Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 186 of 213
Found at i:55989165 original size:38 final size:38
Alignment explanation
Indices: 55989100--55989202 Score: 104
Period size: 38 Copynumber: 2.8 Consensus size: 38
55989090 ATTATTCAAA
* * *
55989100 CACATATGCCAAAAGCAAACA-AT-TATACTTATCAA-C
1 CACATATGCCGAATGCACACACATATATACTTAT-AATC
* * * * *
55989136 CACATGTGCCGACTGCACATATATATATACTTATAATT
1 CACATATGCCGAATGCACACACATATATACTTATAATC
55989174 CACATATGCCGAATGCACACACATATATA
1 CACATATGCCGAATGCACACACATATATA
55989203 TATCCAACAA
Statistics
Matches: 53, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
36 15 0.28
37 4 0.08
38 34 0.64
ACGTcount: A:0.41, C:0.24, G:0.09, T:0.26
Consensus pattern (38 bp):
CACATATGCCGAATGCACACACATATATACTTATAATC
Found at i:55989425 original size:41 final size:42
Alignment explanation
Indices: 55989370--55989491 Score: 194
Period size: 41 Copynumber: 3.0 Consensus size: 42
55989360 TTAATTAAAA
* *
55989370 CAGATTCACTGGCACTTAGCCTACTAGGCTTAAAGCCTGATT
1 CAGATTCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTGATT
*
55989412 CAGA-TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
1 CAGATTCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTGATT
*
55989453 CA-ATTCACCGGCACTTAGCCTGCTAGGCTTTAAGCCTGA
1 CAGATTCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTGA
55989492 ATTGATTCAT
Statistics
Matches: 74, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
40 1 0.01
41 69 0.93
42 4 0.05
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (42 bp):
CAGATTCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTGATT
Found at i:55992702 original size:25 final size:25
Alignment explanation
Indices: 55992642--55992702 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 25
55992632 TTTCTAGAAG
* *
55992642 ATTTAGTTTTTTATTTGTATAATAT
1 ATTTAGTTATTTATTAGTATAATAT
*
55992667 ATTTAG-CATTTATTAGTATAAATAT
1 ATTTAGTTATTTATTAGTAT-AATAT
55992692 ATTT-GTTATTT
1 ATTTAGTTATTT
55992703 CTTTTCATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
24 11 0.37
25 19 0.63
ACGTcount: A:0.31, C:0.02, G:0.08, T:0.59
Consensus pattern (25 bp):
ATTTAGTTATTTATTAGTATAATAT
Found at i:55993057 original size:14 final size:14
Alignment explanation
Indices: 55993038--55993082 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 14
55993028 TATTCTAAAA
55993038 ATGCTAAATATATT
1 ATGCTAAATATATT
55993052 ATGCT-AATA-A--
1 ATGCTAAATATATT
55993062 ATGCTAAATATATT
1 ATGCTAAATATATT
55993076 ATGCTAA
1 ATGCTAA
55993083 TAAATACTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
10 5 0.19
11 4 0.15
12 2 0.07
13 4 0.15
14 12 0.44
ACGTcount: A:0.44, C:0.09, G:0.09, T:0.38
Consensus pattern (14 bp):
ATGCTAAATATATT
Found at i:55993068 original size:24 final size:24
Alignment explanation
Indices: 55993020--55993094 Score: 116
Period size: 24 Copynumber: 3.2 Consensus size: 24
55993010 AAGAAATAAC
* *
55993020 AAATATTTTATTCTAA-AAATGCT
1 AAATATATTATGCTAATAAATGCT
55993043 AAATATATTATGCTAATAAATGCT
1 AAATATATTATGCTAATAAATGCT
*
55993067 AAATATATTATGCTAATAAATACT
1 AAATATATTATGCTAATAAATGCT
55993091 AAAT
1 AAAT
55993095 CTTCTCGAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
23 14 0.29
24 34 0.71
ACGTcount: A:0.48, C:0.08, G:0.05, T:0.39
Consensus pattern (24 bp):
AAATATATTATGCTAATAAATGCT
Found at i:56005296 original size:21 final size:20
Alignment explanation
Indices: 56005271--56005309 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
56005261 ATACTTACAT
56005271 TAATGACAAAATACATGCACC
1 TAATG-CAAAATACATGCACC
*
56005292 TAATGCTAAATACATGCA
1 TAATGCAAAATACATGCA
56005310 TAATTATGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.46, C:0.21, G:0.10, T:0.23
Consensus pattern (20 bp):
TAATGCAAAATACATGCACC
Found at i:56007500 original size:27 final size:26
Alignment explanation
Indices: 56007458--56007534 Score: 75
Period size: 27 Copynumber: 2.8 Consensus size: 26
56007448 TCGAGTTCAT
*
56007458 TGAGACAGAGTAAACACGAGGTGGTCC-G
1 TGAGACA-A-TAAACAC-AGGTGGTCCAC
* *
56007486 TCGAGACACTAAACACAGGCTAGTCCAC
1 T-GAGACAATAAACACAGG-TGGTCCAC
56007514 TGAGACAATAAACACAGGTGG
1 TGAGACAATAAACACAGGTGG
56007535 ATAATTAGAA
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
26 5 0.12
27 28 0.68
28 2 0.05
29 6 0.15
ACGTcount: A:0.36, C:0.22, G:0.27, T:0.14
Consensus pattern (26 bp):
TGAGACAATAAACACAGGTGGTCCAC
Found at i:56013157 original size:37 final size:37
Alignment explanation
Indices: 56013107--56013187 Score: 137
Period size: 37 Copynumber: 2.2 Consensus size: 37
56013097 TTCTCAAAAA
* *
56013107 ACTTTAATCTAAATGGCCATATGCGTTCATGATTTTT
1 ACTTTCATCTAAATGGCCATATGAGTTCATGATTTTT
56013144 ACTTTCATCTAAATGGCCATATGAGTTCATGATTTTT
1 ACTTTCATCTAAATGGCCATATGAGTTCATGATTTTT
56013181 -CTTTCAT
1 ACTTTCAT
56013188 GTTGGTTTCC
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
36 7 0.17
37 35 0.83
ACGTcount: A:0.26, C:0.17, G:0.12, T:0.44
Consensus pattern (37 bp):
ACTTTCATCTAAATGGCCATATGAGTTCATGATTTTT
Found at i:56022658 original size:25 final size:25
Alignment explanation
Indices: 56022624--56022672 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
56022614 AGCTCAACTA
56022624 TTAATAAATGCCTCCCTCTTCATTT
1 TTAATAAATGCCTCCCTCTTCATTT
56022649 TTAATAAATGCCTCCCTCTTCATT
1 TTAATAAATGCCTCCCTCTTCATT
56022673 AAGTTAAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.24, C:0.29, G:0.04, T:0.43
Consensus pattern (25 bp):
TTAATAAATGCCTCCCTCTTCATTT
Found at i:56030985 original size:18 final size:18
Alignment explanation
Indices: 56030952--56030986 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
56030942 CTCTCTCCTT
*
56030952 GATTTTTTTAGGGTTTAG
1 GATTTTTTTAGAGTTTAG
*
56030970 GATTTTTTTTGAGTTTA
1 GATTTTTTTAGAGTTTA
56030987 AGGTTAAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.23, T:0.60
Consensus pattern (18 bp):
GATTTTTTTAGAGTTTAG
Found at i:56032330 original size:17 final size:17
Alignment explanation
Indices: 56032262--56032320 Score: 63
Period size: 17 Copynumber: 3.6 Consensus size: 17
56032252 TAATCACATT
*
56032262 AATATTAAA-TTAATAA
1 AATATTAAATTTAATTA
56032278 AATATT--ATTTAGA-TA
1 AATATTAAATTTA-ATTA
*
56032293 AATATTAAATTTAATTT
1 AATATTAAATTTAATTA
56032310 AATATTAAATT
1 AATATTAAATT
56032321 CATTAAAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
14 1 0.03
15 10 0.28
16 8 0.22
17 17 0.47
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.46
Consensus pattern (17 bp):
AATATTAAATTTAATTA
Found at i:56032989 original size:40 final size:40
Alignment explanation
Indices: 56032912--56032989 Score: 95
Period size: 40 Copynumber: 1.9 Consensus size: 40
56032902 TAACTTATAT
**
56032912 ACTTATAATTAAATTAATTAATCAAAATTAATTAATTTAA
1 ACTTATAATTAAATTAATTAATCAAAATTAACAAATTTAA
* * *
56032952 ACTTA-AATTAACTTACCTTAATCAAGATTAACAAATTT
1 ACTTATAATTAAATTA-ATTAATCAAAATTAACAAATTT
56032990 GGCGGATTCC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
39 9 0.28
40 23 0.72
ACGTcount: A:0.49, C:0.10, G:0.01, T:0.40
Consensus pattern (40 bp):
ACTTATAATTAAATTAATTAATCAAAATTAACAAATTTAA
Found at i:56037887 original size:41 final size:40
Alignment explanation
Indices: 56037826--56037925 Score: 119
Period size: 41 Copynumber: 2.5 Consensus size: 40
56037816 GGTTTAACCG
* *
56037826 ATGAGACACTGGGTGCCAATTTATTACTTCGGATTTATTCA
1 ATGAGACACTGGGTGCCAATTTACTACTTC-GAATTATTCA
* * *
56037867 ATGAGACACTGGTTGTCAATTTACTACTTCGAATTATTCG
1 ATGAGACACTGGGTGCCAATTTACTACTTCGAATTATTCA
* * *
56037907 ATAAGGCACTAGGTGCCAA
1 ATGAGACACTGGGTGCCAA
56037926 ACTGGTTGGT
Statistics
Matches: 49, Mismatches: 10, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
40 22 0.45
41 27 0.55
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (40 bp):
ATGAGACACTGGGTGCCAATTTACTACTTCGAATTATTCA
Found at i:56038036 original size:16 final size:17
Alignment explanation
Indices: 56038005--56038048 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
56037995 AAAGTTTTAT
*
56038005 AATTGATATTGAAATGG
1 AATTGATATAGAAATGG
*
56038022 CATTG-TATAGAAATGG
1 AATTGATATAGAAATGG
56038038 AATTGATATAG
1 AATTGATATAG
56038049 TGAATTGAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 14 0.61
17 9 0.39
ACGTcount: A:0.41, C:0.02, G:0.23, T:0.34
Consensus pattern (17 bp):
AATTGATATAGAAATGG
Found at i:56049092 original size:25 final size:25
Alignment explanation
Indices: 56049039--56049093 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 25
56049029 AAAAAAGGTT
**
56049039 TGTGTGTTTATTTTTATTTAAATTT
1 TGTGTGTTTATTTTTATTTAAATAA
*
56049064 TGTGCTGTTTATTTTTATTT-GATAA
1 TGTG-TGTTTATTTTTATTTAAATAA
56049089 TGTGT
1 TGTGT
56049094 AATTGCAACT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
24 1 0.04
25 10 0.38
26 15 0.58
ACGTcount: A:0.18, C:0.02, G:0.16, T:0.64
Consensus pattern (25 bp):
TGTGTGTTTATTTTTATTTAAATAA
Found at i:56052159 original size:92 final size:91
Alignment explanation
Indices: 56052002--56052210 Score: 276
Period size: 92 Copynumber: 2.3 Consensus size: 91
56051992 TTGATTTTAG
* * *
56052002 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTAT
* * *
56052067 ATTTAATATTAATTATTTTAAATTGTA
65 ATGTAATAATAATTATTTTAAATTATA
* *
56052094 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATT-TAATTTAAATTATTAAATTA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTAT-ATAT-AACTATTAAATTA
