Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 185 of 325
Found at i:58382786 original size:20 final size:21
Alignment explanation
Indices: 58382747--58382786 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
58382737 GTTATAATGA
58382747 CCACACGGGCGTGTTGCCCTT
1 CCACACGGGCGTGTTGCCCTT
58382768 CCACACGGGCGTG-TGCCCT
1 CCACACGGGCGTGTTGCCCT
58382787 GTTTCAAGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.10, C:0.40, G:0.30, T:0.20
Consensus pattern (21 bp):
CCACACGGGCGTGTTGCCCTT
Found at i:58397375 original size:25 final size:23
Alignment explanation
Indices: 58397347--58397397 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 23
58397337 TGATAACAAT
*
58397347 ATGCAAAAAAATTCTTCCAGTAAAA
1 ATGCAAAAAAA--CTACCAGTAAAA
*
58397372 ATGCAAACAAACTACCAGTAAAA
1 ATGCAAAAAAACTACCAGTAAAA
58397395 ATG
1 ATG
58397398 AGATAAATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 14 0.58
25 10 0.42
ACGTcount: A:0.53, C:0.18, G:0.10, T:0.20
Consensus pattern (23 bp):
ATGCAAAAAAACTACCAGTAAAA
Found at i:58399683 original size:6 final size:6
Alignment explanation
Indices: 58399661--58399695 Score: 52
Period size: 6 Copynumber: 5.5 Consensus size: 6
58399651 TTCCAAATGA
58399661 TTTCAT TTCTCCAT TTTCAT TTTCAT TTTCAT TTT
1 TTTCAT TT-T-CAT TTTCAT TTTCAT TTTCAT TTT
58399696 GGAGATAGCC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 20 0.74
7 2 0.07
8 5 0.19
ACGTcount: A:0.14, C:0.20, G:0.00, T:0.66
Consensus pattern (6 bp):
TTTCAT
Found at i:58399690 original size:62 final size:64
Alignment explanation
Indices: 58399621--58399740 Score: 165
Period size: 63 Copynumber: 1.9 Consensus size: 64
58399611 TATTTTCAAG
* *
58399621 TCATTTTCATTTT-GAGAAAACCACATTCATTTCCAAATGATTT-C-ATTTCTCCATTTTCATTT
1 TCATTTTCATTTTGGAGAAAACCACAATCATTCCCAAATG-TTTCCTATTTCTCCATTTTCATTT
* * *
58399683 TCATTTTCATTTTGGAGATAGCCATAATCATTCCCAAATGTTTCCTATTTCTCCATTT
1 TCATTTTCATTTTGGAGAAAACCACAATCATTCCCAAATGTTTCCTATTTCTCCATTT
58399741 GACCATTTAT
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
62 16 0.32
63 22 0.44
64 12 0.24
ACGTcount: A:0.26, C:0.22, G:0.07, T:0.46
Consensus pattern (64 bp):
TCATTTTCATTTTGGAGAAAACCACAATCATTCCCAAATGTTTCCTATTTCTCCATTTTCATTT
Found at i:58404235 original size:18 final size:18
Alignment explanation
Indices: 58404209--58404251 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
58404199 ATGTTCAATC
*
58404209 TTTAAATTCAGGCTTTCA
1 TTTATATTCAGGCTTTCA
58404227 TTTATATTCAGGCTTTCA
1 TTTATATTCAGGCTTTCA
58404245 TTTATAT
1 TTTATAT
58404252 AAACCGTACA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.26, C:0.14, G:0.09, T:0.51
Consensus pattern (18 bp):
TTTATATTCAGGCTTTCA
Found at i:58417576 original size:40 final size:40
Alignment explanation
Indices: 58417475--58417850 Score: 523
Period size: 40 Copynumber: 9.5 Consensus size: 40
58417465 TGGATGATAA
* * * *
58417475 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGATTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
**
58417515 CCGGGC-AAGTCCCGAAGGCATTTGTGCGAGTTTTTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
58417554 CCGGGCTAAGTCCCGAAGGCATTGGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
58417594 CCGGGCTAAGTCCCGAAGGCATTTGTACGAAG-TACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG-AGTTACTATAT
* *
58417634 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
58417674 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
58417714 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG-AGTTACTATAT
*
58417754 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
58417794 CCGGGCTAAGTCCCGAAGGCATTTGAGC-AG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
**
58417833 CC-GGCTAAACCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
58417851 TACTTTGTTG
Statistics
Matches: 306, Mismatches: 23, Indels: 16
0.89 0.07 0.05
Matches are distributed among these distances:
38 17 0.06
39 46 0.15
40 239 0.78
41 4 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:58425824 original size:40 final size:40
Alignment explanation
Indices: 58425713--58425940 Score: 345
Period size: 40 Copynumber: 5.7 Consensus size: 40
58425703 TATTTGGATG
* * *
58425713 ATAACCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
58425753 AGT-TCCGGGC-AAGTCCCGAAGGCATTTGTGCGAGTTACT
1 A-TAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
58425792 ATAACCGGGCTAAGTGCCGAAGGCATTGGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
58425832 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCG-AGTTACT
*
58425872 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
58425912 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
58425941 AGCAGTAGCT
Statistics
Matches: 172, Mismatches: 11, Indels: 10
0.89 0.06 0.05
Matches are distributed among these distances:
38 1 0.01
39 35 0.20
40 133 0.77
41 3 0.02
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.24
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:58425880 original size:80 final size:79
Alignment explanation
Indices: 58425717--58425972 Score: 358
Period size: 80 Copynumber: 3.2 Consensus size: 79
58425707 TGGATGATAA
* * *
58425717 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-TCCGGGC-AAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TATCCGGGCTAAGTCCCGAAGGCATTT
*
58425780 GTGCGAGTTACTATAA
65 GTGCGAG-TACTATAT
* *
58425796 CCGGGCTAAGTGCCGAAGGCATTGGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
58425861 TGCGAAGTACTATAT
66 TGCG-AGTACTATAT
*
58425876 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
*
58425941 AGC-AGTAGCTATAT
66 TGCGAGTA-CTATAT
**
58425955 CC-GGCTAAACCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
58425973 TACTTGGTTG
Statistics
Matches: 161, Mismatches: 12, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
78 19 0.12
79 47 0.29
80 93 0.58
81 2 0.01
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.23
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGTACTATAT
Found at i:58425932 original size:120 final size:118
Alignment explanation
Indices: 58425717--58425972 Score: 376
Period size: 120 Copynumber: 2.2 Consensus size: 118
58425707 TGGATGATAA
*
58425717 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGTTCCGGGCAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCAAGTGACTAGTTCCGGGCAAGTCCCGAAGGCATTTGT
* *
58425782 GCGAGTTACTATAACCGGGCTAAGTGCCGAAGGCATTGGTGCGAGTTA-CTATAT
66 GCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTGGAGC-AG-TAGCTATAT
*
58425836 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTA-TATCCGGGCTAAGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGCGC-AAGTGACTAGT-TCCGGGC-AAGTCCCGAAGGCATT
*
58425899 TGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAGTAGCTATAT
63 TGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTGGAGCAGTAGCTATAT
**
58425955 CC-GGCTAAACCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
58425973 TACTTGGTTG
Statistics
Matches: 126, Mismatches: 7, Indels: 9
0.89 0.05 0.06
Matches are distributed among these distances:
118 17 0.13
119 48 0.38
120 61 0.48
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.23
Consensus pattern (118 bp):
CCGGGCTAAGTCCCGAAGGCATTTGCGCAAGTGACTAGTTCCGGGCAAGTCCCGAAGGCATTTGT
GCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTGGAGCAGTAGCTATAT
Found at i:58427921 original size:80 final size:79
Alignment explanation
Indices: 58427788--58427991 Score: 279
Period size: 80 Copynumber: 2.6 Consensus size: 79
58427778 CGGATGATAA
* * * *
58427788 CGAAGGCATTTGTGCTAGTGACTA-ATTCTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA
1 CGAAGGCATTTGTGCGAGTTACTATA-TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA
58427852 TAACCGGGCTAAGTCC
65 TAACCGGGCT-AGTCC
*
58427868 CGAAGGCATTTGTGCGAGTTACTATAACCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT
58427933 AACCGGGCTAGTCC
66 AACCGGGCTAGTCC
* * * *
58427947 CGAAGACATTTGAGTGAG-TAGCTATATCC-GGTTAAATCCCGAAGG
1 CGAAGGCATTTGTGCGAGTTA-CTATATCCGGGTTAAGTCCCGAAGG
58427992 TACTTGGTTT
Statistics
Matches: 112, Mismatches: 10, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
78 17 0.15
79 27 0.24
80 67 0.60
81 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT
AACCGGGCTAGTCC
Found at i:58427990 original size:39 final size:40
Alignment explanation
Indices: 58427788--58427958 Score: 265
Period size: 40 Copynumber: 4.3 Consensus size: 40
58427778 CGGATGATAA
* * * *
58427788 CGAAGGCATTTGTGCTAGTGACTA-ATTCTGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATA-ACCGGGCTAAGTCC
58427828 CGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCC
*
58427868 CGAAGGCATTTGTGCGAGTTACTATAACCGGGTTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCC
58427908 CGAAGGCATTTGTGCGAGTTACTATAACCGGGCT-AGTCC
1 CGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCC
*
58427947 CGAAGACATTTG
1 CGAAGGCATTTG
58427959 AGTGAGTAGC
Statistics
Matches: 123, Mismatches: 7, Indels: 3
0.92 0.05 0.02
Matches are distributed among these distances:
39 16 0.13
40 106 0.86
41 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
CGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCC
Found at i:58433831 original size:46 final size:47
Alignment explanation
Indices: 58433684--58433851 Score: 150
Period size: 46 Copynumber: 3.6 Consensus size: 47
58433674 TTTGTTAGTG
* * *
58433684 AGCCAGTGTAAGACCATGTTTGGGACATGAT-ATCGAC-ATTGAGATGAG
1 AGCCAGTGTAAGACCATGTTTGGGACAT--TCATCGGCTACT-AGATGAT
* * * * * *
58433732 ATCTAGTGTAAGA-CATGTTTAGGACATGCATCGGCCT-CGAGACG-T
1 AGCCAGTGTAAGACCATGTTTGGGACATTCATCGG-CTACTAGATGAT
*
58433777 AAGACAGTGTAAGA-CATGTTTGGGACATTCATCGGCTACTAGATGAT
1 -AGCCAGTGTAAGACCATGTTTGGGACATTCATCGGCTACTAGATGAT
*
58433824 AGCCAGTGTAAGACCATGTCTGGGACAT
1 AGCCAGTGTAAGACCATGTTTGGGACAT
58433852 GGCATCGACA
Statistics
Matches: 95, Mismatches: 18, Indels: 15
0.74 0.14 0.12
Matches are distributed among these distances:
45 2 0.02
46 54 0.57
47 28 0.29
48 11 0.12
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.26
Consensus pattern (47 bp):
AGCCAGTGTAAGACCATGTTTGGGACATTCATCGGCTACTAGATGAT
Found at i:58439602 original size:40 final size:39
Alignment explanation
Indices: 58439531--58439775 Score: 280
Period size: 40 Copynumber: 6.2 Consensus size: 39
58439521 AAACCAAGTA
* * * *
58439531 CCTTCGGGATTTA-ACCGGATATAGCTACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGAATATAG-TACTCGCACAAATG
*
58439570 CCTTCGGGACCTAGCCCGAATATAGTAGCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGAATATAGTA-CTCGCACAAATG
*
58439610 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGAATATAGT-ACTCGCACAAATG
* *
58439650 CCTTCGGGACTTAGCTCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGAATATAGT-ACTCGCACAAATG
* * *
58439690 CCTTTGGGACTTAGCCCGAGAT-TAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGA-ATATAGT-ACTCGCACAAATG
* *
58439730 CCTTCAGGACTTAGCCCGGAAT-TAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCC-GAATATAGT-ACTCGCACAAATG
58439770 CCTTCG
1 CCTTCG
58439776 TTATCATCCG
Statistics
Matches: 183, Mismatches: 18, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
39 13 0.07
40 165 0.90
41 5 0.03
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCCGAATATAGTACTCGCACAAATG
Found at i:58439765 original size:120 final size:119
Alignment explanation
