Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 ID=Chr04-JGI_221_v2.0
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: 62178258
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 912357 characters in sequence are not A, C, G, or T
File 76 of 198
Found at i:23749307 original size:21 final size:21
Alignment explanation
Indices: 23749268--23749309 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
23749258 TTTGCCTAAG
*
23749268 ATATGAATTAAATTGAATTGA
1 ATATGAATTAAATTAAATTGA
**
23749289 ATATGAATTGTATTAAATTGA
1 ATATGAATTAAATTAAATTGA
23749310 GTTAAATTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.14, T:0.40
Consensus pattern (21 bp):
ATATGAATTAAATTAAATTGA
Found at i:23749705 original size:23 final size:23
Alignment explanation
Indices: 23749637--23749705 Score: 61
Period size: 23 Copynumber: 2.9 Consensus size: 23
23749627 AAAGAGCGTC
*
23749637 CCGTTATTAGCTC-TCATGAGCTT
1 CCGTTAATAGCTCTTCA-GAGCTT
* *
23749660 CCTGTTATATGGTTCTTGC-GAGCTT
1 CC-GTTA-ATAGCTCTT-CAGAGCTT
23749685 CCGTTAATAGCTCTTCAGAGC
1 CCGTTAATAGCTCTTCAGAGC
23749706 ACCCCGATTG
Statistics
Matches: 36, Mismatches: 5, Indels: 10
0.71 0.10 0.20
Matches are distributed among these distances:
22 1 0.03
23 13 0.36
24 8 0.22
25 12 0.33
26 1 0.03
27 1 0.03
ACGTcount: A:0.17, C:0.25, G:0.20, T:0.38
Consensus pattern (23 bp):
CCGTTAATAGCTCTTCAGAGCTT
Found at i:23749902 original size:24 final size:24
Alignment explanation
Indices: 23749875--23749967 Score: 73
Period size: 25 Copynumber: 3.8 Consensus size: 24
23749865 TTCACGATAT
23749875 TAGCTCATATGAGCTTCTC-GTTAA
1 TAGCTCATATGAGCTTC-CAGTTAA
* *
23749899 TAGCTC-TCTGGAGCTTCCTGTTACA
1 TAGCTCATAT-GAGCTTCCAGTTA-A
* * *
23749924 TGGCTCACATGAGCTTCCAGTTTA
1 TAGCTCATATGAGCTTCCAGTTAA
*
23749948 TGTGCTCATATGAGCATTCC
1 T-AGCTCATATGAGC-TTCC
23749968 TGAATATGAA
Statistics
Matches: 55, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
23 3 0.05
24 19 0.35
25 28 0.51
26 5 0.09
ACGTcount: A:0.20, C:0.25, G:0.19, T:0.35
Consensus pattern (24 bp):
TAGCTCATATGAGCTTCCAGTTAA
Found at i:23757549 original size:27 final size:25
Alignment explanation
Indices: 23757510--23757560 Score: 66
Period size: 27 Copynumber: 2.0 Consensus size: 25
23757500 CCTGATATAT
*
23757510 GGCTTTTCAGAGCTTCCCGATTAAA
1 GGCTTTTCAGAGCTTCCCAATTAAA
*
23757535 GGCTCTTTCATGAGCTTTCCAATTAA
1 GGCT-TTTCA-GAGCTTCCCAATTAA
23757561 TTGGGTCTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 4 0.18
26 5 0.23
27 13 0.59
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.35
Consensus pattern (25 bp):
GGCTTTTCAGAGCTTCCCAATTAAA
Found at i:23757630 original size:24 final size:24
Alignment explanation
Indices: 23757600--23757654 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
23757590 TCACTTGAAC
*
23757600 CTTCCTGATATTAGCTCGTAT-GAG
1 CTTCCTGATAATAGCTC-TATGGAG
* *
23757624 CTTCCTGTTAATAGCTCTCTGGAG
1 CTTCCTGATAATAGCTCTATGGAG
23757648 CTTCCTG
1 CTTCCTG
23757655 TTACATGGCT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 2 0.07
24 25 0.93
ACGTcount: A:0.16, C:0.25, G:0.20, T:0.38
Consensus pattern (24 bp):
CTTCCTGATAATAGCTCTATGGAG
Found at i:23757673 original size:25 final size:24
Alignment explanation
Indices: 23757619--23757703 Score: 82
Period size: 25 Copynumber: 3.4 Consensus size: 24
23757609 ATTAGCTCGT
* *
23757619 ATGAGCTTCCTGTTAATAGCTCTC
1 ATGAGCTTCCTGTTAATGGCTCAC
23757643 -TGGAGCTTCCTGTTACATGGCTCAC
1 AT-GAGCTTCCTGTTA-ATGGCTCAC
* * *
23757668 ATGAGCTTCCCGTTTATGTGCTCAT
1 ATGAGCTTCCTGTTAATG-GCTCAC
23757693 ATGAGCATTCC
1 ATGAGC-TTCC
23757704 CAAATATGAA
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
23 1 0.02
24 16 0.31
25 29 0.57
26 5 0.10
ACGTcount: A:0.19, C:0.26, G:0.20, T:0.35
Consensus pattern (24 bp):
ATGAGCTTCCTGTTAATGGCTCAC
Found at i:23763324 original size:20 final size:20
Alignment explanation
Indices: 23763283--23763329 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
23763273 GTGTAGTCAA
23763283 AGGCACCAAAGTGCAAACAG
1 AGGCACCAAAGTGCAAACAG
* * * *
23763303 AGTCACCAAAGTGTATATAG
1 AGGCACCAAAGTGCAAACAG
23763323 AGGCACC
1 AGGCACC
23763330 GAACTTCAAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.40, C:0.23, G:0.23, T:0.13
Consensus pattern (20 bp):
AGGCACCAAAGTGCAAACAG
Found at i:23764395 original size:20 final size:19
Alignment explanation
Indices: 23764365--23764423 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 19
23764355 AACATTAAAT
23764365 TAAATTTAATATTAAGATAA
1 TAAA-TTAATATTAAGATAA
23764385 TAACATTAATATTAA-ATTAA
1 TAA-ATTAATATTAAGA-TAA
* *
23764405 TAAAATACTATTAAGATAA
1 TAAATTAATATTAAGATAA
23764424 GTATTAAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
19 13 0.38
20 20 0.59
21 1 0.03
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.37
Consensus pattern (19 bp):
TAAATTAATATTAAGATAA
Found at i:23764430 original size:37 final size:36
Alignment explanation
Indices: 23764383--23764465 Score: 98
Period size: 37 Copynumber: 2.3 Consensus size: 36
23764373 ATATTAAGAT
*
23764383 AATAACATTAATATTAAA-TTAATA-AAATACTATTAA
1 AATAATATTAA-ATTAAATTTAATATAAA-ACTATTAA
* *
23764419 GATAAGTATTAAATTAAATTTAATATTAAACTATTAA
1 AATAA-TATTAAATTAAATTTAATATAAAACTATTAA
23764456 AATAATATTA
1 AATAATATTA
23764466 TTTTTAGAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
36 15 0.38
37 23 0.57
38 2 0.05
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (36 bp):
AATAATATTAAATTAAATTTAATATAAAACTATTAA
Found at i:23764897 original size:19 final size:19
Alignment explanation
Indices: 23764859--23764898 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
23764849 AAAATATCAT
* * *
23764859 ATTAATTTTAATTTATTTG
1 ATTAATTTAAATGTACTTG
23764878 ATTAATTTAAATGTACTTG
1 ATTAATTTAAATGTACTTG
23764897 AT
1 AT
23764899 AAAATTTATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.35, C:0.03, G:0.07, T:0.55
Consensus pattern (19 bp):
ATTAATTTAAATGTACTTG
Found at i:23768634 original size:86 final size:87
Alignment explanation
Indices: 23768535--23768713 Score: 288
Period size: 86 Copynumber: 2.1 Consensus size: 87
23768525 AGTGTTCCAA
23768535 CTTTCAAATTGCCATTAAGATGATATCATTCAACATTAAAAAATTTCACACACTTTTATGA-TTT
1 CTTTCAAATTGCCATTAAGATGATATCATTCAACATTAAAAAATTTCACACACTTTTATGATTTT
* *
23768599 TCCAATGTGCATGTATAGTAAC
66 TCCAATGTCCATGTATAGCAAC
* *
23768621 CTTTCAAATTGCCATTAAGATGATATCATTCAACATTAAACAATTTCACATACTTTTATGATTTT
1 CTTTCAAATTGCCATTAAGATGATATCATTCAACATTAAAAAATTTCACACACTTTTATGA-TTT
* *
23768686 TTGCATTGTCCATGTATAGCAAC
65 TTCCAATGTCCATGTATAGCAAC
23768709 CTTTC
1 CTTTC
23768714 CAATATAACA
Statistics
Matches: 85, Mismatches: 6, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
86 59 0.69
88 26 0.31
ACGTcount: A:0.34, C:0.18, G:0.09, T:0.39
Consensus pattern (87 bp):
CTTTCAAATTGCCATTAAGATGATATCATTCAACATTAAAAAATTTCACACACTTTTATGATTTT
TCCAATGTCCATGTATAGCAAC
Found at i:23774874 original size:33 final size:33
Alignment explanation
Indices: 23774837--23774899 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
23774827 AAATTGAAAA
*
23774837 TGAGA-TAGGAAATGAAAAGAGAAAAAAAGAAGT
1 TGAGATTA-GAAAAGAAAAGAGAAAAAAAGAAGT
* *
23774870 TGAGATTAGAAAAGAAACGAGAGAAAAAGA
1 TGAGATTAGAAAAGAAAAGAGAAAAAAAGA
23774900 GATAAACGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
33 24 0.92
34 2 0.08
ACGTcount: A:0.60, C:0.02, G:0.27, T:0.11
Consensus pattern (33 bp):
TGAGATTAGAAAAGAAAAGAGAAAAAAAGAAGT
Found at i:23790347 original size:14 final size:14
Alignment explanation
Indices: 23790318--23790354 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
23790308 AAAATATAAT
23790318 TTTAATTTTAATTAA
1 TTTAA-TTTAATTAA
*
23790333 TTTAATTTGATTAA
1 TTTAATTTAATTAA
23790347 TTTAATTT
1 TTTAATTT
23790355 TACTTGATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 16 0.76
15 5 0.24
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (14 bp):
TTTAATTTAATTAA
Found at i:23790353 original size:19 final size:18
Alignment explanation
Indices: 23790325--23790365 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
23790315 AATTTTAATT
*
23790325 TTAATTAATTTAATTTGA
1 TTAATTAATTTAACTTGA
*
23790343 TTAATTTAATTTTACTTGA
1 TTAA-TTAATTTAACTTGA
23790362 TTAA
1 TTAA
23790366 AATTAATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (18 bp):
TTAATTAATTTAACTTGA
Found at i:23792866 original size:50 final size:50
Alignment explanation
Indices: 23792749--23792876 Score: 148
Period size: 50 Copynumber: 2.6 Consensus size: 50
23792739 AAGTTCATGA
* * * *
23792749 TTTAATTATGTCATGCATTATGTAACTCTCATAATAGTTATGTTTGCATC
1 TTTAATTATGTCATGCATTATGTAACTCCCATAATAGGTAAGTGTGCATC
* ** * *
23792799 TTAAATTATGAAATGCATTATGTAACTCCCATGATAGGTAAGTGTGCATT
1 TTTAATTATGTCATGCATTATGTAACTCCCATAATAGGTAAGTGTGCATC
* * *
23792849 TTTAATTAAGTCTTGCATTAAGTAACTC
1 TTTAATTATGTCATGCATTATGTAACTC
23792877 ATTTGTTCAT
Statistics
Matches: 63, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
50 63 1.00
ACGTcount: A:0.31, C:0.13, G:0.14, T:0.41
Consensus pattern (50 bp):
TTTAATTATGTCATGCATTATGTAACTCCCATAATAGGTAAGTGTGCATC
Found at i:23793940 original size:23 final size:22
Alignment explanation
Indices: 23793890--23793939 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
23793880 GAAGATAATG
*
23793890 AAAAAAGGAGATTAGAATTATA
1 AAAAAAGGACATTAGAATTATA
*
23793912 AAAAAAGGAACATTCGAATT-TA
1 AAAAAAGG-ACATTAGAATTATA
23793934 AAAAAA
1 AAAAAA
23793940 AATGATTCTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 16 0.64
23 9 0.36
ACGTcount: A:0.62, C:0.04, G:0.14, T:0.20
Consensus pattern (22 bp):
AAAAAAGGACATTAGAATTATA
Found at i:23794919 original size:21 final size:22
Alignment explanation
Indices: 23794880--23794946 Score: 63
Period size: 21 Copynumber: 3.3 Consensus size: 22
23794870 ATATTTTTTT
23794880 ATAAAAGAAAATGAAAGAA-AA
1 ATAAAAGAAAATGAAAGAAGAA
* * *
23794901 ATAAAAGAGATTGAGAGAAGAA
1 ATAAAAGAAAATGAAAGAAGAA
*
23794923 A-AAAA-AAAA-GAAA-AGGAA
1 ATAAAAGAAAATGAAAGAAGAA
23794941 ATAAAA
1 ATAAAA
23794947 AGAGAGTGTG
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
18 5 0.14
19 7 0.19
20 2 0.05
21 20 0.54
22 3 0.08
ACGTcount: A:0.73, C:0.00, G:0.18, T:0.09
Consensus pattern (22 bp):
ATAAAAGAAAATGAAAGAAGAA
Found at i:23794979 original size:15 final size:17
Alignment explanation
Indices: 23794943--23794983 Score: 59
Period size: 15 Copynumber: 2.5 Consensus size: 17
23794933 AAAAGGAAAT
23794943 AAAAAGAGAGTGTGTGA
1 AAAAAGAGAGTGTGTGA
*
23794960 GAAAAGA-AGT-TGTGA
1 AAAAAGAGAGTGTGTGA
23794975 AAAAAGAGA
1 AAAAAGAGA
23794984 ATGAAAGAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 11 0.52
16 4 0.19
17 6 0.29
ACGTcount: A:0.54, C:0.00, G:0.32, T:0.15
Consensus pattern (17 bp):
AAAAAGAGAGTGTGTGA
Found at i:23800409 original size:16 final size:16
Alignment explanation
