Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 46 of 187
Found at i:13523395 original size:39 final size:38
Alignment explanation
Indices: 13523315--13523414 Score: 148
Period size: 39 Copynumber: 2.6 Consensus size: 38
13523305 AAAAAATAAT
* *
13523315 ATTTTAAAATTTCTAATAT-TTTTATATTTTTTTCAAT
1 ATTTTAAAATTTCTAATATATTTTATATTTTTTACAAC
13523352 ATTTTAAAATTTCTAATATATATTTATATTTTTTACAAC
1 ATTTTAAAATTTCTAATATAT-TTTATATTTTTTACAAC
* *
13523391 ATTTTAAAAATTCTAACATATTTT
1 ATTTTAAAATTTCTAATATATTTT
13523415 TAGAATTTAT
Statistics
Matches: 57, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
37 19 0.33
38 4 0.07
39 34 0.60
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (38 bp):
ATTTTAAAATTTCTAATATATTTTATATTTTTTACAAC
Found at i:13527928 original size:21 final size:21
Alignment explanation
Indices: 13527900--13527944 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 21
13527890 TATTATTCCC
13527900 TTTTATTTATTGAAAT-TG-GA
1 TTTTATTT-TTGAAATCTGAGA
13527920 TTTTGATTTTTGAAATCTGAGA
1 TTTT-ATTTTTGAAATCTGAGA
13527942 TTT
1 TTT
13527945 GTTTTTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 11 0.50
21 6 0.27
22 5 0.23
ACGTcount: A:0.27, C:0.02, G:0.16, T:0.56
Consensus pattern (21 bp):
TTTTATTTTTGAAATCTGAGA
Found at i:13531506 original size:19 final size:17
Alignment explanation
Indices: 13531464--13531508 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 17
13531454 TTTAGATATA
13531464 AAATAATCAATATAAAT
1 AAATAATCAATATAAAT
13531481 ATTAATAATCATATTATAAAT
1 A--AATAATCA-A-TATAAAT
13531502 AAATAAT
1 AAATAAT
13531509 ATAAACACTC
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
17 1 0.04
19 14 0.58
20 1 0.04
21 8 0.33
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (17 bp):
AAATAATCAATATAAAT
Found at i:13534894 original size:225 final size:225
Alignment explanation
Indices: 13534477--13534928 Score: 701
Period size: 225 Copynumber: 2.0 Consensus size: 225
13534467 GAATCATGTA
*
13534477 AATCGGTAACGTATCCTTTGGATCGACTGTTTTGTACTTTCCTTTCCCTAGTTCCGATAGAGTTG
1 AATCGGTAACGTATCCTCTGGATCGACTGTTTTGTACTTTCCTTTCCCTAGTTCCGATAGAGTTG
* * *
13534542 GCTTAAGGGATGGACTTGGCTTAGAAGACGATGAAGAGCGTTTCGGAGACGGTGTGGTTGATTTT
66 GCTTAAGGGATGGACTTGGCTTAAAAGACGATGAAGAGCGTTTCAGAGACGGTGTGGTTGATTTA
* * * *
13534607 GGTGGTGTAAGTCCTTTTGGTGATGGAGATGGTTTTTCGGCCGTGAATGACATTTTAAATGATGG
131 GGTGGTGTAAGTCCTTTAGGTGATGGAGATGGTTTCTCGGCCGTAAATGACATTTCAAATGATGG
*
13534672 AAGCGGACTAGGAGGATATAGAA-TCGGCTT
196 AAGCAGACTAGGAGGATATAGAACT-GGCTT
* * * *
13534702 AATCGGTAATGTATCCTCTGGATTGAGTGTTTTGTACTTTCCTTTCCCTAGTTCTGATAGAGTTG
1 AATCGGTAACGTATCCTCTGGATCGACTGTTTTGTACTTTCCTTTCCCTAGTTCCGATAGAGTTG
* *
13534767 GCTTAAGGGATGGACTTGGCTTAAAAGACGATGAAGAGGGTTTCAGAGACGGTGTGGTTGGTTTA
66 GCTTAAGGGATGGACTTGGCTTAAAAGACGATGAAGAGCGTTTCAGAGACGGTGTGGTTGATTTA
* **
13534832 GGTGGTGTCAA-TCCTTTAGGTGATGGAGATGGTTTCTGGGCCGTAAATGATGTTTCAAATGATG
131 GGTGGTGT-AAGTCCTTTAGGTGATGGAGATGGTTTCTCGGCCGTAAATGACATTTCAAATGATG
*
13534896 GCAGCAGACTAGGAGGATATAGAACTGGCTT
195 GAAGCAGACTAGGAGGATATAGAACTGGCTT
13534927 AA
1 AA
13534929 CCGAGGACTG
Statistics
