGAAAAAG
*
11690155 AGAAAAA-GAAAA
1 AAAAAAAGGAAAA
11690167 GGAGAGGTCA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
27 5 0.14
28 31 0.86
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.03
Consensus pattern (28 bp):
AAAAAAAGGAAAAAGAAAAAAGAAAAAG
Found at i:11690158 original size:8 final size:7
Alignment explanation
Indices: 11690085--11690166 Score: 53
Period size: 7 Copynumber: 11.6 Consensus size: 7
11690075 CAATGAAGAA
*
11690085 AAAATAA
1 AAAATAG
*
11690092 AAAATAAA
1 AAAAT-AG
*
11690100 AAAAAAG
1 AAAATAG
*
11690107 AAAAAAG
1 AAAATAG
*
11690114 AAAAAAG
1 AAAATAG
11690121 AAAA-AG
1 AAAATAG
*
11690127 AAAAAAAGG
1 -AAAATA-G
11690136 AAAA-AG
1 AAAATAG
11690142 AAAATAG
1 AAAATAG
11690149 AAAATGAG
1 AAAAT-AG
11690157 AAAA-AG
1 AAAATAG
11690163 AAAA
1 AAAA
11690167 GGAGAGGTCA
Statistics
Matches: 67, Mismatches: 2, Indels: 13
0.82 0.02 0.16
Matches are distributed among these distances:
6 13 0.19
7 36 0.54
8 17 0.25
9 1 0.01
ACGTcount: A:0.82, C:0.00, G:0.13, T:0.05
Consensus pattern (7 bp):
AAAATAG
Found at i:11691198 original size:50 final size:51
Alignment explanation
Indices: 11691079--11691291 Score: 194
Period size: 49 Copynumber: 4.3 Consensus size: 51
11691069 CAGGTTTGAC
* * * **
11691079 AGGGAAAGGTTGAGATCGCAACGGCAAACCTGGTACC--ACGAAGATACGA
1 AGGGAAAGGTTGAGGTCGCAACGGTAAACCTGGTACCATAAGAAGATGTGA
* *
11691128 AAGGAAAGGTTGAGATCGCAACGGTAAACCTGGTACC-TAAGAAGATGTGA
1 AGGGAAAGGTTGAGGTCGCAACGGTAAACCTGGTACCATAAGAAGATGTGA
* * * *
11691178 TGGGAAAGGTTGAGGCCGCAACGGTGAAA-TTGGTACCATAAAAAGA--TGA
1 AGGGAAAGGTTGAGGTCGCAACGGT-AAACCTGGTACCATAAGAAGATGTGA
* * *
11691227 AGGGAAAGATTGAGGTCGCGACGG-AGAATCC-GGTACCTTAA-AAGATGTGA
1 AGGGAAAGGTTGAGGTCGCAACGGTA-AA-CCTGGTACCATAAGAAGATGTGA
11691277 CA-GGAAAGGTTGAGG
1 -AGGGAAAGGTTGAGG
11691292 CTGTAACGGC
Statistics
Matches: 137, Mismatches: 18, Indels: 17
0.80 0.10 0.10
Matches are distributed among these distances:
47 1 0.01
48 6 0.04
49 67 0.49
50 52 0.38
51 11 0.08
ACGTcount: A:0.36, C:0.15, G:0.33, T:0.16
Consensus pattern (51 bp):
AGGGAAAGGTTGAGGTCGCAACGGTAAACCTGGTACCATAAGAAGATGTGA
Found at i:11691724 original size:38 final size:38
Alignment explanation
Indices: 11691607--11691725 Score: 121
Period size: 38 Copynumber: 3.1 Consensus size: 38
11691597 TCACCATTAG
* * *
11691607 CCAATCTCTTACCCGAGCTTGGGGTAGATTACAGTCAT
1 CCAATCTCTTACCCGACCATGGGGCAGATTACAGTCAT
* * * * * *
