Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 399 of 438
Found at i:124587155 original size:20 final size:20
Alignment explanation
Indices: 124587130--124587170 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
124587120 AGACCTCCGC
124587130 ATACCAAGTCCAGCATGAGA
1 ATACCAAGTCCAGCATGAGA
124587150 ATACCAAGTCCAGCATGAGA
1 ATACCAAGTCCAGCATGAGA
124587170 A
1 A
124587171 CATGTGAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.41, C:0.24, G:0.20, T:0.15
Consensus pattern (20 bp):
ATACCAAGTCCAGCATGAGA
Found at i:124589033 original size:10 final size:10
Alignment explanation
Indices: 124589018--124589060 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
124589008 AATATTAACA
124589018 TAATTAATTT
1 TAATTAATTT
124589028 TAATTAATTTT
1 TAATTAA-TTT
*
124589039 ATAATAAATTT
1 -TAATTAATTT
*
124589050 TGATTAATTT
1 TAATTAATTT
124589060 T
1 T
124589061 GGTCATTTTC
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
10 16 0.57
11 6 0.21
12 6 0.21
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (10 bp):
TAATTAATTT
Found at i:124589043 original size:22 final size:22
Alignment explanation
Indices: 124589017--124589060 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
124589007 AAATATTAAC
*
124589017 ATAATTAATTTTAATTAATTTT
1 ATAATAAATTTTAATTAATTTT
*
124589039 ATAATAAATTTTGATTAATTTT
1 ATAATAAATTTTAATTAATTTT
124589061 GGTCATTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (22 bp):
ATAATAAATTTTAATTAATTTT
Found at i:124597200 original size:25 final size:25
Alignment explanation
Indices: 124597172--124597224 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
124597162 TTATAAATAT
124597172 TACGTGCATGCAAAGTCATACTCAG
1 TACGTGCATGCAAAGTCATACTCAG
124597197 TACGTGCATGCAAAGTCATACTCAG
1 TACGTGCATGCAAAGTCATACTCAG
124597222 TAC
1 TAC
124597225 AATCATATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (25 bp):
TACGTGCATGCAAAGTCATACTCAG
Found at i:124599000 original size:13 final size:13
Alignment explanation
Indices: 124598982--124599009 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
124598972 GGATAAAAAC
124598982 AAACAATTTGAAA
1 AAACAATTTGAAA
124598995 AAACAATTTGAAA
1 AAACAATTTGAAA
124599008 AA
1 AA
124599010 TAAATGAGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.64, C:0.07, G:0.07, T:0.21
Consensus pattern (13 bp):
AAACAATTTGAAA
Found at i:124599137 original size:29 final size:29
Alignment explanation
Indices: 124599074--124599137 Score: 69
Period size: 29 Copynumber: 2.2 Consensus size: 29
124599064 TAAAAAATAC
*
124599074 AAATATATTTTATGATATAATAGCTTAAT
1 AAATATATTTTATGAAATAATAGCTTAAT
* *
124599103 ATATATATTTATAT-AAATAATA-CTATATT
1 AAATATATTT-TATGAAATAATAGCT-TAAT
124599132 AAATAT
1 AAATAT
124599138 GTGCAAAACT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
28 2 0.07
29 24 0.83
30 3 0.10
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (29 bp):
AAATATATTTTATGAAATAATAGCTTAAT
Found at i:124599289 original size:14 final size:14
Alignment explanation
Indices: 124599270--124599321 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
124599260 AGTAATATAA
124599270 AATATAATAAAAAT
1 AATATAATAAAAAT
*
124599284 AATATAATGAATAAT
1 AATATAAT-AAAAAT
*
124599299 ATATATAGT-AAAAT
1 A-ATATAATAAAAAT
*
124599313 GATATAATA
1 AATATAATA
124599322 TATTATAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
13 6 0.20
14 12 0.40
15 6 0.20
16 6 0.20
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.33
Consensus pattern (14 bp):
AATATAATAAAAAT
Found at i:124599324 original size:20 final size:19
Alignment explanation
Indices: 124599294--124599338 Score: 63
Period size: 22 Copynumber: 2.2 Consensus size: 19
124599284 AATATAATGA
124599294 ATAATATATATAGTAAAATGAT
1 ATAATATAT-TA-TAAAAT-AT
124599316 ATAATATATTATAAAATAT
1 ATAATATATTATAAAATAT
124599335 ATAA
1 ATAA
124599339 ATAAAACTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 6 0.26
20 6 0.26
21 2 0.09
22 9 0.39
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (19 bp):
ATAATATATTATAAAATAT
Found at i:124599341 original size:20 final size:22
Alignment explanation
Indices: 124599271--124599338 Score: 72
Period size: 21 Copynumber: 3.3 Consensus size: 22
124599261 GTAATATAAA
* * * *
124599271 ATATAATAAAAATAATATAATG
1 ATATAATATATATAGTAAAATG
124599293 A-ATAATATATATAGTAAAATG
1 ATATAATATATATAGTAAAATG
124599314 ATATAATATAT-TA-TAAAAT-
1 ATATAATATATATAGTAAAATG
124599333 ATATAA
1 ATATAA
124599339 ATAAAACTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
19 6 0.15
20 6 0.15
21 19 0.46
22 10 0.24
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.35
Consensus pattern (22 bp):
ATATAATATATATAGTAAAATG
Found at i:124599412 original size:20 final size:19
Alignment explanation
Indices: 124599387--124599428 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
124599377 AGTAAAAATG
124599387 ATATATATA-ATAAATCATTT
1 ATATATATACAT-AAT-ATTT
124599407 ATATATATACATAATATTT
1 ATATATATACATAATATTT
124599426 ATA
1 ATA
124599429 GTAAAATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 7 0.33
20 12 0.57
21 2 0.10
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (19 bp):
ATATATATACATAATATTT
Found at i:124600981 original size:44 final size:44
Alignment explanation
Indices: 124600920--124601816 Score: 1008
Period size: 44 Copynumber: 20.5 Consensus size: 44
124600910 CTCCTTGCCT
* * *
124600920 AATACGGAGAAGCCAAATCTGTCATCTTCGATCT-ATCCTCTGTC
1 AATACAGAGACGCCAAATCTGTCATCTTCGATCTGCT-CTCTGTC
* * * * *
124600964 AATACAGAGACACCAAATATGTTATCTTCGATCTGTTCTCTGTT
1 AATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTCTCTGTC
* * *
124601008 AATACAGAGATGCCAAATCTGTCATCTTCAATCTGCCCTCTGTC
1 AATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTCTCTGTC
* * * *
124601052 AATACAGAAACGCTAAATCTGTTATCTTCGATCTGCTCTTTGTC
1 AATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTCTCTGTC
** * * *
124601096 AATACAGAGACAACAAATATGTTATCTTCGATCTGCTCTTTGTC
1 AATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTCTCTGTC
* * *
124601140 AATACAGAGACGACAAATCTGTTATCTTCGATCTGCAT-TTTGTC
1 AATACAGAGACGCCAAATCTGTCATCTTCGATCTGC-TCTCTGTC
* *
124601184 AATACAGAGACACCAAATCTG-CTATCTTCGATCTGCTCTCTGCC
1 AATACAGAGACGCCAAATCTGTC-ATCTTCGATCTGCTCTCTGTC
*
124601228 AATACAGAGACGCCAAATCTG-CTATCTTTGATCTGCTCTCTGTC
1 AATACAGAGACGCCAAATCTGTC-ATCTTCGATCTGCTCTCTGTC
* * * *
124601272 AATACAGAAATGCCAAATTTG-CTATCTTCGATCTGCTCTCTGAC
1 AATACAGAGACGCCAAATCTGTC-ATCTTCGATCTGCTCTCTGTC
* *
124601316 AATACAGAGACACCAAATCTG-CTATCTTCGATCTGCTCTCTGCC
1 AATACAGAGACGCCAAATCTGTC-ATCTTCGATCTGCTCTCTGTC
* * * * * * *
124601360 AATATAGAAATGCTAAATCTGTTATCTTTGATCTGCTCTCTGAC
1 AATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTCTCTGTC
* * *
124601404 AATACAGAGAAGCCAAATCTG-CTATCTTCAATCTGCTCTCTGAC
1 AATACAGAGACGCCAAATCTGTC-ATCTTCGATCTGCTCTCTGTC
* * * * *
124601448 AATACAGAGATGTCAAATC-GACTATCTTCGATCTACTCTCTGAC
1 AATACAGAGACGCCAAATCTGTC-ATCTTCGATCTGCTCTCTGTC
*
124601492 AATACAGAGACACCAAATCTGTCATCTTCGATCTGCTCTC-GTC
1 AATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTCTCTGTC
124601535 AATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTCTCTGTC
1 AATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTCTCTGTC
* * * *
124601579 AATACAGAGACGCCAAATTTGTTATTTTCAATCTGCTCTCTGTC
1 AATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTCTCTGTC
* * * * *
124601623 AATACAGAGACGCCAAACCTGTTATCTTCAATTTGCTCTCTGAC
1 AATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTCTCTGTC
* * * *
124601667 AATACAGAGACGCCAAATCTG-C-T-ATCGGTCTGCTCTTTGTT
1 AATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTCTCTGTC
* * *
124601708 AATACAGAGACGCCAAATTTGTTATCTTCGATCTGCTCTCTGCC
1 AATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTCTCTGTC
* * * * *
124601752 AATACAGAGACGCCAAACCTGTTATCTTCGATCTACTTTCTGAC
1 AATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTCTCTGTC
*
124601796 AATATAGAGACGCCAAATCTG
1 AATACAGAGACGCCAAATCTG
124601817 CTATCAGTGA
Statistics
Matches: 736, Mismatches: 105, Indels: 24
0.85 0.12 0.03
Matches are distributed among these distances:
41 31 0.04
42 1 0.00
43 44 0.06
44 656 0.89
45 4 0.01
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.31
Consensus pattern (44 bp):
AATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTCTCTGTC
Found at i:124607278 original size:40 final size:40
Alignment explanation
Indices: 124607223--124607470 Score: 338
Period size: 40 Copynumber: 6.2 Consensus size: 40
124607213 TGAATGATAC
* * *
124607223 CCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
124607263 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* *
124607303 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* *
124607343 CCGAGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * *
124607383 CCGGGCTAAGACCTGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * ** *
124607423 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
124607463 CC-GGCTAA
1 CCGGGCTAA
124607471 ATTCCGAAGA
Statistics
Matches: 184, Mismatches: 23, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
39 5 0.03
40 177 0.96
41 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:124613920 original size:40 final size:39
Alignment explanation
Indices: 124613866--124614044 Score: 173
Period size: 40 Copynumber: 4.5 Consensus size: 39
124613856 GCTCGATTGT
* *
124613866 CTTCGGGACA-TAGCCCGGTTATAGTAATTCGCACAATTGC
1 CTTCGGGA-ATTAGCCCGGTT-TAGTAACTCGCACAAATGC
*
124613906 CTTCAGGAATTAGCCCGGATTTAGTAACTCGCACAAATGC
1 CTTCGGGAATTAGCCCGG-TTTAGTAACTCGCACAAATGC
* * * *
124613946 CTTCGGGACTTAACCCAGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGAATTAGCCC-GGTTTAGTAACTCGCACAAATGC
* * * *
124613986 CTTCGGGAATT-GACCCGAATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGAATTAG-CCCG-GTTTAGTAAC-TCGCACAAATGC
*
124614027 CTTCGGGACTTAGCCCGG
1 CTTCGGGAATTAGCCCGG
124614045 ATACCATTCG
Statistics
Matches: 115, Mismatches: 17, Indels: 14
0.79 0.12 0.10
Matches are distributed among these distances:
39 2 0.02
40 85 0.74
41 27 0.23
42 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (39 bp):
CTTCGGGAATTAGCCCGGTTTAGTAACTCGCACAAATGC
Found at i:124613978 original size:80 final size:81
Alignment explanation
Indices: 124613866--124614038 Score: 215
Period size: 80 Copynumber: 2.1 Consensus size: 81
124613856 GCTCGATTGT
* * * * * *
124613866 CTTCGGGACATAGCCCGGTTATAGTAATTCGCACAATTGCCTTCAGGAATT-AGCCCGGATTTAG
1 CTTCGGGACTTAACCCAGTTATAGTAACTCGCACAAATGCCTTCAGGAATTGA-CCCGAATTTAG
* *
124613930 TAAC-TCGCACAAATGC
65 TAACTTAGCACAAAAGC
* * *
124613946 CTTCGGGACTTAACCCAGTTTTGGTAACTCGCACAAATGCCTTCGGGAATTGACCCGAATTTAGT
1 CTTCGGGACTTAACCCAGTTATAGTAACTCGCACAAATGCCTTCAGGAATTGACCCGAATTTAGT
*
124614011 CACTTAGCACAAAAGC
66 AACTTAGCACAAAAGC
124614027 CTTCGGGACTTA
1 CTTCGGGACTTA
124614039 GCCCGGATAC
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
80 56 0.71
81 23 0.29
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (81 bp):
CTTCGGGACTTAACCCAGTTATAGTAACTCGCACAAATGCCTTCAGGAATTGACCCGAATTTAGT
AACTTAGCACAAAAGC
Found at i:124620912 original size:40 final size:39
Alignment explanation