Matches: 206, Mismatches: 19, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
225 203 0.99
226 3 0.01
ACGTcount: A:0.23, C:0.13, G:0.31, T:0.33
Consensus pattern (225 bp):
AATCGGTAACGTATCCTCTGGATCGACTGTTTTGTACTTTCCTTTCCCTAGTTCCGATAGAGTTG
GCTTAAGGGATGGACTTGGCTTAAAAGACGATGAAGAGCGTTTCAGAGACGGTGTGGTTGATTTA
GGTGGTGTAAGTCCTTTAGGTGATGGAGATGGTTTCTCGGCCGTAAATGACATTTCAAATGATGG
AAGCAGACTAGGAGGATATAGAACTGGCTT
Found at i:13539426 original size:13 final size:13
Alignment explanation
Indices: 13539410--13539435 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
13539400 ATTAAAAGTA
13539410 TGCTTTTTTTTTT
1 TGCTTTTTTTTTT
13539423 TGCTTTTTTTTTT
1 TGCTTTTTTTTTT
13539436 GAAAAGTAAG
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:0.00, C:0.08, G:0.08, T:0.85
Consensus pattern (13 bp):
TGCTTTTTTTTTT
Found at i:13543946 original size:13 final size:13
Alignment explanation
Indices: 13543928--13543954 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
13543918 ATAATTGGAC
13543928 TAAATTCTTAATT
1 TAAATTCTTAATT
13543941 TAAATTCTTAATT
1 TAAATTCTTAATT
13543954 T
1 T
13543955 TTATGAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (13 bp):
TAAATTCTTAATT
Found at i:13544232 original size:30 final size:29
Alignment explanation
Indices: 13544165--13544233 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 29
13544155 TTGATCCAAT
* * *
13544165 ATATAATGTTATACATAAATTTTATTTTT
1 ATATAATTTTATACATAAATTTTAATTTG
*
13544194 ATACAATTTTATACATAAAATTTTAATTTG
1 ATATAATTTTATACAT-AAATTTTAATTTG
*
13544224 ATTTAATTTT
1 ATATAATTTT
13544234 CATAATTATT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 14 0.42
30 19 0.58
ACGTcount: A:0.39, C:0.04, G:0.03, T:0.54
Consensus pattern (29 bp):
ATATAATTTTATACATAAATTTTAATTTG
Found at i:13558757 original size:51 final size:52
Alignment explanation
Indices: 13558689--13558791 Score: 133
Period size: 51 Copynumber: 2.0 Consensus size: 52
13558679 GAGCAGGCTG
13558689 CTGAATTAAGAAAAGAAGTTGGAA-TATCT-GAGAGAAGTTTGG-AGCAAGTCA
1 CTGAATTAAGAAAAGAAGTTGGAATTA-CTGGA-AGAAGTTTGGAAGCAAGTCA
* *
13558740 CTGAATCT-AGAAGAGAAGTTGGAATTACTGGAAGAAGTTTGGAATCAAGTCA
1 CTGAAT-TAAGAAAAGAAGTTGGAATTACTGGAAGAAGTTTGGAAGCAAGTCA
13558792 GTCGGCTGCT
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
51 33 0.72
52 13 0.28
ACGTcount: A:0.40, C:0.09, G:0.27, T:0.24
Consensus pattern (52 bp):
CTGAATTAAGAAAAGAAGTTGGAATTACTGGAAGAAGTTTGGAAGCAAGTCA
Found at i:13558882 original size:111 final size:111
Alignment explanation
Indices: 13558684--13558886 Score: 266
Period size: 111 Copynumber: 1.8 Consensus size: 111
13558674 GGTCAGAGCA
* * * * *
13558684 GGCTGCTGAATTAAGAAAAGAAGTTGGAATATCTGAGAGAAGTTTGGAGCAAGTCACTGAATCTA
1 GGCTGCTGAATCAAGAAAAGAAGCTGGAATATCTGAGAGAACTTTGGAGCAAGGCACTGAATCGA
* *
13558749 GAAGAGAAGTTGGAATTACTGGAAGAAGTTTGGAATCAAGTCAGTC
66 GAAAAGAACTTGGAATTACTGGAAGAAGTTTGGAATCAAGTCAGTC
* * *
13558795 GGCTGCTGAATCAAGAAAAGAAGCTGGAATAGT-TGGGAGAACTTTGGAGC-AGGGAGCTGATTC
1 GGCTGCTGAATCAAGAAAAGAAGCTGGAATA-TCTGAGAGAACTTTGGAGCAAGGCA-CTGAATC
* *
13558858 GAGAAAAGAACTTGGTATTGCTGGAAGAA
64 GAGAAAAGAACTTGGAATTACTGGAAGAA
13558887 CAATGCCATT
Statistics
