Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr12
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: 39383930
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.32
Warning! 780790 characters in sequence are not A, C, G, or T
File 72 of 126
Found at i:21468949 original size:41 final size:41
Alignment explanation
Indices: 21468886--21469082 Score: 265
Period size: 41 Copynumber: 4.8 Consensus size: 41
21468876 TTTTATTATT
*
21468886 ATTAGCGGCG-TTTTTGAAAAAAACGCCGCTAAAGGTCCGAGC
1 ATTAGCGGCGCTTTTT--CAAAAACGCCGCTAAAGGTCCGAGC
* *
21468928 ATTAGTGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCGAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGTCCGAGC
21468969 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGG-CTCGAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGTC-CGAGC
* *
21469010 ATTAGCGGCGCTTTCTCAAAAACGCCGCTAAA-GTATCGAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGT-CCGAGC
** *
21469051 ATTAGCGGAACTTTTTAAAAAACGCCGCTAAA
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAA
21469083 TGCCCCCAAA
Statistics
Matches: 141, Mismatches: 10, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
40 2 0.01
41 125 0.89
42 9 0.06
43 5 0.04
ACGTcount: A:0.30, C:0.24, G:0.23, T:0.22
Consensus pattern (41 bp):
ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGTCCGAGC
Found at i:21469183 original size:39 final size:39
Alignment explanation
Indices: 21469123--21469217 Score: 122
Period size: 39 Copynumber: 2.4 Consensus size: 39
21469113 GGGCTTAGGC
21469123 TTTTT-GCGGCGCTTTTTAAAAAACGCCGCTAATGCAT-A
1 TTTTTAGCGGCG-TTTTTAAAAAACGCCGCTAATGCATGA
* *
21469161 TTTTTAGCGGCGTTTTTCAAAAAGCGCCGCTAATGCTTGA
1 TTTTTAGCGGCGTTTTT-AAAAAACGCCGCTAATGCATGA
* *
21469201 TTTTAAGTGGCGTTTTT
1 TTTTTAGCGGCGTTTTT
21469218 TATCCAAACG
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
38 10 0.20
39 24 0.48
40 16 0.32
ACGTcount: A:0.22, C:0.18, G:0.21, T:0.39
Consensus pattern (39 bp):
TTTTTAGCGGCGTTTTTAAAAAACGCCGCTAATGCATGA
Found at i:21488925 original size:15 final size:15
Alignment explanation
Indices: 21488905--21488935 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
21488895 TGGTAAAGTA
*
21488905 ACGATACTTTGGTCC
1 ACGATACCTTGGTCC
21488920 ACGATACCTTGGTCC
1 ACGATACCTTGGTCC
21488935 A
1 A
21488936 GTTTGAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (15 bp):
ACGATACCTTGGTCC
Found at i:21493411 original size:12 final size:12
Alignment explanation
Indices: 21493394--21493420 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
21493384 CCTTCTTCTC
21493394 CCCTTTCCCCTT
1 CCCTTTCCCCTT
21493406 CCCTTTCCCCTT
1 CCCTTTCCCCTT
21493418 CCC
1 CCC
21493421 CTTGGGTTGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.00, C:0.63, G:0.00, T:0.37
Consensus pattern (12 bp):
CCCTTTCCCCTT
Found at i:21493542 original size:25 final size:27
Alignment explanation
Indices: 21493482--21493543 Score: 69
Period size: 25 Copynumber: 2.4 Consensus size: 27
21493472 CCAGGTAAGG
*
21493482 CTTCTTCTCCTTCATCCGTTCTTCATTC
1 CTTC-TCTTCTTCATCCGTTCTTCATTC
*
21493510 CTT-T-TTCTTCTTCCGTTCTTCA-T-
1 CTTCTCTTCTTCATCCGTTCTTCATTC
21493533 CTTCTCTTCTT
1 CTTCTCTTCTT
21493544 AGCATATTCT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
23 3 0.10
24 2 0.07
25 21 0.70
26 1 0.03
28 3 0.10
ACGTcount: A:0.05, C:0.35, G:0.03, T:0.56
Consensus pattern (27 bp):
CTTCTCTTCTTCATCCGTTCTTCATTC
Found at i:21494066 original size:16 final size:13
Alignment explanation
Indices: 21494036--21494061 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
21494026 TCAATGAACC
21494036 CTTAATTTTTTTG
1 CTTAATTTTTTTG
21494049 CTTAATTTTTTTG
1 CTTAATTTTTTTG
21494062 GTGCTCAATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.08, G:0.08, T:0.69
Consensus pattern (13 bp):
CTTAATTTTTTTG
Found at i:21497472 original size:21 final size:21
Alignment explanation
Indices: 21497446--21497498 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
21497436 CGCTGTTTCT
*
21497446 AATCTCACCGCTACAATATCC
1 AATCTCACCGCTACAATAACC
* *
21497467 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAATAACC
21497488 AATCTCACCGC
1 AATCTCACCGC
21497499 CACCACTGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.32, C:0.38, G:0.08, T:0.23
Consensus pattern (21 bp):
AATCTCACCGCTACAATAACC
Found at i:21504916 original size:18 final size:18
Alignment explanation
Indices: 21504893--21504939 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
21504883 TTTTTATGTG
*
21504893 TGTTTATTTTTGTTTTTA
1 TGTTTATTTTTGTGTTTA
*
21504911 TGTTTATTTGTGTGTTTA
1 TGTTTATTTTTGTGTTTA
21504929 T-TTTAGTTTTT
1 TGTTTA-TTTTT
21504940 ATACATTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 4 0.16
18 21 0.84
ACGTcount: A:0.11, C:0.00, G:0.15, T:0.74
Consensus pattern (18 bp):
TGTTTATTTTTGTGTTTA
Found at i:21506490 original size:6 final size:6
Alignment explanation
Indices: 21506479--21506503 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
21506469 ATATTTTAGC
21506479 TTAGTT TTAGTT TTAGTT TTAGTT T
1 TTAGTT TTAGTT TTAGTT TTAGTT T
21506504 CCTTTAGGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.16, T:0.68
Consensus pattern (6 bp):
TTAGTT
Found at i:21508361 original size:23 final size:22
Alignment explanation
Indices: 21508318--21508361 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
21508308 TTCTAAGTCG
21508318 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
21508341 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
21508362 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:21508470 original size:45 final size:45
Alignment explanation
Indices: 21508406--21508499 Score: 143
Period size: 45 Copynumber: 2.1 Consensus size: 45
21508396 AACAAATACT
* * * *
21508406 CGGTGGATTCAGCATATAGCAACCATCTTATTAATCAATGATGTC
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
*
21508451 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTT
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
21508496 CGGT
1 CGGT
21508500 TCATATAGTA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
Found at i:21508671 original size:50 final size:50
Alignment explanation
Indices: 21508520--21509433 Score: 1593
Period size: 50 Copynumber: 18.2 Consensus size: 50
21508510 ACCTACAAAC
* *
21508520 AGTACTACACATGTGACCATTACCA-TCC-GATACACGTAGTAGCCTGCACAT
1 AGTACTACACATGCGACC--TATCATTCCAG-TACACGTAGTAGCCTGCACAT
* * * ** * *
21508571 AGTACTACACACGTGATC-AAAACTATCCAGTACGCATAGTAGCCTGCACAT
1 AGTACTACACATGCGACCTATCA-T-TCCAGTACACGTAGTAGCCTGCACAT
21508622 AGTACTACACATGCGACCTATCATTCCAGTACACGTAGTAGCCTGCACAT
1 AGTACTACACATGCGACCTATCATTCCAGTACACGTAGTAGCCTGCACAT
21508672 AGTACTACACATGCGACCTATCATTCCAGTACACGTAGTAGCCTGCACAT
1 AGTACTACACATGCGACCTATCATTCCAGTACACGTAGTAGCCTGCACAT
21508722 AGTACTACACATGCGACCTATCATTCCAGTACACGTAGTAGCCTGCACAT
1 AGTACTACACATGCGACCTATCATTCCAGTACACGTAGTAGCCTGCACAT
21508772 AGTACTACACATGCGACCTATCATTCCAGTACACGTAGTAGCCTGCACAT
1 AGTACTACACATGCGACCTATCATTCCAGTACACGTAGTAGCCTGCACAT
21508822 AGTACTACACATGCGACCTATCATTCCAGTACACGTAGTAGCCTGCACAT
1 AGTACTACACATGCGACCTATCATTCCAGTACACGTAGTAGCCTGCACAT
21508872 AGTACTACACATGCGACCTATCATTCCAGTACACGTAGTAGCCTGCACAT
1 AGTACTACACATGCGACCTATCATTCCAGTACACGTAGTAGCCTGCACAT
21508922 AGTACTACACATGCGACCTATCATTCCAGTACACGTAGTAGCCTGCACAT
1 AGTACTACACATGCGACCTATCATTCCAGTACACGTAGTAGCCTGCACAT
21508972 AGTACTACACATGCGACCTATCATTCCAGTACACGTAGTAGCCTGCACAT
1 AGTACTACACATGCGACCTATCATTCCAGTACACGTAGTAGCCTGCACAT
21509022 AGTACTACACATGCGACCTATCATTCCAGTACACGTAGTAGCCTGCACAT
1 AGTACTACACATGCGACCTATCATTCCAGTACACGTAGTAGCCTGCACAT
21509072 AGTACTACACATGCGACCTATCATTCCAGTACACGTAGTAGCCTGCACAT
1 AGTACTACACATGCGACCTATCATTCCAGTACACGTAGTAGCCTGCACAT
21509122 AGTACTACACATGCGACCTATCATTCCAGTACACGTAGTAGCCTGCACAT
1 AGTACTACACATGCGACCTATCATTCCAGTACACGTAGTAGCCTGCACAT
21509172 AGTACTACACATGCGACCTATCATTCCAGTACACGTAGTAGCCTGCACAT
1 AGTACTACACATGCGACCTATCATTCCAGTACACGTAGTAGCCTGCACAT
21509222 AGTACTACACATGCGACCTATCATTCCAGTACACGTAGTAGCCTGCACAT
1 AGTACTACACATGCGACCTATCATTCCAGTACACGTAGTAGCCTGCACAT
21509272 AGTACTACACATGCGACCTATCATTCCAGTACACGTAGTAGCCTGCACAT
1 AGTACTACACATGCGACCTATCATTCCAGTACACGTAGTAGCCTGCACAT
* * * ** * *
21509322 AGTACTACACACGTGATC-AAAACTATCCAGTACGCATAGTAGCCTGCACAT
1 AGTACTACACATGCGACCTATCA-T-TCCAGTACACGTAGTAGCCTGCACAT
21509373 AGTACTACACATGCGACCTATCATTCCAGTACACGTAGTAGCCTGCACAT
1 AGTACTACACATGCGACCTATCATTCCAGTACACGTAGTAGCCTGCACAT
21509423 AGTACTACACA
1 AGTACTACACA
21509434 CGTGACCGTC
Statistics
Matches: 828, Mismatches: 27, Indels: 17
0.95 0.03 0.02
Matches are distributed among these distances:
48 2 0.00
49 2 0.00
50 725 0.88
51 94 0.11
52 5 0.01
ACGTcount: A:0.31, C:0.30, G:0.16, T:0.24
Consensus pattern (50 bp):
AGTACTACACATGCGACCTATCATTCCAGTACACGTAGTAGCCTGCACAT
Found at i:21510743 original size:22 final size:22
Alignment explanation
Indices: 21510718--21510765 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
21510708 TGTTAAATGC
21510718 TTTTGGTTTCATGTTATTTAAG
1 TTTTGGTTTCATGTTATTTAAG
21510740 TTTTGGTTTCATGTTATTTAAG
1 TTTTGGTTTCATGTTATTTAAG
21510762 TTTT
1 TTTT
21510766 CTTACATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.17, C:0.04, G:0.17, T:0.62
Consensus pattern (22 bp):
TTTTGGTTTCATGTTATTTAAG
Found at i:21510854 original size:10 final size:11
Alignment explanation
Indices: 21510833--21510861 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
21510823 TGTTTCCTAT
21510833 TTTTATGTTTA
1 TTTTATGTTTA
21510844 TTTTA-GTTTA
1 TTTTATGTTTA
21510854 TTTTATGT
1 TTTTATGT
21510862 CAAATATGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.17, C:0.00, G:0.10, T:0.72
Consensus pattern (11 bp):
TTTTATGTTTA
Found at i:21517093 original size:21 final size:20
Alignment explanation
Indices: 21517059--21517098 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
21517049 GACTTTCAAT
* *
21517059 TAAGTTTTATTTTAGTTTAA
1 TAAGTTTCATTTTAATTTAA
21517079 TAAGTTTGCATTTTAATTTA
1 TAAGTTT-CATTTTAATTTA
21517099 TTCCATCGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.30, C:0.03, G:0.10, T:0.57
Consensus pattern (20 bp):
TAAGTTTCATTTTAATTTAA
Found at i:21518904 original size:11 final size:11
Alignment explanation
Indices: 21518888--21518918 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
21518878 TTTTGTCTCA
21518888 CGCTACAGTGT
1 CGCTACAGTGT
21518899 CGCTACAGTGT
1 CGCTACAGTGT
21518910 CGCTACAGT
1 CGCTACAGT
21518919 ATCTAATCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.19, C:0.29, G:0.26, T:0.26
Consensus pattern (11 bp):
CGCTACAGTGT
Found at i:21537608 original size:21 final size:22
Alignment explanation
Indices: 21537570--21537614 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
21537560 ATTATGAATA
*
21537570 TTAATTCATAATATAATTAATT
1 TTAATTCATAATACAATTAATT
* *
21537592 TTAATT-ATAATCCAATTTATT
1 TTAATTCATAATACAATTAATT
21537613 TT
1 TT
21537615 GGGTTAAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (22 bp):
TTAATTCATAATACAATTAATT
Found at i:21538705 original size:324 final size:324
Alignment explanation
Indices: 21538116--21538763 Score: 1296
Period size: 324 Copynumber: 2.0 Consensus size: 324
21538106 GAGGCATTAT
21538116 TCAAGTTATCGTAGAAGCCTCGGTTCAACAAGAACAAGTGGAGAAGAAGGACTGAAGCAAACTAG
1 TCAAGTTATCGTAGAAGCCTCGGTTCAACAAGAACAAGTGGAGAAGAAGGACTGAAGCAAACTAG
21538181 TCAAGCCTTGGAGAAACAACGAATTTGATTCTAGTTCTCTATCCTTTAATTTTTATTGTTGTTGT
66 TCAAGCCTTGGAGAAACAACGAATTTGATTCTAGTTCTCTATCCTTTAATTTTTATTGTTGTTGT
21538246 TATGAACACATCTATGAATACTTGTTATGTTGATATGTGTAATTTAATTAATATGGCTTAAATTT
131 TATGAACACATCTATGAATACTTGTTATGTTGATATGTGTAATTTAATTAATATGGCTTAAATTT
21538311 AATTCGTGTTAGGTTTATTGCATTTTGTCCACTTAAGTTATTAAAATTGTGTTTGTATTGTTATA
196 AATTCGTGTTAGGTTTATTGCATTTTGTCCACTTAAGTTATTAAAATTGTGTTTGTATTGTTATA
21538376 GGCCTTGGTAAGTTGTTTCATTAAGTAAAATCATGATTAAGTTATTCTTGCATTATAATTGTAC