Indices: 124620868--124621075 Score: 240
Period size: 40 Copynumber: 5.2 Consensus size: 39
124620858 GCTCGATTGT
* * *
124620868 CTTCGGGACATAGCCCGGTTATAGTAATTCGCACAATTGC
1 CTTCGGGACATAGCCCGGTT-TGGTAACTCGCACAAATGC
*
124620908 CTTCGGGA-ATTAGCCCGGATTTAGTAACTCGCACAAATGC
1 CTTCGGGACA-TAGCCCGG-TTTGGTAACTCGCACAAATGC
* * *
124620948 CTTCGGGACTTAACCTGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACATAGCCCGG-TTTGGTAACTCGCACAAATGC
* * *
124620988 CTTCGGGACTTAACCCGGTTTTGGTAACTCACACAAATGC
1 CTTCGGGACATAGCCCGG-TTTGGTAACTCGCACAAATGC
*
124621028 CTTCGGGA-ATTGACCCGGATTTGGTAACTCGCACAAATGC
1 CTTCGGGACATAG-CCCGG-TTTGGTAACTCGCACAAATGC
124621068 CTTCGGGA
1 CTTCGGGA
124621076 ATTGACTCAG
Statistics
Matches: 150, Mismatches: 14, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
39 2 0.01
40 146 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (39 bp):
CTTCGGGACATAGCCCGGTTTGGTAACTCGCACAAATGC
Found at i:124621076 original size:40 final size:40
Alignment explanation
Indices: 124620891--124621128 Score: 287
Period size: 40 Copynumber: 5.9 Consensus size: 40
124620881 CCCGGTTATA
* * * *
124620891 GTAATTCGCACAATTGCCTTCGGGAATTAGCCCGGATTTA
1 GTAACTCGCACAAATGCCTTCGGGAATTAACCCGGATTTG
* * *
124620931 GTAACTCGCACAAATGCCTTCGGGACTTAACCTGGTTTTG
1 GTAACTCGCACAAATGCCTTCGGGAATTAACCCGGATTTG
* *
124620971 GTAACTCGCACAAATGCCTTCGGGACTTAACCCGGTTTTG
1 GTAACTCGCACAAATGCCTTCGGGAATTAACCCGGATTTG
* *
124621011 GTAACTCACACAAATGCCTTCGGGAATTGACCCGGATTTG
1 GTAACTCGCACAAATGCCTTCGGGAATTAACCCGGATTTG
* * * *
124621051 GTAACTCGCACAAATGCCTTCGGGAATTGACTCAGATTTA
1 GTAACTCGCACAAATGCCTTCGGGAATTAACCCGGATTTG
* * * * *
124621091 GTCACTTAGCACAAAAGCCTTCGGGACTTAGCCCGGAT
1 GTAAC-TCGCACAAATGCCTTCGGGAATTAACCCGGAT
124621129 ACCATTCAAA
Statistics
Matches: 173, Mismatches: 24, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
40 148 0.86
41 25 0.14
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.27
Consensus pattern (40 bp):
GTAACTCGCACAAATGCCTTCGGGAATTAACCCGGATTTG
Found at i:124626430 original size:27 final size:29
Alignment explanation
Indices: 124626369--124626430 Score: 67
Period size: 27 Copynumber: 2.2 Consensus size: 29
124626359 TAAAAAATAC
*
124626369 AAATATATTATATTATATAATAGCTTAAT
1 AAATATATTATATTAAATAATAGCTTAAT
* *
124626398 ATATAT-TTATA-TAAATAATA-CTATATT
1 AAATATATTATATTAAATAATAGCT-TAAT
124626425 AAATAT
1 AAATAT
124626431 GTGATAAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
26 2 0.07
27 16 0.57
28 5 0.18
29 5 0.18
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (29 bp):
AAATATATTATATTAAATAATAGCTTAAT
Found at i:124626634 original size:20 final size:22
Alignment explanation
Indices: 124626582--124626631 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
124626572 AAAATAATAT
124626582 AATGA-ATAATATATATAGTAA
1 AATGATATAATATATATAGTAA
124626603 AATGATATAATATAT-TA-TAA
1 AATGATATAATATATATAGTAA
124626623 AAT-ATATAA
1 AATGATATAA
124626632 ATAAAACTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
19 6 0.21
20 6 0.21
21 7 0.25
22 9 0.32
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (22 bp):
AATGATATAATATATATAGTAA
Found at i:124626705 original size:20 final size:19
Alignment explanation
Indices: 124626680--124626721 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
124626670 AGTAAAATTA
124626680 ATATATATA-ATAAATCATTT
1 ATATATATACAT-AAT-ATTT
124626700 ATATATATACATAATATTT
1 ATATATATACATAATATTT
124626719 ATA
1 ATA
124626722 GTAAAATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 7 0.33
20 12 0.57
21 2 0.10
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (19 bp):
ATATATATACATAATATTT
Found at i:124629308 original size:42 final size:44
Alignment explanation
Indices: 124629262--124629383 Score: 119
Period size: 42 Copynumber: 2.8 Consensus size: 44
124629252 TCAAATATCA
* *
124629262 ATGCCACTATCCCAGACAGGGTCTTACACGAAATCAT-ATA-TG
1 ATGCCACTGTCCCAGACAGGGTCTTACACGAAATCATCAAATTG
* * * *
124629304 ATGCCAATGTCCGAGACATGGTCTTACGCGTAAATC-TCAAATTG
1 ATGCCACTGTCCCAGACAGGGTCTTACACG-AAATCATCAAATTG
*
124629348 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACAAAATCA
1 ATGCC-ACTGTCCCAGACAG-GGTCTTACACGAAATCA
124629384 CGTACTGAAA
Statistics
Matches: 63, Mismatches: 11, Indels: 10
0.75 0.13 0.12
Matches are distributed among these distances:
42 26 0.41
43 12 0.19
44 24 0.38
45 1 0.02
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (44 bp):
ATGCCACTGTCCCAGACAGGGTCTTACACGAAATCATCAAATTG
Found at i:124631309 original size:27 final size:28
Alignment explanation
Indices: 124631249--124631325 Score: 77
Period size: 29 Copynumber: 2.8 Consensus size: 28
124631239 AATGTTTTAT
*
124631249 TTCATATATCTATTTCCATATAATCGGT
1 TTCATATATCTATTTCCATATAATCGGA
* * *
124631277 TATCATATATCTGTTTCTATATAA-CTGA
1 T-TCATATATCTATTTCCATATAATCGGA
* *
124631305 TTCATATAACCATTT-CATATA
1 TTCATATATCTATTTCCATATA
124631326 TCATTTTTCA
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
26 5 0.12
27 11 0.28
28 4 0.10
29 20 0.50
ACGTcount: A:0.32, C:0.17, G:0.05, T:0.45
Consensus pattern (28 bp):
TTCATATATCTATTTCCATATAATCGGA
Found at i:124631325 original size:40 final size:40
Alignment explanation
Indices: 124631279--124631381 Score: 154
Period size: 40 Copynumber: 2.6 Consensus size: 40
124631269 TAATCGGTTA
*
124631279 TCATATATC-TGTTTCTATATAACTGATTCATATAACCATT
1 TCATATATCATTTTTC-ATATAACTGATTCATATAACCATT
* *
124631319 TCATATATCATTTTTCATATAATTGATTCATGTAACCATT
1 TCATATATCATTTTTCATATAACTGATTCATATAACCATT
*
124631359 ACATATATCATTTTTCATATAAC
1 TCATATATCATTTTTCATATAAC
124631382 CATTTCATAT
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
40 52 0.91
41 5 0.09
ACGTcount: A:0.34, C:0.17, G:0.04, T:0.46
Consensus pattern (40 bp):
TCATATATCATTTTTCATATAACTGATTCATATAACCATT
Found at i:124631375 original size:27 final size:26
Alignment explanation
Indices: 124631345--124631426 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 26
124631335 ATATAATTGA
*
124631345 TTCATGTAACCATTACATATATCATTT
1 TTCATATAACCATT-CATATATCATTT
124631372 TTCATATAACCATTTCATATATC-TATT
1 TTCATATAACCA-TTCATATATCAT-TT
124631399 TTCATATAACCAATTCATATAATCATTT
1 TTCATATAACC-ATTCATAT-ATCATTT
124631427 CATATATTTA
Statistics
Matches: 49, Mismatches: 1, Indels: 9
0.83 0.02 0.15
Matches are distributed among these distances:
26 1 0.02
27 39 0.80
28 8 0.16
29 1 0.02
ACGTcount: A:0.35, C:0.18, G:0.01, T:0.45
Consensus pattern (26 bp):
TTCATATAACCATTCATATATCATTT
Found at i:124631415 original size:67 final size:67
Alignment explanation
Indices: 124631305--124631433 Score: 188
Period size: 67 Copynumber: 1.9 Consensus size: 67
124631295 ATATAACTGA
*** *
124631305 TTCATATAACCATTTCATATATCATTTTTCATATAATTGATTCATGTAACCATTACATATATCAT
1 TTCATATAACCATTTCATATATCATTTTTCATATAACCAATTCATATAACCATTACATATATCAT
124631370 TT
66 TT
* *
124631372 TTCATATAACCATTTCATATATC-TATTTTCATATAACCAATTCATATAATCATTTCATATAT
1 TTCATATAACCATTTCATATATCAT-TTTTCATATAACCAATTCATATAACCATTACATATAT
124631434 TTATTTCCAT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
66 1 0.02
67 54 0.98
ACGTcount: A:0.36, C:0.17, G:0.02, T:0.46
Consensus pattern (67 bp):
TTCATATAACCATTTCATATATCATTTTTCATATAACCAATTCATATAACCATTACATATATCAT
TT
Found at i:124638023 original size:24 final size:24
Alignment explanation
Indices: 124637989--124638053 Score: 96
Period size: 24 Copynumber: 2.8 Consensus size: 24
124637979 TATCCTACCC
*
124637989 CCATCCTTTACACACCATCTCCGA
1 CCATCCCTTACACACCATCTCCGA
*
124638013 CCATCCCTTACACACCATCTCTGA
1 CCATCCCTTACACACCATCTCCGA
*
124638037 CCATCCC-TACACTCCAT
1 CCATCCCTTACACACCAT
124638054 GTGGGGTTTA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
23 9 0.24
24 29 0.76
ACGTcount: A:0.25, C:0.48, G:0.03, T:0.25
Consensus pattern (24 bp):
CCATCCCTTACACACCATCTCCGA
Found at i:124638443 original size:18 final size:17
Alignment explanation
Indices: 124638422--124638459 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
124638412 TAATAGGTCC
124638422 ACATACCCGTGTAGGCCT
1 ACATACCCGTGT-GGCCT
*
124638440 ACATGCCCGTGTGGCCT
1 ACATACCCGTGTGGCCT
124638457 ACA
1 ACA
124638460 AGCCCAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.21, C:0.34, G:0.24, T:0.21
Consensus pattern (17 bp):
ACATACCCGTGTGGCCT
Found at i:124638457 original size:17 final size:18
Alignment explanation
Indices: 124638422--124638464 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
124638412 TAATAGGTCC
*
124638422 ACATACCCGTGTAGGCCT
1 ACATGCCCGTGTAGGCCT
124638440 ACATGCCCGTGT-GGCCT
1 ACATGCCCGTGTAGGCCT
*
124638457 ACAAGCCC
1 ACATGCCC
124638465 AAATTTTCCT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 12 0.52
18 11 0.48
ACGTcount: A:0.21, C:0.37, G:0.23, T:0.19
Consensus pattern (18 bp):
ACATGCCCGTGTAGGCCT
Found at i:124638531 original size:18 final size:17
Alignment explanation
Indices: 124638508--124638553 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 17
124638498 GGCCCAAGAA
124638508 CCCACACGCCCGTGTGGG
1 CCCACACGCCCGTGT-GG
* *
124638526 CCCACACACCTGTGTGG
1 CCCACACGCCCGTGTGG
124638543 CCCACACGCCC
1 CCCACACGCCC
124638554 AATTTGGTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
17 11 0.46
18 13 0.54
ACGTcount: A:0.15, C:0.50, G:0.24, T:0.11
Consensus pattern (17 bp):
CCCACACGCCCGTGTGG
Found at i:124641543 original size:40 final size:40
Alignment explanation
Indices: 124641488--124641705 Score: 280
Period size: 40 Copynumber: 5.5 Consensus size: 40
124641478 CGGATGATAA
* * *
124641488 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
*
124641528 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
124641568 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
124641608 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
124641648 CCGAGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* * *
124641688 -CTGGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
124641706 TACCTGGCTT
Statistics
Matches: 158, Mismatches: 18, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
39 16 0.10
40 142 0.90
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:124646619 original size:25 final size:25
Alignment explanation
Indices: 124646564--124646619 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
124646554 ATTTGTAATA
*
124646564 ATAATATATACACAATATGGTATTT
1 ATAATATATACACAATATGGTATAT
* * *
124646589 AAAATATATATATATATAT-GTATAT
1 ATAATATATACACA-ATATGGTATAT
124646614 ATAATA
1 ATAATA
124646620 GTATTTAAGA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
25 21 0.84
26 4 0.16
ACGTcount: A:0.50, C:0.04, G:0.05, T:0.41
Consensus pattern (25 bp):
ATAATATATACACAATATGGTATAT
Found at i:124647231 original size:15 final size:15
Alignment explanation
Indices: 124647211--124647245 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
124647201 TTTTGGTAGG
124647211 TTTTTCTTT-TTCTTT
1 TTTTTCTTTGTT-TTT
124647226 TTTTTCTTTGTTTTT
1 TTTTTCTTTGTTTTT
124647241 TTTTT
1 TTTTT
124647246 GGGTTAGGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 17 0.89
16 2 0.11
ACGTcount: A:0.00, C:0.09, G:0.03, T:0.89
Consensus pattern (15 bp):
TTTTTCTTTGTTTTT
Found at i:124647998 original size:88 final size:83
Alignment explanation