Matches: 78, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
110 3 0.04
111 74 0.95
112 1 0.01
ACGTcount: A:0.36, C:0.10, G:0.31, T:0.23
Consensus pattern (111 bp):
GGCTGCTGAATCAAGAAAAGAAGCTGGAATATCTGAGAGAACTTTGGAGCAAGGCACTGAATCGA
GAAAAGAACTTGGAATTACTGGAAGAAGTTTGGAATCAAGTCAGTC
Found at i:13561870 original size:185 final size:184
Alignment explanation
Indices: 13561558--13561929 Score: 534
Period size: 185 Copynumber: 2.0 Consensus size: 184
13561548 GATCAAAGAG
* * *
13561558 TAAATTGATTCTTTTGTTAAAAAATTCAATCCATTTTGCTGTTAAAAATTGGTCCCTGAACGTCT
1 TAAATTGATTATTTTGTTAAAAAATTCAATCCATTTTGCTATAAAAAATTGGTCCCTGAACGTCT
* * *
13561623 ACATGAGGTAGATGTGGCACGTCACGTGTCATTGTTTAGTTATTTTATTAGACATGCCAGTTTTT
66 ACATGAGGTACATGTGGCACGCCACGTGTCATTGTTTAGTTATTCTATTAGACATGCCAGTTTTT
* * *
13561688 AACAGTAAAAATGGATAAAAATTTTGACAGAAAATATTAGTTTTGCTCTTTAGTC
131 AACAGTAAAAATGGATAAAAATTTTAACAGAAAATATTA-ATTTGCTCTTTAATC
*
13561743 TAAATTGATTATTTTGTTAAAAAATTC-ATCCAGTTTTGCTATAAAAAATTGGTCCCTGTACGTC
1 TAAATTGATTATTTTGTTAAAAAATTCAATCCA-TTTTGCTATAAAAAATTGGTCCCTGAACGTC
* * * *
13561807 -AGCATGAGGTTCATGTGGCATGCCACGTGTTATTGTTTAGTTATTCTGTTAG-CTATGCCAGTT
65 TA-CATGAGGTACATGTGGCACGCCACGTGTCATTGTTTAGTTATTCTATTAGAC-ATGCCAGTT
* * *
13561870 TTTAACAGTATAAATGGGTAAAATTTTTAACAGAAAATATTAATTTGCTCTTTAATC
128 TTTAACAGTAAAAATGGATAAAAATTTTAACAGAAAATATTAATTTGCTCTTTAATC
13561927 TAA
1 TAA
13561930 TATACAAAGA
Statistics
Matches: 167, Mismatches: 17, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
184 23 0.14
185 144 0.86
ACGTcount: A:0.31, C:0.13, G:0.16, T:0.40
Consensus pattern (184 bp):
TAAATTGATTATTTTGTTAAAAAATTCAATCCATTTTGCTATAAAAAATTGGTCCCTGAACGTCT
ACATGAGGTACATGTGGCACGCCACGTGTCATTGTTTAGTTATTCTATTAGACATGCCAGTTTTT
AACAGTAAAAATGGATAAAAATTTTAACAGAAAATATTAATTTGCTCTTTAATC
Found at i:13566686 original size:24 final size:24
Alignment explanation
Indices: 13566654--13566702 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
13566644 CACAATCCAC
*
13566654 CCCACTTCACTATGGATGTATAAT
1 CCCACTTCACTATGGATATATAAT
13566678 CCCACTTCACTATGGATATATAAT
1 CCCACTTCACTATGGATATATAAT
13566702 C
1 C
13566703 TTGAAAACCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.31, C:0.27, G:0.10, T:0.33
Consensus pattern (24 bp):
CCCACTTCACTATGGATATATAAT
Found at i:13568372 original size:39 final size:39
Alignment explanation
Indices: 13568329--13568409 Score: 153
Period size: 39 Copynumber: 2.1 Consensus size: 39
13568319 TTAAAAAAAA
*
13568329 TTAAAATTAAATTAACATAATTTATAAATATTTCTGAAT
1 TTAAAATTAAATTAACATAATCTATAAATATTTCTGAAT
13568368 TTAAAATTAAATTAACATAATCTATAAATATTTCTGAAT
1 TTAAAATTAAATTAACATAATCTATAAATATTTCTGAAT
13568407 TTA
1 TTA
13568410 CACCCAACTT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.43
Consensus pattern (39 bp):
TTAAAATTAAATTAACATAATCTATAAATATTTCTGAAT
Found at i:13568585 original size:8 final size:8
Alignment explanation
Indices: 13568572--13568598 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
13568562 AATTTAGAAT
13568572 AAAAATTA
1 AAAAATTA
13568580 AAAAATTA
1 AAAAATTA
13568588 AAAAATTA
1 AAAAATTA
13568596 AAA
1 AAA
