Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 63 of 318
Found at i:22488422 original size:19 final size:19
Alignment explanation
Indices: 22488398--22488434 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
22488388 TATAAATAGT
*
22488398 AATGATGTTAGAAATATAC
1 AATGATATTAGAAATATAC
22488417 AATGATATTAGAAATATA
1 AATGATATTAGAAATATA
22488435 TATAAAATAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.51, C:0.03, G:0.14, T:0.32
Consensus pattern (19 bp):
AATGATATTAGAAATATAC
Found at i:22488532 original size:24 final size:24
Alignment explanation
Indices: 22488477--22488546 Score: 61
Period size: 24 Copynumber: 2.8 Consensus size: 24
22488467 ATGTTAAAAT
22488477 ATATACACAATAATATATATAACATACA
1 ATATACA-AA-AA-ATATAT-ACATACA
** *
22488505 ATATTGAAAACATATATACATA-A
1 ATATACAAAAAATATATACATACA
22488528 TATATACAAAAAATATATA
1 -ATATACAAAAAATATATA
22488547 GATATACATA
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
23 1 0.03
24 20 0.57
25 6 0.17
26 1 0.03
27 2 0.06
28 5 0.14
ACGTcount: A:0.59, C:0.10, G:0.01, T:0.30
Consensus pattern (24 bp):
ATATACAAAAAATATATACATACA
Found at i:22488571 original size:30 final size:30
Alignment explanation
Indices: 22488518--22488592 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 30
22488508 TTGAAAACAT
*
22488518 ATATACATAATATATACAAAAAATATATAG
1 ATATACATAATATATACAAAAAATATATAC
** *
22488548 ATATACATAATATAATA-TTAAAATATTTAC
1 ATATACATAATAT-ATACAAAAAATATATAC
22488578 ATAATACATAA-ATAT
1 AT-ATACATAATATAT
22488593 TAGGGATAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
29 2 0.05
30 26 0.67
31 11 0.28
ACGTcount: A:0.57, C:0.07, G:0.01, T:0.35
Consensus pattern (30 bp):
ATATACATAATATATACAAAAAATATATAC
Found at i:22488656 original size:23 final size:22
Alignment explanation
Indices: 22488630--22488672 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
22488620 CTAGATAAGT
22488630 ATATACATAAATATATTAAAAAC
1 ATATACATAAATATA-TAAAAAC
*
22488653 ATATACATATATATATAAAA
1 ATATACATAAATATATAAAA
22488673 TAAAAAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (22 bp):
ATATACATAAATATATAAAAAC
Found at i:22488686 original size:28 final size:31
Alignment explanation
Indices: 22488629--22488697 Score: 83
Period size: 28 Copynumber: 2.3 Consensus size: 31
22488619 GCTAGATAAG
*
22488629 TATATACATAAATATATTAAAAACATATACA-
1 TATATATATAAATATA-TAAAAACATATACAC
*
22488660 TATATATATAAA-ATA-AAAAATATATACAC
1 TATATATATAAATATATAAAAACATATACAC
22488689 TA-ATATATA
1 TATATATATA
22488698 GTAATCATGA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
28 19 0.54
29 2 0.06
30 3 0.09
31 11 0.31
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.33
Consensus pattern (31 bp):
TATATATATAAATATATAAAAACATATACAC
Found at i:22498472 original size:7 final size:7
Alignment explanation
Indices: 22498460--22498506 Score: 94
Period size: 7 Copynumber: 6.7 Consensus size: 7
22498450 GATGGATGTA
22498460 ATGGTGG
1 ATGGTGG
22498467 ATGGTGG
1 ATGGTGG
22498474 ATGGTGG
1 ATGGTGG
22498481 ATGGTGG
1 ATGGTGG
22498488 ATGGTGG
1 ATGGTGG
22498495 ATGGTGG
1 ATGGTGG
22498502 ATGGT
1 ATGGT
22498507 CATTATAGTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 40 1.00
ACGTcount: A:0.15, C:0.00, G:0.55, T:0.30
Consensus pattern (7 bp):
ATGGTGG
Found at i:22499430 original size:3 final size:3
Alignment explanation
Indices: 22499422--22499448 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
22499412 TATAGAAAAT
22499422 GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA
22499449 AAAAAAAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:22518594 original size:13 final size:13
Alignment explanation
Indices: 22518576--22518638 Score: 63
Period size: 13 Copynumber: 4.8 Consensus size: 13
22518566 TTTGGCAATA
22518576 TTTTTAAAAAGTG
1 TTTTTAAAAAGTG
22518589 TTTTTAAAAAGTG
1 TTTTTAAAAAGTG
* * *
22518602 CTGTGAAAAAGTG
1 TTTTTAAAAAGTG
* *
22518615 CTTTTGAAAAGTG
1 TTTTTAAAAAGTG
*
22518628 CTTTTGAAAAA
1 -TTTTTAAAAA
22518639 TTTGGTTTAA
Statistics
Matches: 40, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
13 33 0.82
14 7 0.17
ACGTcount: A:0.38, C:0.05, G:0.19, T:0.38
Consensus pattern (13 bp):
TTTTTAAAAAGTG
Found at i:22518619 original size:26 final size:27
Alignment explanation
Indices: 22518581--22518638 Score: 82
Period size: 26 Copynumber: 2.2 Consensus size: 27
22518571 CAATATTTTT
*
22518581 AAAAAGTGTTTTTAAAAAGTGC-TGTG
1 AAAAAGTGCTTTTAAAAAGTGCTTGTG
* *
22518607 AAAAAGTGCTTTTGAAAAGTGCTTTTG
1 AAAAAGTGCTTTTAAAAAGTGCTTGTG
22518634 AAAAA
1 AAAAA
22518639 TTTGGTTTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 20 0.71
27 8 0.29
ACGTcount: A:0.41, C:0.05, G:0.21, T:0.33
Consensus pattern (27 bp):
AAAAAGTGCTTTTAAAAAGTGCTTGTG
Found at i:22520922 original size:19 final size:18
Alignment explanation
Indices: 22520892--22520938 Score: 60
Period size: 20 Copynumber: 2.6 Consensus size: 18
22520882 TATAAACATT
*
22520892 AAAATATA-AAAAAGTAA
1 AAAATATATAAAAACTAA
22520909 ATAAATATATAAAAAACTAA
1 A-AAATATAT-AAAAACTAA
22520929 AAAATATATA
1 AAAATATATA
22520939 TAATATGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 1 0.04
18 8 0.31
19 8 0.31
20 9 0.35
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.23
Consensus pattern (18 bp):
AAAATATATAAAAACTAA
Found at i:22520963 original size:27 final size:26
Alignment explanation
Indices: 22520933--22520998 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 26
22520923 AACTAAAAAA
*
22520933 TATATATAA-TATGAAAAAAATATAATT
1 TATAAATAATTAT-AAAAAAA-ATAATT
22520960 TATAAATAATTTATAAAAAAAATAATT
1 TATAAATAA-TTATAAAAAAAATAATT
*
22520987 TATTAAAAAATT
1 TA-TAAATAATT
22520999 TGATAATTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
27 18 0.53
28 13 0.38
29 3 0.09
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (26 bp):
TATAAATAATTATAAAAAAAATAATT
Found at i:22520984 original size:16 final size:17
Alignment explanation
Indices: 22520963--22520996 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
22520953 TATAATTTAT
22520963 AAATAATTTA-TAAAAA
1 AAATAATTTATTAAAAA
22520979 AAATAATTTATTAAAAA
1 AAATAATTTATTAAAAA
22520996 A
1 A
22520997 TTTGATAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
AAATAATTTATTAAAAA
Found at i:22521013 original size:30 final size:27
Alignment explanation
Indices: 22520946--22521014 Score: 84
Period size: 28 Copynumber: 2.4 Consensus size: 27
22520936 ATATAATATG
*
22520946 AAAAAAATATAATTTATAAATAATTTAT
1 AAAAAAA-ATAATTTATAAAAAATTTAT
22520974 AAAAAAAATAATTTATTAAAAAATTTGAT
1 AAAAAAAATAATTTA-TAAAAAATTT-AT
*
22521003 AATTAAAAATAA
1 AA-AAAAAATAA
22521015 ATTAGTTGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
27 8 0.22
28 16 0.44
29 4 0.11
30 8 0.22
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (27 bp):
AAAAAAAATAATTTATAAAAAATTTAT
Found at i:22524048 original size:20 final size:22
Alignment explanation
Indices: 22524023--22524067 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
22524013 TCATTAGAAA
22524023 ATAT-AAAAAT-AGAAATAAAT
1 ATATAAAAAATCAGAAATAAAT
*
22524043 ATATAAAAAATCAGAAATATAT
1 ATATAAAAAATCAGAAATAAAT
22524065 ATA
1 ATA
22524068 ATCTAAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 4 0.18
21 6 0.27
22 12 0.55
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (22 bp):
ATATAAAAAATCAGAAATAAAT
Found at i:22524068 original size:20 final size:20
Alignment explanation
Indices: 22524023--22524068 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 20
22524013 TCATTAGAAA
22524023 ATAT-AAAAATAGAAATAAAT
1 ATATAAAAAATAGAAAT-AAT
22524043 ATATAAAAAATCAGAAAT-AT
1 ATATAAAAAAT-AGAAATAAT
22524063 ATATAA
1 ATATAA
22524069 TCTAAAAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 12 0.50
21 6 0.25
22 6 0.25
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.26
Consensus pattern (20 bp):
ATATAAAAAATAGAAATAAT
Found at i:22524268 original size:17 final size:18
Alignment explanation
Indices: 22524246--22524289 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
22524236 TTTCAAGTTT
* *
22524246 TTTTTATACCTTTTTC-A
1 TTTTTATACATTTATCAA
22524263 TTTTTATAACATTTATCAA
1 TTTTTAT-ACATTTATCAA
22524282 TTTTTATA
1 TTTTTATA
22524290 TATTATTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 7 0.30
18 8 0.35
19 8 0.35
ACGTcount: A:0.27, C:0.11, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTTTATACATTTATCAA
Found at i:22524304 original size:7 final size:7
Alignment explanation
Indices: 22524294--22524337 Score: 52
Period size: 8 Copynumber: 5.9 Consensus size: 7
22524284 TTTATATATT
*
22524294 ATTTTGA
1 ATTTTAA
22524301 ATTTTAA
1 ATTTTAA
22524308 ATTTTTATA
1 A-TTTTA-A
22524317 ATTTTAA
1 ATTTTAA
22524324 ATTTTATA
1 ATTTTA-A
22524332 ATTTTA
1 ATTTTA
22524338 TAAAAAATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
7 14 0.42
8 17 0.52
9 2 0.06
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (7 bp):
ATTTTAA
Found at i:22524321 original size:8 final size:8
Alignment explanation
Indices: 22524300--22524340 Score: 59
Period size: 8 Copynumber: 5.2 Consensus size: 8
22524290 TATTATTTTG
22524300 AATTTTA-
1 AATTTTAT
22524307 AATTTTTAT
1 AA-TTTTAT
22524316 AATTTTA-
1 AATTTTAT
22524323 AATTTTAT
1 AATTTTAT
22524331 AATTTTAT
1 AATTTTAT
22524339 AA
1 AA
22524341 AAAATTTATT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
7 9 0.29
8 20 0.65
9 2 0.06
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (8 bp):
AATTTTAT
Found at i:22524328 original size:15 final size:16
Alignment explanation
Indices: 22524300--22524337 Score: 69
Period size: 15 Copynumber: 2.4 Consensus size: 16
22524290 TATTATTTTG
22524300 AATTTTAAATTTTTAT
1 AATTTTAAATTTTTAT
22524316 AATTTTAAA-TTTTAT
1 AATTTTAAATTTTTAT
22524331 AATTTTA
1 AATTTTA
22524338 TAAAAAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 13 0.59
16 9 0.41
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
AATTTTAAATTTTTAT
Found at i:22524660 original size:31 final size:32
Alignment explanation
Indices: 22524624--22524692 Score: 79