Indices: 124647891--124648468 Score: 299
Period size: 88 Copynumber: 7.0 Consensus size: 83
124647881 AACAGACATT
** * *
124647891 AAAAACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGATTTTGAAAATACCTC-GCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
124647956 TTGATTTTTTGAAACTTAACTTG
65 TTGATTTTTTGAAA---AAC-TG
* * * ** *
124647979 AAAAGCAGATTTTGAAAATACCTCGATATGTGA-CTGGAGGTTCAACTCACCTCTCGCAATATGA
1 AAAAACAGATTTTGAAAATACCTCG-CACGTGAGC-CAAGGCTCAACTCACCTCTCGCAATATGA
*
124648043 GTTGA-TTTTTGAAAAACAG
64 GTTGATTTTTTGAAAAACTG
* * * * ** *** *
124648062 AAATTAAAAGA--CT-CAACTCAACTCTCGCA-GAAATTAAAAAGCTCAACTCACCTCTCGCAAT
1 AAA--AACAGATTTTGAAAAT--AC-CTCGCACGTGA-GCCAAGGCTCAACTCACCTCTCGCAAT
124648123 ATGAGTTGAATTTTTTTG-AAAA---
60 ATGAGTTG-A-TTTTTTGAAAAACTG
** * *
124648145 AAAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACTTCTCGCAATATGAG
1 AAAAACAGATTTTGAAAATACCTC-GCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
*
124648210 TTGA-TTTTTGAAAACAGAATTTG
65 TTGATTTTTTG--AA-A-AA-CTG
* * * * * *
124648233 AAAAACAGATTTTGAAAATACCTCGACATGTAACCCGAGGCTCAACTCACATCTCGCAATGTGAG
1 AAAAACAGATTTTGAAAATACCTCG-CACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
124648298 TTGATTTTTTTGAAAAA-T-
65 TTGA-TTTTTTGAAAAACTG
* *** *** * *
124648316 --ATA-A-ATTGAAAAAATACCTCAGTGTGTGATCTGAA-GCTCAACTCACCTCTCGCAATATGA
1 AAAAACAGATTTTGAAAATACCTC-GCACGTGAGC-CAAGGCTCAACTCACCTCTCGCAATATGA
124648376 GTTGATTTTTTTG--AAA--G
64 GTTGA-TTTTTTGAAAAACTG
* * * * * * *
124648393 ATAGA-A-A--TTGAAAATAGCTCAGCGCATGAGCCAAGGGTCAACTCACCTCTCGCAATATAAG
1 AAAAACAGATTTTGAAAATACCTC-GCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
124648454 TTGATTTTTTGAAAA
65 TTGATTTTTTGAAAA
124648469 CAGAAATTGA
Statistics
Matches: 384, Mismatches: 69, Indels: 84
0.72 0.13 0.16
Matches are distributed among these distances:
76 9 0.02
77 47 0.12
78 2 0.01
79 64 0.17
80 3 0.01
81 11 0.03
82 38 0.10
83 14 0.04
84 41 0.11
85 9 0.02
86 6 0.02
87 19 0.05
88 115 0.30
90 6 0.02
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.28
Consensus pattern (83 bp):
AAAAACAGATTTTGAAAATACCTCGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTTTGAAAAACTG
Found at i:124648095 original size:30 final size:30
Alignment explanation
Indices: 124648059--124648120 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
124648049 TTTTGAAAAA
124648059 CAGAAATT-AAAAGACTCAACTCAACTCTCG
1 CAGAAATTAAAAAG-CTCAACTCAACTCTCG
*
124648089 CAGAAATTAAAAAGCTCAACTCACCTCTCG
1 CAGAAATTAAAAAGCTCAACTCAACTCTCG
124648119 CA
1 CA
124648121 ATATGAGTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 25 0.83
31 5 0.17
ACGTcount: A:0.42, C:0.29, G:0.10, T:0.19
Consensus pattern (30 bp):
CAGAAATTAAAAAGCTCAACTCAACTCTCG
Found at i:124648239 original size:14 final size:14
Alignment explanation
Indices: 124648216--124648250 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
124648206 TGAGTTGATT
124648216 TTTG-AAAACAGAA
1 TTTGAAAAACAGAA
*
124648229 TTTGAAAAACAGAT
1 TTTGAAAAACAGAA
124648243 TTTGAAAA
1 TTTGAAAA
124648251 TACCTCGACA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.51, C:0.06, G:0.14, T:0.29
Consensus pattern (14 bp):
TTTGAAAAACAGAA
Found at i:124648551 original size:72 final size:73
Alignment explanation
Indices: 124648268--124648608 Score: 380
Period size: 72 Copynumber: 4.5 Consensus size: 73
124648258 ACATGTAACC
* * * *
124648268 CGAGGCTCAACTCACATCTCGCAATGTGAGTTGATTTTTTTGAAAAATATAAATTGAAAAAATAC
1 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTG-AAAACAGAAATTG--AAAATAC
* *
124648333 CTCAGTGTGTGAT
62 CTCAGCGTGT-CT
* * *
124648346 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGATAGAAATTGAAAATAGC
1 C-GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAA-ACAGAAATTGAAAATACC
*
124648411 TCAGCGCATGAGC-
63 TCAGCG--TG-TCT
* * *
124648424 CAAGGGTCAACTCACCTCTCGCAATATAAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCA
1 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCA
*
124648489 ACGTGTCT
66 GCGTGTCT
* ** * * *
124648497 TGAGGCTCAACTCATTTCTCACAATATGAGTTGA-ATTTTGAAAACAGAAATTGAAATTACCTCA
1 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCA
*
124648561 GCGTGTCC
66 GCGTGTCT
124648569 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
124648609 TTTTTTTTTT
Statistics
Matches: 224, Mismatches: 32, Indels: 19
0.81 0.12 0.07
Matches are distributed among these distances:
72 65 0.29
73 33 0.15
75 21 0.09
76 10 0.04
77 41 0.18
78 5 0.02
79 49 0.22
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.30
Consensus pattern (73 bp):
CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCA
GCGTGTCT
Found at i:124648764 original size:74 final size:75
Alignment explanation
Indices: 124648641--124648785 Score: 222
Period size: 74 Copynumber: 1.9 Consensus size: 75
124648631 TTGAAAAATG
*
124648641 GAAATTGAAAATACCTCGACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTT
1 GAAATTGAAAATACCTCGACGTGT-ACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTT
124648706 TTTTGACAATA
65 TTTTGACAATA
* * *
124648717 GAAATTGAAATTACCTC-AGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
1 GAAATTGAAAATACCTCGA-CGTGTACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTT
124648780 TTTTGA
65 TTTTGA
124648786 AAGGCAAAAA
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
74 42 0.66
75 1 0.02
76 21 0.33
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (75 bp):
GAAATTGAAAATACCTCGACGTGTACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTTT
TTTGACAATA
Found at i:124648886 original size:89 final size:88
Alignment explanation
Indices: 124648717--124648890 Score: 253
Period size: 89 Copynumber: 2.0 Consensus size: 88
124648707 TTTGACAATA
* *
124648717 GAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 GAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCACTCGCAATATGAGTTGATTTTT
124648782 TTGAAAGGCAAAAATTGAAAAACG
66 TTGAAA-GCAAAAATTGAAAAACG
* *
124648806 GAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCA-CACTCGCAATGTGAGTTGATTT
1 GAAATTGAAAATACCTCAGCGTGT--CCTGAGGCTCAACTCACCACTCGCAATATGAGTTGATTT
*
124648870 TTTTGACAA-CAGAAATTGAAA
64 TTTTGA-AAGCAAAAATTGAAA
124648891 TTACCTCAGC
Statistics
Matches: 77, Mismatches: 5, Indels: 6
0.88 0.06 0.07
Matches are distributed among these distances:
89 33 0.43
90 26 0.34
91 18 0.23
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (88 bp):
GAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCACTCGCAATATGAGTTGATTTTT
TTGAAAGCAAAAATTGAAAAACG
Found at i:124648917 original size:164 final size:164
Alignment explanation
Indices: 124648465--124648944 Score: 671
Period size: 164 Copynumber: 2.9 Consensus size: 164
124648455 TGATTTTTTG
* * * ** *
124648465 AAAACAGAAATTGAAAATACCTCAACGTGT--CTTGAGGCTCAACTCATTTCTCACAATATGAGT
1 AAAACGGAAATTGAAAATACCTCGACGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGT
* * *
124648528 TGA-ATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCA
66 TGATTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCA
* *
124648592 ATATGAGTTGATTTTTTTTTTTTTTTTGAAATGCAGAAATTGA
131 ATATGAGTTGA---------TTTTTTTGAAAGGCAAAAATTGA
* * *
124648635 AAAATGGAAATTGAAAATACCTCGACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGT
1 AAAACGGAAATTGAAAATACCTCGACGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGT
*
124648700 TGACTTTTTTGACAATAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
66 TGA-TTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
124648765 AATATGAGTTGATTTTTTTGAAAGGCAAAAATTGA
130 AATATGAGTTGATTTTTTTGAAAGGCAAAAATTGA
* * *
124648800 AAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCA-CACTCGCAATGTGAGT
1 AAAACGGAAATTGAAAATACCTCGACGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGT
124648864 TGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
66 TGA-TTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
124648929 AATATGAGTTGATTTT
130 AATATGAGTTGATTTT
124648945 GAAAAAGTAG
Statistics
Matches: 283, Mismatches: 23, Indels: 14
0.88 0.07 0.04
Matches are distributed among these distances:
164 92 0.33
165 66 0.23
170 27 0.10
172 30 0.11
174 68 0.24
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (164 bp):
AAAACGGAAATTGAAAATACCTCGACGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCA
ATATGAGTTGATTTTTTTGAAAGGCAAAAATTGA
Found at i:124649143 original size:72 final size:71
Alignment explanation
Indices: 124649009--124649174 Score: 244
Period size: 72 Copynumber: 2.3 Consensus size: 71
124648999 TGAACAACGT
* * * *
124649009 AAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
1 AAATTAAAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATAT
124649074 GAGTTG
66 GAGTTG
*
124649080 AAATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATA
1 AAATTAAAA-ACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATA
124649145 TGAGTTG
65 TGAGTTG
**
124649152 ATTTTGAAAAACAAAAATT-AAAA
1 AAATT-AAAAACAAAAATTGAAAA
124649175 GGCTTAACTC
Statistics
Matches: 86, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
71 12 0.14
72 70 0.81
73 4 0.05
ACGTcount: A:0.42, C:0.21, G:0.15, T:0.22
Consensus pattern (71 bp):
AAATTAAAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATAT
GAGTTG
Found at i:124649269 original size:122 final size:124
Alignment explanation
Indices: 124649049--124649439 Score: 392
Period size: 122 Copynumber: 3.0 Consensus size: 124
124649039 GCGTGACCTG
* *
124649049 AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAATTGAAAATACCTCAGCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAACTAAAAATACCTCAGCG
124649114 TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAA
66 TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTG-AAAACAAAAATTAAA
* * * *
124649174 AGGCTTAACTCACCTCTCGCAATATGAG-T-CAATTTAAA-ACATAAACTAAAAATACCTCAGCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAACTAAAAATACCTCAGCG
* * *
124649236 TGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAA
66 TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAACAAAAATT-AAA
** * * * * * * * *
124649296 ATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTAAAACACAAAAAT
1 A-GGCTCAAC---TC---A-CCTC-TCGCA-ATAT-G-AGT-TGA---AATTAAAACACAAAAAC
*
124649361 TGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTTGAAA
50 TAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGA--TTTTGAAA
124649426 ACAAAAATTGAAA
113 ACAAAAATT-AAA
124649439 A
1 A
124649440 TACCTCAGCA
Statistics
Matches: 216, Mismatches: 28, Indels: 26
0.80 0.10 0.10
Matches are distributed among these distances:
121 12 0.06
122 66 0.31
123 12 0.06
124 1 0.00
125 27 0.12
126 2 0.01
129 1 0.00
130 3 0.01
131 3 0.01
132 2 0.01
133 1 0.00
134 1 0.00
136 1 0.00
140 6 0.03
141 57 0.26
143 21 0.10
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.25
Consensus pattern (124 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAACTAAAAATACCTCAGCG
TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAACAAAAATTAAA
Found at i:124649316 original size:71 final size:72
Alignment explanation
Indices: 124649174--124649582 Score: 521
Period size: 70 Copynumber: 5.8 Consensus size: 72