13568599 TAAAAGTCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (8 bp):
AAAAATTA
Found at i:13569506 original size:60 final size:59
Alignment explanation
Indices: 13569394--13569507 Score: 147
Period size: 60 Copynumber: 1.9 Consensus size: 59
13569384 CTAGGGCTTC
* *
13569394 AACCTTTTTTTATCCAAATTAATCTTTGAACTAGGTAATTATTCTCACATTGAGTCATG
1 AACCTTTTTTTATCCAAATTAATCCTTGAACTAGGTAATTATTCCCACATTGAGTCATG
** * * * *
13569453 AACCTTTTTTTTATCCAAATTTGTCCTTGAACTTGGTAGTTTTTCCCATATTGAG
1 AACC-TTTTTTTATCCAAATTAATCCTTGAACTAGGTAATTATTCCCACATTGAG
13569508 ACTTGAACTT
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
59 4 0.09
60 42 0.91
ACGTcount: A:0.26, C:0.18, G:0.11, T:0.45
Consensus pattern (59 bp):
AACCTTTTTTTATCCAAATTAATCCTTGAACTAGGTAATTATTCCCACATTGAGTCATG
Found at i:13569689 original size:44 final size:44
Alignment explanation
Indices: 13569635--13569724 Score: 171
Period size: 44 Copynumber: 2.0 Consensus size: 44
13569625 CCAACATGAG
13569635 AATGGCAGCCAAGTTCAAACCCAAAAAAGTAATTTAACCCTTAA
1 AATGGCAGCCAAGTTCAAACCCAAAAAAGTAATTTAACCCTTAA
*
13569679 AATGGTAGCCAAGTTCAAACCCAAAAAAGTAATTTAACCCTTAA
1 AATGGCAGCCAAGTTCAAACCCAAAAAAGTAATTTAACCCTTAA
13569723 AA
1 AA
13569725 AAGACAATAA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.47, C:0.21, G:0.11, T:0.21
Consensus pattern (44 bp):
AATGGCAGCCAAGTTCAAACCCAAAAAAGTAATTTAACCCTTAA
Found at i:13573234 original size:21 final size:20
Alignment explanation
Indices: 13573209--13573255 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 20
13573199 AAAATTAAAT
*
13573209 ATTTAAATTAGTTTCAATTCA
1 ATTTAAATAAGTTTCAATT-A
* *
13573230 ATTTAAATAATTTTTAATTA
1 ATTTAAATAAGTTTCAATTA
13573250 ATTTAA
1 ATTTAA
13573256 TTTTTTTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 7 0.30
21 16 0.70
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (20 bp):
ATTTAAATAAGTTTCAATTA
Found at i:13576092 original size:21 final size:22
Alignment explanation
Indices: 13576068--13576109 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
13576058 CAATAATTTT
13576068 GCAAAACATTTTACA-TAAAAA
1 GCAAAACATTTTACAGTAAAAA
* *
13576089 GCAAAGCATTTTTCAGTAAAA
1 GCAAAACATTTTACAGTAAAA
13576110 TAAAATTACT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.50, C:0.14, G:0.10, T:0.26
Consensus pattern (22 bp):
GCAAAACATTTTACAGTAAAAA
Found at i:13585023 original size:29 final size:29
Alignment explanation
Indices: 13584981--13585038 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
13584971 CCTCTTTCCC
13584981 TAAGTTTTTCGTATTTTTGGAGGATTCTT
1 TAAGTTTTTCGTATTTTTGGAGGATTCTT
13585010 TAAGTTTTTCGTATTTTTGGAGGATTCTT
1 TAAGTTTTTCGTATTTTTGGAGGATTCTT
13585039 GAAGCTGAGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.17, C:0.07, G:0.21, T:0.55
Consensus pattern (29 bp):
TAAGTTTTTCGTATTTTTGGAGGATTCTT
Found at i:13588049 original size:18 final size:17
Alignment explanation
Indices: 13588019--13588061 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
13588009 CTCCAAATAA
* *
13588019 TTAATAAAAAATGGATAT
1 TTAA-AAAAAATGAAAAT
13588037 TTAAAAAAGAATGAAAAT
1 TTAAAAAA-AATGAAAAT
13588055 TTAAAAA
1 TTAAAAA