261 GGCCTTGGTAAGTTGTTTCATTAAGTAAAATCATGATTAAGTTATTCTTGCATTATAATTGTAC
21538440 TCAAGTTATCGTAGAAGCCTCGGTTCAACAAGAACAAGTGGAGAAGAAGGACTGAAGCAAACTAG
1 TCAAGTTATCGTAGAAGCCTCGGTTCAACAAGAACAAGTGGAGAAGAAGGACTGAAGCAAACTAG
21538505 TCAAGCCTTGGAGAAACAACGAATTTGATTCTAGTTCTCTATCCTTTAATTTTTATTGTTGTTGT
66 TCAAGCCTTGGAGAAACAACGAATTTGATTCTAGTTCTCTATCCTTTAATTTTTATTGTTGTTGT
21538570 TATGAACACATCTATGAATACTTGTTATGTTGATATGTGTAATTTAATTAATATGGCTTAAATTT
131 TATGAACACATCTATGAATACTTGTTATGTTGATATGTGTAATTTAATTAATATGGCTTAAATTT
21538635 AATTCGTGTTAGGTTTATTGCATTTTGTCCACTTAAGTTATTAAAATTGTGTTTGTATTGTTATA
196 AATTCGTGTTAGGTTTATTGCATTTTGTCCACTTAAGTTATTAAAATTGTGTTTGTATTGTTATA
21538700 GGCCTTGGTAAGTTGTTTCATTAAGTAAAATCATGATTAAGTTATTCTTGCATTATAATTGTAC
261 GGCCTTGGTAAGTTGTTTCATTAAGTAAAATCATGATTAAGTTATTCTTGCATTATAATTGTAC
21538764 GGTAACTAAT
Statistics
Matches: 324, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
324 324 1.00
ACGTcount: A:0.31, C:0.12, G:0.18, T:0.40
Consensus pattern (324 bp):
TCAAGTTATCGTAGAAGCCTCGGTTCAACAAGAACAAGTGGAGAAGAAGGACTGAAGCAAACTAG
TCAAGCCTTGGAGAAACAACGAATTTGATTCTAGTTCTCTATCCTTTAATTTTTATTGTTGTTGT
TATGAACACATCTATGAATACTTGTTATGTTGATATGTGTAATTTAATTAATATGGCTTAAATTT
AATTCGTGTTAGGTTTATTGCATTTTGTCCACTTAAGTTATTAAAATTGTGTTTGTATTGTTATA
GGCCTTGGTAAGTTGTTTCATTAAGTAAAATCATGATTAAGTTATTCTTGCATTATAATTGTAC
Found at i:21539314 original size:317 final size:317
Alignment explanation
Indices: 21538739--21539350 Score: 1197
Period size: 317 Copynumber: 1.9 Consensus size: 317
21538729 ATCATGATTA
*
21538739 AGTTATTCTTGCATTATAATTGTACGGTAACTAATGAATTAATTATTTAATCATGTTGAAATTGC
1 AGTTATTCTTGCATTATAATTGTAAGGTAACTAATGAATTAATTATTTAATCATGTTGAAATTGC
21538804 AATTAATTGGCACAATACTTAATCAGTGTATGTTTAATCTTCTAAGGTAGCTGAGGGTTAAATTA
66 AATTAATTGGCACAATACTTAATCAGTGTATGTTTAATCTTCTAAGGTAGCTGAGGGTTAAATTA
21538869 CCGACGGTATAGATGGTACATTAGCCTTGCATAACTTGTAAGATTATTGTGATTAAACTATTTTA
131 CCGACGGTATAGATGGTACATTAGCCTTGCATAACTTGTAAGATTATTGTGATTAAACTATTTTA
* *
21538934 ATGTAGGAATACATTGTTATCTCACTTAATCTTTTATGTGCTTATGAAGATTGATTAATTGTTTG
196 ATGTAGGAATACATTGTTATCTCACTTAATATTTTATGTGATTATGAAGATTGATTAATTGTTTG
21538999 AATTGTCATTGGAAAATGTTCAAGAGATAAGTTAACTAATGAATTAAGTTATTCATT
261 AATTGTCATTGGAAAATGTTCAAGAGATAAGTTAACTAATGAATTAAGTTATTCATT
21539056 AGTTATTCTTGCATTATAATTGTAAGGTAACTAATGAATTAATTATTTAATCATGTTGAAATTGC
1 AGTTATTCTTGCATTATAATTGTAAGGTAACTAATGAATTAATTATTTAATCATGTTGAAATTGC
21539121 AATTAATTGGCACAATACTTAATCAGTGTATGTTTAATCTTCTAAGGTAGCTGAGGGTTAAATTA
66 AATTAATTGGCACAATACTTAATCAGTGTATGTTTAATCTTCTAAGGTAGCTGAGGGTTAAATTA
21539186 CCGACGGTATAGATGGTACATTAGCCTTGCATAACTTGTAAGATTATTGTGATTAAACTATTTTA
131 CCGACGGTATAGATGGTACATTAGCCTTGCATAACTTGTAAGATTATTGTGATTAAACTATTTTA
21539251 ATGTAGGAATACATTGTTATCTCACTTAATATTTTATGTGATTATGAAGATTGATTAATTGTTTG
196 ATGTAGGAATACATTGTTATCTCACTTAATATTTTATGTGATTATGAAGATTGATTAATTGTTTG
21539316 AATTGTCATTGGAAAATGTTCAAGAGATAAGTTAA
261 AATTGTCATTGGAAAATGTTCAAGAGATAAGTTAA
21539351 TTTAATAAGT
Statistics
Matches: 292, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
317 292 1.00
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (317 bp):
AGTTATTCTTGCATTATAATTGTAAGGTAACTAATGAATTAATTATTTAATCATGTTGAAATTGC
AATTAATTGGCACAATACTTAATCAGTGTATGTTTAATCTTCTAAGGTAGCTGAGGGTTAAATTA
CCGACGGTATAGATGGTACATTAGCCTTGCATAACTTGTAAGATTATTGTGATTAAACTATTTTA
ATGTAGGAATACATTGTTATCTCACTTAATATTTTATGTGATTATGAAGATTGATTAATTGTTTG
AATTGTCATTGGAAAATGTTCAAGAGATAAGTTAACTAATGAATTAAGTTATTCATT
Found at i:21540392 original size:25 final size:25
Alignment explanation
Indices: 21540358--21540413 Score: 112
Period size: 25 Copynumber: 2.2 Consensus size: 25
21540348 AAGGCCACTA
21540358 CACCACCGTCCCTGTCGCGTCGTTG
1 CACCACCGTCCCTGTCGCGTCGTTG
21540383 CACCACCGTCCCTGTCGCGTCGTTG
1 CACCACCGTCCCTGTCGCGTCGTTG
21540408 CACCAC
1 CACCAC
21540414 TGCTGCATTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.11, C:0.46, G:0.21, T:0.21
Consensus pattern (25 bp):
CACCACCGTCCCTGTCGCGTCGTTG
Found at i:21541347 original size:35 final size:36
Alignment explanation
Indices: 21541308--21541401 Score: 145
Period size: 35 Copynumber: 2.6 Consensus size: 36
21541298 ATATTTTATT
* *
21541308 ATTTTTATTCGCATGTTAAGCATGCTATTA-TTCTG
1 ATTTTGATTCGCATGTTAAGCATGCCATTATTTCTG
*
21541343 ATTTTGACTCGCATGTTAAGCATGCCATTATTTCTG
1 ATTTTGATTCGCATGTTAAGCATGCCATTATTTCTG
*
21541379 ATTCTGATTCGCATGTTAAGCAT
1 ATTTTGATTCGCATGTTAAGCAT
21541402 TCCACTGTAT
Statistics
Matches: 53, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
35 27 0.51
36 26 0.49
ACGTcount: A:0.23, C:0.17, G:0.16, T:0.44
Consensus pattern (36 bp):
ATTTTGATTCGCATGTTAAGCATGCCATTATTTCTG
Found at i:21541391 original size:36 final size:35
Alignment explanation
Indices: 21541314--21541401 Score: 140
Period size: 36 Copynumber: 2.5 Consensus size: 35
21541304 TATTATTTTT
* *
21541314 ATTCGCATGTTAAGCATGCTATTATTCTGATTTTG
1 ATTCGCATGTTAAGCATGCCATTATTCTGATTCTG
*
21541349 ACTCGCATGTTAAGCATGCCATTATTTCTGATTCTG
1 ATTCGCATGTTAAGCATGCCATTA-TTCTGATTCTG
21541385 ATTCGCATGTTAAGCAT
1 ATTCGCATGTTAAGCAT
21541402 TCCACTGTAT
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
35 22 0.46
36 26 0.54
ACGTcount: A:0.24, C:0.18, G:0.17, T:0.41
Consensus pattern (35 bp):
ATTCGCATGTTAAGCATGCCATTATTCTGATTCTG
Found at i:21550047 original size:20 final size:20
Alignment explanation
Indices: 21550017--21550068 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
21550007 TATAGTACAA
21550017 ATATAATAAATTTATATATTT
1 ATAT-ATAAATTTATATATTT
*
21550038 ATATATAAATATATATATTT
1 ATATATAAATTTATATATTT
21550058 AT-TATAAATTT
1 ATATATAAATTT
21550069 TAGTTAACTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 8 0.28
20 17 0.59
21 4 0.14
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
ATATATAAATTTATATATTT
Found at i:21560909 original size:26 final size:26
Alignment explanation
Indices: 21560880--21560931 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
21560870 ATATAATTTC
21560880 CAAATCATGTATC-TATATATCATGTA
1 CAAATCAT-TATCATATATATCATGTA
* *
21560906 CAAATCATTTTCATATATCTCATGTA
1 CAAATCATTATCATATATATCATGTA
21560932 AATACCTATG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 3 0.13
26 20 0.87
ACGTcount: A:0.37, C:0.17, G:0.06, T:0.40
Consensus pattern (26 bp):
CAAATCATTATCATATATATCATGTA
Found at i:21563774 original size:137 final size:137
Alignment explanation
Indices: 21563526--21564139 Score: 592
Period size: 137 Copynumber: 4.6 Consensus size: 137
21563516 AGGTTTGTGG
* * * **
21563526 ATTTAAAATCGTAGCCTCCAAAGCAACTAGTGGACCTACGCTCCCAGCTAACATTATAAGAGCTT
1 ATTTAAAATCATAGCCTCCAAAGTAGCTAGCAGACCTACGCTCCCAGCTAACATTATAAGAGCTT
* *
21563591 GTAGAGTTAAGCTCGTAGCTTTGACACAGCTA--GAAGGCCTACGCTCCCAACTGATGTCATAAA
66 GTAGAGTTAAGCTCGTAGCTCTGACACAGCTAGCGAA--CCTACGCTCCCAGCTGATGTCATAAA
*
21563654 GGTTTGACG
129 GGTTTGACA
* ** * * ** * *
21563663 ATTTAATATTGTAGCTTCTAAAGTAGCTAGCAGACCTACGCTCCCAAATAACATTGTAAGAGCTC
1 ATTTAAAATCATAGCCTCCAAAGTAGCTAGCAGACCTACGCTCCCAGCTAACATTATAAGAGCTT
* * *
21563728 GTAGAGTTAAGCTCGTAGCTCTGACACAACTAGCGAACCTATGCTCCCAGCTGATGTCATAAAAG
66 GTAGAGTTAAGCTCGTAGCTCTGACACAGCTAGCGAACCTACGCTCCCAGCTGATGTCATAAAGG
21563793 TTTGACA
131 TTTGACA
* * *
21563800 ATTTAAAATCATAGCCTCCAAAGTAGCTAGCGGACCTACGTTCCCAGCTGACATTATAAGAGCTT
1 ATTTAAAATCATAGCCTCCAAAGTAGCTAGCAGACCTACGCTCCCAGCTAACATTATAAGAGCTT
* * ** * * * *
21563865 GCAAAGTTAAGCTCACAGCTCCGACACAGCTAGCGGACCTACGCTCCTAGCTGATGTCAGAAAGG
66 GTAGAGTTAAGCTCGTAGCTCTGACACAGCTAGCGAACCTACGCTCCCAGCTGATGTCATAAAGG
21563930 TTTGACA
131 TTTGACA
** * * * * * * * * *
21563937 ATTTAAGTTCGTAGCCTCCAAAGCAGTTAGTAAACCTATGCTACCGGGT-ACATTATAAGAGCTT
1 ATTTAAAATCATAGCCTCCAAAGTAGCTAGCAGACCTACGCTCCCAGCTAACATTATAAGAGCTT
* * * * *
21564001 GTAGAGTTAA------A-CT-TG-CAGC-TCTA--GAACCTACCCTTCGAGCTGATGTCATAAAT
66 GTAGAGTTAAGCTCGTAGCTCTGACA-CAGCTAGCGAACCTACGCTCCCAGCTGATGTCATAAAG
**
21564054 GTTTGATG
130 GTTTGACA
* * * * * *
21564062 ATTTAAGATCACAGCCTCCAAAGCAGCTAGCGGACCTACGTTCCCAGCTGACATTATAAGAGCTT
1 ATTTAAAATCATAGCCTCCAAAGTAGCTAGCAGACCTACGCTCCCAGCTAACATTATAAGAGCTT
*
21564127 GTAGAATTAAGCT
66 GTAGAGTTAAGCT
21564140 TGCAAATCCA
Statistics
Matches: 391, Mismatches: 79, Indels: 22
0.79 0.16 0.04
Matches are distributed among these distances:
125 67 0.17
126 24 0.06
127 5 0.01
128 2 0.01
129 2 0.01
130 1 0.00
136 23 0.06
137 264 0.68
139 3 0.01
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (137 bp):
ATTTAAAATCATAGCCTCCAAAGTAGCTAGCAGACCTACGCTCCCAGCTAACATTATAAGAGCTT
GTAGAGTTAAGCTCGTAGCTCTGACACAGCTAGCGAACCTACGCTCCCAGCTGATGTCATAAAGG
TTTGACA
Found at i:21563943 original size:68 final size:67
Alignment explanation
Indices: 21563734--21563943 Score: 181
Period size: 68 Copynumber: 3.1 Consensus size: 67
21563724 GCTCGTAGAG
* * * * * *
21563734 TTAAGCTCGTAGCTCTGACACAACTAGCGAACCTATGCTCCCAGCTGATGTCATAAAAGTTTGAC
1 TTAAGCTCATAGCTCCGACACAGCTAGCGGACCTACGCTCCCAGCTGATGTCA-AAAGGTTTGAC
21563799 AAT
65 AAT
** * * * ** * * *
21563802 TTAAAATCATAGCCTCC-AAAGTAGCTAGCGGACCTACGTTCCCAGCTGACATTATAAGAGCTTG
1 TTAAGCTCATAG-CTCCGACA-CAGCTAGCGGACCTACGCTCCCAGCTGATGTCAAAAG-GTTTG
*
21563866 -CAAAG
63 AC-AAT
* *
21563871 TTAAGCTCACAGCTCCGACACAGCTAGCGGACCTACGCTCCTAGCTGATGTCAGAAAGGTTTGAC
1 TTAAGCTCATAGCTCCGACACAGCTAGCGGACCTACGCTCCCAGCTGATGTCA-AAAGGTTTGAC
21563936 AAT
65 AAT
21563939 TTAAG
1 TTAAG
21563944 TTCGTAGCCT
Statistics
Matches: 105, Mismatches: 30, Indels: 14
0.70 0.20 0.09
Matches are distributed among these distances:
68 56 0.53
69 49 0.47
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (67 bp):
TTAAGCTCATAGCTCCGACACAGCTAGCGGACCTACGCTCCCAGCTGATGTCAAAAGGTTTGACA
AT
Found at i:21579633 original size:22 final size:22
Alignment explanation
Indices: 21579606--21579663 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
21579596 CAAAATGTGC
21579606 ATGTCTTGAGACAATTTACCAT
1 ATGTCTTGAGACAATTTACCAT
** *
21579628 ATGTCTCAAGACAATTTATCAT
1 ATGTCTTGAGACAATTTACCAT
**
21579650 ACATCTTGAGACAA
1 ATGTCTTGAGACAA
21579664 GGCTCTCCTG
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.33
Consensus pattern (22 bp):
ATGTCTTGAGACAATTTACCAT
Found at i:21580130 original size:5 final size:5
Alignment explanation
Indices: 21580104--21580291 Score: 306
Period size: 5 Copynumber: 37.4 Consensus size: 5
21580094 TGATTTTAAA
*
21580104 ATAAT ACAAT ATAAAT ACTAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT AT-AAT A-TAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
21580156 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
21580206 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
* * * *
21580256 ATAAT ATAAT ATAA- ATTAT ATTAT ATTAT ATTAT AT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT AT
21580292 GTGTCTAAGC
Statistics
Matches: 177, Mismatches: 3, Indels: 6
0.95 0.02 0.03
Matches are distributed among these distances:
4 3 0.02
5 165 0.93
6 8 0.05
7 1 0.01
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (5 bp):
ATAAT
Found at i:21580676 original size:112 final size:110
Alignment explanation
Indices: 21580526--21580749 Score: 317
Period size: 112 Copynumber: 2.0 Consensus size: 110
21580516 TTATAATATA
* * * * *
21580526 TTAATTTTAAATATTGGTAAAGAAAATGTTGAAGATAGAATTTCAAAAGCAAAGGTTTAATCAAA
1 TTAATTTAAAATACTGATAAAGAAAATCTTGAAGATAGAATTTCAAAAGCAAACGTTTAATCAAA
*
21580591 ATTAAACCGA-GAGAAAAAAAATTAAGTATTAATTTTAAATATTATTG
66 ATTAAACC-ATGAG-AAAAAAA-TAAGTACTAATTTTAAATATTATTG
*
21580638 TTAATTTAAAATACTGATAAAGCAAATCTTGGAA-ATAGAATTTCAAAAGCAAACGTTTAATCAA
1 TTAATTTAAAATACTGATAAAGAAAATCTT-GAAGATAGAATTTCAAAAGCAAACGTTTAATCAA
* *
21580702 AATTAAACCATGAGAAAAGAATAAGTACTAATTTTAAATATTGTTG
65 AATTAAACCATGAGAAAAAAATAAGTACTAATTTTAAATATTATTG
21580748 TT
1 TT
21580750 TTAAAATTTC
Statistics
Matches: 101, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
110 25 0.25
111 7 0.07
112 66 0.65
113 3 0.03
ACGTcount: A:0.48, C:0.07, G:0.12, T:0.33