124649164 AAAAATTAAA
* * * * *
124649174 AGGCTTAACTCACCTCTCGCAATATGAG-TCA-ATTT-AAAACATAAACTAAAAATACCTCAGCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAAAAATTAAAAATACCTCAGCG
*
124649236 TGCCCTG
66 TGTCCTG
* *
124649243 AGGCTCAACTCACTTCTCGCAATATGAGTTGA-TTTTGAAAACAAAAATTAAAAATACCTCAACG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAAAAATTAAAAATACCTCAGCG
*
124649307 TGTCTTG
66 TGTCCTG
* * *
124649314 AGGCTCAACTCATCTCTCGCAATATGAGTTGA---TTAAAACACAAAAATTGAAAATACCTCAGC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA-ACAAAAATTAAAAATACCTCAGC
* *
124649376 GTGCCCCG
65 GTGTCCTG
* *
124649384 AGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTTGAAAACAAAAATTGAAAATACCTCAGC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAACAAAAATTAAAAATACCTCAGC
* *
124649449 ATGTCTTG
65 GTGTCCTG
** *
124649457 AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTGAAAAC-AAAATT-GAAATACCTCAGCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAAAAATTAAAAATACCTCAGCG
*
124649520 TGTCCCG
66 TGTCCTG
*
124649527 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAACAAAAATTGAAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAAAAATT-AAAAA
124649583 CGGAAATTGA
Statistics
Matches: 295, Mismatches: 35, Indels: 16
0.85 0.10 0.05
Matches are distributed among these distances:
69 31 0.11
70 118 0.40
71 71 0.24
72 11 0.04
73 59 0.20
74 5 0.02
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.27
Consensus pattern (72 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAAAAATTAAAAATACCTCAGCG
TGTCCTG
Found at i:124649478 original size:143 final size:141
Alignment explanation
Indices: 124649174--124649581 Score: 588
Period size: 143 Copynumber: 2.9 Consensus size: 141
124649164 AAAAATTAAA
* * ** * * * *
124649174 AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCAGCGTGC
1 AGGCTCAACTCATCTCTCGCAATATGAGTTGATTAAAAACAAAAATTGAAAATACCTCAGCGTGC
* * *
124649239 CCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGA-TTTTGAAAACAAAAATTAAAAATACCTC
66 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAAAAATTGAAAATACCTC
*
124649303 AACGTGTCTTG
131 AACATGTCTTG
124649314 AGGCTCAACTCATCTCTCGCAATATGAGTTGATTAAAACACAAAAATTGAAAATACCTCAGCGTG
1 AGGCTCAACTCATCTCTCGCAATATGAGTTGATTAAAA-ACAAAAATTGAAAATACCTCAGCGTG
*
124649379 CCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTTGAAAACAAAAATTGAAAATACC
65 CCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAACAAAAATTGAAAATACC
*
124649444 TCAGCATGTCTTG
129 TCAACATGTCTTG
* *
124649457 AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTGAAAAC-AAAATTG-AAATACCTCAGCG
1 AGGCTCAACTCATCTCTCGCAATATGAGTTGA---TTAAAAACAAAAATTGAAAATACCTCAGCG
* *
124649520 TGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAACAAAAATTGAAAA
63 TGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAAAAATTGAAAA
124649582 ACGGAAATTG
Statistics
Matches: 243, Mismatches: 19, Indels: 10
0.89 0.07 0.04
Matches are distributed among these distances:
140 33 0.14
141 57 0.23
142 22 0.09
143 117 0.48
144 7 0.03
145 2 0.01
146 5 0.02
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.27
Consensus pattern (141 bp):
AGGCTCAACTCATCTCTCGCAATATGAGTTGATTAAAAACAAAAATTGAAAATACCTCAGCGTGC
CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAAAAATTGAAAATACCTC
AACATGTCTTG
Found at i:124649675 original size:75 final size:74
Alignment explanation
Indices: 124649585--124649726 Score: 223
Period size: 74 Copynumber: 1.9 Consensus size: 74
124649575 TTGAAAAACG
*
124649585 GAAATTGAAAATACCTC-GCGTGTGACCTGAGGCTCAACTCGCCGCTCGCAATACGAGTTGATTT
1 GAAATTGAAAATACCTCAGCGTGT--CCTGAGGCTCAACTCACCGCTCGCAATACGAGTTGATTT
124649649 TTTTGACAACA
64 TTTTGACAACA
* * *
124649660 GAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 GAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCGCTCGCAATACGAGTTGATTTTT
124649725 TT
66 TT
124649727 TTTTGAAAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
74 40 0.65
75 16 0.26
76 6 0.10
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (74 bp):
GAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCGCTCGCAATACGAGTTGATTTTT
TTGACAACA
Found at i:124649705 original size:161 final size:156
Alignment explanation
Indices: 124649430--124649724 Score: 448
Period size: 161 Copynumber: 1.9 Consensus size: 156
124649420 TTGAAAACAA
* *** *
124649430 AAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTG
1 AAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCGCTCGCAATACGAGTTGATTTTTG
124649495 AAAACAAAATTGAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
66 AAAACAAAATTGAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
124649560 TTTTAAAAACAAAAATTGAAAAACGG
131 TTTTAAAAACAAAAATTGAAAAACGG
* *
124649586 AAATTGAAAATACCTC-GCGTGTGACCTGAGGCTCAACTCGCCGCTCGCAATACGAGTTGATTTT
1 AAATTGAAAATACCTCAGCATGT--CCTGAGGCTCAACTCACCGCTCGCAATACGAGTTGA--TT
* *
124649650 TTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
62 TTTGAAAACA-AAATTGAAA-TACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
124649715 GTTGATTTTT
125 GTTGATTTTT
124649725 TTTTTTGAAA
Statistics
Matches: 124, Mismatches: 9, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
155 5 0.04
156 16 0.13
157 30 0.24
159 11 0.09
160 9 0.07
161 53 0.43
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.29
Consensus pattern (156 bp):
AAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCGCTCGCAATACGAGTTGATTTTTG
AAAACAAAATTGAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
TTTTAAAAACAAAAATTGAAAAACGG
Found at i:124649796 original size:60 final size:61
Alignment explanation
Indices: 124649688--124649809 Score: 183
Period size: 60 Copynumber: 2.0 Consensus size: 61
124649678 GCGTGTCCTG
* *****
124649688 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTTGAAAAACAGAAATT-AAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTGAAAAAAAAACAGAAATTGAAA
124649748 AGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTGAAAAAAAAACAGAAATTGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTGAAAAAAAAACAGAAATTGAAA
124649809 A
1 A
124649810 TACCTCAACG
Statistics
Matches: 55, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
60 51 0.93
61 4 0.07
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.30
Consensus pattern (61 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTGAAAAAAAAACAGAAATTGAAA
Found at i:124649902 original size:72 final size:72
Alignment explanation
Indices: 124649792--124649952 Score: 236
Period size: 72 Copynumber: 2.2 Consensus size: 72
124649782 TTTTTGAAAA
* * * *
124649792 AAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAACAAAAATTGAAAATACCTCAACGTGCCTCGAGGCTCAACTCACCTCTAGCAATATGAGTT
124649857 GAAATT-
66 GAAATTG
*
124649863 AAAACACAAAAATTGAAAATACCTCAGCGTGCCTCGAGGCTCAACTCACCTCTAGCAATATGAGT
1 AAAA-ACAAAAATTGAAAATACCTCAACGTGCCTCGAGGCTCAACTCACCTCTAGCAATATGAGT
**
124649928 TGATTTTG
65 TGAAATTG
124649936 AAAAACAAAAATT-AAAA
1 AAAAACAAAAATTGAAAA
124649953 GGCTTAACTC
Statistics
Matches: 81, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
71 8 0.10
72 69 0.85
73 4 0.05
ACGTcount: A:0.42, C:0.20, G:0.14, T:0.24
Consensus pattern (72 bp):
AAAAACAAAAATTGAAAATACCTCAACGTGCCTCGAGGCTCAACTCACCTCTAGCAATATGAGTT
GAAATTG
Found at i:124650047 original size:122 final size:124
Alignment explanation
Indices: 124649827--124650073 Score: 374
Period size: 122 Copynumber: 2.0 Consensus size: 124
124649817 ACGTGTCTTG
* *
124649827 AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAATTGAAAATACCTCAGCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAACTAAAAATACCTCAGCG
*
124649892 TGCCTCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAA
66 TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTG-AAAACAAAAATTAAA
* * * *
124649952 AGGCTTAACTCACCTCTCGCAATATGAG-T-CAATTTAAA-ACATAAACTAAAAATACCTCAGCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAACTAAAAATACCTCAGCG
* * *
124650014 TGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAACAATTAAA
66 TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAACAAAAATTAAA
124650073 A
1 A
124650074 ATACCTCAAC
Statistics
Matches: 112, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
121 15 0.13
122 62 0.55
123 7 0.06
124 1 0.01
125 27 0.24
ACGTcount: A:0.39, C:0.23, G:0.14, T:0.25
Consensus pattern (124 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAACTAAAAATACCTCAGCG
TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAACAAAAATTAAA
Found at i:124650095 original size:71 final size:70
Alignment explanation
Indices: 124649952--124650123 Score: 215
Period size: 71 Copynumber: 2.5 Consensus size: 70
124649942 AAAAATTAAA
* * * *
124649952 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTTAAAACATAAACTAAAAATACCTCAGCGTG
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGAATTTAAAACATAAACTAAAAATACCTCAACGTG
124650016 CCCCG
66 CCCCG
* *
124650021 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACA-ACAATTAAAAATACCTCAACG
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGAATTT-AAAACATA-AACTAAAAATACCTCAACG
* **
124650085 TGTCTTG
64 TGCCCCG
124650092 AGGCTCAACTCA-TCTCTCGCAATATGAGTTGA
1 AGGCTCAACTCACT-TCTCGCAATATGAGTTGA
124650124 GTTTCCTTGA
Statistics
Matches: 90, Mismatches: 9, Indels: 6
0.86 0.09 0.06
Matches are distributed among these distances:
69 26 0.29
70 7 0.08
71 57 0.63
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.27
Consensus pattern (70 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTTGAATTTAAAACATAAACTAAAAATACCTCAACGTG
CCCCG
Found at i:124655175 original size:12 final size:12
Alignment explanation
Indices: 124655155--124655190 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
124655145 TGGGATATGC
*
124655155 AATGTATGAATG
1 AATGCATGAATG
124655167 AATGCATGAATG
1 AATGCATGAATG
124655179 AATGCATGAATG
1 AATGCATGAATG
124655191 TCAAATGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.42, C:0.06, G:0.25, T:0.28
Consensus pattern (12 bp):
AATGCATGAATG
Found at i:124657030 original size:24 final size:25
Alignment explanation
Indices: 124656991--124657051 Score: 72
Period size: 24 Copynumber: 2.4 Consensus size: 25
124656981 AAAATTTACA
124656991 ACAATAATATAAAATA-ATGATATGT
1 ACAATAATATAAAATATAT-ATATGT
*
124657016 ACAAT-ATATATAATATATATATGT
1 ACAATAATATAAAATATATATATGT
*
124657040 ACATAAAATATA
1 ACA-ATAATATA
124657052 CACTAATATA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
24 18 0.58
25 8 0.26
26 5 0.16
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.34
Consensus pattern (25 bp):
ACAATAATATAAAATATATATATGT
Found at i:124658255 original size:29 final size:29
Alignment explanation
Indices: 124658213--124658270 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
124658203 TATTAACCGA
124658213 TTCCATAGATCTATGTAGTTCCAAAAAAG
1 TTCCATAGATCTATGTAGTTCCAAAAAAG
124658242 TTCCATAGATCTATGTAGTTCCAAAAAAG
1 TTCCATAGATCTATGTAGTTCCAAAAAAG
124658271 AATTTATTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.31
Consensus pattern (29 bp):
TTCCATAGATCTATGTAGTTCCAAAAAAG
Found at i:124674341 original size:15 final size:15
Alignment explanation