Period size: 31 Copynumber: 2.2 Consensus size: 32
22524614 TTTTTAATAT
* * *
22524624 TATATATTATATGGAT-TAAAATGTAAAAAAA-
1 TATATATAATATAGATAAAAAAT-TAAAAAAAG
*
22524655 TATATATAATATATATAAAAAATTAAAAAAAG
1 TATATATAATATAGATAAAAAATTAAAAAAAG
22524687 TATATA
1 TATATA
22524693 AATTTCAAGT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
31 21 0.66
32 11 0.34
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (32 bp):
TATATATAATATAGATAAAAAATTAAAAAAAG
Found at i:22524761 original size:15 final size:15
Alignment explanation
Indices: 22524741--22524771 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
22524731 ATTTTTTAGA
22524741 ATTTTAGAATTATAT
1 ATTTTAGAATTATAT
*
22524756 ATTTTAGAATTTTAT
1 ATTTTAGAATTATAT
22524771 A
1 A
22524772 AAAAAATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (15 bp):
ATTTTAGAATTATAT
Found at i:22525945 original size:39 final size:39
Alignment explanation
Indices: 22525859--22525971 Score: 163
Period size: 39 Copynumber: 2.8 Consensus size: 39
22525849 ACAATATCGG
* *
22525859 TGGCATGCTTTACATGCAATCAACATGTACGGTAATATTCAA
1 TGGCATGC-TTACATGCAATC-A-ATATACGATAATATTCAA
* *
22525901 TGGCATGCTTACATGCAATCAATATACGATAATATTTAT
1 TGGCATGCTTACATGCAATCAATATACGATAATATTCAA
22525940 TGGCATGCTTACATGCAATCAATATACGATAA
1 TGGCATGCTTACATGCAATCAATATACGATAA
22525972 CAATCAGCAC
Statistics
Matches: 67, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
39 46 0.69
40 1 0.01
41 12 0.18
42 8 0.12
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (39 bp):
TGGCATGCTTACATGCAATCAATATACGATAATATTCAA
Found at i:22529181 original size:26 final size:25
Alignment explanation
Indices: 22529152--22529233 Score: 69
Period size: 26 Copynumber: 3.1 Consensus size: 25
22529142 CAAACCCTAA
22529152 TTTCTCCTTTTTCTTTTCTTTTCTTC
1 TTTCT-CTTTTTCTTTTCTTTTCTTC
*
22529178 TTTCT-TTCTTTCTATTTCGTTTCTTC
1 TTTCTCTT-TTTCT-TTTCTTTTCTTC
* *
22529204 TTTGTTTCTTTTTCTTGT-TTTTCTTTC
1 -TT-TCTCTTTTTCTTTTCTTTTC-TTC
22529231 TTT
1 TTT
22529234 TTATTTATTC
Statistics
Matches: 46, Mismatches: 4, Indels: 13
0.73 0.06 0.21
Matches are distributed among these distances:
24 2 0.04
25 6 0.13
26 22 0.48
27 7 0.15
28 7 0.15
29 2 0.04
ACGTcount: A:0.01, C:0.21, G:0.04, T:0.74
Consensus pattern (25 bp):
TTTCTCTTTTTCTTTTCTTTTCTTC
Found at i:22529185 original size:11 final size:11
Alignment explanation
Indices: 22529166--22529251 Score: 54
Period size: 11 Copynumber: 7.7 Consensus size: 11
22529156 TCCTTTTTCT
22529166 TTTCTTTTCTTC
1 TTTC-TTTCTTC
22529178 TTTCTTTCTTTC
1 TTTCTTTC-TTC
22529190 TATTTCGTTTCTTC
1 --TTTC-TTTCTTC
*
22529204 TTTGTTTCTT-
1 TTTCTTTCTTC
*
22529214 TTTC-TTGTT-
1 TTTCTTTCTTC
22529223 TTTCTTTCTT-
1 TTTCTTTCTTC
* *
22529233 TTTATTTATTC
1 TTTCTTTCTTC
*
22529244 TTTATTTC
1 TTTCTTTC
22529252 ATTTTATTTC
Statistics
Matches: 61, Mismatches: 7, Indels: 13
0.75 0.09 0.16
Matches are distributed among these distances:
9 8 0.13
10 15 0.25
11 17 0.28
12 10 0.16
14 7 0.11
15 4 0.07
ACGTcount: A:0.05, C:0.17, G:0.03, T:0.74
Consensus pattern (11 bp):
TTTCTTTCTTC
Found at i:22529411 original size:3 final size:3
Alignment explanation
Indices: 22529403--22529430 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
22529393 TTGATAAAAT
22529403 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
22529431 GTAGCATCTT
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:22532875 original size:27 final size:27
Alignment explanation
Indices: 22532818--22532869 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
22532808 AATATTTTTC
*
22532818 ATAT-TATAATTATATATTTATAACAA
1 ATATATATAATTATATAATTATAACAA
*
22532844 ATATATATAATTA-ATAATTATTACAA
1 ATATATATAATTATATAATTATAACAA
22532870 CCTATAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 15 0.65
27 8 0.35
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (27 bp):
ATATATATAATTATATAATTATAACAA
Found at i:22533058 original size:26 final size:25
Alignment explanation
Indices: 22533020--22533068 Score: 80
Period size: 26 Copynumber: 1.9 Consensus size: 25
22533010 TTTAATTTCA
*
22533020 ATGATTTTGGAATTTAGGGTTTTTTT
1 ATGATTTTAGAATTTA-GGTTTTTTT
22533046 ATGATTTTAGAATTTAGGTTTTT
1 ATGATTTTAGAATTTAGGTTTTT
22533069 ACTTTTAGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 7 0.32
26 15 0.68
ACGTcount: A:0.22, C:0.00, G:0.20, T:0.57
Consensus pattern (25 bp):
ATGATTTTAGAATTTAGGTTTTTTT
Found at i:22533612 original size:20 final size:19
Alignment explanation
Indices: 22533574--22533616 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
22533564 CACAATGTAA
*
22533574 TAATATATTTTAAAACTAT
1 TAATATATTATAAAACTAT
*
22533593 TAATATATGTATATAACTAT
1 TAATATAT-TATAAAACTAT
22533613 TAAT
1 TAAT
22533617 TAGTCCAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.47
Consensus pattern (19 bp):
TAATATATTATAAAACTAT
Found at i:22537415 original size:39 final size:39
Alignment explanation
Indices: 22537372--22537449 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
22537362 TCAAGTTAGA
22537372 TTCAATCACTACTGTCATTATCATTAAGGTTAGTTTATT
1 TTCAATCACTACTGTCATTATCATTAAGGTTAGTTTATT
22537411 TTCAATCACTACTGTCATTATCATTAAGGTTAGTTTATT
1 TTCAATCACTACTGTCATTATCATTAAGGTTAGTTTATT
22537450 CTTTTTTATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.28, C:0.15, G:0.10, T:0.46
Consensus pattern (39 bp):
TTCAATCACTACTGTCATTATCATTAAGGTTAGTTTATT
Found at i:22537774 original size:28 final size:29
Alignment explanation
Indices: 22537719--22537775 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
22537709 AAATTTTATA
*
22537719 TTTTATAATTTTAAAAAATTTAAATCAAAT
1 TTTTATAATTTTAAAAAA-TAAAATCAAAT
22537749 TTTTATAA-TTTAAAAAA-AAAAGTCAAA
1 TTTTATAATTTTAAAAAATAAAA-TCAAA
22537776 GTAGAATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
27 3 0.12
28 5 0.20
29 9 0.36
30 8 0.32
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (29 bp):
TTTTATAATTTTAAAAAATAAAATCAAAT
Found at i:22538483 original size:29 final size:29
Alignment explanation
Indices: 22538451--22538506 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 29
22538441 TCTTTATAAT
* *
22538451 TTTTAAATAATTAAATTAAAATTTTATCA
1 TTTTAAAGAATTAAAATAAAATTTTATCA
* * *
22538480 TTTTGAAGGATTAAAATACAATTTTAT
1 TTTTAAAGAATTAAAATAAAATTTTAT
22538507 TTTTTATTAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 22 1.00
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.46
Consensus pattern (29 bp):
TTTTAAAGAATTAAAATAAAATTTTATCA
Found at i:22541767 original size:40 final size:39
Alignment explanation
Indices: 22541723--22541836 Score: 128
Period size: 40 Copynumber: 3.0 Consensus size: 39
22541713 GTATGGTATT
22541723 ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTATCAA
1 ATCCATACTGAGTTGTGAAATGTAGGTATGGTATT-TCAA
** **
22541763 ATCCATACTGAGTTAAGAAATGTAGGTATGACATTTC--
1 ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTTCAA
* * *
22541800 --CCAAACCGAGTTGTAAAATGTAGGTATGGTATTTCAA
1 ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTTCAA
22541837 TGAGGAAAAC
Statistics
Matches: 61, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
35 28 0.46
39 2 0.03
40 31 0.51
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.32
Consensus pattern (39 bp):
ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTTCAA
Found at i:22541834 original size:35 final size:36
Alignment explanation
Indices: 22541712--22541832 Score: 122
Period size: 35 Copynumber: 3.3 Consensus size: 36
22541702 GCGAAATTTT
*
22541712 GGTATGGTATTAT-CCATACTGAGTTGTGAAATGTA
1 GGTATGGTATTATCCCATACTGAGTTGTAAAATGTA
*
22541747 GGTATGGTATTATCAAATCCATACTGAGTT-AAGAAATGTA
1 GGTATGGTATTATC----CCATACTGAGTTGTA-AAATGTA
** * *
22541787 GGTATGACATT-TCCCAAACCGAGTTGTAAAATGTA
1 GGTATGGTATTATCCCATACTGAGTTGTAAAATGTA
22541822 GGTATGGTATT
1 GGTATGGTATT
22541833 TCAATGAGGA
Statistics
Matches: 70, Mismatches: 9, Indels: 14
0.75 0.10 0.15
Matches are distributed among these distances:
35 39 0.56
36 1 0.01
39 2 0.03
40 28 0.40
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.34
Consensus pattern (36 bp):
GGTATGGTATTATCCCATACTGAGTTGTAAAATGTA
Found at i:22543170 original size:13 final size:13
Alignment explanation
Indices: 22543154--22543187 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
22543144 TTTAATTAAA
22543154 TTAGTTAATTAGT
1 TTAGTTAATTAGT
*
22543167 TTAGATAATTAGT
1 TTAGTTAATTAGT
*
22543180 TTAATTAA
1 TTAGTTAA
22543188 ACAAACCCTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:22543585 original size:22 final size:22
Alignment explanation
Indices: 22543557--22543602 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
22543547 CCATTAGGAC
22543557 CATTACTTTTTGACGAAGAAAT
1 CATTACTTTTTGACGAAGAAAT
22543579 CATTACTTTTTGACGAAGAAAT
1 CATTACTTTTTGACGAAGAAAT
22543601 CA
1 CA
22543603 ATCGCACAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (22 bp):
CATTACTTTTTGACGAAGAAAT
Found at i:22544698 original size:27 final size:28
Alignment explanation
Indices: 22544668--22544749 Score: 114
Period size: 27 Copynumber: 2.9 Consensus size: 28
22544658 ACCAATTTTG
22544668 GCCCACTCAACAATACCCAAAACCC-TA
1 GCCCACTCAACAATACCCAAAACCCTTA
*
22544695 GCCCACTCAACAATATCCAAAACCCTTA
1 GCCCACTCAACAATACCCAAAACCCTTA
22544723 GCCCACTCAA-AATTAAACCCAAAACCC
1 GCCCACTCAACAA-T--ACCCAAAACCC
22544750 AATTATATCA
Statistics
Matches: 49, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
27 26 0.53
28 13 0.27
30 10 0.20
ACGTcount: A:0.41, C:0.41, G:0.04, T:0.13
Consensus pattern (28 bp):
GCCCACTCAACAATACCCAAAACCCTTA
Found at i:22545835 original size:3 final size:3
Alignment explanation
Indices: 22545827--22545883 Score: 53
Period size: 3 Copynumber: 19.0 Consensus size: 3
22545817 CTTTATTAAA
* * * *
22545827 TAT TAT TAT TAT T-T CTAA TAT TAT TAA TAT TAT CAA TAT TAT TAT
1 TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
22545872 TAT TAT TTT TAT
1 TAT TAT TAT TAT
22545884 ATATATTAGT
Statistics
Matches: 42, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
2 1 0.02
3 41 0.98