56052158 TATGTAATAATAATTATTTTAAATTATA
64 TATGTAATAATAATTATTTTAAATTATA
* * * *
56052186 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
56052211 GTTATAATTA
Statistics
Matches: 103, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
90 1 0.01
91 29 0.28
92 73 0.71
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTATA
TGTAATAATAATTATTTTAAATTATA
Found at i:56052323 original size:16 final size:16
Alignment explanation
Indices: 56052302--56052343 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
56052292 TTATTAAATT
*
56052302 ATATATTTTAATTATA
1 ATATATTTTAATAATA
56052318 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
56052333 AT-TATGTTTAA
1 ATATAT-TTTAA
56052344 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:56052328 original size:15 final size:15
Alignment explanation
Indices: 56052293--56052334 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
56052283 TTAAGAATTT
*
56052293 TATTAAATTAT-ATA
1 TATTTAATTATAATA
56052307 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
56052321 TATTTAATAATAAT
1 TATTTAATTATAAT
56052335 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:56052357 original size:75 final size:75
Alignment explanation
Indices: 56052278--56052516 Score: 180
Period size: 75 Copynumber: 3.1 Consensus size: 75
56052268 TAAGAATATT
56052278 AATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTA
1 AATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTA
56052343 AATATGATTA
66 AATATGATTA
* ** * * * ** ** * * *
56052353 AATTATTTATTATTGATATT-AATAATCTTATTAAAATT-TAA-ATA-ACAATAACAATAATAAT
1 AATTATTAAGAATT-TTATTAAATTAT-ATATTTTAATTATAATATATTTAATAATAATTAT-GT
* ** *
56052414 TTACCAAAACAAATTTCTGCT
63 TTA--AATA-TGA--T-T--A
*
56052435 AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
1 AATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTA
56052500 AATATGATTA
66 AATATGATTA
*
56052510 AAATATT
1 AATTATT
56052517 TATTATTGAT
Statistics
Matches: 113, Mismatches: 36, Indels: 30
0.63 0.20 0.17
Matches are distributed among these distances:
73 10 0.09
74 7 0.06
75 25 0.22
76 15 0.13
77 2 0.02
78 1 0.01
79 1 0.01
80 2 0.02
81 15 0.13
82 18 0.16
83 7 0.06
84 10 0.09
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.46
Consensus pattern (75 bp):
AATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTA
AATATGATTA
Found at i:56052446 original size:157 final size:157
Alignment explanation
Indices: 56052277--56052593 Score: 580
Period size: 157 Copynumber: 2.0 Consensus size: 157
56052267 ATAAGAATAT
*
56052277 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
* *
56052342 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
56052407 TAATAATTTACCAAAACAAATTTCTGC
131 TAATAATTTACCAAAACAAATTTATGC
56052434 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
56052499 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
* *
56052564 TAATCATTTATCAAAACAAATTTATGC
131 TAATAATTTACCAAAACAAATTTATGC
56052591 TAA
1 TAA
56052594 GGGTATTCTA
Statistics
Matches: 154, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
157 154 1.00
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTATGC
Found at i:56052474 original size:18 final size:17
Alignment explanation
Indices: 56052446--56052480 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
56052436 ATTATTAAGA
*
56052446 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
56052463 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
56052481 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:56052737 original size:16 final size:16
Alignment explanation
Indices: 56052716--56052751 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
56052706 GATTTGCTAT
56052716 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
56052732 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
56052748 TACA
1 TACA
56052752 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:56053740 original size:19 final size:20
Alignment explanation
Indices: 56053718--56053764 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
56053708 TTCTTATTAT
56053718 TATTT-TTATTTACTTCACC
1 TATTTGTTATTTACTTCACC
*
56053737 TATTTGTTGTTTACTTCACC
1 TATTTGTTATTTACTTCACC
56053757 TATTTGTT
1 TATTTGTT
56053765 GTCGGTTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.17, C:0.17, G:0.06, T:0.60
Consensus pattern (20 bp):
TATTTGTTATTTACTTCACC
Found at i:56053773 original size:24 final size:20
Alignment explanation
Indices: 56053726--56053766 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
56053716 ATTATTTTTA
56053726 TTTACTTCACCTATTTGTTG
1 TTTACTTCACCTATTTGTTG
56053746 TTTACTTCACCTATTTGTTG
1 TTTACTTCACCTATTTGTTG
56053766 T
1 T
56053767 CGGTTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.15, C:0.20, G:0.10, T:0.56
Consensus pattern (20 bp):
TTTACTTCACCTATTTGTTG
Found at i:56055937 original size:14 final size:15
Alignment explanation
Indices: 56055920--56055948 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
56055910 TATTTTTTAC
56055920 TATTTAAT-TTTAAA
1 TATTTAATATTTAAA
56055934 TATTTAATATTTAAA
1 TATTTAATATTTAAA
56055949 GATGAACAAA
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:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TATTTAATATTTAAA
Found at i:56058127 original size:52 final size:54
Alignment explanation
Indices: 56058055--56058160 Score: 180
Period size: 52 Copynumber: 2.0 Consensus size: 54
56058045 ATTTTTAAAT
56058055 ATTTATAAGTAAAAGAAATTGAAACAATTTTAAGCATGGTTAGAATGCAAATTA
1 ATTTATAAGTAAAAGAAATTGAAACAATTTTAAGCATGGTTAGAATGCAAATTA
* *
56058109 ATTTA-AAGT-AAAGAAATTGAAACAATTTTAATCATGGTTAGTATGCAAATTA
1 ATTTATAAGTAAAAGAAATTGAAACAATTTTAAGCATGGTTAGAATGCAAATTA
56058161 TCTAAATTTT
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
52 41 0.82
53 4 0.08
54 5 0.10
ACGTcount: A:0.47, C:0.06, G:0.14, T:0.33
Consensus pattern (54 bp):
ATTTATAAGTAAAAGAAATTGAAACAATTTTAAGCATGGTTAGAATGCAAATTA
Found at i:56059123 original size:31 final size:31
Alignment explanation
Indices: 56059072--56059141 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
56059062 CTTAACAGTC
* * *
56059072 CAGTGACT-TAATAAAAACTTTCTAATATTT
1 CAGTGACTAAAATAAAAACTTTCAAATAATT
*
56059102 CAGTGACTAAAATGAAAACTTTCAAATAATT
1 CAGTGACTAAAATAAAAACTTTCAAATAATT
*
56059133 CAGTAACTA
1 CAGTGACTA
56059142 TTTTGTAACT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 8 0.24
31 26 0.76
ACGTcount: A:0.44, C:0.14, G:0.09, T:0.33
Consensus pattern (31 bp):
CAGTGACTAAAATAAAAACTTTCAAATAATT
Found at i:56065701 original size:21 final size:21
Alignment explanation
Indices: 56065663--56065711 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
56065653 ATCCGATATT
56065663 AATCTTTCAAATTAATTAGAC-
1 AATCTTTCAAATTAATTA-ACA
*
56065684 AATCTTTCATGATT-ATTAACA
1 AATCTTTCA-AATTAATTAACA
56065705 AATCTTT
1 AATCTTT
56065712 TGTTAAAATC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 2 0.08
21 20 0.80
22 3 0.12
ACGTcount: A:0.39, C:0.14, G:0.04, T:0.43
Consensus pattern (21 bp):
AATCTTTCAAATTAATTAACA
Found at i:56074103 original size:23 final size:24
Alignment explanation
Indices: 56074075--56074124 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
56074065 ATGAAAAGAT
*
56074075 TTGATG-AAAAGCTTAA-AAAGAAC
1 TTGATGCAAAA-CTTAATAAAAAAC
56074098 TTGATGCAAAACTTAATAAAAAAC
1 TTGATGCAAAACTTAATAAAAAAC
56074122 TTG
1 TTG
56074125 GTAATTAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 11 0.46
24 13 0.54
ACGTcount: A:0.50, C:0.10, G:0.14, T:0.26
Consensus pattern (24 bp):
TTGATGCAAAACTTAATAAAAAAC
Found at i:56076725 original size:21 final size:20
Alignment explanation
Indices: 56076700--56076742 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
56076690 TTTTATAAAG
56076700 GTTATATATATTACAATTTAT
1 GTTATATATATT-CAATTTAT
* * *
56076721 GTTATTTTTATTTAATTTAT
1 GTTATATATATTCAATTTAT
56076741 GT
1 GT
56076743 ATTATAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.30, C:0.02, G:0.07, T:0.60
Consensus pattern (20 bp):
GTTATATATATTCAATTTAT
Found at i:56082517 original size:22 final size:21
Alignment explanation
Indices: 56082498--56082539 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
56082488 TGTAGAAACT
*
56082498 TATGCTCAAAATAAATGAAAAA
1 TATGCTCAAAA-AAAGGAAAAA
56082520 TATGCTCAAAAAAAGGAAAA
1 TATGCTCAAAAAAAGGAAAA
56082540 GAAAAGAGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.60, C:0.10, G:0.12, T:0.19
Consensus pattern (21 bp):
TATGCTCAAAAAAAGGAAAAA
Found at i:56087613 original size:18 final size:19
Alignment explanation
Indices: 56087568--56087615 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
56087558 TATTTGTTAC
56087568 ATAAATAAAAATGATTAAAT
1 ATAAAT-AAAATGATTAAAT
* *
56087588 AT-ATTAAAAT-TTTAAAT
1 ATAAATAAAATGATTAAAT
56087605 ATAAATAAAAT
1 ATAAATAAAAT
56087616 ACTGTTAGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
17 8 0.33
18 12 0.50
19 2 0.08
20 2 0.08
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.35
Consensus pattern (19 bp):
ATAAATAAAATGATTAAAT
Found at i:56094758 original size:6 final size:6
Alignment explanation
Indices: 56094747--56094775 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
