Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167838.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_11, whole genome shotgun sequence
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: 23775123
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 69000 characters in sequence are not A, C, G, or T
File 124 of 129
Found at i:22578068 original size:25 final size:24
Alignment explanation
Indices: 22578037--22578092 Score: 76
Period size: 25 Copynumber: 2.3 Consensus size: 24
22578027 AATTTTTATA
*
22578037 TTGATATAAATTATAATACATAATT
1 TTGATATAAAATATAATACA-AATT
* *
22578062 TTTATATAAAATATAATATAAATT
1 TTGATATAAAATATAATACAAATT
22578086 TTGATAT
1 TTGATAT
22578093 TTTATATAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
24 10 0.37
25 17 0.63
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (24 bp):
TTGATATAAAATATAATACAAATT
Found at i:22579269 original size:35 final size:34
Alignment explanation
Indices: 22579200--22579269 Score: 79
Period size: 35 Copynumber: 2.0 Consensus size: 34
22579190 GAATAAAAAG
*
22579200 TAATTAAATTGAAATATTTCATTAAATATTTTAT
1 TAATTAAATTGAAATATTTCATTAAATATGTTAT
* * *
22579234 TAATGTAAA-TGACAATTTTTCATTAATTCTGTTAT
1 TAAT-TAAATTGA-AATATTTCATTAAATATGTTAT
22579269 T
1 T
22579270 TAAGTCCAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
34 7 0.23
35 23 0.77
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.50
Consensus pattern (34 bp):
TAATTAAATTGAAATATTTCATTAAATATGTTAT
Found at i:22582844 original size:147 final size:147
Alignment explanation
Indices: 22582655--22582922 Score: 351
Period size: 147 Copynumber: 1.8 Consensus size: 147
22582645 AAAATTTCTT
* * * * * **
22582655 AATAATCTTTTTATATTTTAGGTTTTAGGGTTATTATTTTTATAAAAAT-ATTATTTAAGGTGTT
1 AATAATCATTTTATATTTTAAGTTCTAGAGTTAATATTTTTAT-AAAATGATTATTTAAGACGTT
* * * * *
22582719 TTTTTATAAAAAATGATTTAAATAATCTTTTTAAATTTTTATAAATAGATTATTTAAGGCATGTC
65 TCTGTACAAAAAATGACTTAAATAATCTTTTTAAATTTTTACAAATAGATTATTTAAGGCATGTC
22582784 TGCACAGAAAGTACCTTA
130 TGCACAGAAAGTACCTTA
22582802 AATAATCATTTTATATTTTAAAG-TCTAGAGTTAATATTTTTATAAAATGATTATTTAAGACGTT
1 AATAATCATTTTATATTTT-AAGTTCTAGAGTTAATATTTTTATAAAATGATTATTTAAGACGTT
* * * * *
22582866 TCTGTACACATAATGCCTTAAATAATCTTTTTATATTTTTACAAATATATTATTTAA
65 TCTGTACAAAAAATGACTTAAATAATCTTTTTAAATTTTTACAAATAGATTATTTAA
22582923 TAGAAACGCC
Statistics
Matches: 102, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
146 5 0.05
147 95 0.93
148 2 0.02
ACGTcount: A:0.37, C:0.07, G:0.09, T:0.47
Consensus pattern (147 bp):
AATAATCATTTTATATTTTAAGTTCTAGAGTTAATATTTTTATAAAATGATTATTTAAGACGTTT
CTGTACAAAAAATGACTTAAATAATCTTTTTAAATTTTTACAAATAGATTATTTAAGGCATGTCT
GCACAGAAAGTACCTTA
Found at i:22582898 original size:84 final size:83
Alignment explanation
Indices: 22582749--22582904 Score: 208
Period size: 84 Copynumber: 1.9 Consensus size: 83
22582739 AATAATCTTT
* *
22582749 TTAAATTTTTATAAATAGATTATTTAAGGCATGTCTGCACAGAAAGTACCTTAAATAATCATTTT
1 TTAAATTTTTATAAATAGATTATTTAAGACATGTCTGCACACAAAGTACCTTAAATAATCATTTT
22582814 ATATTTTAAAGTCTAGAG
66 ATATTTTAAAGTCTAGAG
* * * * *
22582832 TTAATATTTTTATAAA-ATGATTATTTAAGACGTTTCTGTACACATAA-TGCCTTAAATAATCTT
1 TTAA-ATTTTTATAAATA-GATTATTTAAGACATGTCTGCACACA-AAGTACCTTAAATAATCAT
22582895 TTTATATTTT
63 TTTATATTTT
22582905 TACAAATATA
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
83 5 0.08
84 56 0.89
85 2 0.03
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.44
Consensus pattern (83 bp):
TTAAATTTTTATAAATAGATTATTTAAGACATGTCTGCACACAAAGTACCTTAAATAATCATTTT
ATATTTTAAAGTCTAGAG
Found at i:22584743 original size:33 final size:34
Alignment explanation
Indices: 22584706--22584791 Score: 102
Period size: 37 Copynumber: 2.5 Consensus size: 34
22584696 AATTACAATT
* * *
22584706 ATAATCAAGTATTGC-ATTCATATAATTAATTAA
1 ATAATCAACTATTACAATTCATATAATTAACTAA
*
22584739 ATAATCAACTATTACATAAATTTATATAATTAACTAA
1 ATAATCAACTATTAC---AATTCATATAATTAACTAA
22584776 ATAATCAACTATTACA
1 ATAATCAACTATTACA
22584792 TCCTAATCAA
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
33 13 0.29
34 1 0.02
37 31 0.69
ACGTcount: A:0.49, C:0.12, G:0.02, T:0.37
Consensus pattern (34 bp):
ATAATCAACTATTACAATTCATATAATTAACTAA
Found at i:22584950 original size:33 final size:33
Alignment explanation
Indices: 22584907--22584980 Score: 121
Period size: 33 Copynumber: 2.2 Consensus size: 33
22584897 AAAACCTCTT
* *
22584907 TCTTGCCATACAACTTTTGCATTCATCTAAAAC
1 TCTTGACATACAAATTTTGCATTCATCTAAAAC
*
22584940 TCTTGACATACAAATTTTGCATTCATCTATAAC
1 TCTTGACATACAAATTTTGCATTCATCTAAAAC
22584973 TCTTGACA
1 TCTTGACA
22584981 AATGAAGTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (33 bp):
TCTTGACATACAAATTTTGCATTCATCTAAAAC
Found at i:22587207 original size:17 final size:16
Alignment explanation
Indices: 22587169--22587222 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
22587159 CATTTTCTAG
22587169 TTTT-TTTTTTTTTGC
1 TTTTATTTTTTTTTGC
*
22587184 TTTTATTTTTTTTTGT
1 TTTTATTTTTTTTTGC
* *
22587200 TTTCTATTTTATTAT-C
1 TTT-TATTTTTTTTTGC
22587216 TTTTATT
1 TTTTATT
22587223 ATGTTTTTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
15 8 0.24
16 16 0.48
17 9 0.27
ACGTcount: A:0.09, C:0.06, G:0.04, T:0.81
Consensus pattern (16 bp):
TTTTATTTTTTTTTGC
Found at i:22587453 original size:16 final size:15
Alignment explanation
Indices: 22587436--22587488 Score: 63
Period size: 16 Copynumber: 3.5 Consensus size: 15
22587426 TTTATGTGAT
22587436 TTATTAATTGCATGA
1 TTATTAATTGCATGA
* *
22587451 TTTATTATTTGTAT-A
1 -TTATTAATTGCATGA
*
22587466 ATATTAATTGCATGA
1 TTATTAATTGCATGA
22587481 TTATTAAT
1 TTATTAAT
22587489 ATATTTGATT
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
14 10 0.33
15 9 0.30
16 11 0.37
ACGTcount: A:0.34, C:0.04, G:0.09, T:0.53
Consensus pattern (15 bp):
TTATTAATTGCATGA
Found at i:22587491 original size:26 final size:28
Alignment explanation
Indices: 22587437--22587492 Score: 69
Period size: 30 Copynumber: 1.9 Consensus size: 28
22587427 TTATGTGATT
*
22587437 TATTAATTGCATGATTTATTATTTGTATAA
1 TATTAATTGCATGATTTATTA--TATATAA
22587467 TATTAATTGCATGA-TTATTAATATAT
1 TATTAATTGCATGATTTATT-ATATAT
22587493 TTGATTTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 4 0.17
29 5 0.21
30 15 0.62
ACGTcount: A:0.36, C:0.04, G:0.09, T:0.52
Consensus pattern (28 bp):
TATTAATTGCATGATTTATTATATATAA
Found at i:22587509 original size:16 final size:16
Alignment explanation
Indices: 22587492--22587548 Score: 54
Period size: 15 Copynumber: 3.9 Consensus size: 16
22587482 TATTAATATA
22587492 TTTG-ATTTATTATTT
1 TTTGCATTTATTATTT
22587507 ATTTGCA-TTA-TA-TT
1 -TTTGCATTTATTATTT
*
22587521 TTTGCATAT-TTATTT
1 TTTGCATTTATTATTT
22587536 TTTG-ATTTATTAT
1 TTTGCATTTATTAT
22587549 GATATTTTGG
Statistics
Matches: 34, Mismatches: 2, Indels: 11
0.72 0.04 0.23
Matches are distributed among these distances:
13 6 0.18
14 8 0.24
15 12 0.35
16 7 0.21
17 1 0.03
ACGTcount: A:0.23, C:0.04, G:0.07, T:0.67
Consensus pattern (16 bp):
TTTGCATTTATTATTT
Found at i:22587658 original size:19 final size:20
Alignment explanation
Indices: 22587608--22587661 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 20
22587598 CTGGTATGAT
*
22587608 ATGATTTTTAT-ATATTTGC
1 ATGATTTGTATAATATTTGC
*
22587627 ATGCTATTGGTATAAT-TTTGC
1 ATG--ATTTGTATAATATTTGC
22587648 ATGATTTGTATAAT
1 ATGATTTGTATAAT
22587662 GTAAAATTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
19 13 0.45
21 14 0.48
22 2 0.07
ACGTcount: A:0.28, C:0.06, G:0.15, T:0.52
Consensus pattern (20 bp):
ATGATTTGTATAATATTTGC
Found at i:22588146 original size:3 final size:3
Alignment explanation
Indices: 22588140--22588169 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
22588130 ATAATAATAA
22588140 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
22588170 GTTGTTGTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:22588175 original size:3 final size:3
Alignment explanation
Indices: 22588169--22588196 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
22588159 ATTATTATTA
22588169 TGT TGT TGT TGT TGT TGT TGT TGT TGT T
1 TGT TGT TGT TGT TGT TGT TGT TGT TGT T
22588197 ACTGTTATTT
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:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TGT
Found at i:22589175 original size:66 final size:66
Alignment explanation
Indices: 22588979--22589197 Score: 266
Period size: 66 Copynumber: 3.4 Consensus size: 66
22588969 AGTGAATCGA
* * ** *
22588979 GTGGCTTTGGCTTCGGCTCCACTGCAATAAAAACCAATTCATAAGATAATA--AAAGCTCAT-CG
1 GTGGCTTTGGCTTCGGCTCCACTCCAATAAAAACCAATTCAAAAGATAATACTAAAATTTATACG
*
22589041 T
66 C
* * *
22589042 GTGGCTTAGGCTTCGGCTCCACTCCGATAAAAACCAGTTCAAAAGATAATACTAAAATTTA-ATC
1 GTGGCTTTGGCTTCGGCTCCACTCCAATAAAAACCAATTCAAAAGATAATACTAAAATTTATA-C
22589106 GC
65 GC
* *
22589108 GTGGCTTTGGCCTCGGCTCCCCTCCAATAAAAACCAATTCAAAAGATAATACTAAAATTTATACG
1 GTGGCTTTGGCTTCGGCTCCACTCCAATAAAAACCAATTCAAAAGATAATACTAAAATTTATACG
22589173 C
66 C
* * * *
22589174 GTCGCTTCGACTTCGGCTCTACTC
1 GTGGCTTTGGCTTCGGCTCCACTC
22589198 AAAATCCAAT
Statistics
Matches: 131, Mismatches: 20, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
63 46 0.35
65 5 0.04
66 79 0.60
67 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (66 bp):
GTGGCTTTGGCTTCGGCTCCACTCCAATAAAAACCAATTCAAAAGATAATACTAAAATTTATACG
C
Found at i:22595983 original size:13 final size:13
Alignment explanation
Indices: 22595965--22595990 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
22595955 AATACTAAAT
22595965 AGTATTATTTTAA
1 AGTATTATTTTAA
22595978 AGTATTATTTTAA
1 AGTATTATTTTAA
22595991 TCTTCTATTT
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:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (13 bp):
AGTATTATTTTAA
Found at i:22600421 original size:15 final size:16
