Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 32 of 214
Found at i:8870046 original size:40 final size:40
Alignment explanation
Indices: 8870017--8870110 Score: 134
Period size: 40 Copynumber: 2.4 Consensus size: 40
8870007 ATGCTCTCTC
*
8870017 AAGGAAGCGTTTTCTGTCCACATGGACAAAGCGCTTCCTT
1 AAGGAAGCGTTTTCTGTCCACATGGACAAAGTGCTTCCTT
* * * * *
8870057 GAGGAATCATTTTTTGTCCTCATGGACAAAGTGCTTCCTT
1 AAGGAAGCGTTTTCTGTCCACATGGACAAAGTGCTTCCTT
8870097 AAGGAAGCGTTTTC
1 AAGGAAGCGTTTTC
8870111 CTGCTTTATC
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.32
Consensus pattern (40 bp):
AAGGAAGCGTTTTCTGTCCACATGGACAAAGTGCTTCCTT
Found at i:8878377 original size:22 final size:23
Alignment explanation
Indices: 8878350--8878394 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
8878340 AGGTATCTAC
8878350 AAATCAAATC-TCTAAGATTACA
1 AAATCAAATCTTCTAAGATTACA
*
8878372 AAATCATATCTTCTAAGATTACA
1 AAATCAAATCTTCTAAGATTACA
8878395 TATCATATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.47, C:0.18, G:0.04, T:0.31
Consensus pattern (23 bp):
AAATCAAATCTTCTAAGATTACA
Found at i:8878399 original size:22 final size:22
Alignment explanation
Indices: 8878347--8878404 Score: 82
Period size: 22 Copynumber: 2.6 Consensus size: 22
8878337 AAAAGGTATC
*
8878347 TACAAATCAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
8878368 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
8878391 TACATATCATATCT
1 TACAAATCATATCT
8878405 ACGGTTGCAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
21 3 0.09
22 19 0.58
23 11 0.33
ACGTcount: A:0.43, C:0.19, G:0.03, T:0.34
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:8886355 original size:12 final size:12
Alignment explanation
Indices: 8886328--8886369 Score: 50
Period size: 11 Copynumber: 3.5 Consensus size: 12
8886318 ATTTATTTAG
8886328 AAAATTAATAATA
1 AAAATTAA-AATA
*
8886341 AAAATTAAAA-G
1 AAAATTAAAATA
*
8886352 AAAATGAAAATA
1 AAAATTAAAATA
8886364 AAAATT
1 AAAATT
8886370 TAATGGTGGG
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
11 9 0.38
12 7 0.29
13 8 0.33
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (12 bp):
AAAATTAAAATA
Found at i:8887264 original size:24 final size:24
Alignment explanation
Indices: 8887237--8887290 Score: 76
Period size: 24 Copynumber: 2.2 Consensus size: 24
8887227 TTTGGATATA
8887237 AAAATAATAATCAAAATTTT-G-TTT
1 AAAATAA-AAT-AAAATTTTGGTTTT
8887261 AAAATAAAATAAAATTTTGGTTTT
1 AAAATAAAATAAAATTTTGGTTTT
8887285 AAAATA
1 AAAATA
8887291 TAAAAAGAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
22 8 0.29
23 4 0.14
24 16 0.57
ACGTcount: A:0.54, C:0.02, G:0.06, T:0.39
Consensus pattern (24 bp):
AAAATAAAATAAAATTTTGGTTTT
Found at i:8888064 original size:19 final size:19
Alignment explanation
Indices: 8888040--8888113 Score: 112
Period size: 19 Copynumber: 3.8 Consensus size: 19
8888030 ATCTTCAAGA
8888040 ATATGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
8888059 ATATGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
*
8888078 ATATATGCAATCTTGGATATG
1 --ATATGCAATCTTAGATATG
*
8888099 ATATGCAATATTAGA
1 ATATGCAATCTTAGA
8888114 AGATATGATT
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
19 32 0.64
21 18 0.36
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.36
Consensus pattern (19 bp):
ATATGCAATCTTAGATATG
Found at i:8888085 original size:21 final size:21
Alignment explanation
Indices: 8888040--8888102 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
8888030 ATCTTCAAGA
8888040 ATATGCAATCTTAGATATG--
1 ATATGCAATCTTAGATATGAT
8888059 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
*
8888080 ATATGCAATCTTGGATATGAT
1 ATATGCAATCTTAGATATGAT
8888101 AT
1 AT
8888103 GCAATATTAG
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
19 19 0.46
21 22 0.54
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.38
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:8890043 original size:19 final size:19
Alignment explanation
Indices: 8890019--8890070 Score: 68
Period size: 21 Copynumber: 2.6 Consensus size: 19
8890009 ATATCTTCCG
8890019 AGATTGTATATCATATCCA
1 AGATTGTATATCATATCCA
*
8890038 AGATTGCATATATCATATCTA
1 AGATTG--TATATCATATCCA
*
8890059 AGATTGCATATC
1 AGATTGTATATC
8890071 CTTGAAGATT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 11 0.38
21 18 0.62
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.37
Consensus pattern (19 bp):
AGATTGTATATCATATCCA
Found at i:8890051 original size:21 final size:21
Alignment explanation
Indices: 8890025--8890069 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
8890015 TCCGAGATTG
8890025 TATATCATATCCAAGATTGCA
1 TATATCATATCCAAGATTGCA
*
8890046 TATATCATATCTAAGATTGCA
1 TATATCATATCCAAGATTGCA
8890067 TAT
1 TAT
8890070 CCTTGAAGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.38
Consensus pattern (21 bp):
TATATCATATCCAAGATTGCA
Found at i:8890539 original size:42 final size:42
Alignment explanation
Indices: 8890480--8890559 Score: 133
Period size: 42 Copynumber: 1.9 Consensus size: 42
8890470 TTTCATGTCG
*
8890480 ATACATAAAGACAAGATCTGCTTTCTTCGATCTACTTCGCTA
1 ATACATAAAGACAAGATCTACTTTCTTCGATCTACTTCGCTA
* *
8890522 ATACATGAAGACAAGATCTACTTTCTTCGATCTGCTTC
1 ATACATAAAGACAAGATCTACTTTCTTCGATCTACTTC
8890560 ACTGTCGGTA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.34
Consensus pattern (42 bp):
ATACATAAAGACAAGATCTACTTTCTTCGATCTACTTCGCTA
Found at i:8890653 original size:88 final size:88
Alignment explanation
Indices: 8890545--8890980 Score: 622
Period size: 88 Copynumber: 5.0 Consensus size: 88
8890535 AGATCTACTT
* * *
8890545 TCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTAC
1 TCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTAC
*
8890610 GACCCAGGGAGGCAAGGCTGGTA
66 AACCCAGGGAGGCAAGGCTGGTA
* * *
8890633 TCTTCGATCTGCTTCGCTGTCGATGCAGGAAGACAATATCTGTTATCTTCAACCTGCTCCACTAC
1 TCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTAC
* *
8890698 AACCCAGGGAGGCAAGGTTAGTA
66 AACCCAGGGAGGCAAGGCTGGTA
* *
8890721 TCTTCGATCTGCTTCGTTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACTTGCTCCACTAC
1 TCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTAC
*
8890786 AACCCATGGAGGCAAGGCTGGTA
66 AACCCAGGGAGGCAAGGCTGGTA
*
8890809 TCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATTTGCTATCTTCAACCTGCTCCACTAC
1 TCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTAC
*
8890874 AACCCAGGGAGGTAAGGCTGGTA
66 AACCCAGGGAGGCAAGGCTGGTA
* * ** * * * * *
8890897 TCTTCGATCTGCTTCGCCGTC-AGTTCAGGAAGATAAGATCTGTTATTTTCAGCCTGCTCCGCTG
1 TCTTCGATCTGCTTCGCTGTCGA-TGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTA
* * *
8890961 CAAACCAGGAAGGTAAGGCT
65 CAACCCAGGGAGGCAAGGCT
8890981 TTGTGATTTC
Statistics
Matches: 313, Mismatches: 34, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
87 1 0.00
88 312 1.00
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (88 bp):
TCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTAC
AACCCAGGGAGGCAAGGCTGGTA
Found at i:8890799 original size:44 final size:43
Alignment explanation
Indices: 8890570--8890881 Score: 143
Period size: 44 Copynumber: 7.1 Consensus size: 43
8890560 ACTGTCGGTA
*
8890570 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACGACC
1 CAGG-AGGCAAGATCTGCTATCTTCAACTTGCTCCACTACGACC
* * * * * * **
8890614 CAGGGAGGCAAG-GCTGGTATCTTCGA-TCTGCTTCGCTGTCGATG
1 CA-GGAGGCAAGATCTGCTATCTTCAACT-TGCTCCACT-ACGACC
* * * * *
8890658 CAGGAAGACAATATCTGTTATCTTCAACCTGCTCCACTACAACC
1 CAGG-AGGCAAGATCTGCTATCTTCAACTTGCTCCACTACGACC
* * * ** * **
8890702 CAGGGAGGCAAGGT-TAG-TATCTTCGA-TCTGCTTCGTTGTCGATG
1 CA-GGAGGCAAGATCT-GCTATCTTCAACT-TGCTCCACT-ACGACC
*
8890746 CAGGAAGGCAAGATCTGCTATCTTCAACTTGCTCCACTACAACC
1 CAGG-AGGCAAGATCTGCTATCTTCAACTTGCTCCACTACGACC
* * * * * * **
8890790 CATGGAGGCAAG-GCTGGTATCTTCGA-TCTGCTTCGCTGTCGATG
1 CA-GGAGGCAAGATCTGCTATCTTCAACT-TGCTCCACT-ACGACC
* * *
8890834 CAGGAAGGCAAGATTTGCTATCTTCAACCTGCTCCACTACAACC
1 CAGG-AGGCAAGATCTGCTATCTTCAACTTGCTCCACTACGACC
8890878 CAGG
1 CAGG
8890882 GAGGTAAGGC
Statistics
Matches: 186, Mismatches: 62, Indels: 40
0.65 0.22 0.14
Matches are distributed among these distances:
42 1 0.01
43 57 0.31
44 71 0.38
45 56 0.30
46 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (43 bp):
CAGGAGGCAAGATCTGCTATCTTCAACTTGCTCCACTACGACC
Found at i:8896163 original size:11 final size:10
Alignment explanation
Indices: 8896134--8896167 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
8896124 TTAAAATCTT
8896134 AAATTAAAAC
1 AAATTAAAAC
*
8896144 ATATTAAAAC
1 AAATTAAAAC
8896154 AAATTTAAAAC
1 AAA-TTAAAAC
8896165 AAA
1 AAA
8896168 AACGTTTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 11 0.52
11 10 0.48
ACGTcount: A:0.68, C:0.09, G:0.00, T:0.24
Consensus pattern (10 bp):
AAATTAAAAC
Found at i:8897469 original size:34 final size:34
Alignment explanation
Indices: 8897423--8897487 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
8897413 TGAAAATAAA
* *
8897423 ATAAAGATAAAAAAATGTATATGTGTATATATTT
1 ATAAAGATAAAAAAATGTATAAGTATATATATTT
8897457 ATAAA-ATAAAAAAAATGTATAAGTATATATA
1 ATAAAGAT-AAAAAAATGTATAAGTATATATA
8897488 AAATATAAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 2 0.07
34 26 0.93
ACGTcount: A:0.57, C:0.00, G:0.09, T:0.34
Consensus pattern (34 bp):
ATAAAGATAAAAAAATGTATAAGTATATATATTT
Found at i:8897600 original size:17 final size:18
Alignment explanation
Indices: 8897578--8897612 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