13588062 TTATTATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.63, C:0.00, G:0.09, T:0.28
Consensus pattern (17 bp):
TTAAAAAAAATGAAAAT
Found at i:13595299 original size:16 final size:16
Alignment explanation
Indices: 13595278--13595327 Score: 100
Period size: 16 Copynumber: 3.1 Consensus size: 16
13595268 TACATTGCCA
13595278 TTATTGACATTCTATT
1 TTATTGACATTCTATT
13595294 TTATTGACATTCTATT
1 TTATTGACATTCTATT
13595310 TTATTGACATTCTATT
1 TTATTGACATTCTATT
13595326 TT
1 TT
13595328 CACATAGACC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.24, C:0.12, G:0.06, T:0.58
Consensus pattern (16 bp):
TTATTGACATTCTATT
Found at i:13596376 original size:23 final size:23
Alignment explanation
Indices: 13596350--13596401 Score: 104
Period size: 23 Copynumber: 2.3 Consensus size: 23
13596340 TCACCCACCA
13596350 AACACAACAAAATATACCCTCCC
1 AACACAACAAAATATACCCTCCC
13596373 AACACAACAAAATATACCCTCCC
1 AACACAACAAAATATACCCTCCC
13596396 AACACA
1 AACACA
13596402 TCCACTTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.50, C:0.38, G:0.00, T:0.12
Consensus pattern (23 bp):
AACACAACAAAATATACCCTCCC
Found at i:13599222 original size:78 final size:78
Alignment explanation
Indices: 13599093--13599249 Score: 269
Period size: 78 Copynumber: 2.0 Consensus size: 78
13599083 TTCCTCCCGC
* *
13599093 CGGCAGATTCAGTAGCATCTTCTACTTCCGATTCTGGAGAAGCTGCAATCTCATCAGCTAAGCCA
1 CGGCAGATTCAGTAGCAACTTCTACATCCGATTCTGGAGAAGCTGCAATCTCATCAGCTAAGCCA
13599158 GAAGTTGGCCCAT
66 GAAGTTGGCCCAT
* * *
13599171 CGGCATATTCAGTAGCAACTTCTACATCCGATTCTGGAGCAGCTGCAATCTCATCAGCTAAGCTA
1 CGGCAGATTCAGTAGCAACTTCTACATCCGATTCTGGAGAAGCTGCAATCTCATCAGCTAAGCCA
13599236 GAAGTTGGCCCAT
66 GAAGTTGGCCCAT
13599249 C
1 C
13599250 CACACTCTGA
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
78 74 1.00
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (78 bp):
CGGCAGATTCAGTAGCAACTTCTACATCCGATTCTGGAGAAGCTGCAATCTCATCAGCTAAGCCA
GAAGTTGGCCCAT
Found at i:13601526 original size:23 final size:23
Alignment explanation
Indices: 13601500--13601571 Score: 83
Period size: 23 Copynumber: 3.1 Consensus size: 23
13601490 TATAGACATC
*
13601500 GATGCATAACAGATACATATTCA
1 GATGCATAACAGATACAGATTCA
*
13601523 GATGCATATCAG-TCACAGATTCA
1 GATGCATAACAGAT-ACAGATTCA
* * *
13601546 AATGCATAATAAATACAGATTCA
1 GATGCATAACAGATACAGATTCA
13601569 GAT
1 GAT
13601572 CTTACCCCTA
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
22 1 0.03
23 38 0.95
24 1 0.03
ACGTcount: A:0.43, C:0.17, G:0.14, T:0.26
Consensus pattern (23 bp):
GATGCATAACAGATACAGATTCA
Found at i:13602130 original size:8 final size:8
Alignment explanation
Indices: 13602112--13602149 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
13602102 TTTAAGAAAT
13602112 TAATAATTA
1 TAATAA-TA
13602121 TAATAATA
1 TAATAATA
*
13602129 TAATAGT-
1 TAATAATA
13602136 TAATAATA
1 TAATAATA
13602144 TAATAA
1 TAATAA
13602150 AAGAAATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
7 6 0.23
8 14 0.54
9 6 0.23
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (8 bp):
TAATAATA
Found at i:13602157 original size:24 final size:24
Alignment explanation