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:22545848 original size:18 final size:18
Alignment explanation
Indices: 22545825--22545877 Score: 81
Period size: 18 Copynumber: 2.9 Consensus size: 18
22545815 TTCTTTATTA
22545825 AATATTATTATTATT-TC
1 AATATTATTATTATTATC
*
22545842 TAATATTATTAATATTATC
1 -AATATTATTATTATTATC
22545861 AATATTATTATTATTAT
1 AATATTATTATTATTAT
22545878 TTTTATATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
18 30 0.94
19 2 0.06
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.57
Consensus pattern (18 bp):
AATATTATTATTATTATC
Found at i:22545878 original size:9 final size:9
Alignment explanation
Indices: 22545819--22545878 Score: 68
Period size: 9 Copynumber: 6.6 Consensus size: 9
22545809 TTTTGTTTCT
22545819 TTATTAAATA
1 TTATT-AATA
*
22545829 TTATTATTA
1 TTATTAATA
22545838 TT-TCTAATA
1 TTAT-TAATA
22545847 TTATTAATA
1 TTATTAATA
*
22545856 TTATCAATA
1 TTATTAATA
*
22545865 TTATTATTA
1 TTATTAATA
22545874 TTATT
1 TTATT
22545879 TTTATATATA
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
8 1 0.02
9 36 0.84
10 6 0.14
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.58
Consensus pattern (9 bp):
TTATTAATA
Found at i:22546033 original size:20 final size:21
Alignment explanation
Indices: 22545979--22546087 Score: 67
Period size: 21 Copynumber: 5.4 Consensus size: 21
22545969 TTATTGTTAG
22545979 TATTATAATAT-TATAT-TTAT
1 TATTAT-ATATGTATATATTAT
22545999 TATTA-ATATTGGTATATATT-T
1 TATTATATA-T-GTATATATTAT
22546020 TATTATATATGTATATATATACT
1 TATTATATATGTATATAT-TA-T
* **
22546043 TTTTATATA-GTAT-TATCGT
1 TATTATATATGTATATATTAT
22546062 T-TCTAT-TAT-TATAT-TTAT
1 TAT-TATATATGTATATATTAT
22546080 TATTATAT
1 TATTATAT
22546088 TTATTATTTT
Statistics
Matches: 71, Mismatches: 5, Indels: 27
0.69 0.05 0.26
Matches are distributed among these distances:
18 15 0.21
19 9 0.13
20 13 0.18
21 16 0.23
22 9 0.13
23 9 0.13
ACGTcount: A:0.34, C:0.03, G:0.05, T:0.59
Consensus pattern (21 bp):
TATTATATATGTATATATTAT
Found at i:22546091 original size:21 final size:20
Alignment explanation
Indices: 22546065--22546118 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 20
22546055 TTATCGTTTC
*
22546065 TATTATTATATTTATTATTA-
1 TATTATTAT-TTTATAATTAT
22546085 TATTTATTATTTTCATAATTAT
1 TA-TTATTATTTT-ATAATTAT
22546107 TATTATTATTTT
1 TATTATTATTTT
22546119 TATCATTGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
20 5 0.17
21 23 0.77
22 2 0.07
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (20 bp):
TATTATTATTTTATAATTAT
Found at i:22546121 original size:12 final size:12
Alignment explanation
Indices: 22545987--22546095 Score: 65
Period size: 12 Copynumber: 9.3 Consensus size: 12
22545977 AGTATTATAA
22545987 TATTATATTTAT
1 TATTATATTTAT
22545999 TATTAATATTGGTA-
1 TATT-ATATT--TAT
22546013 TA-TAT-TTTAT
1 TATTATATTTAT
*
22546023 TA-TATATGTA-
1 TATTATATTTAT
22546033 TATATATACTTT-T
1 TAT-TATA-TTTAT
*
22546046 TA-TATA-GTAT
1 TATTATATTTAT
**
22546056 TATCGT-TTCTAT
1 TATTATATT-TAT
22546068 TATTATATTTAT
1 TATTATATTTAT
22546080 TATTATATTTAT
1 TATTATATTTAT
22546092 TATT
1 TATT
22546096 TTCATAATTA
Statistics
Matches: 75, Mismatches: 8, Indels: 28
0.68 0.07 0.25
Matches are distributed among these distances:
9 3 0.04
10 10 0.13
11 10 0.13
12 36 0.48
13 12 0.16
14 2 0.03
15 2 0.03
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.61
Consensus pattern (12 bp):
TATTATATTTAT
Found at i:22546311 original size:21 final size:21
Alignment explanation
Indices: 22546253--22546464 Score: 78
Period size: 25 Copynumber: 9.4 Consensus size: 21
22546243 TAAATACTCT
*
22546253 TATATTATCTATATTATTTTT-
1 TATATTATGTATA-TATTTTTA
* * *
22546274 TAAAATA-GTAAAT-TTTTTA
1 TATATTATGTATATATTTTTA
22546293 TATATTATGTATATATTTTTA
1 TATATTATGTATATATTTTTA
22546314 TATCCTATTAT-TCATATA-TTTTA
1 TA---TATTATGT-ATATATTTTTA
22546337 TTATATTA--TATATATTTTTAA
1 -TATATTATGTATATATTTTT-A
*
22546358 TAATTACATTATGTATGTATTTTTAA
1 T-A-T--ATTATGTATATATTTTT-A
* *
22546384 CTCTATATTACGTACATATTTTTGA
1 ---TATATTATGTATATATTTTT-A
* *
22546409 TATCATTATACGTATACATCTTTAA
1 TAT-ATTAT--GTATATAT-TTTTA
* *
22546434 TATATATAGGTATATATTTATA
1 TATAT-TATGTATATATTTTTA
22546456 TAATATTAT
1 T-ATATTAT
22546465 TAATAGGTAC
Statistics
Matches: 145, Mismatches: 21, Indels: 49
0.67 0.10 0.23
Matches are distributed among these distances:
18 5 0.03
19 11 0.08
20 14 0.10
21 20 0.14
22 10 0.07
23 21 0.14
24 19 0.13
25 27 0.19
26 15 0.10
27 1 0.01
28 1 0.01
29 1 0.01
ACGTcount: A:0.35, C:0.06, G:0.04, T:0.54
Consensus pattern (21 bp):
TATATTATGTATATATTTTTA
Found at i:22546368 original size:24 final size:25
Alignment explanation
Indices: 22546336--22546383 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
22546326 CATATATTTT
*
22546336 ATTATATTA-TATATATTTTTAATA
1 ATTACATTAGTATATATTTTTAATA
*
22546360 ATTACATTATGTATGTATTTTTAA
1 ATTACATTA-GTATATATTTTTAA
22546384 CTCTATATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 8 0.40
26 12 0.60
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (25 bp):
ATTACATTAGTATATATTTTTAATA
Found at i:22551499 original size:17 final size:17
Alignment explanation
Indices: 22551477--22551578 Score: 83
Period size: 17 Copynumber: 6.1 Consensus size: 17
22551467 TGAATCCTCC
22551477 TATTTTTTA-TTTATTCT
1 TATTTTTTATTTTATT-T
22551494 TA-TTTTTATTTTATTT
1 TATTTTTTATTTTATTT
22551510 TA--TTTTATTTTA-TT
1 TATTTTTTATTTTATTT
*
22551524 TATTTTTCT-TTTTCTTT
1 TATTTTT-TATTTTATTT
22551541 TGA-TTTTTATTTTCATTT
1 T-ATTTTTTATTTT-ATTT
*
22551559 CAATTTTATTATTTTATTT
1 -TATTTT-TTATTTTATTT
22551578 T
1 T
22551579 GAAAGACATA
Statistics
Matches: 70, Mismatches: 4, Indels: 21
0.74 0.04 0.22
Matches are distributed among these distances:
14 4 0.06
15 10 0.14
16 17 0.24
17 20 0.29
18 5 0.07
19 7 0.10
20 7 0.10
ACGTcount: A:0.18, C:0.05, G:0.01, T:0.76
Consensus pattern (17 bp):
TATTTTTTATTTTATTT
Found at i:22551507 original size:5 final size:5
Alignment explanation
Indices: 22551481--22551578 Score: 69
Period size: 5 Copynumber: 18.8 Consensus size: 5
22551471 TCCTCCTATT
*
22551481 TTTTA -TTTA TTCTTA TTTTTA TTTTA TTTTA TTTTA TTTTA -TTTA TTTTTCT
1 TTTTA TTTTA TT-TTA -TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA -TTTT-A
* *
22551533 TTTTC TTTTGA TTTTTA TTTTCA TTTCAA TTTTA --TTA TTTTA TTTT
1 TTTTA TTTT-A -TTTTA TTTT-A TTT-TA TTTTA TTTTA TTTTA TTTT
22551579 GAAAGACATA
Statistics
Matches: 76, Mismatches: 5, Indels: 24
0.72 0.05 0.23
Matches are distributed among these distances:
3 3 0.04
4 8 0.11
5 37 0.49
6 22 0.29
7 6 0.08
ACGTcount: A:0.17, C:0.05, G:0.01, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:22551548 original size:7 final size:6
Alignment explanation
Indices: 22551477--22551558 Score: 62
Period size: 6 Copynumber: 13.8 Consensus size: 6
22551467 TGAATCCTCC
* * *
22551477 TATTTT T-TATT TATTCT TATTTT TA-TTT TA-TTT TATTTT ATTTTATT
1 TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT -TATT-TT
* * * *
22551524 TATTTT TCTTTT TCTTTT GATTTT TATTTT CATTT
1 TATTTT TATTTT TATTTT TATTTT TATTTT TATTT
22551559 CAATTTTATT
Statistics
Matches: 61, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
5 14 0.23
6 39 0.64
7 6 0.10
8 2 0.03
ACGTcount: A:0.16, C:0.05, G:0.01, T:0.78
Consensus pattern (6 bp):
TATTTT
Found at i:22554462 original size:13 final size:13
Alignment explanation
Indices: 22554446--22554478 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
22554436 TTTAATTAAA
*
22554446 TTAGTTAATTAGT
1 TTAGATAATTAGT
22554459 TTAGATAATTAGT
1 TTAGATAATTAGT
22554472 TTA-ATAA
1 TTAGATAA
22554479 ACAAATCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:22560836 original size:18 final size:19
Alignment explanation
Indices: 22560789--22560836 Score: 50
Period size: 18 Copynumber: 2.7 Consensus size: 19
22560779 CAATTAAATA
22560789 AAAAGGATTAAA-TTGTAAT
1 AAAAGGATTAAATTTGT-AT
*
22560808 AAAA--ATAAAATTTGT-T
1 AAAAGGATTAAATTTGTAT
22560824 AAAAGGATTAAAT
1 AAAAGGATTAAAT
22560837 AGCTCAAGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 7
0.73 0.06 0.21
Matches are distributed among these distances:
16 5 0.21
17 5 0.21
18 10 0.42
19 4 0.17
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.31
Consensus pattern (19 bp):
AAAAGGATTAAATTTGTAT
Found at i:22561879 original size:35 final size:35
Alignment explanation
Indices: 22561852--22562018 Score: 192
Period size: 35 Copynumber: 4.6 Consensus size: 35
22561842 CATGGAAAAG
*
22561852 TGTGAAATGTAGGTATGGTATTATCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATTATCCATACAGAGT
* *
22561887 TGTGAAATGTAGGTATGGTATTATCTATACTGAGT
1 TGTGAAATGTAGGTATGGTATTATCCATACAGAGT
*
22561922 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTA-T-T---ATCCATACAGAGT
** * *
22561962 TAAGAAATGTAGGTATGGCATT-TCCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATTAT-CCATACAGAGT
*
22561997 TGTAAAATGTAGGTATGGTATT
1 TGTGAAATGTAGGTATGGTATT
22562019 TCAATGAGGA
Statistics
Matches: 115, Mismatches: 11, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
34 1 0.01
35 81 0.70
36 1 0.01
37 1 0.01
38 1 0.01
39 1 0.01
40 29 0.25
ACGTcount: A:0.31, C:0.10, G:0.25, T:0.35
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATTATCCATACAGAGT
Found at i:22561971 original size:75 final size:74
Alignment explanation
Indices: 22561852--22562022 Score: 226
Period size: 75 Copynumber: 2.4 Consensus size: 74
22561842 CATGGAAAAG
** *
22561852 TGTGAAATGTAGGTATGGTA-TT---ATCCATACCGAGTTGTGAAATGTAGGTATGGTATTAT-C
1 TGTGAAATGTAGGTATGGTATTTCAAATCCATACCGAGTTAAGAAATGTAGGTATGGCATT-TCC
* *
22561912 TATACTGAGT
65 CATACCGAGT
*
22561922 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATT-TCAAATCCATACCGAGTTAAGAAATGTAGGTATGGCATTTCC
22561987 CATACCGAGT
65 CATACCGAGT
*
22561997 TGTAAAATGTAGGTATGGTATTTCAA
1 TGTGAAATGTAGGTATGGTATTTCAA
22562023 TGAGGAAAAC
Statistics
Matches: 88, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
70 20 0.23
71 1 0.01
72 1 0.01
74 5 0.06
75 61 0.69
ACGTcount: A:0.31, C:0.10, G:0.24, T:0.35