8897568 ATAAAAGCTT
8897578 AAAAAT-ATATATATTAA
1 AAAAATCATATATATTAA
8897595 AAAAATGCATATATATTA
1 AAAAAT-CATATATATTA
8897613 TATATAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
19 10 0.62
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (18 bp):
AAAAATCATATATATTAA
Found at i:8897610 original size:25 final size:25
Alignment explanation
Indices: 8897582--8897667 Score: 95
Period size: 25 Copynumber: 3.5 Consensus size: 25
8897572 AAGCTTAAAA
8897582 ATATATATATTAAAAAAATGCATAT
1 ATATATATATTAAAAAAATGCATAT
* *
8897607 ATAT-TATATATAAAAATATGCGTAT
1 ATATATATAT-TAAAAAAATGCATAT
* * *
8897632 GTA-CTATATGAAAAAAATGCATAT
1 ATATATATATTAAAAAAATGCATAT
*
8897656 ATGTATATATTA
1 ATATATATATTA
8897668 TGTAAAAAAC
Statistics
Matches: 48, Mismatches: 10, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
24 18 0.38
25 30 0.62
ACGTcount: A:0.50, C:0.05, G:0.08, T:0.37
Consensus pattern (25 bp):
ATATATATATTAAAAAAATGCATAT
Found at i:8897663 original size:23 final size:23
Alignment explanation
Indices: 8897582--8897657 Score: 75
Period size: 24 Copynumber: 3.3 Consensus size: 23
8897572 AAGCTTAAAA
8897582 ATATAT-ATAT-TAAAAAAATGC
1 ATATATAATATATAAAAAAATGC
*
8897603 ATATATATTATATATAAAAATATGC
1 ATATATA--ATATATAAAAAAATGC
* * *
8897628 GTATGTACTATATGAAAAAAATGC
1 ATATATAATATAT-AAAAAAATGC
8897652 ATATAT
1 ATATAT
8897658 GTATATATTA
Statistics
Matches: 43, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
21 6 0.14
23 5 0.12
24 17 0.40
25 15 0.35
ACGTcount: A:0.51, C:0.05, G:0.08, T:0.36
Consensus pattern (23 bp):
ATATATAATATATAAAAAAATGC
Found at i:8897721 original size:18 final size:15
Alignment explanation
Indices: 8897707--8897742 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
8897697 AAATAATGAT
8897707 AATAACCATAATAATA
1 AATAA-CATAATAATA
*
8897723 AATAATATAATAATA
1 AATAACATAATAATA
8897738 AATAA
1 AATAA
8897743 GGATATAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.28
Consensus pattern (15 bp):
AATAACATAATAATA
Found at i:8897732 original size:15 final size:15
Alignment explanation
Indices: 8897714--8897742 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
8897704 GATAATAACC
8897714 ATAATAATAAATAAT
1 ATAATAATAAATAAT
8897729 ATAATAATAAATAA
1 ATAATAATAAATAA
8897743 GGATATAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
ATAATAATAAATAAT
Found at i:8897748 original size:18 final size:16
Alignment explanation
Indices: 8897714--8897759 Score: 58
Period size: 18 Copynumber: 2.8 Consensus size: 16
8897704 GATAATAACC
8897714 ATAATAATAAAT-AAT
1 ATAATAATAAATAAAT
8897729 ATAATAATAAATAAGGAT
1 ATAATAATAAATAA--AT
*
8897747 ATAATGATAAATA
1 ATAATAATAAATA
8897760 TTAAAAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 12 0.44
16 1 0.04
18 14 0.52
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (16 bp):
ATAATAATAAATAAAT
Found at i:8898531 original size:10 final size:10
Alignment explanation
Indices: 8898508--8898545 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
8898498 TGGAAAAGAA
8898508 AAAT-AAAT-
1 AAATAAAATC
8898516 AAATAAAATC
1 AAATAAAATC
8898526 AAATAAAATC
1 AAATAAAATC
*
8898536 AAACAAAATC
1 AAATAAAATC
8898546 TATACTATTG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
8 4 0.15
9 4 0.15
10 19 0.70
ACGTcount: A:0.71, C:0.11, G:0.00, T:0.18
Consensus pattern (10 bp):
AAATAAAATC
Found at i:8898736 original size:16 final size:17
Alignment explanation
Indices: 8898715--8898750 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
8898705 TTTTTAGTTT
*
8898715 TTTGGGC-TAGGTTTGG
1 TTTGGGCTTAGGTTTAG
8898731 TTTGGGCTTAGGTTTAG
1 TTTGGGCTTAGGTTTAG
8898748 TTT
1 TTT
8898751 ATTGGGTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.08, C:0.06, G:0.36, T:0.50
Consensus pattern (17 bp):
TTTGGGCTTAGGTTTAG
Found at i:8899273 original size:44 final size:44
Alignment explanation
Indices: 8899189--8899442 Score: 194
Period size: 44 Copynumber: 5.8 Consensus size: 44
8899179 ATAGGATTGG
* * * * *
8899189 CTTCAATGTACTCCACTG-TAACCTCAGGGAGGTAAAATCTGTCAT
1 CTTCAATATACTCCACTGCT-GCCT-AGGGAGATAAGATCTGTAAT
* * *
8899234 CTTCGATTTACTCCACTACTGCCTAGGGAGATAAGATCTGTAAT
1 CTTCAATATACTCCACTGCTGCCTAGGGAGATAAGATCTGTAAT
* * * * *
8899278 CTTCAATCTATTCCACTGCTGCCCAGGGAGAT-AGA-AT-TACT
1 CTTCAATATACTCCACTGCTGCCTAGGGAGATAAGATCTGTAAT
* ** * * *
8899319 GGCTTCAATATACTCCGCTGCAACCTCAGGGAGGTAAAATCTGTCAT
1 --CTTCAATATACTCCACTGCTGCCT-AGGGAGATAAGATCTGTAAT
* * * * *
8899366 CTTCGATCTGA-TCCACTACTGCTTAGGGAGATAAGATCTGAAAT
1 CTTCAATAT-ACTCCACTGCTGCCTAGGGAGATAAGATCTGTAAT
*
8899410 CTTCAATATATTCCACTGCTGCCTAGGGAGATA
1 CTTCAATATACTCCACTGCTGCCTAGGGAGATA
8899443 GAATTACTGG
Statistics
Matches: 160, Mismatches: 40, Indels: 19
0.73 0.18 0.09
Matches are distributed among these distances:
41 3 0.02
42 1 0.01
43 22 0.14
44 94 0.59
45 35 0.22
46 3 0.02
47 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (44 bp):
CTTCAATATACTCCACTGCTGCCTAGGGAGATAAGATCTGTAAT
Found at i:8899423 original size:132 final size:132
Alignment explanation
Indices: 8899186--8900565 Score: 1860
Period size: 132 Copynumber: 10.5 Consensus size: 132
8899176 GATATAGGAT
* * *
8899186 TGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGTCATCTTCGATTTACTCCACT
1 TGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACT
* * *
8899251 ACTGCCTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATT
66 ACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATT
8899316 AC
131 AC
* * * * *
8899318 TGGCTTCAATATACTCCGCTGCAACCTCAGGGAGGTAAAATCTGTCATCTTCGATCTGATCCACT
1 TGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACT
* * *
8899383 ACTGCTTAGGGAGATAAGATCTGAAATCTTCAATATATTCCACTGCTGCCTAGGGAGATAGAATT
66 ACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATT
8899448 AC
131 AC
* * * * *
8899450 TGGCCTCAATGTACTCCACTGTAACCACATGGAGGTAAAATCTGTCATCTTCGACCTGCTCCACT
1 TGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACT
* ** *
8899515 ACTGCTTAGGGAGACAACATCCAAAATCTTCAATCTATTACACTGCTGCCCAGGGA-AGTAGAAT
66 ACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAGA-TAGAAT
*
8899579 TAT
130 TAC
* * ** * *
8899582 TGGCTTCAATATACTCCACTGCAATTTCAGGGAGGTAAAATCCGCCATCTTCGATCTGTTCCACT
1 TGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACT
* *
8899647 ACTGCTTAAGGAGACAAGATCTGAAATCTTCAATCTATTCCGCTGCTGCCCAGGGA-AGTAGAAT
66 ACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAGA-TAGAAT
*
8899711 TTC
130 TAC
* * * * * * * * *
8899714 TAGTTTCAATGTACTCCACTGCAACCACGGGGAGGTAAAATCTGTCGTCTTCGA-CTTGCTTCGC
1 TGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTCGATC-TGCTCCAC
* * * * * *
8899778 TATCT-ATGTAGGAAGGCAAGATCTAAAATCTTCAGTCTATTCCACTGCTGCCCAGGGAGATGGA
65 TA-CTGCT-TAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGA
*
8899842 ATTAT
128 ATTAC
* * * *
8899847 TGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAAT-TCACCATCTTTGATCTGCTCCTC
1 TGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCT-GCCATCTTCGATCTGCTCCAC
* *
8899911 TACTGCTTGGGGAGACAAGATCTGAAATCTTTAATCTATTCCAC-GCTGCCCAGGGA-AGTAGAA
65 TACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAGA-TAGAA
8899974 TTAC
129 TTAC
* * * *
8899978 TAGCTTCAATGTACTCCACTGTAACCTCTGGGAGGTAAAAT-TCACCATCTTTGATCTGCTCCAC
1 TGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCT-GCCATCTTCGATCTGCTCCAC
* * * *
8900042 TACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTACTGCCCAGAGAGATAGAAT
65 TACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAAT
8900107 TAC
130 TAC
* **
8900110 TGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTCGATCTATTCCACT
1 TGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACT
* * * *
8900175 ACTGCTTAGGGAGATAAGATTTGTAATCTTCAATCTATTCCACTGCTGCCCAAGGAGATAGAATT
66 ACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATT
8900240 AC
131 AC
* *
8900242 TGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACT
1 TGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACT
* ** *
8900307 ACTGTTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCTGCTGCTGTCCAGGGA-AGTAGAAT
66 ACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAGA-TAGAAT
8900371 TAC
130 TAC
* * *
8900374 TGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGTCATCTTCGATCTACTCCACT
1 TGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACT
* *
8900439 ACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATT
66 ACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATT
8900504 AC
131 AC
* * *
8900506 TGGCTTCAATGTACTCTACTATAACCTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCT
1 TGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCT
8900566 TCGCTGTCTA
Statistics
Matches: 1096, Mismatches: 138, Indels: 28
0.87 0.11 0.02
Matches are distributed among these distances:
130 1 0.00
131 122 0.11
132 864 0.79
133 107 0.10
134 2 0.00
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (132 bp):
TGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACT
ACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATT
AC
Found at i:8900101 original size:44 final size:44
Alignment explanation
Indices: 8900037--8900498 Score: 194
Period size: 44 Copynumber: 10.5 Consensus size: 44
8900027 TTTGATCTGC
**
8900037 TCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTAT
1 TCCACTACTGCCCAGGGAGATAAGATCTGTAATCTTCAATCTAT
* * * * *
8900081 TCCACTACTGCCCAGAGAGAT-AGA-AT-TACTGGCTTCAATGTAC