Consensus pattern (110 bp):
TTAATTTAAAATACTGATAAAGAAAATCTTGAAGATAGAATTTCAAAAGCAAACGTTTAATCAAA
ATTAAACCATGAGAAAAAAATAAGTACTAATTTTAAATATTATTG
Found at i:21580903 original size:14 final size:13
Alignment explanation
Indices: 21580876--21580921 Score: 56
Period size: 14 Copynumber: 3.4 Consensus size: 13
21580866 TTAAAAAATC
* *
21580876 TATTTCATAAATT
1 TATTTAATATATT
21580889 TGATTTAATATATT
1 T-ATTTAATATATT
21580903 TATCTTAATATATT
1 TAT-TTAATATATT
21580917 TATTT
1 TATTT
21580922 TTTTTGGTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
13 5 0.17
14 24 0.83
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (13 bp):
TATTTAATATATT
Found at i:21590141 original size:24 final size:24
Alignment explanation
Indices: 21590091--21590142 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
21590081 TAATCAAGTC
* **
21590091 AAATATATTATGCTAATAAATGTT
1 AAATATATTATACTAATAAATACT
21590115 AAATATATTATACTAATAAATACT
1 AAATATATTATACTAATAAATACT
21590139 AAAT
1 AAAT
21590143 CTTTTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.52, C:0.06, G:0.04, T:0.38
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:21590524 original size:80 final size:80
Alignment explanation
Indices: 21590427--21590587 Score: 304
Period size: 80 Copynumber: 2.0 Consensus size: 80
21590417 TTATATCTCC
* *
21590427 AGTACCTTATATTTACTTTGACTTCCACCTTTTCACTATAGAAATATTTTATATGATAAAAAAAA
1 AGTACCTTACATATACTTTGACTTCCACCTTTTCACTATAGAAATATTTTATATGATAAAAAAAA
21590492 TAACTAAATTCTACG
66 TAACTAAATTCTACG
21590507 AGTACCTTACATATACTTTGACTTCCACCTTTTCACTATAGAAATATTTTATATGATAAAAAAAA
1 AGTACCTTACATATACTTTGACTTCCACCTTTTCACTATAGAAATATTTTATATGATAAAAAAAA
21590572 TAACTAAATTCTACG
66 TAACTAAATTCTACG
21590587 A
1 A
21590588 AAACAGTTTA
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
80 79 1.00
ACGTcount: A:0.40, C:0.17, G:0.06, T:0.37
Consensus pattern (80 bp):
AGTACCTTACATATACTTTGACTTCCACCTTTTCACTATAGAAATATTTTATATGATAAAAAAAA
TAACTAAATTCTACG
Found at i:21602782 original size:13 final size:13
Alignment explanation
Indices: 21602760--21602793 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
21602750 GGGCCCATAG
*
21602760 GCCCACGTTGCAT
1 GCCCATGTTGCAT
21602773 GCCCATGTTGCAT
1 GCCCATGTTGCAT
21602786 GCCCATGT
1 GCCCATGT
21602794 AGGCCCACAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.15, C:0.35, G:0.24, T:0.26
Consensus pattern (13 bp):
GCCCATGTTGCAT
Found at i:21606234 original size:20 final size:20
Alignment explanation
Indices: 21606209--21606246 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
21606199 AGAGTTAGTG
21606209 TTTAAATATTTATTTAATTT
1 TTTAAATATTTATTTAATTT
21606229 TTTAAATATTTATTTAAT
1 TTTAAATATTTATTTAAT
21606247 GTTTACGAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
TTTAAATATTTATTTAATTT
Found at i:21621104 original size:44 final size:45
Alignment explanation
Indices: 21621043--21621769 Score: 557
Period size: 44 Copynumber: 16.5 Consensus size: 45
21621033 GCAGGCTAAA
* *
21621043 AAGA-AGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCA
1 AAGATAGCAGATCTTGTCTTCATATATTGGTCGTGAAGTAGATCG
* * * * *
21621086 AAGATAGCAGATCCTGTCTTCCTATATTGGTAG-GAAGTGGATCA
1 AAGATAGCAGATCTTGTCTTCATATATTGGTCGTGAAGTAGATCG
* * * * *
21621130 AAGAT-GCAGATCTTGTCTTGC-CATACTGGTGGCGAAGTAAATCG
1 AAGATAGCAGATCTTGTCTT-CATATATTGGTCGTGAAGTAGATCG
* * * * * *
21621174 AAGAAAGCTGATCCTGTCTTCATGTAGTGG-CATGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCATATATTGGTCGTGAAGTAGATCG
* * * * * * *
21621218 AAGATAACATATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCG
1 AAGATAGCAGATCTTGTCTTCATATATTGGTCGTGAAGTAGATCG
** * * * *
21621263 AAGATA-CAGATCTTGTCTTCCCATACTAGTGGCGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCATATATTGGTCGTGAAGTAGATCG
* ** * *
21621307 AAGAAAATAGATCTTGCCTTCATGTATTGG-CGTGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCATATATTGGTCGTGAAGTAGATCG
* * * * * ** *
21621351 AAGATAACAGATCCTGTTTTCCTATATTGGTAGCAAAGTGGATCG
1 AAGATAGCAGATCTTGTCTTCATATATTGGTCGTGAAGTAGATCG
** * * * *
21621396 AAGATA-CAGATCTTGTCTTCCCATACTGATGGCGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCATATATTGGTCGTGAAGTAGATCG
* * *
21621440 AAGAAAGCAGATCTTGTCTTCATGTATTGG-CGGGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCATATATTGGTCGTGAAGTAGATCG
** * * * * *
21621484 AAGATAATAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCG
1 AAGATAGCAGATCTTGTCTTCATATATTGGTCGTGAAGTAGATCG
* ** * * *
21621529 AAGATA-TAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCATATATTGGTCGTGAAGTAGATCG
* * * *
21621573 AAGAAAGCAGATCTTGTCTTCATGTGTTAG-CGTGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCATATATTGGTCGTGAAGTAGATCG
* * * * * *
21621617 AAGGTAGCAGATCCTGTCTTCCTATATTGGTAG-GAAGTGGATCA
1 AAGATAGCAGATCTTGTCTTCATATATTGGTCGTGAAGTAGATCG
* ** *
21621661 AAGAT-GTAGATCTTGTCTTCCCATATTGGTGGTGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCATATATTGGTCGTGAAGTAGATCG
* * * *
21621705 AAGAAAGCAGATCTTGTCTTCATGTATTGG-CATGAAGTGGATCG
1 AAGATAGCAGATCTTGTCTTCATATATTGGTCGTGAAGTAGATCG
* * *
21621749 AAAATAACAGATTTTGTCTTC
1 AAGATAGCAGATCTTGTCTTC
21621770 TTAAATTTGC
Statistics
Matches: 539, Mismatches: 130, Indels: 29
0.77 0.19 0.04
Matches are distributed among these distances:
43 48 0.09
44 353 0.65
45 138 0.26
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (45 bp):
AAGATAGCAGATCTTGTCTTCATATATTGGTCGTGAAGTAGATCG
Found at i:21621308 original size:133 final size:133
Alignment explanation
Indices: 21621046--21621769 Score: 1119
Period size: 133 Copynumber: 5.5 Consensus size: 133
21621036 GGCTAAAAAG
* *
21621046 AAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAGATCCTGTCTTCCTAT
1 AAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAGATCCTGTCTTCCTAT
* * * *
21621111 ATTGGTAG-GAAGTGGATCAAAGATGCAGATCTTGTCTTGCCATACTGGTGGCGAAGTAAATCGA
66 ATTGGTAGCGAAGTGGATCGAAGATACAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGA
21621175 AGA
131 AGA
* * * * *
21621178 AAGCTGATCCTGTCTTCATGTAGTGGCATGAAGTAGATCGAAGATAACATATCCTGTCTTCCTAT
1 AAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAGATCCTGTCTTCCTAT
*
21621243 ATTGGTAGCGAAGTGGATCGAAGATACAGATCTTGTCTTCCCATACTAGTGGCGAAGTAGATCGA
66 ATTGGTAGCGAAGTGGATCGAAGATACAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGA
21621308 AGA
131 AGA
** * *
21621311 AAATAGATCTTGCCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAGATCCTGTTTTCCTAT
1 AAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAGATCCTGTCTTCCTAT
* *
21621376 ATTGGTAGCAAAGTGGATCGAAGATACAGATCTTGTCTTCCCATACTGATGGCGAAGTAGATCGA
66 ATTGGTAGCGAAGTGGATCGAAGATACAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGA
21621441 AGA
131 AGA
* *
21621444 AAGCAGATCTTGTCTTCATGTATTGGCGGGAAGTAGATCGAAGATAATAGATCCTGTCTTCCTAT
1 AAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAGATCCTGTCTTCCTAT
*
21621509 ATTGGTAGCGAAGTGGATCGAAGATATAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGA
66 ATTGGTAGCGAAGTGGATCGAAGATACAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGA
21621574 AGA
131 AGA
* * * *
21621577 AAGCAGATCTTGTCTTCATGTGTTAGCGTGAAGTAGATCGAAGGTAGCAGATCCTGTCTTCCTAT
1 AAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAGATCCTGTCTTCCTAT
* ** * *
21621642 ATTGGTAG-GAAGTGGATCAAAGATGTAGATCTTGTCTTCCCATATTGGTGGTGAAGTAGATCGA
66 ATTGGTAGCGAAGTGGATCGAAGATACAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGA
21621706 AGA
131 AGA
* * * **
21621709 AAGCAGATCTTGTCTTCATGTATTGGCATGAAGTGGATCGAAAATAACAGATTTTGTCTTC
1 AAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAGATCCTGTCTTC
21621770 TTAAATTTGC
Statistics
Matches: 539, Mismatches: 52, Indels: 2
0.91 0.09 0.00
Matches are distributed among these distances:
132 173 0.32
133 366 0.68
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (133 bp):
AAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAGATCCTGTCTTCCTAT
ATTGGTAGCGAAGTGGATCGAAGATACAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGA
AGA
Found at i:21621858 original size:44 final size:44
Alignment explanation
Indices: 21621803--21621919 Score: 198
Period size: 44 Copynumber: 2.7 Consensus size: 44
21621793 GAAGTGGGCG
* *
21621803 AATCTTATCTCCCTAAAGTTGTAGTGGAGCAGATTAAGGCCAAT
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCAAT
* *
21621847 AATCCTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCGAT
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCAAT
21621891 AATCTTATCTCCCTAAAGTTGCAGTGGAG
1 AATCTTATCTCCCTAAAGTTGCAGTGGAG
21621920 TAGACACAAG
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 68 1.00
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.28
Consensus pattern (44 bp):
AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCAAT
Found at i:21626381 original size:41 final size:42
Alignment explanation
Indices: 21626296--21626381 Score: 129
Period size: 41 Copynumber: 2.1 Consensus size: 42
21626286 TGAATCCATG
*
21626296 AAATGGTTCAAAAGGAAGTTATTCAAAAAGGATAACAAATGA
1 AAATGGTTCAAAAGGAAGTTATCCAAAAAGGATAACAAATGA
* * *
21626338 AAAT-GTTGAAAAGGATGTTATCCGAAAAGGATAACAAATGA
1 AAATGGTTCAAAAGGAAGTTATCCAAAAAGGATAACAAATGA
21626379 AAA
1 AAA
21626382 GGATGTGTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
41 36 0.90
42 4 0.10
ACGTcount: A:0.52, C:0.07, G:0.20, T:0.21
Consensus pattern (42 bp):
AAATGGTTCAAAAGGAAGTTATCCAAAAAGGATAACAAATGA
Found at i:21645827 original size:22 final size:21
Alignment explanation
Indices: 21645791--21645870 Score: 56
Period size: 22 Copynumber: 3.7 Consensus size: 21
21645781 TAAAAGGTAT
* * *
21645791 TTACAAATTAAATCTCTAATA
1 TTACAAATCATATCTCTAAGA
21645812 TTACAAAATCATATCTTCTAAGA
1 TTAC-AAATCATATC-TCTAAGA
* *
21645835 TTGCATATCATA--TCTAAGA
1 TTACAAATCATATCTCTAAGA
*
21645854 TTGCATATATCATATCT
1 TTACA-A-ATCATATCT
21645871 AAGATCATAT
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
19 12 0.26
21 10 0.21
22 15 0.32
23 10 0.21
ACGTcount: A:0.40, C:0.16, G:0.05, T:0.39
Consensus pattern (21 bp):
TTACAAATCATATCTCTAAGA
Found at i:21645852 original size:19 final size:20
Alignment explanation
Indices: 21645828--21645875 Score: 80
Period size: 21 Copynumber: 2.4 Consensus size: 20
21645818 AATCATATCT
21645828 TCTAAGATTGC-ATATCATA
1 TCTAAGATTGCAATATCATA
21645847 TCTAAGATTGCATATATCATA
1 TCTAAGATTGCA-ATATCATA
21645868 TCTAAGAT
1 TCTAAGAT
21645876 CATATCTAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 11 0.41
21 16 0.59
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.38
Consensus pattern (20 bp):
TCTAAGATTGCAATATCATA
Found at i:21645895 original size:14 final size:12
Alignment explanation
Indices: 21645862--21645887 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
21645852 GATTGCATAT
21645862 ATCATATCTAAG
1 ATCATATCTAAG
21645874 ATCATATCTAAG
1 ATCATATCTAAG
21645886 AT
1 AT
21645888 TGCATATCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.15, G:0.08, T:0.35
Consensus pattern (12 bp):
ATCATATCTAAG
Found at i:21646726 original size:44 final size:44
Alignment explanation
Indices: 21646676--21646885 Score: 262
Period size: 44 Copynumber: 4.8 Consensus size: 44
21646666 ATCTGCTATT
* * *
21646676 TTCAACCTAATCCACTACTG-CTAAGGGAGATAGGATTCACAATC
1 TTCAACCTATTCCACTGCTGAC-CAGGGAGATAGGATTCACAATC
* **
21646720 TTCAACCTATTCCACTGTTGACCAGGGAGATA-GAACCTACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTC-ACAATC
* * * * *
21646764 TTTAATCTATTCCACTGCTGCCCAGGGAGATAGAATTCTCAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
* *
21646808 TTAAACCTATTCCACTACTGACCAGGGAGATAGGATTCACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
*
21646852 TTTAACCTATTCCACTGCTGACCAGGGAGATAGG
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGG
21646886 GCTGGTGATA
Statistics
Matches: 141, Mismatches: 22, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
43 3 0.02
44 135 0.96