Indices: 124674321--124674363 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
124674311 TATTAGAAAT
124674321 AAATAGATATTATAA
1 AAATAGATATTATAA
124674336 AAATAGA-A--AT--
1 AAATAGATATTATAA
124674346 AAATAGATATTATAA
1 AAATAGATATTATAA
124674361 AAA
1 AAA
124674364 GAAACTAGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 10
0.70 0.00 0.30
Matches are distributed among these distances:
10 7 0.30
11 1 0.04
12 2 0.09
13 2 0.09
14 1 0.04
15 10 0.43
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (15 bp):
AAATAGATATTATAA
Found at i:124674342 original size:25 final size:25
Alignment explanation
Indices: 124674314--124674363 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
124674304 AAATATTTAT
124674314 TAGAAATAAATAGATATTATAAAAA
1 TAGAAATAAATAGATATTATAAAAA
124674339 TAGAAATAAATAGATATTATAAAAA
1 TAGAAATAAATAGATATTATAAAAA
124674364 GAAACTAGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.08, T:0.28
Consensus pattern (25 bp):
TAGAAATAAATAGATATTATAAAAA
Found at i:124680054 original size:31 final size:33
Alignment explanation
Indices: 124679991--124680064 Score: 100
Period size: 33 Copynumber: 2.3 Consensus size: 33
124679981 AAAATGAAAA
* *
124679991 TAAATTAATAATTTATTTTAATTATACTTAAAT
1 TAAATTATTAATTTATTCTAATTATACTTAAAT
*
124680024 TAAATTATTAATTT-TTCTATTTA-ACTTAAAT
1 TAAATTATTAATTTATTCTAATTATACTTAAAT
124680055 TAAA-TATTAA
1 TAAATTATTAA
124680065 ATAATAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
30 6 0.16
31 12 0.32
32 7 0.18
33 13 0.34
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (33 bp):
TAAATTATTAATTTATTCTAATTATACTTAAAT
Found at i:124680070 original size:10 final size:10
Alignment explanation
Indices: 124680057--124680276 Score: 83
Period size: 11 Copynumber: 21.4 Consensus size: 10
124680047 ACTTAAATTA
*
124680057 AATATTAAAT
1 AATAATAAAT
124680067 AATAATAAAT
1 AATAATAAAT
** *
124680077 TCTAAATATACT
1 AAT-AATA-AAT
124680089 AA-ATATAAAT
1 AATA-ATAAAT
124680099 AATAACTAAAT
1 AATAA-TAAAT
124680110 AATAACTAAAT
1 AATAA-TAAAT
124680121 AGA-AAT--A-
1 A-ATAATAAAT
124680128 AA-AATAAAT
1 AATAATAAAT
124680137 AATAACTAAAT
1 AATAA-TAAAT
124680148 AGA-AATAAAAT
1 A-ATAAT-AAAT
124680159 AATAACTAAAT
1 AATAA-TAAAT
124680170 AGA-AATAAA-
1 A-ATAATAAAT
*
124680179 AAT-ATATAT
1 AATAATAAAT
*
124680188 AAATAATATAT
1 -AATAATAAAT
*
124680199 -AT-ATATAT
1 AATAATAAAT
124680207 ATATATATAAAAT
1 A-ATA-AT-AAAT
124680220 AATAATAAAT
1 AATAATAAAT
124680230 --T-ATAAAT
1 AATAATAAAT
124680237 AGATAATATAAT
1 A-ATAATA-AAT
124680249 AATAGATAGAAT
1 AATA-ATA-AAT
124680261 AATAAAATAAAT
1 AAT--AATAAAT
124680273 AATA
1 AATA
124680277 TAGAAATATA
Statistics
Matches: 167, Mismatches: 10, Indels: 66
0.69 0.04 0.27
Matches are distributed among these distances:
6 4 0.02
7 7 0.04
8 14 0.08
9 5 0.03
10 36 0.22
11 63 0.38
12 30 0.18
13 7 0.04
14 1 0.01
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (10 bp):
AATAATAAAT
Found at i:124680171 original size:22 final size:22
Alignment explanation
Indices: 124680106--124680179 Score: 103
Period size: 22 Copynumber: 3.1 Consensus size: 22
124680096 AATAATAACT
124680106 AAATAATAACTAAATAGAAATAAAAA
1 AAATAATAACTAAATAGAAAT----A
124680132 TAAATAATAACTAAATAGAAATA
1 -AAATAATAACTAAATAGAAATA
124680155 AAATAATAACTAAATAGAAATA
1 AAATAATAACTAAATAGAAATA
124680177 AAA
1 AAA
124680180 ATATATATAA
Statistics
Matches: 47, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
22 25 0.53
23 1 0.02
27 21 0.45
ACGTcount: A:0.70, C:0.04, G:0.04, T:0.22
Consensus pattern (22 bp):
AAATAATAACTAAATAGAAATA
Found at i:124680187 original size:2 final size:2
Alignment explanation
Indices: 124680180--124680215 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
124680170 AGAAATAAAA
*
124680180 AT AT AT AT AA AT A- AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
124680216 AAATAATAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:124680247 original size:20 final size:20
Alignment explanation
Indices: 124680218--124680325 Score: 61
Period size: 20 Copynumber: 5.5 Consensus size: 20
124680208 TATATATAAA
124680218 ATAATAATAAATTATAAATAG
1 ATAAT-ATAAATTATAAATAG
* *
124680239 ATAATAT-AATAATAGATAG
1 ATAATATAAATTATAAATAG
*
124680258 AATAATA-AAATAAATAATATAG
1 -ATAATATAAAT-TATAA-ATAG
* *
124680280 A-AATATAGATTTATAAATCG
1 ATAATATA-AATTATAAATAG
*
124680300 A-AATAT--ATTA-ATATA-
1 ATAATATAAATTATAAATAG
124680315 ATAATATAAAT
1 ATAATATAAAT
124680326 ATTATTAATT
Statistics
Matches: 69, Mismatches: 9, Indels: 21
0.70 0.09 0.21
Matches are distributed among these distances:
15 1 0.01
16 8 0.12
17 3 0.04
18 2 0.03
19 10 0.14
20 24 0.35
21 15 0.22
22 6 0.09
ACGTcount: A:0.60, C:0.01, G:0.06, T:0.33
Consensus pattern (20 bp):
ATAATATAAATTATAAATAG
Found at i:124680252 original size:15 final size:15
Alignment explanation
Indices: 124680190--124680286 Score: 57
Period size: 15 Copynumber: 6.5 Consensus size: 15
124680180 ATATATATAA
*
124680190 ATAATATATATATATAT
1 ATAATATA-ATA-ATAG
124680207 ATATATATAA-AATA-
1 ATA-ATATAATAATAG
*
124680221 ATAATAAATTATAAATAG
1 ATAAT--ATAAT-AATAG
124680239 ATAATATAATAATAG
1 ATAATATAATAATAG
124680254 ATAGA-ATAATAA-A-
1 ATA-ATATAATAATAG
124680267 ATAA-ATAAT-ATAG
1 ATAATATAATAATAG
124680280 A-AATATA
1 ATAATATA
124680287 GATTTATAAA
Statistics
Matches: 68, Mismatches: 2, Indels: 24
0.72 0.02 0.26
Matches are distributed among these distances:
11 1 0.01
12 9 0.13
13 9 0.13
14 4 0.06
15 21 0.31
16 6 0.09
17 8 0.12
18 10 0.15
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (15 bp):
ATAATATAATAATAG
Found at i:124680275 original size:32 final size:29
Alignment explanation
Indices: 124680050--124680278 Score: 135
Period size: 32 Copynumber: 7.5 Consensus size: 29
124680040 CTATTTAACT
* **
124680050 TAAATTAAATATTA-AATAATAATAAATTC
1 TAAA-TAAATAATATAATAATAATAAATAA
*
124680079 TAAATATACTAAATATAAATAATAACTAAATAA
1 TAAATA-AAT-AATAT-AATAATAA-TAAATAA
* * *
124680112 TAACTAAAT-AGA-AATAAAAATAAATAA
1 TAAATAAATAATATAATAATAATAAATAA
* *
124680139 TAACTAAATAGAAATAAAATAATAACTAAAT-A
1 TAAATAAAT---AATATAATAATAA-TAAATAA
* *
124680171 GAAATAAA-AATATATATAAATAATATATATA
1 TAAATAAATAATATA-AT-AATAATAAATA-A
* * * *
124680202 TATATATATATATAAAATAATAATAAATTA
1 TAAATAAATA-ATATAATAATAATAAATAA
*
124680232 TAAATAGATAATATAATAATAGATAGAATAA
1 TAAATAAATAATATAATAATA-ATA-AATAA
124680263 TAAAATAAATAATATA
1 T-AAATAAATAATATA
124680279 GAAATATAGA
Statistics
Matches: 155, Mismatches: 25, Indels: 37
0.71 0.12 0.17
Matches are distributed among these distances:
27 16 0.10
28 14 0.09
29 22 0.14
30 22 0.14
31 22 0.14
32 40 0.26
33 19 0.12
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (29 bp):
TAAATAAATAATATAATAATAATAAATAA
Found at i:124680331 original size:23 final size:23
Alignment explanation
Indices: 124680300--124680383 Score: 64
Period size: 26 Copynumber: 3.6 Consensus size: 23
124680290 TTATAAATCG
124680300 AAATA-TATTAATATAATAATAT
1 AAATATTATTAATATAATAATAT
* *
124680322 AAATATTATTAATTACTTAATATTCT
1 AAATATTATTAA-TA--TAATAATAT
* * *
124680348 TAATATTAATAACA-AATAATAT
1 AAATATTATTAATATAATAATAT
*
124680370 AAATTAATATTAAT
1 AAA-TATTATTAAT
124680384 TGCTAATAAC
Statistics
Matches: 46, Mismatches: 11, Indels: 9
0.70 0.17 0.14
Matches are distributed among these distances:
22 13 0.28
23 13 0.28
24 2 0.04
25 1 0.02
26 17 0.37
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.43
Consensus pattern (23 bp):
AAATATTATTAATATAATAATAT
Found at i:124680391 original size:26 final size:26
Alignment explanation
Indices: 124680304--124680392 Score: 82
Period size: 23 Copynumber: 3.7 Consensus size: 26
124680294 AAATCGAAAT
124680304 ATATTAA-TA-TAATAATATAAA-TA
1 ATATTAATTACTAATAATATAAATTA
* **
124680327 TTATTAATTACT--TAATAT-TCTTA
1 ATATTAATTACTAATAATATAAATTA
* *
124680350 ATATTAATAACAAATAATATAAATTA
1 ATATTAATTACTAATAATATAAATTA
*
124680376 ATATTAATTGCTAATAA
1 ATATTAATTACTAATAA
124680393 CTTGTAATTT
Statistics
Matches: 49, Mismatches: 11, Indels: 9
0.71 0.16 0.13
Matches are distributed among these distances:
23 23 0.47
24 2 0.04
25 7 0.14
26 17 0.35
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (26 bp):
ATATTAATTACTAATAATATAAATTA
Found at i:124686050 original size:15 final size:15
Alignment explanation
Indices: 124686032--124686062 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
124686022 ATCTCTCATC
124686032 TATCTATCTATTTTT
1 TATCTATCTATTTTT
124686047 TATCTATCTATTTTT
1 TATCTATCTATTTTT
124686062 T
1 T
124686063 CTTTAGTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.13, G:0.00, T:0.68
Consensus pattern (15 bp):
TATCTATCTATTTTT
Found at i:124686763 original size:16 final size:17
Alignment explanation
Indices: 124686736--124686769 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
124686726 AAATGGATTT
124686736 AATAGAAATTAAATAGA
1 AATAGAAATTAAATAGA
124686753 AATAG-AATTAAATAGA
1 AATAGAAATTAAATAGA
124686769 A
1 A
124686770 TTCTCTAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.65, C:0.00, G:0.12, T:0.24
Consensus pattern (17 bp):
AATAGAAATTAAATAGA
Found at i:124687699 original size:15 final size:15
Alignment explanation
Indices: 124687670--124687731 Score: 54
Period size: 16 Copynumber: 4.0 Consensus size: 15
124687660 GTAGAAAGCC
* *
124687670 TATTTTTTTTTCTAG
1 TATTTTATTTACTAG
124687685 TATTTTATTTACTAG
1 TATTTTATTTACTAG
**
124687700 CGTGTTTATTTACTAGCG
1 TAT-TTTATTTACTA--G
124687718 TA-TTTATTTACTAG
1 TATTTTATTTACTAG
124687732 CGTATTTGCT
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
14 1 0.03
15 14 0.37
16 22 0.58
18 1 0.03
ACGTcount: A:0.21, C:0.10, G:0.11, T:0.58
Consensus pattern (15 bp):
TATTTTATTTACTAG
Found at i:124687709 original size:16 final size:16
Alignment explanation
Indices: 124687688--124687738 Score: 93
Period size: 16 Copynumber: 3.2 Consensus size: 16
124687678 TTTCTAGTAT
*
124687688 TTTATTTACTAGCGTG
1 TTTATTTACTAGCGTA
124687704 TTTATTTACTAGCGTA
1 TTTATTTACTAGCGTA
124687720 TTTATTTACTAGCGTA
1 TTTATTTACTAGCGTA
124687736 TTT
1 TTT
124687739 GCTCTTTCTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.22, C:0.12, G:0.14, T:0.53
Consensus pattern (16 bp):
TTTATTTACTAGCGTA
Found at i:124689089 original size:13 final size:14
Alignment explanation
Indices: 124689056--124689089 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
124689046 GCCCGGAGGC
*
124689056 TAAAGAAAAAGTGA
1 TAAAAAAAAAGTGA
124689070 TAAAAAAAAAGTGA
1 TAAAAAAAAAGTGA
124689084 TGAAAA
1 T-AAAA
124689090 GTTTTCTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 14 0.78
15 4 0.22
ACGTcount: A:0.68, C:0.00, G:0.18, T:0.15
Consensus pattern (14 bp):
TAAAAAAAAAGTGA
Found at i:124690367 original size:34 final size:33
Alignment explanation
Indices: 124690328--124690421 Score: 104
Period size: 34 Copynumber: 2.8 Consensus size: 33
124690318 TTTTGTATTG
*
124690328 TATATAATGTATACAAAA-AATAGAAATAAATATA
1 TATATAATATATA-AAAATAATAGAAATAAATA-A
** *
124690362 TATATAATATATAAAAATAATATTAATAATTAA
1 TATATAATATATAAAAATAATAGAAATAAATAA
124690395 TATATAA-ATATAAAAATATATA-AAATA
1 TATATAATATATAAAAATA-ATAGAAATA
124690422 TTTAGATATA
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
32 15 0.28
33 15 0.28