1 TCCACTACTGCCCAGGGAGATAAGATCTGTAAT--CTTCAATCTAT
* * * * * ** *
8900124 TCCACT-GTAACCTCAGGGAGGTAAAATCCGCCATCTTCGATCTAT
1 TCCACTACT-GCC-CAGGGAGATAAGATCTGTAATCTTCAATCTAT
** *
8900169 TCCACTACTGCTTAGGGAGATAAGATTTGTAATCTTCAATCTAT
1 TCCACTACTGCCCAGGGAGATAAGATCTGTAATCTTCAATCTAT
* * * * * *
8900213 TCCACTGCTGCCCAAGGAGAT-AGA-AT-TACTGGCTTCAATGTAC
1 TCCACTACTGCCCAGGGAGATAAGATCTGTAAT--CTTCAATCTAT
* * * * ** ** **
8900256 TCCACT-GTAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGC
1 TCCACTACT-GCC-CAGGGAGATAAGATCTGTAATCTTCAATCTAT
*** * *
8900301 TCCACTACTGTTTAGGGAGACAAGATCTGAAATCTTCAATCTAT
1 TCCACTACTGCCCAGGGAGATAAGATCTGTAATCTTCAATCTAT
** * * * * * *
8900345 TCTGCTGCTGTCCAGGGA-AGT-AGA-AT-TACTGGCTTCAATGTAC
1 TCCACTACTGCCCAGGGAGA-TAAGATCTGTAAT--CTTCAATCTAT
* * * * * * * *
8900388 TCCACT-GTAACCTCAGGGAGGTAAAATCCGTCATCTTCGATCTAC
1 TCCACTACT-GCC-CAGGGAGATAAGATCTGTAATCTTCAATCTAT
**
8900433 TCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTAT
1 TCCACTACTGCCCAGGGAGATAAGATCTGTAATCTTCAATCTAT
*
8900477 TCCACTGCTGCCCAGGGAGATA
1 TCCACTACTGCCCAGGGAGATA
8900499 GAATTACTGG
Statistics
Matches: 289, Mismatches: 103, Indels: 52
0.65 0.23 0.12
Matches are distributed among these distances:
41 8 0.03
42 6 0.02
43 58 0.20
44 159 0.55
45 50 0.17
46 4 0.01
47 4 0.01
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (44 bp):
TCCACTACTGCCCAGGGAGATAAGATCTGTAATCTTCAATCTAT
Found at i:8901844 original size:14 final size:15
Alignment explanation
Indices: 8901827--8901859 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
8901817 CCATTCTTAC
8901827 TTTTTCAT-TTTTCA
1 TTTTTCATCTTTTCA
8901841 -TTTTCATCTTTTCA
1 TTTTTCATCTTTTCA
8901855 TTTTT
1 TTTTT
8901860 TCACATCACT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
13 7 0.41
14 6 0.35
15 4 0.24
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTTTCATCTTTTCA
Found at i:8901862 original size:8 final size:7
Alignment explanation
Indices: 8901827--8901859 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
8901817 CCATTCTTAC
8901827 TTTTTCA
1 TTTTTCA
8901834 TTTTTCA
1 TTTTTCA
8901841 -TTTTCA
1 TTTTTCA
8901847 TCTTTTCA
1 T-TTTTCA
8901855 TTTTT
1 TTTTT
8901860 TCACATCACT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 6 0.25
7 11 0.46
8 7 0.29
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTTTCA
Found at i:8906781 original size:17 final size:18
Alignment explanation
Indices: 8906759--8906793 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
8906749 ATAAAAGCTT
8906759 AAAAAT-ATATATATTAG
1 AAAAATCATATATATTAG
8906776 AAAAATGCATATATATTA
1 AAAAAT-CATATATATTA
8906794 TATATAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
19 10 0.62
ACGTcount: A:0.57, C:0.03, G:0.06, T:0.34
Consensus pattern (18 bp):
AAAAATCATATATATTAG
Found at i:8906791 original size:25 final size:24
Alignment explanation
Indices: 8906763--8906848 Score: 79
Period size: 25 Copynumber: 3.5 Consensus size: 24
8906753 AAGCTTAAAA
8906763 ATATATATATTAGAAAAATGCATAT
1 ATATATATATTA-AAAAATGCATAT
*
8906788 ATAT-TATATATAAAAATATGCGTAT
1 ATATATATAT-TAAAAA-ATGCATAT
*
8906813 GTACTATATGA--AAAAAATGCATAT
1 ATA-TATAT-ATTAAAAAATGCATAT
*
8906837 ATGTATATATTA
1 ATATATATATTA
8906849 TGTAAAAAAC
Statistics
Matches: 49, Mismatches: 5, Indels: 15
0.71 0.07 0.22
Matches are distributed among these distances:
22 1 0.02
23 5 0.10
24 18 0.37
25 20 0.41
26 1 0.02
27 3 0.06
28 1 0.02
ACGTcount: A:0.49, C:0.05, G:0.09, T:0.37
Consensus pattern (24 bp):
ATATATATATTAAAAAATGCATAT
Found at i:8906902 original size:18 final size:15
Alignment explanation
Indices: 8906888--8906923 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
8906878 AAATAATGAT
8906888 AATAACCATAATAATA
1 AATAA-CATAATAATA
*
8906904 AATAATATAATAATA
1 AATAACATAATAATA
8906919 AATAA
1 AATAA
8906924 TGATATAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.28
Consensus pattern (15 bp):
AATAACATAATAATA
Found at i:8906929 original size:18 final size:16
Alignment explanation
Indices: 8906895--8906940 Score: 58
Period size: 18 Copynumber: 2.8 Consensus size: 16
8906885 GATAATAACC
8906895 ATAATAATAAAT-AAT
1 ATAATAATAAATAAAT
8906910 ATAATAATAAATAATGAT
1 ATAATAATAAATAA--AT
*
8906928 ATAATGATAAATA
1 ATAATAATAAATA
8906941 TTAAAAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 12 0.44
16 1 0.04
18 14 0.52
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (16 bp):
ATAATAATAAATAAAT
Found at i:8906932 original size:15 final size:15
Alignment explanation
Indices: 8906895--8906924 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
8906885 GATAATAACC
8906895 ATAATAATAAATAAT
1 ATAATAATAAATAAT
8906910 ATAATAATAAATAAT
1 ATAATAATAAATAAT
8906925 GATATAATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
ATAATAATAAATAAT
Found at i:8907710 original size:10 final size:10
Alignment explanation
Indices: 8907687--8907724 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
8907677 TGGAAAAGAA
8907687 AAAT-AAAT-
1 AAATAAAATC
8907695 AAATAAAATC
1 AAATAAAATC
8907705 AAATAAAATC
1 AAATAAAATC
*
8907715 AAACAAAATC
1 AAATAAAATC
8907725 TATACTATTG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
8 4 0.15
9 4 0.15
10 19 0.70
ACGTcount: A:0.71, C:0.11, G:0.00, T:0.18
Consensus pattern (10 bp):
AAATAAAATC
Found at i:8907915 original size:16 final size:17
Alignment explanation
Indices: 8907894--8907929 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
8907884 TTTTTAGTTT
*
8907894 TTTGGGC-TAGGTTTGG
1 TTTGGGCTTAGGTTTAG
8907910 TTTGGGCTTAGGTTTAG
1 TTTGGGCTTAGGTTTAG
8907927 TTT
1 TTT
8907930 ATAGGGTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.08, C:0.06, G:0.36, T:0.50
Consensus pattern (17 bp):
TTTGGGCTTAGGTTTAG
Found at i:8908136 original size:10 final size:10
Alignment explanation
Indices: 8908121--8908151 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
8908111 TATTTGATTC
8908121 TTAAATTAAT
1 TTAAATTAAT
*
8908131 TTAAATTAAA
1 TTAAATTAAT
8908141 TTAAATTAAT
1 TTAAATTAAT
8908151 T
1 T
8908152 AGTATATAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (10 bp):
TTAAATTAAT
Found at i:8908205 original size:31 final size:31
Alignment explanation
Indices: 8908135--8908246 Score: 145
Period size: 31 Copynumber: 3.5 Consensus size: 31
8908125 ATTAATTTAA
* *
8908135 ATTAAATTAAATT-AATTAGTATATAATGTGAT
1 ATTAAATTAAATTAAAATATTATATAATGT--T
8908167 AAAATTAAATTAAATTAAAATATTATATAATGTT
1 ---ATTAAATTAAATTAAAATATTATATAATGTT
8908201 ATTAAATTAAATTAAAATATTATATAATGTT
1 ATTAAATTAAATTAAAATATTATATAATGTT
*
8908232 ATTAAATTAAGTTAA
1 ATTAAATTAAATTAA
8908247 TAATGGGTCA
Statistics
Matches: 73, Mismatches: 3, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
31 45 0.62
34 1 0.01
35 13 0.18
36 14 0.19
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (31 bp):
ATTAAATTAAATTAAAATATTATATAATGTT
Found at i:8908436 original size:3 final size:3
Alignment explanation
Indices: 8908428--8908466 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
8908418 ATGTTCAAAG
8908428 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
8908467 ATGGCAAGGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:8913012 original size:30 final size:30
Alignment explanation
Indices: 8912951--8913013 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 30
8912941 TCCTCACCTA
*** *
8912951 TGTAACTCTCTGAGTAGGGTCACACGGCCG
1 TGTAACTCTCTGAGTAGCCCCACACGCCCG
* *
8912981 TGTAACTCTCTGAGTTGCCCCACATGCCCG
1 TGTAACTCTCTGAGTAGCCCCACACGCCCG
8913011 TGT
1 TGT
8913014 GCCAGACCGT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.17, C:0.30, G:0.25, T:0.27
Consensus pattern (30 bp):
TGTAACTCTCTGAGTAGCCCCACACGCCCG
Found at i:8921925 original size:24 final size:24
Alignment explanation
Indices: 8921874--8921925 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
8921864 TTCGTAGGTC
*
8921874 AAATAAATTACACTAATAAATGCA
1 AAATAAATTACACTAATAAATACA
* * * *
8921898 AAATATATTATACTACTAAATACT
1 AAATAAATTACACTAATAAATACA
8921922 AAAT
1 AAAT
8921926 CTTCTAGAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.56, C:0.12, G:0.02, T:0.31
Consensus pattern (24 bp):
AAATAAATTACACTAATAAATACA
Found at i:8925831 original size:9 final size:9
Alignment explanation
Indices: 8925817--8925855 Score: 55
Period size: 8 Copynumber: 4.6 Consensus size: 9
8925807 TATGAGTTTA
8925817 AAAAAAATT
1 AAAAAAATT
8925826 -AAAAAATT
1 AAAAAAATT
8925834 AAAAAAA-T
1 AAAAAAATT
*
8925842 AAAAAAAAT
1 AAAAAAATT
8925851 AAAAA
1 AAAAA
8925856 TGAAAATGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
8 16 0.57
9 12 0.43
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (9 bp):
AAAAAAATT
Found at i:8925839 original size:17 final size:17
Alignment explanation
Indices: 8925817--8925855 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
8925807 TATGAGTTTA
* *
8925817 AAAAAAATTAAAAAATT
1 AAAAAAATAAAAAAAAT
8925834 AAAAAAATAAAAAAAAT
1 AAAAAAATAAAAAAAAT
8925851 AAAAA
1 AAAAA
8925856 TGAAAATGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (17 bp):
AAAAAAATAAAAAAAAT
Found at i:8925848 original size:8 final size:8
Alignment explanation
Indices: 8925817--8925855 Score: 51
Period size: 9 Copynumber: 4.6 Consensus size: 8
8925807 TATGAGTTTA
8925817 AAAAAAATT
1 AAAAAAA-T
*
8925826 AAAAAATT
1 AAAAAAAT
8925834 AAAAAAAT
1 AAAAAAAT
8925842 AAAAAAAAT
1 -AAAAAAAT
8925851 AAAAA
1 AAAAA
8925856 TGAAAATGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
8 13 0.48
9 14 0.52