Indices: 23800388--23800421 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
23800378 GTGCAATAAC
23800388 ATATTTGCCTATTAAG
1 ATATTTGCCTATTAAG
23800404 ATATTTGCCTATTAAG
1 ATATTTGCCTATTAAG
23800420 AT
1 AT
23800422 TTGTTTAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.44
Consensus pattern (16 bp):
ATATTTGCCTATTAAG
Found at i:23803819 original size:76 final size:75
Alignment explanation
Indices: 23803647--23803813 Score: 268
Period size: 76 Copynumber: 2.2 Consensus size: 75
23803637 TTATTAAAAA
*
23803647 TCGGGCCGGGCCGGGGCGGGCTCGGGCTTACTCTTTTTTCCCAGGCCGGGCCTGGGTAAAATTTC
1 TCGGGCCGGGCC-GGGCGGGCTCGGGCTTACTCTTTTTTCCCAGGCCGGGCCTGGGCAAAATTTC
23803712 AGGCCCATATT
65 AGGCCCATATT
23803723 TCGGGCCGGGCCAGGGCGGGCTCGGG-TTACTCTTTTTTTCCC-GGTCCGGGCCTGGGCAAAATT
1 TCGGGCCGGGCC-GGGCGGGCTCGGGCTTACTC-TTTTTTCCCAGG-CCGGGCCTGGGCAAAATT
23803786 TCAGGCCCAT-TT
63 TCAGGCCCATATT
23803798 TCGGGCCGGGCCGGGC
1 TCGGGCCGGGCCGGGC
23803814 CCGGGCCTAA
Statistics
Matches: 87, Mismatches: 2, Indels: 6
0.92 0.02 0.06
Matches are distributed among these distances:
74 4 0.05
75 22 0.25
76 61 0.70
ACGTcount: A:0.10, C:0.30, G:0.36, T:0.24
Consensus pattern (75 bp):
TCGGGCCGGGCCGGGCGGGCTCGGGCTTACTCTTTTTTCCCAGGCCGGGCCTGGGCAAAATTTCA
GGCCCATATT
Found at i:23807832 original size:20 final size:22
Alignment explanation
Indices: 23807799--23807839 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
23807789 AGACTAATTT
23807799 TTATCCTAAATTTT-AATTTAA
1 TTATCCTAAATTTTCAATTTAA
*
23807820 TTAT-CTAATTTTTCAATTTA
1 TTATCCTAAATTTTCAATTTA
23807840 TTGAATTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.34, C:0.10, G:0.00, T:0.56
Consensus pattern (22 bp):
TTATCCTAAATTTTCAATTTAA
Found at i:23807871 original size:25 final size:25
Alignment explanation
Indices: 23807811--23807871 Score: 63
Period size: 25 Copynumber: 2.4 Consensus size: 25
23807801 ATCCTAAATT
*
23807811 TTAATTTAATTATCTAATTTTTCAA
1 TTAATTAAATTATCTAATTTTTCAA
* *
23807836 TTTATTGAATTAT-TAATATTTT-ATA
1 TTAATTAAATTATCTAAT-TTTTCA-A
23807861 TTAATTAAATT
1 TTAATTAAATT
23807872 TTTGAGAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
24 5 0.17
25 25 0.83
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.57
Consensus pattern (25 bp):
TTAATTAAATTATCTAATTTTTCAA
Found at i:23815448 original size:27 final size:27
Alignment explanation
Indices: 23815418--23815477 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
23815408 AGCTAAAGTT
*
23815418 CACCAAAAGGCTTGGCGAGCTAGTATA
1 CACCAAAAGGCTTGGCGAGATAGTATA
** * *
23815445 CACCAGGAGGTTTGGCGAGATGGTATA
1 CACCAAAAGGCTTGGCGAGATAGTATA
*
23815472 CGCCAA
1 CACCAA
23815478 CAAGATCTGA
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.30, C:0.22, G:0.30, T:0.18
Consensus pattern (27 bp):
CACCAAAAGGCTTGGCGAGATAGTATA
Found at i:23827491 original size:21 final size:21
Alignment explanation
Indices: 23827465--23827512 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
23827455 CCTAGAAATT
23827465 ATGAAAGAGTAAAAATTTGCA
1 ATGAAAGAGTAAAAATTTGCA
23827486 ATGAAAGAGTAAAAATTTGCA
1 ATGAAAGAGTAAAAATTTGCA
23827507 ATGAAA
1 ATGAAA
23827513 CAGTTTTGGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.54, C:0.04, G:0.19, T:0.23
Consensus pattern (21 bp):
ATGAAAGAGTAAAAATTTGCA
Found at i:23830150 original size:14 final size:14
Alignment explanation
Indices: 23830114--23830147 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
23830104 TCATCATTTG
23830114 CCTATAACCAAAAC
1 CCTATAACCAAAAC
23830128 CCTATAACCAAAAC
1 CCTATAACCAAAAC
23830142 CC-ATAA
1 CCTATAA
23830148 ACCCATACCA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.50, C:0.35, G:0.00, T:0.15
Consensus pattern (14 bp):
CCTATAACCAAAAC
Found at i:23841329 original size:27 final size:27
Alignment explanation
Indices: 23841284--23841341 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
23841274 CTAACGGACT
* *
23841284 ATTCCTTCAGCGTTCGTCATATTTACC
1 ATTCCTTCAGAGTTCGTCACATTTACC
*
23841311 ATTCCTTCAGAGTTTGTCACATTTACC
1 ATTCCTTCAGAGTTCGTCACATTTACC
23841338 ATTC
1 ATTC
23841342 TTCCCTTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.21, C:0.28, G:0.10, T:0.41
Consensus pattern (27 bp):
ATTCCTTCAGAGTTCGTCACATTTACC
Found at i:23841501 original size:26 final size:28
Alignment explanation
Indices: 23841424--23841512 Score: 98
Period size: 27 Copynumber: 3.3 Consensus size: 28
23841414 CATAATGGCA
*
23841424 TTCC-TTTCTATAGA-TCGCCACAAAGGC
1 TTCCATTTC-ATAGATTTGCCACAAAGGC
*
23841451 TTCCATTTCATAGGTTT-CCACAAA-GC
1 TTCCATTTCATAGATTTGCCACAAAGGC
* *
23841477 TT-CATTTCATATATTTGCCATAAAGGC
1 TTCCATTTCATAGATTTGCCACAAAGGC
23841504 TTCCATTTC
1 TTCCATTTC
23841513 TTCAGTGTAT
Statistics
Matches: 52, Mismatches: 5, Indels: 9
0.79 0.08 0.14
Matches are distributed among these distances:
25 12 0.23
26 10 0.19
27 19 0.37
28 11 0.21
ACGTcount: A:0.26, C:0.26, G:0.11, T:0.37
Consensus pattern (28 bp):
TTCCATTTCATAGATTTGCCACAAAGGC
Found at i:23846960 original size:102 final size:102
Alignment explanation
Indices: 23846779--23846979 Score: 312
Period size: 102 Copynumber: 2.0 Consensus size: 102
23846769 GAATATAAAG
* * * * *
23846779 GGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTACTGGTTCTACCGTATCTT
1 GGGGTTGCTAAGTACTGATTCCCCGAATCATTGGTGGTTGCTAAGTACTGATCCCACCGTATCTT
*
23846844 AAATATGAAGGGGGTTGCTAAGTGCTAATTCCCCCGA
66 AAATATGAAAGGGGTTGCTAAGTGCTAATTCCCCCGA
**
23846881 GGGGTTGCTAAGTACTGATTCCCCGAATCATTGGTGGTTGCTAAGTGTTGATCCCACCGTATCTT
1 GGGGTTGCTAAGTACTGATTCCCCGAATCATTGGTGGTTGCTAAGTACTGATCCCACCGTATCTT
* *
23846946 AAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCC
66 AAATATGAAAGGGGTTGCTAAGTGCTAATTCCCC
23846980 GATTCATTGG
Statistics
Matches: 89, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
102 89 1.00
ACGTcount: A:0.21, C:0.20, G:0.27, T:0.32
Consensus pattern (102 bp):
GGGGTTGCTAAGTACTGATTCCCCGAATCATTGGTGGTTGCTAAGTACTGATCCCACCGTATCTT
AAATATGAAAGGGGTTGCTAAGTGCTAATTCCCCCGA
Found at i:23853890 original size:42 final size:42
Alignment explanation
Indices: 23853831--23853967 Score: 175
Period size: 42 Copynumber: 3.5 Consensus size: 42
23853821 TTTCGTTGGT
*
23853831 GGTTGCTAAGTGTTGATTCCACCGTATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAAGG
* *
23853873 GGTTGCTAAGTGCTGATTCC-CCG-A--TT-CAT-TG---GT
1 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAAGG
*
23853906 GGTTGCTAAGTACTGATTCCACCGTATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAAGG
23853948 GGTTGCTAAGTGCTGATTCC
1 GGTTGCTAAGTGCTGATTCC
23853968 CCCGAGGGGT
Statistics
Matches: 79, Mismatches: 7, Indels: 18
0.76 0.07 0.17
Matches are distributed among these distances:
33 20 0.25
34 3 0.04
35 1 0.01
36 2 0.03
37 4 0.05
38 4 0.05
39 2 0.03
40 1 0.01
41 3 0.04
42 39 0.49
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.34
Consensus pattern (42 bp):
GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAAGG
Found at i:23853915 original size:33 final size:33
Alignment explanation
Indices: 23853873--23854107 Score: 126
Period size: 33 Copynumber: 6.8 Consensus size: 33
23853863 ATGTGAAAGG
23853873 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
* * *
23853906 GGTTGCTAAGTACTGATTCCACCGTATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCC-CCG-A--TT-CAT-TG---GT
23853948 GGTTGCTAAGTGCTGATTCCCC----CGA--GG-
1 GGTTGCTAAGTGCTGATTCCCCGATTC-ATTGGT
* *
23853975 GGTTGCTAAGTACTGATTCCCCGAATCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
** * *
23854008 GGTTGCTAAGTTTTGATCCCACCGTATCTTAAATGTGAAAG-
1 GGTTGCTAAGTGCTGATTCC-CCG-A--TT-CAT-TG---GT
* *
23854049 GGTTGCTAAGTGTTGATTCCCCGACTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
*
23854082 GGTTGCTAAGTGCTGAATCCACCGAT
1 GGTTGCTAAGTGCTGATTCC-CCGAT
23854108 AACGGATAAC
Statistics
Matches: 156, Mismatches: 18, Indels: 55
0.68 0.08 0.24
Matches are distributed among these distances:
27 21 0.13
28 1 0.01
30 1 0.01
31 2 0.01
32 3 0.02
33 54 0.35
34 11 0.07
35 4 0.03
36 2 0.01
37 4 0.03
38 4 0.03
39 5 0.03
40 3 0.02
41 20 0.13
42 21 0.13
ACGTcount: A:0.21, C:0.20, G:0.26, T:0.32
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
Found at i:23853972 original size:76 final size:76
Alignment explanation
Indices: 23853795--23853969 Score: 316
Period size: 75 Copynumber: 2.3 Consensus size: 76
23853785 GAATATAAAG
* **
23853795 GGGGTTGCTAAGTGCTGATTCCCCGATTTCGTTGGTGGTTGCTAAGTGTTGATTCCACCGTATCT
1 GGGGTTGCTAAGTGCTGATTCCCCGATTTCATTGGTGGTTGCTAAGTACTGATTCCACCGTATCT
23853860 TAAATGTGAAA
66 TAAATGTGAAA
23853871 GGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTTGCTAAGTACTGATTCCACCGTATCT
1 GGGGTTGCTAAGTGCTGATTCCCCGATTTCATTGGTGGTTGCTAAGTACTGATTCCACCGTATCT
23853935 TAAATGTGAAA
66 TAAATGTGAAA
23853946 GGGGTTGCTAAGTGCTGATTCCCC
1 GGGGTTGCTAAGTGCTGATTCCCC
23853970 CGAGGGGTTG
Statistics
Matches: 96, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
75 70 0.73
76 26 0.27
ACGTcount: A:0.20, C:0.19, G:0.27, T:0.34
Consensus pattern (76 bp):
GGGGTTGCTAAGTGCTGATTCCCCGATTTCATTGGTGGTTGCTAAGTACTGATTCCACCGTATCT
TAAATGTGAAA
Found at i:23853983 original size:27 final size:27
Alignment explanation
Indices: 23853945--23853996 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
23853935 TAAATGTGAA
*
23853945 AGGGGTTGCTAAGTGCTGATTCCCCCG
1 AGGGGTTGCTAAGTACTGATTCCCCCG
23853972 AGGGGTTGCTAAGTACTGATTCCCC
1 AGGGGTTGCTAAGTACTGATTCCCC
23853997 GAATCATTGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.17, C:0.25, G:0.31, T:0.27
Consensus pattern (27 bp):
AGGGGTTGCTAAGTACTGATTCCCCCG
Found at i:23853993 original size:102 final size:101
Alignment explanation
Indices: 23853870--23854070 Score: 339
Period size: 102 Copynumber: 2.0 Consensus size: 101
23853860 TAAATGTGAA
* * *
23853870 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTACTGATTCCACCGTATCT
1 AGGGGTTGCTAAGTACTGATTCCCCGAATCATTGGTGGTTGCTAAGTACTGATCCCACCGTATCT
23853935 TAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCCG
66 TAAATGTGAAA-GGGTTGCTAAGTGCTGATTCCCCCG
**
23853972 AGGGGTTGCTAAGTACTGATTCCCCGAATCATTGGTGGTTGCTAAGTTTTGATCCCACCGTATCT
1 AGGGGTTGCTAAGTACTGATTCCCCGAATCATTGGTGGTTGCTAAGTACTGATCCCACCGTATCT
*
23854037 TAAATGTGAAAGGGTTGCTAAGTGTTGATTCCCC
66 TAAATGTGAAAGGGTTGCTAAGTGCTGATTCCCC
23854071 GACTCATTGG
Statistics
Matches: 93, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
101 22 0.24
102 71 0.76
ACGTcount: A:0.21, C:0.20, G:0.26, T:0.32
Consensus pattern (101 bp):
AGGGGTTGCTAAGTACTGATTCCCCGAATCATTGGTGGTTGCTAAGTACTGATCCCACCGTATCT
TAAATGTGAAAGGGTTGCTAAGTGCTGATTCCCCCG
Found at i:23855773 original size:51 final size:49
Alignment explanation
Indices: 23855645--23855829 Score: 201
Period size: 51 Copynumber: 3.7 Consensus size: 49
23855635 GAAGTTGCTA
* * *
23855645 GGTCACGTGTGTAGTACTATGTGCAGGCTACTACATGTACTGGAAT-GAT