Indices: 58439531--58439775 Score: 327
Period size: 120 Copynumber: 2.1 Consensus size: 119
58439521 AAACCAAGTA
* * *
58439531 CCTTCGGGATTTAACCGGATATAGCTACTCGCTCAAATGCCTTCGGGACCTAGCCCGAATATAGT
1 CCTTCGGGACTTAACCGGATATAGCTACTCGCACAAATGCCTTCGGGACCTAGCCCGAATATAAT
* * *
58439596 AGCTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
66 AGCTAGCACAAATGCCTTCAGGACTTAGCCCGGATATAGTAACTAGCACAAATG
* * *
58439650 CCTTCGGGACTTAGCTCGGATATAG-TAACTCGCACAAATGCCTTTGGGACTTAGCCCGAGAT-T
1 CCTTCGGGACTTAAC-CGGATATAGCT-ACTCGCACAAATGCCTTCGGGACCTAGCCCGA-ATAT
*
58439713 AATCA-CTAGCACAAATGCCTTCAGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
63 AAT-AGCTAGCACAAATGCCTTCAGGACTTAGCCCGGATA-TAGTAACTAGCACAAATG
58439770 CCTTCG
1 CCTTCG
58439776 TTATCATCCG
Statistics
Matches: 111, Mismatches: 10, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
119 15 0.14
120 93 0.84
121 3 0.03
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (119 bp):
CCTTCGGGACTTAACCGGATATAGCTACTCGCACAAATGCCTTCGGGACCTAGCCCGAATATAAT
AGCTAGCACAAATGCCTTCAGGACTTAGCCCGGATATAGTAACTAGCACAAATG
Found at i:58443023 original size:35 final size:36
Alignment explanation
Indices: 58442977--58443053 Score: 147
Period size: 35 Copynumber: 2.2 Consensus size: 36
58442967 CGATACAAAG
58442977 AAGAGATTAAAGAGGGAGACCACTATAGAAAGAAGA
1 AAGAGATTAAAGAGGGAGACCACTATAGAAAGAAGA
58443013 AAGAGA-TAAAGAGGGAGACCACTATAGAAAGAAGA
1 AAGAGATTAAAGAGGGAGACCACTATAGAAAGAAGA
58443048 AAGAGA
1 AAGAGA
58443054 ATCGGCGGCA
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
35 35 0.85
36 6 0.15
ACGTcount: A:0.55, C:0.08, G:0.29, T:0.09
Consensus pattern (36 bp):
AAGAGATTAAAGAGGGAGACCACTATAGAAAGAAGA
Found at i:58446303 original size:18 final size:18
Alignment explanation
Indices: 58446280--58446317 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
58446270 ATTTGAAGAA
58446280 CAATCTGCAGGTGTCCAT
1 CAATCTGCAGGTGTCCAT
58446298 CAATCTGCAGGTGTCCAT
1 CAATCTGCAGGTGTCCAT
58446316 CA
1 CA
58446318 TGCTCCTCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (18 bp):
CAATCTGCAGGTGTCCAT
Found at i:58452384 original size:9 final size:9
Alignment explanation
Indices: 58452372--58452428 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
58452362 TTTGATAAAC
58452372 ATGATATGT
1 ATGATATGT
*
58452381 ATGATATGCAC
1 ATGATATG--T
*
58452392 ATGACATGT
1 ATGATATGT
*
58452401 ATGATATGCAC
1 ATGATATG--T
58452412 ATGATATGT
1 ATGATATGT
58452421 ATGATATG
1 ATGATATG
58452429 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:58452395 original size:20 final size:20
Alignment explanation
Indices: 58452370--58452440 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
58452360 ATTTTGATAA
58452370 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
58452390 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
58452410 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
58452430 ACATGAGATGT
1 ACATGATATGT
58452441 TCATAAATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:58452417 original size:11 final size:11
Alignment explanation
Indices: 58452381--58452435 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
58452371 CATGATATGT
58452381 ATGATATGCAC
1 ATGATATGCAC
* *
58452392 ATGACATG--T
1 ATGATATGCAC
58452401 ATGATATGCAC
1 ATGATATGCAC
*
58452412 ATGATATG--T
1 ATGATATGCAC
58452421 ATGATATGCAC
1 ATGATATGCAC
58452432 ATGA
1 ATGA
58452436 GATGTTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:58452512 original size:24 final size:24
Alignment explanation
Indices: 58452485--58452628 Score: 197
Period size: 24 Copynumber: 6.0 Consensus size: 24
58452475 GGAGGAAGTG
58452485 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
58452509 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
58452533 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
58452557 -TAAAGGGCTTATGCCCCAGTTATT
1 CAAAAGGGCTTATGCCCCAGTTA-T
*
58452581 AAAAAGGGCTT-TGCCCCAGTTA-
1 CAAAAGGGCTTATGCCCCAGTTAT
*
58452603 CTAAAAGAGGC-TAGGCCTCCAGTTAT
1 C-AAAAG-GGCTTATGCC-CCAGTTAT
58452629 ATGATAAAGC
Statistics
Matches: 109, Mismatches: 4, Indels: 12
0.87 0.03 0.10
Matches are distributed among these distances:
23 27 0.25
24 66 0.61
25 16 0.15
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.26
Consensus pattern (24 bp):
CAAAAGGGCTTATGCCCCAGTTAT
Found at i:58452609 original size:71 final size:72
Alignment explanation
Indices: 58452487--58452628 Score: 211
Period size: 71 Copynumber: 2.0 Consensus size: 72
58452477 AGGAAGTGCA
* *
58452487 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTATGCC-C
1 AAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGC-TAGGCCTC
58452550 CAGTTATT
65 CAGTTATT
58452558 AAAGGGCTTATGCCCCAGTTATTAAAAAGGGCTT-TGCCCCAGTTA-CTAAAAGAGGCTAGGCCT
1 AAAGGGCTTATGCCCCAGTTA-TAAAAAGGGCTTATGCCCCAGTTATC-AAAAGAGGCTAGGCCT
58452621 CCAGTTAT
64 CCAGTTAT
58452629 ATGATAAAGC
Statistics
Matches: 65, Mismatches: 2, Indels: 7
0.88 0.03 0.09
Matches are distributed among these distances:
70 1 0.02
71 42 0.65
72 22 0.34
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (72 bp):
AAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTCC
AGTTATT
Found at i:58452856 original size:31 final size:31
Alignment explanation
Indices: 58452821--58452884 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
58452811 CGTTTACAGT
58452821 AAAGGCTTCGGCCCAGTACTATGAAATATGA
1 AAAGGCTTCGGCCCAGTACTATGAAATATGA
** *
58452852 AAAGGCTTCGGCCCAGTGTTATGAATTATGA
1 AAAGGCTTCGGCCCAGTACTATGAAATATGA
58452883 AA
1 AA
58452885 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTACTATGAAATATGA
Found at i:58454951 original size:55 final size:53
Alignment explanation
Indices: 58454824--58455019 Score: 171
Period size: 55 Copynumber: 3.6 Consensus size: 53
58454814 CTTACCATTT
* *
58454824 CCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATG
1 CCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAACTCACCAATG
* * * * * *
58454877 CCGTGCCTTGGCATGGTCTTACTTGGGA-CCTTTGCCTTATAGTAACTTATCAATG
1 CCATGTCTTGACATGGTCTTACATGGGATCC-TTGCCTTAT-G-AACTCACCAATG
** * *
58454932 CCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTTACCAATTA
1 CCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG-AA-CTCACCAA-TG
* * ** *
58454987 CCATGCCTTGGCATCATCTTACATGGTATCCTT
1 CCATGTCTTGACATGGTCTTACATGGGATCCTT
58455020 AAACCCTAAT
Statistics
Matches: 115, Mismatches: 22, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
52 2 0.02
53 34 0.30
54 8 0.07
55 69 0.60
56 2 0.02
ACGTcount: A:0.22, C:0.27, G:0.17, T:0.35
Consensus pattern (53 bp):
CCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAACTCACCAATG
Found at i:58466449 original size:46 final size:45
Alignment explanation
Indices: 58466399--58466646 Score: 214
Period size: 45 Copynumber: 5.4 Consensus size: 45
58466389 CATTTCGTGT
* * *
58466399 GCCAGTGTAAGACCATGTTGGACACGGCATTGGCATGGAAACAAGA
1 GCCAGTGTAAGACCATGTTGGACATGGCATCGGCAT-GAATCAAGA
* * **
58466445 GCCAGTGTAAGACCATGTTGGACATGGCATCAGCGTTG-ATTGAGA
1 GCCAGTGTAAGACCATGTTGGACATGGCATCGGC-ATGAATCAAGA
* * * * **
58466490 GACAGTGCAAGACCATGTTGGGCATGGCATCGGCATTAATTGAGA
1 GCCAGTGTAAGACCATGTTGGACATGGCATCGGCATGAATCAAGA
* * *
58466535 GCCAGTGTAAAACCATGTTGGACATGGCATCGACATGAAGGCAAGA
1 GCCAGTGTAAGACCATGTTGGACATGGCATCGGCATGAA-TCAAGA
** * *
58466581 GGTAGTGTAAAACCATGTTTGGGACATGGCATCGGCCTCG--TCATATGA
1 GCCAGTGTAAGACCATG-TT-GGACATGGCATCGGCAT-GAATCA-A-GA
*
58466629 GCTAGTGTAAGACCATGT
1 GCCAGTGTAAGACCATGT
58466647 CCGGGACATG
Statistics
Matches: 165, Mismatches: 29, Indels: 15
0.79 0.14 0.07
Matches are distributed among these distances:
44 1 0.01
45 74 0.45
46 52 0.32
47 5 0.03
48 32 0.19
49 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.22
Consensus pattern (45 bp):
GCCAGTGTAAGACCATGTTGGACATGGCATCGGCATGAATCAAGA
Found at i:58466560 original size:90 final size:91
Alignment explanation
Indices: 58466401--58466565 Score: 242
Period size: 90 Copynumber: 1.8 Consensus size: 91
58466391 TTTCGTGTGC
* * *
58466401 CAGTGTAAGACCATGTTGGACACGGCATTGGCATGGAAACAAGAGCCAGTGTAAGACCATGTTGG
1 CAGTGCAAGACCATGTTGGACACGGCATCGGCATGGAAACAAGAGCCAGTGTAAAACCATGTTGG
58466466 ACATGGCATCAGCGTTGATTGAGAGA
66 ACATGGCATCAGCGTTGATTGAGAGA
* * * ***
58466492 CAGTGCAAGACCATGTTGGGCATGGCATCGGCAT-TAATTGAGAGCCAGTGTAAAACCATGTTGG
1 CAGTGCAAGACCATGTTGGACACGGCATCGGCATGGAAACAAGAGCCAGTGTAAAACCATGTTGG
58466556 ACATGGCATC
66 ACATGGCATC
58466566 GACATGAAGG
Statistics
Matches: 65, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
90 35 0.54
91 30 0.46
ACGTcount: A:0.30, C:0.19, G:0.30, T:0.22
Consensus pattern (91 bp):
CAGTGCAAGACCATGTTGGACACGGCATCGGCATGGAAACAAGAGCCAGTGTAAAACCATGTTGG
ACATGGCATCAGCGTTGATTGAGAGA
Found at i:58466566 original size:45 final size:45
Alignment explanation
Indices: 58466354--58466616 Score: 217
Period size: 45 Copynumber: 5.7 Consensus size: 45
58466344 CATGTGTGTT
* * * * *
58466354 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCA-CATTTCGTGTGCC
1 AGTGTAAGACCATGT-T-GGACATGGCATC-GGCATGAATT-GAGAGCC
* * ***
58466402 AGTGTAAGACCATGTTGGACACGGCATTGGCATGGAAACAAGAGCC
1 AGTGTAAGACCATGTTGGACATGGCATCGGCAT-GAATTGAGAGCC
* * *
58466448 AGTGTAAGACCATGTTGGACATGGCATCAGCGTTG-ATTGAGAGAC
1 AGTGTAAGACCATGTTGGACATGGCATCGGC-ATGAATTGAGAGCC
* * *
58466493 AGTGCAAGACCATGTTGGGCATGGCATCGGCATTAATTGAGAGCC
1 AGTGTAAGACCATGTTGGACATGGCATCGGCATGAATTGAGAGCC
* * * **
58466538 AGTGTAAAACCATGTTGGACATGGCATCGACATGAA-GGCAAGAGGT
1 AGTGTAAGACCATGTTGGACATGGCATCGGCATGAATTG--AGAGCC
*
58466584 AGTGTAAAACCATGTTTGGGACATGGCATCGGC
1 AGTGTAAGACCATG-TT-GGACATGGCATCGGC
58466617 CTCGTCATAT
Statistics
Matches: 174, Mismatches: 33, Indels: 16
0.78 0.15 0.07
Matches are distributed among these distances:
44 2 0.01
45 77 0.44
46 61 0.35
47 5 0.03
48 29 0.17
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.22
Consensus pattern (45 bp):
AGTGTAAGACCATGTTGGACATGGCATCGGCATGAATTGAGAGCC
Found at i:58466635 original size:48 final size:47
Alignment explanation
Indices: 58466532--58466658 Score: 125
Period size: 48 Copynumber: 2.7 Consensus size: 47
58466522 GCATTAATTG
*
58466532 AGAGCCAGTGTAAAACCATG-TT-GGACATGGCATCGACATGAAGGCA
1 AGAGCTAGTGTAAAACCATGTTTGGGACATGGCATCGACAT-AAGGCA
* * * * *
58466578 AGAGGTAGTGTAAAACCATGTTTGGGACATGGCATCGGCCT-CGTCA
1 AGAGCTAGTGTAAAACCATGTTTGGGACATGGCATCGACATAAGGCA
* **
58466624 TATGAGCTAGTGTAAGACCATGTCCGGGACATGGC
1 -A-GAGCTAGTGTAAAACCATGTTTGGGACATGGC
58466659 GTCAGCATCT
Statistics
Matches: 67, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
46 21 0.31
47 3 0.04
48 43 0.64
ACGTcount: A:0.29, C:0.20, G:0.30, T:0.21
Consensus pattern (47 bp):
AGAGCTAGTGTAAAACCATGTTTGGGACATGGCATCGACATAAGGCA
Found at i:58468697 original size:30 final size:31
Alignment explanation
Indices: 58468663--58468725 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
58468653 ATTTATTTTA
58468663 TTGTTAA-TTTTCTTATTATTTTAAAGGTAT
1 TTGTTAATTTTTCTTATTATTTTAAAGGTAT
* *
58468693 TTGTTAATTTTTTTTATTATTTTAGAGGTAT
1 TTGTTAATTTTTCTTATTATTTTAAAGGTAT
58468724 TT
1 TT
58468726 TCTTGTTAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 7 0.23
31 23 0.77
ACGTcount: A:0.24, C:0.02, G:0.11, T:0.63
Consensus pattern (31 bp):
TTGTTAATTTTTCTTATTATTTTAAAGGTAT
Found at i:58482441 original size:20 final size:19
Alignment explanation
Indices: 58482402--58482441 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