11691645 TCGATCTTTTACCCCAACCATGAGGCAGATCACAGTCAT
1 CCAATCTCTTA-CCCGACCATGGGGCAGATTACAGTCAT
* * *
11691684 CCAATCTCTTACCCGATCATGGGGCAGATTGCAGTTAT
1 CCAATCTCTTACCCGACCATGGGGCAGATTACAGTCAT
11691722 CCAA
1 CCAA
11691726 AATAATAAAA
Statistics
Matches: 62, Mismatches: 18, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
38 33 0.53
39 29 0.47
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (38 bp):
CCAATCTCTTACCCGACCATGGGGCAGATTACAGTCAT
Found at i:11692089 original size:208 final size:207
Alignment explanation
Indices: 11691741--11692256 Score: 656
Period size: 208 Copynumber: 2.5 Consensus size: 207
11691731 TAAAATAGTC
* * * *
11691741 ACCTTCCTGATAAGATACAGAGAAGTGAACCAAATCTGTCTTTTTGATGAGGTACAGAGAAGTGG
1 ACCTTCCTGATAAGATACAGAGAAGTGAACCAGATCCGTCTTCTTGATGAGATACAGAGAAGTGG
** * * * * **
11691806 ATTGAAATAGTGATGCGGCCATCTTCTTGATGAGGTACTGAGAAGTAGATTAAATCAATGAAACC
66 ATCAAAATAATGA-GCGGTCATCTTCTTGATGAGATACTGAAAAGTAGACCAAATCAATGAAACC
* *
11691871 AGGTTCAAAGTCAGCAAATCTT-AGAACCCCAACTTCCTGATGAGATACTGAGAAGCAGGTCGAA
130 AAGCTCAAAGTCAGCAAATCTTCA-AACCCCAACTTCCTGATGAGATACTGAGAAGCAGGTCGAA
* *
11691935 GTAATAAAGCGGTT
194 GCAATAAAGCAGTT
* * * * *
11691949 ACCTTCTTGATGAGATACAGAGAAGTAAACCAGATCCGTCTTCCTGATGAGATACAAAGAAGTGG
1 ACCTTCCTGATAAGATACAGAGAAGTGAACCAGATCCGTCTTCTTGATGAGATACAGAGAAGTGG
* * *
11692014 ATCAAAACAATGAGACGGTCATCTTCCTGATGAGATACTGAAAAGTAGACCAAATCAATGAAATC
66 ATCAAAATAATGAG-CGGTCATCTTCTTGATGAGATACTGAAAAGTAGACCAAATCAATGAAACC
* * * *
11692079 AAGCTCAAAGTGAGCGAATCTTCAAACCCCAACTTTCTGATGAGATATTGAGAAGCAGGTCGAAG
130 AAGCTCAAAGTCAGCAAATCTTCAAACCCCAACTTCCTGATGAGATACTGAGAAGCAGGTCGAAG
11692144 CAATAAAGCAGTT
195 CAATAAAGCAGTT
* * * * * * **
11692157 ACTTTCCTCATTAGATATAGAGAAGTGAACTAGATTCGTCTTCTTGATGAGATGTAGAGAAGTGG
1 ACCTTCCTGATAAGATACAGAGAAGTGAACCAGATCCGTCTTCTTGATGAGATACAGAGAAGTGG
*
11692222 ATCAAAATAATGAGGTGGTCATCTTCTTGATGAGA
66 ATCAAAATAATGA-GCGGTCATCTTCTTGATGAGA
11692257 CATTGAGAAG
Statistics
Matches: 262, Mismatches: 43, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
207 1 0.00
208 259 0.99
209 2 0.01
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.25
Consensus pattern (207 bp):
ACCTTCCTGATAAGATACAGAGAAGTGAACCAGATCCGTCTTCTTGATGAGATACAGAGAAGTGG
ATCAAAATAATGAGCGGTCATCTTCTTGATGAGATACTGAAAAGTAGACCAAATCAATGAAACCA
AGCTCAAAGTCAGCAAATCTTCAAACCCCAACTTCCTGATGAGATACTGAGAAGCAGGTCGAAGC
AATAAAGCAGTT