45 3 0.02
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (44 bp):
TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
Found at i:21654126 original size:21 final size:21
Alignment explanation
Indices: 21654102--21654154 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
21654092 CATTGTTTCT
* *
21654102 AATCTCACCGCTACAGTATCC
1 AATCTCACCGCTACAATAACC
* *
21654123 AATCTCACCACTACAATAACT
1 AATCTCACCGCTACAATAACC
21654144 AATCTCACCGC
1 AATCTCACCGC
21654155 CACCGTTGTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.34, C:0.38, G:0.06, T:0.23
Consensus pattern (21 bp):
AATCTCACCGCTACAATAACC
Found at i:21658434 original size:41 final size:41
Alignment explanation
Indices: 21658377--21658454 Score: 120
Period size: 41 Copynumber: 1.9 Consensus size: 41
21658367 TCAGATTCTC
*
21658377 ATATTTCGAATATTTTAGCTACACTCATCTTTTGTGACTCG
1 ATATTTCGAATATTTTACCTACACTCATCTTTTGTGACTCG
* * *
21658418 ATATTTTGGATATTTTACCTACACTTATCTTTTGTGA
1 ATATTTCGAATATTTTACCTACACTCATCTTTTGTGA
21658455 ACGTTTAAAC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.24, C:0.17, G:0.12, T:0.47
Consensus pattern (41 bp):
ATATTTCGAATATTTTACCTACACTCATCTTTTGTGACTCG
Found at i:21662488 original size:30 final size:31
Alignment explanation
Indices: 21662454--21662522 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 31
21662444 GTCACCACTA
* *
21662454 ACCATTTTCT-GTTACAAACGTAACAGAGCT
1 ACCATTTTCTCATTACAAACATAACAGAGCT
* *
21662484 ACCATTTT-TCATTACAGACATAGCAGAGCT
1 ACCATTTTCTCATTACAAACATAACAGAGCT
*
21662514 GCCATTTTC
1 ACCATTTTC
21662523 CATCCCTCTA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
29 1 0.03
30 31 0.97
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.32
Consensus pattern (31 bp):
ACCATTTTCTCATTACAAACATAACAGAGCT
Found at i:21669548 original size:20 final size:20
Alignment explanation
Indices: 21669532--21669583 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 20
21669522 ATTGCACTTT
21669532 GGTGCCTCTATTTGCACTAC
1 GGTGCCTCTATTTGCACTAC
* *
21669552 AGTGCCTCTTTTTTGCACTAC
1 GGTGCCTC-TATTTGCACTAC
21669573 GGTGCCTCTAT
1 GGTGCCTCTAT
21669584 ATAGCGTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 9 0.33
21 18 0.67
ACGTcount: A:0.13, C:0.29, G:0.19, T:0.38
Consensus pattern (20 bp):
GGTGCCTCTATTTGCACTAC
Found at i:21678194 original size:22 final size:22
Alignment explanation
Indices: 21678169--21678235 Score: 64
Period size: 25 Copynumber: 2.9 Consensus size: 22
21678159 GTGCTATACA
21678169 GAGAGCATAGATGTGCTAATCG
1 GAGAGCATAGATGTGCTAATCG
* *
21678191 GAGAGCACTA-ACGTGCTAATAATCT
1 GAGAGCA-TAGATGTGC---TAATCG
*
21678216 GAGAGCATTGATGTGCTAAT
1 GAGAGCATAGATGTGCTAAT
21678236 AATCAGAAAG
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
22 16 0.44
23 2 0.06
24 1 0.03
25 17 0.47
ACGTcount: A:0.33, C:0.15, G:0.27, T:0.25
Consensus pattern (22 bp):
GAGAGCATAGATGTGCTAATCG
Found at i:21678219 original size:25 final size:25
Alignment explanation
Indices: 21678185--21678239 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
21678175 ATAGATGTGC
21678185 TAATCGGAGAGCACTAACGTGCTAA
1 TAATCGGAGAGCACTAACGTGCTAA
* * * *
21678210 TAATCTGAGAGCATTGATGTGCTAA
1 TAATCGGAGAGCACTAACGTGCTAA
21678235 TAATC
1 TAATC
21678240 AGAAAGAGCG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (25 bp):
TAATCGGAGAGCACTAACGTGCTAA
Found at i:21685277 original size:43 final size:43
Alignment explanation
Indices: 21685106--21685278 Score: 156
Period size: 43 Copynumber: 4.0 Consensus size: 43
21685096 ACCTAGGATT
* * * *
21685106 TCGATATGTGATTTCATGTAAGACCATGTTTGGGACGTTGGCA
1 TCGATATTTGATTACATGTAAGACCACGTCTGGGACGTTGGCA
* * * *
21685149 TCGAT-TTGAGATTTACGTGTAAGACCATGTCTGGGACATTGGCA
1 TCGATATT-TGA-TTACATGTAAGACCACGTCTGGGACGTTGGCA
* * * * * *
21685193 TCG-TATATAATTTCGTGTAAGACC-CTGTCTAGGATAG-TGGCA
1 TCGATATTTGATTACATGTAAGACCAC-GTCTGGGA-CGTTGGCA
21685235 TCGATATTTGATTACATGTAAGACCACGTCTGGGACGTTGGCA
1 TCGATATTTGATTACATGTAAGACCACGTCTGGGACGTTGGCA
21685278 T
1 T
21685279 TGTACAAGCT
Statistics
Matches: 102, Mismatches: 20, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
42 30 0.29
43 39 0.38
44 33 0.32
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (43 bp):
TCGATATTTGATTACATGTAAGACCACGTCTGGGACGTTGGCA
Found at i:21685959 original size:46 final size:46
Alignment explanation
Indices: 21685888--21686162 Score: 365
Period size: 46 Copynumber: 6.0 Consensus size: 46
21685878 TGTGATAACA
* * * * *
21685888 AAATGTTGTCTATTTTTTAGTATATTATGTTGTCTGAATGTTGTTT
1 AAATGCTGTCCATTTTTGAGCATATTATGTTGTCCGAATGTTGTTT
21685934 AAATGCTGTCCATTTTTGAGCATATTATGTTGTCCGAATGTTGTTT
1 AAATGCTGTCCATTTTTGAGCATATTATGTTGTCCGAATGTTGTTT
* * *
21685980 AAATGTTGTCCATTTTTTAGCATATTATGATGTCCGAATGTTGTTT
1 AAATGCTGTCCATTTTTGAGCATATTATGTTGTCCGAATGTTGTTT
* ** *
21686026 AAATGCTGTCCATTTTTGAGGATATTATACTGT-CTAATGTTGTTT
1 AAATGCTGTCCATTTTTGAGCATATTATGTTGTCCGAATGTTGTTT
*
21686071 AAATGCTGTCCATTTTTTAGCATATTATGTTGTCCGAATGTTGTTT
1 AAATGCTGTCCATTTTTGAGCATATTATGTTGTCCGAATGTTGTTT
* * * *
21686117 AAATGCTATCCATTTTTGTA-CAAATCAATGATGTCCGAATGTTGTT
1 AAATGCTGTCCATTTTTG-AGCATAT-TATGTTGTCCGAATGTTGTT
21686163 ACTGCTGTTC
Statistics
Matches: 202, Mismatches: 24, Indels: 5
0.87 0.10 0.02
Matches are distributed among these distances:
45 40 0.20
46 143 0.71
47 19 0.09
ACGTcount: A:0.24, C:0.11, G:0.17, T:0.47
Consensus pattern (46 bp):
AAATGCTGTCCATTTTTGAGCATATTATGTTGTCCGAATGTTGTTT
Found at i:21686045 original size:92 final size:92
Alignment explanation
Indices: 21685888--21686162 Score: 403
Period size: 92 Copynumber: 3.0 Consensus size: 92
21685878 TGTGATAACA
* * *
21685888 AAATGTTGTCTATTTTTTAGTATATTATGTTGTCTGAATGTTGTTTAAATGCTGTCCATTTTTGA
1 AAATGTTGTCCATTTTTTAGCATATTATGTTGTCCGAATGTTGTTTAAATGCTGTCCATTTTTGA
*
21685953 GCATATTATGTTGTCCGAATGTTGTTT
66 GCATATTATGATGTCCGAATGTTGTTT
*
21685980 AAATGTTGTCCATTTTTTAGCATATTATGATGTCCGAATGTTGTTTAAATGCTGTCCATTTTTGA
1 AAATGTTGTCCATTTTTTAGCATATTATGTTGTCCGAATGTTGTTTAAATGCTGTCCATTTTTGA
* *
21686045 GGATATTAT-ACTGT-CTAATGTTGTTT
66 GCATATTATGA-TGTCCGAATGTTGTTT
* *
21686071 AAATGCTGTCCATTTTTTAGCATATTATGTTGTCCGAATGTTGTTTAAATGCTATCCATTTTTGT
1 AAATGTTGTCCATTTTTTAGCATATTATGTTGTCCGAATGTTGTTTAAATGCTGTCCATTTTTG-
* *
21686136 A-CAAATCAATGATGTCCGAATGTTGTT
65 AGCATAT-TATGATGTCCGAATGTTGTT
21686163 ACTGCTGTTC
Statistics
Matches: 164, Mismatches: 14, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
91 75 0.46
92 78 0.48
93 11 0.07
ACGTcount: A:0.24, C:0.11, G:0.17, T:0.47
Consensus pattern (92 bp):
AAATGTTGTCCATTTTTTAGCATATTATGTTGTCCGAATGTTGTTTAAATGCTGTCCATTTTTGA
GCATATTATGATGTCCGAATGTTGTTT
Found at i:21686105 original size:91 final size:92
Alignment explanation
Indices: 21685888--21686134 Score: 397
Period size: 91 Copynumber: 2.7 Consensus size: 92
21685878 TGTGATAACA
* * *
21685888 AAATGTTGTCTATTTTTTAGTATATTATGTTGTCTGAATGTTGTTTAAATGCTGTCCATTTTTGA
1 AAATGTTGTCCATTTTTTAGCATATTATGTTGTCCGAATGTTGTTTAAATGCTGTCCATTTTTGA
**
21685953 GCATATTATGTTGTCCGAATGTTGTTT
66 GCATATTATACTGTCCGAATGTTGTTT
*
21685980 AAATGTTGTCCATTTTTTAGCATATTATGATGTCCGAATGTTGTTTAAATGCTGTCCATTTTTGA
1 AAATGTTGTCCATTTTTTAGCATATTATGTTGTCCGAATGTTGTTTAAATGCTGTCCATTTTTGA
* *
21686045 GGATATTATACTGT-CTAATGTTGTTT
66 GCATATTATACTGTCCGAATGTTGTTT
* *
21686071 AAATGCTGTCCATTTTTTAGCATATTATGTTGTCCGAATGTTGTTTAAATGCTATCCATTTTTG
1 AAATGTTGTCCATTTTTTAGCATATTATGTTGTCCGAATGTTGTTTAAATGCTGTCCATTTTTG
21686135 TACAAATCAA
Statistics
Matches: 144, Mismatches: 11, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
91 72 0.50
92 72 0.50
ACGTcount: A:0.23, C:0.11, G:0.17, T:0.49
Consensus pattern (92 bp):
AAATGTTGTCCATTTTTTAGCATATTATGTTGTCCGAATGTTGTTTAAATGCTGTCCATTTTTGA
GCATATTATACTGTCCGAATGTTGTTT
Found at i:21686197 original size:137 final size:138
Alignment explanation
Indices: 21685909--21686162 Score: 404
Period size: 137 Copynumber: 1.8 Consensus size: 138
21685899 ATTTTTTAGT
**
21685909 ATATTATGTTGTCTGAATGTTGTTTAAATGCTGTCCATTTTTGAGCATATTATGTTGTCCGAATG
1 ATATTATACTGTCTGAATGTTGTTTAAATGCTGTCCATTTTTGAGCATATTATGTTGTCCGAATG
* * * *
21685974 TTGTTTAAATGTTGTCCATTTTTTAGCATATTATGATGTCCGAATGTTGTTTAAATGCTGTCCAT
66 TTGTTTAAATGCTATCCATTTTTTAGCAAATAATGATGTCCGAATGTTGTTTAAATGCTGTCCAT
*
21686039 TTTTGAGG
131 ATTTGAGG
*
21686047 ATATTATACTGTCT-AATGTTGTTTAAATGCTGTCCATTTTTTAGCATATTATGTTGTCCGAATG
1 ATATTATACTGTCTGAATGTTGTTTAAATGCTGTCCATTTTTGAGCATATTATGTTGTCCGAATG
21686111 TTGTTTAAATGCTATCCATTTTTGTA-CAAATCAATGATGTCCGAATGTTGTT
66 TTGTTTAAATGCTATCCATTTTT-TAGCAAAT-AATGATGTCCGAATGTTGTT
21686163 ACTGCTGTTC
Statistics
Matches: 107, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
137 74 0.69
138 33 0.31
ACGTcount: A:0.24, C:0.12, G:0.18, T:0.46
Consensus pattern (138 bp):
ATATTATACTGTCTGAATGTTGTTTAAATGCTGTCCATTTTTGAGCATATTATGTTGTCCGAATG
TTGTTTAAATGCTATCCATTTTTTAGCAAATAATGATGTCCGAATGTTGTTTAAATGCTGTCCAT
ATTTGAGG
Found at i:21687410 original size:20 final size:18
Alignment explanation
Indices: 21687363--21687411 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
21687353 CAAGATAAAC
21687363 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
21687380 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
21687400 ATTAAATTAATA
1 ATTAAATTAATA
21687412 AAGTACTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 3 0.11
20 15 0.56
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:21691426 original size:12 final size:12
Alignment explanation
Indices: 21691411--21691435 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
21691401 ATCAAATTGG
21691411 ATAAAAAATTAA
1 ATAAAAAATTAA
21691423 ATAAAAAATTAA
1 ATAAAAAATTAA
21691435 A
1 A
21691436 AGTAAAAGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
ATAAAAAATTAA
Found at i:21695691 original size:16 final size:17
Alignment explanation
Indices: 21695670--21695703 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
21695660 TTCATATCTA
21695670 TCAACCT-ATTTAGACC
1 TCAACCTCATTTAGACC
*
21695686 TCAACCTCTTTTAGACC
1 TCAACCTCATTTAGACC
21695703 T
1 T
21695704 GATCAGCTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.26, C:0.32, G:0.06, T:0.35
Consensus pattern (17 bp):
TCAACCTCATTTAGACC
Found at i:21695889 original size:11 final size:11
Alignment explanation
Indices: 21695873--21695903 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
21695863 TGGTTTTGAA
21695873 TGTTATTTTCT
1 TGTTATTTTCT
21695884 TGTTATTTTCT
1 TGTTATTTTCT
*
21695895 TTTTATTTT
1 TGTTATTTT
21695904 GTTACCATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.10, C:0.06, G:0.06, T:0.77
Consensus pattern (11 bp):
TGTTATTTTCT
Found at i:21695922 original size:22 final size:22
Alignment explanation
Indices: 21695888--21695945 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
21695878 TTTTCTTGTT
* * *
21695888 ATTTTCTTTTTATTTTGTTACC
1 ATTTTATTATTATTTTGCTACC
* *
21695910 ATTTTATTATTATGTTGCTACT
1 ATTTTATTATTATTTTGCTACC
*
21695932 ATTTTATTGTTATT
1 ATTTTATTATTATT
21695946 GTTTGGATAT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.19, C:0.09, G:0.07, T:0.66
Consensus pattern (22 bp):
ATTTTATTATTATTTTGCTACC
Found at i:21696011 original size:30 final size:30
Alignment explanation
Indices: 21695977--21696038 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
21695967 TATTTTACTA
21695977 TTAATTTTGTTATTAATTTAAAAGCATTTG
1 TTAATTTTGTTATTAATTTAAAAGCATTTG
* * *
21696007 TTAATTTTGTTATTATTTTAGAGGCATTTG
1 TTAATTTTGTTATTAATTTAAAAGCATTTG
21696037 TT
1 TT
21696039 TGTTAAGTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.27, C:0.03, G:0.13, T:0.56
Consensus pattern (30 bp):
TTAATTTTGTTATTAATTTAAAAGCATTTG
Found at i:21696187 original size:12 final size:11
Alignment explanation
Indices: 21696156--21696183 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
21696146 CATATATATT
21696156 TAAAAATTATA
1 TAAAAATTATA
21696167 TAAAAATTATA