34 23 0.43
ACGTcount: A:0.63, C:0.01, G:0.02, T:0.34
Consensus pattern (33 bp):
TATATAATATATAAAAATAATAGAAATAAATAA
Found at i:124690373 original size:9 final size:9
Alignment explanation
Indices: 124690359--124690454 Score: 57
Period size: 9 Copynumber: 11.3 Consensus size: 9
124690349 AGAAATAAAT
124690359 ATATATATA
1 ATATATATA
124690368 ATATATA-A
1 ATATATATA
*
124690376 AAATAATATTA
1 ATAT-ATA-TA
124690387 ATA-AT-TA
1 ATATATATA
124690394 ATATATA-A
1 ATATATATA
124690402 ATATA-A-A
1 ATATATATA
124690409 A-ATATATA
1 ATATATATA
* *
124690417 AAATATTTA
1 ATATATATA
124690426 GATATA-A-A
1 -ATATATATA
* *
124690434 ATATTTAGA
1 ATATATATA
124690443 ATATATATA
1 ATATATATA
124690452 ATA
1 ATA
124690455 AAATAGATAT
Statistics
Matches: 68, Mismatches: 8, Indels: 22
0.69 0.08 0.22
Matches are distributed among these distances:
6 3 0.04
7 13 0.19
8 16 0.24
9 29 0.43
10 4 0.06
11 3 0.04
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (9 bp):
ATATATATA
Found at i:124690379 original size:25 final size:25
Alignment explanation
Indices: 124690351--124690505 Score: 96
Period size: 25 Copynumber: 6.4 Consensus size: 25
124690341 CAAAAAATAG
124690351 AAATAAATATATATATAATATATAA
1 AAATAAATATATATATAATATATAA
124690376 AAAT-AATAT-TAATAATTAATATATAA
1 AAATAAATATAT-AT-A-TAATATATAA
* * * * *
124690402 ATATAAAAATATATAAAATATTTAG
1 AAATAAATATATATATAATATATAA
* * *
124690427 ATATAAA-ATATTTAGAATATAT-A
1 AAATAAATATATATATAATATATAA
* *
124690450 TAATAAA-ATAGATATAATATAT--
1 AAATAAATATATATATAATATATAA
124690472 AAATAAAT-TGA-ATATAATAT-TAA
1 AAATAAATAT-ATATATAATATATAA
124690495 ATAGATAAATA
1 A-A-ATAAATA
124690506 AATTAAACCA
Statistics
Matches: 103, Mismatches: 15, Indels: 23
0.73 0.11 0.16
Matches are distributed among these distances:
21 1 0.01
22 16 0.16
23 20 0.19
24 20 0.19
25 25 0.24
26 14 0.14
27 6 0.06
28 1 0.01
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (25 bp):
AAATAAATATATATATAATATATAA
Found at i:124690432 original size:15 final size:16
Alignment explanation
Indices: 124690412--124690447 Score: 65
Period size: 15 Copynumber: 2.3 Consensus size: 16
124690402 ATATAAAAAT
124690412 ATATAAAATATTTAG-
1 ATATAAAATATTTAGA
124690427 ATATAAAATATTTAGA
1 ATATAAAATATTTAGA
124690443 ATATA
1 ATATA
124690448 TATAATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 15 0.75
16 5 0.25
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.39
Consensus pattern (16 bp):
ATATAAAATATTTAGA
Found at i:124690486 original size:22 final size:22
Alignment explanation
Indices: 124690351--124690497 Score: 75
Period size: 23 Copynumber: 6.2 Consensus size: 22
124690341 CAAAAAATAG
*
124690351 AAATAAATATATATATAATATAT
1 AAATAAA-ATAGATATAATATAT
*
124690374 AAA-AATAATATTAATAATTAATATAT
1 AAATAA-AATA--GAT-A-TAATATAT
* * *
124690400 AAATATAAAAATATATAAAATATTT
1 -AA-AT-AAAATAGATATAATATAT
** *
124690425 AGATATAAAATATTTAGAATATAT
1 A-A-ATAAAATAGATATAATATAT
124690449 ATAATAAAATAGATATAATATAT
1 A-AATAAAATAGATATAATATAT
*
124690472 AAAT-AAATTGAATATAATAT-T
1 AAATAAAATAG-ATATAATATAT
124690493 AAATA
1 AAATA
124690498 GATAAATAAA
Statistics
Matches: 100, Mismatches: 12, Indels: 25
0.73 0.09 0.18
Matches are distributed among these distances:
21 10 0.10
22 17 0.17
23 22 0.22
24 20 0.20
25 11 0.11
26 9 0.09
27 4 0.04
28 1 0.01
29 4 0.04
30 2 0.02
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (22 bp):
AAATAAAATAGATATAATATAT
Found at i:124690902 original size:13 final size:13
Alignment explanation
Indices: 124690884--124690910 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
124690874 GTTATTCATA
124690884 ATTAATATGAATT
1 ATTAATATGAATT
124690897 ATTAATATGAATT
1 ATTAATATGAATT
124690910 A
1 A
124690911 GAGACTCGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.44
Consensus pattern (13 bp):
ATTAATATGAATT
Found at i:124691099 original size:19 final size:21
Alignment explanation
Indices: 124691071--124691118 Score: 66
Period size: 19 Copynumber: 2.4 Consensus size: 21
124691061 AAATTAAAAT
124691071 TTTATATATATA-TTTAT-TA
1 TTTATATATATATTTTATATA
*
124691090 TTTATCTATATATTTTATATA
1 TTTATATATATATTTTATATA
124691111 TTTA-ATAT
1 TTTATATAT
124691119 CTTTTTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 11 0.44
20 8 0.32
21 6 0.24
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.62
Consensus pattern (21 bp):
TTTATATATATATTTTATATA
Found at i:124691210 original size:17 final size:17
Alignment explanation
Indices: 124691188--124691226 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
124691178 CTGACTCCAT
*
124691188 TTTTAT-TTTCTAGTTTA
1 TTTTATATTT-TAGTATA
124691205 TTTTATATTTTAGTATA
1 TTTTATATTTTAGTATA
124691222 TTTTA
1 TTTTA
124691227 CATCTAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 17 0.85
18 3 0.15
ACGTcount: A:0.23, C:0.03, G:0.05, T:0.69
Consensus pattern (17 bp):
TTTTATATTTTAGTATA
Found at i:124691392 original size:15 final size:17
Alignment explanation
Indices: 124691362--124691393 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
124691352 GTCAAAATCT
124691362 TTTTATGCAGTTATATA
1 TTTTATGCAGTTATATA
124691379 TTTTATG-A-TTATATA
1 TTTTATGCAGTTATATA
124691394 AATGAAACGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.31, C:0.03, G:0.09, T:0.56
Consensus pattern (17 bp):
TTTTATGCAGTTATATA
Found at i:124691511 original size:9 final size:9
Alignment explanation
Indices: 124691486--124691516 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
124691476 AAATTGTGAA
124691486 AAATAAAAT
1 AAATAAAAT
124691495 AGAATAAAAT
1 A-AATAAAAT
124691505 AAATAAAAT
1 AAATAAAAT
124691514 AAA
1 AAA
124691517 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:124695963 original size:9 final size:9
Alignment explanation
Indices: 124695938--124695968 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
124695928 AATTTGTGAA
124695938 AAATAAAAT
1 AAATAAAAT
124695947 AGAATAAAAT
1 A-AATAAAAT
124695957 AAATAAAAT
1 AAATAAAAT
124695966 AAA
1 AAA
124695969 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:124696854 original size:18 final size:18
Alignment explanation
Indices: 124696827--124696869 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
124696817 CGCATAAAAA
* *
124696827 GAAAGCAAATAAATAAAC
1 GAAAGAAAATAAACAAAC
*
124696845 GAAAGAAAATAAACAAAT
1 GAAAGAAAATAAACAAAC
124696863 GAAAGAA
1 GAAAGAA
124696870 GGGGGAAAGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.70, C:0.07, G:0.14, T:0.09
Consensus pattern (18 bp):
GAAAGAAAATAAACAAAC
Found at i:124696898 original size:17 final size:18
Alignment explanation
Indices: 124696866--124696900 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
124696856 AACAAATGAA
*
124696866 AGAAGGGGGAAAGGAGGG
1 AGAAAGGGGAAAGGAGGG
124696884 AGAAAGGGG-AAGGAGGG
1 AGAAAGGGGAAAGGAGGG
124696901 GCATCCTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.40, C:0.00, G:0.60, T:0.00
Consensus pattern (18 bp):
AGAAAGGGGAAAGGAGGG
Found at i:124701611 original size:15 final size:15
Alignment explanation
Indices: 124701591--124701621 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
124701581 GACGGTTCCG
124701591 TGTGCTCTGATTCAT
1 TGTGCTCTGATTCAT
124701606 TGTGCTCTGATTCAT
1 TGTGCTCTGATTCAT
124701621 T
1 T
124701622 ACTGATACAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.13, C:0.19, G:0.19, T:0.48
Consensus pattern (15 bp):
TGTGCTCTGATTCAT
Found at i:124705066 original size:20 final size:19
Alignment explanation
Indices: 124705036--124705119 Score: 70
Period size: 20 Copynumber: 4.4 Consensus size: 19
124705026 GATGTTAGAA
124705036 TATTAATTCTATTATATATT
1 TATT-ATTCTATTATATATT
124705056 TATCTATTCTATTATATA--
1 TAT-TATTCTATTATATATT
*
124705074 TA-TATTCTAATATATATT
1 TATTATTCTATTATATATT
124705092 AGTATTATT-T-TTATATTATT
1 --TATTATTCTATTATA-TATT
124705112 TATCTATT
1 TAT-TATT
124705120 TCTTATCTAT
Statistics
Matches: 54, Mismatches: 2, Indels: 17
0.74 0.03 0.23
Matches are distributed among these distances:
16 13 0.24
18 5 0.09
19 8 0.15
20 23 0.43
21 5 0.09
ACGTcount: A:0.33, C:0.06, G:0.01, T:0.60
Consensus pattern (19 bp):
TATTATTCTATTATATATT
Found at i:124705081 original size:16 final size:17
Alignment explanation
Indices: 124705041--124705090 Score: 57
Period size: 16 Copynumber: 2.8 Consensus size: 17
124705031 TAGAATATTA
124705041 ATTCTATTATATATTTATCT
1 ATTCTATTATATA--TA-CT
124705061 ATTCTATTATATATA-T
1 ATTCTATTATATATACT
*
124705077 ATTCTAATATATAT
1 ATTCTATTATATAT
124705091 TAGTATTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
16 14 0.48
18 2 0.07
20 13 0.45
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTCTATTATATATACT
Found at i:124706845 original size:18 final size:18
Alignment explanation
Indices: 124706824--124706860 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
124706814 AATTCGACGC
* *
124706824 AGTGGATAAATTAGATAA
1 AGTGGAAAAATGAGATAA
124706842 AGTGGAAAAATGAGATAA
1 AGTGGAAAAATGAGATAA
124706860 A
1 A
124706861 CCAGCTTCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.24, T:0.22
Consensus pattern (18 bp):
AGTGGAAAAATGAGATAA
Found at i:124709735 original size:17 final size:17
Alignment explanation
Indices: 124709713--124709746 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
124709703 ATAGATTCGC
*
124709713 TTAGATATACTTAGTAT
1 TTAGATATAATTAGTAT
124709730 TTAGATATAATTAGTAT
1 TTAGATATAATTAGTAT
124709747 AATATACGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.12, T:0.47
Consensus pattern (17 bp):
TTAGATATAATTAGTAT
Found at i:124715876 original size:27 final size:27
Alignment explanation
Indices: 124715811--124715868 Score: 116
Period size: 27 Copynumber: 2.1 Consensus size: 27
124715801 ACAATCATAC
124715811 ATCACATAGGGGCATAACAGTCATTTT
1 ATCACATAGGGGCATAACAGTCATTTT
124715838 ATCACATAGGGGCATAACAGTCATTTT
1 ATCACATAGGGGCATAACAGTCATTTT
124715865 ATCA
1 ATCA
124715869 ATTGGGGGTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.29
Consensus pattern (27 bp):
ATCACATAGGGGCATAACAGTCATTTT
Found at i:124720964 original size:42 final size:42
Alignment explanation
Indices: 124720917--124721003 Score: 138
Period size: 42 Copynumber: 2.1 Consensus size: 42
124720907 AGGCACGTGA
* *
124720917 CTTCAATCAATTTCACTAAAACTTCAAGGAGATCTGTTGTAG
1 CTTCAATCAATTCCACTAAAACTTCAAGGAGATCCGTTGTAG
* *
124720959 CTTCAATCAATTCCACTGAAACTTCAAGGAGATCCGTTGTGG
1 CTTCAATCAATTCCACTAAAACTTCAAGGAGATCCGTTGTAG
124721001 CTT
1 CTT
124721004 TTAGCTGCTC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (42 bp):
CTTCAATCAATTCCACTAAAACTTCAAGGAGATCCGTTGTAG
Found at i:124721714 original size:43 final size:44
Alignment explanation
Indices: 124721647--124721733 Score: 124
Period size: 43 Copynumber: 2.0 Consensus size: 44
124721637 GGAGACGAAA
* *
124721647 TCTGTAATTTTCAGCCTATTACCCTACTGCTTAAGGGG-TTAAGG
1 TCTGTAAATTTCAACCTATTACCCTACTGCTT-AGGGGTTTAAGG
*
124721691 TCTGTAAATTT-AACCTGTTACCCTACTGCTTAGGGGTTTAAGG
1 TCTGTAAATTTCAACCTATTACCCTACTGCTTAGGGGTTTAAGG
124721734 CTTGGTGAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
42 5 0.13
43 24 0.62
44 10 0.26
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.37
Consensus pattern (44 bp):
TCTGTAAATTTCAACCTATTACCCTACTGCTTAGGGGTTTAAGG