Found at i:11692266 original size:48 final size:48
Alignment explanation
Indices: 11692195--11692330 Score: 218
Period size: 48 Copynumber: 2.8 Consensus size: 48
11692185 ACTAGATTCG
** *
11692195 TCTTCTTGATGAGATGTAGAGAAGTGGATCAAAATAATGAGGTGGTCA
1 TCTTCTTGATGAGACATTGAGAAGTGGATCAAAATAATGAGGTGGTCA
11692243 TCTTCTTGATGAGACATTGAGAAGTGGATCAAAATAATGAGGTGGTCA
1 TCTTCTTGATGAGACATTGAGAAGTGGATCAAAATAATGAGGTGGTCA
* * *
11692291 TCTTCTTGATGAGACATTGAGAAGTAGACCAAATTAATGA
1 TCTTCTTGATGAGACATTGAGAAGTGGATCAAAATAATGA
11692331 AACCAAGCTC
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 82 1.00
ACGTcount: A:0.35, C:0.10, G:0.26, T:0.29
Consensus pattern (48 bp):
TCTTCTTGATGAGACATTGAGAAGTGGATCAAAATAATGAGGTGGTCA
Found at i:11692620 original size:134 final size:134
Alignment explanation
Indices: 11692367--11692620 Score: 296
Period size: 134 Copynumber: 1.9 Consensus size: 134
11692357 CGAACCTCAG
* * * * *
11692367 CTTCTTGATGAGGTACGGAGAAGCAAGTCGAAGCAATAAAATGGTCAGCTTCCTGATGAGATACT
1 CTTCTTGATGAGATACAGAGAAGCAAGTCGAAGCAATAAAATGGTAAGCTTCCTGACGAGATACA
* * * ***
11692432 GAGAAGTGGACCAAATTCGTCTTCCTGATAAGATACAAAGAAGCGAATTGAGACAAGCGAGGCGG
66 GAGAAGTGAACCAAATCCGTCTTCCTGATAAGATACAAAGAAGAGAACCAAGACAAGCGAGGCGG
11692497 TCAT
131 TCAT
* * * * * *
11692501 CTTCTTGATGAGATATAGAGAAGTAAGTCGAAGCAATAAAGTGGTAATCTTTCTGACGAGATGCA
1 CTTCTTGATGAGATACAGAGAAGCAAGTCGAAGCAATAAAATGGTAAGCTTCCTGACGAGATACA
* * *
11692566 GAGAAGTGAACCAAATCCGTCTT-CTTAGTGAGATTCAAAGAAGTAG-ACCAAGACA
66 GAGAAGTGAACCAAATCCGTCTTCCTGA-TAAGATACAAAGAAG-AGAACCAAGACA
11692621 TGAAACTACA
Statistics
Matches: 98, Mismatches: 20, Indels: 4
0.80 0.16 0.03
Matches are distributed among these distances:
133 3 0.03
134 94 0.96
135 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (134 bp):
CTTCTTGATGAGATACAGAGAAGCAAGTCGAAGCAATAAAATGGTAAGCTTCCTGACGAGATACA
GAGAAGTGAACCAAATCCGTCTTCCTGATAAGATACAAAGAAGAGAACCAAGACAAGCGAGGCGG
TCAT
Found at i:11693647 original size:51 final size:51
Alignment explanation
Indices: 11693576--11693799 Score: 333
Period size: 51 Copynumber: 4.4 Consensus size: 51
11693566 TTTATTTCTT
* *
11693576 ACTAAATGTCTTCGTCAGTAAATGAATCCTTTACGGATTAAAGGTCCGATG
1 ACTAAATGTCATCGTGAGTAAATGAATCCTTTACGGATTAAAGGTCCGATG
* * *
11693627 ACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAAGGTTCAATG
1 ACTAAATGTCATCGTGAGTAAATGAATCCTTTACGGATTAAAGGTCCGATG
* * *
11693678 ACTAAGTGTCATCGTGAGTAAATGAATTCTTTACGGATTAAAAGTCCGATG