Consensus pattern (74 bp):
TGTGAAATGTAGGTATGGTATTTCAAATCCATACCGAGTTAAGAAATGTAGGTATGGCATTTCCC
ATACCGAGT
Found at i:22569381 original size:24 final size:25
Alignment explanation
Indices: 22569354--22569402 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
22569344 TTTTTTTTAT
*
22569354 TAAATAAAAAAC-TTTAAAATATAA
1 TAAATAAAAAACATTTAAAACATAA
* *
22569378 TAAATCAAATACATTTAAAACATAA
1 TAAATAAAAAACATTTAAAACATAA
22569403 AAACAAATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (25 bp):
TAAATAAAAAACATTTAAAACATAA
Found at i:22569395 original size:25 final size:23
Alignment explanation
Indices: 22569366--22569430 Score: 75
Period size: 25 Copynumber: 2.9 Consensus size: 23
22569356 AATAAAAAAC
*
22569366 TTTAAAATATAATAAATCAAATACA
1 TTTAAAACATAA-AAA-CAAATACA
22569391 TTTAAAACATAAAAACAAAT--A
1 TTTAAAACATAAAAACAAATACA
22569412 -TTAAAACA-AAAAACAAATA
1 TTTAAAACATAAAAACAAATA
22569431 AAAAATAAGA
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
19 10 0.26
20 8 0.21
21 1 0.03
23 5 0.13
24 3 0.08
25 11 0.29
ACGTcount: A:0.66, C:0.09, G:0.00, T:0.25
Consensus pattern (23 bp):
TTTAAAACATAAAAACAAATACA
Found at i:22569425 original size:19 final size:20
Alignment explanation
Indices: 22569392--22569430 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
22569382 TCAAATACAT
22569392 TTAAAACATAAAAACAAATA
1 TTAAAACATAAAAACAAATA
22569412 TTAAAACA-AAAAACAAATA
1 TTAAAACATAAAAACAAATA
22569431 AAAAATAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.72, C:0.10, G:0.00, T:0.18
Consensus pattern (20 bp):
TTAAAACATAAAAACAAATA
Found at i:22571326 original size:23 final size:21
Alignment explanation
Indices: 22571249--22571307 Score: 109
Period size: 21 Copynumber: 2.8 Consensus size: 21
22571239 ACATAAGTTA
*
22571249 CTGAGACGACACACGAGGTGC
1 CTGATACGACACACGAGGTGC
22571270 CTGATACGACACACGAGGTGC
1 CTGATACGACACACGAGGTGC
22571291 CTGATACGACACACGAG
1 CTGATACGACACACGAG
22571308 ATGCTTGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.31, C:0.29, G:0.29, T:0.12
Consensus pattern (21 bp):
CTGATACGACACACGAGGTGC
Found at i:22571336 original size:44 final size:41
Alignment explanation
Indices: 22571232--22571349 Score: 110
Period size: 42 Copynumber: 2.7 Consensus size: 41
22571222 CCTAATCAGT
** * *
22571232 ATACGACACATAAGTTACTGAGACGACACACGAGGTGCCTG
1 ATACGACACATAAGTGCCTGATACGACACACGAGATGCCTG
* * *
22571273 ATACGACACACGAGGTGCCTGATACGACACACGAGATGCTTG
1 ATACGACACA-TAAGTGCCTGATACGACACACGAGATGCCTG
*
22571315 AAATATGACACATAAAGTGCCTGATATACGACACA
1 --ATACGACACAT-AAGTGCCTG--ATACGACACA
22571350 TAAAGTGCCT
Statistics
Matches: 61, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
41 10 0.16
42 24 0.39
44 17 0.28
46 10 0.16
ACGTcount: A:0.36, C:0.24, G:0.22, T:0.18
Consensus pattern (41 bp):
ATACGACACATAAGTGCCTGATACGACACACGAGATGCCTG
Found at i:22571341 original size:21 final size:22
Alignment explanation
Indices: 22571317--22571362 Score: 76
Period size: 23 Copynumber: 2.1 Consensus size: 22
22571307 GATGCTTGAA
22571317 ATAT-GACACATAAAGTGCCTG
1 ATATAGACACATAAAGTGCCTG
22571338 ATATACGACACATAAAGTGCCTG
1 ATATA-GACACATAAAGTGCCTG
22571361 AT
1 AT
22571363 CGGCAAAGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 4 0.17
23 19 0.83
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (22 bp):
ATATAGACACATAAAGTGCCTG
Found at i:22571503 original size:24 final size:24
Alignment explanation
Indices: 22571455--22571509 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 24
22571445 TATTCAATTT
22571455 TCATA-TTTCAATTCAATTACTTTC
1 TCATATTTTCAATTCAATTAC-TTC
*
22571479 TCATATTTTCCATTCAAATTA-TTC
1 TCATATTTTCAATTC-AATTACTTC
22571503 TCA-ATTT
1 TCATATTT
22571510 AAATCACAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 4 0.14
24 11 0.39
25 8 0.29
26 5 0.18
ACGTcount: A:0.29, C:0.20, G:0.00, T:0.51
Consensus pattern (24 bp):
TCATATTTTCAATTCAATTACTTC
Found at i:22579577 original size:19 final size:18
Alignment explanation
Indices: 22579540--22579592 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 18
22579530 ATCTGTTAGA
*
22579540 AGAAAATAAATGAATAATT
1 AGAAAATAAAT-AAAAATT
22579559 AGAAAATAAAATAAAAATT
1 AGAAAAT-AAATAAAAATT
*
22579578 -GAAATTGAAATAAAA
1 AGAAAAT-AAATAAAA
22579593 GTAAAATGGC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
18 13 0.43
19 13 0.43
20 4 0.13
ACGTcount: A:0.68, C:0.00, G:0.09, T:0.23
Consensus pattern (18 bp):
AGAAAATAAATAAAAATT
Found at i:22582902 original size:476 final size:477
Alignment explanation
Indices: 22581866--22583201 Score: 2539
Period size: 476 Copynumber: 2.8 Consensus size: 477
22581856 CCCATGAATA
* *
22581866 TAACAGCCCGATTTTGGGCCTAGTCGGAACATTGGTTTCGGGACCACTATTCCGAGGCCAGAGAA
1 TAACAGCCCGATTTTGGGCCTAGTCGGAACAGTAGTTTCGGGACCACTATTCCGAGGCCAGAGAA
22581931 AATTATTTTAGTATTATTTTATGTGTTATAATATAATTTTATAAGTGCATGTAAATTTTGGTAAG
66 AATTATTTTAGTATTATTTTATGTGTTATAATATAATTTTATAAGTGCATGTAAATTTTGGTAAG
22581996 TTAATTTTAGCGATTTCTAGTCCAATTTCGAAAAAAGACTAAATCACGTAAAAGGTAAAAGTTGT
131 TTAATTTTAGCGATTTCTAGTCCAATTTCGAAAAAAGACTAAATCACGTAAAAGGTAAAAGTTGT
22582061 ATTTTAGTGCCTAAAGGTGTTAATAGACTAGAGAACTAAAATTGGAGGCCTTTAAAGGGCAATTG
196 ATTTTAGTGCCTAAAGGTGTTAATAGACTAGAGAACTAAAATTGGAGGCCTTTAAAGGGCAATTG
*
22582126 GACCCTTTTTAAGTGTGTGACCGGCCAAGGGGAGACAAAATTTTTAAAAAAGCCAAAATTTATGG
261 GACCCTTTTTAAGTGTGTGGCCGGCCAAGGGGAGAC-AAATTTTTAAAAAAGCCAAAATTTATGG
22582191 GATATTAGGTGACTTTTGACCAAATAGGTAATAAAATAAAAAGGGATGATATCATCTTATTTTTA
325 GATATTAGGTGACTTTTGACCAAATAGGTAATAAAATAAAAAGGGATGATATCATCTTATTTTTA
22582256 TTTTATTACCTATTTGGTCAAAAGTCACCTAATATCCCATAAATTTTGGCTTTTTTAAAAATTTT
390 TTTTATTACCTATTTGGTCAAAAGTCACCTAATATCCCATAAATTTTGGCTTTTTTAAAAATTTT
22582321 GTCTCCCCTTGGCCGGCCAAATG
455 GTCTCCCCTTGGCCGGCCAAATG
*
22582344 TAACAGCTCGATTTTGGGCCTAGTCGGAACAGTAGTTTCGGGACCACTATTCCGAGGCCAGAGAA
1 TAACAGCCCGATTTTGGGCCTAGTCGGAACAGTAGTTTCGGGACCACTATTCCGAGGCCAGAGAA
22582409 AATTATTTTAGTATTATTTTATGTGTTATAATATAATTTTATAAGTGCATGTAAATTTTGGTAAG
66 AATTATTTTAGTATTATTTTATGTGTTATAATATAATTTTATAAGTGCATGTAAATTTTGGTAAG
*
22582474 TTAATTTTAGCGATTTCTAGTCCAATTTCGAAAAATGACTAAATCACGTAAAAGGTAAAAGTTGT
131 TTAATTTTAGCGATTTCTAGTCCAATTTCGAAAAAAGACTAAATCACGTAAAAGGTAAAAGTTGT
22582539 ATTTTAGTGCCTAAAGGTGTTAATAGACTAGAGAACTAAAATTGGAGGCCTTTAAAGGGCAATTG
196 ATTTTAGTGCCTAAAGGTGTTAATAGACTAGAGAACTAAAATTGGAGGCCTTTAAAGGGCAATTG
22582604 GACCCTTTTTAAGTGTGTGGCCGGCCAAGGGGAGAC-AATTTTTAAAAAAGCCAAAATTTATGGG
261 GACCCTTTTTAAGTGTGTGGCCGGCCAAGGGGAGACAAATTTTTAAAAAAGCCAAAATTTATGGG
22582668 ATATTAGGTGACTTTTGACCAAATAGGTAATAAAATAAAAAGGGATGATATCATCTTATTTTTAT
326 ATATTAGGTGACTTTTGACCAAATAGGTAATAAAATAAAAAGGGATGATATCATCTTATTTTTAT
22582733 TTTATTACCTATTTGGTCAAAAGTCACCTAATATCCCATAAATTTTGGCTTTTTTAAAAATTTTG
391 TTTATTACCTATTTGGTCAAAAGTCACCTAATATCCCATAAATTTTGGCTTTTTTAAAAATTTTG
22582798 TCTCCCCTTGGCCGGCCAAATG
456 TCTCCCCTTGGCCGGCCAAATG
22582820 TAACAGCCCGATTTTGGGCCTAGTCGGAACAGTAGTTTCGGGACCACTATTCCGAGGCCAGAGAA
1 TAACAGCCCGATTTTGGGCCTAGTCGGAACAGTAGTTTCGGGACCACTATTCCGAGGCCAGAGAA
22582885 AATTATTTTAGTATTATTTTATGTGTTATAATATAATTTTATAAGTGCATGTAAATTTTGGTAAG
66 AATTATTTTAGTATTATTTTATGTGTTATAATATAATTTTATAAGTGCATGTAAATTTTGGTAAG
* **
22582950 TTAATTTTAACGATTTCTAGTCCAATTTCGAAAAAAGACTAAATCGTGTAAAAGGTAAAAGTTGT
131 TTAATTTTAGCGATTTCTAGTCCAATTTCGAAAAAAGACTAAATCACGTAAAAGGTAAAAGTTGT
22583015 ATTTTAGTGCCTAAAGGTGTTAATAGACTAGAGAACTAAAATTGGAGGCCTTTAAAGGGCAATTG
196 ATTTTAGTGCCTAAAGGTGTTAATAGACTAGAGAACTAAAATTGGAGGCCTTTAAAGGGCAATTG
22583080 GACCCTTTTTAAGTGTGTGGCCGGCCAAGGGGAGACAAAATTTTTAAAAAAGCCAAAATTTATGG
261 GACCCTTTTTAAGTGTGTGGCCGGCCAAGGGGAGAC-AAATTTTTAAAAAAGCCAAAATTTATGG
* * *
22583145 GATATTAAGTGACTTTTGACCAAATAGGTAATTAAATAAAAATAGGATGATATCATC
325 GATATTAGGTGACTTTTGACCAAATAGGTAATAAAATAAAAA-GGGATGATATCATC
22583202 CCTTTTTCAT
Statistics
Matches: 842, Mismatches: 13, Indels: 5
0.98 0.02 0.01
Matches are distributed among these distances:
476 471 0.56
478 358 0.43
479 13 0.02
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.34
Consensus pattern (477 bp):
TAACAGCCCGATTTTGGGCCTAGTCGGAACAGTAGTTTCGGGACCACTATTCCGAGGCCAGAGAA
AATTATTTTAGTATTATTTTATGTGTTATAATATAATTTTATAAGTGCATGTAAATTTTGGTAAG
TTAATTTTAGCGATTTCTAGTCCAATTTCGAAAAAAGACTAAATCACGTAAAAGGTAAAAGTTGT
ATTTTAGTGCCTAAAGGTGTTAATAGACTAGAGAACTAAAATTGGAGGCCTTTAAAGGGCAATTG
GACCCTTTTTAAGTGTGTGGCCGGCCAAGGGGAGACAAATTTTTAAAAAAGCCAAAATTTATGGG
ATATTAGGTGACTTTTGACCAAATAGGTAATAAAATAAAAAGGGATGATATCATCTTATTTTTAT
TTTATTACCTATTTGGTCAAAAGTCACCTAATATCCCATAAATTTTGGCTTTTTTAAAAATTTTG
TCTCCCCTTGGCCGGCCAAATG
Found at i:22588162 original size:16 final size:16
Alignment explanation
Indices: 22588137--22588177 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
22588127 GTATTCGGGC
22588137 CTTCGTGCCTAGCAGG
1 CTTCGTGCCTAGCAGG
*
22588153 CTTTGTGCCTAGCAGG
1 CTTCGTGCCTAGCAGG
22588169 CTTCGTGCC
1 CTTCGTGCC
22588178 GGTGATGTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.10, C:0.32, G:0.29, T:0.29
Consensus pattern (16 bp):
CTTCGTGCCTAGCAGG
Found at i:22588439 original size:43 final size:43
Alignment explanation
Indices: 22588157--22588427 Score: 357
Period size: 43 Copynumber: 6.3 Consensus size: 43
22588147 AGCAGGCTTT
*
22588157 GTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGTGCCTTC
1 GTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTC
* * * *
22588200 GTGCCTAACAGGCTTCGTGCCGATGATGTGTATTAGGGCTTTC
1 GTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTC
** * *
22588243 GTGCCTAGCAGGCTTCGTATCGATGATGTGTATTTGGGCCTTC
1 GTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTC
* * *
22588286 GTGCCTAACAGGCTTCGTGCCAGTGATATGTATTC-GGCCTTC
1 GTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTC
* * * * *
22588328 GTGCCTAG-ATGCTTCATGTCGGTGATGTGTATTCAGGCTTTC
1 GTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTC
*
22588370 GTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGTCTTC
1 GTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTC
*
22588413 GTGCTTAGCAGGCTT
1 GTGCCTAGCAGGCTT
22588428 AATACTGGTG
Statistics