Found at i:124724029 original size:40 final size:40
Alignment explanation
Indices: 124723969--124724136 Score: 203
Period size: 40 Copynumber: 4.2 Consensus size: 40
124723959 CATTTGAATC
* * *
124723969 ATATTCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTG-TT
* *
124724009 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTT
* ***
124724049 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTT
* * * *
124724089 AAATCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTT
124724129 ATATCCGG
1 ATATCCGG
124724137 TTAAATTCTG
Statistics
Matches: 108, Mismatches: 19, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
40 106 0.98
41 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTT
Found at i:124737336 original size:3 final size:3
Alignment explanation
Indices: 124737328--124737393 Score: 132
Period size: 3 Copynumber: 22.0 Consensus size: 3
124737318 GTATATGTAT
124737328 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
124737376 ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA
124737394 CATAGATATG
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:124737542 original size:2 final size:2
Alignment explanation
Indices: 124737537--124737569 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
124737527 TATATACGCG
124737537 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
124737570 TGAAGATATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:124739033 original size:5 final size:5
Alignment explanation
Indices: 124739025--124739049 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
124739015 TTACTTTATC
124739025 CTTCT CTTCT CTTCT CTTCT CTTCT
1 CTTCT CTTCT CTTCT CTTCT CTTCT
124739050 GTAATCTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (5 bp):
CTTCT
Found at i:124740855 original size:44 final size:44
Alignment explanation
Indices: 124740792--124740927 Score: 146
Period size: 51 Copynumber: 2.9 Consensus size: 44
124740782 GGCACTCTCT
* *
124740792 TTCTCTCTTTAACCTAACTTTATATTTGTCATTTATGTGTGTCG
1 TTCTCTCTTTAACCCAACTTTATATGTGTCATTTATGTGTGTCG
* *
124740836 TTCTCTCTTTAACCCAACTTAAAACTTAATATGTGCCATTTATGTGTGTCT
1 TTCTCTCTTTAACCCAAC-T-----TT-ATATGTGTCATTTATGTGTGTCG
* * *
124740887 TTCTCTCTTTAATCCAACTTAAAATGTGTCATTTATGTGTG
1 TTCTCTCTTTAACCCAACTTTATATGTGTCATTTATGTGTG
124740928 CTTACATGGC
Statistics
Matches: 77, Mismatches: 8, Indels: 14
0.78 0.08 0.14
Matches are distributed among these distances:
44 35 0.45
45 2 0.03
50 3 0.04
51 37 0.48
ACGTcount: A:0.23, C:0.19, G:0.11, T:0.47
Consensus pattern (44 bp):
TTCTCTCTTTAACCCAACTTTATATGTGTCATTTATGTGTGTCG
Found at i:124740876 original size:51 final size:51
Alignment explanation
Indices: 124740807--124740910 Score: 163
Period size: 51 Copynumber: 2.0 Consensus size: 51
124740797 TCTTTAACCT
* * *
124740807 AACTTTATATTTGTCATTTATGTGTGTCGTTCTCTCTTTAACCCAACTTAA
1 AACTTAATATGTGCCATTTATGTGTGTCGTTCTCTCTTTAACCCAACTTAA
* *
124740858 AACTTAATATGTGCCATTTATGTGTGTCTTTCTCTCTTTAATCCAACTTAA
1 AACTTAATATGTGCCATTTATGTGTGTCGTTCTCTCTTTAACCCAACTTAA
124740909 AA
1 AA
124740911 TGTGTCATTT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.26, C:0.19, G:0.10, T:0.45
Consensus pattern (51 bp):
AACTTAATATGTGCCATTTATGTGTGTCGTTCTCTCTTTAACCCAACTTAA
Found at i:124740959 original size:17 final size:17
Alignment explanation
Indices: 124740937--124740970 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
124740927 GCTTACATGG
124740937 CTTTTTAGGATTACAAA
1 CTTTTTAGGATTACAAA
124740954 CTTTTTAGGATTACAAA
1 CTTTTTAGGATTACAAA
124740971 TCAAATTAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (17 bp):
CTTTTTAGGATTACAAA
Found at i:124741731 original size:17 final size:17
Alignment explanation
Indices: 124741709--124741742 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
124741699 CTTTCTATTT
124741709 GTTATATTGTTATTTGC
1 GTTATATTGTTATTTGC
124741726 GTTATATTGTTATTTGC
1 GTTATATTGTTATTTGC
124741743 AACCAAAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.18, C:0.06, G:0.18, T:0.59
Consensus pattern (17 bp):
GTTATATTGTTATTTGC
Found at i:124743734 original size:3 final size:3
Alignment explanation
Indices: 124743726--124743951 Score: 53
Period size: 3 Copynumber: 72.3 Consensus size: 3
124743716 AAAAAATGAC
*
124743726 ATA ATA AT- ATA A-A ATA ATT ATA ATA TATA AT- ATGA A-A ATA CATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA AT-A ATA ATA -ATA
* *
124743770 TGTA AAA ATA ATA CATA ATA TATA TATAA ATA ATTA ATAA ATA TATA ATA
1 -ATA ATA ATA ATA -ATA ATA -ATA -AT-A ATA A-TA AT-A ATA -ATA ATA
* * * *
124743820 CA-A GTA AAA AT- ATA ATA ATA ATA TATAA ATA ATG AT- GTA A-A ATA
1 -ATA ATA ATA ATA ATA ATA ATA ATA -AT-A ATA ATA ATA ATA ATA ATA
* * * *
124743864 ATA ATA ATTT GTGA AAA ATA ATA TATA ATAA ATA ATA ATA A-C ATAA
1 ATA ATA A-TA AT-A ATA ATA ATA -ATA AT-A ATA ATA ATA ATA AT-A
* * *
124743910 ATA ATA TATA A-A GTA ATT AT- ATA ATA TATA AT- ATA AAA ATA A
1 ATA ATA -ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA A
124743952 GGTTAAAAAT
Statistics
Matches: 165, Mismatches: 27, Indels: 62
0.65 0.11 0.24
Matches are distributed among these distances:
2 19 0.12
3 95 0.58
4 49 0.30
5 2 0.01
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:124743840 original size:60 final size:57
Alignment explanation
Indices: 124743716--124743947 Score: 143
Period size: 60 Copynumber: 3.8 Consensus size: 57
124743706 TTAATAGAAT
* * *
124743716 AAAA-AATGACATAATAATATAAAATAATTATAATATATAATATGAAAATACATATGTA
1 AAAATAAT-ACATAATAATATAAAATAATTATAATATATAATA-GAAAATAAAAATATA
* *
124743774 AAAATAATACATAATATATATATAAATAATTAATAAATATATAATA-CAAGTAAAAATATA
1 AAAATAATACATAATA-ATATA-AAATAATT-AT-AATATATAATAGAAAATAAAAATATA
* * * * *
124743834 ATAATAATATATAAATAATGATGTAAAATAATAATAAT-T-T-GT-GAAAAATAATATATAATA
1 AAAATAATACAT-AATAAT-A--TAAAATAATTATAATATATAATAG-AAAATAA-AAAT-ATA
*
124743894 AATAATAATAACATAAATAATATATAAAGTAATTATATAATATATAATATAAAA
1 AA-AATAAT-ACAT-AATAATATA-AAA-TAA-T-TATAATATATAATAGAAAA
124743948 ATAAGGTTAA
Statistics
Matches: 134, Mismatches: 17, Indels: 38
0.71 0.09 0.20
Matches are distributed among these distances:
57 1 0.01
58 18 0.13
59 14 0.10
60 39 0.29
61 19 0.14
62 29 0.22
63 7 0.05
64 1 0.01
65 1 0.01
66 5 0.04
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (57 bp):
AAAATAATACATAATAATATAAAATAATTATAATATATAATAGAAAATAAAAATATA
Found at i:124743916 original size:27 final size:27
Alignment explanation
Indices: 124743777--124743951 Score: 100
Period size: 27 Copynumber: 6.4 Consensus size: 27
124743767 ATATGTAAAA
*
124743777 ATAATACATAAT-ATATATATAAATAAT
1 ATAATAAATAATAATATA-ATAAATAAT
*
124743804 -TAATAAATATATAATACAAGTAAA-AAT
1 ATAATAAATA-ATAATATAA-TAAATAAT
*
124743831 ATAAT-AATAAT-ATATAA-ATAATGAT
1 ATAATAAATAATAATATAATA-AATAAT
* * *
124743856 GTAAAATAATAATAATTTGTGAA-AAATAATAT
1 ATAATA-AATAATAA--TAT-AATAAAT-A-AT
124743888 ATAATAAATAATAATA-ACATAAATAAT
1 ATAATAAATAATAATATA-ATAAATAAT
* *
124743915 AT-ATAAAGTAATTATATAATATATAAT
1 ATAATAAA-TAATAATATAATAAATAAT
124743942 ATAA-AAATAA
1 ATAATAAATAA
124743952 GGTTAAAAAT
Statistics
Matches: 116, Mismatches: 13, Indels: 39
0.69 0.08 0.23
Matches are distributed among these distances:
23 1 0.01
24 2 0.02
25 10 0.09
26 18 0.16
27 41 0.35
28 17 0.15
29 5 0.04
30 5 0.04
31 11 0.09
32 6 0.05
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (27 bp):
ATAATAAATAATAATATAATAAATAAT
Found at i:124743941 original size:15 final size:15
Alignment explanation
Indices: 124743799--124743941 Score: 56
Period size: 14 Copynumber: 9.8 Consensus size: 15
124743789 ATATATATAA
* *
124743799 ATAATTAATAAATAT
1 ATAATAAATAATTAT
**
124743814 ATAATACAAGTAAAAAT
1 ATAATA-AA-TAATTAT
124743831 ATAAT-AATAA-TAT
1 ATAATAAATAATTAT
* *
124743844 ATAA-ATAATGATGTAAA
1 ATAATA-AATAAT-T-AT
124743861 ATAAT-AATAATT-T
1 ATAATAAATAATTAT
*
124743874 GTGAA-AAATAA-TAT
1 AT-AATAAATAATTAT
*
124743888 ATAATAAATAATAAT
1 ATAATAAATAATTAT
124743903 A-ACATAAATAA-TAT
1 ATA-ATAAATAATTAT
*
124743917 AT-A-AAGTAATTAT
1 ATAATAAATAATTAT
*
124743930 ATAATATATAAT
1 ATAATAAATAAT
124743942 ATAAAAATAA
Statistics
Matches: 96, Mismatches: 14, Indels: 36
0.66 0.10 0.25
Matches are distributed among these distances:
12 5 0.05
13 16 0.17
14 27 0.28
15 24 0.25
16 8 0.08
17 16 0.17
ACGTcount: A:0.60, C:0.01, G:0.04, T:0.34
Consensus pattern (15 bp):
ATAATAAATAATTAT
Found at i:124744221 original size:30 final size:31
Alignment explanation
Indices: 124744180--124744239 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
124744170 TAGCTATTGC
**
124744180 AGGGACTAAATCA-AAACTGCAACAAAATATT
1 AGGGACTAAATCATAAA-TAAAACAAAATATT
124744211 AGGG-CTAAATCATAAATAAAACAAAATAT
1 AGGGACTAAATCATAAATAAAACAAAATAT
124744240 AATTGTAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 19 0.73
31 7 0.27
ACGTcount: A:0.55, C:0.13, G:0.12, T:0.20
Consensus pattern (31 bp):
AGGGACTAAATCATAAATAAAACAAAATATT
Found at i:124748301 original size:32 final size:32
Alignment explanation
Indices: 124748249--124748329 Score: 101
Period size: 32 Copynumber: 2.5 Consensus size: 32
124748239 TGAAATTAGT
* *
124748249 TTGTTAGATTTTAAAATTATTATGTTTTAAAG-
1 TTGTTAGATATTGAAATTATTATGTTTT-AAGC
* *
124748281 TTGTTAGATATTGAATTTATTCTGTTTTAAGC
1 TTGTTAGATATTGAAATTATTATGTTTTAAGC
*
124748313 TTGTTGGATATTGAAAT
1 TTGTTAGATATTGAAAT
124748330 GATTGATAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
31 3 0.07
32 39 0.93
ACGTcount: A:0.30, C:0.02, G:0.16, T:0.52
Consensus pattern (32 bp):
TTGTTAGATATTGAAATTATTATGTTTTAAGC
Found at i:124753528 original size:5 final size:5
Alignment explanation
Indices: 124753518--124753568 Score: 52
Period size: 5 Copynumber: 10.0 Consensus size: 5
124753508 TAAGAAGATA
*
124753518 TTATT TTATT TTATT TT-TGT TTTTAT TTATT TT-TAT TTATT TTATT
1 TTATT TTATT TTATT TTAT-T TTAT-T TTATT TTAT-T TTATT TTATT
124753564 TTATT
1 TTATT
124753569 AAATTAGTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
4 2 0.05
5 32 0.80
6 6 0.15
ACGTcount: A:0.18, C:0.00, G:0.02, T:0.80
Consensus pattern (5 bp):
TTATT
Found at i:124754081 original size:3 final size:3
Alignment explanation
Indices: 124754068--124754258 Score: 86
Period size: 3 Copynumber: 64.3 Consensus size: 3
124754058 TTGAGTTTAA
* * *
124754068 TAT TCAT TAT TAT TA- TATT TAT TAT T-T TTT TAG CAT TAT TAT T-T
1 TAT T-AT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * * * *
124754112 CTGT TAT TAC TGT TAC TAC TAT TTT TAT TAG TAT TGT TCT TAT TAT
1 -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * * *
124754158 TAT TAT TAT TAT TAT TAC CAC TAT TAT TAT T-T TAT CAC TAC TGT CAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * *
124754205 TAT TAT TA- TAG TAT TAT TAG TAT TAT TAT TAC TAC TAT TTT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
124754252 CAT TAT T
1 TAT TAT T
124754259 TTTTTTAAAA
Statistics
Matches: 140, Mismatches: 40, Indels: 16
0.71 0.20 0.08
Matches are distributed among these distances:
2 9 0.06
3 125 0.89
4 6 0.04
ACGTcount: A:0.28, C:0.09, G:0.04, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:124754373 original size:20 final size:19
Alignment explanation