1 ACTAAATGTCATCGTGAGTAAATGAATCCTTTACGGATTAAAGGTCCGATG
* * *
11693729 ACTAAATGTCATCGTGAGTAAATGAATCCATGACGAATTAAAGGTCCGATG
1 ACTAAATGTCATCGTGAGTAAATGAATCCTTTACGGATTAAAGGTCCGATG
11693780 AC-AATATGTCATCGTGAGTA
1 ACTAA-ATGTCATCGTGAGTA
11693800 TTAAATGAAA
Statistics
Matches: 157, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
50 2 0.01
51 155 0.99
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.30
Consensus pattern (51 bp):
ACTAAATGTCATCGTGAGTAAATGAATCCTTTACGGATTAAAGGTCCGATG
Found at i:11702954 original size:30 final size:30
Alignment explanation
Indices: 11702905--11703068 Score: 122
Period size: 30 Copynumber: 5.5 Consensus size: 30
11702895 TAGATCCCTG
* * *
11702905 AACTCTCCAAAAATCATATTTTGACCCCCA
1 AACTTTCCAAAAATTATATTTTTACCCCCA
*
11702935 AACTTTTCC-AAAATTATATTTTTACCCTCGA
1 AAC-TTTCCAAAAATTATATTTTTACCC-CCA
** * ***
11702966 AACTTT-TTAAAATTACATTTTTACCCTTG
1 AACTTTCCAAAAATTATATTTTTACCCCCA
* * * *
11702995 AA-TTTCCTAAAATTATATTTTTAACCTCG
1 AACTTTCCAAAAATTATATTTTTACCCCCA
*
11703024 AACTTTCCAAAAATTATCA-TTTTACCCCCT
1 AACTTTCCAAAAATTAT-ATTTTTACCCCCA
*
11703054 AAC-ATCCAAAAATTA
1 AACTTTCCAAAAATTA
11703069 CCCTTTTACC
Statistics
Matches: 110, Mismatches: 18, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
28 3 0.03
29 34 0.31
30 63 0.57
31 10 0.09
ACGTcount: A:0.36, C:0.24, G:0.02, T:0.38
Consensus pattern (30 bp):
AACTTTCCAAAAATTATATTTTTACCCCCA
Found at i:11703006 original size:29 final size:30
Alignment explanation
Indices: 11702939--11703082 Score: 127
Period size: 30 Copynumber: 4.9 Consensus size: 30
11702929 CCCCCAAACT
*
11702939 TTTCC-AAAATTATATTTTTACCCTCGAAAC
1 TTTCCTAAAATTACATTTTTACCCTCG-AAC
* *
11702969 TTT-TTAAAATTACATTTTTACCCTTGAA-
1 TTTCCTAAAATTACATTTTTACCCTCGAAC
* *
11702997 TTTCCTAAAATTATATTTTTAACCTCGAAC
1 TTTCCTAAAATTACATTTTTACCCTCGAAC
* * *
11703027 TTTCCAAAAATTATCA-TTTTACCCCCTAAC
1 TTTCCTAAAATTA-CATTTTTACCCTCGAAC
* * **
11703057 -ATCCAAAAATTACCCTTTTACCCTCG
1 TTTCCTAAAATTACATTTTTACCCTCG
11703083 GATGTCTGAA
Statistics
Matches: 93, Mismatches: 16, Indels: 11
0.77 0.13 0.09
Matches are distributed among these distances:
28 4 0.04
29 43 0.46
30 45 0.48
31 1 0.01
ACGTcount: A:0.33, C:0.24, G:0.03, T:0.40
Consensus pattern (30 bp):
TTTCCTAAAATTACATTTTTACCCTCGAAC
Found at i:11703037 original size:59 final size:58
Alignment explanation
Indices: 11702939--11703050 Score: 156