56094737 TTGAATTGCA
56094747 TTTTTC TTTTTC TTTTTC TTTTTC TTTTT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTT
56094776 ATTGCTCTGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTTC
Found at i:56097553 original size:19 final size:19
Alignment explanation
Indices: 56097540--56097605 Score: 96
Period size: 19 Copynumber: 3.3 Consensus size: 19
56097530 ATTTTAATAC
56097540 TTTTATATAATTTTAAATTA
1 TTTT-TATAATTTTAAATTA
56097560 TTTTTATAATTTTAAATTA
1 TTTTTATAATTTTAAATTA
56097579 TTTTTATAATTTTCTAAATATA
1 TTTTTATAA-TTT-TAAAT-TA
56097601 TTTTT
1 TTTTT
56097606 TGAAATCTTG
Statistics
Matches: 43, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
19 24 0.56
20 7 0.16
21 5 0.12
22 7 0.16
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.64
Consensus pattern (19 bp):
TTTTTATAATTTTAAATTA
Found at i:56100311 original size:18 final size:18
Alignment explanation
Indices: 56100288--56100336 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
56100278 ATCAAATACT
*
56100288 AAATTAAATATTAAAATA
1 AAATTAAATACTAAAATA
* *
56100306 AAATTATATACTAAATTA
1 AAATTAAATACTAAAATA
56100324 AACATTAAA-ACTA
1 AA-ATTAAATACTA
56100337 GCTTATATGC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
18 21 0.81
19 5 0.19
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (18 bp):
AAATTAAATACTAAAATA
Found at i:56100344 original size:30 final size:30
Alignment explanation
Indices: 56100264--56100333 Score: 99
Period size: 30 Copynumber: 2.4 Consensus size: 30
56100254 ATTTCAAGTA
* *
56100264 TAAA-ATTAAAA-AAAATCAAATACTAAAT
1 TAAACATTAAAATAAAATTATATACTAAAT
*
56100292 TAAATATTAAAATAAAATTATATACTAAAT
1 TAAACATTAAAATAAAATTATATACTAAAT
56100322 TAAACATTAAAA
1 TAAACATTAAAA
56100334 CTAGCTTATA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
28 4 0.11
29 7 0.19
30 26 0.70
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (30 bp):
TAAACATTAAAATAAAATTATATACTAAAT
Found at i:56100467 original size:75 final size:75
Alignment explanation
Indices: 56100375--56100530 Score: 258
Period size: 75 Copynumber: 2.1 Consensus size: 75
56100365 TATTGAAAAT
* *
56100375 TATTGATTAACTATTGCAGACATGTACATTTACACGCGTGGTTTGAAACATTTGCTTTTCTTTGA
1 TATTGATTAACTATTGCAGACATGTACATTTACACGCGTAGTTTGAAACATTTGCTTTTCTTTAA
*
56100440 AATGTTGTCG
66 AACGTTGTCG
* *
56100450 TATTGATTTATTATTGCAGACATGTACATTTACACGCGTAGTTTGAAACATTTGCTTTTCTTTAA
1 TATTGATTAACTATTGCAGACATGTACATTTACACGCGTAGTTTGAAACATTTGCTTTTCTTTAA
56100515 AACGTTGTCG
66 AACGTTGTCG
*
56100525 TTTTGA
1 TATTGA
56100531 GGCCCCTAAT
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
75 75 1.00
ACGTcount: A:0.26, C:0.14, G:0.17, T:0.43
Consensus pattern (75 bp):
TATTGATTAACTATTGCAGACATGTACATTTACACGCGTAGTTTGAAACATTTGCTTTTCTTTAA
AACGTTGTCG
Found at i:56103007 original size:31 final size:31
Alignment explanation
Indices: 56102972--56103036 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
56102962 AAAAAAACTT
*
56102972 AATAGCCTAATGACTTAAATAAAAACTTTTG
1 AATAGCCTAATGACTTAAATAAAAACTTTCG
** * *
56103003 AATAGTTTAATGGCTTAAATGAAAACTTTCG
1 AATAGCCTAATGACTTAAATAAAAACTTTCG
56103034 AAT
1 AAT
56103037 GGTTCAGTGA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.34
Consensus pattern (31 bp):
AATAGCCTAATGACTTAAATAAAAACTTTCG
Found at i:56105943 original size:43 final size:42
Alignment explanation
Indices: 56105877--56106005 Score: 156
Period size: 43 Copynumber: 3.0 Consensus size: 42
56105867 AACTCGTACA
*
56105877 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAA-CACATATCG
* *
56105920 ATGCC-ACTGTCTCAGACAG-GGTCTTACACATAA-ACATAAATCG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAACACAT--ATCG
56105963 ATGCCAACGTCCCAGACGTGGTCTTACACGATAACACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG-TAACACATATCG
56106006 GAAATCCTAT
Statistics
Matches: 73, Mismatches: 5, Indels: 16
0.78 0.05 0.17
Matches are distributed among these distances:
41 4 0.05
42 3 0.04
43 56 0.77
44 6 0.08
45 4 0.05
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAACACATATCG
Found at i:56108569 original size:21 final size:22
Alignment explanation
Indices: 56108543--56108585 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
56108533 TATATACATA
*
56108543 TATAAAA-AAAACTGTAAGTAT
1 TATAAAATAAAAATGTAAGTAT
56108564 TATAAAATAAAAATGTAAGTAT
1 TATAAAATAAAAATGTAAGTAT
56108586 GTGCATATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.58, C:0.02, G:0.09, T:0.30
Consensus pattern (22 bp):
TATAAAATAAAAATGTAAGTAT
Found at i:56110638 original size:44 final size:45
Alignment explanation
Indices: 56110537--56111513 Score: 907
Period size: 44 Copynumber: 22.2 Consensus size: 45
56110527 CAGAGGTAAA
* * * * * *
56110537 ATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAG
1 ATCTGCTATCTTCGATCTACTTCACTACC-AATATAGGAAGACAAG
* * *
56110583 ATCTGCAATCTTCAATCTACTTC-CTACCAATATAGGAAGACAGG
1 ATCTGCTATCTTCGATCTACTTCACTACCAATATAGGAAGACAAG
* * * **
56110627 ACCTGCTATCTTCAATCTACTTCAC-ACCAATACATAAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCACTACCAATATAGGAAGACAAG
* * * * * *
56110671 ATTTGCTTTCTTCGATCCAC-TCCCTACCAATATAGGGAGACAGG
1 ATCTGCTATCTTCGATCTACTTCACTACCAATATAGGAAGACAAG
* * * * *
56110715 ACCTGTTATCTTCGATCTACTTCAC-GCCAATACATGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCACTACCAATATAGGAAGACAAG
* * *
56110759 ATCTGC-ATCTTAGATCCACTTC-CTATCAATATAGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCACTACCAATATAGGAAGACAAG
* * * * * * *
56110802 ACCAGCCATCTTCGATCTACTTCAC-GCCAATACATGAAGATAAG
1 ATCTGCTATCTTCGATCTACTTCACTACCAATATAGGAAGACAAG
* * * * * *
56110846 ATCTTCTTTCTTTGATCTACTTCGCTACCAGTATGGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCACTACCAATATAGGAAGACAAG
* * * * *
56110891 ATCTG-TATCTTGGATCCACTTC-CTATCAATATAGGAAGATAGG
1 ATCTGCTATCTTCGATCTACTTCACTACCAATATAGGAAGACAAG
* * * *
56110934 ACCTGCTATCTTCGATCTACTTCAC-GCCAATACATGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCACTACCAATATAGGAAGACAAG
* * * * *
56110978 ATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCACTACCAATATAGGAAGACAAG
* * *
56111023 ATCTGC-ATCTTCGATCCACTTC-CTACCAATATAGGAAGATAGG
1 ATCTGCTATCTTCGATCTACTTCACTACCAATATAGGAAGACAAG
* * * *
56111066 ATCTGCTACCTTCGATCTACTTCAC-GCCAATACATGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCACTACCAATATAGGAAGACAAG
* * * *
56111110 ATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCACTACCAATATAGGAAGACAAG
* * *
56111155 ATCTGC-ATCTTCGATCCACTTC-CTAACAATATAGGAAGATAAG
1 ATCTGCTATCTTCGATCTACTTCACTACCAATATAGGAAGACAAG
* * * * *
56111198 ATCTGCTATCCTCGATCTATTTCA-TGCCAATACATGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCACTACCAATATAGGAAGACAAG
* * ** * *
56111242 ATCTGCTTTCTGCGATCTACTTTGCCACCAATATGGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCACTACCAATATAGGAAGACAAG
* * * *
56111287 ACCTGTTATCTTCGATCTACTTC-CTACCAATATAGGAAGATAGG
1 ATCTGCTATCTTCGATCTACTTCACTACCAATATAGGAAGACAAG
* * * *
56111331 ATCTGCTACCTTCGATCTACTTCAC-GCCAATACATGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCACTACCAATATAGGAAGACAAG
* * * *
56111375 ATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCACTACCAATATAGGAAGACAAG
* * *
56111420 ATCTGC-ATCTTCGATCCACTTC-CTACCAATATAGGAAGATAGG
1 ATCTGCTATCTTCGATCTACTTCACTACCAATATAGGAAGACAAG
* * * *
56111463 ATCTGCTATCCTCGATCTACTTCA-TGCCAATACATGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCACTACCAATATAGGAAGACAAG
56111507 ATCTGCT
1 ATCTGCT
56111514 TTAATGACTT
Statistics
Matches: 737, Mismatches: 174, Indels: 42
0.77 0.18 0.04
Matches are distributed among these distances:
42 1 0.00
43 125 0.17
44 466 0.63
45 125 0.17
46 20 0.03
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (45 bp):
ATCTGCTATCTTCGATCTACTTCACTACCAATATAGGAAGACAAG
Found at i:56110920 original size:132 final size:132
Alignment explanation
Indices: 56110537--56111515 Score: 1275
Period size: 132 Copynumber: 7.4 Consensus size: 132
56110527 CAGAGGTAAA
* * * * * ** *
56110537 ATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTA
1 ATCTGCTATCTTCGATCTACTTCAC-GCC-AATACATGAAGACAAGATCTGCTTTCTTCGATCTA
* * * * * * * **
56110602 CTTC-CTACCAATATAGGAAGACAGGACCTGCTATCTTCAATCTACTTCAC-ACCAATACATAAA
64 CTTCGCCACCAATATGGGAAGACAAGATCTGC-ATCTTCGATCCACTTC-CTACCAATATAGGAA
* *
56110665 GACAAG
127 GATAGG
* * * * * * * * * *
56110671 ATTTGCTTTCTTCGATCCAC-TCCCTACCAATATAGGGAGACAGGACCTG-TTATCTTCGATCTA
1 ATCTGCTATCTTCGATCTACTTCAC-GCCAATACATGAAGACAAGATCTGCTT-TCTTCGATCTA
* * *** * *
56110734 CTTC-ACGCCAATACATGAAGACAAGATCTGCATCTTAGATCCACTTCCTATCAATATAGGAAGA
64 CTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGA
* *
56110798 CAAG
129 TAGG
* * * * * *
56110802 ACCAGCCATCTTCGATCTACTTCACGCCAATACATGAAGATAAGATCTTCTTTCTTTGATCTACT
1 ATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACT
* * * * *
56110867 TCGCTACCAGTATGGGAAGACAAGATCTGTATCTTGGATCCACTTCCTATCAATATAGGAAGATA
66 TCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATA
56110932 GG
131 GG
* *
56110934 ACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACT
1 ATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACT
56110999 TCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATA
66 TCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATA
56111064 GG
131 GG
*