Alignment explanation
Indices: 22600385--22600432 Score: 53
Period size: 15 Copynumber: 3.0 Consensus size: 16
22600375 TTAATAATTT
*
22600385 AAAATAATAATGTAATA
1 AAAATAA-AATATAATA
* *
22600402 CAAATATAATA-AATA
1 AAAATAAAATATAATA
22600417 AAAATAAAATATAATA
1 AAAATAAAATATAATA
22600433 TGATTTAAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
15 13 0.52
16 7 0.28
17 5 0.20
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (16 bp):
AAAATAAAATATAATA
Found at i:22600421 original size:32 final size:31
Alignment explanation
Indices: 22600371--22600432 Score: 79
Period size: 32 Copynumber: 2.0 Consensus size: 31
22600361 AGTTTTTTAT
* * * *
22600371 AAATTTAATAATTTAAAATAATAATGTAATAC
1 AAATATAATAAATAAAAATAA-AATATAATAC
22600403 AAATATAATAAATAAAAATAAAATATAATA
1 AAATATAATAAATAAAAATAAAATATAATA
22600433 TGATTTAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
31 8 0.31
32 18 0.69
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (31 bp):
AAATATAATAAATAAAAATAAAATATAATAC
Found at i:22603876 original size:2 final size:2
Alignment explanation
Indices: 22603869--22603894 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
22603859 TTTGATCCTA
22603869 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
22603895 AACGATTGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:22604919 original size:33 final size:33
Alignment explanation
Indices: 22604877--22604941 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
22604867 CCTCCCTTAT
*
22604877 AGGATTCGACACAACTTGATTCTAGATTAATTG
1 AGGATTCGACACAACTTGATCCTAGATTAATTG
*
22604910 AGGATTCGACTCAACTTGATCCTAGATTAATT
1 AGGATTCGACACAACTTGATCCTAGATTAATT
22604942 AAGGTCAAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (33 bp):
AGGATTCGACACAACTTGATCCTAGATTAATTG
Found at i:22614628 original size:15 final size:16
Alignment explanation
Indices: 22614605--22614637 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
22614595 ATAAATTATA
*
22614605 AATTCAATTAA-AATT
1 AATTAAATTAATAATT
22614620 AATTAAATTAATAATT
1 AATTAAATTAATAATT
22614636 AA
1 AA
22614638 AAAAAATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (16 bp):
AATTAAATTAATAATT
Found at i:22617967 original size:13 final size:13
Alignment explanation
Indices: 22617949--22617977 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
22617939 GCATGCCAAC
22617949 AAGTTCAATTATG
1 AAGTTCAATTATG
22617962 AAGTTCAATTATG
1 AAGTTCAATTATG
22617975 AAG
1 AAG
22617978 CACTACTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.41, C:0.07, G:0.17, T:0.34
Consensus pattern (13 bp):
AAGTTCAATTATG
Found at i:22620443 original size:97 final size:94
Alignment explanation
Indices: 22620220--22620870 Score: 485
Period size: 93 Copynumber: 6.9 Consensus size: 94
22620210 TTTTAAATTT
* * * * * * *
22620220 AAAAAGCTCCTCT-AATCATAGGCTCAACTACTTTAAAAAATCATCTTGAAAAAGCTAC-TATAA
1 AAAAAGCTCCTCTCAGT-AGAGACTCAACAACTTTAAAAATTCATCTTGAAAAAGCT-CTTCTCA
* * * * *
22620283 GCAGAGGCTTC-ATAACTTTAAAAAT-TCTTG
64 GTAAAGGC-TCAACAATTTTAAAATTATCTTG
* * * *
22620313 AAAATGTTCCTCTCAGTAGAGACTCAACAACTTTAAAAATTCATGTTGAAAAAGCTCTTCTAAGT
1 AAAAAGCTCCTCTCAGTAGAGACTCAACAACTTTAAAAATTCATCTTGAAAAAGCTCTTCTCAGT
* * *
22620378 AAAAGTTCAACAACTTTAAAATTCTCATCTTG
66 AAAGGCTCAACAATTTTAAAA-T-T-ATCTTG
* * * * *
22620410 AAAAAGCTCTTCTCAGTAGAGGCTCAATAACTTT-AAAATTTATCTTAGAAAAA-CTCCTCTCAG
1 AAAAAGCTCCTCTCAGTAGAGACTCAACAACTTTAAAAATTCATCTT-GAAAAAGCTCTTCTCAG
* ** *
22620473 TAGAGGCTTCATGAATTTTAAAA--AT-AT-
65 TAAAGGC-TCAACAATTTTAAAATTATCTTG
** * * * * * * *
22620500 AAATGGCTCAC-CTAAGCAGAGATTCAACAAC-TTAAAATTTCATCTTGAAAGAGGTTCCTCTCA
1 AAAAAGCTC-CTCTCAGTAGAGACTCAACAACTTTAAAAATTCATCTTGAAA-AAGCTCTTCTCA
* *
22620563 GCAGAGGCTCAACAATTTTAAAATTTCATCTTG
64 GTAAAGGCTCAACAATTTTAAAA-TT-ATCTTG
* * *
22620596 AAAAAAGCTCCTCTAAGCAGAGACTCAACAACTTT-AAAATCTCATCTTGAAAAAGCTCTTCTTA
1 -AAAAAGCTCCTCTCAGTAGAGACTCAACAACTTTAAAAAT-TCATCTTGAAAAAGCTCTTCTCA
* * * *
22620660 GCAGAGACTCAACATTTTTAAAAATT-T-TT-
64 GTAAAGGCTCAACAATTTT-AAAATTATCTTG
* * *
22620689 AAAAATACTCCTCTCAGTAGAGGCTCAACAACTTTAAAAATTCATCTTGAAAAAACT-TCTCTCA
1 AAAAA-GCTCCTCTCAGTAGAGACTCAACAACTTTAAAAATTCATCTTGAAAAAGCTCT-TCTCA
* *
22620753 GTATAGGCTCAACAACTTTAAAATTAATCTTG
64 GTAAAGGCTCAACAATTTTAAAATT-ATCTTG
* * *
22620785 AAAAAGCTCATCTCAGTAGAGACTCAACAA-TTTAAAAATTTTATCTTGAAAAAG-TTTCTCTCA
1 AAAAAGCTCCTCTCAGTAGAGACTCAACAACTTTAAAAA-TTCATCTTGAAAAAGCTCT-TCTCA
* *
22620848 GTAGAGGCTCAATAATTTTAAAA
64 GTAAAGGCTCAACAATTTTAAAA
22620871 AAAATCATCT
Statistics
Matches: 449, Mismatches: 76, Indels: 64
0.76 0.13 0.11
Matches are distributed among these distances:
89 6 0.01
90 46 0.10
91 16 0.04
92 17 0.04
93 122 0.27
94 21 0.05
95 67 0.15
96 28 0.06
97 109 0.24
98 17 0.04
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.31
Consensus pattern (94 bp):
AAAAAGCTCCTCTCAGTAGAGACTCAACAACTTTAAAAATTCATCTTGAAAAAGCTCTTCTCAGT
AAAGGCTCAACAATTTTAAAATTATCTTG
Found at i:22620635 original size:138 final size:139
Alignment explanation
Indices: 22620383--22620634 Score: 332
Period size: 138 Copynumber: 1.8 Consensus size: 139
22620373 TAAGTAAAAG
* * *
22620383 TTCAACAACTTTAAAATTCTCATCTTGAAAAAGCTCTTCTCAGTAGAGGCTCAATAACTTTAAAA
1 TTCAACAACTTTAAAATTCTCATCTTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAA
* * * ** *
22620448 TTTATCTTAGAAAAACTCCTCTCAGTAGAGGCTTCATGAATTTTAAAAATATAAATGGCTCACCT
66 TTTATCTTAGAAAAACTCCTCTAAGCAGAGACTTCAACAACTTTAAAAATATAAATGGCTCACCT
22620513 AAGCAGAGA
131 AAGCAGAGA
* * *
22620522 TTCAACAAC-TTAAAATT-TCATCTTGAAAGAGGTTCCTCTCAGCAGAGGCTCAACAATTTTAAA
1 TTCAACAACTTTAAAATTCTCATCTTGAAA-AAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAA
22620585 ATTTCATCTT-GAAAAAAGCTCCTCTAAGCAGAGAC-TCAACAACTTTAAAA
65 ATTT-ATCTTAG-AAAAA-CTCCTCTAAGCAGAGACTTCAACAACTTTAAAA
22620635 TCTCATCTTG
Statistics
Matches: 97, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
137 11 0.11
138 41 0.42
139 31 0.32
140 14 0.14
ACGTcount: A:0.38, C:0.20, G:0.12, T:0.30
Consensus pattern (139 bp):
TTCAACAACTTTAAAATTCTCATCTTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAA
TTTATCTTAGAAAAACTCCTCTAAGCAGAGACTTCAACAACTTTAAAAATATAAATGGCTCACCT
AAGCAGAGA
Found at i:22620847 original size:48 final size:49
Alignment explanation
Indices: 22620242--22620871 Score: 339
Period size: 48 Copynumber: 13.3 Consensus size: 49
22620232 TAATCATAGG
* * * * * * * *
22620242 CTCAACTACTTTAAAAA-ATCATCTTGAAAAAGCTACTATAAGCAGAGG
1 CTCAACAACTTTAAAAATTTCATCTTGAAAAAGTTTCTCTCAGTAGAGA
* * *
22620290 CTTC-ATAACTTTAAAAA--T--TCTTGAAAATGTTCCTCTCAGTAGAGA
1 C-TCAACAACTTTAAAAATTTCATCTTGAAAAAGTTTCTCTCAGTAGAGA
* * * *
22620335 CTCAACAACTTTAAAAA-TTCATGTTGAAAAAG-CTCTTCTAAGTA-AAA
1 CTCAACAACTTTAAAAATTTCATCTTGAAAAAGTTTC-TCTCAGTAGAGA
* * *
22620382 GTTCAACAACTTT-AAAATTCTCATCTTGAAAAAG-CTCTTCTCAGTAGAGG
1 -CTCAACAACTTTAAAAATT-TCATCTTGAAAAAGTTTC-TCTCAGTAGAGA
* * * *
22620432 CTCAATAACTTT-AAAATTT-ATCTTAGAAAAA-CTCCTCTCAGTAGAGG
1 CTCAACAACTTTAAAAATTTCATCTT-GAAAAAGTTTCTCTCAGTAGAGA
** * * ** * * *
22620479 CTTCATGAATTTTAAAAA--T-A---T--AAATGGCTCACCTAAGCAGAGA
1 C-TCAACAACTTTAAAAATTTCATCTTGAAAAAGTTTC-TCTCAGTAGAGA
* * * * *
22620522 TTCAACAAC-TT-AAAATTTCATCTTGAAAGAGGTTCCTCTCAGCAGAGG
1 CTCAACAACTTTAAAAATTTCATCTTGAAA-AAGTTTCTCTCAGTAGAGA
* * * * *
22620570 CTCAACAA-TTTTAAAATTTCATCTTGAAAAAAGCTCCTCTAAGCAGAGA
1 CTCAACAACTTTAAAAATTTCATCTTG-AAAAAGTTTCTCTCAGTAGAGA
* *
22620619 CTCAACAACTTT-AAAATCTCATCTTGAAAAAGCTCTTCT-T-AGCAGAGA
1 CTCAACAACTTTAAAAATTTCATCTTGAAAAAG-T-TTCTCTCAGTAGAGA
** * *
22620667 CTCAACATTTTTAAAAA-TT--T-TT-AAAAA-TACTCCTCTCAGTAGAGG
1 CTCAACAACTTTAAAAATTTCATCTTGAAAAAGT--TTCTCTCAGTAGAGA
** * *
22620712 CTCAACAACTTTAAAAA-TTCATCTTGAAAAAACTTCTCTCAGTATAGG
1 CTCAACAACTTTAAAAATTTCATCTTGAAAAAGTTTCTCTCAGTAGAGA
* *
22620760 CTCAACAACTTT-AAAA-TTAATCTTGAAAAAG-CTCATCTCAGTAGAGA
1 CTCAACAACTTTAAAAATTTCATCTTGAAAAAGTTTC-TCTCAGTAGAGA
* *
22620807 CTCAACAA-TTTAAAAATTTTATCTTGAAAAAGTTTCTCTCAGTAGAGG
1 CTCAACAACTTTAAAAATTTCATCTTGAAAAAGTTTCTCTCAGTAGAGA
* *
22620855 CTCAATAATTTTAAAAA
1 CTCAACAACTTTAAAAA
22620872 AAATCATCTG
Statistics
Matches: 462, Mismatches: 75, Indels: 89
0.74 0.12 0.14
Matches are distributed among these distances:
40 4 0.01
41 5 0.01
42 8 0.02
43 13 0.03
44 9 0.02
45 58 0.13
46 8 0.02
47 68 0.15
48 160 0.35
49 119 0.26
50 10 0.02
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.31
Consensus pattern (49 bp):
CTCAACAACTTTAAAAATTTCATCTTGAAAAAGTTTCTCTCAGTAGAGA
Found at i:22635172 original size:34 final size:34
Alignment explanation
Indices: 22635129--22635193 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 34
22635119 CGAAAATGCA
*
22635129 TTTTCGATATAATGAAAAAGTTTTCGAAAATAAG
1 TTTTCGATATAATGAAAAAGTTTTCAAAAATAAG
* * *
22635163 TTTTTGATATATTGAAGAAGTTTTCAAAAAT
1 TTTTCGATATAATGAAAAAGTTTTCAAAAAT
22635194 TCATTTCTAG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.42, C:0.05, G:0.14, T:0.40
Consensus pattern (34 bp):
TTTTCGATATAATGAAAAAGTTTTCAAAAATAAG
Found at i:22635703 original size:2 final size:2
Alignment explanation
Indices: 22635696--22635729 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
22635686 ATGAATTTGC
22635696 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
22635730 TAGAGTTGCT
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):
AT
Found at i:22636778 original size:2 final size:2
Alignment explanation
Indices: 22636771--22636797 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
22636761 CTTTTATACG
22636771 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
22636798 GAAGAGAGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:22640090 original size:27 final size:28
Alignment explanation
Indices: 22640048--22640106 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 28
22640038 AATTTTTAAA
* * * *