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTAC-CGAATAGAT
* * * *
23855694 AGGTCGCATGTGTAGTACCATGTGCAGGCTACTATGTGTACCGAATAGCTT
1 -GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATAG-AT
* * * * *
23855745 CGATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGAAAAT
1 -GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAAT--AGAT
23855797 GGTCACATGTGTAGTACTATGTGCAGGCTACTA
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTA
23855830 TGTGAATCGG
Statistics
Matches: 112, Mismatches: 19, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
49 4 0.04
50 36 0.32
51 70 0.62
52 1 0.01
53 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.30
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATAGAT
Found at i:23855833 original size:26 final size:26
Alignment explanation
Indices: 23855753--23855833 Score: 62
Period size: 26 Copynumber: 3.2 Consensus size: 26
23855743 TTCGATCACG
23855753 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
* * ***
23855779 CGTGTA-T-CGGATGAAAATGG-TCAC-A
1 TGTGTAGTAC-TATGTGCA-GGCT-ACTA
23855804 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
23855830 TGTG
1 TGTG
23855834 AATCGGGTAT
Statistics
Matches: 38, Mismatches: 10, Indels: 14
0.61 0.16 0.23
Matches are distributed among these distances:
24 1 0.03
25 16 0.42
26 20 0.53
27 1 0.03
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.32
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCAGGCTACTA
Found at i:23860332 original size:40 final size:40
Alignment explanation
Indices: 23860288--23860383 Score: 147
Period size: 40 Copynumber: 2.4 Consensus size: 40
23860278 TTTGACGCCT
* *
23860288 AGCGCTAGTCGAATAAACCGACAATATTAAAGGAGTGTCC
1 AGCGCTAGTCGGATAAACCGACAATATTAAAGGAGTGCCC
* *
23860328 AGCGCTAGTCGGATAAACCGACGATATTAAAGGTGTGCCC
1 AGCGCTAGTCGGATAAACCGACAATATTAAAGGAGTGCCC
*
23860368 AGCACTAGTCGGATAA
1 AGCGCTAGTCGGATAA
23860384 CTAAAAAAGA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 51 1.00
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.20
Consensus pattern (40 bp):
AGCGCTAGTCGGATAAACCGACAATATTAAAGGAGTGCCC
Found at i:23860411 original size:35 final size:35
Alignment explanation
Indices: 23860361--23860493 Score: 117
Period size: 35 Copynumber: 3.7 Consensus size: 35
23860351 ATATTAAAGG
23860361 TGTGCCCAGCACTAGTCGGATAACTAAAAAAGATT
1 TGTGCCCAGCACTAGTCGGATAACTAAAAAAGATT
* * * ** *
23860396 TGTGCCTAGCGCTAGTTGGATAAACTGGCTTTATTAAAG--G
1 TGTGCCCAGCACTAGTCGGAT-AA----C--TAAAAAAGATT
23860436 TGTGCCCAGCACTAGTCGGATAACTAAAAAAGATT
1 TGTGCCCAGCACTAGTCGGATAACTAAAAAAGATT
* *
23860471 TGTGCCCAGCGCTAGTTGGATAA
1 TGTGCCCAGCACTAGTCGGATAA
23860494 ACTGGCTATA
Statistics
Matches: 75, Mismatches: 14, Indels: 18
0.70 0.13 0.17
Matches are distributed among these distances:
33 6 0.08
35 40 0.53
36 2 0.03
39 2 0.03
40 19 0.25
42 6 0.08
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (35 bp):
TGTGCCCAGCACTAGTCGGATAACTAAAAAAGATT
Found at i:23860417 original size:75 final size:75
Alignment explanation
Indices: 23860326--23860649 Score: 423
Period size: 75 Copynumber: 4.3 Consensus size: 75
23860316 AAAGGAGTGT
* *
23860326 CCAGCGCTAGTCGGATAAACCGACGATATTAAAGGTGTGCCCAGCACTAGTCGGATAACTAAAAA
1 CCAGCGCTAGTTGGATAAACCGACTATATTAAAGGTGTGCCCAGCACTAGTCGGATAACTAAAAA
*
23860391 AGATTTGTGC
66 AGATTTGCGC
* * * *
23860401 CTAGCGCTAGTTGGATAAACTGGCTTTATTAAAGGTGTGCCCAGCACTAGTCGGATAACTAAAAA
1 CCAGCGCTAGTTGGATAAACCGACTATATTAAAGGTGTGCCCAGCACTAGTCGGATAACTAAAAA
*
23860466 AGATTTGTGC
66 AGATTTGCGC
* * * * **
23860476 CCAGCGCTAGTTGGATAAACTGGCTATATTAAAGGTGTGCCCATCACTATTCGGATAACCGAAAA
1 CCAGCGCTAGTTGGATAAACCGACTATATTAAAGGTGTGCCCAGCACTAGTCGGATAACTAAAAA
23860541 AGATTTGCGC
66 AGATTTGCGC
*** * * * * *
23860551 CCAGCGCTAACCGGATAAACCGACAATATTAAAGGTGTGACTAGCACTAGTCGGATAACTGACAA
1 CCAGCGCTAGTTGGATAAACCGACTATATTAAAGGTGTGCCCAGCACTAGTCGGATAACTAAAAA
*
23860616 AGATTTGCAC
66 AGATTTGCGC
* *
23860626 CCAGCGCTAGTTAGATAAGCCGAC
1 CCAGCGCTAGTTGGATAAACCGAC
23860650 AAGCACATAC
Statistics
Matches: 218, Mismatches: 31, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
75 218 1.00
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.23
Consensus pattern (75 bp):
CCAGCGCTAGTTGGATAAACCGACTATATTAAAGGTGTGCCCAGCACTAGTCGGATAACTAAAAA
AGATTTGCGC
Found at i:23860451 original size:40 final size:39
Alignment explanation
Indices: 23860312--23860533 Score: 110
Period size: 40 Copynumber: 5.8 Consensus size: 39
23860302 AAACCGACAA
* * * * * * *
23860312 TATTAAAGGAGTGTCCAGCGCTAGTCGGATAAACCGACGA
1 TATTAAAGGTGTGCCCAGCACTAGTTGGATAAACTGGC-T
*
23860352 TATTAAAGGTGTGCCCAGCACTAGTCGGAT-AA----C-
1 TATTAAAGGTGTGCCCAGCACTAGTTGGATAAACTGGCT
** * * *
23860385 TAAAAAAGATTTGTGCCTAGCGCTAGTTGGATAAACTGGCTT
1 TATTAAAG--GTGTGCCCAGCACTAGTTGGATAAACTGGC-T
*
23860427 TATTAAAGGTGTGCCCAGCACTAGTCGGAT-AA----C-
1 TATTAAAGGTGTGCCCAGCACTAGTTGGATAAACTGGCT
** * *
23860460 TAAAAAAGATTTGTGCCCAGCGCTAGTTGGATAAACTGGCT
1 TATTAAAG--GTGTGCCCAGCACTAGTTGGATAAACTGGCT
*
23860501 ATATTAAAGGTGTGCCCATCACTA-TTCGGATAA
1 -TATTAAAGGTGTGCCCAGCACTAGTT-GGATAA
23860534 CCGAAAAAGA
Statistics
Matches: 138, Mismatches: 25, Indels: 38
0.69 0.12 0.19
Matches are distributed among these distances:
33 12 0.09
35 39 0.28
36 4 0.03
39 6 0.04
40 65 0.47
42 12 0.09
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (39 bp):
TATTAAAGGTGTGCCCAGCACTAGTTGGATAAACTGGCT
Found at i:23864023 original size:22 final size:22
Alignment explanation
Indices: 23863998--23864039 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
23863988 TCATGCAACG
*
23863998 TGCACTCCTTATTTTACACACA
1 TGCACCCCTTATTTTACACACA
* *
23864020 TGCACCCCTTTTTTTCCACA
1 TGCACCCCTTATTTTACACA
23864040 TACTTCCCTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.21, C:0.36, G:0.05, T:0.38
Consensus pattern (22 bp):
TGCACCCCTTATTTTACACACA
Found at i:23864123 original size:13 final size:12
Alignment explanation
Indices: 23864099--23864123 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
23864089 TTTTCCTTTA
23864099 TGATCCTTTTTT
1 TGATCCTTTTTT
23864111 TGATCCTTTTTT
1 TGATCCTTTTTT
23864123 T
1 T
23864124 CCACTAGACT
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:0.08, C:0.16, G:0.08, T:0.68
Consensus pattern (12 bp):
TGATCCTTTTTT
Found at i:23868300 original size:23 final size:23
Alignment explanation
Indices: 23868274--23868318 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
23868264 ATAAAAGAAG
23868274 TAAGCATAAAGCTTAGTAAGTTA
1 TAAGCATAAAGCTTAGTAAGTTA
23868297 TAAGCATAAAGCTTAGTAAGTT
1 TAAGCATAAAGCTTAGTAAGTT
23868319 TACTAGCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.42, C:0.09, G:0.18, T:0.31
Consensus pattern (23 bp):
TAAGCATAAAGCTTAGTAAGTTA
Found at i:23868753 original size:50 final size:49
Alignment explanation
Indices: 23868640--23868873 Score: 261
Period size: 50 Copynumber: 4.7 Consensus size: 49
23868630 ATGCCAAATT
* ** * * * *
23868640 CATGTCCCAGACACGGTCTTACATGGGAAGTTCTCATATTGGTGCCTATGC
1 CATGTCCCAGACATGGTCTTACATGGG-ACCTCTCAT-CTCGTGCCAACGC
* ** * *
23868691 CATGTCCTAGACATGGTCTTACGGGGGACCTCTAATCTCAGCGCCAACGC
1 CATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTC-GTGCCAACGC
* *
23868741 CATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGTTACCAACAC
1 CATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCG-TGCCAACGC
* * *
23868791 CATGTCCGAGACATGGTCTTATATGAGACCTCTCATCTCGGTGCCAACGC
1 CATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTC-GTGCCAACGC
*
23868841 CATGTCCCAGACATGGTCTTACATGGGATCTCT
1 CATGTCCCAGACATGGTCTTACATGGGACCTCT
23868874 TTACCCAAAT
Statistics
Matches: 152, Mismatches: 28, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
49 2 0.01
50 126 0.83
51 24 0.16
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.26
Consensus pattern (49 bp):
CATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGTGCCAACGC
Found at i:23868821 original size:100 final size:100
Alignment explanation
Indices: 23868640--23868873 Score: 288
Period size: 100 Copynumber: 2.3 Consensus size: 100
23868630 ATGCCAAATT
* ** * * * ** *
23868640 CATGTCCCAGACACGGTCTTACATGGGAAGTTCTCATATTGGTGCCTATGCCATGTCCTAGACAT
1 CATGTCCCAGACATGGTCTTACATGGG-ACCTCTCATATCGGTACCAACACCATGTCCGAGACAT
* *
23868705 GGTCTTACGGGGGACCTCTAATCTCAGCGCCAACGC
65 GGTCTTACAGGAGACCTCTAATCTCAGCGCCAACGC
* *
23868741 CATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGTTACCAACACCATGTCCGAGACATG
1 CATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTACCAACACCATGTCCGAGACATG
* * * * *
23868806 GTCTTATATGAGACCTCTCATCTCGGTGCCAACGC
66 GTCTTACAGGAGACCTCTAATCTCAGCGCCAACGC
*
23868841 CATGTCCCAGACATGGTCTTACATGGGATCTCT
1 CATGTCCCAGACATGGTCTTACATGGGACCTCT
23868874 TTACCCAAAT
Statistics
Matches: 114, Mismatches: 19, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
100 88 0.77
101 26 0.23
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.26
Consensus pattern (100 bp):
CATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTACCAACACCATGTCCGAGACATG
GTCTTACAGGAGACCTCTAATCTCAGCGCCAACGC
Found at i:23870140 original size:18 final size:20
Alignment explanation
Indices: 23870104--23870140 Score: 51
Period size: 18 Copynumber: 1.9 Consensus size: 20
23870094 TTCGAGTATT
*
23870104 GTTTCCTCATTGTCTCTTCA
1 GTTTCCTCATTGTCGCTTCA
23870124 GTTTCC-CA-TGTCGCTTC
1 GTTTCCTCATTGTCGCTTC
23870141 CTCAATCCCG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 8 0.50
19 2 0.12
20 6 0.38
ACGTcount: A:0.08, C:0.32, G:0.14, T:0.46
Consensus pattern (20 bp):
GTTTCCTCATTGTCGCTTCA
Found at i:23876261 original size:50 final size:50
Alignment explanation
Indices: 23876149--23876331 Score: 231
Period size: 50 Copynumber: 3.6 Consensus size: 50
23876139 GATAATAACA
* * * ** *
23876149 TGCCAAAGCCATGTCCAAGACATGGTCTTACATGGGAAATTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACA-GGGGACCTCTCATCTCGG
* * * * *
23876200 TGCCCATGCCATGTCCCAGACATGTTGTTACGGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
23876250 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTTTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
*
23876300 TGCCAACGCCATGTCCTAGACATGGTCTTACA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACA
23876332 CAGGATCTCT
Statistics
Matches: 114, Mismatches: 18, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
50 88 0.77
51 26 0.23
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.26
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:23881182 original size:22 final size:21
Alignment explanation
Indices: 23881157--23881203 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 21
23881147 ATTATAAATT
*
23881157 ATATAAATTATAATTATTGTTA
1 ATATAAATTATAAATATT-TTA
*
23881179 ATATTAATTATAAATATTTTA
1 ATATAAATTATAAATATTTTA
23881200 ATAT
1 ATAT
23881204 TTCTATTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 7 0.30