Period size: 59 Copynumber: 1.9 Consensus size: 58
11702929 CCCCCAAACT
* **
11702939 TTTCCAAAATTATATTTTTACCCTCGAAACTTTTTAAAATTA-CATTTTTACCCTTGAA
1 TTTCCAAAATTATATTTTTAACCTCGAAACTTTCAAAAATTATCA-TTTTACCCTTGAA
11702997 TTTCCTAAAATTATATTTTTAACCTCG-AACTTTCCAAAAATTATCATTTTACCC
1 TTTCC-AAAATTATATTTTTAACCTCGAAACTTT-CAAAAATTATCATTTTACCC
11703051 CCTAACATCC
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
58 11 0.23
59 35 0.73
60 2 0.04
ACGTcount: A:0.33, C:0.21, G:0.03, T:0.44
Consensus pattern (58 bp):
TTTCCAAAATTATATTTTTAACCTCGAAACTTTCAAAAATTATCATTTTACCCTTGAA
Found at i:11703068 original size:59 final size:58
Alignment explanation
Indices: 11702904--11703064 Score: 150
Period size: 59 Copynumber: 2.7 Consensus size: 58
11702894 ATAGATCCCT
* * * *
11702904 GAACTCTCCAAAAATCAT-ATTTTGACCCCCAAACTTTTCCAAAATTATATTTTTACCCTC
1 GAACTTTCCAAAAATTATCATTTT-ACCCCCTAAC--TTCCAAAATTATATTTTTAACCTC
** * *
11702964 GAAACTTT-TTAAAATTA-CATTTTTA-CCCTTGAATTTCCTAAAATTATATTTTTAACCTC
1 G-AACTTTCCAAAAATTATCA-TTTTACCCCCT-AACTTCC-AAAATTATATTTTTAACCTC
*
11703023 GAACTTTCCAAAAATTATCATTTTACCCCCTAACATCCAAAA
1 GAACTTTCCAAAAATTATCATTTTACCCCCTAACTTCCAAAA
11703065 ATTACCCTTT
Statistics
Matches: 80, Mismatches: 13, Indels: 18
0.72 0.12 0.16
Matches are distributed among these distances:
58 14 0.17
59 40 0.50
60 17 0.21
61 9 0.11
ACGTcount: A:0.35, C:0.24, G:0.03, T:0.37
Consensus pattern (58 bp):
GAACTTTCCAAAAATTATCATTTTACCCCCTAACTTCCAAAATTATATTTTTAACCTC
Found at i:11703096 original size:88 final size:87
Alignment explanation
Indices: 11703003--11703341 Score: 266
Period size: 88 Copynumber: 3.9 Consensus size: 87
11702993 TGAATTTCCT
* * * *
11703003 AAAATTATATTTTTAACCTCGAACTTTCCAAAAATTATCATTTTACCCCCTAACATCCAAAAATT
1 AAAATTATATTTTTAACCACAAACTTTCCAAAAATTACCATTTTACCCCCGAACATCC-AAAATT
*
11703068 ACCCTTTTACCCTCGGATGTCTG
65 ACCATTTTACCCTCGGATGTCTG
* * * * *
11703091 AAAATTATATTTTTTATCACAAACTTTTCAAAAATTACCATTTTATCCTCGAACATCCAAAATTA
1 AAAATTATATTTTTAACCACAAACTTTCCAAAAATTACCATTTTACCCCCGAACATCCAAAATTA
* * * *
11703156 CCATTTTTTGA-TCTCGAGCTTTC-C
66 CCA--TTTT-ACCCTCG-GATGTCTG
* *** * *
11703180 AAAATTACCATTTTGCCCCAGAGAA--TT-C-AAAATT-GCATCTTTACCCCCGAACATCCAAAA
1 AAAATTA-TATTTTTAACCACA-AACTTTCCAAAAATTACCAT-TTTACCCCCGAACATCCAAAA
* * *
11703240 TT-CTCATTTTACCCCCGAATGTCTA
63 TTAC-CATTTTACCCTCGGATGTCTG
* * *