56111066 ATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACT
1 ATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACT
*
56111131 TCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTAACAATATAGGAAGATA
66 TCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATA
*
56111196 AG
131 GG
* * * *
56111198 ATCTGCTATCCTCGATCTATTTCATGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACT
1 ATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACT
* * * *
56111263 TTGCCACCAATATGGGAAGACAAGACCTGTTATCTTCGATCTACTTCCTACCAATATAGGAAGAT
66 TCGCCACCAATATGGGAAGACAAGATCTG-CATCTTCGATCCACTTCCTACCAATATAGGAAGAT
56111328 AGG
130 AGG
*
56111331 ATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACT
1 ATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACT
56111396 TCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATA
66 TCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATA
56111461 GG
131 GG
* *
56111463 ATCTGCTATCCTCGATCTACTTCATGCCAATACATGAAGACAAGATCTGCTTT
1 ATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTT
56111516 AATGACTTCA
Statistics
Matches: 744, Mismatches: 95, Indels: 14
0.87 0.11 0.02
Matches are distributed among these distances:
130 1 0.00
131 72 0.10
132 529 0.71
133 127 0.17
134 15 0.02
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (132 bp):
ATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACT
TCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATA
GG
Found at i:56127924 original size:21 final size:22
Alignment explanation
Indices: 56127898--56127940 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
56127888 TATATACATA
*
56127898 TATAAAA-AAAACTGTAAGTAT
1 TATAAAATAAAAATGTAAGTAT
56127919 TATAAAATAAAAATGTAAGTAT
1 TATAAAATAAAAATGTAAGTAT
56127941 GTGCATATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.58, C:0.02, G:0.09, T:0.30
Consensus pattern (22 bp):
TATAAAATAAAAATGTAAGTAT
Found at i:56134324 original size:22 final size:22
Alignment explanation
Indices: 56134273--56134328 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
56134263 TTTAAGCGGT
*
56134273 ATCGATACCATCTATGAGAATG
1 ATCGATACCATTTATGAGAATG
* *
56134295 ATCAATACCATTTATGAGAATT
1 ATCGATACCATTTATGAGAATG
56134317 A-CTGATACCATT
1 ATC-GATACCATT
56134329 AAATGAGTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 1 0.03
22 28 0.97
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.32
Consensus pattern (22 bp):
ATCGATACCATTTATGAGAATG
Found at i:56138506 original size:15 final size:15
Alignment explanation
Indices: 56138486--56138518 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
56138476 GTTCCTTTAA
56138486 AAATTA-TAAAAATAT
1 AAATTATTAAAAAT-T
56138501 AAATTATTAAAAATT
1 AAATTATTAAAAATT
56138516 AAA
1 AAA
56138519 ATTTCATTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
AAATTATTAAAAATT
Found at i:56138604 original size:2 final size:2
Alignment explanation
Indices: 56138597--56138629 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
56138587 GTTAGGCTTT
56138597 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
56138630 GCATGTCATG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:56143056 original size:26 final size:26
Alignment explanation
Indices: 56143026--56143081 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 26
56143016 GGAGCTCTTG
* *
56143026 ATTAAAGGCTCTTCGTGAGCTTCCTA
1 ATTAAAAGCTCTTCGTGAACTTCCTA
* *
56143052 ATTAAAAGTTCTTTGTGAACTTCCTA
1 ATTAAAAGCTCTTCGTGAACTTCCTA
56143078 ATTA
1 ATTA
56143082 TGGCTATTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.39
Consensus pattern (26 bp):
ATTAAAAGCTCTTCGTGAACTTCCTA
Found at i:56152244 original size:23 final size:23
Alignment explanation
Indices: 56152213--56152263 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
56152203 ACCTACTTTT
* * *
56152213 TTACTGTAGTAATTTTTGGGGTA
1 TTACAGTAGTAATTTTCGGGATA
56152236 TTACAGTAGTAATTTTCGGGATA
1 TTACAGTAGTAATTTTCGGGATA
56152259 TTACA
1 TTACA
56152264 TATACGAAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.27, C:0.08, G:0.22, T:0.43
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGATA
Found at i:56153362 original size:24 final size:24
Alignment explanation
Indices: 56153306--56153360 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 24
56153296 AATGTAAGTT
* *
56153306 AAAAATATGTTGATTTATTTTTGA
1 AAAAATTTATTGATTTATTTTTGA
* *
56153330 ATAAATTTATTGA-TTATTTTTTA
1 AAAAATTTATTGATTTATTTTTGA
56153353 AAAAATTT
1 AAAAATTT
56153361 TAAAACTTCC
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
23 16 0.62
24 10 0.38
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (24 bp):
AAAAATTTATTGATTTATTTTTGA
Found at i:56160367 original size:21 final size:22
Alignment explanation
Indices: 56160343--56160395 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
56160333 TGTTAGTAAA
*
56160343 TAATTTAAATTTTAAAAAAA-T
1 TAATTTAAATTATAAAAAAATT
**
56160364 TAATAAAAATTATAAAAAAATT
1 TAATTTAAATTATAAAAAAATT
56160386 TAATTCTAAA
1 TAATT-TAAA
56160396 AATGATAATT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
21 17 0.68
22 5 0.20
23 3 0.12
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (22 bp):
TAATTTAAATTATAAAAAAATT
Found at i:56160883 original size:24 final size:24
Alignment explanation
Indices: 56160847--56160906 Score: 68
Period size: 26 Copynumber: 2.4 Consensus size: 24
56160837 ATAAAAAATA
* *
56160847 ACCAAAATGTTAT-TTTTTTTATTT
1 ACCAAAATATTATACTTTTTT-TTT
56160871 ACCAAAATATTATAAACTTTTTTTTT
1 ACCAAAATATTAT--ACTTTTTTTTT
56160897 ACCAAAATAT
1 ACCAAAATAT
56160907 ACAAAAAAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
24 12 0.39
26 13 0.42
27 6 0.19
ACGTcount: A:0.38, C:0.12, G:0.02, T:0.48
Consensus pattern (24 bp):
ACCAAAATATTATACTTTTTTTTT
Found at i:56160937 original size:16 final size:15
Alignment explanation
Indices: 56160918--56160947 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
56160908 CAAAAAAACA
56160918 AAAAACAAAAACCTGT
1 AAAAA-AAAAACCTGT
56160934 AAAAAAAAAACCTG
1 AAAAAAAAAACCTG
56160948 ACAACAGCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.67, C:0.17, G:0.07, T:0.10
Consensus pattern (15 bp):
AAAAAAAAAACCTGT
Found at i:56161011 original size:27 final size:27
Alignment explanation
Indices: 56160973--56161032 Score: 111
Period size: 27 Copynumber: 2.2 Consensus size: 27
56160963 GGGCAATCAC
*
56160973 ATTGGCGGCACCAAAGGTGCCAAAGTG
1 ATTGGCGGCACCAAAGGTGCCAAAGAG
56161000 ATTGGCGGCACCAAAGGTGCCAAAGAG
1 ATTGGCGGCACCAAAGGTGCCAAAGAG
56161027 ATTGGC
1 ATTGGC
56161033 CTGACCGGAC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.30, C:0.22, G:0.33, T:0.15
Consensus pattern (27 bp):
ATTGGCGGCACCAAAGGTGCCAAAGAG
Found at i:56161446 original size:19 final size:19
Alignment explanation
Indices: 56161422--56161484 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 19
56161412 AAGCAATAGT
56161422 TTATTAAAGTAAAATAGAG
1 TTATTAAAGTAAAATAGAG
*** ** * *
56161441 TTATTACTTTTTAATAAAC
1 TTATTAAAGTAAAATAGAG
56161460 TTATTAAAGTAAAATAGAG
1 TTATTAAAGTAAAATAGAG
56161479 TTATTA
1 TTATTA
56161485 CTTAATTAGA
Statistics
Matches: 30, Mismatches: 14, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.46, C:0.03, G:0.10, T:0.41
Consensus pattern (19 bp):
TTATTAAAGTAAAATAGAG
Found at i:56162198 original size:27 final size:27
Alignment explanation
Indices: 56162160--56162216 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
56162150 GTCCAATCAG
*
56162160 GCCAATCTCTTTGGCACCTTTGGTGCC
1 GCCAATCACTTTGGCACCTTTGGTGCC
56162187 GCCAATCACTTTGGCACCTTTGGTGCC
1 GCCAATCACTTTGGCACCTTTGGTGCC
56162214 GCC
1 GCC
56162217 CAATGTGATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.12, C:0.35, G:0.23, T:0.30
Consensus pattern (27 bp):
GCCAATCACTTTGGCACCTTTGGTGCC
Found at i:56162268 original size:17 final size:18
Alignment explanation
Indices: 56162246--56162279 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
56162236 AGGCTGTTGT
56162246 CAGGTTTTT-TTTTTTTG
1 CAGGTTTTTGTTTTTTTG
56162263 CAGGTTTTTGTTTTTTT
1 CAGGTTTTTGTTTTTTT
56162280 TTGTATATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.06, C:0.06, G:0.18, T:0.71
Consensus pattern (18 bp):
CAGGTTTTTGTTTTTTTG
Found at i:56162290 original size:20 final size:20
Alignment explanation
Indices: 56162253--56162293 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
56162243 TGTCAGGTTT
*
56162253 TTTTTTTTTGCAGGTTTTTG
1 TTTTTTTTTGCAGATTTTTG
* *
56162273 TTTTTTTTTGTATATTTTTG
1 TTTTTTTTTGCAGATTTTTG
56162293 T
1 T
56162294 AAATAAAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.07, C:0.02, G:0.15, T:0.76
Consensus pattern (20 bp):
TTTTTTTTTGCAGATTTTTG
Found at i:56162338 original size:27 final size:27
Alignment explanation
Indices: 56162284--56162347 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 27
56162274 TTTTTTTTGT
* ***
56162284 ATATTTTTGTAAATAAAAAAATTTATA
1 ATATTTTGGTAAATAAAAAAAGGGATA
56162311 ATATTTTGGTAAATAAAAAAAGGGATA
1 ATATTTTGGTAAATAAAAAAAGGGATA
*
56162338 ACATTTTGGT
1 ATATTTTGGT
56162348 TATTTTTTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.47, C:0.02, G:0.12, T:0.39
Consensus pattern (27 bp):
ATATTTTGGTAAATAAAAAAAGGGATA
Found at i:56164103 original size:24 final size:24
Alignment explanation