22 16 0.70
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (21 bp):
ATATAAATTATAAATATTTTA
Found at i:23889408 original size:19 final size:19
Alignment explanation
Indices: 23889386--23889430 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
23889376 ATTTTTTTTA
*
23889386 TTTTTTATTAACTTTTGTC
1 TTTTTTATTAAATTTTGTC
*
23889405 TTTTTCT-TTAAATTTTTTC
1 TTTTT-TATTAAATTTTGTC
23889424 TTTTTTA
1 TTTTTTA
23889431 AGTTTTATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 1 0.05
19 20 0.91
20 1 0.05
ACGTcount: A:0.16, C:0.09, G:0.02, T:0.73
Consensus pattern (19 bp):
TTTTTTATTAAATTTTGTC
Found at i:23889552 original size:13 final size:12
Alignment explanation
Indices: 23889534--23889567 Score: 52
Period size: 11 Copynumber: 2.8 Consensus size: 12
23889524 TTTTTTAAAA
23889534 TTTTAAATATTAT
1 TTTTAAA-ATTAT
23889547 TTTT-AAATTAT
1 TTTTAAAATTAT
23889558 TTTTAAAATT
1 TTTTAAAATT
23889568 TTGAATATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 9 0.45
12 7 0.35
13 4 0.20
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
TTTTAAAATTAT
Found at i:23889559 original size:33 final size:34
Alignment explanation
Indices: 23889521--23889591 Score: 110
Period size: 32 Copynumber: 2.1 Consensus size: 34
23889511 TTTATAATAT
23889521 ATATTTTTTAAAATTTTAAATATTA-TTTTTAAA
1 ATATTTTTTAAAATTTTAAATATTATTTTTTAAA
* *
23889554 TTA-TTTTTAAAATTTTGAATATTATTTTTTAAA
1 ATATTTTTTAAAATTTTAAATATTATTTTTTAAA
23889587 ATATT
1 ATATT
23889592 AAATATATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
32 20 0.61
33 12 0.36
34 1 0.03
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.59
Consensus pattern (34 bp):
ATATTTTTTAAAATTTTAAATATTATTTTTTAAA
Found at i:23889579 original size:21 final size:21
Alignment explanation
Indices: 23889545--23889621 Score: 75
Period size: 22 Copynumber: 3.6 Consensus size: 21
23889535 TTTAAATATT
*
23889545 ATTTTTAA-ATTATTTTTAAA
1 ATTTTAAATATTATTTTTAAA
*
23889565 ATTTTGAATATTATTTTTTAAA
1 ATTTTAAATATTA-TTTTTAAA
*
23889587 ATATTAAATATATATTTTTAATA
1 ATTTTAAATAT-TATTTTTAA-A
* *
23889610 ATATAAAATATT
1 ATTTTAAATATT
23889622 TAAATATTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
20 7 0.14
21 4 0.08
22 25 0.51
23 13 0.27
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (21 bp):
ATTTTAAATATTATTTTTAAA
Found at i:23889612 original size:23 final size:21
Alignment explanation
Indices: 23889553--23889621 Score: 84
Period size: 22 Copynumber: 3.1 Consensus size: 21
23889543 TTATTTTTAA
* *
23889553 ATTATTTTTAAAATTTTGAAT
1 ATTATTTTTAAAATATTAAAT
23889574 ATTATTTTTTAAAATATTAAAT
1 ATTA-TTTTTAAAATATTAAAT
*
23889596 ATATATTTTTAATAATATAAAAT
1 AT-TATTTTTAA-AATATTAAAT
23889619 ATT
1 ATT
23889622 TAAATATTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
21 4 0.10
22 25 0.60
23 13 0.31
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (21 bp):
ATTATTTTTAAAATATTAAAT
Found at i:23889703 original size:22 final size:23
Alignment explanation
Indices: 23889671--23889729 Score: 72
Period size: 22 Copynumber: 2.7 Consensus size: 23
23889661 GTTTTTTAAT
23889671 ATTTTTAATATTATTTAATT-TG
1 ATTTTTAATATTATTTAATTATG
*
23889693 -TTTTATAATATT-TTAAATTATG
1 ATTTT-TAATATTATTTAATTATG
23889715 ATTTTTAA-ATTATTT
1 ATTTTTAATATTATTT
23889730 TTAAAGATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
21 13 0.42
22 14 0.45
23 4 0.13
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (23 bp):
ATTTTTAATATTATTTAATTATG
Found at i:23890061 original size:20 final size:19
Alignment explanation
Indices: 23890006--23890063 Score: 55
Period size: 20 Copynumber: 3.0 Consensus size: 19
23889996 TTTGAATTAA
*
23890006 TTAAAAAATAAAAAATATTT
1 TTAAAAAAT-AAAATTATTT
* *
23890026 TTAAAAAA-AGATTTATTT
1 TTAAAAAATAAAATTATTT
*
23890044 GTTAAAAAATAAAGTTATTT
1 -TTAAAAAATAAAATTATTT
23890064 AAATATATAT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
18 7 0.23
19 8 0.26
20 16 0.52
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (19 bp):
TTAAAAAATAAAATTATTT
Found at i:23890541 original size:20 final size:20
Alignment explanation
Indices: 23890518--23890573 Score: 53
Period size: 20 Copynumber: 2.8 Consensus size: 20
23890508 ATAATTTTTT
23890518 AATTTTAGTACACATTTCTA
1 AATTTTAGTACACATTTCTA
* * *
23890538 AATTTATA-TATTA-ATTTTTT
1 AATTT-TAGTA-CACATTTCTA
23890558 AATTTTAGTACACATT
1 AATTTTAGTACACATT
23890574 CATGAATTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 8
0.70 0.10 0.20
Matches are distributed among these distances:
19 3 0.11
20 22 0.79
21 3 0.11
ACGTcount: A:0.36, C:0.09, G:0.04, T:0.52
Consensus pattern (20 bp):
AATTTTAGTACACATTTCTA
Found at i:23890582 original size:40 final size:41
Alignment explanation
Indices: 23890509--23890593 Score: 129
Period size: 40 Copynumber: 2.1 Consensus size: 41
23890499 GTGTTGGTTA
23890509 TAATTTTTTAATTTTAGTACACATTTCTAAATTTATATA-T
1 TAATTTTTTAATTTTAGTACACATTTCTAAATTTATATACT
* *
23890549 TAATTTTTTAATTTTAGTACACA-TTCATGAATTTATGTACT
1 TAATTTTTTAATTTTAGTACACATTTC-TAAATTTATATACT
23890590 TAAT
1 TAAT
23890594 ATATATTTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
39 3 0.07
40 33 0.80
41 5 0.12
ACGTcount: A:0.34, C:0.08, G:0.05, T:0.53
Consensus pattern (41 bp):
TAATTTTTTAATTTTAGTACACATTTCTAAATTTATATACT
Found at i:23890604 original size:40 final size:40
Alignment explanation
Indices: 23890517--23890604 Score: 99
Period size: 40 Copynumber: 2.2 Consensus size: 40
23890507 TATAATTTTT
* *
23890517 TAATTTTAGTACACATTTCTAAATTTATATATTAATTTTT
1 TAATTTTAGTACACATTTCTAAATTTATATATTAATTATA
* *
23890557 TAATTTTAGTACACA-TTCATGAATTTATGTACTTAA-TATA
1 TAATTTTAGTACACATTTC-TAAATTTATATA-TTAATTATA
*
23890597 TATTTTTA
1 TAATTTTA
23890605 ATAGATAAAG
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
39 3 0.07
40 34 0.83
41 4 0.10
ACGTcount: A:0.35, C:0.08, G:0.05, T:0.52
Consensus pattern (40 bp):
TAATTTTAGTACACATTTCTAAATTTATATATTAATTATA
Found at i:23890740 original size:70 final size:71
Alignment explanation
Indices: 23890653--23890803 Score: 232
Period size: 71 Copynumber: 2.1 Consensus size: 71
23890643 TGTTTAAAAC
* * * * *
23890653 TTAAAGAAATTAAATATATT-AAAAATGTTATGTATAGCCAATTTTAAAATTTTAATATATTTAA
1 TTAAA-AAATTAAATATATTAAAAAATGTTAAGTATAACCAATATTAAAATTATAATATATTCAA
23890717 TATATTT
65 TATATTT
*
23890724 TTTAAAAATTAAATATATTAAAAAATGTTAAGTATAACCAATATTAAAATTATAATATATTCAAT
1 TTAAAAAATTAAATATATTAAAAAATGTTAAGTATAACCAATATTAAAATTATAATATATTCAAT
23890789 ATATTT
66 ATATTT
23890795 TTAAAAAAT
1 TTAAAAAAT
23890804 ATATTTTAAA
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
70 14 0.19
71 58 0.81
ACGTcount: A:0.50, C:0.03, G:0.04, T:0.42
Consensus pattern (71 bp):
TTAAAAAATTAAATATATTAAAAAATGTTAAGTATAACCAATATTAAAATTATAATATATTCAAT
ATATTT
Found at i:23890814 original size:13 final size:15
Alignment explanation
Indices: 23890786--23890814 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
23890776 TAATATATTC
23890786 AATATATTTTTAAAA
1 AATATATTTTTAAAA
23890801 AATATA-TTTTAAAA
1 AATATATTTTTAAAA
23890815 TGTTAATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
AATATATTTTTAAAA
Found at i:23893025 original size:30 final size:30
Alignment explanation
Indices: 23892991--23893095 Score: 93
Period size: 30 Copynumber: 3.5 Consensus size: 30
23892981 GTTGCAGAGC
* * *
23892991 AGTTCATATCACTCGGACATTGCCGATTCA
1 AGTTCATATCACCCAGACATAGCCGATTCA
* * *
23893021 AGTTCATACCACCCAGACATAGGCGGTTCA
1 AGTTCATATCACCCAGACATAGCCGATTCA
* * ** * *
23893051 AGTTCATATCACCTAAACATAGGTGGTTCG
1 AGTTCATATCACCCAGACATAGCCGATTCA
*
23893081 AGTTCATTTCACCCA
1 AGTTCATATCACCCA
23893096 AAGCAACCAC
Statistics
Matches: 62, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 62 1.00
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.28
Consensus pattern (30 bp):
AGTTCATATCACCCAGACATAGCCGATTCA
Found at i:23898720 original size:15 final size:15
Alignment explanation
Indices: 23898700--23898729 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
23898690 AATTCATTAT
23898700 ATTTCATAACTTACA
1 ATTTCATAACTTACA
*
23898715 ATTTCATTACTTACA
1 ATTTCATAACTTACA
23898730 CTGTTTCTTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.20, G:0.00, T:0.43
Consensus pattern (15 bp):
ATTTCATAACTTACA
Found at i:23906598 original size:47 final size:48
Alignment explanation
Indices: 23906519--23906619 Score: 168
Period size: 47 Copynumber: 2.1 Consensus size: 48
23906509 AAAATCAGCT
* * *
23906519 GCAGCAAAGACAAGTTTAATGTCTAGATTCGGCTGGACAAATTAAATA
1 GCAGCAAAGACAAGATTAATGACTAAATTCGGCTGGACAAATTAAATA
23906567 GCAGCAAAGACAA-ATTAATGACTAAATTCGGCTGGACAAATTAAATA
1 GCAGCAAAGACAAGATTAATGACTAAATTCGGCTGGACAAATTAAATA
23906614 GCAGCA
1 GCAGCA
23906620 GCTAATAAAT
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
47 37 0.74
48 13 0.26
ACGTcount: A:0.43, C:0.16, G:0.20, T:0.22
Consensus pattern (48 bp):
GCAGCAAAGACAAGATTAATGACTAAATTCGGCTGGACAAATTAAATA
Found at i:23908017 original size:46 final size:46
Alignment explanation
Indices: 23907966--23908059 Score: 179
Period size: 46 Copynumber: 2.0 Consensus size: 46
23907956 ATAGTGTGGC
23907966 GTTCATCATATACCAAGGTTCCTATCATCCTTGATAGTGGGTCGAG
1 GTTCATCATATACCAAGGTTCCTATCATCCTTGATAGTGGGTCGAG
*
23908012 GTTCATCATATACCAAGGTTCCTATCATTCTTGATAGTGGGTCGAG
1 GTTCATCATATACCAAGGTTCCTATCATCCTTGATAGTGGGTCGAG
23908058 GT
1 GT
23908060 CTTTTCTTTG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.34
Consensus pattern (46 bp):
GTTCATCATATACCAAGGTTCCTATCATCCTTGATAGTGGGTCGAG
Found at i:23913760 original size:17 final size:18
Alignment explanation
Indices: 23913726--23913765 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
23913716 TTTTATTCTA
23913726 TTTTGTATTGTTATTTTT
1 TTTTGTATTGTTATTTTT
23913744 TTTTGTATTGTTATTTTT
1 TTTTGTATTGTTATTTTT
23913762 TTTT
1 TTTT
23913766 TTATATTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.10, C:0.00, G:0.10, T:0.80
Consensus pattern (18 bp):
TTTTGTATTGTTATTTTT
Found at i:23913815 original size:15 final size:16
Alignment explanation
Indices: 23913797--23913826 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
23913787 TATAATATAC
23913797 TATTTTAT-TATATTT
1 TATTTTATATATATTT
23913812 TATTTTATATATATT
1 TATTTTATATATATT
23913827 AATTCAACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TATTTTATATATATTT
Found at i:23915555 original size:16 final size:16
Alignment explanation
Indices: 23915534--23915568 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
23915524 ACTCATTGTG
*
23915534 TTTTGATTGCATAACA
1 TTTTGACTGCATAACA
*
23915550 TTTTGACTGCATGACA
1 TTTTGACTGCATAACA
23915566 TTT
1 TTT
23915569 CATCTTAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.26, C:0.14, G:0.14, T:0.46
Consensus pattern (16 bp):
TTTTGACTGCATAACA
Found at i:23918389 original size:16 final size:16