22640048 TTAAAATAATTTATTATATTTAATA-AT
1 TTAAAATAAATAATTAAATATAATACAT
22640075 TTAAAATAAATAATTAAATATAATACAT
1 TTAAAATAAATAATTAAATATAATACAT
22640103 TTAA
1 TTAA
22640107 TATGATCTCC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
27 21 0.78
28 6 0.22
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (28 bp):
TTAAAATAAATAATTAAATATAATACAT
Found at i:22640556 original size:21 final size:22
Alignment explanation
Indices: 22640518--22640562 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
22640508 TAAATTTTTA
22640518 AAATTTAATATGAATTTAAATT
1 AAATTTAATATGAATTTAAATT
* *
22640540 AAATTTTATAT-AATTTAATTT
1 AAATTTAATATGAATTTAAATT
22640561 AA
1 AA
22640563 TTCAAACTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (22 bp):
AAATTTAATATGAATTTAAATT
Found at i:22645555 original size:20 final size:21
Alignment explanation
Indices: 22645514--22645556 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
22645504 CAAATTTTTT
**
22645514 ATTATTTTGAATATATTTATA
1 ATTATTTTGAATATATAAATA
22645535 ATTATTTT-AATATATAAATA
1 ATTATTTTGAATATATAAATA
22645555 AT
1 AT
22645557 AAATAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (21 bp):
ATTATTTTGAATATATAAATA
Found at i:22645585 original size:20 final size:21
Alignment explanation
Indices: 22645562--22645600 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
22645552 ATAATAAATA
*
22645562 AAAAATATTATA-AAAGTACT
1 AAAAATAATATATAAAGTACT
*
22645582 AAAATTAATATATAAAGTA
1 AAAAATAATATATAAAGTA
22645601 TTTCATATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.31
Consensus pattern (21 bp):
AAAAATAATATATAAAGTACT
Found at i:22648751 original size:17 final size:18
Alignment explanation
Indices: 22648731--22648770 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
22648721 AAATAAAAAT
*
22648731 ATAAAAAT-ATTTATAAA
1 ATAAAAATCATTTAGAAA
*
22648748 ATAAAAATCTTTTAGAAA
1 ATAAAAATCATTTAGAAA
22648766 ATAAA
1 ATAAA
22648771 TTTATTTATG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (18 bp):
ATAAAAATCATTTAGAAA
Found at i:22649739 original size:24 final size:26
Alignment explanation
Indices: 22649688--22649749 Score: 67
Period size: 24 Copynumber: 2.5 Consensus size: 26
22649678 CAAACTGTTT
* * *
22649688 TATAAATTCTAAAATTATTTT-TATA
1 TATAAATTTTAAAATTATTTTAAAAA
22649713 -ATAAATTTTAAAATT-TTATTAAAAA
1 TATAAATTTTAAAATTATT-TTAAAAA
22649738 TATAAATTTTAA
1 TATAAATTTTAA
22649750 TATGTGATCA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
23 2 0.06
24 16 0.52
25 2 0.06
26 11 0.35
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (26 bp):
TATAAATTTTAAAATTATTTTAAAAA
Found at i:22649765 original size:26 final size:26
Alignment explanation
Indices: 22649713--22649765 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
22649703 TATTTTTATA
* * *
22649713 ATAAATTTTAAAATTTTATTAAAAAT
1 ATAAATTTTAAAATGTGATCAAAAAT
* *
22649739 ATAAATTTTAATATGTGATCAATAAT
1 ATAAATTTTAAAATGTGATCAAAAAT
22649765 A
1 A
22649766 CCTAATTAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.43
Consensus pattern (26 bp):
ATAAATTTTAAAATGTGATCAAAAAT
Found at i:22651825 original size:2 final size:2
Alignment explanation
Indices: 22651818--22651854 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
22651808 ATCACACTAA
22651818 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
22651855 AACATCTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:22653283 original size:40 final size:42
Alignment explanation
Indices: 22653199--22653286 Score: 126
Period size: 40 Copynumber: 2.1 Consensus size: 42
22653189 ATCGTCTTAA
22653199 ATTTAATTTGATTTTATTTTTATAAAATTTAAATTCGATTTG
1 ATTTAATTTGATTTTATTTTTATAAAATTTAAATTCGATTTG
* * * *
22653241 ATTTAATTT-TTTTTATTTTT-TTATATTTGAATTCGATTTG
1 ATTTAATTTGATTTTATTTTTATAAAATTTAAATTCGATTTG
22653281 ATTTAA
1 ATTTAA
22653287 AATTAATAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
40 23 0.55
41 10 0.24
42 9 0.21
ACGTcount: A:0.30, C:0.02, G:0.07, T:0.61
Consensus pattern (42 bp):
ATTTAATTTGATTTTATTTTTATAAAATTTAAATTCGATTTG
Found at i:22658788 original size:15 final size:17
Alignment explanation
Indices: 22658764--22658797 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
22658754 AATACGTGAG
22658764 AATATAATATG-ACATA
1 AATATAATATGTACATA
22658780 AATAT-ATATGTACATA
1 AATATAATATGTACATA
22658796 AA
1 AA
22658798 AATTTAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.56, C:0.06, G:0.06, T:0.32
Consensus pattern (17 bp):
AATATAATATGTACATA
Found at i:22659952 original size:24 final size:23
Alignment explanation
Indices: 22659915--22659976 Score: 61
Period size: 24 Copynumber: 2.6 Consensus size: 23
22659905 TATTTATTTA
*
22659915 TTTTAACATCTAAAACTCTTAATT
1 TTTTAATAT-TAAAACTCTTAATT
* * * *
22659939 TTTTATATTTTAAAATTTTTTATT
1 TTTTA-ATATTAAAACTCTTAATT
22659963 TTTTAATATTAAAA
1 TTTTAATATTAAAA
22659977 ATCATGAAAC
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
23 8 0.26
24 21 0.68
25 2 0.06
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.56
Consensus pattern (23 bp):
TTTTAATATTAAAACTCTTAATT
Found at i:22659957 original size:17 final size:17
Alignment explanation
Indices: 22659935--22659968 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
22659925 TAAAACTCTT
22659935 AATTTTTTATATTTTAA
1 AATTTTTTATATTTTAA
*
22659952 AATTTTTTATTTTTTAA
1 AATTTTTTATATTTTAA
22659969 TATTAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
AATTTTTTATATTTTAA
Found at i:22660638 original size:4 final size:4
Alignment explanation
Indices: 22660629--22660669 Score: 82
Period size: 4 Copynumber: 10.2 Consensus size: 4
22660619 ATCCAATTTT
22660629 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA T
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA T
22660670 TATTAATAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.51
Consensus pattern (4 bp):
TGTA
Found at i:22661555 original size:2 final size:2
Alignment explanation
Indices: 22661548--22661573 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
22661538 GAGGCAAGTC
22661548 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
22661574 GCTGCATCTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:22663340 original size:211 final size:206
Alignment explanation
Indices: 22662955--22663366 Score: 454
Period size: 211 Copynumber: 2.0 Consensus size: 206
22662945 TGAACTTACA
* * * ** *
22662955 TGTCTTATTATACCATTAAAAATTACATGAATAATTTAAATTGTATATATTTTGAGAAAAATAAT
1 TGTCCTATTATACCATTAAAAATTACATAAATAATTTAAATTATATATATTTAAAAAAAAATAAT
* * * * *
22663020 TTTGATCAATAAATAAATTATACTAAATTAATTCTTACATAAATCAAATACAAGATAATATAATA
66 TTTGACCAATAAATAAACTATACTAAATTAATTCTAACACAAATCAAATACAAGATAAAATAATA
* * * * * * ** *
22663085 TTATTTAATCTAATATTAATCATAATATTATATTTTCCTATCCTATTATAATCTTATGCACTAAA
131 TTATTTAATATAATATTAATCATAATATTAAATTATACTATCCTATCATAATATTATAAACCAAA
22663150 CACATCTTATG
196 CACATCTTATG
* *
22663161 TGTCCTATTATACCCTTAAAAATTATATAAATAATTTAAATTATACTTATAAATTTAAAAAAAAA
1 TGTCCTATTATACCATTAAAAATTACATAAATAATTTAAATTATA--TAT--ATTT-AAAAAAAA
* * *
22663226 ATAATTTTGACCAATAAATAAACTAT-C-ATATCCTAATTCTAACACACATCAATTACAAGATAA
61 ATAATTTTGACCAATAAATAAACTATACTAAAT--TAATTCTAACACAAATCAAATACAAGATAA
* * * *
22663289 AATGATATTATTTAATATAATCA-TATTCATTATA-TAAACTTATATTATCCTATCATAATATTA
124 AATAATATTATTTAATATAAT-ATTAATCATAATATTAAA-TTATACTATCCTATCATAATATTA
22663352 TAAACCAAACACATC
187 TAAACCAAACACATC
22663367 ATATATATAT
Statistics
Matches: 168, Mismatches: 29, Indels: 13
0.80 0.14 0.06
Matches are distributed among these distances:
206 40 0.24
208 3 0.02
209 3 0.02
210 8 0.05
211 113 0.67
212 1 0.01
ACGTcount: A:0.46, C:0.12, G:0.03, T:0.39
Consensus pattern (206 bp):
TGTCCTATTATACCATTAAAAATTACATAAATAATTTAAATTATATATATTTAAAAAAAAATAAT
TTTGACCAATAAATAAACTATACTAAATTAATTCTAACACAAATCAAATACAAGATAAAATAATA
TTATTTAATATAATATTAATCATAATATTAAATTATACTATCCTATCATAATATTATAAACCAAA
CACATCTTATG
Found at i:22663634 original size:2 final size:2
Alignment explanation
Indices: 22663627--22663665 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
22663617 GAGGTGGAAC
22663627 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
22663666 TGTTAATAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:22664858 original size:34 final size:34
Alignment explanation
Indices: 22664815--22664933 Score: 93
Period size: 33 Copynumber: 3.6 Consensus size: 34
22664805 TAAAAAATTA
*
22664815 CTTTC-GAAAATGGATTTTCGAATAATTGTAATG
1 CTTTCTGAAAATGCATTTTCGAATAATTGTAATG
* * * *
22664848 CTTTCTGAAAAT-AAATTTCTATATAATTGCAATG
1 CTTTCTGAAAATGCATTTTCGA-ATAATTGTAATG
* * * *
22664882 C-TTATGGAAATCCA-TTTCTGAATAATTGTAATA
1 CTTTCTGAAAATGCATTTTC-GAATAATTGTAATG
* *
22664915 CTTTTTGGAAATGCATTTT
1 CTTTCTGAAAATGCATTTT
22664934 TAATATATTG
Statistics
Matches: 68, Mismatches: 12, Indels: 10
0.76 0.13 0.11
Matches are distributed among these distances:
33 34 0.50
34 31 0.46
35 3 0.04
ACGTcount: A:0.34, C:0.11, G:0.13, T:0.42
Consensus pattern (34 bp):
CTTTCTGAAAATGCATTTTCGAATAATTGTAATG
Found at i:22664907 original size:33 final size:34
Alignment explanation
Indices: 22664830--22664932 Score: 104
Period size: 33 Copynumber: 3.1 Consensus size: 34
22664820 GAAAATGGAT
* * *
22664830 TTTC-GAATAATTGTAATGCTTTCTGAAAATAAA
1 TTTCTGAATAATTGTAATGCTTTATGGAAATACA
* *
22664863 TTTCT-ATATAATTGCAATGC-TTATGGAAATCCA
1 TTTCTGA-ATAATTGTAATGCTTTATGGAAATACA
* * *
22664896 TTTCTGAATAATTGTAATACTTTTTGGAAATGCA
1 TTTCTGAATAATTGTAATGCTTTATGGAAATACA
22664930 TTT
1 TTT
22664933 TTAATATATT
Statistics
Matches: 57, Mismatches: 9, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
33 30 0.53
34 27 0.47
ACGTcount: A:0.34, C:0.11, G:0.13, T:0.43
Consensus pattern (34 bp):
TTTCTGAATAATTGTAATGCTTTATGGAAATACA
Found at i:22668295 original size:12 final size:12
Alignment explanation