1 TAAAAATTATA
21696178 TAAAAA
1 TAAAAA
21696184 ATTAATACGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
TAAAAATTATA
Found at i:21703639 original size:13 final size:13
Alignment explanation
Indices: 21703621--21703651 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
21703611 ATTGGTTTAA
21703621 TTTAATATGGGAC
1 TTTAATATGGGAC
21703634 TTTAATATGGGAC
1 TTTAATATGGGAC
21703647 TTTAA
1 TTTAA
21703652 GGGAATATGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.32, C:0.06, G:0.19, T:0.42
Consensus pattern (13 bp):
TTTAATATGGGAC
Found at i:21712475 original size:112 final size:113
Alignment explanation
Indices: 21712029--21712690 Score: 1031
Period size: 112 Copynumber: 5.9 Consensus size: 113
21712019 AAAATAAGCA
** * ** * ** *
21712029 TTAGCGGCGTTTTCCAAAAAGCGCCGCAAAAAACCTAAGCCCAATGACGCCGTTTTCAGAGCTTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAAATAAGCCCAACGACGCCGTTTTGTGGGCTTT
* *
21712094 TGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGGTCAGGGCT
66 TGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCACTAATGCTCAGGGCT
*
21712142 TTAGCGGCGTTTTTGAGAAAGCACCGCAAAAAAACATAAGCCCAACGACGCCGTTTTGTGGGCTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAA-ATAAGCCCAACGACGCCGTTTTGTGGGCTT
* * *
21712207 TTGGGGATTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGGTCAGGGCT
65 TTGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCACTAATGCTCAGGGCT
* *
21712256 TTAGCGGCGTTTTTGAGAAAGCGCCACAAAAAAACATAAGCCCAACGGCGCCGTTTTGTGGGCTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAA-ATAAGCCCAACGACGCCGTTTTGTGGGCTT
*
21712321 TTGGGGATTTAGCGACGTTTTTAAGAAAGCGCCACTAATGCTCAGGGCT
65 TTGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCACTAATGCTCAGGGCT
*
21712370 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAAATAAGCCCAACGACGTCGTTTTGTGGGCTTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAAATAAGCCCAACGACGCCGTTTTGTGGGCTTT
*
21712435 T-GGGATTTAGCGGCGCTTTTAAGAAAGCGCCACTAATGCTCAGGGCT
66 TGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCACTAATGCTCAGGGCT
*
21712482 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAAATAAGCCCAACGACGTCGTTTTGTGGGCTTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAAATAAGCCCAACGACGCCGTTTTGTGGGCTTT
* * *
21712547 T-GGGATTTAGCGGCGCTTTTAAGAAAGCGCCACTAATGCTTAGTGCT
66 TGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCACTAATGCTCAGGGCT
* * *
21712594 TTAGCGGCGTTTTTGAGAAAGCGCCGGAAAAAAAATAAGCCCAACAACGCTGTTTTGTGGGCTTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAAATAAGCCCAACGACGCCGTTTTGTGGGCTTT
**
21712659 TGGGGATTTAGCAACGTTTTTAAGAAAGCGCC
66 TGGGGATTTAGCGGCGTTTTTAAGAAAGCGCC
21712691 GCAAAAAAAA
Statistics
Matches: 515, Mismatches: 32, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
112 216 0.42
113 86 0.17
114 213 0.41
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (113 bp):
TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAAATAAGCCCAACGACGCCGTTTTGTGGGCTTT
TGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCACTAATGCTCAGGGCT
Found at i:21712737 original size:71 final size:72
Alignment explanation
Indices: 21712601--21712741 Score: 212
Period size: 71 Copynumber: 2.0 Consensus size: 72
21712591 GCTTTAGCGG
* * * * * *
21712601 CGTTTTTGAGAAAGCGCCGGAAAAAAAATAAGCCCAACAACGCTGTTTTGTGGGCTTTTGGGGAT
1 CGTTTTTAAGAAAGCGCCGCAAAAAAAATAAGCCAAACAACGCCGTTTTGTGAGCTTTCGGGGAT
21712666 TTAGCAA
66 TTAGCAA
*
21712673 CGTTTTTAAGAAAGCGCCGCAAAAAAAA-AAGCCAAACGACGCCGTTTTGTGAGCTTTCGGGGAT
1 CGTTTTTAAGAAAGCGCCGCAAAAAAAATAAGCCAAACAACGCCGTTTTGTGAGCTTTCGGGGAT
21712737 TTAGC
66 TTAGC
21712742 GGCCAAAAAA
Statistics
Matches: 62, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
71 36 0.58
72 26 0.42
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (72 bp):
CGTTTTTAAGAAAGCGCCGCAAAAAAAATAAGCCAAACAACGCCGTTTTGTGAGCTTTCGGGGAT
TTAGCAA
Found at i:21712936 original size:14 final size:14
Alignment explanation
Indices: 21712919--21712949 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
21712909 GGTTTAGAGT
21712919 TTATGGATTAGGGA
1 TTATGGATTAGGGA
*
21712933 TTATGGATTATGGA
1 TTATGGATTAGGGA
21712947 TTA
1 TTA
21712950 GGGGTTGGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (14 bp):
TTATGGATTAGGGA
Found at i:21713277 original size:7 final size:7
Alignment explanation
Indices: 21713267--21713315 Score: 53
Period size: 7 Copynumber: 6.9 Consensus size: 7
21713257 GATTTAAGGT
21713267 TTAGGGG
1 TTAGGGG
21713274 TTAGGGG
1 TTAGGGG
21713281 TTTAGGGG
1 -TTAGGGG
**
21713289 TTAGATG
1 TTAGGGG
21713296 TTAGGGG
1 TTAGGGG
* *
21713303 TTAAGAG
1 TTAGGGG
21713310 TTAGGG
1 TTAGGG
21713316 ATTTAAGGTT
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
7 26 0.79
8 7 0.21
ACGTcount: A:0.20, C:0.00, G:0.47, T:0.33
Consensus pattern (7 bp):
TTAGGGG
Found at i:21713335 original size:15 final size:14
Alignment explanation
Indices: 21713260--21713330 Score: 65
Period size: 15 Copynumber: 4.9 Consensus size: 14
21713250 GTGTTGGGAT
21713260 TTAAGGTTTAGGGG
1 TTAAGGTTTAGGGG
*
21713274 TTAGGGGTTTAGGGG
1 TTA-AGGTTTAGGGG
*
21713289 TT-AGATGTTAGGGG
1 TTAAGGT-TTAGGGG
*
21713303 TTAAGAG-TTAGGGAT
1 TTAAG-GTTTAGGG-G
21713318 TTAAGGTTTAGGG
1 TTAAGGTTTAGGG
21713331 ATTTAGGGGT
Statistics
Matches: 46, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
13 2 0.04
14 19 0.41
15 25 0.54
ACGTcount: A:0.23, C:0.00, G:0.42, T:0.35
Consensus pattern (14 bp):
TTAAGGTTTAGGGG
Found at i:21714036 original size:147 final size:145
Alignment explanation
Indices: 21713870--21714419 Score: 493
Period size: 147 Copynumber: 3.8 Consensus size: 145
21713860 AAATGAAATC
21713870 GCGGCGTTTTTATAAAAAACGCCACAAAAATAAATCAATTTA-TAAAAACAAAATAAAAAAATTT
1 GCGGCGTTTTTATAAAAAACGCCACAAAAAT-AAT---TTTACTAAAAA-AAAATAAAAAAATTT
* *
21713934 AG-A-ATAGCAAAACGGCGTAGTTTTGTTCAAAATGAATTTTTTTTGCGGCGTTTTTCAT-AAAA
61 AGAACATAGCAAAACGGCATAGTTTTGTTCAAAAT-AAATTTTTTTGCGGCGTTTTTCATAAAAA
21713996 CGCCGCTAAAGGTAAGCAATA
125 CGCCGCTAAAGGTAAGCAATA
** ******
21714017 GCGGCGTTTTTATAAAAAACGCCAC-AAAATAATTTTACTTTAAAAAAATAGCCCCTTTTAGCAT
1 GCGGCGTTTTTATAAAAAACGCCACAAAAATAATTTTACTAAAAAAAAATAAAAAAATTTAG-A-
21714081 AGCATAGCAAAACGGCATAGTTTTGTTCAAAATAAATTTTTTTGCGGCGTTTTTCATAAAAACGC
64 A-CATAGCAAAACGGCATAGTTTTGTTCAAAATAAATTTTTTTGCGGCGTTTTTCATAAAAACGC
*
21714146 CGCTAAAGGTAAGTAATA
128 CGCTAAAGGTAAGCAATA
* ******
21714164 GCGGCGTTTTTATAAAAAACGCCAC-AAAATAATTTTACGT--TAAAAAATAGCCCCTTTTAGCA
1 GCGGCGTTTTTATAAAAAACGCCACAAAAATAATTTTAC-TAAAAAAAAATAAAAAAATTTAG-A
* *
21714226 TAGCATAGCAAAACAGCATAGTTTTGTTCAAAATGAATTTTTTTTGCGGCGTTTTTC------A-
64 -A-CATAGCAAAACGGCATAGTTTTGTTCAAAAT-AAATTTTTTTGCGGCGTTTTTCATAAAAAC
21714284 -----T-AAGGTAAGCAATA
126 GCCGCTAAAGGTAAGCAATA
** *****
21714298 GCGGCGTTTTTATAAAAAACGCCAC-AAAATAATTTTACT-TTAAAAAAT-AGCCCTTTTAGCAT
1 GCGGCGTTTTTATAAAAAACGCCACAAAAATAATTTTACTAAAAAAAAATAAAAAAATTTAG-A-
* * *
21714360 AGCATAGCAAAACGGCGTAGTTTTGTTTAAAATGAAAATTTTTTGCGGCGTTTTTC-TAAA
64 A-CATAGCAAAACGGCATAGTTTTGTTCAAAAT-AAATTTTTTTGCGGCGTTTTTCATAAA
21714420 GATAAGCAAT
Statistics
Matches: 367, Mismatches: 22, Indels: 38
0.86 0.05 0.09
Matches are distributed among these distances:
133 64 0.17
134 58 0.16
135 1 0.00
141 1 0.00
142 15 0.04
143 4 0.01
145 4 0.01
146 82 0.22
147 137 0.37
148 1 0.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (145 bp):
GCGGCGTTTTTATAAAAAACGCCACAAAAATAATTTTACTAAAAAAAAATAAAAAAATTTAGAAC
ATAGCAAAACGGCATAGTTTTGTTCAAAATAAATTTTTTTGCGGCGTTTTTCATAAAAACGCCGC
TAAAGGTAAGCAATA
Found at i:21714236 original size:146 final size:145
Alignment explanation
Indices: 21713937--21714419 Score: 758
Period size: 147 Copynumber: 3.4 Consensus size: 145
21713927 AAAATTTAGA
* *
21713937 ATAGCAAAACGGCGTAGTTTTGTTCAAAATGAATTTTTTTTGCGGCGTTTTTCATAAAACGCCGC
1 ATAGCAAAACGGCATAGTTTTGTTCAAAATGAAATTTTTTTGCGGCGTTTTTC-TAAAACGCCGC
21714002 TAAAGGTAAGCAATAGCGGCGTTTTTATAAAAAACGCCACAAAATAATTTTACTTTAAAAAAATA
65 TAAAGGTAAGCAATAGCGGCGTTTTTATAAAAAACGCCACAAAATAATTTTACTTT-AAAAAATA
21714067 GCCCCTTTTAGCATAGC
129 GCCCCTTTTAGCATAGC
21714084 ATAGCAAAACGGCATAGTTTTGTTCAAAAT-AAATTTTTTTGCGGCGTTTTTCATAAAAACGCCG
1 ATAGCAAAACGGCATAGTTTTGTTCAAAATGAAATTTTTTTGCGGCGTTTTTC-T-AAAACGCCG
* *
21714148 CTAAAGGTAAGTAATAGCGGCGTTTTTATAAAAAACGCCACAAAATAATTTTACGTTAAAAAATA
64 CTAAAGGTAAGCAATAGCGGCGTTTTTATAAAAAACGCCACAAAATAATTTTACTTTAAAAAATA
21714213 GCCCCTTTTAGCATAGC
129 GCCCCTTTTAGCATAGC
* *
21714230 ATAGCAAAACAGCATAGTTTTGTTCAAAATGAATTTTTTTTGCGGCGTTTTTC----A------T
1 ATAGCAAAACGGCATAGTTTTGTTCAAAATGAAATTTTTTTGCGGCGTTTTTCTAAAACGCCGCT
21714285 -AAGGTAAGCAATAGCGGCGTTTTTATAAAAAACGCCACAAAATAATTTTACTTTAAAAAATAG-
66 AAAGGTAAGCAATAGCGGCGTTTTTATAAAAAACGCCACAAAATAATTTTACTTTAAAAAATAGC
21714348 CCCTTTTAGCATAGC
131 CCCTTTTAGCATAGC
* * *
21714363 ATAGCAAAACGGCGTAGTTTTGTTTAAAATGAAAATTTTTTGCGGCGTTTTTCTAAA
1 ATAGCAAAACGGCATAGTTTTGTTCAAAATGAAATTTTTTTGCGGCGTTTTTCTAAA
21714420 GATAAGCAAT
Statistics
Matches: 317, Mismatches: 13, Indels: 22
0.90 0.04 0.06
Matches are distributed among these distances:
133 63 0.20
134 61 0.19
135 1 0.00
141 1 0.00
146 77 0.24
147 114 0.36
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.33
Consensus pattern (145 bp):
ATAGCAAAACGGCATAGTTTTGTTCAAAATGAAATTTTTTTGCGGCGTTTTTCTAAAACGCCGCT
AAAGGTAAGCAATAGCGGCGTTTTTATAAAAAACGCCACAAAATAATTTTACTTTAAAAAATAGC
CCCTTTTAGCATAGC
Found at i:21714392 original size:133 final size:134
Alignment explanation
Indices: 21714148--21714466 Score: 489
Period size: 133 Copynumber: 2.4 Consensus size: 134
21714138 AAAAACGCCG
*
21714148 CTAAAGGTAAGTAATAGCGGCGTTTTTATAAAAAACGCCACAAAATAATTTTACGTTAAAAAATA
1 CTAAAGGTAAGCAATAGCGGCGTTTTTATAAAAAACGCCACAAAATAATTTTACGTTAAAAAATA
**
21714213 GCCCCTTTTAGCATAGCATAGCAAAACAGCATAGTTTTGTTCAAAATGAATTTTTTTTGCGGCGT
66 GCCCCTTTTAGCATAGCATAGCAAAACAGCATAGTTTTGTTCAAAATGAAAATTTTTTGCGGCGT
21714278 TTTT
131 TTTT
*
21714282 C-ATAAGGTAAGCAATAGCGGCGTTTTTATAAAAAACGCCACAAAATAATTTTACTTTAAAAAAT
1 CTA-AAGGTAAGCAATAGCGGCGTTTTTATAAAAAACGCCACAAAATAATTTTACGTTAAAAAAT
* * *
21714346 AG-CCCTTTTAGCATAGCATAGCAAAACGGCGTAGTTTTGTTTAAAATGAAAATTTTTTGCGGCG
65 AGCCCCTTTTAGCATAGCATAGCAAAACAGCATAGTTTTGTTCAAAATGAAAATTTTTTGCGGCG
21714410 TTTTT
130 TTTTT
* * * * * *
21714415 CTAAAGATAAGCAATAGCGACATTTTGAGAGAAAACGCCACAAAAATAATTT
1 CTAAAGGTAAGCAATAGCGGCGTTTTTATAAAAAACGCCAC-AAAATAATTT
21714467 CACTCCATTT
Statistics
Matches: 169, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
133 96 0.57
134 73 0.43
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.31
Consensus pattern (134 bp):
CTAAAGGTAAGCAATAGCGGCGTTTTTATAAAAAACGCCACAAAATAATTTTACGTTAAAAAATA
GCCCCTTTTAGCATAGCATAGCAAAACAGCATAGTTTTGTTCAAAATGAAAATTTTTTGCGGCGT
TTTT
Found at i:21718284 original size:43 final size:43
Alignment explanation
Indices: 21718205--21718325 Score: 149
Period size: 43 Copynumber: 2.8 Consensus size: 43
21718195 TTTTTGCTAC
*
21718205 AAGCGTCGCTAAAGGT-TTGTTCGTTT-GCGGCATTTGT-GAAA
1 AAGCGTCGCTAAAGGTCTTGTTC-TTTAGCGGCGTTTGTGGAAA
* * *
21718246 GAAGCGTGGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGAA
1 -AAGCGTCGCTAAAGGTCTTGTTCTTTAGCGGCGTTTGTGGAAA
* *
21718290 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTT
1 AAGCGTCGCTAAAGGTCTTGTTCTTTAGCGGCGTTT
21718326 TTCTCTAAAC
Statistics
Matches: 68, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
42 18 0.26
43 47 0.69
44 3 0.04
ACGTcount: A:0.20, C:0.17, G:0.32, T:0.31
Consensus pattern (43 bp):
AAGCGTCGCTAAAGGTCTTGTTCTTTAGCGGCGTTTGTGGAAA
Found at i:21718354 original size:42 final size:42
Alignment explanation
Indices: 21718290--21718453 Score: 265
Period size: 42 Copynumber: 3.9 Consensus size: 42
21718280 TTTGTGGGAA
** * *
21718290 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTTTCTCT
1 AAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCT
* *
21718332 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTGT
1 AAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCT
21718374 AAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCT
1 AAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCT
*
21718416 AAGCGCCGCTTAAGAACATGGTCTTTAGCGGCGTTTTT
1 AAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTT
21718454 GTTTGTAAAC
Statistics
Matches: 113, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 113 1.00
ACGTcount: A:0.20, C:0.21, G:0.25, T:0.34
Consensus pattern (42 bp):
AAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCT
Found at i:21718399 original size:84 final size:85
Alignment explanation
Indices: 21718254--21718454 Score: 278
Period size: 84 Copynumber: 2.4 Consensus size: 85
21718244 AAGAAGCGTG
** * * ** *
21718254 GCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTCTTTAGC
1 GCTAAAGAACATGGTCTTTAGCGGCGTTTTTGGGAAAAGCGCCGCTAAAGAACATGGTCTTTAGC
21718319 GGCGTTTTTCTCTAAACGCC
66 GGCGTTTTTCTCTAAACGCC
** *
21718339 GCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTG-TAAGCGCCGCTAAAGAACATGGTCTTTAGC
1 GCTAAAGAACATGGTCTTTAGCGGCGTTTTTGGGAAAAGCGCCGCTAAAGAACATGGTCTTTAGC
* *
21718403 GGCGTTTTTTTCTAAGCGCC
66 GGCGTTTTTCTCTAAACGCC
*
21718423 GCTTAAGAACATGGTCTTTAGCGGCGTTTTTG
1 GCTAAAGAACATGGTCTTTAGCGGCGTTTTTG
21718455 TTTGTAAACG
Statistics
Matches: 102, Mismatches: 14, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
84 74 0.73
85 28 0.27
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.33
Consensus pattern (85 bp):
GCTAAAGAACATGGTCTTTAGCGGCGTTTTTGGGAAAAGCGCCGCTAAAGAACATGGTCTTTAGC
GGCGTTTTTCTCTAAACGCC
Found at i:21719234 original size:40 final size:40
Alignment explanation
Indices: 21719190--21719367 Score: 182
Period size: 40 Copynumber: 4.5 Consensus size: 40
21719180 GTATAAATAG
* ** *
21719190 GGGCACGTAAGTGCATTCCGGGGTACCGAAGTACAAACAA
1 GGGCACGTATGTGCATTCAAGGGTACCAAAGTACAAACAA
** *
21719230 GGGCACGTATGTGCATTCAAGGGTATTAAAGTACAAA-TA
1 GGGCACGTATGTGCATTCAAGGGTACCAAAGTACAAACAA
* * *
21719269 GGGTCACGTATGTGCATTCAGGGGTACAAAAGTACAATCAA
1 GGG-CACGTATGTGCATTCAAGGGTACCAAAGTACAAACAA
* * * *
21719310 GGGCACATATGTGCATT-TAGGGTACCGAAGTACAAA-TA
1 GGGCACGTATGTGCATTCAAGGGTACCAAAGTACAAACAA
*
21719348 GGAGCACGTATGTGTATTCA
1 GG-GCACGTATGTGCATTCA
21719368 TTCAATAATT
Statistics
Matches: 112, Mismatches: 22, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
38 3 0.03
39 31 0.28
40 74 0.66
41 4 0.04
ACGTcount: A:0.33, C:0.17, G:0.28, T:0.22
Consensus pattern (40 bp):
GGGCACGTATGTGCATTCAAGGGTACCAAAGTACAAACAA
Found at i:21719302 original size:80 final size:78
Alignment explanation
Indices: 21719179--21719367 Score: 234
Period size: 80 Copynumber: 2.4 Consensus size: 78
21719169 GAGTTACCGG
* * * ** *
21719179 AGTATAAATAGGGGCACGTAAGTGCATTCCGGGGTACCGAAGTACAAACAAGGGCACGTATGTGC
1 AGTACAAATA-GGGCACGTATGTGCATTCAGGGGTACAAAAGTACAAACAAGGGCACATATGTGC
**
21719244 ATTCAAGGGTATTAA
65 ATT-AAGGGTACCAA
*
21719259 AGTACAAATAGGGTCACGTATGTGCATTCAGGGGTACAAAAGTACAATCAAGGGCACATATGTGC
1 AGTACAAATAGGG-CACGTATGTGCATTCAGGGGTACAAAAGTACAAACAAGGGCACATATGTGC
* *
21719324 ATTTAGGGTACCGA
65 ATTAAGGGTACCAA
*
21719338 AGTACAAATAGGAGCACGTATGTGTATTCA
1 AGTACAAATAGG-GCACGTATGTGCATTCA
21719368 TTCAATAATT
Statistics
Matches: 95, Mismatches: 12, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
79 37 0.39
80 58 0.61
ACGTcount: A:0.34, C:0.16, G:0.27, T:0.23
Consensus pattern (78 bp):
AGTACAAATAGGGCACGTATGTGCATTCAGGGGTACAAAAGTACAAACAAGGGCACATATGTGCA
TTAAGGGTACCAA
Found at i:21720314 original size:11 final size:12
Alignment explanation
Indices: 21720288--21720312 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
21720278 AATGCAATGA
21720288 TTGCTAAAGTTT
1 TTGCTAAAGTTT
21720300 TTGCTAAAGTTT
1 TTGCTAAAGTTT
21720312 T
1 T
21720313 GCACCTTCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.08, G:0.16, T:0.52
Consensus pattern (12 bp):
TTGCTAAAGTTT
Found at i:21720887 original size:82 final size:82
Alignment explanation
Indices: 21720764--21720919 Score: 294
Period size: 82 Copynumber: 1.9 Consensus size: 82
21720754 ATCTATACTC
*
21720764 TCTTAGCATTGAAACGTGGAACACGTTATGAATTTTCTCAAGTTCAAGAGGTAAAGCTAATTTGT
1 TCTTAGCATTGAAACATGGAACACGTTATGAATTTTCTCAAGTTCAAGAGGTAAAGCTAATTTGT
21720829 AAGCTATAGCATTGAAG
66 AAGCTATAGCATTGAAG
21720846 TCTTAGCATTGAAACATGGAACACGTTATGAATTTTCTCAAGTTCAAGAGGTAAAGCTAATTTGT
1 TCTTAGCATTGAAACATGGAACACGTTATGAATTTTCTCAAGTTCAAGAGGTAAAGCTAATTTGT
*
21720911 AAGGTATAG
66 AAGCTATAG
21720920 ACTGATTCTT
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
82 72 1.00
ACGTcount: A:0.35, C:0.13, G:0.21, T:0.32
Consensus pattern (82 bp):
TCTTAGCATTGAAACATGGAACACGTTATGAATTTTCTCAAGTTCAAGAGGTAAAGCTAATTTGT
AAGCTATAGCATTGAAG
Found at i:21742472 original size:21 final size:21
Alignment explanation
Indices: 21742446--21742485 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
21742436 TGTATAAAAC
*
21742446 ATGCTTAAATAGCATTATAAA
1 ATGCTTAAATAACATTATAAA
21742467 ATGCTTAAATAACATTATA
1 ATGCTTAAATAACATTATA
21742486 CATAATTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.47, C:0.10, G:0.07, T:0.35
Consensus pattern (21 bp):
ATGCTTAAATAACATTATAAA
Found at i:21743381 original size:84 final size:84
Alignment explanation
Indices: 21743276--21743512 Score: 422
Period size: 84 Copynumber: 2.8 Consensus size: 84
21743266 CAAAGGATCC
* *
21743276 CGGTGGAATCAACACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACC
1 CGGTGGAATTAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACC
21743341 CCTTTCACAATCAATGATA
66 CCTTTCACAATCAATGATA
21743360 CGGTGGAATTAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACC
1 CGGTGGAATTAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACC
21743425 CCTTTCACAATCAATGATA
66 CCTTTCACAATCAATGATA
* *
21743444 CGGTGGAATTAGCACTTAGCAACCACCTTATAATCAATGATACAGGGAATCTA-CACTTAGCAAC
1 CGGTGGAATTAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATC-AGCACATAGCAAC
21743508 CCCTT
65 CCCTT
21743513 ACATTCAAAG
Statistics
Matches: 148, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
84 147 0.99
85 1 0.01
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.23
Consensus pattern (84 bp):
CGGTGGAATTAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACC
CCTTTCACAATCAATGATA
Found at i:21743395 original size:42 final size:42
Alignment explanation
Indices: 21743229--21743513 Score: 341
Period size: 42 Copynumber: 6.8 Consensus size: 42
21743219 ATTAACCGTT
* ** *
21743229 ATACGGTGGAATCAGCACTTAGCAACCACCTCATGTTCAAAGG
1 ATACGGTGGAATCAGCACTTAGCAACCACCTTATAATC-AATG
* *
21743272 ATCCCGGTGGAATCAACACTTAGCAACCACCTTATAATCAATG
1 AT-ACGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATG
* *
21743315 ATACGG-GGAATCAGCACATAGCAACC-CCTTTCACAATCAATG
1 ATACGGTGGAATCAGCACTTAGCAACCACC-TT-ATAATCAATG
*
21743357 ATACGGTGGAATTAGCACTTAGCAACCACCTTATAATCAATG
1 ATACGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATG
* *
21743399 ATACGG-GGAATCAGCACATAGCAACC-CCTTTCACAATCAATG
1 ATACGGTGGAATCAGCACTTAGCAACCACC-TT-ATAATCAATG
*
21743441 ATACGGTGGAATTAGCACTTAGCAACCACCTTATAATCAATG
1 ATACGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATG
*
21743483 ATACAG-GGAATCTA-CACTTAGCAACC-CCTTA
1 ATACGGTGGAATC-AGCACTTAGCAACCACCTTA
21743514 CATTCAAAGA
Statistics
Matches: 211, Mismatches: 21, Indels: 23
0.83 0.08 0.09
Matches are distributed among these distances:
40 9 0.04
41 57 0.27
42 63 0.30
43 47 0.22
44 35 0.17
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.22
Consensus pattern (42 bp):
ATACGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATG
Found at i:21744978 original size:22 final size:21
Alignment explanation
Indices: 21744953--21744996 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
21744943 TGATAAACTT
21744953 TAATATATA-ATTATATTATTTA
1 TAATATATATATTA-ATT-TTTA
*
21744975 TAATTTATATATTAATTTTTA
1 TAATATATATATTAATTTTTA
21744996 T
1 T
21744997 CAACTTAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 5 0.25
22 11 0.55
23 4 0.20
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TAATATATATATTAATTTTTA
Found at i:21746566 original size:12 final size:10
Alignment explanation
Indices: 21746541--21746580 Score: 53
Period size: 10 Copynumber: 3.8 Consensus size: 10
21746531 GAACGTGATG
21746541 AATTTTAATT
1 AATTTTAATT
21746551 AATTTTATAGTT
1 AATTTTA-A-TT
*
21746563 AATTTTGATT
1 AATTTTAATT
21746573 AATTTTAA
1 AATTTTAA
21746581 CTATTTTTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
10 16 0.62
11 2 0.08
12 8 0.31
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (10 bp):
AATTTTAATT
Found at i:21747099 original size:18 final size:18
Alignment explanation
Indices: 21747076--21747115 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 18
21747066 TTCTTATCGA
21747076 AAAATAATTAAA-TATTAT
1 AAAATAATTAAATTATT-T
21747094 AAAATAATTAAATTATTT
1 AAAATAATTAAATTATTT
21747112 AAAA
1 AAAA
21747116 ATATGAACGT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
AAAATAATTAAATTATTT
Found at i:21754644 original size:21 final size:21
Alignment explanation
Indices: 21754618--21754719 Score: 91
Period size: 21 Copynumber: 5.0 Consensus size: 21
21754608 TAAGGGTCTT
21754618 ATATATTTAATTGAGTTTCTC
1 ATATATTTAATTGAGTTTCTC
* *
21754639 ATATATATAATTGAGTTTCTA
1 ATATATTTAATTGAGTTTCTC
* * *
21754660 ATGTATTTAATTGAG-TACTT
1 ATATATTTAATTGAGTTTCTC
*** * **
21754680 A-ATAAAAAATTAAGGGTCTC
1 ATATATTTAATTGAGTTTCTC
21754700 ATATATTTAATTGAGTTTCT
1 ATATATTTAATTGAGTTTCT
21754720 AATGTATGTG
Statistics
Matches: 59, Mismatches: 20, Indels: 4
0.71 0.24 0.05
Matches are distributed among these distances:
19 8 0.14
20 7 0.12
21 44 0.75
ACGTcount: A:0.35, C:0.07, G:0.12, T:0.46
Consensus pattern (21 bp):
ATATATTTAATTGAGTTTCTC
Found at i:21762079 original size:40 final size:40
Alignment explanation
Indices: 21762042--21762226 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
21762032 GCTACTCGTT
*
21762042 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
21762082 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * *
21762122 CAAATGCCTTCGGG-CTTAGCCCAGAATTAGTATCTCGAA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
21762161 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
21762202 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
21762227 CATCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
38 2 0.02
39 31 0.26
40 76 0.63
41 12 0.10
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:21762169 original size:79 final size:81
Alignment explanation
Indices: 21762042--21762224 Score: 205
Period size: 79 Copynumber: 2.3 Consensus size: 81
21762032 GCTACTCGTT
* ** * *
21762042 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGAACAAATGCCTTC-GGATCTTAACCCG
* *
21762106 GATTTAGTAAC-TCGCA
65 GATATAGTAACTTAGCA
* **
21762122 CAAATGCCTTCGGG-CTTAGCCCAGAAT-TAGTATCTCGAACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCC-GAATATAGTAACTCGAACAAATGCCTTCGGATCTTAACCCG
* *
21762185 GATATGGTCACTTAGCA
65 GATATAGTAACTTAGCA
21762202 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
21762225 GACATCATTC
Statistics
Matches: 87, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
78 3 0.03
79 52 0.60
80 32 0.37
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGAACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:21763115 original size:100 final size:100
Alignment explanation
Indices: 21762988--21763186 Score: 371
Period size: 100 Copynumber: 2.0 Consensus size: 100
21762978 TTTCACACAT
21762988 TCATAATTACATATTCTAGACAATAAATATCACATTCAAACATTTCAGTGACTCGGTTTAGCGGT
1 TCATAATTACATATTCTAGACAATAAATATCACATTCAAACATTTCAGTGACTCGGTTTAGCGGT
*
21763053 CCCGAAACCACTTCCCGACTAGGGTCAATTTTGGA
66 CCCAAAACCACTTCCCGACTAGGGTCAATTTTGGA
*
21763088 TCATAATTACATATTCTAGACAATAAATATCACATTCAAACATTTCGGTGACTCGGTTTAGCGGT