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (8 bp):
AAAAAAAT
Found at i:8925867 original size:18 final size:18
Alignment explanation
Indices: 8925842--8925924 Score: 64
Period size: 17 Copynumber: 4.5 Consensus size: 18
8925832 TTAAAAAAAT
8925842 AAAA-AAAATAAAAATGA
1 AAAAGAAAATAAAAATGA
*
8925859 AAATGAAAATGAAAATGATGGA
1 AAAAGAAAAT-AAAA--AT-GA
*
8925881 AAAAGAAAAGAAAAA-GA
1 AAAAGAAAATAAAAATGA
*
8925898 AAAAGAAAA-AGAAAAGGA
1 AAAAGAAAATA-AAAATGA
*
8925916 AAAGGAAAA
1 AAAAGAAAA
8925925 GGAGAGGCCA
Statistics
Matches: 55, Mismatches: 4, Indels: 13
0.76 0.06 0.18
Matches are distributed among these distances:
16 1 0.02
17 18 0.33
18 15 0.27
19 5 0.09
21 6 0.11
22 10 0.18
ACGTcount: A:0.75, C:0.00, G:0.18, T:0.07
Consensus pattern (18 bp):
AAAAGAAAATAAAAATGA
Found at i:8925875 original size:6 final size:6
Alignment explanation
Indices: 8925846--8925924 Score: 58
Period size: 6 Copynumber: 13.7 Consensus size: 6
8925836 AAAAATAAAA
* *
8925846 AAAATA AAAATG AAAATG AAAATG AAAATG ---ATGG AAAAAG AAAA-G
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAAT-G AAAATG AAAATG
* * * * *
8925891 AAAAAG AAAAAG AAAAAG AAAAGG AAAAGG AAAA
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAA
8925925 GGAGAGGCCA
Statistics
Matches: 65, Mismatches: 3, Indels: 10
0.83 0.04 0.13
Matches are distributed among these distances:
3 2 0.03
4 1 0.02
5 5 0.08
6 56 0.86
7 1 0.02
ACGTcount: A:0.73, C:0.00, G:0.19, T:0.08
Consensus pattern (6 bp):
AAAATG
Found at i:8925875 original size:12 final size:12
Alignment explanation
Indices: 8925842--8925924 Score: 64
Period size: 12 Copynumber: 6.8 Consensus size: 12
8925832 TTAAAAAAAT
8925842 AAAA-AAAAT-A
1 AAAAGAAAATGA
8925852 AAAATGAAAATGA
1 AAAA-GAAAATGA
*
8925865 AAATGAAAATGATGGA
1 AAAAG-AAA--AT-GA
8925881 AAAAGAAAA-GA
1 AAAAGAAAATGA
*
8925892 AAAAGAAAAAGA
1 AAAAGAAAATGA
*
8925904 AAAAGAAAAGGA
1 AAAAGAAAATGA
*
8925916 AAAGGAAAA
1 AAAAGAAAA
8925925 GGAGAGGCCA
Statistics
Matches: 61, Mismatches: 4, Indels: 14
0.77 0.05 0.18
Matches are distributed among these distances:
10 4 0.07
11 11 0.18
12 27 0.44
13 8 0.13
15 5 0.08
16 6 0.10
ACGTcount: A:0.75, C:0.00, G:0.18, T:0.07
Consensus pattern (12 bp):
AAAAGAAAATGA
Found at i:8925925 original size:12 final size:12
Alignment explanation
Indices: 8925878--8925927 Score: 75
Period size: 12 Copynumber: 4.2 Consensus size: 12
8925868 TGAAAATGAT
8925878 GGAAAAAGAAAA
1 GGAAAAAGAAAA
8925890 -GAAAAAGAAAA
1 GGAAAAAGAAAA
*
8925901 AGAAAAAGAAAA
1 GGAAAAAGAAAA
*
8925913 GGAAAAGGAAAA
1 GGAAAAAGAAAA
8925925 GGA
1 GGA
8925928 GAGGCCAAGG
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
11 11 0.31
12 24 0.69
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
GGAAAAAGAAAA
Found at i:8925927 original size:6 final size:6
Alignment explanation
Indices: 8925879--8925924 Score: 67
Period size: 6 Copynumber: 7.8 Consensus size: 6
8925869 GAAAATGATG
* *
8925879 GAAAAA G-AAAA GAAAAA GAAAAA GAAAAA GAAAAG GAAAAG GAAAA
1 GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAA
8925925 GGAGAGGCCA
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
5 5 0.13
6 33 0.87
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (6 bp):
GAAAAA
Found at i:8930242 original size:32 final size:31
Alignment explanation
Indices: 8930205--8930266 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 31
8930195 TCTGTAATTC
*
8930205 TATAAC-TTTTAATATATTTTGTATATTTTATT
1 TATAACATTTTAAT-TATTTTATAT-TTTTATT
8930237 TATAACATTTTAATTATTTTATATTTTTAT
1 TATAACATTTTAATTATTTTATATTTTTAT
8930267 GCCTACAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 6 0.21
32 15 0.54
33 7 0.25
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (31 bp):
TATAACATTTTAATTATTTTATATTTTTATT
Found at i:8930535 original size:39 final size:39
Alignment explanation
Indices: 8930460--8930535 Score: 89
Period size: 39 Copynumber: 1.9 Consensus size: 39
8930450 ATGAAAAATG
* * * * *
8930460 TTAGATATTTTGGTATTTGGTGACAAATTTGGGTATCCT
1 TTAGAAATTTTAGTATTTGATGAAAAATTTGAGTATCCT
* *
8930499 TTAGAAATTTTAGTATTTGATTAAAAATTTTAGTATC
1 TTAGAAATTTTAGTATTTGATGAAAAATTTGAGTATC
8930536 ATCTATTGGT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
39 30 1.00
ACGTcount: A:0.30, C:0.05, G:0.17, T:0.47
Consensus pattern (39 bp):
TTAGAAATTTTAGTATTTGATGAAAAATTTGAGTATCCT
Found at i:8930647 original size:19 final size:19
Alignment explanation
Indices: 8930620--8930743 Score: 67
Period size: 19 Copynumber: 6.4 Consensus size: 19
8930610 AATTTTAGTG
*
8930620 TTTTGGTATTCGTTAGAAA
1 TTTTAGTATTCGTTAGAAA
*
8930639 TTTTAGTA-TCTATTAGAAA
1 TTTTAGTATTC-GTTAGAAA
** *
8930658 TTTTAGTACGCG-TACTAAA
1 TTTTAGTATTCGTTA-GAAA
* * *
8930677 TTTTGGTATCCGTTAAAAA
1 TTTTAGTATTCGTTAGAAA
* *
8930696 CTTTT-GATATTTGGTTACAAA
1 -TTTTAG-TA-TTCGTTAGAAA
*
8930717 TTTTTGTA-TCTGTTAGAAA
1 TTTTAGTATTC-GTTAGAAA
8930736 TTTTAGTA
1 TTTTAGTA
8930744 CAATCCATTA
Statistics
Matches: 81, Mismatches: 15, Indels: 18
0.71 0.13 0.16
Matches are distributed among these distances:
18 5 0.06
19 52 0.64
20 15 0.19
21 9 0.11
ACGTcount: A:0.30, C:0.08, G:0.15, T:0.47
Consensus pattern (19 bp):
TTTTAGTATTCGTTAGAAA
Found at i:8936334 original size:31 final size:31
Alignment explanation
Indices: 8936299--8936362 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
8936289 CTCATTTCAT
8936299 AAATTTAACATTG-AATTTTACTAATTTTATA
1 AAATTTAACA-TGCAATTTTACTAATTTTATA
*
8936330 AAATTTAACATGCAATTTTACTACTTTTATA
1 AAATTTAACATGCAATTTTACTAATTTTATA
8936361 AA
1 AA
8936363 TAAGTCTTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 2 0.06
31 29 0.94
ACGTcount: A:0.42, C:0.09, G:0.03, T:0.45
Consensus pattern (31 bp):
AAATTTAACATGCAATTTTACTAATTTTATA
Found at i:8943851 original size:23 final size:23
Alignment explanation
Indices: 8943825--8943882 Score: 98
Period size: 23 Copynumber: 2.5 Consensus size: 23
8943815 TTGGTGGGAG
*
8943825 CATTTTGACACTTTGATGCATAT
1 CATTTTGGCACTTTGATGCATAT
*
8943848 CATTTTGGCACTTTGGTGCATAT
1 CATTTTGGCACTTTGATGCATAT
8943871 CATTTTGGCACT
1 CATTTTGGCACT
8943883 ACGGTGCATA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.21, C:0.19, G:0.17, T:0.43
Consensus pattern (23 bp):
CATTTTGGCACTTTGATGCATAT
Found at i:8943888 original size:23 final size:23
Alignment explanation
Indices: 8943841--8943893 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
8943831 GACACTTTGA
**
8943841 TGCATATCATTTTGGCACTTTGG
1 TGCATATCATTTTGGCACTACGG
8943864 TGCATATCATTTTGGCACTACGG
1 TGCATATCATTTTGGCACTACGG
8943887 TGCATAT
1 TGCATAT
8943894 TATACTATGG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.40
Consensus pattern (23 bp):
TGCATATCATTTTGGCACTACGG
Found at i:8967327 original size:53 final size:53
Alignment explanation
Indices: 8967264--8967371 Score: 216
Period size: 53 Copynumber: 2.0 Consensus size: 53
8967254 TTAACTTGTC
8967264 AAGGCTAAGCCATAAAGCACCTAACCATCAACGATAAGAGCAGTTCAATAAAT
1 AAGGCTAAGCCATAAAGCACCTAACCATCAACGATAAGAGCAGTTCAATAAAT
8967317 AAGGCTAAGCCATAAAGCACCTAACCATCAACGATAAGAGCAGTTCAATAAAT
1 AAGGCTAAGCCATAAAGCACCTAACCATCAACGATAAGAGCAGTTCAATAAAT
8967370 AA
1 AA
8967372 TATATTGAAA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 55 1.00
ACGTcount: A:0.46, C:0.22, G:0.15, T:0.17
Consensus pattern (53 bp):
AAGGCTAAGCCATAAAGCACCTAACCATCAACGATAAGAGCAGTTCAATAAAT
Found at i:8967576 original size:21 final size:21
Alignment explanation
Indices: 8967550--8967602 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 21
8967540 TTATTTTTTT
8967550 AAAATT-TTAAAAATAATTAAA
1 AAAATTATTAAAAA-AATTAAA
**
8967571 AAAATTATTTTAAAAATT--A
1 AAAATTATTAAAAAAATTAAA
8967590 AAAATTATTAAAA
1 AAAATTATTAAAA
8967603 TTATTTTAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
19 12 0.44
21 10 0.37
22 5 0.19
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (21 bp):
AAAATTATTAAAAAAATTAAA
Found at i:8968985 original size:11 final size:11
Alignment explanation
Indices: 8968969--8968994 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
8968959 AGTTTATGTA
8968969 TTTTCTTATTG
1 TTTTCTTATTG
8968980 TTTTCTTATTG
1 TTTTCTTATTG
8968991 TTTT
1 TTTT
8968995 GGTTGAATAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.08, C:0.08, G:0.08, T:0.77
Consensus pattern (11 bp):
TTTTCTTATTG
Found at i:8970023 original size:37 final size:35
Alignment explanation
Indices: 8969965--8970041 Score: 91
Period size: 37 Copynumber: 2.1 Consensus size: 35
8969955 TATTGTTACT
*
8969965 ATTGAATGCATGAAAATCATGCCACCAATACTGATAA
1 ATTGAATGCATGAAAAGCATGCCACCAATACT-A-AA
** * *
8970002 ATTGAATGCATGTTAAGCATGCCATCATTACTAAA
1 ATTGAATGCATGAAAAGCATGCCACCAATACTAAA
8970037 ATTGA
1 ATTGA
8970042 TATTGATAAG
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
35 7 0.20
36 1 0.03
37 27 0.77
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.29
Consensus pattern (35 bp):
ATTGAATGCATGAAAAGCATGCCACCAATACTAAA
Found at i:8971666 original size:20 final size:20
Alignment explanation
Indices: 8971641--8971686 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
8971631 TTAAGTTTTC
*
8971641 TTAAAAGAAATCAATACTTG
1 TTAAAAGAAATCAATACTTA
**
8971661 TTAAAAAGGTATCAATACTTA
1 TT-AAAAGAAATCAATACTTA
8971682 TTAAA
1 TTAAA
8971687 GTATCGATAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 5 0.23
21 17 0.77
ACGTcount: A:0.50, C:0.09, G:0.09, T:0.33
Consensus pattern (20 bp):
TTAAAAGAAATCAATACTTA
Found at i:8974642 original size:46 final size:46