Indices: 56164076--56164149 Score: 75
Period size: 24 Copynumber: 3.2 Consensus size: 24
56164066 TGAAATAAAA
56164076 TAAAAATTATGATAATTATACATT
1 TAAAAATTATGATAATTATACATT
* *
56164100 TAAAAATAATTATAATT-TA-A--
1 TAAAAATTATGATAATTATACATT
* * *
56164120 TAGAAATTATGATAGTTACACATT
1 TAAAAATTATGATAATTATACATT
56164144 TAAAAA
1 TAAAAA
56164150 CAATTAGAAT
Statistics
Matches: 38, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
20 13 0.34
21 1 0.03
22 2 0.05
23 2 0.05
24 20 0.53
ACGTcount: A:0.53, C:0.04, G:0.05, T:0.38
Consensus pattern (24 bp):
TAAAAATTATGATAATTATACATT
Found at i:56164130 original size:44 final size:44
Alignment explanation
Indices: 56164074--56164163 Score: 135
Period size: 44 Copynumber: 2.0 Consensus size: 44
56164064 TTTGAAATAA
* * *
56164074 AATAAAAATTATGATAATTATACATTTAAAAATAATTATAATTT
1 AATAAAAATTATGATAATTACACATTTAAAAACAATTAGAATTT
* *
56164118 AATAGAAATTATGATAGTTACACATTTAAAAACAATTAGAATTT
1 AATAAAAATTATGATAATTACACATTTAAAAACAATTAGAATTT
56164162 AA
1 AA
56164164 ATTACAATTA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.53, C:0.04, G:0.06, T:0.37
Consensus pattern (44 bp):
AATAAAAATTATGATAATTACACATTTAAAAACAATTAGAATTT
Found at i:56164488 original size:23 final size:23
Alignment explanation
Indices: 56164456--56164505 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
56164446 GAATAGGTTA
* *
56164456 AAAATGTTTTAATTAATATTATTTG
1 AAAAT-TTTCAATT-ATAATATTTG
*
56164481 AAAATTTTCTATTATAATATTTG
1 AAAATTTTCAATTATAATATTTG
56164504 AA
1 AA
56164506 TTGTTAAACT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 11 0.50
24 6 0.27
25 5 0.23
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (23 bp):
AAAATTTTCAATTATAATATTTG
Found at i:56172666 original size:62 final size:59
Alignment explanation
Indices: 56172589--56172734 Score: 152
Period size: 57 Copynumber: 2.4 Consensus size: 59
56172579 ACTGCCTGGG
*
56172589 CACACGCCTATGTCCATGCTCTTGTGGTCCTAAATCATAAAAAGTGAGTTACACGACCTAGA
1 CACACGCCCATGTCCATGCTC-TGTGGT--TAAATCATAAAAAGTGAGTTACACGACCTAGA
* * * * * * *
56172651 CACACGCCCATGTCCATGC-CCGT-GTTAAATCATAAATAGTGAGTTACATGGCTTGGG
1 CACACGCCCATGTCCATGCTCTGTGGTTAAATCATAAAAAGTGAGTTACACGACCTAGA
* *
56172708 TACACGCCCATGTCCTTGCTCGTGTGG
1 CACACGCCCATGTCCATGCTC-TGTGG
56172735 CTTACACGGC
Statistics
Matches: 70, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
57 43 0.61
58 1 0.01
59 4 0.06
60 3 0.04
61 1 0.01
62 18 0.26
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (59 bp):
CACACGCCCATGTCCATGCTCTGTGGTTAAATCATAAAAAGTGAGTTACACGACCTAGA
Found at i:56173941 original size:9 final size:8
Alignment explanation
Indices: 56173901--56174011 Score: 82
Period size: 9 Copynumber: 12.6 Consensus size: 8
56173891 TATTAATATT
*
56173901 TAAAAATA
1 TAAAATTA
56173909 TGAAAATTGA
1 T-AAAATT-A
56173919 TATAAATATA
1 TA-AAAT-TA
56173929 TAAACATTA
1 TAAA-ATTA
56173938 TAAACATATTA
1 T-AA-A-ATTA
56173949 TAAATATTA
1 TAAA-ATTA
*
56173958 TAAAAATA
1 TAAAATTA
56173966 TAAAAATTA
1 T-AAAATTA
56173975 T-AAATTA
1 TAAAATTA
56173982 T-AAATTA
1 TAAAATTA
56173989 TAAAATGTA
1 TAAAAT-TA
56173998 TAAAATTAA
1 TAAAATT-A
56174007 TAAAA
1 TAAAA
56174012 CATATTGTAA
Statistics
Matches: 88, Mismatches: 4, Indels: 21
0.78 0.04 0.19
Matches are distributed among these distances:
7 14 0.16
8 10 0.11
9 42 0.48
10 15 0.17
11 7 0.08
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (8 bp):
TAAAATTA
Found at i:56173941 original size:17 final size:16
Alignment explanation
Indices: 56173919--56174010 Score: 80
Period size: 17 Copynumber: 5.4 Consensus size: 16
56173909 TGAAAATTGA
56173919 TATAAATATATAAACAT
1 TATAAATATATAAA-AT
56173936 TATAAACATATTATAAATAT
1 TAT-AA-ATA-TATAAA-AT
*
56173956 TATAAAAATATAAAAAT
1 TATAAATATAT-AAAAT
56173973 TATAAAT-TAT-AAAT
1 TATAAATATATAAAAT
*
56173987 TATAAAATGTATAAAAT
1 TAT-AAATATATAAAAT
56174004 TAATAAA
1 T-ATAAA
56174011 ACATATTGTA
Statistics
Matches: 64, Mismatches: 3, Indels: 16
0.77 0.04 0.19
Matches are distributed among these distances:
14 7 0.11
15 4 0.06
16 6 0.09
17 22 0.34
18 9 0.14
19 5 0.08
20 11 0.17
ACGTcount: A:0.61, C:0.02, G:0.01, T:0.36
Consensus pattern (16 bp):
TATAAATATATAAAAT
Found at i:56173952 original size:20 final size:17
Alignment explanation
Indices: 56173847--56174016 Score: 89
Period size: 20 Copynumber: 9.5 Consensus size: 17
56173837 GAAATAATTG
*
56173847 AAAAATCATAAAAATGAT
1 AAAAAT-ATAAAAATTAT
* *
56173865 TAAAATAAAAGAAATTAT
1 AAAAATATAA-AAATTAT
* *
56173883 CAAAAAAATATTAATATT-T
1 ---AAAAATATAAAAATTAT
*
56173902 AAAAATATGAAAATTGAT
1 AAAAATATAAAAATT-AT
*
56173920 ATAAATATATAAACATTAT
1 A-AAA-ATATAAAAATTAT
*
56173939 AAACATATTATAAATATTAT
1 AAA-A-A-TATAAAAATTAT
56173959 AAAAATATAAAAATTAT
1 AAAAATATAAAAATTAT
*
56173976 --AAAT-TATAAATTAT
1 AAAAATATAAAAATTAT
*
56173990 -AAAATGTATAAAATTAAT
1 AAAAATATA-AAAATT-AT
56174008 AAAACATAT
1 AAAA-ATAT
56174017 TGTAATGGCC
Statistics
Matches: 120, Mismatches: 16, Indels: 30
0.72 0.10 0.18
Matches are distributed among these distances:
14 9 0.08
15 8 0.07
16 15 0.12
17 19 0.16
18 18 0.15
19 14 0.12
20 30 0.25
21 7 0.06
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (17 bp):
AAAAATATAAAAATTAT
Found at i:56174081 original size:21 final size:20
Alignment explanation
Indices: 56174051--56174091 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
56174041 CCCAGTTTAC
56174051 AAATAAATTACAAACCAAAAA
1 AAATAAATTA-AAACCAAAAA
* *
56174072 AAATACATTAAACCCAAAAA
1 AAATAAATTAAAACCAAAAA
56174092 GCCTAATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.68, C:0.17, G:0.00, T:0.15
Consensus pattern (20 bp):
AAATAAATTAAAACCAAAAA
Found at i:56176479 original size:20 final size:21
Alignment explanation
Indices: 56176451--56176532 Score: 93
Period size: 20 Copynumber: 4.1 Consensus size: 21
56176441 GTTTCGACAC
*
56176451 ATATTAAAAT-ATATAAAATT
1 ATATAAAAATCATATAAAATT
*
56176471 ATATAAAAATTAT-TAAAATT
1 ATATAAAAATCATATAAAATT
56176491 ATATAAAAATCATA-AAAATT
1 ATATAAAAATCATATAAAATT
* *
56176511 AT-T-AAAATGATATAAACTT
1 ATATAAAAATCATATAAAATT
56176530 ATA
1 ATA
56176533 CAAATTATAA
Statistics
Matches: 54, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
18 8 0.15
19 8 0.15
20 36 0.67
21 2 0.04
ACGTcount: A:0.60, C:0.02, G:0.01, T:0.37
Consensus pattern (21 bp):
ATATAAAAATCATATAAAATT
Found at i:56176485 original size:29 final size:29
Alignment explanation
Indices: 56176452--56176532 Score: 112
Period size: 29 Copynumber: 2.8 Consensus size: 29
56176442 TTTCGACACA
56176452 TATTAAAATATATAAAATTATATAAAAAT
1 TATTAAAATATATAAAATTATATAAAAAT
56176481 TATTAAAATTATATAAAA--ATCATAAAAAT
1 TATTAAAA-TATATAAAATTAT-ATAAAAAT
*
56176510 TATTAAAATGATATAAACTTATA
1 TATTAAAAT-ATATAAAATTATA
56176533 CAAATTATAA
Statistics
Matches: 46, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
28 3 0.07
29 31 0.67
30 10 0.22
31 2 0.04
ACGTcount: A:0.59, C:0.02, G:0.01, T:0.37
Consensus pattern (29 bp):
TATTAAAATATATAAAATTATATAAAAAT
Found at i:56176507 original size:48 final size:48
Alignment explanation
Indices: 56176456--56176556 Score: 134
Period size: 48 Copynumber: 2.1 Consensus size: 48
56176446 GACACATATT
* *
56176456 AAAA-TATATAAAATTATATAAAAATTATTA-AAATTATATAAAAATCATA
1 AAAATTAT-TAAAATGATAT-AAAATTA-TACAAATTATAAAAAAATCATA
*
56176505 AAAATTATTAAAATGATATAAACTTATACAAATTATAAAAAAATCATA
1 AAAATTATTAAAATGATATAAAATTATACAAATTATAAAAAAATCATA
56176553 AAAA
1 AAAA
56176557 CTTGAATTGA
Statistics
Matches: 47, Mismatches: 3, Indels: 5
0.85 0.05 0.09
Matches are distributed among these distances:
47 2 0.04
48 28 0.60
49 14 0.30
50 3 0.06
ACGTcount: A:0.63, C:0.04, G:0.01, T:0.32
Consensus pattern (48 bp):
AAAATTATTAAAATGATATAAAATTATACAAATTATAAAAAAATCATA
Found at i:56176556 original size:9 final size:9
Alignment explanation
Indices: 56176456--56176545 Score: 72
Period size: 10 Copynumber: 9.4 Consensus size: 9
56176446 GACACATATT
56176456 AAAATATATA
1 AAAAT-TATA
*
56176466 AAATTATATA
1 AAAAT-TATA
56176476 AAAATTATTA
1 AAAATTA-TA
*
56176486 AAATTATATA
1 AAAAT-TATA
*
56176496 AAAATCATA
1 AAAATTATA
*
56176505 AAAATTATT
1 AAAATTATA
*
56176514 AAAATGATA
1 AAAATTATA
*
56176523 TAAACTTATA
1 -AAAATTATA
*
56176533 CAAATTATA
1 AAAATTATA
56176542 AAAA
1 AAAA
56176546 AATCATAAAA
Statistics
Matches: 63, Mismatches: 14, Indels: 7
0.75 0.17 0.08
Matches are distributed among these distances:
9 29 0.46
10 32 0.51
11 2 0.03
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.33
Consensus pattern (9 bp):
AAAATTATA
Found at i:56176980 original size:10 final size:11
Alignment explanation
Indices: 56176956--56176984 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
56176946 CTATTTCAAG
56176956 TTTTTATGACT
1 TTTTTATGACT
56176967 TTTTTATGACT
1 TTTTTATGACT
56176978 TTTTTAT
1 TTTTTAT
56176985 AAGTTTATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.17, C:0.07, G:0.07, T:0.69
Consensus pattern (11 bp):
TTTTTATGACT
Found at i:56177097 original size:22 final size:22
Alignment explanation
Indices: 56177072--56177113 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
56177062 CTTTACTAAA
56177072 TTTATAATATTT-ATAAGTTTTT
1 TTTATAAT-TTTAATAAGTTTTT
56177094 TTTATAATTTTAATAAGTTT
1 TTTATAATTTTAATAAGTTT