Alignment explanation
Indices: 23918366--23918407 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
23918356 AATGATGAAA
23918366 AAAAGAAAAGA-AAAAG
1 AAAAGAAAA-ATAAAAG
*
23918382 AGAAGAAAAATAAAAG
1 AAAAGAAAAATAAAAG
23918398 AAAAGAAAAA
1 AAAAGAAAAA
23918408 GGAGAGACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 1 0.04
16 22 0.96
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (16 bp):
AAAAGAAAAATAAAAG
Found at i:23918554 original size:56 final size:54
Alignment explanation
Indices: 23918454--23918598 Score: 161
Period size: 56 Copynumber: 2.7 Consensus size: 54
23918444 TGAGTCCTAA
* ** * * *
23918454 AAGGACTAAGGTGAAAACCCGCAAAGGATGCCTTAAGTTCTAAAAATAAATAAAT
1 AAGGACCAAGGTGAAAACCCGCAAAGGGCGCCTTGAGTTCTAAAAA-AAAGAAAG
* **
23918509 AAGGGACCAAGGTGAAAACCCGCAAAGGGCGCTTTGAG-TCATAAAAAAAAGGGAG
1 AA-GGACCAAGGTGAAAACCCGCAAAGGGCGCCTTGAGTTC-TAAAAAAAAGAAAG
23918564 AA-G-CCAAGGTGAAAACCCGCAAAGGGCGCCTTGAG
1 AAGGACCAAGGTGAAAACCCGCAAAGGGCGCCTTGAG
23918599 ACCAAAGGGG
Statistics
Matches: 78, Mismatches: 10, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
52 31 0.40
53 1 0.01
55 10 0.13
56 36 0.46
ACGTcount: A:0.42, C:0.18, G:0.26, T:0.14
Consensus pattern (54 bp):
AAGGACCAAGGTGAAAACCCGCAAAGGGCGCCTTGAGTTCTAAAAAAAAGAAAG
Found at i:23919872 original size:89 final size:89
Alignment explanation
Indices: 23919718--23919929 Score: 284
Period size: 89 Copynumber: 2.4 Consensus size: 89
23919708 ACGGATTGAA
* * * **
23919718 GAAGATAACAGATCTTGTCTTCTTGTATTGGCAGGGAAGCAGATTGAAGACACCAGCCTGACCTC
1 GAAGATAGCAGATCTTGTCTTCTTGTATTGGCAGCGAAACAGATCAAAGACACCAGCCTGACCTC
* * *
23919783 CCTGAGTTTGCAGTGAAA-TAGACT
66 CCTGAGTTCGCAG-CAAAGCAGACT
23919807 GAAGATAGCAGATCTTGTCTTCTTGTATTGGCAGCGAAACAGATCAAAGACACCAGCCTTG-CCT
1 GAAGATAGCAGATCTTGTCTTCTTGTATTGGCAGCGAAACAGATCAAAGACACCAGCC-TGACCT
*
23919871 CCCTGAGTTCGTAGCAAAGCAGACT
65 CCCTGAGTTCGCAGCAAAGCAGACT
* * *
23919896 GAAGATAGCATATCTTGTCTTCCTATATTGGCAG
1 GAAGATAGCAGATCTTGTCTTCTTGTATTGGCAG
23919930 TGAANNNNNN
Statistics
Matches: 109, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
88 3 0.03
89 104 0.95
90 2 0.02
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (89 bp):
GAAGATAGCAGATCTTGTCTTCTTGTATTGGCAGCGAAACAGATCAAAGACACCAGCCTGACCTC
CCTGAGTTCGCAGCAAAGCAGACT
Found at i:23923765 original size:15 final size:15
Alignment explanation
Indices: 23923745--23923795 Score: 68
Period size: 15 Copynumber: 3.5 Consensus size: 15
23923735 GCTCTCATCA
*
23923745 TTCTTTTCTTTCTTT
1 TTCTTTTCTCTCTTT
*
23923760 TTCTTTTCACTCTTT
1 TTCTTTTCTCTCTTT
*
23923775 TTGTTTT-TCTCTTT
1 TTCTTTTCTCTCTTT
23923789 TTCTTTT
1 TTCTTTT
23923796 TCTTGCTCAA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
14 12 0.39
15 19 0.61
ACGTcount: A:0.02, C:0.20, G:0.02, T:0.76
Consensus pattern (15 bp):
TTCTTTTCTCTCTTT
Found at i:23925895 original size:12 final size:13
Alignment explanation
Indices: 23925872--23925910 Score: 53
Period size: 14 Copynumber: 3.0 Consensus size: 13
23925862 AAATTGAATA
23925872 CAAACTTTTTTTT
1 CAAACTTTTTTTT
23925885 CAAACTTTTTTTTT
1 CAAAC-TTTTTTTT
*
23925899 CGAA-TTTTTTTT
1 CAAACTTTTTTTT
23925911 TATTTTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
12 8 0.33
13 5 0.21
14 11 0.46
ACGTcount: A:0.21, C:0.13, G:0.03, T:0.64
Consensus pattern (13 bp):
CAAACTTTTTTTT
Found at i:23925911 original size:13 final size:14
Alignment explanation
Indices: 23925872--23925911 Score: 57
Period size: 13 Copynumber: 3.0 Consensus size: 14
23925862 AAATTGAATA
23925872 CAAAC-TTTTTTTT
1 CAAACTTTTTTTTT
23925885 CAAACTTTTTTTTT
1 CAAACTTTTTTTTT
*
23925899 CGAA-TTTTTTTTT
1 CAAACTTTTTTTTT
23925912 ATTTTTTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 14 0.56
14 11 0.44
ACGTcount: A:0.20, C:0.12, G:0.03, T:0.65
Consensus pattern (14 bp):
CAAACTTTTTTTTT
Found at i:23929644 original size:21 final size:21
Alignment explanation
Indices: 23929579--23929650 Score: 56
Period size: 21 Copynumber: 3.3 Consensus size: 21
23929569 AAAACAAGTG
*
23929579 AGGAAAAAGAAAAAGAAGAGAA
1 AGGAAAATGAAAAAGAAGA-AA
*
23929601 A-AATACAAGTGAAAAAGAAGAAA
1 AGGA-A-AA-TGAAAAAGAAGAAA
* **
23929624 ATGAAAATGAAAAAGGTGAAA
1 AGGAAAATGAAAAAGAAGAAA
23929645 AGGAAA
1 AGGAAA
23929651 GCGAGAGAGA
Statistics
Matches: 40, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
21 18 0.45
22 4 0.10
23 6 0.15
24 12 0.30
ACGTcount: A:0.68, C:0.01, G:0.24, T:0.07
Consensus pattern (21 bp):
AGGAAAATGAAAAAGAAGAAA
Found at i:23931681 original size:89 final size:89
Alignment explanation
Indices: 23931530--23931767 Score: 268
Period size: 89 Copynumber: 2.7 Consensus size: 89
23931520 NNNNNNNNNN
* * * *
23931530 ATCTTGTCTTCTTGTATTAGCAGCGAAGTAGATCAAAGACACCAGCCTTGCCTCCCTGAGTTTAC
1 ATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGAAACCAGCCTTGCCTCCCTGAGTTTAC
*
23931595 AGCGGAGTAGACTAGAAACA-A-CAA
66 AGCGGAATAGA-TAGAAA-ATAGCAA
* * * * **
23931619 ATCTTGTCTTCCTATTTTGGCAGCGAAGCAGATCGAAGAAACCAGCTTTGCCTCCCTGAGTTTGT
1 ATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGAAACCAGCCTTGCCTCCCTGAGTTTAC
* *
23931684 AGCGGAATAGATTGAAAATAGCAG
66 AGCGGAATAGATAGAAAATAGCAA
* * *
23931708 ATCTTGTCTTCCTGTACTGGCAGTGAAGTAGATCGAA-AACACCAGTCC-TGTCTCCCTGAG
1 ATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGAA-ACCAG-CCTTGCCTCCCTGAG
23931768 CAACAGGGGA
Statistics
Matches: 125, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
87 1 0.01
88 8 0.06
89 115 0.92
90 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (89 bp):
ATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGAAACCAGCCTTGCCTCCCTGAGTTTAC
AGCGGAATAGATAGAAAATAGCAA
Found at i:23932009 original size:51 final size:50
Alignment explanation
Indices: 23931943--23932217 Score: 212
Period size: 51 Copynumber: 5.6 Consensus size: 50
23931933 AGTGGAGCGA
23931943 ATTAAAGCTGAAGGCAGCGAATCCTATCTCCTTGGCATTGCAGTGGAACAG
1 ATTAAAGCTGAAGGCAGCGAATCCTATCTCCTTGGCATTGCAGT-GAACAG
* * * * *
23931994 ATTAAAGCTGAAGGCAGCGAATCTTATTTCCCCTGGCA-T-C---GCACGG
1 ATTAAAGCTGAAGGCAGCGAATCCTATCT-CCTTGGCATTGCAGTGAACAG
* * * * * *
23932040 ATTAAAGCTGAAGGCAGCGAAT-CTCATTTTCTTGGCGTTGTAATAGAGCAG
1 ATTAAAGCTGAAGGCAGCGAATCCT-ATCTCCTTGGCATTGCAGT-GAACAG
* * ** * * *
23932091 ATTAAAGCTGAAGGCAACAAATGTTATCTCCCTGGCGTCGCAGT----AG
1 ATTAAAGCTGAAGGCAGCGAATCCTATCTCCTTGGCATTGCAGTGAACAG
* * * *
23932137 ATTAAAGCTGAAGGCAGCAAAT-CTCATTTCCTTGGCATTACAGTGGAGCAG
1 ATTAAAGCTGAAGGCAGCGAATCCT-ATCTCCTTGGCATTGCAGT-GAACAG
*
23932188 ATTAAAGCTGAAGGCAGCGAATCTTATCTC
1 ATTAAAGCTGAAGGCAGCGAATCCTATCTC
23932218 TCTGGCGTTA
Statistics
Matches: 176, Mismatches: 32, Indels: 32
0.73 0.13 0.13
Matches are distributed among these distances:
45 7 0.04
46 68 0.39
50 1 0.01
51 91 0.52
52 9 0.05
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (50 bp):
ATTAAAGCTGAAGGCAGCGAATCCTATCTCCTTGGCATTGCAGTGAACAG
Found at i:23932140 original size:97 final size:96
Alignment explanation
Indices: 23931943--23932225 Score: 381
Period size: 97 Copynumber: 2.9 Consensus size: 96
23931933 AGTGGAGCGA
* *
23931943 ATTAAAGCTGAAGGCAGCGAATC-CTATCTCCTTGGCATTGCAGTGGAACAGATTAAAGCTGAAG
1 ATTAAAGCTGAAGGCAGCGAATCTC-ATTTCCTTGGCATTGCAGTGGAGCAGATTAAAGCTGAAG
* *
23932007 GCAGCGAATCTTATTTCCCCTGGCATCGCACGG
65 GCAGCGAATCTTATCT-CCCTGGCGTCGCACGG
* * * * *
23932040 ATTAAAGCTGAAGGCAGCGAATCTCATTTTCTTGGCGTTGTAATAGAGCAGATTAAAGCTGAAGG
1 ATTAAAGCTGAAGGCAGCGAATCTCATTTCCTTGGCATTGCAGTGGAGCAGATTAAAGCTGAAGG
* * *
23932105 CAACAAATGTTATCTCCCTGGCGTCGCA-GTAG
66 CAGCGAATCTTATCTCCCTGGCGTCGCACG--G
* *
23932137 ATTAAAGCTGAAGGCAGCAAATCTCATTTCCTTGGCATTACAGTGGAGCAGATTAAAGCTGAAGG
1 ATTAAAGCTGAAGGCAGCGAATCTCATTTCCTTGGCATTGCAGTGGAGCAGATTAAAGCTGAAGG
*
23932202 CAGCGAATCTTATCTCTCTGGCGT
66 CAGCGAATCTTATCTCCCTGGCGT
23932226 TAAGATTGAA
Statistics
Matches: 160, Mismatches: 23, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
95 1 0.01
96 12 0.08
97 146 0.91
98 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (96 bp):
ATTAAAGCTGAAGGCAGCGAATCTCATTTCCTTGGCATTGCAGTGGAGCAGATTAAAGCTGAAGG
CAGCGAATCTTATCTCCCTGGCGTCGCACGG
Found at i:23932295 original size:44 final size:44
Alignment explanation
Indices: 23932228--23932320 Score: 132
Period size: 44 Copynumber: 2.1 Consensus size: 44
23932218 TCTGGCGTTA
* * *
23932228 AGATTGAAGACACCAGTCTTATCTCCCTGAAGTTACAGTGGAGC
1 AGATTGAAGAAACCAATCCTATCTCCCTGAAGTTACAGTGGAGC
* **
23932272 AGATTGAAGAAACCAATCCTATCTCTCTGAAGTTGTAGTGGAGC
1 AGATTGAAGAAACCAATCCTATCTCCCTGAAGTTACAGTGGAGC
23932316 AGATT
1 AGATT
23932321 AAAATGATGG
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (44 bp):
AGATTGAAGAAACCAATCCTATCTCCCTGAAGTTACAGTGGAGC
Found at i:23933877 original size:30 final size:30
Alignment explanation
Indices: 23933842--23933918 Score: 91
Period size: 30 Copynumber: 2.6 Consensus size: 30
23933832 ATGGTTAACG
* * *
23933842 CATCCCTTTTCGTAATTCGATAATCGAAGT
1 CATCCCTTTTCGTAATTCGACAACCGAAGC
* * * *
23933872 TATCCCTTTTCATAGTTCGACAGCCGAAGC
1 CATCCCTTTTCGTAATTCGACAACCGAAGC
23933902 CATCCCTTTTCGTAATT
1 CATCCCTTTTCGTAATT
23933919 TGATGGTCAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.23, C:0.27, G:0.13, T:0.36
Consensus pattern (30 bp):
CATCCCTTTTCGTAATTCGACAACCGAAGC
Found at i:23933935 original size:30 final size:30
Alignment explanation
Indices: 23933901--23933975 Score: 114
Period size: 30 Copynumber: 2.5 Consensus size: 30
23933891 ACAGCCGAAG
* *
23933901 CCATCCCTTTTCGTAATTTGATGGTCATCA
1 CCATCCCTTTTCATAAGTTGATGGTCATCA
* *
23933931 CCATCCCTTCTCATAAGTTGATGGTCGTCA
1 CCATCCCTTTTCATAAGTTGATGGTCATCA
23933961 CCATCCCTTTTCATA
1 CCATCCCTTTTCATA
23933976 GATCAATAGC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.20, C:0.31, G:0.12, T:0.37
Consensus pattern (30 bp):
CCATCCCTTTTCATAAGTTGATGGTCATCA
Found at i:23933937 original size:60 final size:59
Alignment explanation
Indices: 23933873--23934093 Score: 187
Period size: 60 Copynumber: 3.7 Consensus size: 59
23933863 AATCGAAGTT
* * *
23933873 ATCCCTTTTCATAGTTCGACAGCCGAAGCCATCCCTTTTCGTAATTTGATGGTCATCACC
1 ATCCCTTTTCATAGTT-GATAGCCGAAGCCATCCCTTTTCATAATTTGATGGCCATCACC
* * * * ** * *
23933933 ATCCCTTCTCATAAGTTGATGGTCGTCA-CCATCCCTTTTCATAGA-TCAATAGCCA-AAGCC
1 ATCCCTTTTCAT-AGTTGATAGCCG-AAGCCATCCCTTTTCATA-ATTTGATGGCCATCA-CC
* * * * * *
23933993 ATCCCTTTTCATAGTACGATAACTGAAGCCATCACTTTTCATAATTTGATGGGCGTCACC
1 ATCCCTTTTCATAGT-TGATAGCCGAAGCCATCCCTTTTCATAATTTGATGGCCATCACC
* * *
23934053 ATCCCTTTTCACAATTGATAGCCGAAGCTATCCCTTTTCAT
1 ATCCCTTTTCATAGTTGATAGCCGAAGCCATCCCTTTTCAT
23934094 TTGTCGATGA
Statistics
Matches: 121, Mismatches: 32, Indels: 17
0.71 0.19 0.10
Matches are distributed among these distances:
59 27 0.22
60 87 0.72
61 7 0.06
ACGTcount: A:0.25, C:0.29, G:0.14, T:0.33
Consensus pattern (59 bp):
ATCCCTTTTCATAGTTGATAGCCGAAGCCATCCCTTTTCATAATTTGATGGCCATCACC