Alignment explanation
Indices: 8974575--8974693 Score: 150
Period size: 46 Copynumber: 2.6 Consensus size: 46
8974565 ATTTTTACCT
**
8974575 AGGTTCCTAGCTCCTGCATATGTTGTGGACTAGAGAATACAG-ATTC
1 AGGTTCCTAGCTCCTGCATATGTTGCAGACTAGAGAATA-AGAATTC
* * * *
8974621 AGGTTCCTAGCTCCTACATATGTTGCAGACTGGAGAATAGGAATTT
1 AGGTTCCTAGCTCCTGCATATGTTGCAGACTAGAGAATAAGAATTC
* *
8974667 AGGTTCCCAGCTCATGCATATGTTGCA
1 AGGTTCCTAGCTCCTGCATATGTTGCA
8974694 AACTGCAGAA
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
45 1 0.02
46 62 0.98
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (46 bp):
AGGTTCCTAGCTCCTGCATATGTTGCAGACTAGAGAATAAGAATTC
Found at i:8982298 original size:20 final size:20
Alignment explanation
Indices: 8982260--8982312 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
8982250 ATGCAATATA
* *
8982260 TTCTTC-TCTTCTTCTTCCTT
1 TTCTTCTTCTTTTTC-TCCTC
*
8982280 TTCTTTTTCTTTTTCTCCTC
1 TTCTTCTTCTTTTTCTCCTC
8982300 TTCTTCTTCTTTT
1 TTCTTCTTCTTTT
8982313 ACTATTTTGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 21 0.75
21 7 0.25
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (20 bp):
TTCTTCTTCTTTTTCTCCTC
Found at i:8983194 original size:13 final size:13
Alignment explanation
Indices: 8983176--8983226 Score: 50
Period size: 13 Copynumber: 3.9 Consensus size: 13
8983166 GTCCACATAT
8983176 AATTCATAAAAAA
1 AATTCATAAAAAA
*
8983189 AATTCAAAATAAAA
1 AATTCATAA-AAAA
*
8983203 AATT-TTAAAAAA
1 AATTCATAAAAAA
* *
8983215 TATACATAAAAA
1 AATTCATAAAAA
8983227 CTTTTAGAAG
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
12 6 0.20
13 16 0.53
14 8 0.27
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (13 bp):
AATTCATAAAAAA
Found at i:8983623 original size:20 final size:21
Alignment explanation
Indices: 8983586--8983625 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
8983576 TCTCCCCTGC
8983586 ATTTACACTAAAAGAAAATAA
1 ATTTACACTAAAAGAAAATAA
* *
8983607 ATTTAC-CTAATATAAAATA
1 ATTTACACTAAAAGAAAATA
8983626 GTTGAATTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.57, C:0.10, G:0.03, T:0.30
Consensus pattern (21 bp):
ATTTACACTAAAAGAAAATAA
Found at i:8984266 original size:19 final size:19
Alignment explanation
Indices: 8984228--8984266 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
8984218 AATAACAATA
* *
8984228 AAATAGTAGCAACATGGTG
1 AAATAGTAGCAAAATAGTG
8984247 AAATAGTAGCAAAATAGTG
1 AAATAGTAGCAAAATAGTG
8984266 A
1 A
8984267 TAAAATAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.49, C:0.08, G:0.23, T:0.21
Consensus pattern (19 bp):
AAATAGTAGCAAAATAGTG
Found at i:8990973 original size:21 final size:21
Alignment explanation
Indices: 8990947--8990987 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
8990937 ATCTGCTCAA
* *
8990947 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
8990968 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
8990988 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:9006280 original size:22 final size:22
Alignment explanation
Indices: 9006255--9006297 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
9006245 TTATTTGGCG
*
9006255 TTTGAGATAGACGTTGTTATAA
1 TTTGAGATAGACATTGTTATAA
9006277 TTTGAGATAGACATTGTTATA
1 TTTGAGATAGACATTGTTATA
9006298 GTTTTAAGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.33, C:0.05, G:0.21, T:0.42
Consensus pattern (22 bp):
TTTGAGATAGACATTGTTATAA
Found at i:9009602 original size:18 final size:17
Alignment explanation
Indices: 9009560--9009602 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
9009550 TTTTTAAGTT
*
9009560 TGTAATATTTTATATTA
1 TGTAATTTTTTATATTA
* *
9009577 TGTTATTTTTATATATTG
1 TGTAATTTTT-TATATTA
9009595 TGTAATTT
1 TGTAATTT
9009603 ATAGCACATA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.63
Consensus pattern (17 bp):
TGTAATTTTTTATATTA
Found at i:9010711 original size:15 final size:15
Alignment explanation
Indices: 9010691--9010723 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
9010681 ACTCATTTTA
9010691 TTTTTTAAAATTAAT
1 TTTTTTAAAATTAAT
*
9010706 TTTTTTAGAATTAAT
1 TTTTTTAAAATTAAT
9010721 TTT
1 TTT
9010724 AGTTTTCTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (15 bp):
TTTTTTAAAATTAAT
Found at i:9011048 original size:20 final size:20
Alignment explanation
Indices: 9011025--9011074 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
9011015 TTTGGGGCTC
*
9011025 AAGGTTTAGG-TTCGAGGTTG
1 AAGGTTTAGGCTTAGA-GTTG
* *
9011045 AAGGTTTGGGCTTAGAGTTT
1 AAGGTTTAGGCTTAGAGTTG
9011065 AAGGTTTAGG
1 AAGGTTTAGG
9011075 GTTTTGGGTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 21 0.84
21 4 0.16
ACGTcount: A:0.22, C:0.04, G:0.38, T:0.36
Consensus pattern (20 bp):
AAGGTTTAGGCTTAGAGTTG
Found at i:9011100 original size:14 final size:14
Alignment explanation
Indices: 9011083--9011114 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
9011073 GGGTTTTGGG
*
9011083 TTCAAGGTTTAAGA
1 TTCAAGATTTAAGA
9011097 TTCAAGATTTAAGA
1 TTCAAGATTTAAGA
9011111 TTCA
1 TTCA
9011115 GAGCTGGGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.38
Consensus pattern (14 bp):
TTCAAGATTTAAGA
Found at i:9011762 original size:22 final size:21
Alignment explanation
Indices: 9011723--9011764 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
9011713 GATTATACAT
*
9011723 TAAAAATCCATAAAAATAATG
1 TAAAAATCAATAAAAATAATG
*
9011744 TAAAAATCAAGTAAGAATAAT
1 TAAAAATCAA-TAAAAATAAT
9011765 CCAAATAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.62, C:0.07, G:0.07, T:0.24
Consensus pattern (21 bp):
TAAAAATCAATAAAAATAATG
Found at i:9015062 original size:18 final size:17
Alignment explanation
Indices: 9015041--9015083 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
9015031 ACAATTTTCA
9015041 AAAATTCAAAATTATCAT
1 AAAATTCAAAATTAT-AT
* *
9015059 AAAATATAAAAATTCTAT
1 AAAAT-TCAAAATTATAT
9015077 AAAATTC
1 AAAATTC
9015084 TATAAAATGT
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
17 1 0.05
18 12 0.57
19 8 0.38
ACGTcount: A:0.58, C:0.09, G:0.00, T:0.33
Consensus pattern (17 bp):
AAAATTCAAAATTATAT
Found at i:9015082 original size:10 final size:10
Alignment explanation
Indices: 9015067--9015091 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
9015057 ATAAAATATA
9015067 AAAATTCTAT
1 AAAATTCTAT
9015077 AAAATTCTAT
1 AAAATTCTAT
9015087 AAAAT
1 AAAAT
9015092 GTTCAATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (10 bp):
AAAATTCTAT
Found at i:9017964 original size:33 final size:33
Alignment explanation
Indices: 9017927--9018005 Score: 122
Period size: 33 Copynumber: 2.4 Consensus size: 33
9017917 TAGTTCGCCA
* *
9017927 GGACAGTAAACACAAAACAAAGATAGTCTGTTG
1 GGACAGTAAACACAAAACAAAGATAATCTGTCG
* *
9017960 GGACATTAAACACAAAACAGAGATAATCTGTCG
1 GGACAGTAAACACAAAACAAAGATAATCTGTCG
9017993 GGACAGTAAACAC
1 GGACAGTAAACAC
9018006 GAGGTAAGTC
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.46, C:0.18, G:0.20, T:0.16
Consensus pattern (33 bp):
GGACAGTAAACACAAAACAAAGATAATCTGTCG
Found at i:9029182 original size:18 final size:17
Alignment explanation
Indices: 9029155--9029188 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
9029145 CTTCTGAATC
9029155 AAATATTTAAAATAAAT
1 AAATATTTAAAATAAAT
*
9029172 AAATAATTTAAAGTAAA
1 AAAT-ATTTAAAATAAA
9029189 CACCAAGAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (17 bp):
AAATATTTAAAATAAAT
Found at i:9030734 original size:26 final size:26
Alignment explanation
Indices: 9030698--9030752 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
9030688 TGTGTTCAAT
*
9030698 CTAGATACCATGGGAAAATGTATGAA
1 CTAGATACCATGGGAAAATGCATGAA
9030724 CTAGATACCATGGGAAAATGCATGAA
1 CTAGATACCATGGGAAAATGCATGAA
9030750 CTA
1 CTA
9030753 TACGATAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.42, C:0.15, G:0.22, T:0.22
Consensus pattern (26 bp):
CTAGATACCATGGGAAAATGCATGAA
Found at i:9034187 original size:8 final size:8
Alignment explanation
Indices: 9034176--9034231 Score: 69
Period size: 8 Copynumber: 6.9 Consensus size: 8
9034166 ATTTATGAAT
9034176 TTTTTTAA
1 TTTTTTAA
9034184 TTTTTTAA
1 TTTTTTAA
9034192 TTTTTTAA
1 TTTTTTAA
*
9034200 TTTTTGAGTA
1 TTTTTTA--A
9034210 TTTTTTAA
1 TTTTTTAA
9034218 -TTTTTAA
1 TTTTTTAA
*
9034225 TTATTTA
1 TTTTTTA
9034232 TTGATGTAAC
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
7 7 0.17
8 28 0.67
10 7 0.17
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.71
Consensus pattern (8 bp):
TTTTTTAA
Found at i:9034201 original size:25 final size:25
Alignment explanation
Indices: 9034173--9034226 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 25
9034163 AAAATTTATG
*
9034173 AATTTTTTTA-ATTTTTTAATTTTTT
1 AATTTTTTGAGATTTTTTAA-TTTTT
9034198 AA-TTTTTGAGTATTTTTTAATTTTT
1 AATTTTTTGAG-ATTTTTTAATTTTT
9034223 AATT
1 AATT
9034227 ATTTATTGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
24 6 0.24
25 9 0.36
26 10 0.40
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (25 bp):
AATTTTTTGAGATTTTTTAATTTTT
Found at i:9034212 original size:18 final size:16
Alignment explanation
Indices: 9034165--9034231 Score: 73
Period size: 16 Copynumber: 4.1 Consensus size: 16
9034155 TTTTTAAAAA
*
9034165 AATTTATGAATTTTTTT
1 AATTTTTGAA-TTTTTT
*
9034182 AATTTTTTAATTTTTT
1 AATTTTTGAATTTTTT
9034198 AATTTTTGAGTATTTTTT
1 AATTTTTGA--ATTTTTT
*
9034216 AATTTTT-AATTATTT
1 AATTTTTGAATTTTTT
9034231 A
1 A
9034232 TTGATGTAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
15 7 0.16
16 14 0.32
17 9 0.20