11703265 AAAATT-TCTTTTTTAATCC-CAAACTTTCTAAAAATTACTATTTTACCCCCGAACATCCAAAAA
1 AAAATTAT-ATTTTTAA-CCACAAACTTTCCAAAAATTACCATTTTACCCCCGAACATCC-AAAA
11703328 TTACCATTTTACCC
63 TTACCATTTTACCC
11703342 CCGAGTGTCC
Statistics
Matches: 194, Mismatches: 38, Indels: 38
0.72 0.14 0.14
Matches are distributed among these distances:
83 2 0.01
84 9 0.05
85 17 0.09
86 4 0.02
87 61 0.31
88 68 0.35
89 18 0.09
90 13 0.07
91 2 0.01
ACGTcount: A:0.34, C:0.26, G:0.05, T:0.35
Consensus pattern (87 bp):
AAAATTATATTTTTAACCACAAACTTTCCAAAAATTACCATTTTACCCCCGAACATCCAAAATTA
CCATTTTACCCTCGGATGTCTG
Found at i:11703151 original size:29 final size:29
Alignment explanation
Indices: 11703119--11703368 Score: 129
Period size: 29 Copynumber: 8.6 Consensus size: 29
11703109 ACAAACTTTT
* *
11703119 CAAAAATTACCATTTTATCCTCGAACATC
1 CAAAAATTACCATTTTACCCCCGAACATC
* * * *
11703148 C-AAAATTACCATTTTTTGA-TCTCGAGCTTTC
1 CAAAAATTACCA--TTTT-ACCCCCGAAC-ATC
* * *
11703179 C-AAAATTACCATTTTGCCCCAGAGA-ATT
1 CAAAAATTACCATTTTACCCCCGA-ACATC
*
11703207 C-AAAATT-GCATCTTTACCCCCGAACATC
1 CAAAAATTACCAT-TTTACCCCCGAACATC
**
11703235 C-AAAATT-CTCATTTTACCCCCGAATGTC
1 CAAAAATTAC-CATTTTACCCCCGAACATC
* * ** ** * *
11703263 TAAAAATTTCTTTTTTAATCCCAAACTTTC
1 CAAAAATTACCATTTTACCCCCGAAC-ATC
* *
11703293 TAAAAATTACTATTTTACCCCCGAACATC
1 CAAAAATTACCATTTTACCCCCGAACATC
***
11703322 CAAAAATTACCATTTTACCCCCGAGTGTC
1 CAAAAATTACCATTTTACCCCCGAACATC
* *
11703351 CAAAATTTATCATTTTAC
1 CAAAAATTACCATTTTAC
11703369 TCCCAAGTGT
Statistics
Matches: 171, Mismatches: 38, Indels: 24
0.73 0.16 0.10
Matches are distributed among these distances:
27 4 0.02
28 50 0.29
29 69 0.40
30 34 0.20
31 14 0.08
ACGTcount: A:0.33, C:0.27, G:0.06, T:0.34
Consensus pattern (29 bp):
CAAAAATTACCATTTTACCCCCGAACATC
Found at i:11703160 original size:28 final size:29
Alignment explanation
Indices: 11703121--11703194 Score: 89
Period size: 31 Copynumber: 2.5 Consensus size: 29
11703111 AAACTTTTCA
11703121 AAAATTACCATTTT-ATCCTCGAAC-ATCC
1 AAAATTACCATTTTGAT-CTCGAACTATCC
* *
11703149 AAAATTACCATTTTTTGATCTCGAGCTTTCC
1 AAAATTACCA--TTTTGATCTCGAACTATCC
11703180 AAAATTACCATTTTG
1 AAAATTACCATTTTG
11703195 CCCCAGAGAA
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
28 10 0.25
29 5 0.12
30 10 0.25
31 15 0.38
ACGTcount: A:0.32, C:0.23, G:0.07, T:0.38
Consensus pattern (29 bp):
AAAATTACCATTTTGATCTCGAACTATCC
Found at i:11703377 original size:29 final size:28