Indices: 22668280--22668304 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
22668270 AAATTATTTT
22668280 TTTAATTAATTA
1 TTTAATTAATTA
22668292 TTTAATTAATTA
1 TTTAATTAATTA
22668304 T
1 T
22668305 ATTTTAAAAA
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TTTAATTAATTA
Found at i:22673804 original size:27 final size:24
Alignment explanation
Indices: 22673772--22673828 Score: 62
Period size: 23 Copynumber: 2.3 Consensus size: 24
22673762 ATTTTATATA
*
22673772 TATTTATATATTTAATAAATTATTTTT
1 TATTTATATA-AT-ATAAATT-TTTTT
22673799 TATTTA-ATAATATAAATTTTTTT
1 TATTTATATAATATAAATTTTTTT
*
22673822 AATTTAT
1 TATTTAT
22673829 TAGAATTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 10 0.37
24 7 0.26
25 1 0.04
26 3 0.11
27 6 0.22
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (24 bp):
TATTTATATAATATAAATTTTTTT
Found at i:22680068 original size:28 final size:28
Alignment explanation
Indices: 22679978--22680096 Score: 127
Period size: 27 Copynumber: 4.2 Consensus size: 28
22679968 CTAAATGAAG
* * *
22679978 ATTTAATTAAGTAAAATAAATATATAAAA
1 ATTTAATTAATTAAAATAAA-ATTTAAGA
22680007 ATTTAATTAA--AAAATAAATATTTAAGA
1 ATTTAATTAATTAAAATAAA-ATTTAAGA
*
22680034 ATTTAATTGATTGAAAATAAAATTTAA-A
1 ATTTAATTAATT-AAAATAAAATTTAAGA
* *
22680062 ATTTAATTAATTATAATAAAATATTATGA
1 ATTTAATTAATTAAAATAAAAT-TTAAGA
22680091 ATTTAA
1 ATTTAA
22680097 ATTATTATTA
Statistics
Matches: 79, Mismatches: 6, Indels: 10
0.83 0.06 0.11
Matches are distributed among these distances:
27 33 0.42
28 15 0.19
29 23 0.29
30 8 0.10
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.39
Consensus pattern (28 bp):
ATTTAATTAATTAAAATAAAATTTAAGA
Found at i:22681620 original size:28 final size:28
Alignment explanation
Indices: 22681569--22681648 Score: 99
Period size: 28 Copynumber: 2.8 Consensus size: 28
22681559 AATTATATAA
*
22681569 AAAATAAATATTTAAGAATTTAATTGATT
1 AAAATAAA-ATTTAAGAATTTAATTAATT
22681598 GAAAATAAAATTTAA-AATTTAATTAATT
1 -AAAATAAAATTTAAGAATTTAATTAATT
* *
22681626 ATAATAAAATATTATGAATTTAA
1 AAAATAAAAT-TTAAGAATTTAA
22681649 ATTATTATTA
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
27 9 0.20
28 15 0.33
29 13 0.29
30 8 0.18
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (28 bp):
AAAATAAAATTTAAGAATTTAATTAATT
Found at i:22682804 original size:2 final size:2
Alignment explanation
Indices: 22682799--22682833 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
22682789 AAAAAAAAAA
*
22682799 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
22682834 GCCAGCCAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:22692074 original size:18 final size:20
Alignment explanation
Indices: 22692038--22692076 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
22692028 TCAAATCAAA
*
22692038 TTATATATTTTTATTATTTT
1 TTATATATTTTTATAATTTT
22692058 TTATATA-TTTTA-AATTTT
1 TTATATATTTTTATAATTTT
22692076 T
1 T
22692077 ATAAAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
19 5 0.28
20 7 0.39
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (20 bp):
TTATATATTTTTATAATTTT
Found at i:22693743 original size:24 final size:23
Alignment explanation
Indices: 22693716--22693776 Score: 68
Period size: 24 Copynumber: 2.6 Consensus size: 23
22693706 ATGATAACAT
* *
22693716 AATATAAATATGATATGAAATTAA
1 AATATAAAAATAATATG-AATTAA
*
22693740 AATATAAAAATAATATGATTTAA
1 AATATAAAAATAATATGAATTAA
*
22693763 AATTATAATAATAA
1 AA-TATAAAAATAA
22693777 ATATATATAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
23 7 0.22
24 25 0.78
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (23 bp):
AATATAAAAATAATATGAATTAA
Found at i:22693784 original size:29 final size:28
Alignment explanation
Indices: 22693714--22693784 Score: 70
Period size: 29 Copynumber: 2.4 Consensus size: 28
22693704 ATATGATAAC
* *
22693714 ATAATATAAATATGATATGAAATTAAAAT
1 ATAA-ATATATATGATATAAAATTAAAAT
* * *
22693743 ATAAAAATAATATGATTTAAAATTATAAT
1 ATAAATAT-ATATGATATAAAATTAAAAT
22693772 AATAAATATATAT
1 -ATAAATATATAT
22693785 AAGTTTAACA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
28 2 0.06
29 25 0.74
30 7 0.21
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (28 bp):
ATAAATATATATGATATAAAATTAAAAT
Found at i:22695464 original size:23 final size:25
Alignment explanation
Indices: 22695438--22695496 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
22695428 ACTTGAATTG
*
22695438 TTTAAAAA-AT-ATATATTAAAATA
1 TTTAAAAATATAAAATATTAAAATA
*
22695461 TTTAAAAATATAAAATATTAAAATT
1 TTTAAAAATATAAAATATTAAAATA
*
22695486 TTTAAACATAT
1 TTTAAAAATAT
22695497 TTTAAAATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
23 8 0.26
24 2 0.06
25 21 0.68
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.41
Consensus pattern (25 bp):
TTTAAAAATATAAAATATTAAAATA
Found at i:22696519 original size:152 final size:152
Alignment explanation
Indices: 22696306--22696592 Score: 466
Period size: 152 Copynumber: 1.9 Consensus size: 152
22696296 TTTTCCTGGA
*
22696306 AATTTTGTGTTAGAAGTTAATCATCAAATTAAGCTGCAATACAGATAAATTTCACGCGAGAAAAT
1 AATTTTGTGTCAGAAGTTAATCATCAAATTAAGCTGCAATACAGATAAATTTCACGCGAGAAAAT
* * * * **
22696371 CAATGTTGGAATCTAATGTTTGTTTATTTTTCTCAATTTGTTAGTCCTTTTTGCTTGGAAGCACT
66 CAATGTTAGAATCTAAAGTTTGGTTACTTTTCTCAATTTACTAGTCCTTTTTGCTTGGAAGCACT
22696436 TAATTAGGCTGTAATAGACCTC
131 TAATTAGGCTGTAATAGACCTC
* * * **
22696458 AATTTTGTGTCAGAAGTTAATCATCAAATTATGCTGTAATAGAGATAAATTTCTTGCGAGAAAAT
1 AATTTTGTGTCAGAAGTTAATCATCAAATTAAGCTGCAATACAGATAAATTTCACGCGAGAAAAT
22696523 CAATGTTAGAATCTAAAGTTTGGTTACTTTTCTCAATTTACTAGTCCTTTTTGCTTGGAAGCACT
66 CAATGTTAGAATCTAAAGTTTGGTTACTTTTCTCAATTTACTAGTCCTTTTTGCTTGGAAGCACT
22696588 TAATT
131 TAATT
22696593 GTAGTTCATT
Statistics
Matches: 123, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
152 123 1.00
ACGTcount: A:0.31, C:0.13, G:0.16, T:0.39
Consensus pattern (152 bp):
AATTTTGTGTCAGAAGTTAATCATCAAATTAAGCTGCAATACAGATAAATTTCACGCGAGAAAAT
CAATGTTAGAATCTAAAGTTTGGTTACTTTTCTCAATTTACTAGTCCTTTTTGCTTGGAAGCACT
TAATTAGGCTGTAATAGACCTC
Found at i:22702931 original size:20 final size:21
Alignment explanation
Indices: 22702892--22702932 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
22702882 TATATATTAT
22702892 TTTAATATAAAATTTAATATA
1 TTTAATATAAAATTTAATATA
* *
22702913 TTTAA-ATAAATTTTGATATA
1 TTTAATATAAAATTTAATATA
22702933 AATACTATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (21 bp):
TTTAATATAAAATTTAATATA
Found at i:22703696 original size:19 final size:20
Alignment explanation
Indices: 22703668--22703712 Score: 74
Period size: 19 Copynumber: 2.3 Consensus size: 20
22703658 AATTATTATT
*
22703668 TAATATTATTTTTAATATAA
1 TAATAATATTTTTAATATAA
22703688 -AATAATATTTTTAATATAA
1 TAATAATATTTTTAATATAA
22703707 TAATAA
1 TAATAA
22703713 AATAATAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 18 0.78
20 5 0.22
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
TAATAATATTTTTAATATAA
Found at i:22710947 original size:3 final size:3
Alignment explanation
Indices: 22710939--22710968 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
22710929 TGGCCTTCCA
22710939 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
22710969 ATATAAGTGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:22711590 original size:40 final size:39
Alignment explanation
Indices: 22711546--22711623 Score: 95
Period size: 40 Copynumber: 2.0 Consensus size: 39
22711536 AAAATTAATT
22711546 TGATATAATAATATT-TATTTATAATATTTAAAATAATTTA
1 TGATATAATAATATTATATTTATAA-A-TTAAAATAATTTA
** * *
22711586 TGATATTTTAATTTTATATTTATAAATTAAACTAATTT
1 TGATATAATAATATTATATTTATAAATTAAAATAATTT
22711624 TTTATATATT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
39 11 0.33
40 13 0.39
41 9 0.27
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.53
Consensus pattern (39 bp):
TGATATAATAATATTATATTTATAAATTAAAATAATTTA
Found at i:22711965 original size:14 final size:13
Alignment explanation
Indices: 22711946--22711979 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
22711936 AATTAAATTA
22711946 TATACATATGTATC
1 TATACATATGTA-C
22711960 TATACATATGTAC
1 TATACATATGTAC
22711973 TA-ACATA
1 TATACATA
22711980 AGACCATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 5 0.25
13 3 0.15
14 12 0.60
ACGTcount: A:0.41, C:0.15, G:0.06, T:0.38
Consensus pattern (13 bp):
TATACATATGTAC
Found at i:22712600 original size:24 final size:24
Alignment explanation
Indices: 22712560--22712617 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 24
22712550 ATTTGATCTA
* *
22712560 AAATTAATAAAATATTATAT-TTT
1 AAATAAATAAAATATTATATAATT
22712583 AATATAAATATAAA-ATTATATAATT
1 AA-ATAAATA-AAATATTATATAATT
22712608 AAATAAATAA
1 AAATAAATAA
22712618 TTAAAAATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
23 3 0.10
24 20 0.67
25 7 0.23
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (24 bp):
AAATAAATAAAATATTATATAATT
Found at i:22712604 original size:26 final size:24
Alignment explanation
Indices: 22712566--22712616 Score: 59
Period size: 26 Copynumber: 2.0 Consensus size: 24
22712556 TCTAAAATTA
*
22712566 ATAAAATATTATATTTTAATATAAAT
1 ATAAAATATTATA-ATTAA-ATAAAT
22712592 ATAAAAT-TATATAATTAAATAAAT
1 ATAAAATAT-TATAATTAAATAAAT
22712616 A
1 A
22712617 ATTAAAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
24 7 0.30
25 5 0.22
26 11 0.48
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (24 bp):
ATAAAATATTATAATTAAATAAAT
Found at i:22712619 original size:20 final size:21
Alignment explanation
Indices: 22712582--22712620 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
22712572 TATTATATTT
22712582 TAATATAAATATAAAATTATA
1 TAATATAAATATAAAATTATA
22712603 TAAT-TAAATA-AATAATTA
1 TAATATAAATATAA-AATTA
22712621 AAAATAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 2 0.12
20 11 0.65