Indices: 13602111--13602157 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
13602101 ATTTAAGAAA
* *
13602111 TTAATAATTATAATAATATAATAG
1 TTAATAATTATAATAAAAAAATAG
13602135 TTAATAA-TATAATAAAAGAAATA
1 TTAATAATTATAATAAAA-AAATA
13602158 ATAAAAGAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (24 bp):
TTAATAATTATAATAAAAAAATAG
Found at i:13602173 original size:19 final size:19
Alignment explanation
Indices: 13602148--13602190 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
13602138 ATAATATAAT
*
13602148 AAAAGAAATAATA-AAAGA
1 AAAAGAAATAAAATAAAGA
13602166 ATAAAGAAATAAAATAAAGA
1 A-AAAGAAATAAAATAAAGA
13602186 AAAAG
1 AAAAG
13602191 GAAAGAAAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 1 0.05
19 15 0.68
20 6 0.27
ACGTcount: A:0.77, C:0.00, G:0.12, T:0.12
Consensus pattern (19 bp):
AAAAGAAATAAAATAAAGA
Found at i:13602452 original size:16 final size:16
Alignment explanation
Indices: 13602431--13602462 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
13602421 ATTATTGGTT
*
13602431 TAATTGATAGAAATTC
1 TAATTGAGAGAAATTC
13602447 TAATTGAGAGAAATTC
1 TAATTGAGAGAAATTC
13602463 AAGTTAGAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.44, C:0.06, G:0.16, T:0.34
Consensus pattern (16 bp):
TAATTGAGAGAAATTC
Found at i:13607326 original size:79 final size:82
Alignment explanation
Indices: 13607215--13607399 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
13607205 GCTACTCGTT
* * *
13607215 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
13607278 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
13607295 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
13607358 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
13607375 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
13607400 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:13607399 original size:40 final size:40
Alignment explanation
Indices: 13607196--13607399 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
13607186 CGGAATTTAA
** *
13607196 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
13607236 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
13607276 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
13607315 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
13607355 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
13607395 CCGGA
1 CCGGA
13607400 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:13625469 original size:18 final size:18
Alignment explanation
Indices: 13625448--13625491 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
13625438 ATAATTAGTA
13625448 ATTCAGT-GACAGTCAAAT
1 ATTCAGTAG-CAGTCAAAT
*
13625466 ATTCAGTAGCAGTCAATT
1 ATTCAGTAGCAGTCAAAT
13625484 ATTCAGTA
1 ATTCAGTA
13625492 CCTTTATTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 23 0.96
19 1 0.04
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (18 bp):
ATTCAGTAGCAGTCAAAT
Found at i:13625624 original size:12 final size:12
Alignment explanation
Indices: 13625599--13625633 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
13625589 GAAATACACC
* *
13625599 GTAACGGTAACA
1 GTAACAGTAGCA