Matches: 195, Mismatches: 31, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
41 21 0.11
42 28 0.14
43 146 0.75
ACGTcount: A:0.13, C:0.23, G:0.31, T:0.34
Consensus pattern (43 bp):
GTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTC
Found at i:22588439 original size:127 final size:129
Alignment explanation
Indices: 22588157--22588439 Score: 338
Period size: 127 Copynumber: 2.2 Consensus size: 129
22588147 AGCAGGCTTT
* ** * * *
22588157 GTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGTGCCTTCGTGCCTAACAGGCTTCGTGCCG
1 GTGCCTAACAGGCTTAATACCGGTGATATGTATTCGTGCCTTCGTGCCTAACAGGCTTCATGCCG
* *
22588222 ATGATGTGTATTAGGGCTTTCGTGCCTAGCAGGCTTCGTATCGATGATGTGTATTTGGGCCTTC
66 ATGATGTGTATTAGGGCTTTCGTGCCTAGCAGGCTTCGTACCGATGATGTGTATTCGGGCCTTC
** * * * * *
22588286 GTGCCTAACAGGCTTCGTGCCAGTGATATGTATTCG-GCCTTCGTGCCT-AGATGCTTCATGTCG
1 GTGCCTAACAGGCTTAATACCGGTGATATGTATTCGTGCCTTCGTGCCTAACAGGCTTCATGCCG
* * * *
22588349 GTGATGTGTATTCA-GGCTTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGTCTTC
66 ATGATGTGTATT-AGGGCTTTCGTGCCTAGCAGGCTTCGTACCGATGATGTGTATTCGGGCCTTC
* * *
22588413 GTGCTTAGCAGGCTTAATACTGGTGAT
1 GTGCCTAACAGGCTTAATACCGGTGAT
22588440 TCGAGCAAGG
Statistics
Matches: 133, Mismatches: 20, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
127 87 0.65
128 13 0.10
129 33 0.25
ACGTcount: A:0.14, C:0.22, G:0.30, T:0.34
Consensus pattern (129 bp):
GTGCCTAACAGGCTTAATACCGGTGATATGTATTCGTGCCTTCGTGCCTAACAGGCTTCATGCCG
ATGATGTGTATTAGGGCTTTCGTGCCTAGCAGGCTTCGTACCGATGATGTGTATTCGGGCCTTC
Found at i:22588629 original size:29 final size:28
Alignment explanation
Indices: 22588596--22588752 Score: 111
Period size: 29 Copynumber: 5.5 Consensus size: 28
22588586 ATGATTAGAG
22588596 GCACTATGTGTGCAAATTCCTTTAACCGA
1 GCACTATGTGTGCAAATT-CTTTAACCGA
* ** **
22588625 GCACTATGTGTGCGAGA-TCAGTAATTGA
1 GCACTATGTGTGC-AAATTCTTTAACCGA
* *
22588653 GGCACTGTGTGTGCGAATTCCTTTAACCGA
1 -GCACTATGTGTGCAAATT-CTTTAACCGA
* ** **
22588683 GCACTATGTGTGCGAGATT-GGTAATTGA
1 GCACTATGTGTGC-AAATTCTTTAACCGA
* * *
22588711 GGCACTGTGTGTGCAAGTTCTTCAACCGA
1 -GCACTATGTGTGCAAATTCTTTAACCGA
22588740 GCACTATGTGTGC
1 GCACTATGTGTGC
22588753 GAGATCGGTC
Statistics
Matches: 93, Mismatches: 28, Indels: 15
0.68 0.21 0.11
Matches are distributed among these distances:
28 27 0.29
29 55 0.59
30 11 0.12
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTATGTGTGCAAATTCTTTAACCGA
Found at i:22588664 original size:58 final size:58
Alignment explanation
Indices: 22588593--22588758 Score: 271
Period size: 58 Copynumber: 2.9 Consensus size: 58
22588583 CGAATGATTA
*
22588593 GAGGCACTATGTGTGCAAATTCCTTTAACCGAGCACTATGTGTGCGAGATCAGTAATT
1 GAGGCACTGTGTGTGCAAATTCCTTTAACCGAGCACTATGTGTGCGAGATCAGTAATT
* **
22588651 GAGGCACTGTGTGTGCGAATTCCTTTAACCGAGCACTATGTGTGCGAGATTGGTAATT
1 GAGGCACTGTGTGTGCAAATTCCTTTAACCGAGCACTATGTGTGCGAGATCAGTAATT
* *
22588709 GAGGCACTGTGTGTGCAAGTT-CTTCAACCGAGCACTATGTGTGCGAGATC
1 GAGGCACTGTGTGTGCAAATTCCTTTAACCGAGCACTATGTGTGCGAGATC
22588759 GGTCAGTGGG
Statistics
Matches: 100, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
57 27 0.27
58 73 0.73
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (58 bp):
GAGGCACTGTGTGTGCAAATTCCTTTAACCGAGCACTATGTGTGCGAGATCAGTAATT
Found at i:22602391 original size:13 final size:13
Alignment explanation
Indices: 22602370--22602413 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
22602360 AATTTGAGAG
22602370 TTATTAATATTTA
1 TTATTAATATTTA
* * *
22602383 TTTTTAATAGTTG
1 TTATTAATATTTA
22602396 TTATTAATATTTAA
1 TTATTAATATTT-A
22602410 TTAT
1 TTAT
22602414 GTTTAAATAA
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
13 20 0.83
14 4 0.17
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (13 bp):
TTATTAATATTTA
Found at i:22602419 original size:30 final size:28
Alignment explanation
Indices: 22602369--22602438 Score: 74
Period size: 30 Copynumber: 2.5 Consensus size: 28
22602359 AAATTTGAGA
**
22602369 GTTATTAATATTT-ATTTTT-AATAGTT
1 GTTATTAATATTTAATTTTTAAATAAAT
22602395 GTTATTAATATTTAATTATGTTTAAATAAAT
1 GTTATTAATATTTAA-T-T-TTTAAATAAAT
22602426 -TTATTAATATTTA
1 GTTATTAATATTTA
22602439 TTTAATTATT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
26 13 0.35
27 1 0.03
28 1 0.03
29 1 0.03
30 16 0.43
31 5 0.14
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (28 bp):
GTTATTAATATTTAATTTTTAAATAAAT
Found at i:22610848 original size:57 final size:57
Alignment explanation
Indices: 22610760--22610893 Score: 259
Period size: 57 Copynumber: 2.4 Consensus size: 57
22610750 ATACAGCAGA
22610760 ATTACCAGTCCAGGCTAAATTTTGTTTGTATAGCATATACTCTAAGGGCTTTGTCGG
1 ATTACCAGTCCAGGCTAAATTTTGTTTGTATAGCATATACTCTAAGGGCTTTGTCGG
*
22610817 ATTACCAGTCCGGGCTAAATTTTGTTTGTATAGCATATACTCTAAGGGCTTTGTCGG
1 ATTACCAGTCCAGGCTAAATTTTGTTTGTATAGCATATACTCTAAGGGCTTTGTCGG
22610874 ATTACCAGTCCAGGCTAAAT
1 ATTACCAGTCCAGGCTAAAT
22610894 CCTTTATATG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
57 75 1.00
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (57 bp):
ATTACCAGTCCAGGCTAAATTTTGTTTGTATAGCATATACTCTAAGGGCTTTGTCGG
Found at i:22612130 original size:15 final size:16
Alignment explanation
Indices: 22612093--22612136 Score: 79
Period size: 16 Copynumber: 2.8 Consensus size: 16
22612083 AAGTTTTACA
22612093 CCTTTTTCAATTTAGT
1 CCTTTTTCAATTTAGT
22612109 CCTTTTTCAATTTAGT
1 CCTTTTTCAATTTAGT
*
22612125 CCTTTTTTAATT
1 CCTTTTTCAATT
22612137 AATTGACTAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.18, C:0.18, G:0.05, T:0.59
Consensus pattern (16 bp):
CCTTTTTCAATTTAGT
Found at i:22612552 original size:20 final size:21
Alignment explanation
Indices: 22612523--22612568 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
22612513 AAATCAAAAC
*
22612523 AAATACTATT-CAAAATTATT
1 AAATACTATTACAAAATTATA
*
22612543 AAATATTATTACCAAAATTATA
1 AAATACTATTA-CAAAATTATA
22612565 AAAT
1 AAAT
22612569 CTTGTGGATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 9 0.41
22 13 0.59
ACGTcount: A:0.54, C:0.09, G:0.00, T:0.37
Consensus pattern (21 bp):
AAATACTATTACAAAATTATA
Found at i:22628341 original size:44 final size:43
Alignment explanation
Indices: 22628283--22628371 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 43
22628273 TTTTATCTGG
22628283 TTTTAAAAATACATTTAAATATGTTAACTTATCAACTTTTGGT
1 TTTTAAAAATACATTTAAATATGTTAACTTATCAACTTTTGGT
22628326 TTTTAAAAAATACATTTAAATATGTTAACTTATCAACTTTTGGT
1 TTTT-AAAAATACATTTAAATATGTTAACTTATCAACTTTTGGT
22628370 TT
1 TT
22628372 ATCTAATTTA
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
43 4 0.09
44 41 0.91
ACGTcount: A:0.37, C:0.09, G:0.07, T:0.47
Consensus pattern (43 bp):
TTTTAAAAATACATTTAAATATGTTAACTTATCAACTTTTGGT
Found at i:22629774 original size:14 final size:15
Alignment explanation
Indices: 22629755--22629788 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
22629745 AATTTAGAAC
22629755 ATATTAAAATATAT-
1 ATATTAAAATATATA
22629769 ATATT-AAATATATA
1 ATATTAAAATATATA
22629783 ATATTA
1 ATATTA
22629789 CTCTAATGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 8 0.44
14 10 0.56
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATATTAAAATATATA
Found at i:22633163 original size:21 final size:20
Alignment explanation
Indices: 22633137--22633182 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
22633127 TGGAAGTTTT
* *
22633137 ACATTTGTGTTGCATTTGAAG
1 ACATTTATGATGCATTTG-AG
*
22633158 ACATTTATGATGTATTTGAG
1 ACATTTATGATGCATTTGAG
22633178 ACATT
1 ACATT
22633183 GTTTGTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.28, C:0.09, G:0.20, T:0.43
Consensus pattern (20 bp):
ACATTTATGATGCATTTGAG
Found at i:22644508 original size:25 final size:26
Alignment explanation
Indices: 22644480--22644547 Score: 84
Period size: 27 Copynumber: 2.5 Consensus size: 26
22644470 TTTTTAAAAT
22644480 TTTAAATTAATAAATTATATATAT-A
1 TTTAAATTAATAAATTATATATATCA
*
22644505 TTTAAAATAATAGAAATTATATATATCA
1 TTTAAATTAAT--AAATTATATATATCA
*
22644533 TTTAAAATTTATAAA
1 TTT-AAATTAATAAA
22644548 GATATAAATT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
25 10 0.28
27 16 0.44
28 4 0.11
29 6 0.17
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (26 bp):
TTTAAATTAATAAATTATATATATCA
Found at i:22652197 original size:23 final size:21
Alignment explanation
Indices: 22652123--22652182 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 21
22652113 CTTGATCAGT
** * *
22652123 ATACGACACATAAAGTGCCTA
1 ATACGACACACGAGGTGCCTG
*
22652144 AAACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
22652165 ATACGACACACGAGGTGC
1 ATACGACACACGAGGTGC
22652183 TTGAAATACT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.37, C:0.27, G:0.23, T:0.13
Consensus pattern (21 bp):
ATACGACACACGAGGTGCCTG
Found at i:22653524 original size:9 final size:8
Alignment explanation
Indices: 22653502--22653527 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
22653492 TGAACTTTGT
22653502 TTAAAAAC
1 TTAAAAAC
22653510 TTAAAAAC
1 TTAAAAAC
22653518 TTAAAAAC
1 TTAAAAAC
22653526 TT
1 TT
22653528 CTAAACTACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.58, C:0.12, G:0.00, T:0.31
Consensus pattern (8 bp):
TTAAAAAC
Found at i:22663468 original size:16 final size:16
Alignment explanation
Indices: 22663430--22663472 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
22663420 TGGTTTATGC
22663430 TTTTTTGGATTTAGGG
1 TTTTTTGGATTTAGGG
*** *
22663446 GGATTTGGGTTTAGGG
1 TTTTTTGGATTTAGGG
22663462 TTTTTTGGATT
1 TTTTTTGGATT
22663473 CCTTTATTAG
Statistics
Matches: 19, Mismatches: 8, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.12, C:0.00, G:0.35, T:0.53
Consensus pattern (16 bp):
TTTTTTGGATTTAGGG
Found at i:22665811 original size:24 final size:24
Alignment explanation
Indices: 22665717--22665800 Score: 118
Period size: 24 Copynumber: 3.5 Consensus size: 24
22665707 GATTCAACTC
*
22665717 CGCACACATAGTGCCA-A-ATAATT
1 CGCACACATAGTGCCATACA-AATA
*
22665740 CTGCACACATAGTGCCATACATATA
1 C-GCACACATAGTGCCATACAAATA
22665765 CGCACACATAGTGCCATACAAATA