58482392 AAGTAGAGAG
*
58482402 AATTTATTTTCTAAGTATA
1 AATTTATTTTCTAAGAATA
*
58482421 AATTCTATTTTCTAGGAATA
1 AATT-TATTTTCTAAGAATA
58482441 A
1 A
58482442 CAATTCTATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.38, C:0.07, G:0.07, T:0.47
Consensus pattern (19 bp):
AATTTATTTTCTAAGAATA
Found at i:58483511 original size:21 final size:20
Alignment explanation
Indices: 58483487--58483526 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
58483477 TATGAGCTTT
58483487 AATGATTGATGATAGATTATG
1 AATGATTGATGATAG-TTATG
*
58483508 AATGTTTGATGATAGTTAT
1 AATGATTGATGATAGTTAT
58483527 ACAAGTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.35, C:0.00, G:0.23, T:0.42
Consensus pattern (20 bp):
AATGATTGATGATAGTTATG
Found at i:58483534 original size:20 final size:21
Alignment explanation
Indices: 58483492--58483534 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
58483482 GCTTTAATGA
*
58483492 TTGATGATAGATTATGAATGT
1 TTGATGATAGATTATGAAAGT
58483513 TTGATGATAG-TTAT-ACAAGT
1 TTGATGATAGATTATGA-AAGT
58483533 TT
1 TT
58483535 TATTAAGTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 1 0.05
20 9 0.45
21 10 0.50
ACGTcount: A:0.33, C:0.02, G:0.21, T:0.44
Consensus pattern (21 bp):
TTGATGATAGATTATGAAAGT
Found at i:58496421 original size:43 final size:43
Alignment explanation
Indices: 58496355--58496439 Score: 111
Period size: 43 Copynumber: 2.0 Consensus size: 43
58496345 AAGTCGTACA
*
58496355 ATGCCAATGTCCCAGACGTGGTCTTACAT-GTAATCACATATTG
1 ATGCCAATGTCCCAGACGTGGTCTTAC-TCGTAAACACATATTG
* *
58496398 ATGCCACTGTCCTAGACAG-GGTCTTACTCGTAAACACATATT
1 ATGCCAATGTCCCAGAC-GTGGTCTTACTCGTAAACACATATT
58496440 AGAATCACAT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
42 1 0.03
43 35 0.95
44 1 0.03
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACGTGGTCTTACTCGTAAACACATATTG
Found at i:58502688 original size:39 final size:39
Alignment explanation
Indices: 58502549--58502712 Score: 197
Period size: 39 Copynumber: 4.2 Consensus size: 39
58502539 AGTGATGAAG
* *
58502549 TATATCCGAACTTAAGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAT
* *
58502588 TATATCCAGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAT
* *
58502627 TATAACCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAT
* * * * * *
58502666 TATGTCCGGGC-TAAAGTCCCGCAGGCTTCGAGCTGGTAT
1 TATATCCGGACTTAAGGT-CCGCAGGCTACGTGCTGGAAT
58502705 TATA-CCGG
1 TATATCCGG
58502713 GTTTAAATTC
Statistics
Matches: 109, Mismatches: 15, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
38 9 0.08
39 100 0.92
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (39 bp):
TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAT
Found at i:58502727 original size:78 final size:78
Alignment explanation
Indices: 58502549--58502731 Score: 183
Period size: 78 Copynumber: 2.3 Consensus size: 78
58502539 AGTGATGAAG
* * * * * *
58502549 TATATCCGAACTTAAGGTCCGCAGGCTATGTGCTGGAATTATATCCAGACTTAAGGTCCGCAGGC
1 TATAACCGGACTTAAAGTCCGCAGGCTACGTGCTGGAAATATATCCAGACTTAAAGTCCGCAGGC
*
58502614 TATGTGCTGGAAT
66 TATGAGCTGGAAT
* * * *
58502627 TATAACCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATGTCCGGGC-TAAAGTCCCGCAGG
1 TATAACCGGACTTAAAGTCCGCAGGCTACGTGCTGGAAATATATCCAGACTTAAAGT-CCGCAGG
*
58502691 CT-TCGAGCTGGTAT
65 CTAT-GAGCTGGAAT
** *
58502705 TAT-ACCGGGTTTAAATTCCCGCAGGCT
1 TATAACCGGACTTAAAGT-CCGCAGGCT
58502732 TGTGCTAGTA
Statistics
Matches: 88, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
77 16 0.18
78 72 0.82
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (78 bp):
TATAACCGGACTTAAAGTCCGCAGGCTACGTGCTGGAAATATATCCAGACTTAAAGTCCGCAGGC
TATGAGCTGGAAT
Found at i:58505699 original size:26 final size:27
Alignment explanation
Indices: 58505670--58505723 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
58505660 TCACACAAGT
58505670 TAGTCATTT-ACACACGAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
* *
58505696 TAGTCATTTAACACCCTAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
58505723 T
1 T
58505724 GGTAATTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 9 0.36
27 16 0.64
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.22
Consensus pattern (27 bp):
TAGTCATTTAACACACGAGGGGCAAAA
Found at i:58505755 original size:27 final size:27
Alignment explanation
Indices: 58505725--58505896 Score: 168
Period size: 27 Copynumber: 6.4 Consensus size: 27
58505715 GGGCAAAATG
* *
58505725 GTAATTTTACCCCACAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
* **
58505752 GTAATTCTACCCTAC-AGAGGAATTTTG
1 GTAATTCTACCCTACAAG-GGTATTTCA
* *
58505779 GTAATTCTATCTTACAAGGGTATTTC-
1 GTAATTCTACCCTACAAGGGTATTTCA
*
58505805 GATAATTCTACCCTACAGGGGTATTTCA
1 G-TAATTCTACCCTACAAGGGTATTTCA
* * * *
58505833 ATAATTCTACCCTACAGGGGTATCTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
* * * *
58505860 GTAATTCTACCTTACAGGGGGATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
58505887 GTAATTCTAC
1 GTAATTCTAC
58505897 AACTTATCCA
Statistics
Matches: 122, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
26 3 0.02
27 117 0.96
28 2 0.02
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.34
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGTATTTCA
Found at i:58505781 original size:54 final size:53
Alignment explanation
Indices: 58505724--58505896 Score: 202
Period size: 54 Copynumber: 3.2 Consensus size: 53
58505714 GGGGCAAAAT
* * * *
58505724 GGTAATTTTACCCCACAAGGGTATTTCAGTAATTCTACCCTACAGAGGAATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC-GTAATTCTACCCTACAGGGGAATTTC
* * *
58505778 GGTAATTCTATCTTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCG-TAATTCTACCCTACAGGGGAATTTC
** * * * *
58505832 AATAATTCTACCCTACAGGGGTATCTCGGTAATTCTACCTTACAGGGGGATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC-GTAATTCTACCCTACAGGGGAATTTC
58505886 GGTAATTCTAC
1 GGTAATTCTAC
58505897 AACTTATCCA
Statistics
Matches: 100, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
53 1 0.01
54 98 0.98
55 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.34
Consensus pattern (53 bp):
GGTAATTCTACCCTACAAGGGTATTTCGTAATTCTACCCTACAGGGGAATTTC
Found at i:58505863 original size:81 final size:81
Alignment explanation
Indices: 58505726--58505896 Score: 234
Period size: 81 Copynumber: 2.1 Consensus size: 81
58505716 GGCAAAATGG
* * * * *
58505726 TAATTTTACCCCACAAGGGTATTTCAGTAATTCTACCCTACAGAGGAATTTTGGTAATTCTATCT
1 TAATTCTACCCCACAAGGGTATTTCAATAATTCTACCCTACAGAGGAATCTCGGTAATTCTACCT
*
58505791 TACAAGGGTATTTCGA
66 TACAAGGGGATTTCGA
* * * *
58505807 TAATTCTACCCTACAGGGGTATTTCAATAATTCTACCCTACAGGGGTATCTCGGTAATTCTACCT
1 TAATTCTACCCCACAAGGGTATTTCAATAATTCTACCCTACAGAGGAATCTCGGTAATTCTACCT
* *
58505872 TACAGGGGGATTTCGG
66 TACAAGGGGATTTCGA
58505888 TAATTCTAC
1 TAATTCTAC
58505897 AACTTATCCA
Statistics
Matches: 78, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
81 78 1.00
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (81 bp):
TAATTCTACCCCACAAGGGTATTTCAATAATTCTACCCTACAGAGGAATCTCGGTAATTCTACCT
TACAAGGGGATTTCGA
Found at i:58510533 original size:82 final size:81
Alignment explanation
Indices: 58510417--58510572 Score: 206
Period size: 82 Copynumber: 1.9 Consensus size: 81
58510407 AAATTGTACA
* * * *
58510417 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
58510481 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
58510498 GCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGTGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
58510563 TGCGAGTTGA
65 TGCGAATTGA
58510573 TTGTATAGCA
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
81 18 0.28
82 46 0.72
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:58510556 original size:55 final size:52
Alignment explanation
Indices: 58510416--58510569 Score: 173
Period size: 55 Copynumber: 2.9 Consensus size: 52
58510406 TAAATTGTAC
* * *
58510416 AGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG
1 AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCG-AGTGAATATG
* * * *
58510469 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTCTAACTATG
1 A-GCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAGT-GAA-TATG
* * *
58510524 TAGCACTAAGTGTGTGATTTGATTACGTGGCACTAAGTGTGCGAGT
1 -AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAGT
58510570 TGATTGTATA
Statistics
Matches: 84, Mismatches: 13, Indels: 6
0.82 0.13 0.06
Matches are distributed among these distances:
53 3 0.04
54 38 0.45
55 42 0.50
56 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (52 bp):
AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAGTGAATATG
Found at i:58510574 original size:27 final size:27
Alignment explanation
Indices: 58510417--58510572 Score: 154
Period size: 27 Copynumber: 5.7 Consensus size: 27
58510407 AAATTGTACA
*
58510417 GCACTAAGTGTGCG-ATTCGACTATGTT
1 GCACTAAGTGTGCGAATT-GACTATGTG
* *
58510444 GCACTAAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCGAATTGACTATG-TG
* *
58510471 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGTG
* * *
58510498 GCACTAAGTGTGCGAGTCTAACTATGTA
1 GCACTAAGTGTGCGAAT-TGACTATGTG
* * * *
58510526 GCACTAAGTGTGTGATTTGATTACGTG
1 GCACTAAGTGTGCGAATTGACTATGTG
*
58510553 GCACTAAGTGTGCGAGTTGA
1 GCACTAAGTGTGCGAATTGA
58510573 TTGTATAGCA
Statistics
Matches: 106, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
27 82 0.77
28 24 0.23
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGTG
Found at i:58510583 original size:27 final size:27
Alignment explanation
Indices: 58510409--58510593 Score: 92
Period size: 27 Copynumber: 6.8 Consensus size: 27
58510399 GCGGGATTAA
*
58510409 ATTGTACAGCACTAAGTGTGCG-ATTCG
1 ATTGTATAGCACTAAGTGTGCGAATT-G
*
58510436 ACTATGT-T-GCACTAAGTGTGCGAAATG
1 A-T-TGTATAGCACTAAGTGTGCGAATTG
58510463 AATATG-AT-GCACTAAGTGTGCGAATTG
1 -AT-TGTATAGCACTAAGTGTGCGAATTG
*** *** * *
58510490 ACCATGCGGCACTAAGTGTGCGAGTCTA
1 ATTGTATAGCACTAAGTGTGCGAAT-TG
* * * * *
58510518 ACTATGTAGCACTAAGTGTGTGATTTG
1 ATTGTATAGCACTAAGTGTGCGAATTG
*** * *
58510545 ATTACGTGGCACTAAGTGTGCGAGTTG
1 ATTGTATAGCACTAAGTGTGCGAATTG
*
58510572 ATTGTATAGCACTGAGTGTGCG
1 ATTGTATAGCACTAAGTGTGCG
58510594 GGCTCAATAT
Statistics
Matches: 124, Mismatches: 26, Indels: 16
0.75 0.16 0.10
Matches are distributed among these distances:
26 1 0.01
27 95 0.77
28 25 0.20
29 3 0.02
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
ATTGTATAGCACTAAGTGTGCGAATTG
Found at i:58510584 original size:82 final size:81
Alignment explanation
Indices: 58510409--58510593 Score: 201
Period size: 82 Copynumber: 2.3 Consensus size: 81
58510399 GCGGGATTAA
* * * *
58510409 ATTGTACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCA
1 ATTGTACAGCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCA
58510474 CTAAGTGTGCGAATTG
66 CTAAGTGTGCGAATTG
*** * * * ** *
58510490 ACCATGCGGCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGTGATTTGATTACG-TGG
1 ATTGTACAGCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-G
*
58510554 CACTAAGTGTGCGAGTTG
64 CACTAAGTGTGCGAATTG
* *
58510572 ATTGTATAGCACTGAGTGTGCG
1 ATTGTACAGCACTAAGTGTGCG
58510594 GGCTCAATAT
Statistics
Matches: 81, Mismatches: 21, Indels: 3
0.77 0.20 0.03
Matches are distributed among these distances:
81 21 0.26
82 60 0.74
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (81 bp):
ATTGTACAGCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCA
CTAAGTGTGCGAATTG
Found at i:58518570 original size:82 final size:81
Alignment explanation
Indices: 58518454--58518609 Score: 206
Period size: 82 Copynumber: 1.9 Consensus size: 81
58518444 AAATTGTACA
* * * *
58518454 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
58518518 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
58518535 GCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGTGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
58518600 TGCGAGTTGA
65 TGCGAATTGA
58518610 TTGTATAGCT
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
81 18 0.28
82 46 0.72
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:58518593 original size:55 final size:52
Alignment explanation
Indices: 58518453--58518606 Score: 173
Period size: 55 Copynumber: 2.9 Consensus size: 52
58518443 TAAATTGTAC
* * *
58518453 AGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG
1 AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCG-AGTGAATATG
* * * *
58518506 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTCTAACTATG
1 A-GCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAGT-GAA-TATG
* * *
58518561 TAGCACTAAGTGTGTGATTTGATTACGTGGCACTAAGTGTGCGAGT
1 -AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAGT
58518607 TGATTGTATA
Statistics
Matches: 84, Mismatches: 13, Indels: 6
0.82 0.13 0.06
Matches are distributed among these distances:
53 3 0.04
54 38 0.45
55 42 0.50
56 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (52 bp):
AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAGTGAATATG
Found at i:58518611 original size:27 final size:27
Alignment explanation
Indices: 58518454--58518609 Score: 154
Period size: 27 Copynumber: 5.7 Consensus size: 27
58518444 AAATTGTACA
*
58518454 GCACTAAGTGTGCG-ATTCGACTATGTT
1 GCACTAAGTGTGCGAATT-GACTATGTG
* *
58518481 GCACTAAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCGAATTGACTATG-TG
* *
58518508 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGTG
* * *
58518535 GCACTAAGTGTGCGAGTCTAACTATGTA
1 GCACTAAGTGTGCGAAT-TGACTATGTG
* * * *
58518563 GCACTAAGTGTGTGATTTGATTACGTG
1 GCACTAAGTGTGCGAATTGACTATGTG
*
58518590 GCACTAAGTGTGCGAGTTGA
1 GCACTAAGTGTGCGAATTGA
58518610 TTGTATAGCT
Statistics
Matches: 106, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
27 82 0.77
28 24 0.23
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGTG
Found at i:58523356 original size:26 final size:27
Alignment explanation
Indices: 58523327--58523380 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
58523317 TCACACAAGT
*
58523327 TAGTCATTT-ACGCACGAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
* *
58523353 TAGTCATTTAACACCCTAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
58523380 T
1 T
58523381 GGTAATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.22
Consensus pattern (27 bp):
TAGTCATTTAACACACGAGGGGCAAAA
Found at i:58523411 original size:27 final size:27
Alignment explanation
Indices: 58523381--58523578 Score: 236
Period size: 27 Copynumber: 7.4 Consensus size: 27
58523371 GGGGCAAAAT
* * * *
58523381 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
58523408 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
58523435 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
58523462 GATAATTCTATCCAACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
58523489 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
** * * *
58523516 AATAATTTTATCTTAC-GGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
58523542 GGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
58523569 GGTAATTCTA
1 GGTAATTCTA
58523579 TAACTTATCC
Statistics
Matches: 143, Mismatches: 27, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
26 21 0.15
27 122 0.85
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.37
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:58540988 original size:39 final size:39
Alignment explanation
Indices: 58540934--58541049 Score: 187
Period size: 39 Copynumber: 3.0 Consensus size: 39
58540924 AGTGATGAAG
* *
58540934 TATATCCGGACTTAAGGTCCGTAGGCTATGTGCTGGAAT
1 TATATCTGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
*
58540973 TATATCTGGACTTAAGGTCCGCAAGCTATGTGCTGGAAT
1 TATATCTGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
* *
58541012 TATAACTGGACTTAAGGTCCGCAGGCTACGTGCTGGAA
1 TATATCTGGACTTAAGGTCCGCAGGCTATGTGCTGGAA
58541050 ATATGTCCGG
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 71 1.00
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (39 bp):
TATATCTGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
Found at i:58541086 original size:78 final size:78
Alignment explanation
Indices: 58540941--58541093 Score: 184
Period size: 78 Copynumber: 2.0 Consensus size: 78
58540931 AAGTATATCC
* * * * * *
58540941 GGACTTAAGGTCCGTAGGCTATGTGCTGGAATTATATCTGGACTTAAGGTCCGCAAGCTATGTGC
1 GGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGTCCGCAAGCTATGAGC
58541006 TGGAATTATAACT
66 TGGAATTATAACT
* * *
58541019 GGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATGTCCGGGC-TAAAGTCCCGCAGGCT-TCGA
1 GGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGT-CCGCAAGCTAT-GA
*
58541082 GCTGGTATTATA
64 GCTGGAATTATA
58541094 CCGGGTTTAA
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
77 6 0.10
78 57 0.90
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (78 bp):
GGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGTCCGCAAGCTATGAGC
TGGAATTATAACT
Found at i:58549518 original size:38 final size:38
Alignment explanation
Indices: 58549347--58549506 Score: 223
Period size: 38 Copynumber: 4.2 Consensus size: 38
58549337 GAATCCAGTC
* * * *
58549347 ACCAGCACAAAACCTGCGGGACTTTAAGCTCGAATAT-AT
1 ACCAGCACTAAGCCTGCGGGA-TTTAA-CCCGGATATAAT
*
58549386 ACCAGTACTAAGCCTGCGGGATTTAACCCGGATATAAT
1 ACCAGCACTAAGCCTGCGGGATTTAACCCGGATATAAT
*
58549424 ACCAGCACTAAGCCTGCAGGATTTAACCCGGATATAAT
1 ACCAGCACTAAGCCTGCGGGATTTAACCCGGATATAAT
* *
58549462 ACCAGCACGAAGCCTGCGGGATTTAACCCGCATATAAT
1 ACCAGCACTAAGCCTGCGGGATTTAACCCGGATATAAT
58549500 ACCAGCA
1 ACCAGCA
58549507 TGAAGCTTGC
Statistics
Matches: 110, Mismatches: 10, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
37 7 0.06
38 85 0.77
39 18 0.16
ACGTcount: A:0.34, C:0.27, G:0.19, T:0.20
Consensus pattern (38 bp):
ACCAGCACTAAGCCTGCGGGATTTAACCCGGATATAAT
Found at i:58557536 original size:38 final size:38
Alignment explanation
Indices: 58557445--58557518 Score: 121
Period size: 38 Copynumber: 1.9 Consensus size: 38
58557435 TTATAATTGT
* * *
58557445 AGCACTAAGCCTGTGGGATTTAACCCGGATATAATACC
1 AGCACAAAGCCTGCGGGATTTAACCCGCATATAATACC
58557483 AGCACAAAGCCTGCGGGATTTAACCCGCATATAATA
1 AGCACAAAGCCTGCGGGATTTAACCCGCATATAATA
58557519 TCGGCATGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.22
Consensus pattern (38 bp):
AGCACAAAGCCTGCGGGATTTAACCCGCATATAATACC
Found at i:58560702 original size:12 final size:12
Alignment explanation
Indices: 58560685--58560709 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
58560675 AGCTCGAACA
58560685 CCTCTACGGCCT
1 CCTCTACGGCCT
58560697 CCTCTACGGCCT
1 CCTCTACGGCCT
58560709 C
1 C
58560710 TTGTACCCCT
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:0.52, G:0.16, T:0.24
Consensus pattern (12 bp):
CCTCTACGGCCT
Found at i:58564951 original size:40 final size:40
Alignment explanation
Indices: 58564881--58565058 Score: 236
Period size: 40 Copynumber: 4.5 Consensus size: 40
58564871 AAACCAAGTA
* * *
58564881 CCTTCAGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
58564920 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
58564960 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * * *
58565000 CCTTCGGGGCTTTGCCCAGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
58565040 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
58565059 TTATCATCCG
Statistics
Matches: 123, Mismatches: 13, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
39 14 0.11
40 109 0.89
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:58569518 original size:47 final size:47
Alignment explanation
Indices: 58569464--58569892 Score: 642
Period size: 47 Copynumber: 9.1 Consensus size: 47
58569454 TTGGGATTTT
** * *
58569464 ATGTGATGAATGTGAATGTGTATATATGTGATAAGGCCGAATGACCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
58569511 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCAAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
58569558 ATGTGGTGAATATGAACATGCATATATGTGATAAGGCCGAATGGCCT
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
58569605 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
58569652 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
58569699 ATGTGGTGAATATGAACATGCATATATGTGATAAGGCTGAATGGCCT
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
58569746 ATGTGGTGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
58569793 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
58569840 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGTCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
58569887 ATGTGA
1 ATGTGA
58569893 AATATATATA
Statistics
Matches: 344, Mismatches: 38, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 344 1.00
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:58569686 original size:141 final size:141
Alignment explanation
Indices: 58569463--58569892 Score: 761
Period size: 141 Copynumber: 3.0 Consensus size: 141
58569453 TTTGGGATTT
** * *
58569463 TATGTGATGAATGTGAATGTGTATATATGTGATAAGGCCGAATGACCAATGTGATGAATGTGAGC
1 TATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGC
*
58569528 ATGCATATGTGTGATAAGGCCAAATGGCCAATGTGGTGAATATGAACATGCATATATGTGATAAG
66 ATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGATAAG
58569593 GCCGAATGGCC
131 GCCGAATGGCC
58569604 TATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGC
1 TATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGC
58569669 ATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGATAAG
66 ATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGATAAG
*
58569734 GCTGAATGGCC
131 GCCGAATGGCC
*
58569745 TATGTGGTGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGC
1 TATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGC
* *
58569810 ATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGGTAAA
66 ATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGATAAG
*
58569875 GCCGAATGGTC
131 GCCGAATGGCC
*
58569886 AATGTGA
1 TATGTGA
58569893 AATATATATA
Statistics
Matches: 276, Mismatches: 13, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
141 276 1.00
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.27
Consensus pattern (141 bp):
TATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGC
ATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGATAAG
GCCGAATGGCC
Found at i:58569707 original size:25 final size:25
Alignment explanation
Indices: 58569632--58569707 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
58569622 ATGCATATAT
58569632 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
58569657 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
58569679 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
58569704 GTGA
1 GTGA
58569708 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:58569848 original size:25 final size:25