21 4 0.24
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
TAATATAAATATAAAATTATA
Found at i:22719128 original size:17 final size:17
Alignment explanation
Indices: 22719108--22719141 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
22719098 CAGCAGTAAC
*
22719108 AATAACTGTAATAACAG
1 AATAACTGTAACAACAG
22719125 AATAACTGTAACAACAG
1 AATAACTGTAACAACAG
22719142 GAAAGAGACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.53, C:0.15, G:0.12, T:0.21
Consensus pattern (17 bp):
AATAACTGTAACAACAG
Found at i:22723349 original size:17 final size:18
Alignment explanation
Indices: 22723320--22723364 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
22723310 ATTCGAAACT
22723320 AATA-AAATATTA-TTTA
1 AATATAAATATTATTTTA
*
22723336 AATATAAATTTTATTTTA
1 AATATAAATATTATTTTA
*
22723354 AATGTAAATAT
1 AATATAAATAT
22723365 AAAATTAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 4 0.17
17 7 0.29
18 13 0.54
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (18 bp):
AATATAAATATTATTTTA
Found at i:22723372 original size:18 final size:17
Alignment explanation
Indices: 22723358--22723391 Score: 52
Period size: 16 Copynumber: 2.0 Consensus size: 17
22723348 ATTTTAAATG
22723358 TAAATATA-AAATTAAA
1 TAAATATATAAATTAAA
22723374 TAAATATATAAATATAAA
1 TAAATATATAAAT-TAAA
22723392 ATTAAATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 4 0.25
18 4 0.25
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
TAAATATATAAATTAAA
Found at i:22726738 original size:3 final size:3
Alignment explanation
Indices: 22726730--22726780 Score: 70
Period size: 3 Copynumber: 17.7 Consensus size: 3
22726720 CTAATCAATA
* *
22726730 AAT AAT AAT AAT ATT AAC AAT AAT AAT AAT AAT AA- AAT AAT AA- AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
22726776 AAT AA
1 AAT AA
22726781 AAAATGAAAG
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
2 4 0.10
3 38 0.90
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:22726741 original size:22 final size:22
Alignment explanation
Indices: 22726706--22726780 Score: 75
Period size: 22 Copynumber: 3.5 Consensus size: 22
22726696 TAAAAAGTAT
** *
22726706 TAAATAATTCTAATCTAATCAA
1 TAAATAATAATAATATAATCAA
22726728 TAAATAATAATAATATTAA-CAA
1 TAAATAATAATAATA-TAATCAA
*
22726750 T-AATAATAATAATAAAAT-AA
1 TAAATAATAATAATATAATCAA
22726770 TAAAATAATAA
1 T-AAATAATAA
22726781 AAAATGAAAG
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
20 5 0.11
21 13 0.29
22 24 0.53
23 3 0.07
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (22 bp):
TAAATAATAATAATATAATCAA
Found at i:22727259 original size:20 final size:19
Alignment explanation
Indices: 22727236--22727275 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
22727226 CAAACTTGGC
22727236 TGAAAAAGTCATCGAAAAAT
1 TGAAAAA-TCATCGAAAAAT
* *
22727256 TGAAACATCGTCGAAAAAT
1 TGAAAAATCATCGAAAAAT
22727275 T
1 T
22727276 CAACTGAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.50, C:0.12, G:0.15, T:0.23
Consensus pattern (19 bp):
TGAAAAATCATCGAAAAAT
Found at i:22727692 original size:42 final size:40
Alignment explanation
Indices: 22727641--22727744 Score: 127
Period size: 42 Copynumber: 2.5 Consensus size: 40
22727631 ATCAAATAAA
*
22727641 AAAATATTAATAGATAATTAAAAGAAAATAATCAGATAAATC
1 AAAATATTAATAGATAAATAAAA-AAAATAAT-AGATAAATC
* * *
22727683 AAAATATTAACAGATAAATAAAAATAATAATAGATAAATT
1 AAAATATTAATAGATAAATAAAAAAAATAATAGATAAATC
*
22727723 ATAATATATAAATAGATAAATA
1 A-AA-ATATTAATAGATAAATA
22727745 TTAATAAATA
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
40 9 0.17
41 9 0.17
42 36 0.67
ACGTcount: A:0.63, C:0.03, G:0.06, T:0.28
Consensus pattern (40 bp):
AAAATATTAATAGATAAATAAAAAAAATAATAGATAAATC
Found at i:22727698 original size:20 final size:20
Alignment explanation
Indices: 22727618--22727744 Score: 85
Period size: 20 Copynumber: 6.0 Consensus size: 20
22727608 AAAAAAAGAA
*
22727618 AAAAATAATAA-AAATCAAAT
1 AAAAATAATAACAGAT-AAAT
* * *
22727638 AAAAAAATATTAATAGATAATT
1 --AAAAATAATAACAGATAAAT
*
22727660 AAAAGAAAATAATCAGATAAAT
1 AAAA-ATAATAA-CAGATAAAT
* *
22727682 CAAAATATTAACAGATAAAT
1 AAAAATAATAACAGATAAAT
*
22727702 AAAAATAATAATAGATAAAT
1 AAAAATAATAACAGATAAAT
* * *
22727722 TATAATATATAAATAGATAAAT
1 AAAAATA-AT-AACAGATAAAT
22727744 A
1 A
22727745 TTAATAAATA
Statistics
Matches: 84, Mismatches: 16, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
20 35 0.42
21 12 0.14
22 34 0.40
23 3 0.04
ACGTcount: A:0.66, C:0.03, G:0.05, T:0.26
Consensus pattern (20 bp):
AAAAATAATAACAGATAAAT
Found at i:22727726 original size:7 final size:8
Alignment explanation
Indices: 22727696--22727871 Score: 80
Period size: 8 Copynumber: 23.5 Consensus size: 8
22727686 ATATTAACAG
22727696 ATAAATA-
1 ATAAATAT
22727703 A-AAATA-
1 ATAAATAT
*
22727709 AT-AATAG
1 ATAAATAT
22727716 ATAAAT-T
1 ATAAATAT
22727723 AT-AATAT
1 ATAAATAT
*
22727730 ATAAATAG
1 ATAAATAT
22727738 ATAAATAT
1 ATAAATAT
*
22727746 -T-AATAA
1 ATAAATAT
*
22727752 ATACATAT
1 ATAAATAT
*
22727760 ATATA-AT
1 ATAAATAT
*
22727767 ATAAATAG
1 ATAAATAT
22727775 ATAAATA-
1 ATAAATAT
22727782 ATAAATAT
1 ATAAATAT
22727790 ATATAA-AT
1 ATA-AATAT
* *
22727798 ATTAACA-
1 ATAAATAT
*
22727805 AAAAATA-
1 ATAAATAT
22727812 AT-AATA-
1 ATAAATAT
22727818 ATAAATAT
1 ATAAATAT
*
22727826 ATATTAATAA
1 ATA--AATAT
22727836 ATAGTAATA-
1 ATA--AATAT
*
22727845 ATAAATAA
1 ATAAATAT
22727853 ATAAATA-
1 ATAAATAT
*
22727860 ATAAATAC
1 ATAAATAT
22727868 ATAA
1 ATAA
22727872 GATACAAAGG
Statistics
Matches: 136, Mismatches: 16, Indels: 33
0.74 0.09 0.18
Matches are distributed among these distances:
6 23 0.17
7 45 0.33
8 51 0.38
9 5 0.04
10 12 0.09
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (8 bp):
ATAAATAT
Found at i:22727744 original size:56 final size:50
Alignment explanation
Indices: 22727684--22727838 Score: 134
Period size: 59 Copynumber: 2.9 Consensus size: 50
22727674 AGATAAATCA
* *
22727684 AAATATTAACAGATAAATAAAAATAATAATAGATAAATTATAATATATAAATAGAT
1 AAATATTAACA-ATAAATAATAATAATAATAGATAAATAATAA-ATAT--AT--AT
*
22727740 AAATATTAATAAATACATATATATAAT-ATAAATAGATAAATAATAAATATATAT
1 AAATATTAA-CAATA-A-ATA-ATAATAAT-AATAGATAAATAATAAATATATAT
* * *
22727794 AAATATTAACAAAAAATAATAATAATAA-ATATATATTAATAAATA
1 AAATATTAACAATAAATAATAATAATAATAGATA-AATAATAAATA
22727839 GTAATAATAA
Statistics
Matches: 85, Mismatches: 7, Indels: 20
0.76 0.06 0.18
Matches are distributed among these distances:
49 4 0.05
50 17 0.20
51 5 0.06
52 1 0.01
53 3 0.04
54 11 0.13
56 14 0.16
57 2 0.02
58 9 0.11
59 19 0.22
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (50 bp):
AAATATTAACAATAAATAATAATAATAATAGATAAATAATAAATATATAT
Found at i:22727760 original size:30 final size:28
Alignment explanation
Indices: 22727723--22727871 Score: 110
Period size: 27 Copynumber: 5.2 Consensus size: 28
22727713 TAGATAAATT
*
22727723 ATAATATATAAATAGATAAATATTAATAA
1 ATAATA-ATAAATAAATAAATATTAATAA
* *
22727752 ATACAT-ATATATAATATAAATA--GATAA
1 ATA-ATAATAAATAA-ATAAATATTAATAA
* * *
22727779 ATAATAA-ATATATATAAATATTAACAA
1 ATAATAATAAATAAATAAATATTAATAA
* *
22727806 AAAATAATAATAATAAATATATATTAATAA
1 ATAATAAT-A-AATAAATAAATATTAATAA
* *
22727836 ATAGTAAT-AATAAATAAATAAATAATAA
1 ATAATAATAAATAAATAAAT-ATTAATAA
22727864 ATACATAA
1 ATA-ATAA
22727872 GATACAAAGG
Statistics
Matches: 94, Mismatches: 16, Indels: 20
0.72 0.12 0.15
Matches are distributed among these distances:
25 7 0.07
26 7 0.07
27 27 0.29
28 16 0.17
29 14 0.15
30 23 0.24
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (28 bp):
ATAATAATAAATAAATAAATATTAATAA
Found at i:22727848 original size:36 final size:34
Alignment explanation
Indices: 22727699--22727859 Score: 104
Period size: 33 Copynumber: 4.7 Consensus size: 34
22727689 TTAACAGATA
* *
22727699 AATAAAAATAATAATAGATAAAT-TATAAT-ATAT
1 AATAATAATAATAATA-ATAAATATATATTAATAT
* *
22727732 -A-AATAGATAAATATTAATAAATACATA-T-ATAT
1 AATAATA-AT-AATAATAATAAATATATATTAATAT
*
22727764 AAT-ATAAATAGATAAATAATAAATATATATAAATATT
1 AATAAT-AATA-AT-AATAATAAATATATATTAATA-T
* *
22727801 AACAAAAAATAATAATAATAAATATATATTAATA-
1 AA-TAATAATAATAATAATAAATATATATTAATAT
*
22727835 AATAGTAATAATAAATAAATAAATA
1 AATAATAATAAT-AAT-AATAAATA
22727860 ATAAATACAT
Statistics
Matches: 101, Mismatches: 12, Indels: 28
0.72 0.09 0.20
Matches are distributed among these distances:
31 3 0.03
32 15 0.15
33 23 0.23
34 19 0.19
35 8 0.08
36 23 0.23
37 5 0.05
38 4 0.04
39 1 0.01
ACGTcount: A:0.64, C:0.01, G:0.02, T:0.32
Consensus pattern (34 bp):
AATAATAATAATAATAATAAATATATATTAATAT
Found at i:22727907 original size:14 final size:14
Alignment explanation
Indices: 22727883--22727916 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
22727873 ATACAAAGGA
22727883 AAAAAATATAAAAT
1 AAAAAATATAAAAT
22727897 ATAAAAA-ATAAAAT
1 A-AAAAATATAAAAT
22727911 AAAAAA
1 AAAAAA
22727917 CAAAATGGGC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 5 0.26
14 9 0.47
15 5 0.26
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (14 bp):
AAAAAATATAAAAT
Found at i:22728188 original size:42 final size:42
Alignment explanation
Indices: 22728108--22728522 Score: 385
Period size: 42 Copynumber: 9.8 Consensus size: 42
22728098 TAAACAAAGA
* *
22728108 CTCAACAAC-TTTGAAAAATAAACTAAAGCTCATCTAATCAGAGG
1 CTCAACAACTTTTGAAAAGTAAA-T--GGCTCATCTAATCAGAGG
22728152 CTCAACAACTTTTGAAAAGTAAATGGCTCATCTAATCAGAGG
1 CTCAACAACTTTTGAAAAGTAAATGGCTCATCTAATCAGAGG
* * ** ** *
22728194 TTCAACAACTTTGGAAATAAACAAACAAAGCTCCTCTAATCAGAGG
1 CTCAACAACTTTTG--A-AAAGTAA-ATGGCTCATCTAATCAGAGG
* * *
22728240 CTCAACGACTTTTGAAAAGTAAATGGCTCCTTTAATCAGAGG
1 CTCAACAACTTTTGAAAAGTAAATGGCTCATCTAATCAGAGG
** *
22728282 CTCAATGAC-TTTGAAAA-TAAATAAAGCTCATCTAATCAGAGG
1 CTCAACAACTTTTGAAAAGTAAAT--GGCTCATCTAATCAGAGG
** * * *
22728324 CTCAATGATTTTTGAAAAGTAAATGGTTCCTCTAATCAGAGG