1 CGCACACATAGTGCCATACAAATA
22665789 CGCACACATAGT
1 CGCACACATAGT
22665801 TCCACTCAAA
Statistics
Matches: 55, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
23 1 0.02
24 49 0.89
25 4 0.07
26 1 0.02
ACGTcount: A:0.38, C:0.29, G:0.13, T:0.20
Consensus pattern (24 bp):
CGCACACATAGTGCCATACAAATA
Found at i:22669150 original size:33 final size:33
Alignment explanation
Indices: 22669103--22669165 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
22669093 CGTGCCTAGC
*
22669103 AGGCTTAGTGCCGGTGATGTGTATTCGGGCGCT
1 AGGCATAGTGCCGGTGATGTGTATTCGGGCGCT
22669136 AGGCATAGTGCCGGTGATGTGTATTCGGGC
1 AGGCATAGTGCCGGTGATGTGTATTCGGGC
22669166 CTTCGTGCCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.14, C:0.17, G:0.40, T:0.29
Consensus pattern (33 bp):
AGGCATAGTGCCGGTGATGTGTATTCGGGCGCT
Found at i:22669207 original size:76 final size:80
Alignment explanation
Indices: 22669081--22669268 Score: 240
Period size: 76 Copynumber: 2.3 Consensus size: 80
22669071 GCTGGTATTA
*
22669081 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTGTATTCGGG-C-G-CT-AGGCAT
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTACCGGTGATGTGTATTCGGGCCGGCCTAAGGCAT
*
22669142 AGTGCCGGTGATGTG
66 AGTGCCGATGATGTG
* *
22669157 TATTCGGGCCTTCGTGCCTAGCAGGTTTCGTACCGGTGATGTGTATTCGGGCCTTCGTGCCTAGC
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTACCGGTGATGTGTATTCGGG-C--CG-GCCTA--
* *
22669222 AGGCTTCGTGCCGATGATGTG
60 AGGCATAGTGCCGATGATGTG
22669243 TATTCGGGCCTTCGTGCCTAGCAGGC
1 TATTCGGGCCTTCGTGCCTAGCAGGC
22669269 GTAATGCCGG
Statistics
Matches: 95, Mismatches: 7, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
76 48 0.51
80 1 0.01
82 1 0.01
83 2 0.02
86 43 0.45
ACGTcount: A:0.12, C:0.24, G:0.34, T:0.30
Consensus pattern (80 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTACCGGTGATGTGTATTCGGGCCGGCCTAAGGCAT
AGTGCCGATGATGTG
Found at i:22669277 original size:43 final size:43
Alignment explanation
Indices: 22669143--22669268 Score: 225
Period size: 43 Copynumber: 2.9 Consensus size: 43
22669133 GCTAGGCATA
*
22669143 GTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGTTTC
1 GTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTC
*
22669186 GTACCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTC
1 GTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTC
*
22669229 GTGCCGATGATGTGTATTCGGGCCTTCGTGCCTAGCAGGC
1 GTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGC
22669269 GTAATGCCGG
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 79 1.00
ACGTcount: A:0.11, C:0.25, G:0.34, T:0.30
Consensus pattern (43 bp):
GTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTC
Found at i:22672352 original size:104 final size:104
Alignment explanation
Indices: 22672170--22672469 Score: 332
Period size: 104 Copynumber: 2.9 Consensus size: 104
22672160 TCCTCATTGA
* ** ** * *
22672170 AATACCATACCTACGTTTCACAACTCTTTATGGAAAACACCATACCTACTTTTCAT-GCTCGGTA
1 AATACCATACCTACGTATCACAACTCAATATGGACGATACCATACCTACGTTTCATAGCTCGGTA
* * * *
22672234 TGGAAAATATCATACCTATATTTCATAACTTGGTATGGAC
66 TGG-AAATACCATACCTACATTTCACAACTCGGTATGGAC
* * * *
22672274 GATACCATACCTACGTATCATAGCTCAATATGGACGATGCCATACCTACGTTTCATAGCTCGGTA
1 AATACCATACCTACGTATCACAACTCAATATGGACGATACCATACCTACGTTTCATAGCTCGGTA
* **
22672339 TGGAAATACCATACCTACGTTTCACAACTCGGTATGGTT
66 TGGAAATACCATACCTACATTTCACAACTCGGTATGGAC
* * ** * * *
22672378 AATACCATACCTATGTTTCACAACTCGGTATGGATGATACCATACCTACGTTTCACAACTCGGTA
1 AATACCATACCTACGTATCACAACTCAATATGGACGATACCATACCTACGTTTCATAGCTCGGTA
* *
22672443 TGGATGATACCATACCTACGTTTCACA
66 TGGA-AATACCATACCTACATTTCACA
22672470 CTTTGCCATG
Statistics
Matches: 164, Mismatches: 30, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
104 132 0.80
105 32 0.20
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (104 bp):
AATACCATACCTACGTATCACAACTCAATATGGACGATACCATACCTACGTTTCATAGCTCGGTA
TGGAAATACCATACCTACATTTCACAACTCGGTATGGAC
Found at i:22672424 original size:139 final size:139
Alignment explanation
Indices: 22672171--22672469 Score: 384
Period size: 139 Copynumber: 2.2 Consensus size: 139
22672161 CCTCATTGAA
** * **
22672171 ATACCATACCTACGTTTCACAACTCTTTATGGAAAACACCATACCTACTTTTCATGCTCGGTATG
1 ATACCATACCTACGTTTCACAACTCGGTATGGAAAACACCATACCTACGTTTCAAACTCGGTATG
* * * * *
22672236 GAAAATATCATACCTATATTTCATAACTTGGTATGGACGATACCATACCTACGTATCATAGCTCA
66 GAAAATACCATACCTATATTTCACAACTCGGTATGGACGATACCATACCTACGTATCACAACTCA
22672301 ATATGGACG
131 ATATGGACG
* * * *
22672310 ATGCCATACCTACGTTTCATAGCTCGGTATGG-AAATACCATACCTACGTTTCACAACTCGGTAT
1 ATACCATACCTACGTTTCACAACTCGGTATGGAAAACACCATACCTACGTTTCA-AACTCGGTAT
** * * *
22672374 GGTTAATACCATACCTATGTTTCACAACTCGGTATGGATGATACCATACCTACGTTTCACAACTC
65 GGAAAATACCATACCTATATTTCACAACTCGGTATGGACGATACCATACCTACGTATCACAACTC
** *
22672439 GGTATGGATG
130 AATATGGACG
22672449 ATACCATACCTACGTTTCACA
1 ATACCATACCTACGTTTCACA
22672470 CTTTGCCATG
Statistics
Matches: 135, Mismatches: 24, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
138 19 0.14
139 116 0.86
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.30
Consensus pattern (139 bp):
ATACCATACCTACGTTTCACAACTCGGTATGGAAAACACCATACCTACGTTTCAAACTCGGTATG
GAAAATACCATACCTATATTTCACAACTCGGTATGGACGATACCATACCTACGTATCACAACTCA
ATATGGACG
Found at i:22672481 original size:35 final size:35
Alignment explanation
Indices: 22672171--22672469 Score: 323
Period size: 35 Copynumber: 8.6 Consensus size: 35
22672161 CCTCATTGAA
** **
22672171 ATACCATACCTACGTTTCACAACTCTTTATGGAAA
1 ATACCATACCTACGTTTCACAACTCGGTATGGATG
* * ** **
22672206 ACACCATACCTACTTTTCA-TGCTCGGTATGGAAA
1 ATACCATACCTACGTTTCACAACTCGGTATGGATG
* ** * * *
22672240 ATATCATACCTATATTTCATAACTTGGTATGGACG
1 ATACCATACCTACGTTTCACAACTCGGTATGGATG
* * * ** *
22672275 ATACCATACCTACGTATCATAGCTCAATATGGACG
1 ATACCATACCTACGTTTCACAACTCGGTATGGATG
* * * *
22672310 ATGCCATACCTACGTTTCATAGCTCGGTATGGA-A
1 ATACCATACCTACGTTTCACAACTCGGTATGGATG
* *
22672344 ATACCATACCTACGTTTCACAACTCGGTATGGTTA
1 ATACCATACCTACGTTTCACAACTCGGTATGGATG
*
22672379 ATACCATACCTATGTTTCACAACTCGGTATGGATG
1 ATACCATACCTACGTTTCACAACTCGGTATGGATG
22672414 ATACCATACCTACGTTTCACAACTCGGTATGGATG
1 ATACCATACCTACGTTTCACAACTCGGTATGGATG
22672449 ATACCATACCTACGTTTCACA
1 ATACCATACCTACGTTTCACA
22672470 CTTTGCCATG
Statistics
Matches: 226, Mismatches: 36, Indels: 4
0.85 0.14 0.02
Matches are distributed among these distances:
34 55 0.24
35 171 0.76
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.30
Consensus pattern (35 bp):
ATACCATACCTACGTTTCACAACTCGGTATGGATG
Found at i:22674757 original size:46 final size:45
Alignment explanation
Indices: 22674659--22674786 Score: 177
Period size: 46 Copynumber: 2.8 Consensus size: 45
22674649 TATTGTCTGT
* * *
22674659 CATGTGCATGATAGAAATGGA-TTTGTTTGTGTTAAAGTGTATGA
1 CATGTGCATGATAGAAATGGATTTTTTTTGTATTAAAATGTATGA
* *
22674703 CATGTGCATGATAGACATGGATTTTTTATTGTATTAAAATGTATGG
1 CATGTGCATGATAGAAATGGATTTTTT-TTGTATTAAAATGTATGA
*
22674749 CATGTGCATGATAGAAATTGATTTTTTTTTGTATTAAA
1 CATGTGCATGATAGAAATGGA-TTTTTTTTGTATTAAA
22674787 GTATTTGGTT
Statistics
Matches: 74, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
44 20 0.27
45 4 0.05
46 44 0.59
47 6 0.08
ACGTcount: A:0.30, C:0.05, G:0.22, T:0.42
Consensus pattern (45 bp):
CATGTGCATGATAGAAATGGATTTTTTTTGTATTAAAATGTATGA
Found at i:22679816 original size:10 final size:10
Alignment explanation
Indices: 22679801--22679828 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
22679791 ACGGTTCCAG
22679801 GACCTCTCGA
1 GACCTCTCGA
22679811 GACCTCTCGA
1 GACCTCTCGA
22679821 GACCTCTC
1 GACCTCTC
22679829 ACTCCATGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.18, C:0.43, G:0.18, T:0.21
Consensus pattern (10 bp):
GACCTCTCGA
Found at i:22697759 original size:28 final size:29
Alignment explanation
Indices: 22697699--22697765 Score: 82
Period size: 28 Copynumber: 2.3 Consensus size: 29
22697689 TTAAAATATA
* * * *
22697699 AAAAATTCAAAAAAGTATAAAATTTGTTTT
1 AAAAATT-AAAAAAATATAAAATGTATTAT
22697729 AAAAATTAAAAAAATATAAAA-GTATTAT
1 AAAAATTAAAAAAATATAAAATGTATTAT
22697757 AAAAATTAA
1 AAAAATTAA
22697766 TTAATTGCTA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 13 0.39
29 13 0.39
30 7 0.21
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.31
Consensus pattern (29 bp):
AAAAATTAAAAAAATATAAAATGTATTAT
Found at i:22702331 original size:10 final size:10
Alignment explanation
Indices: 22702301--22702339 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
22702291 TATGGGAAAA
22702301 TTTATAATTT
1 TTTATAATTT
*
22702311 TTT-TTATTT
1 TTTATAATTT
22702320 TTCTATAATTT
1 TT-TATAATTT
22702331 TTTATAATT
1 TTTATAATT
22702340 AAAGCAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
9 7 0.28
10 11 0.44
11 7 0.28
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.72
Consensus pattern (10 bp):
TTTATAATTT
Found at i:22705277 original size:6 final size:6
Alignment explanation
Indices: 22705266--22705290 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
22705256 AGTTTGTTAA
22705266 GGCTTG GGCTTG GGCTTG GGCTTG G
1 GGCTTG GGCTTG GGCTTG GGCTTG G
22705291 TAAGTAGGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.16, G:0.52, T:0.32
Consensus pattern (6 bp):
GGCTTG
Found at i:22710748 original size:19 final size:19
Alignment explanation
Indices: 22710724--22710760 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
22710714 TTTCTTGTTC
22710724 TTGTTTACACGAATTGAAA
1 TTGTTTACACGAATTGAAA
22710743 TTGTTTACACGAATTGAA
1 TTGTTTACACGAATTGAA
22710761 CTTATGATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.38
Consensus pattern (19 bp):
TTGTTTACACGAATTGAAA
Found at i:22723433 original size:13 final size:13
Alignment explanation
Indices: 22723415--22723439 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22723405 TAAGATAAAT
22723415 TTGCTTGTGTTTG
1 TTGCTTGTGTTTG
22723428 TTGCTTGTGTTT
1 TTGCTTGTGTTT
22723440 TAGACCCTAG
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:0.00, C:0.08, G:0.28, T:0.64
Consensus pattern (13 bp):