Alignment explanation
Indices: 58569773--58569848 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
58569763 ATGCATATAT
58569773 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
58569798 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
58569820 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
58569845 GTGA
1 GTGA
58569849 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:58570279 original size:37 final size:37
Alignment explanation
Indices: 58570097--58570278 Score: 274
Period size: 37 Copynumber: 4.9 Consensus size: 37
58570087 GGAAATATAT
*
58570097 TCCGGGTGAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
58570134 TCCGGGTAAGACCCGATGACTACGTGTGGAGAGTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
58570171 CCCGGGTAAGACCCGATGACTACGTGTGGAGAGTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
58570208 TCCGGGTAAGACCCGATGACTACATGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * * *
58570245 TCTGGGTAAGACCCGATAACTTCATGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
58570279 TCGTCTGAGC
Statistics
Matches: 135, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 135 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.24
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:58574132 original size:17 final size:18
Alignment explanation
Indices: 58574106--58574140 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
58574096 CAATTTGGGC
58574106 CGTGTGGG-CCACACGGG
1 CGTGTGGGCCCACACGGG
*
58574123 CGTGTTGGCCCACACGGG
1 CGTGTGGGCCCACACGGG
58574141 TAGGCCACAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.11, C:0.31, G:0.43, T:0.14
Consensus pattern (18 bp):
CGTGTGGGCCCACACGGG
Found at i:58574693 original size:46 final size:46
Alignment explanation
Indices: 58574625--58574716 Score: 175
Period size: 46 Copynumber: 2.0 Consensus size: 46
58574615 AATTCTGAGA
*
58574625 TTGTATTTGAATGGGCTGAAGCCAAATTAATTCTGTAAGGAGCTCG
1 TTGTATTTGAATGGGCTAAAGCCAAATTAATTCTGTAAGGAGCTCG
58574671 TTGTATTTGAATGGGCTAAAGCCAAATTAATTCTGTAAGGAGCTCG
1 TTGTATTTGAATGGGCTAAAGCCAAATTAATTCTGTAAGGAGCTCG
58574717 GGCCTGAACT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.29, C:0.13, G:0.25, T:0.33
Consensus pattern (46 bp):
TTGTATTTGAATGGGCTAAAGCCAAATTAATTCTGTAAGGAGCTCG
Found at i:58577543 original size:28 final size:28
Alignment explanation
Indices: 58577480--58577630 Score: 214
Period size: 28 Copynumber: 5.4 Consensus size: 28
58577470 ATATTAAGTC
*
58577480 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
58577507 TGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
58577535 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
58577563 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
58577591 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
58577620 CGCACACTTAG
1 CGCACACTTAG
58577631 CGCCAATCTC
Statistics
Matches: 113, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 21 0.19
28 76 0.67
29 16 0.14
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:58601439 original size:43 final size:41
Alignment explanation
Indices: 58601384--58601470 Score: 104
Period size: 43 Copynumber: 2.1 Consensus size: 41
58601374 ATATCGTACA
** *
58601384 ATGCCAACGTCCCAAACGTGGTCTTACATGTAATCACATACCG
1 ATGCCAACGTCCCAAACAAGGTCTTACATG-AATCAAATA-CG
*
58601427 ATGCC-ACTGTCCCAGACAAGGTCTTACATGAATCAAATACG
1 ATGCCAAC-GTCCCAAACAAGGTCTTACATGAATCAAATACG
58601468 ATG
1 ATG
58601471 ACGCCAGACA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
41 5 0.13
42 10 0.26
43 24 0.62
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (41 bp):
ATGCCAACGTCCCAAACAAGGTCTTACATGAATCAAATACG
Found at i:58602500 original size:20 final size:20
Alignment explanation
Indices: 58602475--58602516 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
58602465 ATAAGACAAG
58602475 TTCAATTAAGCACTTTCATA
1 TTCAATTAAGCACTTTCATA
58602495 TTCAATTAAGCACTTTCATA
1 TTCAATTAAGCACTTTCATA
58602515 TT
1 TT
58602517 TAACTATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.33, C:0.19, G:0.05, T:0.43
Consensus pattern (20 bp):
TTCAATTAAGCACTTTCATA
Found at i:58607919 original size:40 final size:39
Alignment explanation
Indices: 58607828--58608049 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
58607818 TCCTCGTTCA
* * * **
58607828 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTTTCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
58607867 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
58607906 GAATGCCTTCGGGACTTAACCCGGATTTAGT-ACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
58607945 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
58607985 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
58608026 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
58608050 CAGCATTCAA
Statistics
Matches: 154, Mismatches: 22, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
39 69 0.45
40 77 0.50
41 8 0.05
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.27
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:58607929 original size:79 final size:77
Alignment explanation
Indices: 58607826--58608049 Score: 252
Period size: 79 Copynumber: 2.8 Consensus size: 77
58607816 GCTCCTCGTT
* * * *
58607826 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTTTCACAATGCCTTCGGGACTTAACCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTTGCACAAAGCCTTCGGGACTTAACCCGGA
58607891 TTTAATAACTCGCA
65 TTT-ATAACTCGCA
* * * *
58607905 CGAATGCCTTCGGGACTTAACCCGGATTTAGTACTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTTGCACAAA-GCCTTCGGGACTTAACCCGG-
* *
58607970 ATTTGTATCTCGCA
64 ATTTATAACTCGCA
* * * *
58607984 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-ACTT-GCACAAAGCCTTCGGGACTTAACCCG
58608048 GA
63 GA
58608050 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
78 11 0.09
79 79 0.65
80 25 0.20
81 7 0.06
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (77 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTTGCACAAAGCCTTCGGGACTTAACCCGGAT
TTATAACTCGCA
Found at i:58608058 original size:41 final size:41
Alignment explanation
Indices: 58607981--58608058 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
58607971 TTTGTATCTC
* * *
58607981 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
58608022 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
58608059 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:58615890 original size:39 final size:40
Alignment explanation
Indices: 58615765--58615986 Score: 233
Period size: 40 Copynumber: 5.7 Consensus size: 40
58615755 GCTCCTCGTT
* * *
58615765 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACT--CA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
58615803 C-AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
58615842 CGAATGCCTTCGGGACTTAACCCGGATTTAGT-ACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
58615881 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
58615921 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
58615962 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
58615987 CAGCATTCAA
Statistics
Matches: 156, Mismatches: 19, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
37 30 0.19
38 1 0.01
39 39 0.25
40 75 0.48
41 11 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:58615920 original size:79 final size:79
Alignment explanation
Indices: 58615765--58615986 Score: 247
Period size: 79 Copynumber: 2.8 Consensus size: 79
58615755 GCTCCTCGTT
* * *
58615765 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACT-CACAATGCCTTCGGGACTTAACCCGG-A
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTGCACAAAGCCTTCGGGACTTAACCCGGAA
58615828 TTTAATAACTCGCA
66 TTTAATAACTCGCA
* * *
58615842 CGAATGCCTTCGGGACTTAACCCGGATTTAGT-ACTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACT-GCACAAA-GCCTTCGGGACTTAACCCGG
* *
58615906 AATTT-GTATCTCGCA
64 AATTTAATAACTCGCA
* * * * *
58615921 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-T-GCACAAAGCCTTCGGGACTTAACCCG
58615985 GA
63 GA
58615987 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
76 3 0.02
77 28 0.23
78 8 0.07
79 50 0.41
80 25 0.20
81 8 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTAATAACTCGCA
Found at i:58615995 original size:41 final size:41
Alignment explanation
Indices: 58615918--58615995 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
58615908 TTTGTATCTC
* * *
58615918 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
58615959 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
58615996 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:58624651 original size:40 final size:40
Alignment explanation
Indices: 58624589--58624833 Score: 354
Period size: 40 Copynumber: 6.2 Consensus size: 40
58624579 AAACCAAGTA
* * *
58624589 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
58624628 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
58624668 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
58624708 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
58624748 CCTTCGGGACTTAGCCCGGGAT-TAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCC-GGATATAGTAACTCGCACAAATG
* * *
58624788 CCTTCAGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
58624828 CCTTCG
1 CCTTCG
58624834 TTATCATCCG
Statistics
Matches: 192, Mismatches: 9, Indels: 9
0.91 0.04 0.04
Matches are distributed among these distances:
39 16 0.08
40 172 0.90
41 4 0.02
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:58632193 original size:35 final size:35
Alignment explanation
Indices: 58632154--58632249 Score: 113
Period size: 35 Copynumber: 2.7 Consensus size: 35
58632144 CCTTTGGTGC
* *
58632154 GACACCGCGTAAACAATATATAGGTCATTC-AAGGT
1 GACACCGTGTAAACGATATATAGGTCATTCGAA-GT
* * *
58632189 GACACCGTGTAAATGGTATATAGGTCCTTCGAAGT
1 GACACCGTGTAAACGATATATAGGTCATTCGAAGT
* *
58632224 GACACCATGAAAACGATATATAGGTC
1 GACACCGTGTAAACGATATATAGGTC
58632250 CTATGGGGTG
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
35 49 0.96
36 2 0.04
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.24
Consensus pattern (35 bp):
GACACCGTGTAAACGATATATAGGTCATTCGAAGT
Found at i:58632261 original size:35 final size:35
Alignment explanation
Indices: 58632164--58632264 Score: 105
Period size: 35 Copynumber: 2.9 Consensus size: 35
58632154 GACACCGCGT
* * * * *
58632164 AAACAATATATAGGTCATTCAAGGTGACACCGTGT
1 AAACGATATATAGGTCCTTCGAGGTGACACCATGA
* * *
58632199 AAATGGTATATAGGTCCTTCGAAGTGACACCATGA
1 AAACGATATATAGGTCCTTCGAGGTGACACCATGA
*
58632234 AAACGATATATAGGTCCTAT-GGGGTGACACC
1 AAACGATATATAGGTCCT-TCGAGGTGACACC
58632265 TCAATAGGGG
Statistics
Matches: 53, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
35 52 0.98
36 1 0.02
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.25
Consensus pattern (35 bp):
AAACGATATATAGGTCCTTCGAGGTGACACCATGA
Found at i:58637740 original size:27 final size:27
Alignment explanation
Indices: 58637710--58637765 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
58637700 GAGCATAACC
* *
58637710 GTCATTCTACCATACAGGGGTATTACG
1 GTCATTCTACCATACAAGGGCATTACG
* * *
58637737 GTCATTTTACCCTATAAGGGCATTACG
1 GTCATTCTACCATACAAGGGCATTACG
58637764 GT
1 GT
58637766 TATTTTCCAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.32
Consensus pattern (27 bp):