56177114 ATATCAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (22 bp):
TTTATAATTTTAATAAGTTTTT
Found at i:56179148 original size:16 final size:18
Alignment explanation
Indices: 56179122--56179154 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
56179112 CTTAAAAATT
56179122 ATATAATTAAT-TTTTTA
1 ATATAATTAATATTTTTA
56179139 ATAT-ATTAATATTTTT
1 ATATAATTAATATTTTT
56179155 TAAAAAATGG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
ATATAATTAATATTTTTA
Found at i:56187093 original size:19 final size:20
Alignment explanation
Indices: 56187069--56187113 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
56187059 TTTAAACAGT
* *
56187069 AAAAATTTTATAAAAA-ATA
1 AAAAATTATAGAAAAATATA
56187088 AAAAATTATAGAAAAATTATA
1 AAAAATTATAGAAAAA-TATA
56187109 AAAAA
1 AAAAA
56187114 AAATTTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 14 0.64
21 8 0.36
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (20 bp):
AAAAATTATAGAAAAATATA
Found at i:56187128 original size:22 final size:24
Alignment explanation
Indices: 56187087--56187130 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
56187077 TATAAAAAAT
56187087 AAAAAATTATAGAAAAATTATAAA
1 AAAAAATTATAGAAAAATTATAAA
*
56187111 AAAAAATT-TA-AAACATTATA
1 AAAAAATTATAGAAAAATTATA
56187131 TATCTTTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 2 0.11
24 8 0.42
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.27
Consensus pattern (24 bp):
AAAAAATTATAGAAAAATTATAAA
Found at i:56188856 original size:16 final size:17
Alignment explanation
Indices: 56188835--56188870 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
56188825 TCAACTCCTA
56188835 TTTTAATTTCG-ATTAT
1 TTTTAATTTCGAATTAT
*
56188851 TTTTAATTTTGAATTAT
1 TTTTAATTTCGAATTAT
56188868 TTT
1 TTT
56188871 CAACCTTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.25, C:0.03, G:0.06, T:0.67
Consensus pattern (17 bp):
TTTTAATTTCGAATTAT
Found at i:56190231 original size:55 final size:55
Alignment explanation
Indices: 56190142--56190255 Score: 194
Period size: 55 Copynumber: 2.1 Consensus size: 55
56190132 TATCATTGAC
* *
56190142 CATTGGTCAACTAACTGCCACATCTAATTCTGATTTATTTGATAAAGATTAAAAG
1 CATTAGTCAACTAACTGCCACATCTAATCCTGATTTATTTGATAAAGATTAAAAG
*
56190197 CATTAGTCAACTAGCTGCCACATCTAATCCTGATTTATTTGATAAAGATTAAAAG
1 CATTAGTCAACTAACTGCCACATCTAATCCTGATTTATTTGATAAAGATTAAAAG
56190252 -ATTA
1 CATTA
56190256 AGGTGGCAAT
Statistics
Matches: 56, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
54 4 0.07
55 52 0.93
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (55 bp):
CATTAGTCAACTAACTGCCACATCTAATCCTGATTTATTTGATAAAGATTAAAAG
Found at i:56195881 original size:8 final size:8
Alignment explanation
Indices: 56195868--56195892 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
56195858 GACTATAAGG
56195868 AAATATTC
1 AAATATTC
56195876 AAATATTC
1 AAATATTC
56195884 AAATATTC
1 AAATATTC
56195892 A
1 A
56195893 GATCTTGGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (8 bp):
AAATATTC
Found at i:56205009 original size:24 final size:25
Alignment explanation
Indices: 56204977--56205031 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 25
56204967 ATAATAAAAA
*
56204977 TATAATTTTATTA-TTTTAATAGTT
1 TATAATTTTATAATTTTTAATAGTT
* *
56205001 TATATTTTTATAATTTTTAATAGAT
1 TATAATTTTATAATTTTTAATAGTT
56205026 TA-AATT
1 TATAATT
56205032 AATTTTTTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
24 14 0.54
25 12 0.46
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (25 bp):
TATAATTTTATAATTTTTAATAGTT
Found at i:56205743 original size:29 final size:28
Alignment explanation
Indices: 56205692--56205748 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
56205682 TTAAAAAAGT
*
56205692 TTTAATGTGGTACCTCTACTTTTAATTTA
1 TTTAATGTGGTACCTCAACTTTT-ATTTA
*
56205721 TTTAATGTGGTACCT-AAGTTTTTATTTA
1 TTTAATGTGGTACCTCAA-CTTTTATTTA
56205749 GCCTATCAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 6 0.24
29 19 0.76
ACGTcount: A:0.25, C:0.11, G:0.12, T:0.53
Consensus pattern (28 bp):
TTTAATGTGGTACCTCAACTTTTATTTA
Found at i:56212508 original size:20 final size:20
Alignment explanation
Indices: 56212474--56212515 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
56212464 AACTATCTAA
** *
56212474 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
56212494 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
56212514 AT
1 AT
56212516 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:56214528 original size:13 final size:14
Alignment explanation
Indices: 56214510--56214546 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
56214500 AATGGCATAT
56214510 AAATAATATAAAC-
1 AAATAATATAAACG
56214523 AAATAA-ATAAACG
1 AAATAATATAAACG
56214536 AAATTAATATA
1 AAA-TAATATA
56214547 CAAAAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 9 0.43
14 3 0.14
15 3 0.14
ACGTcount: A:0.68, C:0.05, G:0.03, T:0.24
Consensus pattern (14 bp):
AAATAATATAAACG
Found at i:56215115 original size:6 final size:6
Alignment explanation
Indices: 56215075--56215114 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
56215065 GCGCATGAAT
* *
56215075 ATAAAA ATAAAA ATAAAA ATAAAA ATATAA ATAATA ATAA
1 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAA
56215115 TGATACAAGA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.23
Consensus pattern (6 bp):
ATAAAA
Found at i:56215585 original size:22 final size:21
Alignment explanation
Indices: 56215550--56215626 Score: 68
Period size: 19 Copynumber: 3.7 Consensus size: 21
56215540 AAAAGGTATC
* *
56215550 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
56215571 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
56215594 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
56215613 TATATATCATATCT
1 TACAAATCATATCT
56215627 AAGATTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
19 17 0.37
21 4 0.09
22 15 0.33
23 10 0.22
ACGTcount: A:0.42, C:0.16, G:0.05, T:0.38
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:56215593 original size:23 final size:22
Alignment explanation
Indices: 56215550--56215607 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
56215540 AAAAGGTATC
* *
56215550 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
56215571 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
56215594 TGCATATCATATCT
1 TACAAATCATATCT
56215608 AAGATTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:56215610 original size:19 final size:19
Alignment explanation
Indices: 56215586--56215658 Score: 119
Period size: 19 Copynumber: 3.8 Consensus size: 19
56215576 AATCATATCT
56215586 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
56215605 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
*
56215624 TCTAAGATTGCATATTATA
1 TCTAAGATTGCATATCATA
56215643 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
56215659 CTTGAAGATT
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 48 1.00
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.40
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:56219567 original size:144 final size:144
Alignment explanation
Indices: 56219342--56219625 Score: 505
Period size: 144 Copynumber: 2.0 Consensus size: 144
56219332 TAAGGTAGAT
**
56219342 TAGTAATAATGTGTAACCCTATATAGTATATACAACTATGTTACTATAATGTACATTTGTATATT
1 TAGTAATAATGTGTAACCCTATATAGTATATACAACTATGCCACTATAATGTACATTTGTATATT
* *
56219407 AATGATACGTAACCTTAAACCCTAAATGTGCAACTAACCTTATCGTATATTATTGTTATACTTAT
66 AATGATACGCAACCTTAAACCCTAAATGTGCAACTAACCTTATCATATATTATTGTTATACTTAT
*
56219472 ATCCTTACCTTATA
131 ACCCTTACCTTATA
56219486 TAGTAATAATGTGTAACCCTATATAGTATATACAACTATGCCACTATAATGTACATTTGTATATT
1 TAGTAATAATGTGTAACCCTATATAGTATATACAACTATGCCACTATAATGTACATTTGTATATT
* *
56219551 AATGATACGCAACCTTAAACTCTAAATGTGCAGCTAACCTTATCATATATTATTGTTATACTTAT
66 AATGATACGCAACCTTAAACCCTAAATGTGCAACTAACCTTATCATATATTATTGTTATACTTAT
56219616 ACCCTTACCT
131 ACCCTTACCT
56219626 CAATTTAGAC
Statistics
Matches: 133, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
144 133 1.00
ACGTcount: A:0.35, C:0.17, G:0.09, T:0.38
Consensus pattern (144 bp):
TAGTAATAATGTGTAACCCTATATAGTATATACAACTATGCCACTATAATGTACATTTGTATATT
AATGATACGCAACCTTAAACCCTAAATGTGCAACTAACCTTATCATATATTATTGTTATACTTAT
ACCCTTACCTTATA
Found at i:56225926 original size:19 final size:21
Alignment explanation
Indices: 56225892--56225932 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
56225882 ATAAAACGGG
*
56225892 AAATTTTTGAATTTG-TAGCA
1 AAATGTTTGAATTTGTTAGCA
56225912 AAATGTTTG-ATTTGTTAGCA
1 AAATGTTTGAATTTGTTAGCA
56225932 A
1 A
56225933 GTGAAAGCAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.34, C:0.05, G:0.17, T:0.44
Consensus pattern (21 bp):
AAATGTTTGAATTTGTTAGCA
Found at i:56227952 original size:42 final size:42
Alignment explanation
Indices: 56227892--56228017 Score: 146
Period size: 42 Copynumber: 3.0 Consensus size: 42
56227882 GTTTACTTTT
* * *
56227892 CGTTCAGCTCTCGCGAGCTTCTGTTTAACTCATATGAGTTTC
1 CGTTCAGCTCTAGCGAGCTTCTATTTAACCCATATGAGTTTC
** *
56227934 CGTTCAGCTCTATTGAGCTTCTATTTAACCCTTATGAGTTTC
1 CGTTCAGCTCTAGCGAGCTTCTATTTAACCCATATGAGTTTC
* * * *
56227976 CGTTCAGCTCTTA-CGAGCTTCCATTCAACCCTTATGGGTTTC
1 CGTTCAGCTC-TAGCGAGCTTCTATTTAACCCATATGAGTTTC
56228018 TGTTTAACTC
Statistics