Found at i:23933971 original size:90 final size:90
Alignment explanation
Indices: 23933873--23934093 Score: 241
Period size: 90 Copynumber: 2.5 Consensus size: 90
23933863 AATCGAAGTT
* * ** ** *
23933873 ATCCCTTTTCATAGTTCGACAGCCGAAGCCATCCCTTTTCGTAATTTGATGGTCAT-CA-CCATC
1 ATCCCTTTTCATAGTTCGATAGCCGAAGCCATCCCTTTTCATAATACGAT-AAC-TGAAGCCATC
* *
23933936 CCTTCTCATAAGTTGATGGTCGTCACC
64 ACTTCTCATAAGTTGATGGGCGTCACC
* * * *
23933963 ATCCCTTTTCATAGATCAATAGCCAAAGCCATCCCTTTTCATAGTACGATAACTGAAGCCATCAC
1 ATCCCTTTTCATAGTTCGATAGCCGAAGCCATCCCTTTTCATAATACGATAACTGAAGCCATCAC
* *
23934028 TTTTCATAATTTGATGGGCGTCACC
66 TTCTCATAAGTTGATGGGCGTCACC
* * *
23934053 ATCCCTTTTCACAATT-GATAGCCGAAGCTATCCCTTTTCAT
1 ATCCCTTTTCATAGTTCGATAGCCGAAGCCATCCCTTTTCAT
23934094 TTGTCGATGA
Statistics
Matches: 108, Mismatches: 21, Indels: 5
0.81 0.16 0.04
Matches are distributed among these distances:
88 1 0.01
89 24 0.22
90 83 0.77
ACGTcount: A:0.25, C:0.29, G:0.14, T:0.33
Consensus pattern (90 bp):
ATCCCTTTTCATAGTTCGATAGCCGAAGCCATCCCTTTTCATAATACGATAACTGAAGCCATCAC
TTCTCATAAGTTGATGGGCGTCACC
Found at i:23934022 original size:30 final size:30
Alignment explanation
Indices: 23933961--23934035 Score: 89
Period size: 30 Copynumber: 2.5 Consensus size: 30
23933951 ATGGTCGTCA
*
23933961 CCATCCCTTTTCATAGATCAATAGCCAAAG
1 CCATCCCTTTTCATAGATCAATAACCAAAG
* **
23933991 CCATCCCTTTTCATAG-TACGATAACTGAAG
1 CCATCCCTTTTCATAGAT-CAATAACCAAAG
*
23934021 CCATCACTTTTCATA
1 CCATCCCTTTTCATA
23934036 ATTTGATGGG
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
29 1 0.03
30 38 0.97
ACGTcount: A:0.31, C:0.29, G:0.09, T:0.31
Consensus pattern (30 bp):
CCATCCCTTTTCATAGATCAATAACCAAAG
Found at i:23943134 original size:214 final size:214
Alignment explanation
Indices: 23942763--23943196 Score: 850
Period size: 214 Copynumber: 2.0 Consensus size: 214
23942753 GGTAGTTGCT
23942763 CACAACATTAGCACAACGTCCACTATCAATGATAAGTGCGCAAAACTTACCTTTAATCAAACACC
1 CACAACATTAGCACAACGTCCACTATCAATGATAAGTGCGCAAAACTTACCTTTAATCAAACACC
23942828 TCGAATGGACTATATTAGTGCTTTGAAGATCAAGATCATCTTTTAATTGGATGTTGAGCGCCTCA
66 TCGAATGGACTATATTAGTGCTTTGAAGATCAAGATCATCTTTTAATTGGATGTTGAGCGCCTCA
23942893 CAACTAGATAGTGTAAATCATCTCTCTCTATTAGTGGTTCCACCAACTATTCTTTGATGCGATCC
131 CAACTAGATAGTGTAAATCATCTCTCTCTATTAGTGGTTCCACCAACTATTCTTTGATGCGATCC
*
23942958 TGGTCGTATCATGTTACGA
196 CGGTCGTATCATGTTACGA
*
23942977 CTCAACATTAGCACAACGTCCACTATCAATGATAAGTGCGCAAAACTTACCTTTAATCAAACACC
1 CACAACATTAGCACAACGTCCACTATCAATGATAAGTGCGCAAAACTTACCTTTAATCAAACACC
23943042 TCGAATGGACTATATTAGTGCTTTGAAGATCAAGATCATCTTTTAATTGGATGTTGAGCGCCTCA
66 TCGAATGGACTATATTAGTGCTTTGAAGATCAAGATCATCTTTTAATTGGATGTTGAGCGCCTCA
23943107 CAACTAGATAGTGTAAATCATCTCTCTCTATTAGTGGTTCCACCAACTATTCTTTGATGCGATCC
131 CAACTAGATAGTGTAAATCATCTCTCTCTATTAGTGGTTCCACCAACTATTCTTTGATGCGATCC
23943172 CGGTCGTATCATGTTACGA
196 CGGTCGTATCATGTTACGA
23943191 CACAAC
1 CACAAC
23943197 TCGATGCCAC
Statistics
Matches: 217, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
214 217 1.00
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (214 bp):
CACAACATTAGCACAACGTCCACTATCAATGATAAGTGCGCAAAACTTACCTTTAATCAAACACC
TCGAATGGACTATATTAGTGCTTTGAAGATCAAGATCATCTTTTAATTGGATGTTGAGCGCCTCA
CAACTAGATAGTGTAAATCATCTCTCTCTATTAGTGGTTCCACCAACTATTCTTTGATGCGATCC
CGGTCGTATCATGTTACGA
Found at i:23948252 original size:56 final size:51
Alignment explanation
Indices: 23948183--23948375 Score: 183
Period size: 50 Copynumber: 3.7 Consensus size: 51
23948173 GGGAATGAGA
* **
23948183 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATTATTAAGGTTATGAGAGG
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCA--ACCAA-G--ATGAGAGG
* *
23948239 TCCCACGTAAGACCATGTCTGGGACATAGCGTTGGC-ACCAAGATGAGAGG
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCAACCAAGATGAGAGG
* * * * **
23948289 TCCCCCGTAAGACCATGTCTGGGACATGGCATGGGC-ACCGATATGAGAAC
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCAACCAAGATGAGAGG
* * * * *
23948339 TCCCATGTAAGACTATATCTTGGATATGGCATTGGCA
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCA
23948376 GTATAGGAAA
Statistics
Matches: 116, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
50 79 0.68
52 1 0.01
53 3 0.03
56 33 0.28
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (51 bp):
TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCAACCAAGATGAGAGG
Found at i:23948417 original size:49 final size:49
Alignment explanation
Indices: 23948239--23948424 Score: 146
Period size: 50 Copynumber: 3.8 Consensus size: 49
23948229 TTATGAGAGG
* * * * **
23948239 TCCCACGTAAGACCATGTCTGGGACATAGCGTTGGCACCA-AGATGAGAGG
1 TCCCACGTAAGACCATGTTTGGGACATGGCATTGGCACGATAG--GAGAAC
* * * *
23948289 TCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
1 TCCCACGTAAGACCATGTTTGGGACATGGCATTGGCA-CGATAGGAGAAC
* * * *
23948339 TCCCATGTAAGACTATATCTT-GGATATGGCATTGGCA-GTATAGGA-AAC
1 TCCCACGTAAGACCATGT-TTGGGACATGGCATTGGCACG-ATAGGAGAAC
* *
23948387 ATCCCACGTAATACCATGTTTGGGACATGGCTTTGGCA
1 -TCCCACGTAAGACCATGTTTGGGACATGGCATTGGCA
23948425 TGTTATTATC
Statistics
Matches: 108, Mismatches: 22, Indels: 13
0.76 0.15 0.09
Matches are distributed among these distances:
48 6 0.06
49 33 0.31
50 65 0.60
51 3 0.03
52 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.23
Consensus pattern (49 bp):
TCCCACGTAAGACCATGTTTGGGACATGGCATTGGCACGATAGGAGAAC
Found at i:23948651 original size:20 final size:20
Alignment explanation
Indices: 23948626--23948674 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
23948616 TGAGTTATTT
23948626 AAGTAAGCAAGTAAGTAAAC
1 AAGTAAGCAAGTAAGTAAAC
*
23948646 AAGTAAG-AGAGTAAGTAAAG
1 AAGTAAGCA-AGTAAGTAAAC
23948666 AAG-AAGCAA
1 AAGTAAGCAA
23948675 AGACCATGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.57, C:0.06, G:0.24, T:0.12
Consensus pattern (20 bp):
AAGTAAGCAAGTAAGTAAAC
Found at i:23952533 original size:19 final size:20
Alignment explanation
Indices: 23952496--23952533 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
23952486 TTTATGGTTT
*
23952496 TAAATAATTTTTGGGTAAAA
1 TAAATAATTTTCGGGTAAAA
*
23952516 TAAAT-ATTTTCGGTTAAA
1 TAAATAATTTTCGGGTAAA
23952534 TTAGAATTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 11 0.69
20 5 0.31
ACGTcount: A:0.42, C:0.03, G:0.13, T:0.42
Consensus pattern (20 bp):
TAAATAATTTTCGGGTAAAA
Found at i:23956512 original size:17 final size:16
Alignment explanation
Indices: 23956473--23956515 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
23956463 ATTACGAAAC
**
23956473 TTTAAAAAAATTCGTA
1 TTTAAAAAAATTCAAA
*
23956489 TTAAAAAAAATTCCAAA
1 TTTAAAAAAATT-CAAA
23956506 TTTAAAAAAA
1 TTTAAAAAAA
23956516 AGGTTGCAAG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 11 0.50
17 11 0.50
ACGTcount: A:0.60, C:0.07, G:0.02, T:0.30
Consensus pattern (16 bp):
TTTAAAAAAATTCAAA
Found at i:23967837 original size:62 final size:62
Alignment explanation
Indices: 23967703--23967870 Score: 203
Period size: 62 Copynumber: 2.7 Consensus size: 62
23967693 GTCCAGGGGT
* * *
23967703 CACACGGGCATGTGTCCAGGCCGTGTAACTCACTGACTTCGAATTTGGATCACACAGGCTAA
1 CACACGGGCGTGTGTCCAGGCCGTGTAACTCACTGACTTCGAATTTGAATCACACAGACTAA
* * * * * *
23967765 TACACAGGCGTGTGTCCAGGTCATGTAACTCACTGACTTCGAATTTGAATCATAC-GTACTGA
1 CACACGGGCGTGTGTCCAGGCCGTGTAACTCACTGACTTCGAATTTGAATCACACAG-ACTAA
* * * *
23967827 CACACGGGCGTGTGTCTAGGCCGTGTGACTCATTGACTTTGAAT
1 CACACGGGCGTGTGTCCAGGCCGTGTAACTCACTGACTTCGAAT
23967871 CTGATGATAC
Statistics
Matches: 88, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
61 1 0.01
62 87 0.99
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.27
Consensus pattern (62 bp):
CACACGGGCGTGTGTCCAGGCCGTGTAACTCACTGACTTCGAATTTGAATCACACAGACTAA
Found at i:23968026 original size:10 final size:10
Alignment explanation
Indices: 23968002--23968037 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
23967992 GCTCCTTTCA
*
23968002 AGCTCAA-TG
1 AGCTCAATTT
23968011 AGCTCAATTT
1 AGCTCAATTT
23968021 AGCTCAATTT
1 AGCTCAATTT
23968031 AGCTCAA
1 AGCTCAA
23968038 AACTTGCAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
9 7 0.28
10 18 0.72
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.31
Consensus pattern (10 bp):
AGCTCAATTT
Found at i:23969163 original size:21 final size:21
Alignment explanation
Indices: 23969137--23969180 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
23969127 TACCCAAATA
23969137 CCATACCATTTCATACCAATT
1 CCATACCATTTCATACCAATT
*
23969158 CCATACCATTTCGTACCAATT
1 CCATACCATTTCATACCAATT
23969179 CC
1 CC
23969181 CAAATACCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.36, G:0.02, T:0.32
Consensus pattern (21 bp):
CCATACCATTTCATACCAATT
Found at i:23977451 original size:37 final size:36
Alignment explanation
Indices: 23977357--23977452 Score: 97
Period size: 37 Copynumber: 2.6 Consensus size: 36
23977347 ATTTTTTTCG
* *
23977357 AATTTTTTCT-CTTTGTTCTTTTAAACTTTGATATTCA
1 AATTTTTTTTACTTT-TT-TTTTAAACTTTGATAATCA
23977394 AATTTTTTTTACTTTTTTTTTAAACTTTGATAAAT-A
1 AATTTTTTTTACTTTTTTTTTAAACTTTGAT-AATCA
* *
23977430 TATATTTTTTTATTTTGTTTTTT
1 AAT-TTTTTTTACTTT-TTTTTT
23977453 TTGTGCAGAA
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
36 17 0.33
37 24 0.47
38 10 0.20
ACGTcount: A:0.23, C:0.07, G:0.04, T:0.66
Consensus pattern (36 bp):
AATTTTTTTTACTTTTTTTTTAAACTTTGATAATCA
Found at i:23977451 original size:38 final size:37
Alignment explanation
Indices: 23977359--23977452 Score: 102
Period size: 36 Copynumber: 2.5 Consensus size: 37
23977349 TTTTTTCGAA
* *
23977359 TTTTTTCTCTTTGTTCTTTTAAACTTTGATATTCAAATT
1 TTTTTTAT-TTTGTT-TTTTAAACTTTGATAATCAAATT
* *
23977398 TTTTTTACTTT-TTTTTTAAACTTTGATAAAT-ATATAT
1 TTTTTTATTTTGTTTTTTAAACTTTGAT-AATCAAAT-T
23977435 TTTTTTATTTTGTTTTTT
1 TTTTTTATTTTGTTTTTT
23977453 TTGTGCAGAA
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
36 17 0.36
37 15 0.32
38 9 0.19
39 6 0.13
ACGTcount: A:0.21, C:0.07, G:0.04, T:0.67
Consensus pattern (37 bp):
TTTTTTATTTTGTTTTTTAAACTTTGATAATCAAATT
Found at i:23978068 original size:42 final size:42
Alignment explanation
Indices: 23978021--23978103 Score: 148
Period size: 42 Copynumber: 2.0 Consensus size: 42
23978011 AATATGTGTG
*
23978021 AAACGTTTGAAATTCAAACATTTGAACTCTTGTTCTTATCCA
1 AAACGTTTGAAATTCAAACATTTGAACTCTTGTTATTATCCA
*
23978063 AAACGTTTGAAATTTAAACATTTGAACTCTTGTTATTATCC
1 AAACGTTTGAAATTCAAACATTTGAACTCTTGTTATTATCC
23978104 CTTTGAATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.34, C:0.17, G:0.10, T:0.40
Consensus pattern (42 bp):
AAACGTTTGAAATTCAAACATTTGAACTCTTGTTATTATCCA
Found at i:23980426 original size:40 final size:40
Alignment explanation
Indices: 23980337--23980426 Score: 92
Period size: 40 Copynumber: 2.2 Consensus size: 40
23980327 CAGGGGACGT
* * * * *
23980337 GTCAGCAAATCGCGGCCACGTAAGCGCGCTTTGTTGACAT
1 GTCAGCAAAGCACGGCCACGAAAGCGCGATTTGTTGACAC