GTCATTCTACCATACAAGGGCATTACG
Found at i:58638441 original size:48 final size:48
Alignment explanation
Indices: 58638331--58638442 Score: 143
Period size: 48 Copynumber: 2.3 Consensus size: 48
58638321 AAAGGGTGTG
* * * **
58638331 ATTACACTCCTTTTACGGCTTTTCGATAGTAATGGTTTACGGTGTACA
1 ATTACACTCCTTTTTCGGCATTTCGAAAGTAATGGTTTACAATGTACA
* *
58638379 ATTACACTCCTTTTTTGGCATTTCGAAAGTAATGGTTTCCAATGTACA
1 ATTACACTCCTTTTTCGGCATTTCGAAAGTAATGGTTTACAATGTACA
* *
58638427 GTTACACACCTTTTTC
1 ATTACACTCCTTTTTC
58638443 TGCAGAATCA
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 54 1.00
ACGTcount: A:0.24, C:0.21, G:0.15, T:0.40
Consensus pattern (48 bp):
ATTACACTCCTTTTTCGGCATTTCGAAAGTAATGGTTTACAATGTACA
Found at i:58641194 original size:47 final size:47
Alignment explanation
Indices: 58641131--58641476 Score: 473
Period size: 47 Copynumber: 7.3 Consensus size: 47
58641121 CCCTTCGGGA
* * *
58641131 CTTATCACATTTATACACT-TCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
*
58641178 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCAGC
1 CTTATCACATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
* *
58641225 CTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* * *
58641272 CTTATCACACATACACATGTTCACATTCAACACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
58641319 CTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
** *
58641366 CTTATCACGCATACACATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
58641413 CTTATCACGCATATATATACT-TTCACATTCATCACATTGGCCACTCGGC
1 CTTATCA--CATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
*
58641462 CCTATCACATATATA
1 CTTATCACATATATA
58641477 TACTTGTACA
Statistics
Matches: 275, Mismatches: 20, Indels: 8
0.91 0.07 0.03
Matches are distributed among these distances:
46 1 0.00
47 234 0.85
49 39 0.14
50 1 0.00
ACGTcount: A:0.27, C:0.31, G:0.10, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
Found at i:58643607 original size:85 final size:85
Alignment explanation
Indices: 58643478--58643741 Score: 519
Period size: 85 Copynumber: 3.1 Consensus size: 85
58643468 TATTTTATTG
*
58643478 CCCATGCCCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
58643543 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
58643563 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
58643628 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
58643648 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
58643713 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
58643733 CCCATGCTC
1 CCCATGCTC
58643742 ATGGCCGGCC
Statistics
Matches: 178, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 178 1.00
ACGTcount: A:0.27, C:0.27, G:0.08, T:0.38
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:58657445 original size:40 final size:40
Alignment explanation
Indices: 58657400--58657675 Score: 288
Period size: 40 Copynumber: 6.9 Consensus size: 40
58657390 GAATATAACC
* *
58657400 ACTCGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCA
1 ACTCGCACAAATGCCTTCGGGTCTTAACCCGGATATAGCA
* *
58657440 ACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATACCA
1 ACTCGCACAAATGCCTTCGGGTCTTAACCCGGATATAGCA
* * *
58657480 ACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-
1 ACTCGCACAAATGCCTTCGGGTCTTAACCCGGAT-ATAGCA
* * *
58657520 ACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCA
1 ACTCGCACAAATGCCTTCGGGTCTTAACCCGGATATAGCA
* * * *
58657560 ACTCGCACAAATGCCTTCGGGTCTTAGCCTGGATAAAATC-
1 ACTCGCACAAATGCCTTCGGGTCTTAACCCGGAT-ATAGCA
* * * * * *
58657600 ACTAGCATAAATGCCTTCGGGACTTAGCCCGGATAAAATC-
1 ACTCGCACAAATGCCTTCGGGTCTTAACCCGGAT-ATAGCA
* * * *
58657640 ACTAGCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 ACTCGCACAAATGCCTTCGGGTCTTAACCCGGATAT
58657676 CATTCAAATG
Statistics
Matches: 209, Mismatches: 24, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.02
40 199 0.95
41 6 0.03
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGTCTTAACCCGGATATAGCA
Found at i:58657486 original size:80 final size:80
Alignment explanation
Indices: 58657384--58657674 Score: 356
Period size: 80 Copynumber: 3.6 Consensus size: 80
58657374 TCTTCGGAAT
* * * * * * *
58657384 TTAG-CCGAATATAACC-ACTCGCACAATTGCCTTCGGGTCTTAACCCGGGT-ATAGCAACTCGC
1 TTAGCCCGGATAT-ACCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTAGC
58657446 ACAAATGCCTTCGGGTC
64 ACAAATGCCTTCGGGTC
58657463 TTAGCCCGGATATACCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCAC
1 TTAGCCCGGATATACCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCAC
*
58657528 AATTGCCTTCGGGTC
66 AAATGCCTTCGGGTC
* * * * *
58657543 TTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCTGGATAAAATCACTAGCAT
1 TTAGCCCGGATATACCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCAC
*
58657608 AAATGCCTTCGGGAC
66 AAATGCCTTCGGGTC
* * * * *
58657623 TTAGCCCGGATAAAATC-ACTAGCATAAATGCCTTCGGGACTTAGCCCGGATA
1 TTAGCCCGGAT-ATACCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATA
58657675 TCATTCAAAT
Statistics
Matches: 185, Mismatches: 23, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
79 7 0.04
80 172 0.93
81 6 0.03
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
TTAGCCCGGATATACCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCAC
AAATGCCTTCGGGTC
Found at i:58657617 original size:120 final size:120
Alignment explanation
Indices: 58657399--58657671 Score: 431
Period size: 120 Copynumber: 2.3 Consensus size: 120
58657389 CGAATATAAC
*
58657399 CACTCGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTCT
1 CACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTCT
* * *
58657464 TAGCCCGGATATACCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAAT
66 TAGCCCGGATAAACCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAAAAT
58657519 CACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTCT
1 CACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTCT
* * *
58657584 TAGCCTGGATAAAATC-ACTAGCATAAATGCCTTCGGGACTTAGCCCGGATAAAAT
66 TAGCCCGGAT-AAACCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAAAAT
* * * *
58657639 CACTAGCATAAATGCCTTCGGGACTTAGCCCGG
1 CACTAGCACAATTGCCTTCGGGTCTTAACCCGG
58657672 ATATCATTCA
Statistics
Matches: 141, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
120 138 0.98
121 3 0.02
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.23
Consensus pattern (120 bp):
CACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTCT
TAGCCCGGATAAACCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAAAAT
Found at i:58660736 original size:35 final size:35
Alignment explanation
Indices: 58660660--58660750 Score: 96
Period size: 35 Copynumber: 2.6 Consensus size: 35
58660650 CACAGGTAAG
* *
58660660 TACATGTAAGCTTATTTTGAACTTGTATATTCGGC
1 TACATGTAAGCTTATATTGAACTTGTATATTCGAC
* * * *
58660695 TGCATGTAAGGTTATATTGAA-TTTTAGTATTCGAT
1 TACATGTAAGCTTATATTGAACTTGTA-TATTCGAC
58660730 TACATGTGAA-CTTATATTGAA
1 TACATGT-AAGCTTATATTGAA
58660751 AATGTATACT
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
34 4 0.09
35 40 0.87
36 2 0.04
ACGTcount: A:0.30, C:0.10, G:0.18, T:0.43
Consensus pattern (35 bp):
TACATGTAAGCTTATATTGAACTTGTATATTCGAC
Found at i:58662838 original size:16 final size:15
Alignment explanation
Indices: 58662818--58662851 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
58662808 TGTCACATCC
58662818 TAAAAATCGGGTTAG
1 TAAAAATCGGGTTAG
**
58662833 TAAAAATTTGGTTAG
1 TAAAAATCGGGTTAG
58662848 TAAA
1 TAAA
58662852 TTGAGAGTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.44, C:0.03, G:0.21, T:0.32
Consensus pattern (15 bp):
TAAAAATCGGGTTAG
Found at i:58668949 original size:54 final size:54
Alignment explanation
Indices: 58668876--58668980 Score: 174
Period size: 54 Copynumber: 1.9 Consensus size: 54
58668866 TAGCTTACCT
*
58668876 AGAGGTCCCATGTTCGAATCTTCTATGTGTATAAAATGGAAATATTTTTATCCC
1 AGAGGTCCCATGTTCGAATCTTCTATGTGTATAAAATGGAAACATTTTTATCCC
* * *
58668930 AGAGGTCTCATTTTCGAATCTTCTATGTGTGTAAAATGGAAACATTTTTAT
1 AGAGGTCCCATGTTCGAATCTTCTATGTGTATAAAATGGAAACATTTTTAT
58668981 TCCCTCTTAC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 47 1.00
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.39
Consensus pattern (54 bp):
AGAGGTCCCATGTTCGAATCTTCTATGTGTATAAAATGGAAACATTTTTATCCC
Found at i:58670401 original size:46 final size:46
Alignment explanation
Indices: 58670349--58670449 Score: 123
Period size: 46 Copynumber: 2.2 Consensus size: 46
58670339 GTGGTTTAAC
*
58670349 CACATATCTGTCCTGGCAACTT-ATTGCAATTATAGTGGCTCGACCA
1 CACATATCTGTCATGGCAACTTGATTGCAA-TATAGTGGCTCGACCA
* * * * *
58670395 CACATATCTTTTATGGCAGCTTGATTGTAATATAGTGGCTTGACCA
1 CACATATCTGTCATGGCAACTTGATTGCAATATAGTGGCTCGACCA
*
58670441 CATATATCT
1 CACATATCT
58670450 AATATGCCAG
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
46 41 0.87
47 6 0.13
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.35
Consensus pattern (46 bp):
CACATATCTGTCATGGCAACTTGATTGCAATATAGTGGCTCGACCA
Found at i:58673565 original size:46 final size:45
Alignment explanation
Indices: 58673498--58673672 Score: 190
Period size: 46 Copynumber: 3.8 Consensus size: 45
58673488 TGTAACCCGC
58673498 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGC-TTCGCAT
* * *
58673544 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--GCTTCGCAT
* *** * * * *
58673590 ACATCTCTCGAACTCGGACTCAACTCAATGAGTTCAGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGGC-TTCGCAT
*
58673637 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
58673673 ATGCCCAAAT
Statistics
Matches: 104, Mismatches: 20, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
45 1 0.01
46 69 0.66
47 32 0.31
48 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCTTCGCAT
Found at i:58673634 original size:93 final size:93
Alignment explanation
Indices: 58673506--58673677 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
58673496 GCCCATAAGT
* * *
58673506 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
58673571 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
58673599 GAACTCGGACTCAACTCAATGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
58673664 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
58673678 CAAATATCCT
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:58673692 original size:46 final size:44
Alignment explanation
Indices: 58673503--58673692 Score: 109
Period size: 46 Copynumber: 4.1 Consensus size: 44
58673493 CCCGCCCATA
* ** ** **
58673503 AGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATCC-T
* *
58673548 AAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---A-ATC-CT
* * * * *
58673598 --CGAACTCGGACTCAACTCAATGAGTTCAGACATTCGC--ATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTC-G-GATGCCCAAATCC-T
58673641 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AA-ATCCT
58673688 AGTGA
1 AGTGA
58673693 CATGTCACTT
Statistics
Matches: 110, Mismatches: 19, Indels: 30
0.69 0.12 0.19
Matches are distributed among these distances:
42 1 0.01
43 4 0.04
44 4 0.04
45 1 0.01
46 62 0.56
47 25 0.23
48 5 0.05
49 3 0.03
50 4 0.04
51 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATCCT
Found at i:58676089 original size:353 final size:353
Alignment explanation
Indices: 58675443--58676151 Score: 1089
Period size: 353 Copynumber: 2.0 Consensus size: 353
58675433 GCAAACCAAA
*