1 TCATAATTACATATTCTAGACAATAAATATCACATTCAAACATTTCAGTGACTCGGTTTAGCGGT
*
21763153 CCCAAAACCACTTCTCGACTAGGGTCAATTTTGG
66 CCCAAAACCACTTCCCGACTAGGGTCAATTTTGG
21763187 GCTGTCACAA
Statistics
Matches: 96, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
100 96 1.00
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.31
Consensus pattern (100 bp):
TCATAATTACATATTCTAGACAATAAATATCACATTCAAACATTTCAGTGACTCGGTTTAGCGGT
CCCAAAACCACTTCCCGACTAGGGTCAATTTTGGA
Found at i:21767268 original size:43 final size:42
Alignment explanation
Indices: 21767182--21767298 Score: 139
Period size: 43 Copynumber: 2.8 Consensus size: 42
21767172 TAGGGTTAGT
* * *
21767182 TGAGATTACGTGTAAGA-CATATCTGGGATATGGCATCGATG
1 TGAGATTCCATGTAAGACCATATCTGGGATATGGCATCAATG
* *
21767223 TGAGACTT-CTTGTAAGACCATATCTGGGCTATTGGCATCAATG
1 TGAGA-TTCCATGTAAGACCATATCTGGGATA-TGGCATCAATG
* *
21767266 TGAGATTCCATGTAATACCTTATCTGGGATATG
1 TGAGATTCCATGTAAGACCATATCTGGGATATG
21767299 TCATTGGAAT
Statistics
Matches: 65, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
41 13 0.20
42 18 0.28
43 34 0.52
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.32
Consensus pattern (42 bp):
TGAGATTCCATGTAAGACCATATCTGGGATATGGCATCAATG
Found at i:21767866 original size:19 final size:19
Alignment explanation
Indices: 21767842--21767883 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
21767832 CATTGAATGT
*
21767842 TGGCCTATAATGGTTATGA
1 TGGCCTATAATGATTATGA
*
21767861 TGGCCTATAATGATTATGT
1 TGGCCTATAATGATTATGA
21767880 TGGC
1 TGGC
21767884 TATTGATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.24, C:0.12, G:0.26, T:0.38
Consensus pattern (19 bp):
TGGCCTATAATGATTATGA
Found at i:21771062 original size:27 final size:26
Alignment explanation
Indices: 21771032--21771089 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
21771022 CGACTTGTAA
21771032 AATTACCAAAGTACTCCCAATTTACAG
1 AATTACCAAAGTAC-CCCAATTTACAG
*** *
21771059 AATTACCATTTTACCTCAATTTACAG
1 AATTACCAAAGTACCCCAATTTACAG
21771085 AATTA
1 AATTA
21771090 TCGTTTTACC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
26 16 0.59
27 11 0.41
ACGTcount: A:0.40, C:0.22, G:0.05, T:0.33
Consensus pattern (26 bp):
AATTACCAAAGTACCCCAATTTACAG
Found at i:21771226 original size:27 final size:27
Alignment explanation
Indices: 21771049--21771215 Score: 210
Period size: 27 Copynumber: 6.2 Consensus size: 27
21771039 AAAGTACTCC
*
21771049 CAATTTACAGAATTACCATTTTA-CCT
1 CAATTTACAGAATTACCGTTTTACCCT
*
21771075 CAATTTACAGAATTATCGTTTTACCCT
1 CAATTTACAGAATTACCGTTTTACCCT
** * *
21771102 CAATTTTTAAAATTACAGTTTTACCCT
1 CAATTTACAGAATTACCGTTTTACCCT
* *
21771129 CGATTTACAGAATTACCGTTTTATCCT
1 CAATTTACAGAATTACCGTTTTACCCT
* * **
21771156 TAGTTTACAGAATTACTATTTTACCCT
1 CAATTTACAGAATTACCGTTTTACCCT
*
21771183 CGATTTACAGAATTACCGTTTTACCCT
1 CAATTTACAGAATTACCGTTTTACCCT
21771210 CAATTT
1 CAATTT
21771216 GTAAAATTAC
Statistics
Matches: 115, Mismatches: 25, Indels: 1
0.82 0.18 0.01
Matches are distributed among these distances:
26 21 0.18
27 94 0.82
ACGTcount: A:0.30, C:0.22, G:0.07, T:0.41
Consensus pattern (27 bp):
CAATTTACAGAATTACCGTTTTACCCT
Found at i:21771238 original size:69 final size:69
Alignment explanation
Indices: 21771159--21771299 Score: 174
Period size: 69 Copynumber: 2.0 Consensus size: 69
21771149 TTATCCTTAG
* * * * *
21771159 TTTACAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAATTTGTAAAATT
1 TTTACAGAATTACTAGTTTACCCTCGATTTACAAAATTACCATTTTACCATCAATTTATAAAATT
21771224 ACCA
66 ACCA
* * * * * *
21771228 TTTATAGAATTACTGGTTTACCCTCGGTTTACAAAATTATCATTTTACCATCGATTTATAGAATT
1 TTTACAGAATTACTAGTTTACCCTCGATTTACAAAATTACCATTTTACCATCAATTTATAAAATT
*
21771293 ACTA
66 ACCA
21771297 TTT
1 TTT
21771300 TACCCTCAAT
Statistics
Matches: 60, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
69 60 1.00
ACGTcount: A:0.31, C:0.18, G:0.09, T:0.42
Consensus pattern (69 bp):
TTTACAGAATTACTAGTTTACCCTCGATTTACAAAATTACCATTTTACCATCAATTTATAAAATT
ACCA
Found at i:21771258 original size:27 final size:25
Alignment explanation
Indices: 21771227--21771306 Score: 70
Period size: 27 Copynumber: 3.0 Consensus size: 25
21771217 TAAAATTACC
21771227 ATTTATAGAATTACTGGTTTACCCTCG
1 ATTTATAGAATTACT--TTTACCCTCG
* * * *
21771254 GTTTACAAAATTATCATTTTACCATCG
1 ATTTATAGAATTA-C-TTTTACCCTCG
21771281 ATTTATAGAATTACTATTTTACCCTC
1 ATTTATAGAATTAC--TTTTACCCTC
21771307 AATTGTGAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
26 1 0.02
27 39 0.93
28 1 0.02
29 1 0.02
ACGTcount: A:0.30, C:0.19, G:0.09, T:0.42
Consensus pattern (25 bp):
ATTTATAGAATTACTTTTACCCTCG
Found at i:21771264 original size:42 final size:42
Alignment explanation
Indices: 21771185--21771272 Score: 104
Period size: 42 Copynumber: 2.1 Consensus size: 42
21771175 TTTACCCTCG
* **
21771185 ATTTACAGAATTACCGTTTTACCCTCAATTTGTAAAATTACC
1 ATTTACAGAATTACCGGTTTACCCTCAATTTACAAAATTACC
* * ** *
21771227 ATTTATAGAATTACTGGTTTACCCTCGGTTTACAAAATTATC
1 ATTTACAGAATTACCGGTTTACCCTCAATTTACAAAATTACC
21771269 ATTT
1 ATTT
21771273 TACCATCGAT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.32, C:0.18, G:0.09, T:0.41
Consensus pattern (42 bp):
ATTTACAGAATTACCGGTTTACCCTCAATTTACAAAATTACC
Found at i:21771266 original size:96 final size:95
Alignment explanation
Indices: 21771131--21771320 Score: 247
Period size: 96 Copynumber: 2.0 Consensus size: 95
21771121 TTTACCCTCG
* * * * *
21771131 ATTTACAGAATTACCGTTTTATCCTTAGTTTACAGAATTA-CTATTTTACCCTCGATTTACAGAA
1 ATTTACAGAATTACCGGTTTACCCTCAGTTTACAAAATTATC-ATTTTACCATCGATTTACAGAA
*
21771195 TTACCGTTTTACCCTCAATTTGTAAAATTACC
65 TTACCATTTTACCCTCAA-TTGTAAAATTACC
* * * *
21771227 ATTTATAGAATTACTGGTTTACCCTCGGTTTACAAAATTATCATTTTACCATCGATTTATAGAAT
1 ATTTACAGAATTACCGGTTTACCCTCAGTTTACAAAATTATCATTTTACCATCGATTTACAGAAT
* *
21771292 TACTATTTTACCCTCAATTGTGAAATTAC
66 TACCATTTTACCCTCAATTGTAAAATTAC
21771321 TGAAATACCC
Statistics
Matches: 81, Mismatches: 12, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
95 11 0.14
96 69 0.85
97 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.09, T:0.41
Consensus pattern (95 bp):
ATTTACAGAATTACCGGTTTACCCTCAGTTTACAAAATTATCATTTTACCATCGATTTACAGAAT
TACCATTTTACCCTCAATTGTAAAATTACC
Found at i:21771347 original size:27 final size:27
Alignment explanation
Indices: 21771315--21771510 Score: 248
Period size: 27 Copynumber: 7.3 Consensus size: 27
21771305 TCAATTGTGA
*
21771315 AATTACTGAAATACCCTTATAGGGTAG
1 AATTACCGAAATACCCTTATAGGGTAG
*
21771342 AATTACCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCTTATAGGGTAG
**
21771369 AATTACTAAAATACCCTTATAGGGTAG
1 AATTACCGAAATACCCTTATAGGGTAG
***
21771396 AATTACCGAAATACCCCCGTAGGGTAG
1 AATTACCGAAATACCCTTATAGGGTAG
* *
21771423 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTATAGGGTAG
* *
21771450 AAATACCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCTTATAGGGTAG
* * * * *
21771477 AATTACCGAGATACCTTTGTGGGGTAA
1 AATTACCGAAATACCCTTATAGGGTAG
21771504 AATTACC
1 AATTACC
21771511 ATTTTGCCCC
Statistics
Matches: 145, Mismatches: 24, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 145 1.00
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCTTATAGGGTAG
Found at i:21771383 original size:54 final size:54
Alignment explanation
Indices: 21771315--21771510 Score: 277
Period size: 54 Copynumber: 3.6 Consensus size: 54
21771305 TCAATTGTGA
21771315 AATTACTGAAATACCCTTATAGGGTAGAATTACCGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCTTATAGGGTAGAATTACCGAAATACCCCTATAGGGTAG
* **
21771369 AATTACTAAAATACCCTTATAGGGTAGAATTACCGAAATACCCCCGTAGGGTAG
1 AATTACTGAAATACCCTTATAGGGTAGAATTACCGAAATACCCCTATAGGGTAG
* *
21771423 AATTA-TCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTATAGGGTAG
1 AATTACT-GAAATACCCTTATAGGGTAGAATTACCGAAATACCCCTATAGGGTAG
* * * * * *
21771477 AATTACCGAGATACCTTTGTGGGGTAAAATTACC
1 AATTACTGAAATACCCTTATAGGGTAGAATTACC
21771511 ATTTTGCCCC
Statistics
Matches: 126, Mismatches: 14, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
53 1 0.01
54 125 0.99
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (54 bp):
AATTACTGAAATACCCTTATAGGGTAGAATTACCGAAATACCCCTATAGGGTAG
Found at i:21771747 original size:27 final size:26
Alignment explanation
Indices: 21771709--21771791 Score: 94
Period size: 27 Copynumber: 3.1 Consensus size: 26
21771699 CGGAGGAAGC
21771709 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTATGCCAC-AATATCT
*
21771736 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTATGCCACAATATCT
* * * * *
21771762 ATATTTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTATGCCACAATATCT
21771789 GTT
1 GTT
21771792 GACCGATCGA
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
26 9 0.18
27 40 0.82
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTATGCCACAATATCT
Found at i:21772134 original size:27 final size:27
Alignment explanation
Indices: 21772104--21772175 Score: 85
Period size: 27 Copynumber: 2.7 Consensus size: 27
21772094 GGTGGGTTTT
* *
21772104 CCACATTATCTG-ATCCTGGTGGCTCTG
1 CCACAATATCTGTAT-CTGGTGACTCTG
21772131 CCACAATATCTGTATCTGGTGACTCTG
1 CCACAATATCTGTATCTGGTGACTCTG
* *
21772158 TCACGATATCTGT-TCTGG
1 CCACAATATCTGTATCTGG
21772176 CAGCCATGCT
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
26 5 0.12
27 33 0.82
28 2 0.05
ACGTcount: A:0.18, C:0.26, G:0.21, T:0.35
Consensus pattern (27 bp):
CCACAATATCTGTATCTGGTGACTCTG
Found at i:21772302 original size:6 final size:6
Alignment explanation
Indices: 21772293--21772437 Score: 120
Period size: 6 Copynumber: 23.8 Consensus size: 6
21772283 TTGCATTCAC
* *
21772293 ATTCTG ATTCTG ATTCTG -TCACCTA ATTCTG ATTCTG ATTCTG -TTACTG
1 ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATT-CTG
* * * * *
21772342 ATTCTG ATTCTG ATTTTG -TTAGTG ATTTTG ATTCTG ATTCTG -TCACCTA
1 ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG AT--TCTG
*
21772391 ATTCTG ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG GTTCTG ATTCT
1 ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCT
21772438 CATTTTGGTT
Statistics
Matches: 113, Mismatches: 14, Indels: 24
0.75 0.09 0.16
Matches are distributed among these distances:
5 8 0.07
6 93 0.82
7 10 0.09
8 2 0.02
ACGTcount: A:0.17, C:0.17, G:0.16, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:21772405 original size:31 final size:30
Alignment explanation
Indices: 21772364--21772437 Score: 103
Period size: 31 Copynumber: 2.4 Consensus size: 30
21772354 ATTTTGTTAG
*
21772364 TGATTTTGATTCTGATTCTGTCACCTAATTC
1 TGATTCTGATTCTGATTCTGTCA-CTAATTC
* *
21772395 TGATTCTGATTCTGATTCTGTTACTGATTC
1 TGATTCTGATTCTGATTCTGTCACTAATTC
*
21772425 TGGTTCTGATTCT
1 TGATTCTGATTCT
21772438 CATTTTGGTT
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 18 0.46
31 21 0.54
ACGTcount: A:0.16, C:0.18, G:0.16, T:0.50
Consensus pattern (30 bp):
TGATTCTGATTCTGATTCTGTCACTAATTC
Found at i:21772443 original size:73 final size:73
Alignment explanation
Indices: 21772287--21772444 Score: 214
Period size: 73 Copynumber: 2.2 Consensus size: 73
21772277 TTGGGATTGC
* *
21772287 ATTCACATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGTTACTGATTCTGATTC
1 ATTCTCATTTTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGTTACTGATTCTGATTC
*
21772352 TGATTTTG
66 TGATTCTG
* *
21772360 -TTAGTGATTTTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATT-CTG-TTACTGA
1 ATT-CTCATTTTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTG-TTACTGATT-CTGA
*
21772422 TTCTGGTTCTG
63 TTCTGATTCTG
21772433 ATTCTCATTTTG
1 ATTCTCATTTTG
21772445 GTTCCAATTC
Statistics
Matches: 73, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
72 4 0.05
73 65 0.89
74 4 0.05
ACGTcount: A:0.18, C:0.18, G:0.15, T:0.49
Consensus pattern (73 bp):
ATTCTCATTTTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGTTACTGATTCTGATTC
TGATTCTG
Found at i:21772446 original size:18 final size:18
Alignment explanation