* * *
23980377 GGCAACAAAGCACGTCCACGAAAGCGCGATTTGTGTG-CAC
1 GTCAGCAAAGCACGGCCACGAAAGCGCGATTTGT-TGACAC
23980417 GTCAGCAAAG
1 GTCAGCAAAG
23980427 TGCGCTGACG
Statistics
Matches: 39, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
40 37 0.95
41 2 0.05
ACGTcount: A:0.28, C:0.27, G:0.28, T:0.18
Consensus pattern (40 bp):
GTCAGCAAAGCACGGCCACGAAAGCGCGATTTGTTGACAC
Found at i:23980906 original size:126 final size:125
Alignment explanation
Indices: 23980662--23981355 Score: 1036
Period size: 126 Copynumber: 5.5 Consensus size: 125
23980652 GATAAAATCA
* * * * * * *
23980662 AAGCAGGATGCT-TTATCAGAAGGATTTCTGAAGTCGCGCCCACGTGTACACGCTTTTGCTACAG
1 AAGCAGGATGCTATT-TGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
* * * *
23980726 TAGGTCTTGGAAAAATAATTTCGAGTTGACGTTTCTGAGTAAATAGTATAAAAAAAGGCTTC
65 TAGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGT-TTAAAAAACGCTTC
* *
23980788 AGGCAGGATGCT-TTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTATAG
1 AAGCAGGATGCTATT-TGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
*
23980852 TAGGTCCTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAAAAATGCTTC
65 TAGGTCCTGGAA-AAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAAAAACGCTTC
* * *
23980914 AAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCCCGCCCTCGTGGACGCACTTTTGCTACAAT
1 AAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
23980979 AGGTCCTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAAAAAACGCTTC
66 AGGTCCTGGAA-AAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTT-AAAAAACGCTTC
* * *
23981041 AAGCAGGATGCTATTTGAAAAGAATTTGTGAAATCGCGCCCTCGTGGACGCACTTTTGCTATAGT
1 AAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
* * *
23981106 AGGTCCT-GTAAAATAATTTTGAGTTGATGTTTCTGAGCAAATAGTTTAAAAAACGCTTC
66 AGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAAAAACGCTTC
* * *
23981165 AAGAAGGATGCTATTTGAGAAGAATTTGTGAAATCGCACCCTCGTGGACGCTCTTTTGCTACAGT
1 AAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
*
23981230 AGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTAT-AAAAACGCTTC
66 AGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAAAAACGCTTC
* * *
23981289 TAGCAGGATGCTATTTGAAAAGAATTTGTGAAATCGCGCCCTCGTGAACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
23981354 AG
66 AG
23981356 CATGTTTGAG
Statistics
Matches: 523, Mismatches: 41, Indels: 10
0.91 0.07 0.02
Matches are distributed among these distances:
124 151 0.29
125 71 0.14
126 186 0.36
127 115 0.22
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (125 bp):
AAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
AGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAAAAACGCTTC
Found at i:23981235 original size:251 final size:251
Alignment explanation
Indices: 23980714--23981355 Score: 1049
Period size: 251 Copynumber: 2.6 Consensus size: 251
23980704 CGTGTACACG
* *
23980714 CTTTTGCTACAGTAGGTCTTGGAAAAATAATTTCGAGTTGACGTTTCTGAGTAAATAGTATAAAA
1 CTTTTGCTACAGTAGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGT-TAAAA
* * *
23980779 AAAGGCTTCAGGCAGGATGCT-TTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTT
65 AAACGCTTCAAGCAGGATGCTATT-TGAAAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTT
23980843 TTGCTATAGTAGGTCCTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAAAAA
129 TTGCTATAGTAGGTCCTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAAAAA
* * *
23980908 TGCTTCAAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCCCGCCCTCGTGGACGCA
194 CGCTTCAAGAAGGATGCTATTTGAGAAGAATTTGTGAAATCCCACCCTCGTGGACGCA
*
23980966 CTTTTGCTACAATAGGTCCTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAA
1 CTTTTGCTACAGTAGGTCCTGGAA-AAATAATTTCGAGTTGACGTTTCTGAGCAAATAG-TTAAA
*
23981031 AAAACGCTTCAAGCAGGATGCTATTTGAAAAGAATTTGTGAAATCGCGCCCTCGTGGACGCACTT
64 AAAACGCTTCAAGCAGGATGCTATTTGAAAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTT
* * *
23981096 TTGCTATAGTAGGTCCT-GTA-AAATAATTTTGAGTTGATGTTTCTGAGCAAATAGTTTAAAAAA
129 TTGCTATAGTAGGTCCTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAAAAA
* *
23981159 CGCTTCAAGAAGGATGCTATTTGAGAAGAATTTGTGAAATCGCACCCTCGTGGACGCT
194 CGCTTCAAGAAGGATGCTATTTGAGAAGAATTTGTGAAATCCCACCCTCGTGGACGCA
*
23981217 CTTTTGCTACAGTAGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAG-TATAAA
1 CTTTTGCTACAGTAGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTAAAAA
* *
23981281 AACGCTTCTAGCAGGATGCTATTTGAAAAGAATTTGTGAAATCGCGCCCTCGTGAACGCGCTTTT
66 AACGCTTCAAGCAGGATGCTATTTGAAAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTT
*
23981346 GCTACAGTAG
131 GCTATAGTAG
23981356 CATGTTTGAG
Statistics
Matches: 366, Mismatches: 21, Indels: 10
0.92 0.05 0.03
Matches are distributed among these distances:
248 76 0.21
250 34 0.09
251 117 0.32
252 24 0.07
253 112 0.31
254 3 0.01
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (251 bp):
CTTTTGCTACAGTAGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTAAAAA
AACGCTTCAAGCAGGATGCTATTTGAAAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTT
GCTATAGTAGGTCCTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAAAAACG
CTTCAAGAAGGATGCTATTTGAGAAGAATTTGTGAAATCCCACCCTCGTGGACGCA
Found at i:23982675 original size:18 final size:18
Alignment explanation
Indices: 23982649--23982692 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
23982639 TACTCGAAAA
* *
23982649 AGGAAACATATAAGGGTT
1 AGGAAACATAAAAGGGCT
*
23982667 AGGATACATAAAAGGGCT
1 AGGAAACATAAAAGGGCT
23982685 AGGAAACA
1 AGGAAACA
23982693 CACCTGGCAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.48, C:0.09, G:0.27, T:0.16
Consensus pattern (18 bp):
AGGAAACATAAAAGGGCT
Found at i:23984466 original size:11 final size:11
Alignment explanation
Indices: 23984452--23984477 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
23984442 TTTAAAAAAT
23984452 AAATTATTTAA
1 AAATTATTTAA
23984463 AAATTATTTAA
1 AAATTATTTAA
23984474 AAAT
1 AAAT
23984478 AGGGATTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
AAATTATTTAA
Found at i:23984518 original size:51 final size:51
Alignment explanation
Indices: 23984474--23984573 Score: 157
Period size: 51 Copynumber: 2.0 Consensus size: 51
23984464 AATTATTTAA
23984474 AAATAGGGATTTAAGAGAAATTTA-AGAGGAAATTGAGAGCAAATTGAGATT
1 AAATAGGGATTTAAGAGAAATTTAGA-AGGAAATTGAGAGCAAATTGAGATT
* * *
23984525 AAATATGGATTTCAGAGAAATTTAGAAGGAATTTGAGAGCAAATTGAGA
1 AAATAGGGATTTAAGAGAAATTTAGAAGGAAATTGAGAGCAAATTGAGA
23984574 GGAAATTGAG
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
51 44 0.98
52 1 0.02
ACGTcount: A:0.46, C:0.03, G:0.25, T:0.26
Consensus pattern (51 bp):
AAATAGGGATTTAAGAGAAATTTAGAAGGAAATTGAGAGCAAATTGAGATT
Found at i:23984558 original size:22 final size:22
Alignment explanation
Indices: 23984533--23984601 Score: 68
Period size: 22 Copynumber: 3.0 Consensus size: 22
23984523 TTAAATATGG
*
23984533 ATTTCAGAGAAATTTAGAAGGA
1 ATTTGAGAGAAATTTAGAAGGA
*
23984555 ATTTGAGAGCAAATTGAG-AGGA
1 ATTTGAGAG-AAATTTAGAAGGA
*
23984577 AATTGAGAGGAAATTTGAGAGAGGA
1 ATTTGAGA-GAAATTT-AGA-AGGA
23984602 TTAGTTTGTG
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
22 24 0.63
23 10 0.26
25 4 0.11
ACGTcount: A:0.43, C:0.03, G:0.30, T:0.23
Consensus pattern (22 bp):
ATTTGAGAGAAATTTAGAAGGA
Found at i:23984601 original size:14 final size:11
Alignment explanation
Indices: 23984541--23984597 Score: 69
Period size: 11 Copynumber: 5.0 Consensus size: 11
23984531 GGATTTCAGA
*
23984541 GAAATTTAGAAG
1 GAAATTGAG-AG
*
23984553 GAATTTGAGAG
1 GAAATTGAGAG
*
23984564 CAAATTGAGAG
1 GAAATTGAGAG
23984575 GAAATTGAGAG
1 GAAATTGAGAG
23984586 GAAATTTGAGAG
1 GAAA-TTGAGAG
23984598 AGGATTAGTT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
11 25 0.64
12 14 0.36
ACGTcount: A:0.44, C:0.02, G:0.32, T:0.23
Consensus pattern (11 bp):
GAAATTGAGAG
Found at i:23990722 original size:13 final size:15
Alignment explanation
Indices: 23990688--23990717 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
23990678 GAGAAAATAG
*
23990688 TATAATAAATATATT
1 TATAAAAAATATATT
23990703 TATAAAAAATATATT
1 TATAAAAAATATATT
23990718 AAAAATAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
TATAAAAAATATATT
Found at i:23993156 original size:53 final size:54
Alignment explanation
Indices: 23993094--23993207 Score: 194
Period size: 53 Copynumber: 2.1 Consensus size: 54
23993084 ATAAGTATTT
* *
23993094 AGTTGCTGGAATAAATTACTCATCTTAGTTAATTGAGTTCATCTTAGTTAA-TA
1 AGTTGCTGGAATAAATTAATCATCTTAGTTAATTAAGTTCATCTTAGTTAATTA
*
23993147 AGTTGCTGGAATAAATTAATCATCTTAGTTAATTAAGTTCATGTTAGTTAATTA
1 AGTTGCTGGAATAAATTAATCATCTTAGTTAATTAAGTTCATCTTAGTTAATTA
23993201 AGTTGCT
1 AGTTGCT
23993208 TAAATCATTA
Statistics
Matches: 57, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
53 48 0.84
54 9 0.16
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.42
Consensus pattern (54 bp):
AGTTGCTGGAATAAATTAATCATCTTAGTTAATTAAGTTCATCTTAGTTAATTA
Found at i:23993193 original size:19 final size:19
Alignment explanation
Indices: 23993113--23993204 Score: 86
Period size: 19 Copynumber: 5.1 Consensus size: 19
23993103 AATAAATTAC
*
23993113 TCATCTTAGTTAATTGAGT
1 TCATCTTAGTTAATTAAGT
23993132 TCATCTTAGTTAA-TAAGT
1 TCATCTTAGTTAATTAAGT
** * *
23993150 TGC-T-GGAATAAATTAA--
1 T-CATCTTAGTTAATTAAGT
23993166 TCATCTTAGTTAATTAAGT
1 TCATCTTAGTTAATTAAGT
*
23993185 TCATGTTAGTTAATTAAGT
1 TCATCTTAGTTAATTAAGT
23993204 T
1 T
23993205 GCTTAAATCA
Statistics
Matches: 57, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
15 1 0.02
16 2 0.04
17 12 0.21
18 9 0.16
19 33 0.58
ACGTcount: A:0.33, C:0.09, G:0.14, T:0.45
Consensus pattern (19 bp):
TCATCTTAGTTAATTAAGT
Found at i:23993427 original size:20 final size:19
Alignment explanation
Indices: 23993402--23993439 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
23993392 AGCTGTTATG
23993402 AAGTTGAATTAAAGGCCAAC
1 AAGTTGAATTAAA-GCCAAC
23993422 AAGTTGAATTAAAGCCAA
1 AAGTTGAATTAAAGCCAA
23993440 TAGCTGTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.47, C:0.13, G:0.18, T:0.21
Consensus pattern (19 bp):
AAGTTGAATTAAAGCCAAC
Found at i:24001698 original size:16 final size:16
Alignment explanation
Indices: 24001677--24001710 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
24001667 GATTAGGACA
24001677 TAATTAAACACTTAAT
1 TAATTAAACACTTAAT
**
24001693 TAATTAAGTACTTAAT
1 TAATTAAACACTTAAT
24001709 TA
1 TA
24001711 GGACATAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.47, C:0.09, G:0.03, T:0.41
Consensus pattern (16 bp):
TAATTAAACACTTAAT
Found at i:24003272 original size:20 final size:20
Alignment explanation
Indices: 24003247--24003300 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
24003237 TCCTACTTCA
24003247 AGTTCATTCAGCTCAACCAT
1 AGTTCATTCAGCTCAACCAT
* * **
24003267 AGTTCATTGAGCTCATCTTT