Indices: 124754348--124754392 Score: 72
Period size: 20 Copynumber: 2.3 Consensus size: 19
124754338 TAGAATTTCC
124754348 TTTATTATTTCATTAATTAT
1 TTTATTATTTCATT-ATTAT
*
124754368 TTTATTATTTCATTTTTAT
1 TTTATTATTTCATTATTAT
124754387 TTTATT
1 TTTATT
124754393 CTTGTCTTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 10 0.42
20 14 0.58
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.71
Consensus pattern (19 bp):
TTTATTATTTCATTATTAT
Found at i:124754415 original size:15 final size:15
Alignment explanation
Indices: 124754397--124754435 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
124754387 TTTATTCTTG
124754397 TCTTCATTAT-TATTA
1 TCTT-ATTATATATTA
124754412 TCTTATTATATATTA
1 TCTTATTATATATTA
*
124754427 TCCTATTAT
1 TCTTATTAT
124754436 GTACCTATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 5 0.23
15 17 0.77
ACGTcount: A:0.28, C:0.13, G:0.00, T:0.59
Consensus pattern (15 bp):
TCTTATTATATATTA
Found at i:124756228 original size:19 final size:19
Alignment explanation
Indices: 124756185--124756228 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
124756175 CGTCTCCTTT
*
124756185 TGCATTCATTTCATGCATC
1 TGCATTCATTTCATGCATA
*
124756204 TACATTACATTTCAT-CATA
1 TGCATT-CATTTCATGCATA
124756223 TGCATT
1 TGCATT
124756229 GAATGTCACA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.27, C:0.23, G:0.07, T:0.43
Consensus pattern (19 bp):
TGCATTCATTTCATGCATA
Found at i:124756381 original size:24 final size:24
Alignment explanation
Indices: 124756354--124756405 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
124756344 GAAAGGTCGA
124756354 AACAGATGCAA-AAGGAAATACAAG
1 AACAGATGCAAGAA-GAAATACAAG
* * *
124756378 AACATATGCAAGCATAAATACAAG
1 AACAGATGCAAGAAGAAATACAAG
124756402 AACA
1 AACA
124756406 ACTGGCTAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 23 0.96
25 1 0.04
ACGTcount: A:0.58, C:0.15, G:0.15, T:0.12
Consensus pattern (24 bp):
AACAGATGCAAGAAGAAATACAAG
Found at i:124758159 original size:19 final size:19
Alignment explanation
Indices: 124758135--124758171 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
124758125 TTTTGAGAAA
124758135 ATATTCTTTTATTCTTTAT
1 ATATTCTTTTATTCTTTAT
*
124758154 ATATTCTTTTGTTCTTTA
1 ATATTCTTTTATTCTTTA
124758172 GACTCTCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.19, C:0.11, G:0.03, T:0.68
Consensus pattern (19 bp):
ATATTCTTTTATTCTTTAT
Found at i:124761144 original size:89 final size:89
Alignment explanation
Indices: 124760874--124761158 Score: 236
Period size: 89 Copynumber: 3.2 Consensus size: 89
124760864 TCACAGATCC
* * * *
124760874 TATCTCTCTGAGATAGCAGTGGAGTAGATCGAAGATGA-AGAATCTTATCTCCCTGAGGTAACAG
1 TATCTCCCTGAGATAGCAGTGGAGCAGATCGAAGATGATA-AATCTTATCTTCCTGAGGTAGCAG
*
124760938 GGGAGCAAATTTTAGCCACTAGCCT
65 GGGAGCAAATTTAAGCCACTAGCCT
* * ** * * *
124760963 TATCTCCTTGAGGTAGCAAG-GGAGCAGGCCGAAGATTG-T-ATTCTTAACTTCCTAAGGTAGCA
1 TATCTCCCTGAGATAGC-AGTGGAGCAGATCGAAGA-TGATAAATCTTATCTTCCTGAGGTAGCA
* * * * * ***** **
124761025 AGGAAACAAACTGAATATTGTAGATTT
64 GGGGAGCAAATTTAAGCCACTAG-CCT
*
124761052 TATCTCCCTGAGATAGCAGTGGAGCAGATCAAAGATGATAAATCTTATCTTCCTGAGGTAGCAGG
1 TATCTCCCTGAGATAGCAGTGGAGCAGATCGAAGATGATAAATCTTATCTTCCTGAGGTAGCAGG
* * *
124761117 GGAGTAGATTTAAGCCACAAGCCT
66 GGAGCAAATTTAAGCCACTAGCCT
* *
124761141 TATCTCCTTGAGGTAGCA
1 TATCTCCCTGAGATAGCA
124761159 AAGGAGTAGG
Statistics
Matches: 140, Mismatches: 49, Indels: 14
0.69 0.24 0.07
Matches are distributed among these distances:
88 34 0.24
89 72 0.51
90 34 0.24
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (89 bp):
TATCTCCCTGAGATAGCAGTGGAGCAGATCGAAGATGATAAATCTTATCTTCCTGAGGTAGCAGG
GGAGCAAATTTAAGCCACTAGCCT
Found at i:124761235 original size:45 final size:45
Alignment explanation
Indices: 124761139--124761235 Score: 106
Period size: 45 Copynumber: 2.2 Consensus size: 45
124761129 AGCCACAAGC
* * * **
124761139 CTTATCTCCTTGAGGTAGCAAAGGAGTAGGTTGAAGATTGTAGAT
1 CTTATCTCCTTGAAGTAGCAAAGGAGCAGATTGAAGAAGGTAGAT
* **
124761184 CATATCTCCTTGAAGTAGCAGTGGAGCAGATTGAAGAAGGT-GAAT
1 CTTATCTCCTTGAAGTAGCAAAGGAGCAGATTGAAGAAGGTAG-AT
124761229 CTTATCT
1 CTTATCT
124761236 TGATATAGCG
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
44 1 0.02
45 41 0.98
ACGTcount: A:0.30, C:0.13, G:0.27, T:0.30
Consensus pattern (45 bp):
CTTATCTCCTTGAAGTAGCAAAGGAGCAGATTGAAGAAGGTAGAT
Found at i:124761380 original size:45 final size:45
Alignment explanation
Indices: 124761285--124761516 Score: 166
Period size: 45 Copynumber: 5.2 Consensus size: 45
124761275 TATTTTCTTA
** * ** *
124761285 AAGTTGCAGCAGAGCAGACTGAAGATAGCAGGTCTTATCTCCTTG
1 AAGTTGCAGTGGAGCAGACTGAAAATAGCAAATCTTATCTCCCTG
* * * *
124761330 GAGTTGTAGTGGAGTAGACTGAAAATAG-AAGATCTTATCTCCCTA
1 AAGTTGCAGTGGAGCAGACTGAAAATAGCAA-ATCTTATCTCCCTG
* ** * * *
124761375 AAGTTGCAGCGGAATAGA-TCGAAGATAGCAAACCTTATCTCTCTG
1 AAGTTGCAGTGGAGCAGACT-GAAAATAGCAAATCTTATCTCCCTG
* * ** *
124761420 AAGTTACAGTAGAGCAGGTTG-AAGTAGCAAATCTTATCTCCCTG
1 AAGTTGCAGTGGAGCAGACTGAAAATAGCAAATCTTATCTCCCTG
* * ** * *
124761464 AAGTTGTAGTGGAGCAAACTGAAGACCA-CAAACCTTATCTCTCTG
1 AAGTTGCAGTGGAGCAGACTGAA-AATAGCAAATCTTATCTCCCTG
124761509 AAGTTGCA
1 AAGTTGCA
124761517 ATAGAGCAAG
Statistics
Matches: 142, Mismatches: 39, Indels: 12
0.74 0.20 0.06
Matches are distributed among these distances:
44 36 0.25
45 101 0.71
46 5 0.04
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (45 bp):
AAGTTGCAGTGGAGCAGACTGAAAATAGCAAATCTTATCTCCCTG
Found at i:124761457 original size:44 final size:44
Alignment explanation
Indices: 124761395--124761531 Score: 150
Period size: 45 Copynumber: 3.1 Consensus size: 44
124761385 GGAATAGATC
* *
124761395 GAAGATAGCAAACCTTATCTCTCTGAAGTTACAGTAGAGCAGGTT
1 GAAG-TAGCAAACCTTATCTCTCTGAAGTTGCAGTAGAGCAAGTT
* * * * **
124761440 GAAGTAGCAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAAACT
1 GAAGTAGCAAACCTTATCTCTCTGAAGTTGCAGTAGAGCAAGTT
* *
124761484 GAAG-ACCACAAACCTTATCTCTCTGAAGTTGCAATAGAGCAAGTT
1 GAAGTA--GCAAACCTTATCTCTCTGAAGTTGCAGTAGAGCAAGTT
124761529 GAA
1 GAA
124761532 ATTATCAACT
Statistics
Matches: 74, Mismatches: 16, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
43 1 0.01
44 36 0.49
45 37 0.50
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (44 bp):
GAAGTAGCAAACCTTATCTCTCTGAAGTTGCAGTAGAGCAAGTT
Found at i:124761524 original size:45 final size:44
Alignment explanation
Indices: 124761403--124761525 Score: 131
Period size: 44 Copynumber: 2.8 Consensus size: 44
124761393 TCGAAGATAG
* *** *
124761403 CAAACCTTATCTCTCTGAAGTTACAGTAGAGCAGGTTGAAGTAG
1 CAAACCTTATCTCTCTGAAGTTGCAGTAGAGCAAACTGAAGTAA
* * * *
124761447 CAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAAACTGAAG-ACCA
1 CAAACCTTATCTCTCTGAAGTTGCAGTAGAGCAAACTGAAGTA--A
*
124761492 CAAACCTTATCTCTCTGAAGTTGCAATAGAGCAA
1 CAAACCTTATCTCTCTGAAGTTGCAGTAGAGCAA
124761526 GTTGAAATTA
Statistics
Matches: 63, Mismatches: 14, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
43 1 0.02
44 33 0.52
45 29 0.46
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (44 bp):
CAAACCTTATCTCTCTGAAGTTGCAGTAGAGCAAACTGAAGTAA
Found at i:124761584 original size:89 final size:88
Alignment explanation
Indices: 124761361--124761584 Score: 243
Period size: 89 Copynumber: 2.5 Consensus size: 88
124761351 AAAATAGAAG
* *
124761361 ATCTTATCTCCCTAAAGTTGCAGCGGAATAGATCGAAGATAGCAAACCTTATCTCTCTGAAGTTA
1 ATCTTATCTCCCTAAAGTTGCAGCGGAGTAGATCGAAGCTA-CAAACCTTATCTCTCTGAAGTTA
* *
124761426 CAGTAGAGCAGGTTGAAGTAGCAA
65 CAATAGAGCAAGTTGAAGTAGCAA
* * * * * *
124761450 ATCTTATCTCCCTGAAGTTGTAGTGGAGCA-AACTGAAGACCACAAACCTTATCTCTCTGAAGTT
1 ATCTTATCTCCCTAAAGTTGCAGCGGAGTAGATC-GAAG-CTACAAACCTTATCTCTCTGAAGTT
* * *
124761514 GCAATAGAGCAAGTTGAAATTATCAA
64 ACAATAGAGCAAGTTG-AAGTAGCAA
* * * * *
124761540 CTCTTACCTCCTTAAAGTTCCAGCAGAGTAGATCGAAGCTACAAA
1 ATCTTATCTCCCTAAAGTTGCAGCGGAGTAGATCGAAGCTACAAA
124761585 TCTCTTTTCC
Statistics
Matches: 107, Mismatches: 24, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
88 2 0.02
89 70 0.65
90 33 0.31
91 2 0.02
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (88 bp):
ATCTTATCTCCCTAAAGTTGCAGCGGAGTAGATCGAAGCTACAAACCTTATCTCTCTGAAGTTAC
AATAGAGCAAGTTGAAGTAGCAA
Found at i:124761998 original size:4 final size:5
Alignment explanation
Indices: 124761979--124762013 Score: 54
Period size: 5 Copynumber: 7.0 Consensus size: 5
124761969 TAGGAAGATA
124761979 TTATT TTATT TT-TAT TTATT TTATT TTATT TTATT
1 TTATT TTATT TTAT-T TTATT TTATT TTATT TTATT
124762014 AAATTAGTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 1 0.04
5 26 0.93
6 1 0.04
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTATT
Found at i:124762013 original size:15 final size:15
Alignment explanation
Indices: 124761979--124762009 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
124761969 TAGGAAGATA
124761979 TTATTTTATTTTTAT
1 TTATTTTATTTTTAT
124761994 TTATTTTA-TTTTAT
1 TTATTTTATTTTTAT
124762008 TT
1 TT
124762010 TATTAAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (15 bp):
TTATTTTATTTTTAT
Found at i:124762529 original size:3 final size:3
Alignment explanation
Indices: 124762516--124762701 Score: 60
Period size: 3 Copynumber: 62.3 Consensus size: 3
124762506 TTGAGTTTTA
* *
124762516 TAT TCAT TAT TAT TA- TATT TATT TAT T-T TTT TAG TAT TAT TAT T-T
1 TAT T-AT TAT TAT TAT TA-T TA-T TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * *
124762561 ATGT TAT TAC TGT TAC TACT AAT T-T TAT TAG TAT TGT TAT TAT TAT
1 -TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * * *
124762607 TAT TAC CAC TAT TAT TAT TAT TAT T-T TAT CAC TAC TGT CAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * * *
124762654 TA- TAG TAT TGT TAG TAT TGT TAT TAC TAT TGT TTT TAT TAT CAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
124762701 T
1 T
124762702 TTTTTAAAAC
Statistics
Matches: 131, Mismatches: 42, Indels: 20
0.68 0.22 0.10
Matches are distributed among these distances:
2 11 0.08
3 109 0.83
4 11 0.08
ACGTcount: A:0.27, C:0.07, G:0.06, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:124762808 original size:21 final size:21
Alignment explanation
Indices: 124762783--124762824 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
124762773 TTCTTGCTAG
124762783 AATTTCCTTTA-TTATTTCATT
1 AATTT-CTTTATTTATTTCATT
*
124762804 AATTTTTTTATTTATTTCATT
1 AATTTCTTTATTTATTTCATT
124762825 TTTATTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.24, C:0.10, G:0.00, T:0.67
Consensus pattern (21 bp):
AATTTCTTTATTTATTTCATT
Found at i:124767619 original size:43 final size:43
Alignment explanation
Indices: 124767558--124767658 Score: 148
Period size: 43 Copynumber: 2.3 Consensus size: 43
124767548 AACACTAGGG
* **
124767558 GACACACGGTCGTGTAACAAGACTGTGTGTCACACACGGCTAA
1 GACACACGGCCGTGTAACAAGACCATGTGTCACACACGGCTAA
* *
124767601 GACACACGGCCGTGTAACAAGACCATGTGTCACATACGGCTGA
1 GACACACGGCCGTGTAACAAGACCATGTGTCACACACGGCTAA
*
124767644 GACACACGCCCGTGT
1 GACACACGGCCGTGT
124767659 CTCTGCCCGT
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 52 1.00
ACGTcount: A:0.29, C:0.29, G:0.26, T:0.17
Consensus pattern (43 bp):
GACACACGGCCGTGTAACAAGACCATGTGTCACACACGGCTAA
Done.