1 CTCAACAACTTTTGAAAAGTAAATGGCTCATCTAATCAGAGG
** * *
22728366 CTCAATGAC-TTTGAAAA-TAAATAAAGCTCCTCTAATCAGAGG
1 CTCAACAACTTTTGAAAAGTAAAT--GGCTCATCTAATCAGAGG
* ** *
22728408 TTCAATGATTTTTGAAAAGTAAATGGCTCATCTAATCAGAGG
1 CTCAACAACTTTTGAAAAGTAAATGGCTCATCTAATCAGAGG
* *
22728450 CTCAATAACTTTTAAAAAGTAAATGGCT-ATTCTAATCAGAGG
1 CTCAACAACTTTTGAAAAGTAAATGGCTCA-TCTAATCAGAGG
* *
22728492 CTCAACAAC-TTTGAAAAATAAATTGCTCATC
1 CTCAACAACTTTTGAAAAGTAAATGGCTCATC
22728523 GACAATCATG
Statistics
Matches: 316, Mismatches: 40, Indels: 33
0.81 0.10 0.08
Matches are distributed among these distances:
40 10 0.03
41 34 0.11
42 184 0.58
43 21 0.07
44 22 0.07
45 17 0.05
46 28 0.09
ACGTcount: A:0.40, C:0.18, G:0.15, T:0.28
Consensus pattern (42 bp):
CTCAACAACTTTTGAAAAGTAAATGGCTCATCTAATCAGAGG
Found at i:22728360 original size:84 final size:84
Alignment explanation
Indices: 22728108--22728522 Score: 505
Period size: 84 Copynumber: 4.9 Consensus size: 84
22728098 TAAACAAAGA
* *
22728108 CTCAACAACTTTGAAAAATAAACTAAAGCTCATCTAATCAGAGGCTCAACAACTTTTGAAAAGTA
1 CTCAATAACTTTG-AAAATAAA-TAAAGCTCATCTAATCAGAGGCTCAACGACTTTTGAAAAGTA
22728173 AATGGCTCATCTAATCAGAGG
64 AATGGCTCATCTAATCAGAGG
* * * * *
22728194 TTCAACAACTTTGGAAATAAACAAACAAAGCTCCTCTAATCAGAGGCTCAACGACTTTTGAAAAG
1 CTCAATAACTTT-G--A-AAATAAATAAAGCTCATCTAATCAGAGGCTCAACGACTTTTGAAAAG
* *
22728259 TAAATGGCTCCTTTAATCAGAGG
62 TAAATGGCTCATCTAATCAGAGG
* * *
22728282 CTCAATGACTTTGAAAATAAATAAAGCTCATCTAATCAGAGGCTCAATGATTTTTGAAAAGTAAA
1 CTCAATAACTTTGAAAATAAATAAAGCTCATCTAATCAGAGGCTCAACGACTTTTGAAAAGTAAA
* *
22728347 TGGTTCCTCTAATCAGAGG
66 TGGCTCATCTAATCAGAGG
* * * * *
22728366 CTCAATGACTTTGAAAATAAATAAAGCTCCTCTAATCAGAGGTTCAATGATTTTTGAAAAGTAAA
1 CTCAATAACTTTGAAAATAAATAAAGCTCATCTAATCAGAGGCTCAACGACTTTTGAAAAGTAAA
22728431 TGGCTCATCTAATCAGAGG
66 TGGCTCATCTAATCAGAGG
* * * *
22728450 CTCAATAACTTTTAAAAAGTAAAT--GGCT-ATTCTAATCAGAGGCTCAACAAC-TTTGAAAAAT
1 CTCAATAAC-TTTGAAAA-TAAATAAAGCTCA-TCTAATCAGAGGCTCAACGACTTTTGAAAAGT
*
22728511 AAATTGCTCATC
63 AAATGGCTCATC
22728523 GACAATCATG
Statistics
Matches: 292, Mismatches: 31, Indels: 15
0.86 0.09 0.04
Matches are distributed among these distances:
83 20 0.07
84 171 0.59
85 8 0.03
86 16 0.05
87 2 0.01
88 69 0.24
89 6 0.02
ACGTcount: A:0.40, C:0.18, G:0.15, T:0.28
Consensus pattern (84 bp):
CTCAATAACTTTGAAAATAAATAAAGCTCATCTAATCAGAGGCTCAACGACTTTTGAAAAGTAAA
TGGCTCATCTAATCAGAGG
Found at i:22728402 original size:126 final size:126
Alignment explanation
Indices: 22728092--22728514 Score: 476
Period size: 126 Copynumber: 3.3 Consensus size: 126
22728082 TTGATCAAAA
* * * * *
22728092 CTCCTCTAAACAAAGACTCAACAACTTTGAAAAATAAACTAAAGCTCATCTAATCAGAGGCTCAA
1 CTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAA-TAAAGCTCCTCTAATCAGAGGCTCAA
** * * * ** *
22728157 CAACTTTTGAAAAGTAAATGGCTCATCTAATCAGAGGTTCAACAACTTTGGAAATAAACAAACAA
65 TGAC-TTTGAAAAGTAAATGGCTCATCTAATCAGAGGCTCAATAACTTTTG--A-AAAGTAA-AT
*
22728222 AG
125 GG
* * *
22728224 CTCCTCTAATCAGAGGCTCAACGACTTTTGAAAAGTAAAT--GGCTCCTTTAATCAGAGGCTCAA
1 CTCCTCTAATCAGAGGCTCAACGAC-TTTGAAAAATAAATAAAGCTCCTCTAATCAGAGGCTCAA
* * *
22728287 TGACTTTGAAAA-TAAATAAAGCTCATCTAATCAGAGGCTCAATGATTTTTGAAAAGTAAATGG
65 TGACTTTGAAAAGTAAAT--GGCTCATCTAATCAGAGGCTCAATAACTTTTGAAAAGTAAATGG
* * *
22728350 TTCCTCTAATCAGAGGCTCAATGACTTTG-AAAATAAATAAAGCTCCTCTAATCAGAGGTTCAAT
1 CTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAATAAAGCTCCTCTAATCAGAGGCTCAAT
* *
22728414 GATTTTTGAAAAGTAAATGGCTCATCTAATCAGAGGCTCAATAACTTTTAAAAAGTAAATGG
66 GA-CTTTGAAAAGTAAATGGCTCATCTAATCAGAGGCTCAATAACTTTTGAAAAGTAAATGG
** *
22728476 CTATTCTAATCAGAGGCTCAACAACTTTGAAAAATAAAT
1 CTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAAT
22728515 TGCTCATCGA
Statistics
Matches: 247, Mismatches: 36, Indels: 21
0.81 0.12 0.07
Matches are distributed among these distances:
124 8 0.03
125 4 0.02
126 112 0.45
127 22 0.09
128 11 0.04
129 8 0.03
130 48 0.19
132 22 0.09
133 12 0.05
ACGTcount: A:0.40, C:0.18, G:0.15, T:0.27
Consensus pattern (126 bp):
CTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAATAAAGCTCCTCTAATCAGAGGCTCAAT
GACTTTGAAAAGTAAATGGCTCATCTAATCAGAGGCTCAATAACTTTTGAAAAGTAAATGG
Found at i:22729540 original size:29 final size:29
Alignment explanation
Indices: 22729507--22729565 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 29
22729497 CTTTGAGTCC
22729507 TCTTTTTTCATT-CATTTTTTTTTCATTTT
1 TCTTTTTT-ATTGCATTTTTTTTTCATTTT
*
22729536 TCTTTTTTTTTGCATTTTTTTTTCATTTT
1 TCTTTTTTATTGCATTTTTTTTTCATTTT
22729565 T
1 T
22729566 TTCATTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
28 2 0.07
29 26 0.93
ACGTcount: A:0.08, C:0.12, G:0.02, T:0.78
Consensus pattern (29 bp):
TCTTTTTTATTGCATTTTTTTTTCATTTT
Found at i:22729544 original size:9 final size:10
Alignment explanation
Indices: 22729517--22729586 Score: 67
Period size: 9 Copynumber: 7.2 Consensus size: 10
22729507 TCTTTTTTCA
22729517 TTCATTTTTTT
1 TTCA-TTTTTT
*
22729528 TTCATTTTTC
1 TTCATTTTTT
22729538 TT--TTTTTT
1 TTCATTTTTT
*
22729546 TGCATTTTTTT
1 TTCA-TTTTTT
22729557 TTCA-TTTTT
1 TTCATTTTTT
22729566 TTCA-TTTTT
1 TTCATTTTTT
*
22729575 TTAATTTTTT
1 TTCATTTTTT
22729585 TT
1 TT
22729587 ATTCAAGCAT
Statistics
Matches: 50, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
8 6 0.12
9 17 0.34
10 14 0.28
11 13 0.26
ACGTcount: A:0.10, C:0.09, G:0.01, T:0.80
Consensus pattern (10 bp):
TTCATTTTTT
Found at i:22729573 original size:29 final size:29
Alignment explanation
Indices: 22729519--22729586 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
22729509 TTTTTTCATT
*
22729519 CATTTTTTTTTCATTTTTCTTTTTTTTTG
1 CATTTTTTTTTCATTTTTCTTATTTTTTG
*
22729548 CATTTTTTTTTCATTTTT-TTCATTTTTTT
1 CATTTTTTTTTCATTTTTCTT-ATTTTTTG
*
22729577 AATTTTTTTT
1 CATTTTTTTT
22729587 ATTCAAGCAT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
28 2 0.06
29 33 0.94
ACGTcount: A:0.10, C:0.09, G:0.01, T:0.79
Consensus pattern (29 bp):
CATTTTTTTTTCATTTTTCTTATTTTTTG
Found at i:22729575 original size:11 final size:11
Alignment explanation
Indices: 22729517--22729576 Score: 62
Period size: 11 Copynumber: 6.0 Consensus size: 11
22729507 TCTTTTTTCA
22729517 TTCATTTTTTT
1 TTCATTTTTTT
22729528 TTCA----TTT
1 TTCATTTTTTT
22729535 TTC-TTTTTTT
1 TTCATTTTTTT
22729545 TTGCATTTTTTT
1 TT-CATTTTTTT
22729557 TTCA--TTTTT
1 TTCATTTTTTT
22729566 TTCATTTTTTT
1 TTCATTTTTTT
22729577 AATTTTTTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 16
0.72 0.00 0.28
Matches are distributed among these distances:
7 6 0.15
9 9 0.22
10 5 0.12
11 12 0.29
12 9 0.22
ACGTcount: A:0.08, C:0.10, G:0.02, T:0.80
Consensus pattern (11 bp):
TTCATTTTTTT
Found at i:22733528 original size:57 final size:59
Alignment explanation
Indices: 22733373--22733528 Score: 171
Period size: 57 Copynumber: 2.7 Consensus size: 59
22733363 TTTTGTACAG
**
22733373 GAAAAATTGATACTTTTAACTTTTC-CTC-AAAATATTTTTTAGAAATTTTAATTTCGAA
1 GAAAAATTGATACTTTTAACTTTTCTC-CAAAAATATTTTTTAGAAAACTTAATTTCGAA
* * * * **
22733431 -AAAAATTGATTCTTTCAATTTTTTCTCAAAAAATCA-TTTTT-GAAAACTT-ATTTTTAA
1 GAAAAATTGATACTTTTAA-CTTTTCTCCAAAAAT-ATTTTTTAGAAAACTTAATTTCGAA
22733488 GAAAAATTGATACTTTTAACTTTTCTCCAAAAATATTTTTT
1 GAAAAATTGATACTTTTAACTTTTCTCCAAAAATATTTTTT
22733529 TTTTAGTTTT
Statistics
Matches: 80, Mismatches: 12, Indels: 13
0.76 0.11 0.12
Matches are distributed among these distances:
56 1 0.01
57 40 0.50
58 27 0.34
59 11 0.14
60 1 0.01
ACGTcount: A:0.38, C:0.11, G:0.05, T:0.46
Consensus pattern (59 bp):
GAAAAATTGATACTTTTAACTTTTCTCCAAAAATATTTTTTAGAAAACTTAATTTCGAA
Found at i:22733529 original size:58 final size:60
Alignment explanation
Indices: 22733373--22733529 Score: 175
Period size: 58 Copynumber: 2.7 Consensus size: 60
22733363 TTTTGTACAG
* **
22733373 GAAAAATTGATACTTTTAACTTTTC-CTC-AAAATATTTTTTAGAAATTTTAATTTCGAA
1 GAAAAATTGATACTTTTAACTTTTCTCTCAAAAATATTTTTTTGAAAACTTAATTTCGAA
* * * * **
22733431 -AAAAATTGATTCTTTCAA-TTTTTTCTCAAAAA-ATCATTTTTGAAAACTT-ATTTTTAA
1 GAAAAATTGATACTTTTAACTTTTCTCTCAAAAATAT-TTTTTTGAAAACTTAATTTCGAA
22733488 GAAAAATTGATACTTTTAACTTTTCTC-CAAAAATATTTTTTT
1 GAAAAATTGATACTTTTAACTTTTCTCTCAAAAATATTTTTTT
22733530 TTTAGTTTTA
Statistics
Matches: 80, Mismatches: 13, Indels: 12
0.76 0.12 0.11
Matches are distributed among these distances:
56 4 0.05
57 27 0.34
58 41 0.51
59 8 0.10
ACGTcount: A:0.38, C:0.11, G:0.05, T:0.46
Consensus pattern (60 bp):
GAAAAATTGATACTTTTAACTTTTCTCTCAAAAATATTTTTTTGAAAACTTAATTTCGAA
Found at i:22733584 original size:6 final size:6
Alignment explanation
Indices: 22733552--22733611 Score: 54
Period size: 6 Copynumber: 10.5 Consensus size: 6
22733542 TAAAGAAAAT
** ** *
22733552 AAAT-A AAATAA AAATGG AAATGG AAATAA AAATAA AGA-AA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
22733598 AAAT-A AAATAA AAA
1 AAATAA AAATAA AAA
22733612 GTATTAAACA
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
5 13 0.28
6 33 0.72
ACGTcount: A:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:22733610 original size:17 final size:17
Alignment explanation
Indices: 22733547--22733611 Score: 64
Period size: 17 Copynumber: 3.9 Consensus size: 17
22733537 TTATTTAAAG
22733547 AAAAT-AAAT-AAAATA
1 AAAATAAAATAAAAATA
* **
22733562 AAAATGGAAATGGAAATA
1 AAAAT-AAAATAAAAATA
22733580 AAAATAAAGA-AAAAATA
1 AAAATAAA-ATAAAAATA
22733597 AAAATAAAATAAAAA
1 AAAATAAAATAAAAA
22733612 GTATTAAACA
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
15 5 0.12
16 1 0.02
17 24 0.59
18 11 0.27
ACGTcount: A:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (17 bp):
AAAATAAAATAAAAATA
Found at i:22733648 original size:3 final size:3
Alignment explanation
Indices: 22733640--22733701 Score: 81
Period size: 3 Copynumber: 20.7 Consensus size: 3
22733630 CTAATCAATA
* * *