Matches: 73, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
42 71 0.97
43 2 0.03
ACGTcount: A:0.17, C:0.27, G:0.17, T:0.39
Consensus pattern (42 bp):
CGTTCAGCTCTAGCGAGCTTCTATTTAACCCATATGAGTTTC
Found at i:56227988 original size:21 final size:21
Alignment explanation
Indices: 56227906--56228044 Score: 91
Period size: 21 Copynumber: 6.6 Consensus size: 21
56227896 CAGCTCTCGC
* * *
56227906 GAGCTTCTGTTTAACTCATAT
1 GAGCTTCCGTTCAACTCTTAT
* *
56227927 GAGTTTCCGTTCAGCTC-TATT
1 GAGCTTCCGTTCAACTCTTA-T
** * *
56227948 GAGCTTCTATTTAACCCTTAT
1 GAGCTTCCGTTCAACTCTTAT
* * *
56227969 GAGTTTCCGTTCAGCTCTTAC
1 GAGCTTCCGTTCAACTCTTAT
* *
56227990 GAGCTTCCATTCAACCCTTAT
1 GAGCTTCCGTTCAACTCTTAT
* * * *
56228011 GGGTTTCTGTTTAACTCTTAT
1 GAGCTTCCGTTCAACTCTTAT
*
56228032 GAGCTTCTGTTCA
1 GAGCTTCCGTTCA
56228045 GCCTTAGGGC
Statistics
Matches: 85, Mismatches: 31, Indels: 4
0.71 0.26 0.03
Matches are distributed among these distances:
20 2 0.02
21 81 0.95
22 2 0.02
ACGTcount: A:0.19, C:0.24, G:0.16, T:0.42
Consensus pattern (21 bp):
GAGCTTCCGTTCAACTCTTAT
Found at i:56228029 original size:42 final size:42
Alignment explanation
Indices: 56227924--56228038 Score: 133
Period size: 42 Copynumber: 2.7 Consensus size: 42
56227914 GTTTAACTCA
* * * *
56227924 TATGAGTTTCCGTTCAGCTC-TATTGAGCTTCTATTTAACCCT
1 TATGAGTTTCCGTTCAACTCTTA-CGAGCTTCCATTCAACCCT
*
56227966 TATGAGTTTCCGTTCAGCTCTTACGAGCTTCCATTCAACCCT
1 TATGAGTTTCCGTTCAACTCTTACGAGCTTCCATTCAACCCT
* * * *
56228008 TATGGGTTTCTGTTTAACTCTTATGAGCTTC
1 TATGAGTTTCCGTTCAACTCTTACGAGCTTC
56228039 TGTTCAGCCT
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
42 62 0.97
43 2 0.03
ACGTcount: A:0.18, C:0.24, G:0.16, T:0.42
Consensus pattern (42 bp):
TATGAGTTTCCGTTCAACTCTTACGAGCTTCCATTCAACCCT
Found at i:56231894 original size:3 final size:3
Alignment explanation
Indices: 56231881--56231938 Score: 53
Period size: 3 Copynumber: 19.3 Consensus size: 3
56231871 ATTACTTAAC
* * * * * * *
56231881 TAT TTT TAT TAT TAT TGT TAT TAT TAT TAA TGT TAC TAT AAT TAT TAG
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
56231929 TAT TAT TAT T
1 TAT TAT TAT T
56231939 TGTATTAGTT
Statistics
Matches: 41, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:56237770 original size:20 final size:19
Alignment explanation
Indices: 56237736--56237776 Score: 57
Period size: 18 Copynumber: 2.1 Consensus size: 19
56237726 ATTATTTGAA
56237736 TTTTATATTTTATAA-TTT
1 TTTTATATTTTATAACTTT
56237754 TTTTATGATTCTTATAACTTT
1 TTTTAT-ATT-TTATAACTTT
56237775 TT
1 TT
56237777 AATAATCAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 6 0.30
19 3 0.15
20 6 0.30
21 5 0.25
ACGTcount: A:0.24, C:0.05, G:0.02, T:0.68
Consensus pattern (19 bp):
TTTTATATTTTATAACTTT
Found at i:56237777 original size:19 final size:18
Alignment explanation
Indices: 56237736--56237777 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
56237726 ATTATTTGAA
*
56237736 TTTTATATTTTATAATTT
1 TTTTATATTTTATAATCT
56237754 TTTTATGATTCTTATAA-CT
1 TTTTAT-ATT-TTATAATCT
56237773 TTTTA
1 TTTTA
56237778 ATAATCAGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 6 0.29
19 9 0.43
20 6 0.29
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (18 bp):
TTTTATATTTTATAATCT
Found at i:56237866 original size:19 final size:20
Alignment explanation
Indices: 56237844--56237892 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
56237834 TTTATTGGAA
56237844 TTTTTAATAAT-TCTATA-AT
1 TTTTTAATAATAT-TATATAT
* *
56237863 TTTTTAAAAATATTTTATAT
1 TTTTTAATAATATTATATAT
56237883 TTTTTAATAA
1 TTTTTAATAA
56237893 CAACTTTCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 13 0.52
20 12 0.48
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (20 bp):
TTTTTAATAATATTATATAT
Found at i:56245815 original size:25 final size:23
Alignment explanation
Indices: 56245780--56245831 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 23
56245770 TTTGGTTGTT
*
56245780 TTTTTCTTTAATTTTTGTAAATATAA
1 TTTTTCTTTAA-CTTT-TAAATAT-A
56245806 TTTTTC-TTAACTTTTAAATATA
1 TTTTTCTTTAACTTTTAAATATA
56245828 TTTT
1 TTTT
56245832 GAATTTTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
22 5 0.20
23 7 0.28
24 3 0.12
25 4 0.16
26 6 0.24
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.63
Consensus pattern (23 bp):
TTTTTCTTTAACTTTTAAATATA
Found at i:56252401 original size:189 final size:189
Alignment explanation
Indices: 56252081--56252459 Score: 758
Period size: 189 Copynumber: 2.0 Consensus size: 189
56252071 ACAAATAATG
56252081 AGTAGCAGCTGAAGTCATCAATGGGGGTTGAGTTAATAAAATAAAAGGGGTTGGAATATTTTAGG
1 AGTAGCAGCTGAAGTCATCAATGGGGGTTGAGTTAATAAAATAAAAGGGGTTGGAATATTTTAGG
56252146 GCAGCAGAGCTGAAGTCATCAATGGGATGTGCTAAAACATTGATTTAATTAAGGTAAACTTGTAC
66 GCAGCAGAGCTGAAGTCATCAATGGGATGTGCTAAAACATTGATTTAATTAAGGTAAACTTGTAC
56252211 TGTTTCCTGGAGAGCAAACATGGGTCTGCTGTCTTTGCTCAAGCAATCAGATTTAAGGA
131 TGTTTCCTGGAGAGCAAACATGGGTCTGCTGTCTTTGCTCAAGCAATCAGATTTAAGGA
56252270 AGTAGCAGCTGAAGTCATCAATGGGGGTTGAGTTAATAAAATAAAAGGGGTTGGAATATTTTAGG
1 AGTAGCAGCTGAAGTCATCAATGGGGGTTGAGTTAATAAAATAAAAGGGGTTGGAATATTTTAGG
56252335 GCAGCAGAGCTGAAGTCATCAATGGGATGTGCTAAAACATTGATTTAATTAAGGTAAACTTGTAC
66 GCAGCAGAGCTGAAGTCATCAATGGGATGTGCTAAAACATTGATTTAATTAAGGTAAACTTGTAC
56252400 TGTTTCCTGGAGAGCAAACATGGGTCTGCTGTCTTTGCTCAAGCAATCAGATTTAAGGA
131 TGTTTCCTGGAGAGCAAACATGGGTCTGCTGTCTTTGCTCAAGCAATCAGATTTAAGGA
56252459 A
1 A
56252460 CCCTTTTACT
Statistics
Matches: 190, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
189 190 1.00
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.28
Consensus pattern (189 bp):
AGTAGCAGCTGAAGTCATCAATGGGGGTTGAGTTAATAAAATAAAAGGGGTTGGAATATTTTAGG
GCAGCAGAGCTGAAGTCATCAATGGGATGTGCTAAAACATTGATTTAATTAAGGTAAACTTGTAC
TGTTTCCTGGAGAGCAAACATGGGTCTGCTGTCTTTGCTCAAGCAATCAGATTTAAGGA
Found at i:56257759 original size:36 final size:36
Alignment explanation
Indices: 56257688--56257759 Score: 83
Period size: 36 Copynumber: 2.0 Consensus size: 36
56257678 AAAAAAAAAC
* **
56257688 TTAAAAAATATATAAAAAAAACTCTAAACTTTAAAT
1 TTAAAAAATATATAAAAAAAACTCAAAACCCTAAAT
**
56257724 TTAAAAAATATA-AAAAAACCCTACAAAACCCTAAAT
1 TTAAAAAATATATAAAAAAAACT-CAAAACCCTAAAT
56257760 CCTAAAATCC
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
35 8 0.27
36 22 0.73
ACGTcount: A:0.61, C:0.14, G:0.00, T:0.25
Consensus pattern (36 bp):
TTAAAAAATATATAAAAAAAACTCAAAACCCTAAAT
Found at i:56259642 original size:35 final size:37
Alignment explanation
Indices: 56259599--56259668 Score: 92
Period size: 38 Copynumber: 1.9 Consensus size: 37
56259589 GTAAATGTTG
*
56259599 AAAAAAATTAT-ATA-TATAAAG-ATAATATAAAAAC
1 AAAAAAATTATGAGATTATAAAGTATAATATAAAAAC
*
56259633 AAAACAAATTATGAGATTATAGAGTATAATATAAAA
1 AAAA-AAATTATGAGATTATAAAGTATAATATAAAA
56259669 GAAAATGAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
34 4 0.13
35 7 0.23
36 2 0.07
37 6 0.20
38 11 0.37
ACGTcount: A:0.63, C:0.03, G:0.07, T:0.27
Consensus pattern (37 bp):
AAAAAAATTATGAGATTATAAAGTATAATATAAAAAC
Found at i:56260435 original size:7 final size:7
Alignment explanation
Indices: 56260423--56260453 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
56260413 AATTGGCTTG
56260423 TATTATA
1 TATTATA
56260430 TATTATA
1 TATTATA
56260437 TATTATA
1 TATTATA
56260444 TA-TATA
1 TATTATA
56260450 TATT
1 TATT
56260454 CGCTTTTGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.26
7 17 0.74
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
TATTATA
Found at i:56267921 original size:23 final size:23
Alignment explanation
Indices: 56267876--56267921 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
56267866 AATGCAACAA
* *
56267876 GAGACCAGCAACAGTTCAGCATG
1 GAGACCAGCAACAGCTCAACATG
* *
56267899 GAGACCAGTAGCAGCTCAACATG
1 GAGACCAGCAACAGCTCAACATG
56267922 AAGATCGGCA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.35, C:0.26, G:0.26, T:0.13
Consensus pattern (23 bp):
GAGACCAGCAACAGCTCAACATG
Found at i:56272428 original size:23 final size:23
Alignment explanation
Indices: 56272383--56272428 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
56272373 AATGCAACAA
* *
56272383 GAGACCAGCAGCAATTCAGCATG
1 GAGACCAGCAGCAACTCAACATG
*
56272406 GAGACCAGCAGCAGCTCAACATG
1 GAGACCAGCAGCAACTCAACATG
56272429 AAGATTGGCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.35, C:0.28, G:0.26, T:0.11
Consensus pattern (23 bp):
GAGACCAGCAGCAACTCAACATG
Found at i:56275075 original size:41 final size:41
Alignment explanation
Indices: 56275017--56275166 Score: 255
Period size: 41 Copynumber: 3.6 Consensus size: 41
56275007 CTTAATTTAA
*
56275017 CAGATTCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATT
1 CAGA-TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
56275059 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
* *
56275100 CAGATCACCGGCACTTAGCTTGCTAGGTTTATAACATGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
*
56275141 CAGATCACCAGCACTTAGCCTGCTAG
1 CAGATCACCGGCACTTAGCCTGCTAG
56275167 ACGTATAGTC
Statistics
Matches: 103, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
41 99 0.96
42 4 0.04
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.28
Consensus pattern (41 bp):
CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
Found at i:56277734 original size:7 final size:7