13625611 GTAACAGTAGCA
1 GTAACAGTAGCA
13625623 GTAACAGTAGC
1 GTAACAGTAGC
13625634 GGTACACAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.40, C:0.17, G:0.26, T:0.17
Consensus pattern (12 bp):
GTAACAGTAGCA
Found at i:13626803 original size:19 final size:20
Alignment explanation
Indices: 13626774--13626812 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
13626764 TCGTTCCACC
13626774 TTCTGTTCTTTCTA-TTCTTT
1 TTCTGTTCTTT-TATTTCTTT
13626794 TTCT-TTCTTTTATTTCTTT
1 TTCTGTTCTTTTATTTCTTT
13626813 ATTTAACTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 2 0.11
19 12 0.67
20 4 0.22
ACGTcount: A:0.05, C:0.18, G:0.03, T:0.74
Consensus pattern (20 bp):
TTCTGTTCTTTTATTTCTTT
Found at i:13626887 original size:19 final size:19
Alignment explanation
Indices: 13626863--13626901 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
13626853 AATACTTATT
*
13626863 TATTATTTA-TACATGTGTA
1 TATTA-TTAGTACATATGTA
13626882 TATTATTAGTACATATGTA
1 TATTATTAGTACATATGTA
13626901 T
1 T
13626902 CCATATATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 3 0.17
19 15 0.83
ACGTcount: A:0.33, C:0.05, G:0.10, T:0.51
Consensus pattern (19 bp):
TATTATTAGTACATATGTA
Found at i:13626956 original size:17 final size:16
Alignment explanation
Indices: 13626930--13626962 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
13626920 TTGTCTTTCT
13626930 TTTATTTATTTAATTA
1 TTTATTTATTTAATTA
13626946 TTTACTTTATTTAATTA
1 TTTA-TTTATTTAATTA
13626963 ATATAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTATTTATTTAATTA
Found at i:13629739 original size:41 final size:41
Alignment explanation
Indices: 13629573--13629728 Score: 235
Period size: 41 Copynumber: 3.8 Consensus size: 41
13629563 TTTATCATTA
* * * *
13629573 GTGACATAATTCAGACTTTACGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
13629614 GTGA-A-ATTATTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACA-T-TTCAGACTATAAGTCTAGCAGGCTTAATGCCG
13629655 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
*
13629696 GTGACACATTTCGGACTATAAGTCTAGCAGGCT
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCT
13629729 AAGAGCCGGT
Statistics
Matches: 107, Mismatches: 4, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
39 1 0.01
40 1 0.01
41 102 0.95
42 2 0.02
43 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (41 bp):
GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
Found at i:13629997 original size:33 final size:32
Alignment explanation
Indices: 13629941--13630004 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
13629931 ATAGATATGT
13629941 ATATATATATATGTTGCATTCGGCATAGGTGG
1 ATATATATATATGTTGCATTCGGCATAGGTGG
* *
13629973 ATATATTTATGTGTATGCATTCGGCATAGGTG
1 ATATATATATATGT-TGCATTCGGCATAGGTG
13630005 AAAATAAGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.27, C:0.09, G:0.25, T:0.39
Consensus pattern (32 bp):
ATATATATATATGTTGCATTCGGCATAGGTGG
Found at i:13630021 original size:33 final size:33
Alignment explanation
Indices: 13629948--13630021 Score: 87
Period size: 33 Copynumber: 2.3 Consensus size: 33
13629938 TGTATATATA
* * **
13629948 TATATGT-TGCATTCGGCATAGGTGGATATATT