58675443 TATGAAAATATAATGAGACTAATTCTAAATTATCAATTAAACTACCTAAATTAAGATTTCTTCCT
1 TATGAAAATATAATGAGACTAATTCTAAATTATCAATTAAACTACCTAAACTAAGATTTCTTCCT
* * *
58675508 ATTGTATTCGACTATGCACATGATAAAAATGATGGTTGATTGATTAGTCAATTACTAATTAAGCC
66 ATTGTATTCGACTATGCAAATGATAAAAACGATGGTTGATTGATTAGTCAATTACTAACTAAGCC
* * ** **
58675573 AATAACCTATCTCGATTAGATTGCTTGCCACTCATCACTAGAATCTTGTCTTAGTCTCATCCTAA
131 AATAACCTATCCCAATTAGATCACTTGCCACTCATCACTAGAATCTCCTCTTAGTCTCATCCTAA
* * * *
58675638 TTCGGAATTGCCAACTAAGGTCTTCTCTTAGTCTCACTTAGACAAGTAGTTCTTCTCTCAATCTC
196 TTCGAAATTGACAACTAAGGTCTTCTCTCAATCTCACTTAGACAAGTAGTTCTTCTCTCAATCTC
* * *
58675703 ACTACCCAGTACAATTATATCGAACTGTTAAGGATAAACTCTCCTCTCTATCTTATTTATCTAGA
261 ACTACCCAGTACAATTATATCAAACTATTAAGGATAAACTCTCCTCTCTATCTTACTTATCTAGA
*
58675768 TTTTCCACTAGAAGCATCAATTTTAGCG
326 TTTTCCACTAGAAGCATCAATTCTAGCG
*
58675796 TATGAAAATATAATGAGACTAATTTTAAATTATCAATTAAACTACCTAAACTAAGATTTCTTCCT
1 TATGAAAATATAATGAGACTAATTCTAAATTATCAATTAAACTACCTAAACTAAGATTTCTTCCT
*
58675861 ATTGTATTCGACTATGCAAATGATAAAAACGATGGTTGATTGATTAGTCGATTACTAACTAAGCC
66 ATTGTATTCGACTATGCAAATGATAAAAACGATGGTTGATTGATTAGTCAATTACTAACTAAGCC
** *
58675926 AATAACCTATCCCAATTAGATCACTTGTGACTCCTCACTAGAATCTCCT-TTCAGTCTCATCCTA
131 AATAACCTATCCCAATTAGATCACTTGCCACTCATCACTAGAATCTCCTCTT-AGTCTCATCCTA
* * * * *
58675990 ATTTGAAATT-ACAACCTAAGTTTTTCTCTCAATCTCACTTTGACAAGTTGTTCTTCTCTCAATC
195 ATTCGAAATTGACAA-CTAAGGTCTTCTCTCAATCTCACTTAGACAAGTAGTTCTTCTCTCAATC
* * *
58676054 TCACTACTCGGTACAATTATATCAAACTATTAAGGATAAACTCTCCTCTCTATCTTGCTTATCTA
259 TCACTACCCAGTACAATTATATCAAACTATTAAGGATAAACTCTCCTCTCTATCTTACTTATCTA
* *
58676119 GATTTTCTACTAGAAGCATCAATTCTAGTG
324 GATTTTCCACTAGAAGCATCAATTCTAGCG
58676149 TAT
1 TAT
58676152 TAAGTAATTC
Statistics
Matches: 321, Mismatches: 33, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
352 5 0.02
353 316 0.98
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.36
Consensus pattern (353 bp):
TATGAAAATATAATGAGACTAATTCTAAATTATCAATTAAACTACCTAAACTAAGATTTCTTCCT
ATTGTATTCGACTATGCAAATGATAAAAACGATGGTTGATTGATTAGTCAATTACTAACTAAGCC
AATAACCTATCCCAATTAGATCACTTGCCACTCATCACTAGAATCTCCTCTTAGTCTCATCCTAA
TTCGAAATTGACAACTAAGGTCTTCTCTCAATCTCACTTAGACAAGTAGTTCTTCTCTCAATCTC
ACTACCCAGTACAATTATATCAAACTATTAAGGATAAACTCTCCTCTCTATCTTACTTATCTAGA
TTTTCCACTAGAAGCATCAATTCTAGCG
Found at i:58677637 original size:14 final size:15
Alignment explanation
Indices: 58677610--58677642 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
58677600 TTTAAAAACC
*
58677610 AAAACTAAATAAAAG
1 AAAACTAAAAAAAAG
58677625 AAAA-TAAAAAAAAG
1 AAAACTAAAAAAAAG
58677639 AAAA
1 AAAA
58677643 AGAAAATGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.82, C:0.03, G:0.06, T:0.09
Consensus pattern (15 bp):
AAAACTAAAAAAAAG
Found at i:58677733 original size:19 final size:20
Alignment explanation
Indices: 58677696--58677734 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
58677686 TCAACCAAGA
*
58677696 TTTTTACAATATTACATTTT
1 TTTTTACAATATTAAATTTT
*
58677716 TTTTTA-AATTTTAAATTTT
1 TTTTTACAATATTAAATTTT
58677735 ATGTTAGACC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (20 bp):
TTTTTACAATATTAAATTTT
Found at i:58689347 original size:4 final size:4
Alignment explanation
Indices: 58689338--58689370 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
58689328 ATGAAGCTTT
*
58689338 CATA CATA CATG CATA CATA CATA CATA CATA C
1 CATA CATA CATA CATA CATA CATA CATA CATA C
58689371 TATCATGCTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.45, C:0.27, G:0.03, T:0.24
Consensus pattern (4 bp):
CATA
Found at i:58695452 original size:17 final size:19
Alignment explanation
Indices: 58695410--58695453 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
58695400 ATGAAATTTT
*
58695410 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
58695429 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
58695447 AA-TATTA
1 AATTATTA
58695454 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:58698862 original size:72 final size:72
Alignment explanation
Indices: 58698773--58698917 Score: 290
Period size: 72 Copynumber: 2.0 Consensus size: 72
58698763 TTGACTCACC
58698773 TCCTTTTTTTTTGAATCATACCTGGTGCGTAGTATCCATTCACTTTAAGCCATAACAAAGAAGGT
1 TCCTTTTTTTTTGAATCATACCTGGTGCGTAGTATCCATTCACTTTAAGCCATAACAAAGAAGGT
58698838 TTGATTT
66 TTGATTT
58698845 TCCTTTTTTTTTGAATCATACCTGGTGCGTAGTATCCATTCACTTTAAGCCATAACAAAGAAGGT
1 TCCTTTTTTTTTGAATCATACCTGGTGCGTAGTATCCATTCACTTTAAGCCATAACAAAGAAGGT
58698910 TTGATTT
66 TTGATTT
58698917 T
1 T
58698918 TCGATACTTA
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 73 1.00
ACGTcount: A:0.26, C:0.18, G:0.15, T:0.41
Consensus pattern (72 bp):
TCCTTTTTTTTTGAATCATACCTGGTGCGTAGTATCCATTCACTTTAAGCCATAACAAAGAAGGT
TTGATTT
Found at i:58701328 original size:21 final size:20
Alignment explanation
Indices: 58701304--58701349 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 20
58701294 CGAAATGAAA
58701304 TCAACCTAAAATGAATTAAAT
1 TCAACCTAAAATG-ATTAAAT
* *
58701325 TCAAGCTAAATTGATTAAAT
1 TCAACCTAAAATGATTAAAT
58701345 T-AACC
1 TCAACC
58701350 GTTCCAACAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 3 0.14
20 8 0.36
21 11 0.50
ACGTcount: A:0.48, C:0.15, G:0.07, T:0.30
Consensus pattern (20 bp):
TCAACCTAAAATGATTAAAT
Found at i:58704508 original size:26 final size:26
Alignment explanation
Indices: 58704468--58704602 Score: 172
Period size: 26 Copynumber: 5.3 Consensus size: 26
58704458 AGGAAGTGCG
58704468 AAAGGGC-TATGCCCCAGTTTATTGA
1 AAAGGGCTTATGCCCCAGTTTATTGA
**
58704493 AAAGGGCTTATGCCCCAGTTTACCGA
1 AAAGGGCTTATGCCCCAGTTTATTGA
58704519 AAAGGGCTTATGCCCCAGTTTATTGA
1 AAAGGGCTTATGCCCCAGTTTATTGA
* *
58704545 AAAGGGCTTATGCCCTAGTTTACCT-A
1 AAAGGGCTTATGCCCCAGTTTA-TTGA
*
58704571 AAAGGGCTT-TTCCCCAG-TTATT-A
1 AAAGGGCTTATGCCCCAGTTTATTGA
58704594 AAAGAGGCT
1 AAAG-GGCT
58704603 AGGCCTCCAG
Statistics
Matches: 98, Mismatches: 9, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
23 6 0.06
24 7 0.07
25 13 0.13
26 71 0.72
27 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.28
Consensus pattern (26 bp):
AAAGGGCTTATGCCCCAGTTTATTGA
Found at i:58704542 original size:52 final size:52
Alignment explanation
Indices: 58704468--58704602 Score: 206
Period size: 52 Copynumber: 2.7 Consensus size: 52
58704458 AGGAAGTGCG
58704468 AAAGGGC-TATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCGA
1 AAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCGA
* *
58704519 AAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCTAGTTTACCTA
1 AAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCGA
*
58704571 AAAGGGCTT-TTCCCCAG-TTATT-AAAAGAGGCT
1 AAAGGGCTTATGCCCCAGTTTATTGAAAAG-GGCT
58704603 AGGCCTCCAG
Statistics
Matches: 79, Mismatches: 3, Indels: 5
0.91 0.03 0.06
Matches are distributed among these distances:
49 5 0.06
50 9 0.11
51 14 0.18
52 51 0.65
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.28
Consensus pattern (52 bp):
AAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCGA
Found at i:58707422 original size:18 final size:19
Alignment explanation
Indices: 58707401--58707436 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
58707391 GTCTTTGAAC
58707401 AAACA-AACTGATTTCCTT
1 AAACACAACTGATTTCCTT
*
58707419 AAACACAACTGTTTTCCT
1 AAACACAACTGATTTCCT
58707437 AAGCTTCCGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.33
Consensus pattern (19 bp):
AAACACAACTGATTTCCTT
Found at i:58712048 original size:40 final size:40
Alignment explanation
Indices: 58711997--58712140 Score: 166
Period size: 40 Copynumber: 3.6 Consensus size: 40
58711987 TTAACGATGA
* *
58711997 TTCGAATATATATGGCACTTAGTGTGCGATTTGAGATAAC
1 TTCGACTATATATGGCACTTAGTGTGCGATTTGAGATAGC
*
58712037 TTCGACTATATATGGCACTTAATGTGCGATTTG-GAATAGC
1 TTCGACTATATATGGCACTTAGTGTGCGATTTGAG-ATAGC
* * ** *
58712077 TTCGGCTATATATGACACTTAGTGTGCGAGACTGAGATAGT
1 TTCGACTATATATGGCACTTAGTGTGCGA-TTTGAGATAGC
*
58712118 TTC-AGCTATATAAGGCACTTAGT
1 TTCGA-CTATATATGGCACTTAGT
58712141 CTGCAAGAAT
Statistics
Matches: 88, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
39 1 0.01
40 61 0.69
41 25 0.28
42 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.34
Consensus pattern (40 bp):
TTCGACTATATATGGCACTTAGTGTGCGATTTGAGATAGC
Found at i:58721032 original size:27 final size:27
Alignment explanation
Indices: 58720992--58721103 Score: 138
Period size: 27 Copynumber: 4.1 Consensus size: 27
58720982 AGGAAGCGTC
*
58720992 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
58721019 CTGGTGGCTCTGCCACATATT-TCTGTT
1 CTGGTGGCTCTGCCACA-ATTATCTGAT
*
58721046 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * *
58721074 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGAT
58721100 CTGG
1 CTGG
58721104 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
26 8 0.11
27 49 0.65
28 18 0.24
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:58721098 original size:54 final size:54
Alignment explanation
Indices: 58720992--58721103 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
58720982 AGGAAGCGTC
* *
58720992 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATTTCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
* * *
58721046 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
58721100 CTGG
1 CTGG
58721104 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:58727958 original size:44 final size:45
Alignment explanation
Indices: 58727801--58727961 Score: 177
Period size: 46 Copynumber: 3.5 Consensus size: 45
58727791 TATGAACACT
* *
58727801 AGTGTAAGACTATGTTTGGGACATGACATCGGCATTGA-GACGA-GTGCC
1 AGTGTAAGA-TATGTCTGGGACATG-CATCGGC--TCACGA-GATGTGCC
* * *
58727849 AATGTAAGACATGTCTGGGACATGCATCAG-TCACGAGATGTAAGCC
1 AGTGTAAGATATGTCTGGGACATGCATCGGCTCACGAGATGT--GCC
*
58727895 AGTGTAAGATATGTCTGGGACATGCATCGGCT-ACGAGATGTGCT
1 AGTGTAAGATATGTCTGGGACATGCATCGGCTCACGAGATGTGCC
58727939 AGTGTAAGATATGTCTGGGACAT
1 AGTGTAAGATATGTCTGGGACAT
58727962 ACGTTGGAAC
Statistics
Matches: 99, Mismatches: 9, Indels: 14
0.81 0.07 0.11
Matches are distributed among these distances:
43 4 0.04
44 29 0.29
46 44 0.44
47 14 0.14
48 8 0.08
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.25
Consensus pattern (45 bp):
AGTGTAAGATATGTCTGGGACATGCATCGGCTCACGAGATGTGCC
Found at i:58731324 original size:43 final size:42
Alignment explanation
Indices: 58731263--58731368 Score: 126
Period size: 43 Copynumber: 2.5 Consensus size: 42
58731253 CCAATACCAA
* *
58731263 GTCCCAGAC-GTGGTCTTACATGTAATCAAATATCGATGCC-ACT
1 GTCCCAGACAG-GGTCTTACACGAAATCAAATAT-GATGCCGA-T
58731306 GTCCCAGACAGGGTCTTACACGAAATCAAATATGATGCCGAT
1 GTCCCAGACAGGGTCTTACACGAAATCAAATATGATGCCGAT
* * *
58731348 GTCCCAAACATGTTCTTACAC
1 GTCCCAGACAGGGTCTTACAC
58731369 ATAAATCTCA
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
42 25 0.45
43 30 0.54
44 1 0.02
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.25
Consensus pattern (42 bp):
GTCCCAGACAGGGTCTTACACGAAATCAAATATGATGCCGAT
Found at i:58731365 original size:42 final size:43
Alignment explanation
Indices: 58731274--58731368 Score: 122
Period size: 42 Copynumber: 2.2 Consensus size: 43
58731264 TCCCAGACGT
* * *
58731274 GGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAGACAG
1 GGTCTTACACGAAATCAAATATCGATGCCACTGTCCCAAACAG
*
58731317 GGTCTTACACGAAATCAAATAT-GATGCCGA-TGTCCCAAACAT
1 GGTCTTACACGAAATCAAATATCGATGCC-ACTGTCCCAAACAG