Alignment explanation
Indices: 56277722--56277748 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
56277712 TTTATAATTG
56277722 ATTTCAC
1 ATTTCAC
56277729 ATTTCAC
1 ATTTCAC
56277736 ATTTCAC
1 ATTTCAC
56277743 ATTTCA
1 ATTTCA
56277749 TTGACTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.26, G:0.00, T:0.44
Consensus pattern (7 bp):
ATTTCAC
Found at i:56278628 original size:38 final size:37
Alignment explanation
Indices: 56278586--56278679 Score: 97
Period size: 36 Copynumber: 2.6 Consensus size: 37
56278576 TCTCCAAAAT
** *
56278586 TATTATTT-TAAATTTTTTTTAAAATTTAAAATTTTATA
1 TATTATTTATAAATTTTTTAAAAAATAT-AAATTTTA-A
*
56278624 TATTATTTGT--ATTTTTTAAAAAATATAAATTTTAA
1 TATTATTTATAAATTTTTTAAAAAATATAAATTTTAA
*
56278659 TATT-TTTATAAATATTTTAAA
1 TATTATTTATAAATTTTTTAAA
56278680 TTTTTGAAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
34 4 0.08
35 5 0.10
36 17 0.35
37 13 0.27
38 8 0.17
39 1 0.02
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.57
Consensus pattern (37 bp):
TATTATTTATAAATTTTTTAAAAAATATAAATTTTAA
Found at i:56278684 original size:19 final size:20
Alignment explanation
Indices: 56278651--56278704 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 20
56278641 AAAAAATATA
56278651 AATTTTAATATTTTT-ATAAAT
1 AATTTTAA-ATTTTTGA-AAAT
56278672 -ATTTTAAATTTTTGAAAAT
1 AATTTTAAATTTTTGAAAAT
*
56278691 AATTTTGAATTTTT
1 AATTTTAAATTTTT
56278705 TTTTATAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
19 10 0.33
20 20 0.67
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (20 bp):
AATTTTAAATTTTTGAAAAT
Found at i:56296221 original size:24 final size:24
Alignment explanation
Indices: 56296184--56296243 Score: 86
Period size: 24 Copynumber: 2.5 Consensus size: 24
56296174 CCAAACACTC
*
56296184 ACACTCAGTTCTCTG-CGCAGCCAA
1 ACACTCAGTCCTCTGTC-CAGCCAA
*
56296208 ACACTCAATCCTCTGTCCAGCCAA
1 ACACTCAGTCCTCTGTCCAGCCAA
56296232 ACACTCAGTCCT
1 ACACTCAGTCCT
56296244 TGCCTACCAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
24 31 0.97
25 1 0.03
ACGTcount: A:0.27, C:0.40, G:0.12, T:0.22
Consensus pattern (24 bp):
ACACTCAGTCCTCTGTCCAGCCAA
Found at i:56297268 original size:15 final size:15
Alignment explanation
Indices: 56297248--56297282 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
56297238 GGAGAATTTA
56297248 AAAGAATTTGAAGTC
1 AAAGAATTTGAAGTC
56297263 AAAGAATTTGAAGTC
1 AAAGAATTTGAAGTC
56297278 AAAGA
1 AAAGA
56297283 GCTCGGTAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.51, C:0.06, G:0.20, T:0.23
Consensus pattern (15 bp):
AAAGAATTTGAAGTC
Found at i:56303076 original size:3 final size:3
Alignment explanation
Indices: 56303068--56303102 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
56303058 TAAGGAACAT
56303068 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
56303103 AACAGTGTCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:56311273 original size:29 final size:30
Alignment explanation
Indices: 56311206--56311286 Score: 83
Period size: 31 Copynumber: 2.7 Consensus size: 30
56311196 CTCAAATTAA
* *
56311206 TTATATATGAACTTTAATTTAATATGAAATT
1 TTATACATGAACTTTGATTT-ATATGAAATT
* * *
56311237 TTAGACATGAACTTTGATTT-TGTGCAATT
1 TTATACATGAACTTTGATTTATATGAAATT
*
56311266 TTATACATGAAATTTTGATTT
1 TTATACATG-AACTTTGATTT
56311287 GATCCAATTA
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
29 15 0.36
30 10 0.24
31 17 0.40
ACGTcount: A:0.35, C:0.06, G:0.11, T:0.48
Consensus pattern (30 bp):
TTATACATGAACTTTGATTTATATGAAATT
Found at i:56311295 original size:30 final size:29
Alignment explanation
Indices: 56311233--56311295 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 29
56311223 TTTAATATGA
*
56311233 AATTTTAGACATGAACTTTGATTTTGTGC
1 AATTTTAGACATGAACTTTGATTTTGTCC
* *
56311262 AATTTTATACATGAAATTTTGA-TTTGATCC
1 AATTTTAGACATG-AACTTTGATTTTG-TCC
56311292 AATT
1 AATT
56311296 ATTACAAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
29 16 0.55
30 13 0.45
ACGTcount: A:0.32, C:0.10, G:0.13, T:0.46
Consensus pattern (29 bp):
AATTTTAGACATGAACTTTGATTTTGTCC
Found at i:56311474 original size:30 final size:30
Alignment explanation
Indices: 56311422--56311494 Score: 74
Period size: 30 Copynumber: 2.4 Consensus size: 30
56311412 AATTTGTATG
* * *
56311422 ATTGAATCAAAATTAAAGTTTCATATATACA
1 ATTGAA-CCAAATAAAAATTTCATATATACA
* * *
56311453 TTTGAACCAAATAAAAATTTCATGTATATA
1 ATTGAACCAAATAAAAATTTCATATATACA
*
56311483 ATTGCACCAAAT
1 ATTGAACCAAAT
56311495 CAAAGTTCAT
Statistics
Matches: 34, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
30 29 0.85
31 5 0.15
ACGTcount: A:0.47, C:0.12, G:0.07, T:0.34
Consensus pattern (30 bp):
ATTGAACCAAATAAAAATTTCATATATACA
Found at i:56317136 original size:17 final size:17
Alignment explanation
Indices: 56317114--56317180 Score: 125
Period size: 17 Copynumber: 3.9 Consensus size: 17
56317104 TCCCAGATTT
56317114 TGATACCCATATCTTTC
1 TGATACCCATATCTTTC
*
56317131 TGATACTCATATCTTTC
1 TGATACCCATATCTTTC
56317148 TGATACCCATATCTTTC
1 TGATACCCATATCTTTC
56317165 TGATACCCATATCTTT
1 TGATACCCATATCTTT
56317181 GACTTTCAAT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 48 1.00
ACGTcount: A:0.24, C:0.27, G:0.06, T:0.43
Consensus pattern (17 bp):
TGATACCCATATCTTTC
Found at i:56319741 original size:19 final size:19
Alignment explanation
Indices: 56319717--56319792 Score: 82
Period size: 19 Copynumber: 3.9 Consensus size: 19
56319707 CATCACTATC
56319717 ACACAAAGTGTATCTTGGT
1 ACACAAAGTGTATCTTGGT
*
56319736 ACACAAAGCTGCATCTTAGG-
1 ACACAAAG-TGTATCTT-GGT
* **
56319756 GCACAAAGCATATCTTGGT
1 ACACAAAGTGTATCTTGGT
*
56319775 ACACCAAGTGTATCTTGG
1 ACACAAAGTGTATCTTGG
56319793 CATATAAGGT
Statistics
Matches: 45, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
18 2 0.04
19 27 0.60
20 14 0.31
21 2 0.04
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (19 bp):
ACACAAAGTGTATCTTGGT
Found at i:56320138 original size:18 final size:18
Alignment explanation
Indices: 56320115--56320151 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
56320105 AATGGTAGTC
56320115 CATGTCTCGATAATTGAT
1 CATGTCTCGATAATTGAT
56320133 CATGTCTCGATAATTGAT
1 CATGTCTCGATAATTGAT
56320151 C
1 C
56320152 TCAACTGAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.38
Consensus pattern (18 bp):
CATGTCTCGATAATTGAT
Found at i:56325541 original size:18 final size:17
Alignment explanation
Indices: 56325508--56325546 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
56325498 TTTTATAAAT
56325508 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
56325526 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
56325543 TGTG
1 TGTG
56325547 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:56325801 original size:23 final size:23
Alignment explanation
Indices: 56325773--56325893 Score: 190
Period size: 23 Copynumber: 5.3 Consensus size: 23
56325763 GTGTTATTGA
56325773 TCAGTGGTAGCTTCGGCTACATT
1 TCAGTGGTAGCTTCGGCTACATT
*
56325796 TTAGTGGTAGCTTCGGCTACATT
1 TCAGTGGTAGCTTCGGCTACATT
*
56325819 TCTGTGGTAGCTTCGGCTAC-TT
1 TCAGTGGTAGCTTCGGCTACATT
*
56325841 ATCAATGGTAGCTTCGGCTACATT
1 -TCAGTGGTAGCTTCGGCTACATT
*
56325865 TCAGTGGTAGCTTCGGCTACATA
1 TCAGTGGTAGCTTCGGCTACATT
56325888 TCAGTG
1 TCAGTG
56325894 TGGCACTTAT
Statistics
Matches: 89, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
22 2 0.02
23 85 0.96
24 2 0.02
ACGTcount: A:0.18, C:0.21, G:0.26, T:0.36
Consensus pattern (23 bp):
TCAGTGGTAGCTTCGGCTACATT
Found at i:56336424 original size:27 final size:27
Alignment explanation
Indices: 56336394--56336447 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
56336384 AAAATGCTCC
56336394 GAAGAGCCACTATCACTGAA-TTGCACT
1 GAAGAGCCACTATCACT-AAGTTGCACT
* **
56336421 GAAGTGTTACTATCACTAAGTTGCACT
1 GAAGAGCCACTATCACTAAGTTGCACT
56336448 AAAGTGTCAC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 2 0.09
27 21 0.91
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (27 bp):
GAAGAGCCACTATCACTAAGTTGCACT
Found at i:56336452 original size:27 final size:27
Alignment explanation
Indices: 56336401--56336460 Score: 86
Period size: 27 Copynumber: 2.2 Consensus size: 27
56336391 TCCGAAGAGC
*
56336401 CACTATCACTGAATTGCACTGAAGTGT
1 CACTATCACTGAATTGCACTAAAGTGT
*
56336428 TACTATCACT-AAGTTGCACTAAAGTGT
1 CACTATCACTGAA-TTGCACTAAAGTGT
56336455 CACTAT
1 CACTAT
56336461 TATTATGCGC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 2 0.07
27 27 0.93
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.32
Consensus pattern (27 bp):
CACTATCACTGAATTGCACTAAAGTGT
Found at i:56339334 original size:4 final size:4
Alignment explanation
Indices: 56339325--56339411 Score: 51
Period size: 4 Copynumber: 21.8 Consensus size: 4
56339315 ATTAATATCC
56339325 AAAT AAAT -AAT AAAT -AAT AAAAT AAAAT AAA- ATAAT AAAGT -AAT
1 AAAT AAAT AAAT AAAT AAAT -AAAT -AAAT AAAT A-AAT AAA-T AAAT
* * *
56339369 AAAT AAAGT AAAG AAAG AAA- AAAT -AAT AAAT AATAA AAAT AAA
1 AAAT AAA-T AAAT AAAT AAAT AAAT AAAT AAAT AA-AT AAAT AAA
56339412 AATTGGGTTG
Statistics
Matches: 69, Mismatches: 3, Indels: 22
0.73 0.03 0.23
Matches are distributed among these distances:
3 14 0.20
4 38 0.55
5 17 0.25
ACGTcount: A:0.75, C:0.00, G:0.05, T:0.21
Consensus pattern (4 bp):
AAAT
Done.