18 14 0.32
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.67
Consensus pattern (16 bp):
AATTTTTGAATTTTTT
Found at i:9045836 original size:12 final size:12
Alignment explanation
Indices: 9045815--9045867 Score: 56
Period size: 12 Copynumber: 4.6 Consensus size: 12
9045805 GTTGGGCAGT
9045815 AGAAGAAAGAAG
1 AGAAGAAAGAAG
*
9045827 AGAAGGAAGAAG
1 AGAAGAAAGAAG
*
9045839 AGAAGAAGGAA-
1 AGAAGAAAGAAG
* *
9045850 A-AAAAAAGAGG
1 AGAAGAAAGAAG
9045861 AGAAGAA
1 AGAAGAA
9045868 GAAACCTTCG
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
10 6 0.19
11 2 0.06
12 24 0.75
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (12 bp):
AGAAGAAAGAAG
Found at i:9049547 original size:20 final size:20
Alignment explanation
Indices: 9049524--9049576 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 20
9049514 TTTGGTATTT
9049524 AATTAAAAATTGAAATA-GAA
1 AATTAAAAATTGAAA-AGGAA
9049544 AATTAAAAA-TGAAAAGGGAA
1 AATTAAAAATTGAAAA-GGAA
9049564 AATGTAAAAATTG
1 AAT-TAAAAATTG
9049577 GCTGCCTACA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
18 1 0.03
19 5 0.17
20 15 0.52
21 6 0.21
22 2 0.07
ACGTcount: A:0.62, C:0.00, G:0.15, T:0.23
Consensus pattern (20 bp):
AATTAAAAATTGAAAAGGAA
Found at i:9055383 original size:29 final size:29
Alignment explanation
Indices: 9055341--9055401 Score: 113
Period size: 29 Copynumber: 2.1 Consensus size: 29
9055331 ATTTTTTTTA
*
9055341 AAAGTTTAATTTTCGATAAAAATACATAC
1 AAAGTTCAATTTTCGATAAAAATACATAC
9055370 AAAGTTCAATTTTCGATAAAAATACATAC
1 AAAGTTCAATTTTCGATAAAAATACATAC
9055399 AAA
1 AAA
9055402 ATTATAAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.51, C:0.11, G:0.07, T:0.31
Consensus pattern (29 bp):
AAAGTTCAATTTTCGATAAAAATACATAC
Found at i:9060283 original size:15 final size:14
Alignment explanation
Indices: 9060263--9060304 Score: 50
Period size: 13 Copynumber: 3.0 Consensus size: 14
9060253 CCCAATAATT
9060263 TAATATCTCCAAATA
1 TAATAT-TCCAAATA
* *
9060278 TAATATTTCATATA
1 TAATATTCCAAATA
9060292 T-ATATTCCAAATA
1 TAATATTCCAAATA
9060305 AAATGACCAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
13 10 0.43
14 7 0.30
15 6 0.26
ACGTcount: A:0.45, C:0.14, G:0.00, T:0.40
Consensus pattern (14 bp):
TAATATTCCAAATA
Found at i:9070514 original size:14 final size:14
Alignment explanation
Indices: 9070495--9070525 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
9070485 ATTATTGTTT
*
9070495 TAATCTAAATTTAC
1 TAATCTAAATTAAC
9070509 TAATCTAAATTAAC
1 TAATCTAAATTAAC
9070523 TAA
1 TAA
9070526 GAACACGATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (14 bp):
TAATCTAAATTAAC
Found at i:9074961 original size:23 final size:22
Alignment explanation
Indices: 9074931--9074979 Score: 71
Period size: 23 Copynumber: 2.2 Consensus size: 22
9074921 AATAAGAATC
*
9074931 ATAAAAAAATAACAAGTAAAAAA
1 ATAAAAAAAAAACAAG-AAAAAA
*
9074954 ATAAAAAAAAAACAAGAAAACA
1 ATAAAAAAAAAACAAGAAAAAA
9074976 ATAA
1 ATAA
9074980 GAATAACAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 9 0.38
23 15 0.62
ACGTcount: A:0.80, C:0.06, G:0.04, T:0.10
Consensus pattern (22 bp):
ATAAAAAAAAAACAAGAAAAAA
Found at i:9074962 original size:26 final size:27
Alignment explanation
Indices: 9074896--9074965 Score: 72
Period size: 26 Copynumber: 2.6 Consensus size: 27
9074886 TAAGAATAAG
9074896 AAAATAAAATAAAACAATTAACAATAATA
1 AAAATAAAA-AAAA-AATTAACAATAATA
* * *
9074925 AGAATCATAAAAAAA-TAACAAGTAA-A
1 AAAATAAAAAAAAAATTAACAA-TAATA
9074951 AAAATAAAAAAAAAA
1 AAAATAAAAAAAAAA
9074966 CAAGAAAACA
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
26 19 0.56
27 5 0.15
28 4 0.12
29 6 0.18
ACGTcount: A:0.76, C:0.06, G:0.03, T:0.16
Consensus pattern (27 bp):
AAAATAAAAAAAAAATTAACAATAATA
Found at i:9075005 original size:26 final size:26
Alignment explanation
Indices: 9074975--9075035 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
9074965 ACAAGAAAAC
9074975 AATAAGAATAACAATGAAAAATAAC-A
1 AATAAGAATAACAA-GAAAAATAACTA
* * *
9075001 AATAAGGATAATAAGAATAATAACTA
1 AATAAGAATAACAAGAAAAATAACTA
9075027 AATAA-AATA
1 AATAAGAATA
9075036 TAGGGGCAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
25 12 0.40
26 18 0.60
ACGTcount: A:0.67, C:0.05, G:0.08, T:0.20
Consensus pattern (26 bp):
AATAAGAATAACAAGAAAAATAACTA
Found at i:9085215 original size:19 final size:19
Alignment explanation
Indices: 9085193--9085239 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
9085183 ATTAAATAAT
9085193 TATAAAAAAAC-TAAAGAAG
1 TATAAAAAAACTTAAA-AAG
* *
9085212 TAT-AATAAACTTAAAAAT
1 TATAAAAAAACTTAAAAAG
9085230 TATAAAAAAA
1 TATAAAAAAA
9085240 AACTCAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 11 0.48
19 12 0.52
ACGTcount: A:0.68, C:0.04, G:0.04, T:0.23
Consensus pattern (19 bp):
TATAAAAAAACTTAAAAAG
Found at i:9085233 original size:18 final size:19
Alignment explanation
Indices: 9085184--9085238 Score: 60
Period size: 18 Copynumber: 2.9 Consensus size: 19
9085174 AAATATCAAA
*
9085184 TTAAATAATTATAAAAAAAC
1 TTAAAGAATTAT-AAAAAAC
* *
9085204 -TAAAGAAGTATAATAAAC
1 TTAAAGAATTATAAAAAAC
9085222 TTAAA-AATTATAAAAAA
1 TTAAAGAATTATAAAAAA
9085239 AAACTCAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
18 16 0.55
19 13 0.45
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.27
Consensus pattern (19 bp):
TTAAAGAATTATAAAAAAC
Found at i:9085243 original size:21 final size:22
Alignment explanation
Indices: 9085218--9085258 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
9085208 GAAGTATAAT
*
9085218 AAACTTAAAAAT-TATAAAAAA
1 AAACTCAAAAATCTATAAAAAA
*
9085239 AAACTCAAAATTCTATAAAA
1 AAACTCAAAAATCTATAAAA
9085259 CCCTAAACCC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.66, C:0.10, G:0.00, T:0.24
Consensus pattern (22 bp):
AAACTCAAAAATCTATAAAAAA
Found at i:9090282 original size:16 final size:16
Alignment explanation
Indices: 9090261--9090306 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
9090251 AATTGGGTTG
*
9090261 AGAAAATTATTTAATT
1 AGAAAATTAATTAATT
9090277 AGAAAATTAATTAATT
1 AGAAAATTAATTAATT
9090293 --AAAATTAATGTAAT
1 AGAAAATTAAT-TAAT
9090307 AAATAATATT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
14 9 0.32
15 4 0.14
16 15 0.54
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (16 bp):
AGAAAATTAATTAATT
Found at i:9100930 original size:18 final size:19
Alignment explanation
Indices: 9100895--9100936 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 19
9100885 GCATGGTTGA
9100895 TTTTCTTTTGCTGCCTATT-
1 TTTTCTTTTGCT-CCTATTC
9100914 TTTTCTTTTGCAT-CTATTC
1 TTTTCTTTTGC-TCCTATTC
9100933 TTTT
1 TTTT
9100937 TTTATATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
18 5 0.24
19 15 0.71
20 1 0.05
ACGTcount: A:0.07, C:0.19, G:0.07, T:0.67
Consensus pattern (19 bp):
TTTTCTTTTGCTCCTATTC
Found at i:9102809 original size:12 final size:12
Alignment explanation
Indices: 9102788--9102817 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
9102778 TCTATTCACA
*
9102788 AATTTTTAATTT
1 AATTTATAATTT
9102800 AATTTATAATTT
1 AATTTATAATTT
9102812 AATTTA
1 AATTTA
9102818 ATTTTCAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
AATTTATAATTT
Found at i:9104842 original size:30 final size:30
Alignment explanation
Indices: 9104802--9104862 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
9104792 ACGGCCTAGC
* *
9104802 ACACGGCCGTGTGTGGAAAATTAGTGAGTT
1 ACACGACCGTGTGTGGAAAATCAGTGAGTT
* *
9104832 ACACGACCGTGTGTGGTAACTCAGTGAGTT
1 ACACGACCGTGTGTGGAAAATCAGTGAGTT
9104862 A
1 A
9104863 TATGGCCTAG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.26, C:0.16, G:0.31, T:0.26
Consensus pattern (30 bp):
ACACGACCGTGTGTGGAAAATCAGTGAGTT
Found at i:9109097 original size:24 final size:24
Alignment explanation
Indices: 9109049--9109097 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
9109039 GTCCATTAGA
**
9109049 ATAAGAAGTTTGATATGTATCATG
1 ATAAGAAGTTTGATATACATCATG
*
9109073 ATAAGAAGTTTGATATACATTATG
1 ATAAGAAGTTTGATATACATCATG
9109097 A
1 A
9109098 CTCTAATGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.41, C:0.04, G:0.18, T:0.37
Consensus pattern (24 bp):
ATAAGAAGTTTGATATACATCATG
Found at i:9115384 original size:64 final size:64
Alignment explanation
Indices: 9115306--9115653 Score: 205
Period size: 64 Copynumber: 5.3 Consensus size: 64
9115296 GATATCATTA
*
9115306 AAGTTCGTTGATTTAAGATCGCAACCTAAGTTCATTTGATTTAAGATCATGAACAATCTTATTT
1 AAGTTAGTTGATTTAAGATCGCAACCTAAGTTCATTTGATTTAAGATCATGAACAATCTTATTT
* * * ** * *
9115370 GAGTTAGTTTATTTAAGATCGCTAATCCAAACAACTC-GTTGATTTAATAT--TG--CAAT-TGA
1 AAGTTAGTTGATTTAAGATCGC-AA-CC-TA-AGTTCATTTGATTTAAGATCATGAACAATCT--
9115429 TATCATT
60 TAT--TT
* * * *
9115436 AAGGTTTGTTGATTTAAAATCACAACCTAAGTTCATTTCATTTAAGATCATGAACAATCTTATTT
1 AA-GTTAGTTGATTTAAGATCGCAACCTAAGTTCATTTGATTTAAGATCATGAACAATCTTATTT
** * * * * * * * *
9115501 AAGTTAACTAATTTAATATCGCTACTCT-AG-GCAACTCGTTGATTTAAGA-C-CGCAGCTGATA
1 AAGTTAGTTGATTTAAGATCGCAAC-CTAAGTTC-A-T--TTGATTTAAGATCATG-AAC-AATC
*
9115562 TCA-TT
59 TTATTT
* * * *
9115567 AAGTTTTGTTGATTTAAGATTGCAATCTAAGTTCATTCGATTTAAGATCATGAACAATCTTATTT
1 AAG-TTAGTTGATTTAAGATCGCAACCTAAGTTCATTTGATTTAAGATCATGAACAATCTTATTT
* *
9115632 GAGTTAGCTGATTTAAGATCGC
1 AAGTTAGTTGATTTAAGATCGC
9115654 TACTCCAGAC
Statistics
Matches: 204, Mismatches: 52, Indels: 56
0.65 0.17 0.18
Matches are distributed among these distances:
62 1 0.00
63 8 0.04
64 82 0.40
65 21 0.10
66 21 0.10
67 62 0.30
68 8 0.04
69 1 0.00