Indices: 21772319--21772458 Score: 90
Period size: 18 Copynumber: 7.7 Consensus size: 18
21772309 TGTCACCTAA
21772319 TTCTGATTCTGATTCT-G
1 TTCTGATTCTGATTCTGG
*
21772336 TTACTGATTCTGATTCTGA
1 TT-CTGATTCTGATTCTGG
* * * *
21772355 TTTTG-TTAGTGATTTTGA
1 TTCTGATT-CTGATTCTGG
* **
21772373 TTCTGATTCTG-TCACCTAA
1 TTCTGATTCTGAT--TCTGG
*
21772392 TTCTGATTCTGATTCTGA
1 TTCTGATTCTGATTCTGG
21772410 TTCTG-TTACTGATTCTGG
1 TTCTGATT-CTGATTCTGG
* *
21772428 TTCTGATTCTCATTTTGG
1 TTCTGATTCTGATTCTGG
**
21772446 TTCCAATTCTGAT
1 TTCTGATTCTGAT
21772459 AATGTTTCTT
Statistics
Matches: 97, Mismatches: 17, Indels: 17
0.74 0.13 0.13
Matches are distributed among these distances:
17 7 0.07
18 70 0.72
19 19 0.20
20 1 0.01
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.51
Consensus pattern (18 bp):
TTCTGATTCTGATTCTGG
Found at i:21781837 original size:44 final size:44
Alignment explanation
Indices: 21781774--21781861 Score: 149
Period size: 44 Copynumber: 2.0 Consensus size: 44
21781764 CCAGCTTCGT
* *
21781774 AGAAGTTCTCTGCCTCAGCCATAGCTACGGTCAAATCGGTGATG
1 AGAAGTTCTCTGCCTCAGCCATAGCTACGATCAAATCAGTGATG
*
21781818 AGAAGTTCTTTGCCTCAGCCATAGCTACGATCAAATCAGTGATG
1 AGAAGTTCTCTGCCTCAGCCATAGCTACGATCAAATCAGTGATG
21781862 CCTAGGCGGC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (44 bp):
AGAAGTTCTCTGCCTCAGCCATAGCTACGATCAAATCAGTGATG
Found at i:21782674 original size:23 final size:22
Alignment explanation
Indices: 21782643--21782700 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 22
21782633 GAATGGTATC
21782643 TACAAATCAAATCT-CTAAGATT
1 TACAAATCAAATCTCCTAAGA-T
*
21782665 TACAAAATCATATCTCCTAAGAT
1 TAC-AAATCAAATCTCCTAAGAT
*
21782688 TACATATCAAATC
1 TACAAATCAAATC
21782701 CACGATTGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
22 11 0.35
23 14 0.45
24 6 0.19
ACGTcount: A:0.45, C:0.21, G:0.03, T:0.31
Consensus pattern (22 bp):
TACAAATCAAATCTCCTAAGAT
Found at i:21784704 original size:15 final size:15
Alignment explanation
Indices: 21784684--21784714 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
21784674 GACGGTTCTG
21784684 TGTGCTCTAATTCAT
1 TGTGCTCTAATTCAT
21784699 TGTGCTCTAATTCAT
1 TGTGCTCTAATTCAT
21784714 T
1 T
21784715 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:0.19, C:0.19, G:0.13, T:0.48
Consensus pattern (15 bp):
TGTGCTCTAATTCAT
Found at i:21795851 original size:16 final size:18
Alignment explanation
Indices: 21795815--21795852 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
21795805 ATTTAGTTTT
21795815 TTAACTTATATACTATAA
1 TTAACTTATATACTATAA
*
21795833 TTAACTTA-ATA-TTTAA
1 TTAACTTATATACTATAA
21795849 TTAA
1 TTAA
21795853 AAATAGTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
17 3 0.16
18 8 0.42
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.47
Consensus pattern (18 bp):
TTAACTTATATACTATAA
Found at i:21798447 original size:50 final size:50
Alignment explanation
Indices: 21798322--21798567 Score: 249
Period size: 50 Copynumber: 4.8 Consensus size: 50
21798312 ATTTGGGTAA
* *
21798322 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATG
* * *
21798378 TGAGGTCCCATGTAAGACCATGTCTGGGAGATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* ** ** *
21798428 AGAGGTCCTATGTAAGACCACATCTGGGACATGGTGTTGGCACTGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * *
21798478 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGTACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * *
21798528 AGAACTCTCATGTAAGACCATATCTGGGATATGGCATTGG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGG
21798568 TAGTACATAA
Statistics
Matches: 159, Mismatches: 31, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
50 117 0.74
53 3 0.02
55 1 0.01
56 38 0.24
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:21806151 original size:50 final size:51
Alignment explanation
Indices: 21806034--21806274 Score: 227
Period size: 50 Copynumber: 4.7 Consensus size: 51
21806024 TAAAGAGATG
* * * *
21806034 CCATGTAAGACCATGTTTGGGACATGGCATTAGCATCATTGAGATTATGTGAGGTC
1 CCATGTAAGACCATGTTTGGGACATGGCGTTGGCAGC--TGAG---ATGAGAGGTC
* * *
21806090 CTATGTAAGACCATGTTTGGGAGATTGCGTTGGCA-CTGAGATGAGAGGTC
1 CCATGTAAGACCATGTTTGGGACATGGCGTTGGCAGCTGAGATGAGAGGTC
21806140 CCATGTAAGACCATGTTTGGGACATGGCGTTGGCAGC-GAGATGAGAGGTC
1 CCATGTAAGACCATGTTTGGGACATGGCGTTGGCAGCTGAGATGAGAGGTC
** * * * * * **
21806190 CCCCGTAAGACCATGTTTGGGACATGACATGGGCA-CCGATATGAGAACTC
1 CCATGTAAGACCATGTTTGGGACATGGCGTTGGCAGCTGAGATGAGAGGTC
* * * * *
21806240 TCATGTAAGACCATATCTGGGATATGGCATTGGCA
1 CCATGTAAGACCATGTTTGGGACATGGCGTTGGCA
21806275 ATACAGAAAA
Statistics
Matches: 158, Mismatches: 25, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
49 1 0.01
50 121 0.77
51 1 0.01
53 4 0.03
55 1 0.01
56 30 0.19
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (51 bp):
CCATGTAAGACCATGTTTGGGACATGGCGTTGGCAGCTGAGATGAGAGGTC
Found at i:21806225 original size:100 final size:102
Alignment explanation
Indices: 21806034--21806274 Score: 254
Period size: 100 Copynumber: 2.3 Consensus size: 102
21806024 TAAAGAGATG
* * * * *
21806034 CCATGTAAGACCATGTTTGGGACATGGCATTAGCATCATTGAGATTATGTGAGGTCCTATGTAAG
1 CCATGTAAGACCATGTTTGGGACATGGCATTGGCAGC--TGAG--TATGAGAGGTCCCACGTAAG
* * * * **
21806099 ACCATGTTTGGGAGATTGCGTTGGCACTGAGATGAGAGGTC
62 ACCATGTTTGGGACATTGCATGGGCACCGAGATGAGAACTC
* *
21806140 CCATGTAAGACCATGTTTGGGACATGGCGTTGGCAGC-GAG-ATGAGAGGTCCCCCGTAAGACCA
1 CCATGTAAGACCATGTTTGGGACATGGCATTGGCAGCTGAGTATGAGAGGTCCCACGTAAGACCA
*
21806203 TGTTTGGGACA-TGACATGGGCACCGATATGAGAACTC
66 TGTTTGGGACATTG-CATGGGCACCGAGATGAGAACTC
* * * *
21806240 TCATGTAAGACCATATCTGGGATATGGCATTGGCA
1 CCATGTAAGACCATGTTTGGGACATGGCATTGGCA
21806275 ATACAGAAAA
Statistics
Matches: 115, Mismatches: 19, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
99 2 0.02
100 76 0.66
103 3 0.03
106 34 0.30
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (102 bp):
CCATGTAAGACCATGTTTGGGACATGGCATTGGCAGCTGAGTATGAGAGGTCCCACGTAAGACCA
TGTTTGGGACATTGCATGGGCACCGAGATGAGAACTC
Found at i:21806540 original size:12 final size:12
Alignment explanation
Indices: 21806523--21806554 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
21806513 ATGAGTTATT
*
21806523 TAAGTAAGCAAG
1 TAAGTAAACAAG
21806535 TAAGTAAACAAG
1 TAAGTAAACAAG
21806547 TAAGTAAA
1 TAAGTAAA
21806555 AAACGAGTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.56, C:0.06, G:0.19, T:0.19
Consensus pattern (12 bp):
TAAGTAAACAAG
Found at i:21809440 original size:9 final size:9
Alignment explanation
Indices: 21809426--21809453 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
21809416 TTTTGTTACA
21809426 ACAATTAAT
1 ACAATTAAT
21809435 ACAATTAAT
1 ACAATTAAT
21809444 ACAATTAAT
1 ACAATTAAT
21809453 A
1 A
21809454 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:21809475 original size:68 final size:66
Alignment explanation
Indices: 21809400--21809537 Score: 231
Period size: 68 Copynumber: 2.1 Consensus size: 66
21809390 GTTTGTTTTG
*
21809400 CTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAATTAATAATTTGATAAAT
1 CTAATCAAATGTTAGATTTTATTACAACAATTAATACAATT-A-ACAATTAATAATTTGATAAAT
21809465 TTA
64 TTA
* *
21809468 CTAATCAAATGTTAGATTTTATTACAATAATTAATACAATTAACAATTAATAATTTGATAATTTT
1 CTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATTAATAATTTGATAAATTT
21809533 A
66 A
21809534 CTAA
1 CTAA
21809538 CAATTAATTT
Statistics
Matches: 67, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
66 27 0.40
67 1 0.01
68 39 0.58
ACGTcount: A:0.46, C:0.09, G:0.05, T:0.41
Consensus pattern (66 bp):
CTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATTAATAATTTGATAAATTT
A
Found at i:21809547 original size:16 final size:16
Alignment explanation
Indices: 21809526--21809567 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
21809516 AATAATTTGA
*
21809526 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
21809542 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
21809558 TAGTTTTAAT
1 TAATTTTAAT
21809568 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:21809551 original size:22 final size:22
Alignment explanation
Indices: 21809541--21809601 Score: 77
Period size: 22 Copynumber: 2.8 Consensus size: 22
21809531 TTACTAACAA
* * *
21809541 TTAATTTTAATAACAATTAGTT
1 TTAATTTTAATAAAAAATAATT
*
21809563 TTAATTTTATTAAAAAATAATT
1 TTAATTTTAATAAAAAATAATT
*
21809585 TTAATTTTAATTAAAAA
1 TTAATTTTAATAAAAAA
21809602 CGGGCCGGGC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.49
Consensus pattern (22 bp):
TTAATTTTAATAAAAAATAATT
Found at i:21810769 original size:20 final size:21
Alignment explanation
Indices: 21810746--21810793 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 21
21810736 AATCAAGTAA
21810746 AATTAACATAA-TTAAACATT
1 AATTAACATAATTTAAACATT
**
21810766 AATTAATTTAATTTAAACA-T
1 AATTAACATAATTTAAACATT
*
21810786 GATTAACA
1 AATTAACA
21810794 AGGTGAACGA
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.52, C:0.08, G:0.02, T:0.38
Consensus pattern (21 bp):
AATTAACATAATTTAAACATT
Found at i:21817055 original size:45 final size:45
Alignment explanation
Indices: 21816991--21817082 Score: 184
Period size: 45 Copynumber: 2.0 Consensus size: 45
21816981 TACAATTGAA
21816991 TTATGCTAATCAAATTAGCACACAACCTCTACGAGATTAACATTC
1 TTATGCTAATCAAATTAGCACACAACCTCTACGAGATTAACATTC
21817036 TTATGCTAATCAAATTAGCACACAACCTCTACGAGATTAACATTC
1 TTATGCTAATCAAATTAGCACACAACCTCTACGAGATTAACATTC
21817081 TT
1 TT
21817083 GAGCTCCGGG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.37, C:0.24, G:0.09, T:0.30
Consensus pattern (45 bp):
TTATGCTAATCAAATTAGCACACAACCTCTACGAGATTAACATTC
Found at i:21825775 original size:25 final size:26
Alignment explanation
Indices: 21825744--21825799 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 26
21825734 AAATTAAAAG
21825744 AAAAGAAAAAG-AACGAAGAAGA-AGA
1 AAAAG-AAAAGTAACGAAGAAGAGAGA
*
21825769 AAAAGAAGAGTAACGAAGAAGATGAGA
1 AAAAGAAAAGTAACGAAGAAGA-GAGA
21825796 AAAA
1 AAAA
21825800 CTAAAGAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 4 0.15
25 16 0.59
27 7 0.26
ACGTcount: A:0.68, C:0.04, G:0.25, T:0.04
Consensus pattern (26 bp):
AAAAGAAAAGTAACGAAGAAGAGAGA
Found at i:21838854 original size:25 final size:25
Alignment explanation
Indices: 21838816--21838893 Score: 84
Period size: 25 Copynumber: 3.1 Consensus size: 25
21838806 TATTAGTTTT
* * * *
21838816 AGCTCTTATAAGCTTACCGATACTC
1 AGCTCGTATGAGCTTACCGTTATTC
**
21838841 AGCTCGTATGAGCTTATTGTTATTC
1 AGCTCGTATGAGCTTACCGTTATTC
* *
21838866 AGCTCGGAGGAGCTTACCGTTATTC
1 AGCTCGTATGAGCTTACCGTTATTC
21838891 AGC
1 AGC
21838894 CCCGGAGAGC
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.33
Consensus pattern (25 bp):
AGCTCGTATGAGCTTACCGTTATTC
Found at i:21838903 original size:25 final size:25
Alignment explanation
Indices: 21838826--21838907 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
21838816 AGCTCTTATA
* * * * *
21838826 AGCTTACCGATACTCAGCTCGTATG
1 AGCTTACCGTTATTCAGCCCGGAGG
** *
21838851 AGCTTATTGTTATTCAGCTCGGAGG
1 AGCTTACCGTTATTCAGCCCGGAGG
21838876 AGCTTACCGTTATTCAGCCCCGGA-G
1 AGCTTACCGTTATTCAG-CCCGGAGG
21838901 AGCTTAC
1 AGCTTAC
21838908 TATTTATAGC
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
25 42 0.89
26 5 0.11
ACGTcount: A:0.22, C:0.26, G:0.23, T:0.29
Consensus pattern (25 bp):
AGCTTACCGTTATTCAGCCCGGAGG
Found at i:21843769 original size:20 final size:20
Alignment explanation
Indices: 21843726--21843774 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
21843716 GTGACCCCTG
*
21843726 TTTTCAAAATTTTTAGATTC
1 TTTTCAAAAATTTTAGATTC
*
21843746 TTTTCTAAAAATTTTA-ATTTT
1 TTTTC-AAAAATTTTAGA-TTC
21843767 TTTTCAAA
1 TTTTCAAA
21843775 TTAGTCCCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 9 0.36
21 16 0.64
ACGTcount: A:0.33, C:0.08, G:0.02, T:0.57
Consensus pattern (20 bp):
TTTTCAAAAATTTTAGATTC
Done.