TTGCTTGTGTTTG
Found at i:22728651 original size:19 final size:19
Alignment explanation
Indices: 22728627--22728666 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
22728617 GCGCGACCCA
22728627 TTTTTTT-AATAATATAAT
1 TTTTTTTAAATAATATAAT
* *
22728645 TTTTTTTAAATATTATTAT
1 TTTTTTTAAATAATATAAT
22728664 TTT
1 TTT
22728667 ATTATATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
TTTTTTTAAATAATATAAT
Found at i:22728923 original size:3 final size:3
Alignment explanation
Indices: 22728908--22728952 Score: 56
Period size: 3 Copynumber: 15.0 Consensus size: 3
22728898 TGCAGCAGCA
* *
22728908 AAG AGAG AA- AAG AAG AAG AAG AAG AAG AAA AAG AAG AAG GAG AAG
1 AAG A-AG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
22728953 GAGGAGAAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
2 2 0.06
3 31 0.86
4 3 0.08
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:22731680 original size:12 final size:12
Alignment explanation
Indices: 22731663--22731707 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
22731653 CCAACTCCGA
*
22731663 AGCCAGAGCCAG
1 AGCCAGAGCCGG
22731675 AGCCAGAGCCGG
1 AGCCAGAGCCGG
* *
22731687 AGGCAGTGCCGG
1 AGCCAGAGCCGG
*
22731699 ACCCAGAGC
1 AGCCAGAGC
22731708 GGCGGCCAGA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.27, C:0.33, G:0.38, T:0.02
Consensus pattern (12 bp):
AGCCAGAGCCGG
Found at i:22735929 original size:19 final size:17
Alignment explanation
Indices: 22735906--22735947 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
22735896 TAAAATATAA
* *
22735906 TAAAATAATAATATT-T
1 TAAAAAAATTATATTAT
22735922 TAAAAAAATTATATTAT
1 TAAAAAAATTATATTAT
22735939 TAAAAAAAT
1 TAAAAAAAT
22735948 GGGTCGCGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 13 0.57
17 10 0.43
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TAAAAAAATTATATTAT
Found at i:22741021 original size:17 final size:17
Alignment explanation
Indices: 22740999--22741034 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
22740989 TAAACCGACC
22740999 ACTAACTCCATCACCCT
1 ACTAACTCCATCACCCT
*
22741016 ACTAACTTCATCACCCT
1 ACTAACTCCATCACCCT
22741033 AC
1 AC
22741035 CTTCCACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.31, C:0.44, G:0.00, T:0.25
Consensus pattern (17 bp):
ACTAACTCCATCACCCT
Found at i:22741547 original size:10 final size:10
Alignment explanation
Indices: 22741525--22741561 Score: 65
Period size: 10 Copynumber: 3.6 Consensus size: 10
22741515 TTCTTTTGTA
22741525 TATTTTCATTC
1 TATTTT-ATTC
22741536 TATTTTATTC
1 TATTTTATTC
22741546 TATTTTATTC
1 TATTTTATTC
22741556 TATTTT
1 TATTTT
22741562 CTTTTTTATG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 20 0.77
11 6 0.23
ACGTcount: A:0.19, C:0.11, G:0.00, T:0.70
Consensus pattern (10 bp):
TATTTTATTC
Found at i:22741989 original size:25 final size:25
Alignment explanation
Indices: 22741961--22742010 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
22741951 AGATAGATCA
*
22741961 ATATTT-TGTATTTTATGCATTAATT
1 ATATTTATGTATTTTAT-AATTAATT
*
22741986 ATATTTATTTATTTTATAATTAATT
1 ATATTTATGTATTTTATAATTAATT
22742011 TTAAAGTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 13 0.59
26 9 0.41
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (25 bp):
ATATTTATGTATTTTATAATTAATT
Found at i:22744055 original size:19 final size:19
Alignment explanation
Indices: 22744031--22744075 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
22744021 CTTACTTTCT
22744031 TTTGCATT-CATTCCATGCA
1 TTTGCATTGCATTCCAT-CA
*
22744050 TTTGCATTGCATTGCATCA
1 TTTGCATTGCATTCCATCA
*
22744069 TGTGCAT
1 TTTGCAT
22744076 CAAACTTCAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.20, C:0.22, G:0.16, T:0.42
Consensus pattern (19 bp):
TTTGCATTGCATTCCATCA
Found at i:22748449 original size:64 final size:64
Alignment explanation
Indices: 22748374--22748501 Score: 184
Period size: 64 Copynumber: 2.0 Consensus size: 64
22748364 TCATTCATAA
* *
22748374 CACATCTAGTTAGGAGTATTTGATTCATTTCGATCATAGCATCCTAATTATTTGATATAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
* * * * * *
22748438 CACATTTAGTTAGGAGCATTTGGTTTATTTCGATCATAGTATCTTAATTATTTGGCATAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
22748502 AGATACATGA
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
64 56 1.00
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.41
Consensus pattern (64 bp):
CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
Found at i:22748659 original size:45 final size:44
Alignment explanation
Indices: 22748602--22748887 Score: 188
Period size: 45 Copynumber: 6.4 Consensus size: 44
22748592 GGAATTGATC
*
22748602 GAAAATGACAAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGATT
1 GAAAAT-ACAAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGACT
* * * * *
22748647 GAAGATAGCAAGTCTTATCTTCTTGAAGTTGCAA-GAAGTAGACT
1 GAAAATA-CAAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGACT
* * * * *
22748691 GAAAATTAC-AGATCTTATCTCCATGTA-TCGGCTATGGAGCAGATT
1 GAAAA-TACAAG-TCTTATCTCCCTGAAGT-TGCAATGGAGCAGACT
** *** * * * *
22748736 TTAGCCACTAGTCTTATCTTCCTGAAGTTGCAGT-AAGCAGACT
1 GAAAATACAAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGACT
* * * * *
22748779 GAAAATTTAC-AGATCTTATCTCCATGTA-TCGGCTATGGAGCAGATT
1 GAAAA--TACAAG-TCTTATCTCCCTGAAGT-TGCAATGGAGCAGACT
*
22748825 GAAAATGACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT
1 GAAAAT-ACAAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGACT
*
22748870 GAAGATAGCAAGTCTTAT
1 GAAAATA-CAAGTCTTAT
22748888 AGGAAGCAGA
Statistics
Matches: 177, Mismatches: 48, Indels: 32
0.69 0.19 0.12
Matches are distributed among these distances:
43 11 0.06
44 50 0.28
45 101 0.57
46 15 0.08
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.29
Consensus pattern (44 bp):
GAAAATACAAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGACT
Found at i:22748728 original size:89 final size:91
Alignment explanation
Indices: 22748635--22748872 Score: 326
Period size: 89 Copynumber: 2.7 Consensus size: 91
22748625 TGAAGTTGCA
* *
22748635 ATGGAGCAGATTGAAGATAGCAAGTCTTATCTTCTTGAAGTTGCAAG-AAGTAGACTGAAAA-TT
1 ATGGAGCAGATTGAAGATAGCAAGTCTTATCTTCCTGAAGTTGCAAGTAAGCAGACTGAAAATTT
22748698 ACAGATCTTATCTCCATGTATCGGCT
66 ACAGATCTTATCTCCATGTATCGGCT
** ** *
22748724 ATGGAGCAGATTTTAGCCA-CTAGTCTTATCTTCCTGAAGTTGC-AGTAAGCAGACTGAAAATTT
1 ATGGAGCAGATTGAAGATAGCAAGTCTTATCTTCCTGAAGTTGCAAGTAAGCAGACTGAAAATTT
22748787 ACAGATCTTATCTCCATGTATCGGCT
66 ACAGATCTTATCTCCATGTATCGGCT
* * *
22748813 ATGGAGCAGATTGAAAAT-GACAAGTCTTATCTCCCTGAAGTTGC-AGTGGAGCAGACTGAA
1 ATGGAGCAGATTGAAGATAG-CAAGTCTTATCTTCCTGAAGTTGCAAGT-AAGCAGACTGAA
22748873 GATAGCAAGT
Statistics
Matches: 129, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
87 2 0.02
88 35 0.27
89 56 0.43
90 25 0.19
91 11 0.09
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (91 bp):
ATGGAGCAGATTGAAGATAGCAAGTCTTATCTTCCTGAAGTTGCAAGTAAGCAGACTGAAAATTT
ACAGATCTTATCTCCATGTATCGGCT
Found at i:22748936 original size:120 final size:122
Alignment explanation
Indices: 22748770--22749142 Score: 407
Period size: 120 Copynumber: 3.0 Consensus size: 122
22748760 AAGTTGCAGT
22748770 AAGCAGACTGAAAATTTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATTGAAAATGACA
1 AAGCAGACTGAAAATTTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATTGAAAATGACA
* *
22748835 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAGTCTTAT-AGG
66 AGTCTTATCTCCATGAAGTTGCAGTGGAGCAGACTAAAGATAGCAAGTCTTATCAGG
* *
22748891 AAGCAGACTG-AAAGTTACAGATCTTATTTCCATGTATCGGCTATGGAGCAGATT-AGAAATGAC
1 AAGCAGACTGAAAATTTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATTGA-AAATGAC
* ** * * ** *
22748954 GAGTCTTATCTCCATCTA-TCGGCTA-TGGAGCAGATTTTAGCCACTAGTCTTA-TCTTCCTGAA
65 AAGTCTTATCTCCATGAAGT-TGC-AGTGGAGCAGACTAAAG--A-TAG-C-AAGTC-T--T--A
22749016 GTTGCAGG
118 --T-CAGG
* * *
22749024 AAGCAGACTGAAAATTTACAGATCTTATCTCCATGTATTGGCTATGGAGCAGATAGAAAATAACA
1 AAGCAGACTGAAAATTTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATTGAAAATGACA
* *
22749089 AGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTAAAGACAGCAAGTCTTATC
66 AGTCTTATCTCCATGAAGTTGCAGTGGAGCAGACTAAAGATAGCAAGTCTTATC
22749143 TTCCTGAAGT
Statistics
Matches: 204, Mismatches: 26, Indels: 43
0.75 0.10 0.16
Matches are distributed among these distances:
119 2 0.01
120 77 0.38
121 11 0.05
122 2 0.01
123 4 0.02
124 3 0.01
125 3 0.01
127 2 0.01
129 3 0.01
130 3 0.01
131 3 0.01
132 1 0.00
133 14 0.07
134 74 0.36
135 2 0.01
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (122 bp):
AAGCAGACTGAAAATTTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATTGAAAATGACA
AGTCTTATCTCCATGAAGTTGCAGTGGAGCAGACTAAAGATAGCAAGTCTTATCAGG
Found at i:22749052 original size:45 final size:44
Alignment explanation
Indices: 22748999--22749191 Score: 147
Period size: 45 Copynumber: 4.3 Consensus size: 44
22748989 TTTAGCCACT
22748999 AGTCTTATCTTCC-TGAAGTTGCAGGAAGCAGACTGAAAATTTACAG
1 AGTCTTATC-TCCATGAAGTTGCAGGAAGCAGACT-AAAA-TTACAG
* *
22749045 A-TCTTATCTCCATGTA-TTGGCTATGG-AGCAGA-TAGAAAATAACA-
1 AGTCTTATCTCCATGAAGTT-GC-A-GGAAGCAGACT--AAAATTACAG
* * *
22749089 AGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACT-AAA-GACAG
1 AGTCTTATCTCCATGAAGTTGCAG-GAAGCAGACTAAAATTACAG
22749132 CAAGTCTTATCTTCC-TGAAGTTGCAGGAAGCAGACTAAAAATTACAG
1 --AGTCTTATC-TCCATGAAGTTGCAGGAAGCAGACT-AAAATTACAG
22749179 A-TCTTA-CTCCATG
1 AGTCTTATCTCCATG
22749192 TATTGGCTAT
Statistics
Matches: 122, Mismatches: 7, Indels: 39
0.73 0.04 0.23
Matches are distributed among these distances:
42 6 0.05
43 7 0.06
44 22 0.18
45 59 0.48
46 22 0.18
47 6 0.05
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (44 bp):
AGTCTTATCTCCATGAAGTTGCAGGAAGCAGACTAAAATTACAG
Found at i:22749177 original size:134 final size:133
Alignment explanation
Indices: 22748888--22749339 Score: 446
Period size: 134 Copynumber: 3.4 Consensus size: 133
22748878 CAAGTCTTAT
* * * *
22748888 AGGAAGCAGACTGAAAGTTACAGATCTTATTTCCATGTATCGGCTATGGAGCAGATTAGAAATGA
1 AGGAAGCAGACTAAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGA-TAGAAATAA
* * ** * * ** * *
22748953 CGAGTCTTATCTCCATCTA-TCGGCTA-TGGAGCAGATTTTAGCCACTAGTCTTATCTTCCTGAA
65 CAAGTCTTATCTCCTTGAAGT-AGCAAGTGGAGCAGATTAAAGACACAAGTCTTATCTTCCTGAA
22749016 GTTGC
129 GTTGC
* *
22749021 AGGAAGCAGACTGAAAATTTACAGATCTTATCTCCATGTATTGGCTATGGAGCAGATAGAAAATA
1 AGGAAGCAGACT-AAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATAG-AAATA
* *
22749086 ACAAGTCTTATCTCCTTGAAGTTGC-AGTGGAGCAGACTAAAGACAGCAAGTCTTATCTTCCTGA
64 ACAAGTCTTATCTCCTTGAAGTAGCAAGTGGAGCAGATTAAAGACA-CAAGTCTTATCTTCCTGA
22749150 AGTTGC
128 AGTTGC
* * * *** ***
22749156 AGGAAGCAGACTAAAAATTACAGATCTTA-CTCCATGTATTGGCTATGAAGTAGATTTTAGCCAC
1 AGGAAGCAGACTAAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATAGAAATAAC
* * ** * * * * * * *
22749220 CAGCCTTATCTGTTTGAGGTAGCAAG-AGAGCAGGTTGAAGATATAGGTCTTATCTTCCTGAAGT
66 AAGTCTTATCTCCTTGAAGTAGCAAGTGGAGCAGATTAAAGACACAAGTCTTATCTTCCTGAAGT
22749284 TGC
131 TGC
* * * *
22749287 AAGAAGCAGACTGAAAAGTACAGATCTTATCTCCATGTATCGTCTATGGAGCA
1 AGGAAGCAGACTAAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCA
22749340 AATTTTAGCC
Statistics
Matches: 268, Mismatches: 44, Indels: 15
0.82 0.13 0.05
Matches are distributed among these distances:
131 48 0.18
132 51 0.19
133 42 0.16
134 91 0.34
135 36 0.13
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (133 bp):
AGGAAGCAGACTAAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATAGAAATAAC
AAGTCTTATCTCCTTGAAGTAGCAAGTGGAGCAGATTAAAGACACAAGTCTTATCTTCCTGAAGT
TGC
Found at i:22749647 original size:17 final size:17
Alignment explanation
Indices: 22749625--22749660 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
22749615 TAAACCGACC
22749625 ACTAACTCCATCACCCT
1 ACTAACTCCATCACCCT
22749642 ACTAACTCCATCACCCT
1 ACTAACTCCATCACCCT
22749659 AC
1 AC
22749661 CTTCCACTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.31, C:0.47, G:0.00, T:0.22
Consensus pattern (17 bp):
ACTAACTCCATCACCCT
Found at i:22755938 original size:12 final size:12
Alignment explanation
Indices: 22755923--22755981 Score: 50
Period size: 11 Copynumber: 4.8 Consensus size: 12
22755913 CCTTTTTTTC
22755923 ACTTTTTTTATT
1 ACTTTTTTTATT
22755935 AC-TTTTTTATT
1 ACTTTTTTTATT
*
22755946 AATTTTTGTCTATT
1 ACTTTTT-T-TATT
*
22755960 TCTTTATTTT-TT
1 ACTTT-TTTTATT
*
22755972 TCTTTTTTTA
1 ACTTTTTTTA
22755982 AGTTTTATAT
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
11 14 0.36
12 13 0.33
13 2 0.05
14 8 0.21
15 2 0.05
ACGTcount: A:0.15, C:0.08, G:0.02, T:0.75
Consensus pattern (12 bp):
ACTTTTTTTATT
Found at i:22756018 original size:13 final size:13
Alignment explanation
Indices: 22756002--22756044 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
22755992 TTTTTCTTAT
*
22756002 TTTATTTTGTTTA
1 TTTATTTTATTTA
22756015 TTTATTTTATTTA
1 TTTATTTTATTTA
* *
22756028 TTTTTTGTTATTAA
1 TTTATT-TTATTTA
22756042 TTT
1 TTT
22756045 TAAAAAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
13 17 0.65
14 9 0.35
ACGTcount: A:0.19, C:0.00, G:0.05, T:0.77
Consensus pattern (13 bp):
TTTATTTTATTTA
Found at i:22756039 original size:10 final size:9
Alignment explanation
Indices: 22755998--22756031 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
22755988 ATATTTTTTC
22755998 TTATTTTAT
1 TTATTTTAT
22756007 TT-TGTTTAT
1 TTAT-TTTAT
22756016 TTATTTTAT
1 TTATTTTAT
22756025 TTATTTT
1 TTATTTT
22756032 TTGTTATTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 1 0.04
9 21 0.91
10 1 0.04
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (9 bp):
TTATTTTAT
Found at i:22756109 original size:11 final size:11
Alignment explanation
Indices: 22756076--22756117 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
22756066 TAATATATAT
22756076 TTTTTAAA--A
1 TTTTTAAATTA
*
22756085 TTTTAAATATTA
1 TTTTTAA-ATTA
22756097 TTTTTAAATTA
1 TTTTTAAATTA
22756108 TTTTTAAATT
1 TTTTTAAATT
22756118 TTGAATATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
9 6 0.21
10 1 0.04
11 14 0.50
12 7 0.25
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TTTTTAAATTA
Found at i:22756110 original size:23 final size:24
Alignment explanation
Indices: 22756056--22756116 Score: 65
Period size: 24 Copynumber: 2.5 Consensus size: 24
22756046 AAAAAATTTG
22756056 AAATGTTTTATAATATATATTTTTTA
1 AAAT-TTTTA-AATATATATTTTTTA
22756082 AAA-TTTTAAATAT-TA-TTTTTA
1 AAATTTTTAAATATATATTTTTTA
22756103 AATTATTTTTAAAT
1 AA--ATTTTTAAAT
22756117 TTTGAATATT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
21 8 0.25
22 2 0.06
23 6 0.19
24 13 0.41
26 3 0.09
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (24 bp):
AAATTTTTAAATATATATTTTTTA
Found at i:22756193 original size:36 final size:32
Alignment explanation
Indices: 22756073--22756341 Score: 126
Period size: 36 Copynumber: 8.0 Consensus size: 32
22756063 TTATAATATA
22756073 TATTTTTTAAAATTTTAAATATTATTTTTAAAT
1 TATTTTTT-AAATTTTAAATATTATTTTTAAAT
*
22756106 TA-TTTTTAAATTTTGAATATTATTTTTTAAAAT
1 TATTTTTTAAATTTTAAATATTA-TTTTT-AAAT
* * *
22756139 TATGTCTTATAAAATTTAAAAATATATTTTTGAAAT
1 TAT-T-TTTTAAATTTTAAATAT-TATTTTT-AAAT
22756175 TAATTTTTCTAAATTTTAAATTTTAAATATATTTTTAAAAAT
1 T-ATTTTT-TAAATTTTAAA---T--AT-TATTTTT--AAAT
* *** * ** *
22756217 ATATTTTTAAACAAAATAAA-ATAATTTCAAAAA
1 -TATTTTTTAA-ATTTTAAATATTATTTTTAAAT
* *
22756250 TATATATTTAAATTTTAAATA-TATATTTGAAAT
1 TAT-TTTTTAAATTTTAAATATTAT-TTTTAAAT
* *
22756283 TATTTCTT--A---TAAAT-TTTTTTTTGAAAT
1 TATTTTTTAAATTTTAAATATTATTTTT-AAAT
22756310 TATTTTTT-AATTTTAAATATTATTTTTAAAT
1 TATTTTTTAAATTTTAAATATTATTTTTAAAT
22756341 T
1 T
22756342 TTAAATATTA
Statistics
Matches: 177, Mismatches: 33, Indels: 54
0.67 0.12 0.20
Matches are distributed among these distances:
26 3 0.02
27 18 0.10
28 1 0.01
30 1 0.01
31 24 0.14
32 30 0.17
33 25 0.14
35 7 0.04
36 36 0.20
37 4 0.02
41 12 0.07
42 15 0.08
43 1 0.01
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (32 bp):
TATTTTTTAAATTTTAAATATTATTTTTAAAT
Found at i:22756216 original size:14 final size:14
Alignment explanation
Indices: 22756199--22756227 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
22756189 TTTAAATTTT
22756199 AAATATATTTTTAA
1 AAATATATTTTTAA
22756213 AAATATATTTTTAA
1 AAATATATTTTTAA
22756227 A
1 A
22756228 CAAAATAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
AAATATATTTTTAA
Found at i:22756263 original size:21 final size:20
Alignment explanation
Indices: 22756246--22756283 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
22756236 AATAATTTCA
22756246 AAAATATATATTT-AAATTT
1 AAAATATATATTTGAAATTT
*
22756265 TAAATATATATTTGAAATT
1 AAAATATATATTTGAAATT
22756284 ATTTCTTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (20 bp):
AAAATATATATTTGAAATTT
Found at i:22756271 original size:19 final size:19
Alignment explanation
Indices: 22756247--22756354 Score: 78
Period size: 20 Copynumber: 5.6 Consensus size: 19
22756237 ATAATTTCAA
22756247 AAATATATATTTAAATTTT
1 AAATATATATTTAAATTTT
22756266 AAATATATATTTGAAATTATT
1 AAATATATATTT-AAATT-TT
*** * **
22756287 TCTTATAAATTT-TTTTTT
1 AAATATATATTTAAATTTT
* *
22756305 GAAAT-TATTTTTTAATTTT
1 -AAATATATATTTAAATTTT
*
22756324 AAATATTATTTTTAAATTTT
1 AAATA-TATATTTAAATTTT
22756344 AAATAT-TATTT
1 AAATATATATTT
22756355 TTAATAATAT
Statistics
Matches: 68, Mismatches: 15, Indels: 13
0.71 0.16 0.14
Matches are distributed among these distances:
18 15 0.22
19 20 0.29
20 23 0.34
21 10 0.15
ACGTcount: A:0.39, C:0.01, G:0.02, T:0.58
Consensus pattern (19 bp):
AAATATATATTTAAATTTT
Found at i:22756315 original size:13 final size:13
Alignment explanation
Indices: 22756275--22756317 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
22756265 TAAATATATA
22756275 TTTGAAATTATTT
1 TTTGAAATTATTT
*
22756288 CTTAT-AAATTTTTT
1 -TT-TGAAATTATTT
22756302 TTTGAAATTATTT
1 TTTGAAATTATTT
22756315 TTT
1 TTT
22756318 AATTTTAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
12 1 0.04
13 13 0.52
14 10 0.40
15 1 0.04
ACGTcount: A:0.28, C:0.02, G:0.05, T:0.65
Consensus pattern (13 bp):
TTTGAAATTATTT
Found at i:22756315 original size:14 final size:14
Alignment explanation
Indices: 22756275--22756317 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
22756265 TAAATATATA
22756275 TTTGAAATTATTTCT
1 TTTGAAATTATTT-T
*
22756290 TAT-AAATT-TTTT
1 TTTGAAATTATTTT
22756302 TTTGAAATTATTTT
1 TTTGAAATTATTTT
22756316 TT
1 TT
22756318 AATTTTAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
12 3 0.12
13 8 0.33
14 11 0.46
15 2 0.08
ACGTcount: A:0.28, C:0.02, G:0.05, T:0.65
Consensus pattern (14 bp):
TTTGAAATTATTTT
Found at i:22756357 original size:20 final size:20
Alignment explanation
Indices: 22756308--22756358 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
22756298 TTTTTTTGAA
*
22756308 ATTATTTTTTAATTTTAAAT
1 ATTATTTTTAAATTTTAAAT
22756328 ATTATTTTTAAATTTTAAAT
1 ATTATTTTTAAATTTTAAAT
22756348 ATTATTTTTAA
1 ATTATTTTTAA
22756359 TAATATTTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
ATTATTTTTAAATTTTAAAT
Found at i:22756373 original size:32 final size:32
Alignment explanation
Indices: 22756319--22756379 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 32
22756309 TTATTTTTTA
* ** *
22756319 ATTTTAAATATTATTTTTAAATTTTAAATATT
1 ATTTTAAATAATATTTAAAAATTTAAAATATT
*
22756351 ATTTTTAATAATATTTAAAAATTTAAAAT
1 ATTTTAAATAATATTTAAAAATTTAAAAT
22756380 TTTTAAATAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 24 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (32 bp):
ATTTTAAATAATATTTAAAAATTTAAAATATT
Found at i:22756469 original size:25 final size:26
Alignment explanation
Indices: 22756441--22756490 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
22756431 AAAAATAATT
*
22756441 AAAAATCATA-ATTTCAAAAATTTAG
1 AAAAATAATATATTTCAAAAATTTAG
**
22756466 AAAAATAATATATTTTTAAAATTTA
1 AAAAATAATATATTTCAAAAATTTA
22756491 AAATTTAGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 9 0.43
26 12 0.57
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (26 bp):
AAAAATAATATATTTCAAAAATTTAG
Done.