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (64 bp):
AAGTTAGTTGATTTAAGATCGCAACCTAAGTTCATTTGATTTAAGATCATGAACAATCTTATTT
Found at i:9115448 original size:131 final size:131
Alignment explanation
Indices: 9115214--9115752 Score: 625
Period size: 131 Copynumber: 4.1 Consensus size: 131
9115204 TATCAGTTAC
* * * *** ** *
9115214 TTTAATATCATGAACAA-CTTTATTTGAGTTAACTGATTTAAGATCGCTACTCCACTTAGTTTGC
1 TTTAAGATCATGAACAATC-TTATTTGAGTTAGCTAATTTAAGATCGCTACTCCAGACAACTCG-
* * * *
9115278 TT-ATTTAAGATCACAGTTGATATCATTAAAGTTCGTTGATTTAAGATCGCAACCTAAGTTCATT
64 TTGATTTAAGATCGCAGCTGATATCATTAAGGTTCGTTGATTTAAGATCACAACCTAAGTTCATT
*
9115342 TGA
129 CGA
* * * *
9115345 TTTAAGATCATGAACAATCTTATTTGAGTTAGTTTATTTAAGATCGCTAATCCAAACAACTCGTT
1 TTTAAGATCATGAACAATCTTATTTGAGTTAGCTAATTTAAGATCGCTACTCCAGACAACTCGTT
* * ** * *
9115410 GATTTAATATTGCAATTGATATCATTAAGGTTTGTTGATTTAAAATCACAACCTAAGTTCATTTC
66 GATTTAAGATCGCAGCTGATATCATTAAGGTTCGTTGATTTAAGATCACAACCTAAGTTCA-TTC
9115475 -A
130 GA
* * * * *
9115476 TTTAAGATCATGAACAATCTTATTTAAGTTAACTAATTTAATATCGCTACTCTAGGCAACTCGTT
1 TTTAAGATCATGAACAATCTTATTTGAGTTAGCTAATTTAAGATCGCTACTCCAGACAACTCGTT
* * * ** *
9115541 GATTTAAGACCGCAGCTGATATCATTAAGTTTTGTTGATTTAAGATTGCAATCTAAGTTCATTCG
66 GATTTAAGATCGCAGCTGATATCATTAAGGTTCGTTGATTTAAGATCACAACCTAAGTTCATTCG
9115606 A
131 A
* *
9115607 TTTAAGATCATGAACAATCTTATTTGAGTTAGCTGATTTAAGATCGCTACTCCAGACAGCTCGTT
1 TTTAAGATCATGAACAATCTTATTTGAGTTAGCTAATTTAAGATCGCTACTCCAGACAACTCGTT
* * * ** * *
9115672 GATTTAAGATCGTAGCTAATATCATTAATGTTCACTGATTTAAGATCACAACATAAGTTTATTCG
66 GATTTAAGATCGCAGCTGATATCATTAAGGTTCGTTGATTTAAGATCACAACCTAAGTTCATTCG
9115737 A
131 A
*
9115738 TTTAATATCATGAAC
1 TTTAAGATCATGAAC
9115753 TAGCTTTTCT
Statistics
Matches: 344, Mismatches: 60, Indels: 8
0.83 0.15 0.02
Matches are distributed among these distances:
130 5 0.01
131 336 0.98
132 3 0.01
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38
Consensus pattern (131 bp):
TTTAAGATCATGAACAATCTTATTTGAGTTAGCTAATTTAAGATCGCTACTCCAGACAACTCGTT
GATTTAAGATCGCAGCTGATATCATTAAGGTTCGTTGATTTAAGATCACAACCTAAGTTCATTCG
A
Found at i:9115696 original size:262 final size:261
Alignment explanation
Indices: 9115214--9115776 Score: 693
Period size: 262 Copynumber: 2.1 Consensus size: 261
9115204 TATCAGTTAC
* * ** ** *
9115214 TTTAATATCATGAACAACTTTATTTGAGTTAACTGATTTAAGATCGCTACTCCACTTAGTTTGCT
1 TTTAATATCATGAACAAC-TTATTTAAGTTAACTAATTTAAGATCGCTACTCCACGCAACTCGCT
* * *
9115279 TATTTAAGATCACAGTTGATATCATTAAAGTTCGTTGATTTAAGATCGCAACCTAAGTTCATTTG
65 TATTTAAGACCACAGCTGATATCATTAAAGTTCGTTGATTTAAGATCGCAACCTAAGTTCATTCG
* *
9115344 ATTTAAGATCATGAACAATCTTATTTGAGTTAGTTTATTTAAGATCGCTAATCCAAACAACTCGT
130 ATTTAAGATCATGAACAATCTTATTTGAGTTAGCTGATTTAAGATCGCTAATCCAAACAACTCGT
* * * * *** *
9115409 TGATTTAATATTGCAATTGATATCATTAAGGTTTGTTGATTTAAAATCACAACCTAAGTTCATTT
195 TGATTTAAGATCGCAACTAATATCATTAAGGTTCACTGATTTAAAATCACAACATAAGTTCA-TT
9115474 C-A
259 CGA
* * * *
9115476 TTTAAGATCATGAACAATCTTATTTAAGTTAACTAATTTAATATCGCTACTCTAGGCAACTCG-T
1 TTTAATATCATGAACAA-CTTATTTAAGTTAACTAATTTAAGATCGCTACTCCACGCAACTCGCT
* * * *
9115540 TGATTTAAGACCGCAGCTGATATCATT-AAGTTTTGTTGATTTAAGATTGCAATCTAAGTTCATT
65 T-ATTTAAGACCACAGCTGATATCATTAAAG-TTCGTTGATTTAAGATCGCAACCTAAGTTCATT
* * *
9115604 CGATTTAAGATCATGAACAATCTTATTTGAGTTAGCTGATTTAAGATCGCTACTCCAGACAGCTC
128 CGATTTAAGATCATGAACAATCTTATTTGAGTTAGCTGATTTAAGATCGCTAATCCAAACAACTC
* * * * *
9115669 GTTGATTTAAGATCGTAGCTAATATCATTAATGTTCACTGATTTAAGATCACAACATAAGTTTAT
193 GTTGATTTAAGATCGCAACTAATATCATTAAGGTTCACTGATTTAAAATCACAACATAAGTTCAT
9115734 TCGA
258 TCGA
* *
9115738 TTTAATATCATGAACTAGCTT-TTCTATGTTAACTAATTT
1 TTTAATATCATGAAC-AACTTATT-TAAGTTAACTAATTT
9115777 CCTAATCTTT
Statistics
Matches: 256, Mismatches: 39, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
261 10 0.04
262 244 0.95
263 2 0.01
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.39
Consensus pattern (261 bp):
TTTAATATCATGAACAACTTATTTAAGTTAACTAATTTAAGATCGCTACTCCACGCAACTCGCTT
ATTTAAGACCACAGCTGATATCATTAAAGTTCGTTGATTTAAGATCGCAACCTAAGTTCATTCGA
TTTAAGATCATGAACAATCTTATTTGAGTTAGCTGATTTAAGATCGCTAATCCAAACAACTCGTT
GATTTAAGATCGCAACTAATATCATTAAGGTTCACTGATTTAAAATCACAACATAAGTTCATTCG
A
Found at i:9116234 original size:41 final size:41
Alignment explanation
Indices: 9116171--9116252 Score: 146
Period size: 41 Copynumber: 2.0 Consensus size: 41
9116161 GACTAAAAGC
*
9116171 ATCAAAGTTTACCCTACGAGCATTGAAAGGACCGCCAACTA
1 ATCAAAGTTTACCCTACAAGCATTGAAAGGACCGCCAACTA
*
9116212 ATCAAAGTTTACCCTGCAAGCATTGAAAGGACCGCCAACTA
1 ATCAAAGTTTACCCTACAAGCATTGAAAGGACCGCCAACTA
9116253 CTTGAGTATG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.37, C:0.27, G:0.17, T:0.20
Consensus pattern (41 bp):
ATCAAAGTTTACCCTACAAGCATTGAAAGGACCGCCAACTA
Found at i:9126600 original size:3 final size:3
Alignment explanation
Indices: 9126592--9126656 Score: 130
Period size: 3 Copynumber: 21.7 Consensus size: 3
9126582 ATTAACCCAG
9126592 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
9126640 ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA AT
9126657 TGTCAAAACC
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:9129186 original size:17 final size:17
Alignment explanation
Indices: 9129164--9129196 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
9129154 TTTGGCGCGG
*
9129164 AGGCGCTACACGTGCAC
1 AGGCGCAACACGTGCAC
9129181 AGGCGCAACACGTGCA
1 AGGCGCAACACGTGCA
9129197 AGGAGGAGGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.33, G:0.30, T:0.09
Consensus pattern (17 bp):
AGGCGCAACACGTGCAC
Found at i:9130562 original size:13 final size:13
Alignment explanation
Indices: 9130544--9130569 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9130534 TTTTTTTTAA
9130544 CCTTATAGAATTT
1 CCTTATAGAATTT
9130557 CCTTATAGAATTT
1 CCTTATAGAATTT
9130570 AGAACTGCTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.08, T:0.46
Consensus pattern (13 bp):
CCTTATAGAATTT
Found at i:9132825 original size:24 final size:23
Alignment explanation
Indices: 9132781--9132825 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
9132771 TAATGATGAA
*
9132781 AACGTGAATAAATAATTAAAAGG
1 AACGTGAATAAATAATAAAAAGG
*
9132804 AACGTGAATAAAATTATAAAAA
1 AACGTGAAT-AAATAATAAAAA
9132826 TACAAGAGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 9 0.47
24 10 0.53
ACGTcount: A:0.60, C:0.04, G:0.13, T:0.22
Consensus pattern (23 bp):
AACGTGAATAAATAATAAAAAGG
Found at i:9132935 original size:37 final size:37
Alignment explanation
Indices: 9132844--9132965 Score: 135
Period size: 37 Copynumber: 3.3 Consensus size: 37
9132834 TATAAATATG
*
9132844 TATATATGTATGCATATGAAAATTAT-AAAGTATATAAAAA
1 TATATATGTAT--ATAT--AAATTATAAAAATATATAAAAA
*
9132884 TATATATGTATATATAAATTGTAAAAAATATATAAAAA
1 TATATATGTATATATAAATTAT-AAAAATATATAAAAA
* *
9132922 -ATATATGTGTATATGAATTATAAAAATA-A-AAAAA
1 TATATATGTATATATAAATTATAAAAATATATAAAAA
9132956 TATATATGTA
1 TATATATGTA
9132966 AAAAGGGTAT
Statistics
Matches: 73, Mismatches: 6, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
34 5 0.07
35 9 0.12
36 13 0.18
37 18 0.25
38 17 0.23
40 11 0.15
ACGTcount: A:0.55, C:0.01, G:0.08, T:0.36
Consensus pattern (37 bp):
TATATATGTATATATAAATTATAAAAATATATAAAAA
Found at i:9135175 original size:88 final size:88
Alignment explanation
Indices: 9135026--9135187 Score: 252
Period size: 88 Copynumber: 1.8 Consensus size: 88
9135016 TACTACCTTG
* ** * * *
9135026 GAGATAAGATTCGCTGCCTTTAGCTTTAATCTGCTCTGCTACAACGCCAGGGAAAAGAAGACTCG
1 GAGATAAGATTCGCTGCCTTCAGCTTTAATCCACTCCGCTACAACGCCAGGGAAAAAAAGACTCA
9135091 CTGTCTTCAGTCTTAACGCTAAA
66 CTGTCTTCAGTCTTAACGCTAAA
*
9135114 GAGATAAGATTCGCTGTCTTCAGCTTTAATCCACTCCGCTACAACGCCAGGGAAAAAAAGACTCA
1 GAGATAAGATTCGCTGCCTTCAGCTTTAATCCACTCCGCTACAACGCCAGGGAAAAAAAGACTCA
*
9135179 TTGTCTTCA
66 CTGTCTTCA
9135188 ATCTGCTTCA
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
88 66 1.00
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.27
Consensus pattern (88 bp):
GAGATAAGATTCGCTGCCTTCAGCTTTAATCCACTCCGCTACAACGCCAGGGAAAAAAAGACTCA
CTGTCTTCAGTCTTAACGCTAAA
Found at i:9135837 original size:45 final size:45
Alignment explanation
Indices: 9135765--9135851 Score: 111
Period size: 45 Copynumber: 1.9 Consensus size: 45
9135755 AGCTTGAACT
* * *
9135765 GAATGAATTAATCAAGATAGCAAATTTTGCTAGAATACAAAACGA
1 GAATAAATTAATCAAGATAGCAAATTTTGCCAAAATACAAAACGA
* * **
9135810 GAATAAATTAATCAAGGTGGCGTATTTTGCCAAAATACAAAA
1 GAATAAATTAATCAAGATAGCAAATTTTGCCAAAATACAAAA
9135852 ATGAATAAAA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 35 1.00
ACGTcount: A:0.47, C:0.11, G:0.16, T:0.25
Consensus pattern (45 bp):
GAATAAATTAATCAAGATAGCAAATTTTGCCAAAATACAAAACGA
Found at i:9136163 original size:13 final size:14
Alignment explanation
Indices: 9136125--9136163 Score: 62
Period size: 15 Copynumber: 2.8 Consensus size: 14
9136115 CACCTTGGCC
9136125 TCTTCTTTTTATTT
1 TCTTCTTTTTATTT
9136139 TCTCTCTTTTTATTT
1 TCT-TCTTTTTATTT
9136154 TCTT-TTTTTA
1 TCTTCTTTTTA
9136164 GGTAAAGTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 6 0.25
14 4 0.17
15 14 0.58
ACGTcount: A:0.08, C:0.15, G:0.00, T:0.77
Consensus pattern (14 bp):
TCTTCTTTTTATTT
Found at i:9142746 original size:9 final size:9
Alignment explanation
Indices: 9142732--9142774 Score: 59
Period size: 9 Copynumber: 4.8 Consensus size: 9
9142722 GTTTTCGAAT
9142732 TCGAATAAC
1 TCGAATAAC
9142741 TCGAATAAC
1 TCGAATAAC
*
9142750 TCGAATAAT
1 TCGAATAAC
* *
9142759 TCAAATAAT
1 TCGAATAAC