1 AGTTCATTCAGCTCAACCAT
*
24003287 AGCTCATTCAGCTC
1 AGTTCATTCAGCTC
24003301 GTCTTCGTTT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.28, G:0.13, T:0.35
Consensus pattern (20 bp):
AGTTCATTCAGCTCAACCAT
Found at i:24004130 original size:31 final size:31
Alignment explanation
Indices: 24004094--24004156 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
24004084 TGATAATTTG
24004094 TCAAAGGACTTTTGCCATTTTGATTATTGAA
1 TCAAAGGACTTTTGCCATTTTGATTATTGAA
24004125 TCAAAGGACTTTTGCCATTTTGATTATTGAA
1 TCAAAGGACTTTTGCCATTTTGATTATTGAA
24004156 T
1 T
24004157 TAAGTATTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.29, C:0.13, G:0.16, T:0.43
Consensus pattern (31 bp):
TCAAAGGACTTTTGCCATTTTGATTATTGAA
Found at i:24004770 original size:17 final size:18
Alignment explanation
Indices: 24004748--24004782 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
24004738 GAATCATATT
24004748 CGCTAGGTAATA-TTATC
1 CGCTAGGTAATACTTATC
*
24004765 CGCTAGGTGATACTTATC
1 CGCTAGGTAATACTTATC
24004783 TCTAGGAGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (18 bp):
CGCTAGGTAATACTTATC
Found at i:24005655 original size:132 final size:132
Alignment explanation
Indices: 24005447--24005711 Score: 476
Period size: 132 Copynumber: 2.0 Consensus size: 132
24005437 TCATACACAT
* *
24005447 AGTTATCACAATGAATAATGTTTTTGAGTATTACATAATATTCCAAGAAACATTCTCTTGGTGGG
1 AGTTATCACAATGAATAATGCTTTTGAGTATTACATAATATTCCAAGAAACATTCTCTTGGCGGG
*
24005512 TCAGGCTAGTATGTTGTTCTCTAACACATACTCATGTAATGATTTTGAAATCCCCATGTCATTGA
66 TCAGGCTAGTATGTTGTTCTCTAACACATACTCATGTAATGATTTCGAAATCCCCATGTCATTGA
24005577 CA
131 CA
* *
24005579 AGTTATCACAATGAATAATGCTTTTGAGTATTATATAATATTCTAAGAAACATTCTCTTGGCGGG
1 AGTTATCACAATGAATAATGCTTTTGAGTATTACATAATATTCCAAGAAACATTCTCTTGGCGGG
*
24005644 TCAGGCTAGTATGTTGTTCTCTAACACATATTCATGTAATGATTTCGAAATCCCCATGTCATTGA
66 TCAGGCTAGTATGTTGTTCTCTAACACATACTCATGTAATGATTTCGAAATCCCCATGTCATTGA
24005709 CA
131 CA
24005711 A
1 A
24005712 CGCTTTGTCA
Statistics
Matches: 127, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
132 127 1.00
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.36
Consensus pattern (132 bp):
AGTTATCACAATGAATAATGCTTTTGAGTATTACATAATATTCCAAGAAACATTCTCTTGGCGGG
TCAGGCTAGTATGTTGTTCTCTAACACATACTCATGTAATGATTTCGAAATCCCCATGTCATTGA
CA
Found at i:24008469 original size:28 final size:28
Alignment explanation
Indices: 24008360--24008572 Score: 215
Period size: 28 Copynumber: 7.7 Consensus size: 28
24008350 AAAAATGTTA
*
24008360 GAAAATGAA-AGCCTTTGTGGC-GAATCAT
1 GAAAA-GAATAGCCTTTGTGGCAAAAT-AT
* *
24008388 GAAATGAAT-G-CTTTGTGGC-GAATCAT
1 GAAAAGAATAGCCTTTGTGGCAAAAT-AT
* * *
24008414 -AATATGAA-AGCCTTTGTGGCGAAGTAT
1 GAA-AAGAATAGCCTTTGTGGCAAAATAT
* **
24008441 GAAAATAATAGCCTTTGTGGTTAAATAT
1 GAAAAGAATAGCCTTTGTGGCAAAATAT
24008469 GAAAAGAATAGCCTTTGTGGCAAAATAT
1 GAAAAGAATAGCCTTTGTGGCAAAATAT
24008497 GAAAAGAATAGCCTTTGTGGCAAAATAT
1 GAAAAGAATAGCCTTTGTGGCAAAATAT
* * *
24008525 GAAAAAAATAGCCTTTGTGGCGAAGTAT
1 GAAAAGAATAGCCTTTGTGGCAAAATAT
* *
24008553 GAAAAGAACAGCCTCTGTGG
1 GAAAAGAATAGCCTTTGTGG
24008573 TGATCTCTGA
Statistics
Matches: 161, Mismatches: 17, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
25 2 0.01
26 22 0.14
27 18 0.11
28 119 0.74
ACGTcount: A:0.38, C:0.12, G:0.24, T:0.27
Consensus pattern (28 bp):
GAAAAGAATAGCCTTTGTGGCAAAATAT
Found at i:24008489 original size:56 final size:56
Alignment explanation
Indices: 24008360--24008600 Score: 237
Period size: 56 Copynumber: 4.4 Consensus size: 56
24008350 AAAAATGTTA
* **
24008360 GAAAATGAA-AGCCTTTGTGGCGAA-TCATGAAATGAAT-G-CTTTGTGG-CGAATCAT
1 GAAAA-GAATAGCCTTTGTGGCGAAGT-ATGAAAAGAATAGCCTTTGTGGTAAAAT-AT
* * *
24008414 -AATATGAA-AGCCTTTGTGGCGAAGTATGAAAATAATAGCCTTTGTGGTTAAATAT
1 GAA-AAGAATAGCCTTTGTGGCGAAGTATGAAAAGAATAGCCTTTGTGGTAAAATAT
* * *
24008469 GAAAAGAATAGCCTTTGTGGCAAAATATGAAAAGAATAGCCTTTGTGGCAAAATAT
1 GAAAAGAATAGCCTTTGTGGCGAAGTATGAAAAGAATAGCCTTTGTGGTAAAATAT
* * * * ** *
24008525 GAAAAAAATAGCCTTTGTGGCGAAGTATGAAAAGAACAGCCTCTGTGGTGATCTCT
1 GAAAAGAATAGCCTTTGTGGCGAAGTATGAAAAGAATAGCCTTTGTGGTAAAATAT
*
24008581 GAAAAGAAT-GCCCTTGTGGC
1 GAAAAGAATAGCCTTTGTGGC
24008601 ACACACTAAT
Statistics
Matches: 157, Mismatches: 23, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
53 29 0.18
54 3 0.02
55 24 0.15
56 101 0.64
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.27
Consensus pattern (56 bp):
GAAAAGAATAGCCTTTGTGGCGAAGTATGAAAAGAATAGCCTTTGTGGTAAAATAT
Found at i:24010649 original size:20 final size:20
Alignment explanation
Indices: 24010624--24010670 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
24010614 AGCTCGTTTC
24010624 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCGAGCTCAAGT
* * * *
24010644 CAGCTCATTCGAGTTGAATT
1 CAGCTCACTCGAGCTCAAGT
24010664 CAGCTCA
1 CAGCTCA
24010671 ACCTCAACCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.26
Consensus pattern (20 bp):
CAGCTCACTCGAGCTCAAGT
Found at i:24013956 original size:29 final size:29
Alignment explanation
Indices: 24013919--24013975 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
24013909 GACATTTTTG
24013919 TTGAATGGAGTTTGCTATGATTGATGTTA
1 TTGAATGGAGTTTGCTATGATTGATGTTA
24013948 TTGAATGGAGTTTGCTATGATTGATGTT
1 TTGAATGGAGTTTGCTATGATTGATGTT
24013976 GTGAAATATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.23, C:0.04, G:0.28, T:0.46
Consensus pattern (29 bp):
TTGAATGGAGTTTGCTATGATTGATGTTA
Found at i:24015182 original size:14 final size:14
Alignment explanation
Indices: 24015163--24015191 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
24015153 TAAAATCACC
24015163 AAATTTAATGTCCA
1 AAATTTAATGTCCA
24015177 AAATTTAATGTCCA
1 AAATTTAATGTCCA
24015191 A
1 A
24015192 TGTTCATTAC
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:0.45, C:0.14, G:0.07, T:0.34
Consensus pattern (14 bp):
AAATTTAATGTCCA
Found at i:24028458 original size:36 final size:37
Alignment explanation
Indices: 24028418--24028490 Score: 87
Period size: 37 Copynumber: 2.0 Consensus size: 37
24028408 TCAAAAACCT
24028418 GCAAAACAAACAC-TCAA-CACTCAAAAAGAAAAATTA
1 GCAAAACAAAC-CGTCAATCACTCAAAAAGAAAAATTA
* ** *
24028454 GCAAACCTCACCGTTAATCACTCAAAAAGAAAAATTA
1 GCAAAACAAACCGTCAATCACTCAAAAAGAAAAATTA
24028491 AATTCTCAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
35 1 0.03
36 11 0.35
37 19 0.61
ACGTcount: A:0.55, C:0.23, G:0.07, T:0.15
Consensus pattern (37 bp):
GCAAAACAAACCGTCAATCACTCAAAAAGAAAAATTA
Found at i:24047341 original size:384 final size:384
Alignment explanation
Indices: 24046625--24047392 Score: 1421
Period size: 384 Copynumber: 2.0 Consensus size: 384
24046615 TGAATGAAAC
24046625 TCTGTTCATTTGGTGAGAATTACTTTTCTCCAATTTTGTACAAAGACTTGTTGGCTTATCTACAA
1 TCTGTTCATTTGGTGAGAATTACTTTTCTCCAATTTTGTACAAAGACTTGTTGGCTTATCTACAA
*
24046690 AGTTAGTGGCGTCAACCCGTTCTTTGTTTTATCAAGAACTTATCACTTTAGCAAGTGTGGCATTC
66 AGTTAGTGGCGTCAACCCGTTCTTTGCTTTATCAAGAACTTATCACTTTAGCAAGTGTGGCATTC
* *
24046755 AAACCCTATACCGAGGTTCCTATCTTTCTAGACAGCGGGTCGAGGTTTTGATTGAATTTTCTATC
131 AAACCCTATACCGAGGTTCCTATCCTTCTAGACAGCGAGTCGAGGTTTTGATTGAATTTTCTATC
*
24046820 CATCTCATCAAACGTATAAGTGTCGGGTCGACACTTACTAGTGTTGGTTCTTACTTATTTCTTGA
196 CATCTCATCAAACGTATAAGTGTCGGGTCGACACTTACTAGTGTTGGGTCTTACTTATTTCTTGA
24046885 GTCGTTTTTCTTTCCTTCATTTTATCATAACCGAATACATCCATTCTTAGCCATTTTTCCTGAAC
261 GTCGTTTTTCTTTCCTTCATTTTATCATAACCGAATACATCCATTCTTAGCCATTTTTCCTGAAC
24046950 CTTTTGATATGAGTCACAAAGGCCCAACTCAAGCTCAAGAACGTGATGGGCTCAAATTA
326 CTTTTGATATGAGTCACAAAGGCCCAACTCAAGCTCAAGAACGTGATGGGCTCAAATTA
*
24047009 TCTGTTCATTTGGTGAGAATTACTTTTCTCCGATTTTGTACAAAGACTTGTTGGCTTATCTACAA
1 TCTGTTCATTTGGTGAGAATTACTTTTCTCCAATTTTGTACAAAGACTTGTTGGCTTATCTACAA
* **
24047074 AGTTAGTGGTGTCAACCCGTTCTTTGCTTTATCCTGAACTTATCACTTTAGCAAGTGTGGCATTC
66 AGTTAGTGGCGTCAACCCGTTCTTTGCTTTATCAAGAACTTATCACTTTAGCAAGTGTGGCATTC
*
24047139 AAACCCTATACCGAGGTTCCTATCCTTCTAGACAGCGAGTCGAGGTTTTGATTGAATTTTCTGTC
131 AAACCCTATACCGAGGTTCCTATCCTTCTAGACAGCGAGTCGAGGTTTTGATTGAATTTTCTATC
24047204 CATCTCATTC-AACGTATAAGTGTCGGGTCGACACTTACTAGTGTTGGGTCTTACTTATTTCTTG
196 CATCTCA-TCAAACGTATAAGTGTCGGGTCGACACTTACTAGTGTTGGGTCTTACTTATTTCTTG
*
24047268 AGTCGTTTTTCTTTCCTTCATTTTATCATAACTGAATACATCCATTCTTAGCCATTTTTCCTGAA
260 AGTCGTTTTTCTTTCCTTCATTTTATCATAACCGAATACATCCATTCTTAGCCATTTTTCCTGAA
*
24047333 CTTTTTGATATGAGTCACAAAGGCCCAACTCAAGCTCAAGAACGTGATGGGCTCAAATTA
325 CCTTTTGATATGAGTCACAAAGGCCCAACTCAAGCTCAAGAACGTGATGGGCTCAAATTA
24047393 CCACAAGGCT
Statistics
Matches: 372, Mismatches: 11, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
384 370 0.99
385 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.38
Consensus pattern (384 bp):
TCTGTTCATTTGGTGAGAATTACTTTTCTCCAATTTTGTACAAAGACTTGTTGGCTTATCTACAA
AGTTAGTGGCGTCAACCCGTTCTTTGCTTTATCAAGAACTTATCACTTTAGCAAGTGTGGCATTC
AAACCCTATACCGAGGTTCCTATCCTTCTAGACAGCGAGTCGAGGTTTTGATTGAATTTTCTATC
CATCTCATCAAACGTATAAGTGTCGGGTCGACACTTACTAGTGTTGGGTCTTACTTATTTCTTGA
GTCGTTTTTCTTTCCTTCATTTTATCATAACCGAATACATCCATTCTTAGCCATTTTTCCTGAAC
CTTTTGATATGAGTCACAAAGGCCCAACTCAAGCTCAAGAACGTGATGGGCTCAAATTA
Found at i:24052139 original size:18 final size:18
Alignment explanation
Indices: 24052112--24052153 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
24052102 TGCTGGAATA
*
24052112 AATTAATTAAGTT-AGTTT
1 AATTAATTAA-TTCAGCTT
*
24052130 AATTAGTTAATTCAGCTT
1 AATTAATTAATTCAGCTT
24052148 AATTAA
1 AATTAA
24052154 ATGTTGAGTA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 2 0.10
18 18 0.90
ACGTcount: A:0.40, C:0.05, G:0.10, T:0.45
Consensus pattern (18 bp):
AATTAATTAATTCAGCTT
Found at i:24058747 original size:50 final size:50
Alignment explanation
Indices: 24058624--24058865 Score: 195
Period size: 50 Copynumber: 4.7 Consensus size: 50
24058614 GGTAAAGAGA
* ** **
24058624 TCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATAATTGAGATTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGC--ACCT-AG---ATGAGAAC
* * * *
24058680 TCCGATGTAAGACCATGTCCGGGACATGGCGTTGGCACCGT-GATGAGAAG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACC-TAGATGAGAAC
* * *
24058730 TCCCCA-GTAAGACCATGTCTGGGACATAGCATGGGCACCTATATGAGAAC
1 T-CCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCTAGATGAGAAC
* * * * *
24058780 TCCCATGTAAGACCATATCTGGGATATGGCATTGGCA-GTACAAGA-AAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCTAGATGAGAAC
* * *
24058828 ATCCCATGTAAGACTATGTCTGGGACATAGCTTTGGCA
1 -TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
24058866 TGTTATATTC
Statistics
Matches: 155, Mismatches: 26, Indels: 17
0.78 0.13 0.09
Matches are distributed among these distances:
48 3 0.02
49 42 0.27
50 72 0.46
51 3 0.02
53 1 0.01
54 1 0.01
55 1 0.01
56 32 0.21
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.24
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCTAGATGAGAAC
Done.