22733640 AAT AAT AAT ATT AAT AAT AAT AAC AAT AAT AAT AAT AAT AAAT AAA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT
22733686 AAT AAT AA- AAT AAT AA
1 AAT AAT AAT AAT AAT AA
22733702 AAAATGAAAG
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
2 2 0.04
3 46 0.90
4 3 0.06
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:22734552 original size:42 final size:40
Alignment explanation
Indices: 22734500--22734645 Score: 136
Period size: 42 Copynumber: 3.5 Consensus size: 40
22734490 AATCAAATAA
*
22734500 AAAATATTAATAGATAATTAAAAGAAAATAATCAAATAAATC
1 AAAATATTAATAGATAAATAAAA-AAAATAAT-AAATAAATC
* * *
22734542 AAAATATTAATAGATAAATAAAAATAATAATAGATAAATT
1 AAAATATTAATAGATAAATAAAAAAAATAATAAATAAATC
* * *
22734582 ATAATATATAAATAGATAAATAATAAATATATATAAATATTAA-C
1 A-AA-ATATTAATAGATAAATAAAAAAAATA-ATAAATA--AATC
*
22734626 AAAATAATAATA-AT-AATAAA
1 AAAATATTAATAGATAAATAAA
22734646 TATATATTAA
Statistics
Matches: 86, Mismatches: 13, Indels: 12
0.77 0.12 0.11
Matches are distributed among these distances:
40 13 0.15
41 11 0.13
42 51 0.59
43 8 0.09
44 1 0.01
45 2 0.02
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.29
Consensus pattern (40 bp):
AAAATATTAATAGATAAATAAAAAAAATAATAAATAAATC
Found at i:22734567 original size:14 final size:15
Alignment explanation
Indices: 22734550--22734694 Score: 81
Period size: 14 Copynumber: 10.6 Consensus size: 15
22734540 TCAAAATATT
22734550 AATAGATAAATAA-A
1 AATAGATAAATAATA
22734564 AATA-AT-AATAGATA
1 AATAGATAAATA-ATA
*
22734578 AAT-TAT-AATATATA
1 AATAGATAAATA-ATA
22734592 AATAGATAAATAATA
1 AATAGATAAATAATA
22734607 AAT--AT--AT-ATA
1 AATAGATAAATAATA
* *
22734617 AATA-TTAACAAAAT-
1 AATAGATAA-ATAATA
22734631 AATA-AT-AATAATA
1 AATAGATAAATAATA
* *
22734644 AATATAT-ATTAATA
1 AATAGATAAATAATA
22734658 AATAG-T-AATAATA
1 AATAGATAAATAATA
*
22734671 AATAAATAAATAATA
1 AATAGATAAATAATA
*
22734686 AATACATAA
1 AATAGATAA
22734695 GATACAAAGA
Statistics
Matches: 106, Mismatches: 11, Indels: 27
0.74 0.08 0.19
Matches are distributed among these distances:
10 6 0.06
11 3 0.03
12 8 0.08
13 21 0.20
14 39 0.37
15 25 0.24
16 4 0.04
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.31
Consensus pattern (15 bp):
AATAGATAAATAATA
Found at i:22734585 original size:17 final size:15
Alignment explanation
Indices: 22734543--22734686 Score: 96
Period size: 17 Copynumber: 8.9 Consensus size: 15
22734533 AAATAAATCA
22734543 AAATATTAATAGATAAAT
1 AAATA-TAATA-AT-AAT
*
22734561 AAAAATAATAATAGAT
1 AAATATAATAATA-AT
22734577 AAATTATAATATATAAAT
1 AAA-TATAATA-AT-AAT
*
22734595 AGATA-AATAATAAAT
1 AAATATAATAAT-AAT
* * *
22734610 ATATATAAATATTAACA
1 AAATAT-AATAATAA-T
22734627 AAATAATAATAATAAT
1 AAAT-ATAATAATAAT
*
22734643 AAATAT-ATATTAAT
1 AAATATAATAATAAT
22734657 AAATAGTAATAATAAAT
1 AAATA-TAATAAT-AAT
22734674 AAATA-AATAATAA
1 AAATATAATAATAA
22734687 ATACATAAGA
Statistics
Matches: 104, Mismatches: 11, Indels: 26
0.74 0.08 0.18
Matches are distributed among these distances:
14 14 0.13
15 20 0.19
16 21 0.20
17 36 0.35
18 12 0.12
19 1 0.01
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.32
Consensus pattern (15 bp):
AAATATAATAATAAT
Found at i:22734610 original size:4 final size:4
Alignment explanation
Indices: 22734550--22734728 Score: 60
Period size: 4 Copynumber: 44.5 Consensus size: 4
22734540 TCAAAATATT
* * * * *
22734550 AATA GATA AATA AAAA TAAT- AATA GATA AATTA TAATA TATA AATA GATA
1 AATA AATA AATA AATA -AATA AATA AATA AA-TA -AATA AATA AATA AATA
*
22734600 AAT- AATA AATA TATATA AAT- ATTA ACA-A AAT- AAT- AAT- AAT- AATA
1 AATA AATA AATA -A-ATA AATA AATA A-ATA AATA AATA AATA AATA AATA
*
22734644 AATA TATATT AATA AATA GTAAT- AATA AATA AATA AAT- AATA AATA
1 AATA -A-ATA AATA AATA --AATA AATA AATA AATA AATA AATA AATA
* *
22734690 CATA AGATA CAA-A GAA-A AAAA AATA AA-A AATAA AATA AA
1 AATA A-ATA -AATA -AATA AATA AATA AATA AAT-A AATA AA
22734729 CTTACTCATT
Statistics
Matches: 135, Mismatches: 18, Indels: 44
0.69 0.09 0.22
Matches are distributed among these distances:
3 32 0.24
4 74 0.55
5 18 0.13
6 11 0.08
ACGTcount: A:0.68, C:0.02, G:0.03, T:0.27
Consensus pattern (4 bp):
AATA
Found at i:22734638 original size:31 final size:32
Alignment explanation
Indices: 22734591--22734682 Score: 100
Period size: 31 Copynumber: 2.8 Consensus size: 32
22734581 TATAATATAT
22734591 AAATAGATAAATAATAAATATATATAAATATTAAC
1 AAATAG-T-AATAATAAATATA-ATAAATATTAAC
* * *
22734626 AAAATAATAATAAT-AATA-AATATATATTAAT
1 -AAATAGTAATAATAAATATAATAAATATTAAC
22734657 AAATAGTAATAATAAATA-AATAAATA
1 AAATAGTAATAATAAATATAATAAATA
22734683 ATAAATACAT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
30 12 0.24
31 21 0.42
32 1 0.02
33 4 0.08
34 6 0.12
35 1 0.02
36 5 0.10
ACGTcount: A:0.65, C:0.01, G:0.02, T:0.32
Consensus pattern (32 bp):
AAATAGTAATAATAAATATAATAAATATTAAC
Found at i:22736518 original size:14 final size:15
Alignment explanation
Indices: 22736499--22736528 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
22736489 ATTTTTTGTA
22736499 TAATTATA-ATATTT
1 TAATTATATATATTT
22736513 TAATTATATATATTT
1 TAATTATATATATTT
22736528 T
1 T
22736529 TAGACCGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TAATTATATATATTT
Found at i:22749778 original size:18 final size:19
Alignment explanation
Indices: 22749743--22749780 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
22749733 TTATTGCTGG
22749743 ATGCTTAAATTCTAATTGT
1 ATGCTTAAATTCTAATTGT
22749762 ATGC-TAAA-TCTACATTGT
1 ATGCTTAAATTCTA-ATTGT
22749780 A
1 A
22749781 GGAGGAAGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 4 0.22
18 10 0.56
19 4 0.22
ACGTcount: A:0.34, C:0.13, G:0.11, T:0.42
Consensus pattern (19 bp):
ATGCTTAAATTCTAATTGT
Found at i:22759222 original size:58 final size:58
Alignment explanation
Indices: 22759152--22759267 Score: 205
Period size: 58 Copynumber: 2.0 Consensus size: 58
22759142 AAACAGATAA
* * *
22759152 ACAAATTTCTTACGTCTTCAGCTAGTTTAGTCAAATTGGTTCCATATTCCTCGAGTGT
1 ACAAATTTCTTACCTCTTCAGCTAGCTTAGTCAAATTGGTTCCATATTCCTCAAGTGT
22759210 ACAAATTTCTTACCTCTTCAGCTAGCTTAGTCAAATTGGTTCCATATTCCTCAAGTGT
1 ACAAATTTCTTACCTCTTCAGCTAGCTTAGTCAAATTGGTTCCATATTCCTCAAGTGT
22759268 TGGCATCTTT
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 55 1.00
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (58 bp):
ACAAATTTCTTACCTCTTCAGCTAGCTTAGTCAAATTGGTTCCATATTCCTCAAGTGT
Found at i:22761422 original size:102 final size:103
Alignment explanation
Indices: 22761311--22761514 Score: 365
Period size: 102 Copynumber: 2.0 Consensus size: 103
22761301 AAGAGAATCA
22761311 ATTAAGACCCACCACAATCAAACCAAAACCCTAAATCAGACAAAAGATGAAAACCCCAACTTCTA
1 ATTAAGACCCACCACAATCAAACCAAAACCCTAAATCAGACAAAAGATGAAAACCCCAACTTCTA
*
22761376 AAAA-CCCAGAACCGCATAAAGGCATAAGAAAGTATCG
66 AAAAGCCCAGAAACGCATAAAGGCATAAGAAAGTATCG
* * *
22761413 ATTAAGACCCACCCCAATCAAACCAAAACCCTAAATCAGACGAAAGATGAAAACCCTAACTTCTA
1 ATTAAGACCCACCACAATCAAACCAAAACCCTAAATCAGACAAAAGATGAAAACCCCAACTTCTA
22761478 AAAAGCCCAGAAACGCATAAAGGCATAAGAAAGTATC
66 AAAAGCCCAGAAACGCATAAAGGCATAAGAAAGTATC
22761515 AAATTAAAGC
Statistics
Matches: 97, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
102 66 0.68
103 31 0.32
ACGTcount: A:0.49, C:0.27, G:0.11, T:0.13
Consensus pattern (103 bp):
ATTAAGACCCACCACAATCAAACCAAAACCCTAAATCAGACAAAAGATGAAAACCCCAACTTCTA
AAAAGCCCAGAAACGCATAAAGGCATAAGAAAGTATCG
Found at i:22762146 original size:21 final size:22
Alignment explanation
Indices: 22762107--22762152 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
22762097 AAATTAAAAT
* *
22762107 TTTAATAATTATTATAAATAAA
1 TTTAATAATAATTAAAAATAAA
*
22762129 TTTAATAA-AATTAAAAATATA
1 TTTAATAATAATTAAAAATAAA
22762150 TTT
1 TTT
22762153 TATATTTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
TTTAATAATAATTAAAAATAAA
Found at i:22762154 original size:22 final size:22
Alignment explanation
Indices: 22762104--22762154 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
22762094 TATAAATTAA
* *
22762104 AATTTTAATAATTATTATAAAT
1 AATTTTAATAATAATTAAAAAT
*
22762126 AAATTTAATAA-AATTAAAAAT
1 AATTTTAATAATAATTAAAAAT
22762147 ATATTTTA
1 A-ATTTTA
22762155 TATTTTTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 9 0.38
22 15 0.62
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
AATTTTAATAATAATTAAAAAT
Found at i:22762213 original size:18 final size:18
Alignment explanation
Indices: 22762179--22762214 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
22762169 TATAAATTAT
* *
22762179 AAAATATAATTTTTATAA
1 AAAATATAATATATATAA
22762197 AAAATATAATATATATAA
1 AAAATATAATATATATAA
22762215 TTTTTAATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
AAAATATAATATATATAA
Found at i:22762919 original size:23 final size:24
Alignment explanation
Indices: 22762893--22762952 Score: 65
Period size: 23 Copynumber: 2.6 Consensus size: 24
22762883 GTAAATTTAA
22762893 ATTTTAGTAAATATAAT-TTTTTT
1 ATTTTAGTAAATATAATCTTTTTT
*
22762916 ATTTT--TAAATTACAATCTTTTTT
1 ATTTTAGTAAA-TATAATCTTTTTT
*
22762939 ATATTAG-AAATATA
1 ATTTTAGTAAATATA
22762953 TAGATAAACA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 4 0.13
22 5 0.17
23 18 0.60
24 3 0.10
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.55
Consensus pattern (24 bp):
ATTTTAGTAAATATAATCTTTTTT
Found at i:22763263 original size:22 final size:24
Alignment explanation
Indices: 22763219--22763275 Score: 66
Period size: 22 Copynumber: 2.5 Consensus size: 24
22763209 TTGAAATTTT
**
22763219 AATTTTTATATATTATTTTAATAA
1 AATTTTTATATATTATTAAAATAA
22763243 AATTTTTA-ATA-TATTAAAAT-A
1 AATTTTTATATATTATTAAAATAA
*
22763264 AATTTATATATA
1 AATTTTTATATA
22763276 AAATAATTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 8 0.28
22 10 0.34
23 3 0.10
24 8 0.28
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (24 bp):