9142768 TCGAATA
1 TCGAATA
9142775 TCAAACTATA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 31 1.00
ACGTcount: A:0.47, C:0.16, G:0.09, T:0.28
Consensus pattern (9 bp):
TCGAATAAC
Found at i:9143035 original size:30 final size:31
Alignment explanation
Indices: 9142987--9143046 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
9142977 AAACCTTTTA
*
9142987 TTTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
* * *
9143017 TTTTCCTCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCA
9143047 TCTCACCTCC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.20, C:0.38, G:0.00, T:0.42
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:9146748 original size:16 final size:16
Alignment explanation
Indices: 9146727--9146762 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
9146717 CTTTTATAAT
*
9146727 AAAATGCCATGTAGTC
1 AAAATGCCATGTAGCC
9146743 AAAATGCCATGTAGCC
1 AAAATGCCATGTAGCC
9146759 AAAA
1 AAAA
9146763 CAAAACACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.44, C:0.19, G:0.17, T:0.19
Consensus pattern (16 bp):
AAAATGCCATGTAGCC
Found at i:9147934 original size:16 final size:16
Alignment explanation
Indices: 9147899--9147938 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
9147889 TTAATAAAAT
* *
9147899 TAAAACTAATTGCTAT
1 TAAAATTAATTGCTAG
*
9147915 TAAAATTAATTGTTAG
1 TAAAATTAATTGCTAG
9147931 TAAAATTA
1 TAAAATTA
9147939 TCAAATTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.40
Consensus pattern (16 bp):
TAAAATTAATTGCTAG
Found at i:9148047 original size:68 final size:68
Alignment explanation
Indices: 9147927--9148136 Score: 370
Period size: 68 Copynumber: 3.1 Consensus size: 68
9147917 AAATTAATTG
* *
9147927 TTAGTAAAATTATCAAATTATTAA-T-TGTTAATTGTATTAATTGTTGTAATAAAATCTAACATT
1 TTAGTAAATTTATCAAATTATTAATTATATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
9147990 TGA
66 TGA
*
9147993 TTAGTAAATTTATCAAATTATTAATTATATTAATTGTATTAATTATTGTAATAAAATCTAACATT
1 TTAGTAAATTTATCAAATTATTAATTATATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
9148058 TGA
66 TGA
*
9148061 TTAGTAAATTTATCAAATTATTAATTATATTAATTGTATTAATTGTTGTAACAAAATCTAACATT
1 TTAGTAAATTTATCAAATTATTAATTATATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
9148126 TGA
66 TGA
9148129 TTAGTAAA
1 TTAGTAAA
9148137 ACAAACTTGA
Statistics
Matches: 137, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
66 23 0.17
67 1 0.01
68 113 0.82
ACGTcount: A:0.42, C:0.05, G:0.08, T:0.46
Consensus pattern (68 bp):
TTAGTAAATTTATCAAATTATTAATTATATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
TGA
Found at i:9149026 original size:24 final size:23
Alignment explanation
Indices: 9148982--9149026 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
9148972 TAATGATGAA
*
9148982 AACGTGAAAAAATAATTAAAAGG
1 AACGTGAAAAAATAATAAAAAGG
*
9149005 AACGTGAACAAAATTATAAAAA
1 AACGTGAA-AAAATAATAAAAA
9149027 TACAAGAGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.62, C:0.07, G:0.13, T:0.18
Consensus pattern (23 bp):
AACGTGAAAAAATAATAAAAAGG
Found at i:9153347 original size:147 final size:147
Alignment explanation
Indices: 9153076--9153352 Score: 358
Period size: 147 Copynumber: 1.9 Consensus size: 147
9153066 GTAAAATTCG
** * * * * *
9153076 GGTTTACTCACACAAGCTGTAGGTTGGGGTTGTTGATATAAGTGTTATTTGATACTGCTCACAGA
1 GGTTTACTCACACAAGCTGTAGGTCAGGATTATTCATATAAGTGTTATTCGATACTGCTCACACA
** * * *
9153141 AGATGTAGAGAACCCGCAACATATGTTAGATCTCGGCCATCGATAACTAAGCCATTGACTAGCAC
66 AGATGTAGAGAACCCGCAACATATGCAAGATCTCAGCCATCAATAACTAAGCCACTGACTAGCAC
9153206 TTGAACTATATCATTTA
131 TTGAACTATATCATTTA
* ** *
9153223 GGTTTGCTCACACAAGCTGTAGGTCAGGATTATTCATATAAGTGTTATTCGATGTTGCTCGCACA
1 GGTTTACTCACACAAGCTGTAGGTCAGGATTATTCATATAAGTGTTATTCGATACTGCTCACACA
* * * *
9153288 AGCTGTAGAGTATCCGCAACATATGCAAGATCTCAGTCATCAATAACTAAGTCC-CTGACTAGCA
66 AGATGTAGAGAACCCGCAACATATGCAAGATCTCAGCCATCAATAACTAAG-CCACTGACTAGCA
9153352 C
130 C
9153353 CCAATTCCTT
Statistics
Matches: 109, Mismatches: 20, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
147 107 0.98
148 2 0.02
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.30
Consensus pattern (147 bp):
GGTTTACTCACACAAGCTGTAGGTCAGGATTATTCATATAAGTGTTATTCGATACTGCTCACACA
AGATGTAGAGAACCCGCAACATATGCAAGATCTCAGCCATCAATAACTAAGCCACTGACTAGCAC
TTGAACTATATCATTTA
Found at i:9155218 original size:188 final size:188
Alignment explanation
Indices: 9154897--9155279 Score: 599
Period size: 188 Copynumber: 2.0 Consensus size: 188
9154887 AATATGAGGT
* * * *
9154897 GTCA-TCACAAGCACCTGTCAATAAGGAACACATGTTATTGCTAGCTGCATTTTACTTTGCAAAT
1 GTCACTCACAAGAACCTGTCAATAAGAAACACATGTTATTGCTAGCTACATTTTACTTTGCAAAC
* *
9154961 CACAAAAAAACTTAGGAAAAACTTAACAAAAGAACAGACCACAGTCTCCCACTATAAACTTCATC
66 CACAAAAAAACTTAGGAAAAACTTAACAAAAGAACAGACCAAAATCTCCCACTATAAACTTCATC
* * *
9155026 TTTCATCTTGAATAAGTTTCACTAACTAGTTCATTTCATTCCAATAGCATTCTTCAAA
131 TTTCATCTTGAATAAGTTTCACTAACTAGTTCATTTCATTCCAACAACATTCCTCAAA
*
9155084 GTCACTCACAAGAACCTGTCAGTAAGAAACACATGTTATTGCTAGCTACATTTTACTTTGCAAAC
1 GTCACTCACAAGAACCTGTCAATAAGAAACACATGTTATTGCTAGCTACATTTTACTTTGCAAAC
* * **
9155149 CACAAAAAAA-TTGAGGAAAAACTTAATAAAAGAACATACCAAAATCTCCTGCTATAAACTTCAT
66 CACAAAAAAACTT-AGGAAAAACTTAACAAAAGAACAGACCAAAATCTCCCACTATAAACTTCAT
*
9155213 CTTTCATCTTGAATAAGTTTCACTAACTAGTTCATTTCTTTCCAACAACATTCCTCAAA
130 CTTTCATCTTGAATAAGTTTCACTAACTAGTTCATTTCATTCCAACAACATTCCTCAAA
*
9155272 GTCCCTCA
1 GTCACTCA
9155280 AAAAAATTTG
Statistics
Matches: 178, Mismatches: 16, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
187 6 0.03
188 172 0.97
ACGTcount: A:0.38, C:0.23, G:0.10, T:0.30
Consensus pattern (188 bp):
GTCACTCACAAGAACCTGTCAATAAGAAACACATGTTATTGCTAGCTACATTTTACTTTGCAAAC
CACAAAAAAACTTAGGAAAAACTTAACAAAAGAACAGACCAAAATCTCCCACTATAAACTTCATC
TTTCATCTTGAATAAGTTTCACTAACTAGTTCATTTCATTCCAACAACATTCCTCAAA
Found at i:9158310 original size:27 final size:27
Alignment explanation
Indices: 9158273--9158329 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
9158263 AACATTGAAT
9158273 AAAACATTGAATTATCAAATAATAAGA
1 AAAACATTGAATTATCAAATAATAAGA
9158300 AAAACATTGAATTATCAAATAATAAGA
1 AAAACATTGAATTATCAAATAATAAGA
9158327 AAA
1 AAA
9158330 GTCAAAATGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.61, C:0.07, G:0.07, T:0.25
Consensus pattern (27 bp):
AAAACATTGAATTATCAAATAATAAGA
Found at i:9158694 original size:98 final size:97
Alignment explanation
Indices: 9158505--9158696 Score: 287
Period size: 98 Copynumber: 2.0 Consensus size: 97
9158495 ATATATGAAA
* * *
9158505 ATAAAGACACAACAATGAGTTCAGGCTAGTAGAATACAAGCAATGGAAAAATCAACATTGTACTC
1 ATAAAGACACAACAAGGAGTTCAGGATAGTAGAATACAAGCAATGAAAAAATCAACATTGTACTC
*
9158570 GAAATAGAAAAATTAGAGATAACAATGTTCAC
66 GAAATAGAAAAATCAGAGATAACAATGTTCAC
* * *
9158602 ATAAAGACACAACAGGGAGTTCATGATAGTAGAATACTAAGTAATGAAAAAATCAACATTGTACT
1 ATAAAGACACAACAAGGAGTTCAGGATAGTAGAATAC-AAGCAATGAAAAAATCAACATTGTACT
*
9158667 C-AGAATAGAAAAATCAGAGATAGCAATGTT
65 CGA-AATAGAAAAATCAGAGATAACAATGTT
9158697 GGTAGTGGAA
Statistics
Matches: 85, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
97 34 0.40
98 51 0.60
ACGTcount: A:0.48, C:0.13, G:0.17, T:0.21
Consensus pattern (97 bp):
ATAAAGACACAACAAGGAGTTCAGGATAGTAGAATACAAGCAATGAAAAAATCAACATTGTACTC
GAAATAGAAAAATCAGAGATAACAATGTTCAC
Found at i:9160029 original size:18 final size:19
Alignment explanation
Indices: 9160002--9160037 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
9159992 CCCTTGCACC
*
9160002 CACCATGTTGAAG-ATCAA
1 CACCAAGTTGAAGTATCAA
9160020 CACCAAGTTGAAGTATCA
1 CACCAAGTTGAAGTATCA
9160038 GAATCCATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.39, C:0.22, G:0.17, T:0.22
Consensus pattern (19 bp):
CACCAAGTTGAAGTATCAA
Found at i:9165642 original size:12 final size:13
Alignment explanation
Indices: 9165618--9165642 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9165608 AGAGAATTCA
9165618 TATGAAAATTTTT
1 TATGAAAATTTTT
9165631 TATGAAAATTTT
1 TATGAAAATTTT
9165643 ACTGATTACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (13 bp):
TATGAAAATTTTT
Found at i:9168284 original size:55 final size:55
Alignment explanation
Indices: 9168223--9168326 Score: 190
Period size: 55 Copynumber: 1.9 Consensus size: 55
9168213 AATTATCCAA
* *
9168223 GTCAGTATGCTCACACGGCTTAGCACACGGGTGTGTGGCTTGGCAGTGTGACCAT
1 GTCAGTATGCTCACACGGCCTAGCACACGGGCGTGTGGCTTGGCAGTGTGACCAT
9168278 GTCAGTATGCTCACACGGCCTAGCACACGGGCGTGTGGCTTGGCAGTGT
1 GTCAGTATGCTCACACGGCCTAGCACACGGGCGTGTGGCTTGGCAGTGT
9168327 AACGAAGCTA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 47 1.00
ACGTcount: A:0.17, C:0.25, G:0.34, T:0.24
Consensus pattern (55 bp):
GTCAGTATGCTCACACGGCCTAGCACACGGGCGTGTGGCTTGGCAGTGTGACCAT
Found at i:9170543 original size:64 final size:63
Alignment explanation
Indices: 9170438--9170563 Score: 153
Period size: 64 Copynumber: 2.0 Consensus size: 63
9170428 AGCATGCTGG
* * * * * * * * * *
9170438 TCGGTATTGATCTGCATGTGTTGTAGACATACTGTAGCTCTTTGTGAGTGTCCTGGTATATGA
1 TCGGTATGGATCTGCATATATTGCAGACATACCGTAACTCTTTATGAGCGTCCCGATATATGA
9170501 TCGGTATGGATCCTGCATATATTGCAGACATACCGTAACTCTTTATGAGCGTCCCGATATATG
1 TCGGTATGGAT-CTGCATATATTGCAGACATACCGTAACTCTTTATGAGCGTCCCGATATATG
9170564 GCTCTTAATG
Statistics
Matches: 52, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
63 10 0.19
64 42 0.81
ACGTcount: A:0.22, C:0.18, G:0.24, T:0.36
Consensus pattern (63 bp):
TCGGTATGGATCTGCATATATTGCAGACATACCGTAACTCTTTATGAGCGTCCCGATATATGA
Done.