*
58731359 GTTCTTACAC
1 GGTCTTACAC
58731369 ATAAATCTCA
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
42 25 0.54
43 21 0.46
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (43 bp):
GGTCTTACACGAAATCAAATATCGATGCCACTGTCCCAAACAG
Found at i:58735401 original size:26 final size:25
Alignment explanation
Indices: 58735355--58735404 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
58735345 TTATAATATG
* * *
58735355 AAAAATGACTATTTTGCCCCTAGGT
1 AAAAATGACCATTATACCCCTAGGT
58735380 AAAAATGACCATTATACTCCCTAGG
1 AAAAATGACCATTATAC-CCCTAGG
58735405 GTTTAATTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 14 0.67
26 7 0.33
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.28
Consensus pattern (25 bp):
AAAAATGACCATTATACCCCTAGGT
Found at i:58743483 original size:21 final size:21
Alignment explanation
Indices: 58743458--58743509 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
58743448 ATATTATTAT
* *
58743458 ACATGATATGACATAATATGC
1 ACATGATATGACATAAGATGA
**
58743479 ACATGATATGTTATAAGATGA
1 ACATGATATGACATAAGATGA
58743500 ACATGATATG
1 ACATGATATG
58743510 CTATGATATA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.31
Consensus pattern (21 bp):
ACATGATATGACATAAGATGA
Found at i:58744838 original size:28 final size:29
Alignment explanation
Indices: 58744798--58744897 Score: 103
Period size: 29 Copynumber: 3.5 Consensus size: 29
58744788 GTGAGCATGA
* * *
58744798 ATATGAATGTGA-TTGGGACTAACGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
*
58744826 ATATAAATGTGATTTGGGCCTAATAGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
* * * *
58744855 ATATACAGGTGATTTGGGCCGAATGAGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
* *
58744884 ATATGAATATGATT
1 ATATAAATGTGATT
58744898 GGGGATGGGC
Statistics
Matches: 58, Mismatches: 13, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
28 11 0.19
29 47 0.81
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.29
Consensus pattern (29 bp):
ATATAAATGTGATTTGGGCCTAATGGGCC
Found at i:58746020 original size:17 final size:17
Alignment explanation
Indices: 58745998--58746038 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
58745988 GTTTTCAATG
*
58745998 AAAACATAGTTTTCGCT
1 AAAACACAGTTTTCGCT
*
58746015 AAAACACGGTTTTCGCT
1 AAAACACAGTTTTCGCT
58746032 AAAACAC
1 AAAACAC
58746039 TTCAATGTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.39, C:0.22, G:0.12, T:0.27
Consensus pattern (17 bp):
AAAACACAGTTTTCGCT
Found at i:58755197 original size:22 final size:21
Alignment explanation
Indices: 58755151--58755200 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
58755141 CTATGGAGGA
58755151 AAAGAAGA-AAAAGAAAAAAG
1 AAAGAAGAGAAAAGAAAAAAG
* *
58755171 -TAGAAGAGAAAAGGAGAAAAG
1 AAAGAAGAGAAAA-GAAAAAAG
58755192 AAAGAAGAG
1 AAAGAAGAG
58755201 GAGAATGGTC
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 6 0.25
20 4 0.17
21 7 0.29
22 7 0.29
ACGTcount: A:0.70, C:0.00, G:0.28, T:0.02
Consensus pattern (21 bp):
AAAGAAGAGAAAAGAAAAAAG
Found at i:58755202 original size:17 final size:18
Alignment explanation
Indices: 58755149--58755205 Score: 55
Period size: 17 Copynumber: 3.2 Consensus size: 18
58755139 GGCTATGGAG
*
58755149 GAAAAGAAGA-AAAAGAA
1 GAAAAGAAGAGAAAAGGA
*
58755166 AAAAGTAGAAGAGAAAAGGA
1 GAAA--AGAAGAGAAAAGGA
*
58755186 GAAAAGAA-AGAAGAGGA
1 GAAAAGAAGAGAAAAGGA
58755203 GAA
1 GAA
58755206 TGGTCAGCAA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
17 14 0.42
18 4 0.12
19 6 0.18
20 9 0.27
ACGTcount: A:0.68, C:0.00, G:0.30, T:0.02
Consensus pattern (18 bp):
GAAAAGAAGAGAAAAGGA
Found at i:58755348 original size:24 final size:24
Alignment explanation
Indices: 58755311--58755408 Score: 124
Period size: 24 Copynumber: 4.0 Consensus size: 24
58755301 AACTCCTGCT
* *
58755311 CCTTGATCAGCTCCTAAATCTTCTC
1 CCTT-ATCAACTCCTAAATCCTCTC
* * *
58755336 CTTTACCAACTCCTAAATCCTATC
1 CCTTATCAACTCCTAAATCCTCTC
58755360 CCTTATCAACTCCTAAATCCTCTC
1 CCTTATCAACTCCTAAATCCTCTC
* *
58755384 CCTTATCAGCTCCTAAATCTTCTC
1 CCTTATCAACTCCTAAATCCTCTC
58755408 C
1 C
58755409 TGATAGCCTT
Statistics
Matches: 63, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
24 60 0.95
25 3 0.05
ACGTcount: A:0.23, C:0.39, G:0.03, T:0.35
Consensus pattern (24 bp):
CCTTATCAACTCCTAAATCCTCTC
Found at i:58761576 original size:32 final size:33
Alignment explanation
Indices: 58761540--58761625 Score: 86
Period size: 32 Copynumber: 2.6 Consensus size: 33
58761530 ATCGGGCCTA
*
58761540 AGCCC-ATTCAGATAACAGTGATACTGGGCCAG
1 AGCCCTATTCAGATAACAGTGAAACTGGGCCAG
* * * **
58761572 AGCCCTTTTCAGATTACA-TTAAACTGGGCCTT
1 AGCCCTATTCAGATAACAGTGAAACTGGGCCAG
58761604 AGCCTCTTATTCAGATAACAGT
1 AGCC-C-TATTCAGATAACAGT
58761626 ATGGCCCATA
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
32 19 0.45
33 11 0.26
34 11 0.26
35 1 0.02
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (33 bp):
AGCCCTATTCAGATAACAGTGAAACTGGGCCAG
Found at i:58761920 original size:22 final size:21
Alignment explanation
Indices: 58761884--58761924 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
58761874 CCAGCCCCAT
58761884 GCATCAGAAAATAACAACATG
1 GCATCAGAAAATAACAACATG
*
58761905 GCATGCAGTAAATAACAACA
1 GCAT-CAGAAAATAACAACA
58761925 ATCCAACATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.51, C:0.20, G:0.15, T:0.15
Consensus pattern (21 bp):
GCATCAGAAAATAACAACATG
Found at i:58761965 original size:26 final size:26
Alignment explanation
Indices: 58761936--58761988 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
58761926 TCCAACATGC
58761936 ATTTAGGTCAATTTA-CTCCTAGGGGT
1 ATTTAGGT-AATTTATCTCCTAGGGGT
* *
58761962 ATTTTGGTACTTTATCTCCTAGGGGT
1 ATTTAGGTAATTTATCTCCTAGGGGT
58761988 A
1 A
58761989 AAGCTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 5 0.21
26 19 0.79
ACGTcount: A:0.21, C:0.15, G:0.23, T:0.42
Consensus pattern (26 bp):
ATTTAGGTAATTTATCTCCTAGGGGT
Found at i:58763277 original size:24 final size:24
Alignment explanation
Indices: 58763243--58763319 Score: 127
Period size: 24 Copynumber: 3.2 Consensus size: 24
58763233 CCAACTCCTG
*
58763243 CTCCTTGATCAGCTCCTAAATCTT
1 CTCCTTTATCAGCTCCTAAATCTT
*
58763267 CTCCTTTATCAGCTCCTAAATCCT
1 CTCCTTTATCAGCTCCTAAATCTT
*
58763291 CTCCCTTATCAGCTCCTAAATCTT
1 CTCCTTTATCAGCTCCTAAATCTT
58763315 CTCCT
1 CTCCT
58763320 GATAGCCTTT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 48 1.00
ACGTcount: A:0.19, C:0.38, G:0.05, T:0.38
Consensus pattern (24 bp):
CTCCTTTATCAGCTCCTAAATCTT
Found at i:58766091 original size:34 final size:34
Alignment explanation
Indices: 58766048--58766112 Score: 112
Period size: 34 Copynumber: 1.9 Consensus size: 34
58766038 ATAGAGAGAA
*
58766048 TGTGGAACGTACGTAGTGTATTACCCTTAACCCG
1 TGTGGAACGTACGTAGTGTATCACCCTTAACCCG
*
58766082 TGTGGAACGTATGTAGTGTATCACCCTTAAC
1 TGTGGAACGTACGTAGTGTATCACCCTTAAC
58766113 TCGTATCCGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.31
Consensus pattern (34 bp):
TGTGGAACGTACGTAGTGTATCACCCTTAACCCG
Found at i:58767911 original size:36 final size:37
Alignment explanation
Indices: 58767832--58767974 Score: 202
Period size: 36 Copynumber: 3.9 Consensus size: 37
58767822 GCTCAGACGA
* * *
58767832 AATCTCCACACGAAGTTATCGGGTCTTACCCGGACAA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
58767869 AATCTCCACACGTAGTCATC-GGTCTTACCC-GAGCAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA-CAT
*
58767905 ACTCTCCACACGTAGTC-TCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
* *
58767941 AATCTCCACACATAGTCATCGGGTCTCACCCGGA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
58767975 ATATATTTCC
Statistics
Matches: 95, Mismatches: 7, Indels: 8
0.86 0.06 0.07
Matches are distributed among these distances:
35 4 0.04
36 56 0.59
37 35 0.37
ACGTcount: A:0.25, C:0.34, G:0.18, T:0.23
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
Found at i:58768243 original size:47 final size:47
Alignment explanation
Indices: 58768180--58768353 Score: 267
Period size: 47 Copynumber: 3.7 Consensus size: 47
58768170 ATATATATTT
* * * *
58768180 CACATTGACCATTCGGCTTTACCACATATATGCATGTTCATATTCAC
1 CACATTGGCCATTCGGCCTTATCACACATATGCATGTTCATATTCAC
* * *
58768227 CACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCAT
1 CACATTGGCCATTCGGCCTTATCACACATATGCATGTTCATATTCAC
* *
58768274 CACATAGGCCATTCGGCCTTATCACATATATGCATGTTCATATTCAC
1 CACATTGGCCATTCGGCCTTATCACACATATGCATGTTCATATTCAC
58768321 CACATTGGCCATTCGGCCTTATCACACATATGC
1 CACATTGGCCATTCGGCCTTATCACACATATGC
58768354 TGTAACACCC
Statistics
Matches: 113, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 113 1.00
ACGTcount: A:0.26, C:0.30, G:0.13, T:0.31
Consensus pattern (47 bp):
CACATTGGCCATTCGGCCTTATCACACATATGCATGTTCATATTCAC
Found at i:58768286 original size:94 final size:94
Alignment explanation
Indices: 58768179--58768353 Score: 314
Period size: 94 Copynumber: 1.9 Consensus size: 94
58768169 TATATATATT
* *
58768179 TCACATTGACCATTCGGCTTTACCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGC
1 TCACATAGACCATTCGGCCTTACCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGC
58768244 CTTATCACACATATGCATGCTCACATTCA
66 CTTATCACACATATGCATGCTCACATTCA
* *
58768273 TCACATAGGCCATTCGGCCTTATCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGC
1 TCACATAGACCATTCGGCCTTACCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGC
58768338 CTTATCACACATATGC
66 CTTATCACACATATGC
58768354 TGTAACACCC
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
94 77 1.00
ACGTcount: A:0.26, C:0.30, G:0.13, T:0.31
Consensus pattern (94 bp):
TCACATAGACCATTCGGCCTTACCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGC
CTTATCACACATATGCATGCTCACATTCA
Found at i:58769849 original size:39 final size:40
Alignment explanation
Indices: 58769735--58769919 Score: 198
Period size: 40 Copynumber: 4.7 Consensus size: 40
58769725 GCTACTCATT
* *
58769735 CAAATGCCTTTGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
58769775 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
58769815 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * * *
58769854 CAAATGCCTTC-AGATCTTAGTCTGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
*
58769895 CAAA-GCCTTTGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
58769920 CATCATTCGA
Statistics
Matches: 121, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
38 1 0.01
39 32 0.26
40 76 0.63
41 12 0.10
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:58769903 original size:79 final size:80
Alignment explanation
Indices: 58769735--58769919 Score: 189
Period size: 79 Copynumber: 2.3 Consensus size: 80
58769725 GCTACTCATT
* * * *
58769735 CAAATGCCTTTGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGAGACTTAACCCG
* *
58769799 GATTTAGTAACTCGCAC
64 GATATAGTAACTAGCAC
* * ** *
58769816 CAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTTGCACAAATGCCTTC-AGATCTTAGTCTGG
1 CAAAGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGAGA-CTTAACCCGG
*
58769879 ATATAGTCACTTAGCA-
65 ATATAGTAAC-TAGCAC
*
58769895 CAAAGCCTTTGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
58769920 CATCATTCGA
Statistics
Matches: 86, Mismatches: 14, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
78 2 0.02
79 57 0.66
80 24 0.28
81 3 0.03
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGAGACTTAACCCGGA
TATAGTAACTAGCAC
Done.