Alignment explanation
Indices: 11703294--11703450 Score: 122
Period size: 29 Copynumber: 5.5 Consensus size: 28
11703284 CAAACTTTCT
***
11703294 AAAAATTA-CTATTTTACCCCCGAACATCC
1 AAAAATTATC-ATTTTA-CCCCGAGTGTCC
*
11703323 AAAAATTACCATTTTACCCCCGAGTGTCC
1 AAAAATTATCATTTTA-CCCCGAGTGTCC
* * *
11703352 AAAATTTATCATTTTACTCCCAAGTGTTC
1 AAAAATTATCATTTTAC-CCCGAGTGTCC
* *
11703381 AAAAATTATCGTTTTACCCTCGGGTGTCC
1 AAAAATTATCATTTTACCC-CGAGTGTCC
** * **
11703410 -AAAATTATTGTTTTACCCCTAGCATCC
1 AAAAATTATCATTTTACCCCGAGTGTCC
11703437 AAAAATTA-CATTTT
1 AAAAATTATCATTTT
11703451 TGACTCCATT
Statistics
Matches: 105, Mismatches: 19, Indels: 10
0.78 0.14 0.07
Matches are distributed among these distances:
27 9 0.09
28 27 0.26
29 68 0.65
30 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.08, T:0.34
Consensus pattern (28 bp):
AAAAATTATCATTTTACCCCGAGTGTCC
Found at i:11703385 original size:87 final size:86
Alignment explanation
Indices: 11703024--11703388 Score: 261
Period size: 88 Copynumber: 4.2 Consensus size: 86
11703014 TTTAACCTCG
* * *
11703024 AACTTTCCAAAAATTA-TCATTTTACCCCCTAACATCCAAAAATTACCCTTTTACCCTCG-GATG
1 AACTTT-CAAAAATTACT-ATTTTACCCCCGAACATCC-AAAATTACCATTTTACCCCCGAGATG
* * *
11703087 TCTGAAAATTATAT-TTTTTA-TCACA
63 TC-CAAAATT-TATCATTTTACTC-CC
* * * * * *
11703112 AACTTTTCAAAAATTACCATTTTATCCTCGAACATCCAAAATTACCATTTTTTGA-TCTCGAGCT
1 AAC-TTTCAAAAATTACTATTTTACCCCCGAACATCCAAAATTACCA--TTTT-ACCCCCGAGAT
* * *
11703176 TTCCAAAA-TTACCATTTTGC-CCC
62 GTCCAAAATTTATCATTTTACTCCC
** *
11703199 AGAGAATTC-AAAATTGC-ATCTTTACCCCCGAACATCCAAAATT-CTCATTTTACCCCCGA-AT
1 A-A-CTTTCAAAAATTACTAT-TTTACCCCCGAACATCCAAAATTAC-CATTTTACCCCCGAGAT
* * * *
11703260 GTCTAAAAATT-TCTTTTTTAATCCC
62 GTCCAAAATTTATC-ATTTTACTCCC
11703285 AAACTTTCTAAAAATTACTATTTTACCCCCGAACATCCAAAAATTACCATTTTACCCCCGAG-TG
1 -AACTTTC-AAAAATTACTATTTTACCCCCGAACATCC-AAAATTACCATTTTACCCCCGAGATG
11703349 TCCAAAATTTATCATTTTACTCCC
63 TCCAAAATTTATCATTTTACTCCC
*
11703373 AAGTGTTCAAAAATTA
1 AACT-TTCAAAAATTA
11703389 TCGTTTTACC
Statistics
Matches: 217, Mismatches: 35, Indels: 51
0.72 0.12 0.17
Matches are distributed among these distances:
84 9 0.04
85 17 0.08
86 7 0.03
87 79 0.36
88 82 0.38
89 18 0.08
90 5 0.02
ACGTcount: A:0.34, C:0.26, G:0.06, T:0.35
Consensus pattern (86 bp):
AACTTTCAAAAATTACTATTTTACCCCCGAACATCCAAAATTACCATTTTACCCCCGAGATGTCC
AAAATTTATCATTTTACTCCC