AATTTTTATATATTATTAAAATAA
Found at i:22777283 original size:17 final size:16
Alignment explanation
Indices: 22777261--22777303 Score: 61
Period size: 15 Copynumber: 2.7 Consensus size: 16
22777251 TTTTTATTTT
22777261 TATATATAAGTTAATTA
1 TATATATAA-TTAATTA
*
22777278 TATATA-AATTAATTT
1 TATATATAATTAATTA
22777293 TATATATAATT
1 TATATATAATT
22777304 TTAAAATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 12 0.50
16 6 0.25
17 6 0.25
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
TATATATAATTAATTA
Found at i:22777370 original size:25 final size:26
Alignment explanation
Indices: 22777342--22777442 Score: 100
Period size: 26 Copynumber: 3.8 Consensus size: 26
22777332 AAACTTAAAC
22777342 TTAAGTTTTT-TATATAAATTTT-ATT
1 TTAA-TTTTTATATATAAATTTTAATT
*
22777367 TTAATTTTTATATATAATTTTTAATT
1 TTAATTTTTATATATAAATTTTAATT
*
22777393 TTAATTTTTATATATTTAA-TTTAATTT
1 TTAATTTTTATATA-TAAATTTTAA-TT
*
22777420 AATTATTTTTTATTATATAAATT
1 --TTAATTTTTA-TATATAAATT
22777443 AAATTTAATG
Statistics
Matches: 63, Mismatches: 5, Indels: 11
0.80 0.06 0.14
Matches are distributed among these distances:
24 5 0.08
25 15 0.24
26 22 0.35
27 4 0.06
29 12 0.19
30 5 0.08
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.64
Consensus pattern (26 bp):
TTAATTTTTATATATAAATTTTAATT
Found at i:22777386 original size:13 final size:13
Alignment explanation
Indices: 22777347--22777407 Score: 65
Period size: 13 Copynumber: 4.8 Consensus size: 13
22777337 TAAACTTAAG
22777347 TTTTT-TATATAA
1 TTTTTATATATAA
* *
22777359 ATTTTAT-TTTAA
1 TTTTTATATATAA
22777371 TTTTTATATATAA
1 TTTTTATATATAA
*
22777384 TTTTTA-ATTTTAA
1 TTTTTATA-TATAA
22777397 TTTTTATATAT
1 TTTTTATATAT
22777408 TTAATTTAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
12 15 0.38
13 23 0.59
14 1 0.03
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
TTTTTATATATAA
Found at i:22777396 original size:6 final size:6
Alignment explanation
Indices: 22777358--22777490 Score: 64
Period size: 6 Copynumber: 21.7 Consensus size: 6
22777348 TTTTTATATA
* *
22777358 AATTTT -ATTTT AATTTT TATATAT AATTTTT AATTTT AATTTTT ATATATTT
1 AATTTT AATTTT AATTTT AAT-TTT AA-TTTT AATTTT AA-TTTT A-AT-TTT
* * * *
22777410 AA-TTT AA-TTT AATTATT --TTTT -ATTATAT AA-ATT AAATTT AATGAATA
1 AATTTT AATTTT AATT-TT AATTTT AATT-T-T AATTTT AATTTT AAT--TTT
*
22777457 AATTTT AATTTT AATTTT AATTTT AATTTA AATT
1 AATTTT AATTTT AATTTT AATTTT AATTTT AATT
22777491 GAAATTAAAA
Statistics
Matches: 100, Mismatches: 12, Indels: 30
0.70 0.08 0.21
Matches are distributed among these distances:
4 2 0.02
5 22 0.22
6 48 0.48
7 17 0.17
8 11 0.11
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (6 bp):
AATTTT
Found at i:22777427 original size:13 final size:12
Alignment explanation
Indices: 22777360--22777423 Score: 51
Period size: 13 Copynumber: 5.1 Consensus size: 12
22777350 TTTATATAAA
*
22777360 TTTTATTTTAAT
1 TTTTAATTTAAT
*
22777372 TTTTATATATAAT
1 TTTTA-ATTTAAT
22777385 TTTTAATTTTAATT
1 TTTTAA-TTTAA-T
22777399 TTTATATATTTAA-
1 TTT-TA-ATTTAAT
22777412 -TTTAATTTAAT
1 TTTTAATTTAAT
22777423 T
1 T
22777424 ATTTTTTATT
Statistics
Matches: 42, Mismatches: 3, Indels: 14
0.71 0.05 0.24
Matches are distributed among these distances:
10 6 0.14
11 2 0.05
12 8 0.19
13 14 0.33
14 4 0.10
15 7 0.17
16 1 0.02
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
TTTTAATTTAAT
Found at i:22777496 original size:18 final size:18
Alignment explanation
Indices: 22777456--22777496 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
22777446 TTTAATGAAT
* *
22777456 AAATTTTAATTTTAATTT
1 AAATTTTAATTTAAATTG
*
22777474 TAATTTTAATTTAAATTG
1 AAATTTTAATTTAAATTG
22777492 AAATT
1 AAATT
22777497 AAAAATTTTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (18 bp):
AAATTTTAATTTAAATTG
Found at i:22777518 original size:8 final size:9
Alignment explanation
Indices: 22777495--22777535 Score: 82
Period size: 9 Copynumber: 4.6 Consensus size: 9
22777485 TAAATTGAAA
22777495 TTAAAAATT
1 TTAAAAATT
22777504 TTAAAAATT
1 TTAAAAATT
22777513 TTAAAAATT
1 TTAAAAATT
22777522 TTAAAAATT
1 TTAAAAATT
22777531 TTAAA
1 TTAAA
22777536 TTTTTAATCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (9 bp):
TTAAAAATT
Found at i:22779062 original size:20 final size:21
Alignment explanation
Indices: 22779039--22779083 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
22779029 AAATAAAAAT
22779039 TAAAAAAAAATTATAATTT-C
1 TAAAAAAAAATTATAATTTAC
** *
22779059 TAAAACCAAATTTTAATTTAC
1 TAAAAAAAAATTATAATTTAC
22779080 TAAA
1 TAAA
22779084 GTAAAACAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.56, C:0.09, G:0.00, T:0.36
Consensus pattern (21 bp):
TAAAAAAAAATTATAATTTAC
Found at i:22780873 original size:17 final size:17
Alignment explanation
Indices: 22780843--22780880 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
22780833 AATTTTATTT
*
22780843 TATA-AAATTTAAAATA
1 TATATAAATTAAAAATA
22780859 TATATAAATTAAAAATA
1 TATATAAATTAAAAATA
22780876 TATAT
1 TATAT
22780881 TCAATTCAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 4 0.20
17 16 0.80
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
TATATAAATTAAAAATA
Found at i:22784012 original size:20 final size:20
Alignment explanation
Indices: 22783989--22784069 Score: 58
Period size: 20 Copynumber: 4.0 Consensus size: 20
22783979 AATAAAATTT
22783989 TTATTAAATAATTTAAAATA
1 TTATTAAATAATTTAAAATA
* *
22784009 TTATTTAA-AATTAATAAATA
1 TTATTAAATAATTTA-AAATA
* * * *
22784029 TTAATATATATTTATAAAAAA
1 TTATTAAATAATT-TAAAATA
*
22784050 TTATTTAAAT-ATATAAAATA
1 TTA-TTAAATAATTTAAAATA
22784070 AAAAATATTT
Statistics
Matches: 44, Mismatches: 13, Indels: 8
0.68 0.20 0.12
Matches are distributed among these distances:
19 5 0.11
20 23 0.52
21 11 0.25
22 5 0.11
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
TTATTAAATAATTTAAAATA
Found at i:22784061 original size:24 final size:25
Alignment explanation
Indices: 22784005--22784080 Score: 68
Period size: 25 Copynumber: 3.0 Consensus size: 25
22783995 AATAATTTAA
* *
22784005 AATATTATTTAAAATTAATAAATA-TT
1 AATA-TATATAAAA-TAAAAAATATTT
**
22784031 AATATATAT-TTATAAAAAATTATTT
1 AATATATATAAAATAAAAAA-TATTT
22784056 AA-ATATATAAAATAAAAAATATTT
1 AATATATATAAAATAAAAAATATTT
22784080 A
1 A
22784081 CGAGAATAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
23 6 0.15
24 15 0.37
25 16 0.39
26 4 0.10
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (25 bp):
AATATATATAAAATAAAAAATATTT
Found at i:22787268 original size:24 final size:25
Alignment explanation
Indices: 22787231--22787294 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 25
22787221 GATATTATAT
*
22787231 AAATATAATTTAAAAATAAAAT-ACA
1 AAAT-TAATATAAAAATAAAATAACA
*
22787256 AAATTAATAT-AAAATAAAATAATA
1 AAATTAATATAAAAATAAAATAACA
22787280 ATAATTATATATAAA
1 A-AATTA-ATATAAA
22787295 TTTAAAAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
23 10 0.30
24 8 0.24
25 9 0.27
26 4 0.12
27 2 0.06
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (25 bp):
AAATTAATATAAAAATAAAATAACA
Found at i:22788011 original size:23 final size:23
Alignment explanation
Indices: 22787985--22788028 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
22787975 CTCAATTGAA
*
22787985 ATTTATGAATTTATTAAATTTTT
1 ATTTATAAATTTATTAAATTTTT
* *
22788008 ATTTATAAATTTTTTGAATTT
1 ATTTATAAATTTATTAAATTT
22788029 ACAGATATTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (23 bp):
ATTTATAAATTTATTAAATTTTT
Found at i:22788022 original size:15 final size:15
Alignment explanation
Indices: 22787993--22788021 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
22787983 AAATTTATGA
22787993 ATTTATTAAATTTTT
1 ATTTATTAAATTTTT
22788008 ATTTA-TAAATTTTT
1 ATTTATTAAATTTTT
22788022 TGAATTTACA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
ATTTATTAAATTTTT
Found at i:22792447 original size:35 final size:35
Alignment explanation
Indices: 22792401--22792472 Score: 126
Period size: 35 Copynumber: 2.1 Consensus size: 35
22792391 ATCTACTGCT
22792401 AAATATTTAAGCATTTCCAAAACTGACAGCCACAA
1 AAATATTTAAGCATTTCCAAAACTGACAGCCACAA
* *
22792436 AAATATTTAAGCATTTCCAAAATTGATAGCCACAA
1 AAATATTTAAGCATTTCCAAAACTGACAGCCACAA
22792471 AA
1 AA
22792473 CATTTGCAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.47, C:0.19, G:0.08, T:0.25
Consensus pattern (35 bp):
AAATATTTAAGCATTTCCAAAACTGACAGCCACAA
Found at i:22800892 original size:6 final size:6
Alignment explanation
Indices: 22800874--22800904 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
22800864 TTATGAATGT
22800874 TTTAAA TTT-AA TTTAAA TTTAAA TTTAAA TT
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TT
22800905 AATAATTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.21
6 19 0.79
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (6 bp):
TTTAAA
Found at i:22800894 original size:17 final size:17
Alignment explanation
Indices: 22800874--22800906 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
22800864 TTATGAATGT
*
22800874 TTTAAATTTAATTTAAA
1 TTTAAATTTAAATTAAA
22800891 TTTAAATTTAAATTAA
1 TTTAAATTTAAATTAA
22800907 TAATTTTTTA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TTTAAATTTAAATTAAA
Found at i:22801068 original size:35 final size:35
Alignment explanation
Indices: 22801018--22801086 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 35
22801008 TAATTTTTAA
*
22801018 TTTATTTAAATAAA-TTT-AAATATAAAATAATTAT
1 TTTATTTAAAAAAATTTTAAAATATAAAA-AATTAT
*
22801052 TTTATTTTAAAAAAATTTTAAAATATATAAAATTA
1 TTTA-TTTAAAAAAATTTTAAAATATAAAAAATTA
22801087 AAAAATTATA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
34 4 0.13
35 9 0.30
36 8 0.27
37 9 0.30
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (35 bp):
TTTATTTAAAAAAATTTTAAAATATAAAAAATTAT
Done.