Found at i:11703396 original size:87 final size:86
Alignment explanation
Indices: 11703024--11703399 Score: 274
Period size: 87 Copynumber: 4.3 Consensus size: 86
11703014 TTTAACCTCG
* * *
11703024 AACTTTCCAAAAATTATCATTTTACCCCCTAACATCCAAAAATTACCCTTTTACCCTCG-GATGT
1 AACTTT-CAAAAATTATCATTTTACCCCCGAACATCC-AAAATTACCATTTTACCCCCGAGATGT
* * *
11703088 CTGAAAATTATAT-TTTTTA-TCACA
64 C-CAAAATT-TATCATTTTACTC-CC
* * * * * *
11703112 AACTTTTCAAAAATTACCATTTTATCCTCGAACATCCAAAATTACCATTTTTTGA-TCTCGAGCT
1 AAC-TTTCAAAAATTATCATTTTACCCCCGAACATCCAAAATTACCA--TTTT-ACCCCCGAGAT
* * *
11703176 TTCCAAAA-TTACCATTTTGC-CCC
62 GTCCAAAATTTATCATTTTACTCCC
** *
11703199 AGAGAATTC-AAAATT-GCATCTTTACCCCCGAACATCCAAAATT-CTCATTTTACCCCCGA-AT
1 A-A-CTTTCAAAAATTATCAT-TTTACCCCCGAACATCCAAAATTAC-CATTTTACCCCCGAGAT
* * * *
11703260 GTCTAAAAATT-TCTTTTTTAATCCC
62 GTCCAAAATTTATC-ATTTTACTCCC
11703285 AAACTTTCTAAAAATTA-CTATTTTACCCCCGAACATCCAAAAATTACCATTTTACCCCCGAG-T
1 -AACTTTC-AAAAATTATC-ATTTTACCCCCGAACATCC-AAAATTACCATTTTACCCCCGAGAT
11703348 GTCCAAAATTTATCATTTTACTCCC
62 GTCCAAAATTTATCATTTTACTCCC
* *
11703373 AAGTGTTCAAAAATTATCGTTTTACCC
1 AACT-TTCAAAAATTATCATTTTACCC
11703400 TCGGGTGTCC
Statistics
Matches: 227, Mismatches: 35, Indels: 53
0.72 0.11 0.17
Matches are distributed among these distances:
84 9 0.04
85 17 0.07
86 8 0.04
87 86 0.38
88 84 0.37
89 18 0.08
90 5 0.02
ACGTcount: A:0.33, C:0.26, G:0.06, T:0.35
Consensus pattern (86 bp):
AACTTTCAAAAATTATCATTTTACCCCCGAACATCCAAAATTACCATTTTACCCCCGAGATGTCC
AAAATTTATCATTTTACTCCC
Found at i:11711074 original size:31 final size:31
Alignment explanation
Indices: 11711025--11711161 Score: 124
Period size: 31 Copynumber: 4.5 Consensus size: 31
11711015 CTAAAAAAGG
11711025 AATAAAAGGG-T-AATTTTAAAAGAAATAAA
1 AATAAAAGGGTTAAATTTTAAAAGAAATAAA
*
11711054 AATAAAAGGGTTAAATTTTAAAAAAAATAAA
1 AATAAAAGGGTTAAATTTTAAAAGAAATAAA
* * * * *
11711085 AATAAAAGGATTTAGTCTTAAAA-AAAT--G
1 AATAAAAGGGTTAAATTTTAAAAGAAATAAA
* * *
11711113 AATAAATGGG-TAAAATTTAAAAGAGAAAAAA
1 AATAAAAGGGTTAAATTTTAAAAGA-AATAAA
*
11711144 CAATAAAAGGATTAAATT
1 -AATAAAAGGGTTAAATT
11711162 CCAATCAAAA
Statistics
Matches: 83, Mismatches: 17, Indels: 12
0.74 0.15 0.11
Matches are distributed among these distances:
27 8 0.10
28 9 0.11
29 12 0.14
30 5 0.06
31 36 0.43
32 8 0.10
33 5 0.06
ACGTcount: A:0.61, C:0.01, G:0.13, T:0.25
Consensus pattern (31 bp):
AATAAAAGGGTTAAATTTTAAAAGAAATAAA
Done.