1 TATATGTATGCATTCGGCATAGGTGAAAATAAG
*
13629980 TATGTGTATGCATTCGGCATAGGTGAAAATAAG
1 TATATGTATGCATTCGGCATAGGTGAAAATAAG
*
13630013 TGTATGTAT
1 TATATGTAT
13630022 CTATGCATTC
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
32 6 0.18
33 28 0.82
ACGTcount: A:0.28, C:0.08, G:0.26, T:0.38
Consensus pattern (33 bp):
TATATGTATGCATTCGGCATAGGTGAAAATAAG
Found at i:13633680 original size:22 final size:22
Alignment explanation
Indices: 13633655--13633710 Score: 112
Period size: 22 Copynumber: 2.5 Consensus size: 22
13633645 ACTGAACGCT
13633655 ATGTCGCAACATGGGGGATCCA
1 ATGTCGCAACATGGGGGATCCA
13633677 ATGTCGCAACATGGGGGATCCA
1 ATGTCGCAACATGGGGGATCCA
13633699 ATGTCGCAACAT
1 ATGTCGCAACAT
13633711 AGAAAGTAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.29, C:0.23, G:0.29, T:0.20
Consensus pattern (22 bp):
ATGTCGCAACATGGGGGATCCA
Found at i:13642338 original size:6 final size:6
Alignment explanation
Indices: 13642327--13642403 Score: 154
Period size: 6 Copynumber: 12.8 Consensus size: 6
13642317 AATATAATAT
13642327 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
13642375 ATATAC ATATAC ATATAC ATATAC ATATA
1 ATATAC ATATAC ATATAC ATATAC ATATA
13642404 TATGTTTACT
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 71 1.00
ACGTcount: A:0.51, C:0.16, G:0.00, T:0.34
Consensus pattern (6 bp):
ATATAC
Found at i:13644070 original size:28 final size:28
Alignment explanation
Indices: 13644030--13644204 Score: 160
Period size: 28 Copynumber: 6.3 Consensus size: 28
13644020 GATAACATTG
* * *
13644030 TAAAATTTGAAAAATAGGGGCAAAAATA
1 TAAAATTTTAAAAATAAGGGCAAAACTA
* * *
13644058 TAAAATTTTAAAAATAAGAGCAAAATTT
1 TAAAATTTTAAAAATAAGGGCAAAACTA
* * * **
13644086 TAAAA-TCTAAAAAT-AGGGTCGATACGG
1 TAAAATTTTAAAAATAAGGG-CAAAACTA
* **
13644113 TAAAATTTGAAAAATAAGGGCAAAAGGA
1 TAAAATTTTAAAAATAAGGGCAAAACTA
*
13644141 T-AAATTTTGAAAAATAGGGGCAAAACTA
1 TAAAATTTT-AAAAATAAGGGCAAAACTA
*
13644169 TAAAATTTAAAAAATAAGGGCAAAACTA
1 TAAAATTTTAAAAATAAGGGCAAAACTA
13644197 T-AAATTTT
1 TAAAATTTT
13644205 GAGTTACAAG
Statistics
Matches: 117, Mismatches: 25, Indels: 11
0.76 0.16 0.07
Matches are distributed among these distances:
26 3 0.03
27 28 0.24
28 76 0.65
29 10 0.09
ACGTcount: A:0.54, C:0.06, G:0.15, T:0.25
Consensus pattern (28 bp):
TAAAATTTTAAAAATAAGGGCAAAACTA
Found at i:13644123 original size:83 final size:83
Alignment explanation
Indices: 13644029--13644181 Score: 218
Period size: 83 Copynumber: 1.8 Consensus size: 83
13644019 GGATAACATT
* * * *
13644029 GTAAAATTTGAAAAATAGGGGCAAAAATATAAAATTTT-AAAAATAAGAGCAAAATTTTAAAATC
1 GTAAAATTTGAAAAATAAGGGCAAAAAGAT-AAATTTTGAAAAATAAGAGCAAAACTATAAAATC
13644093 TAAAAATAGGGTCGATACG
65 TAAAAATAGGGTCGATACG
* * * *
13644112 GTAAAATTTGAAAAATAAGGGCAAAAGGATAAATTTTGAAAAATAGGGGCAAAACTATAAAATTT
1 GTAAAATTTGAAAAATAAGGGCAAAAAGATAAATTTTGAAAAATAAGAGCAAAACTATAAAATCT
13644177 AAAAA
66 AAAAA
13644182 ATAAGGGCAA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
82 7 0.11
83 54 0.89
ACGTcount: A:0.54, C:0.05, G:0.16, T:0.24
Consensus pattern (83 bp):
GTAAAATTTGAAAAATAAGGGCAAAAAGATAAATTTTGAAAAATAAGAGCAAAACTATAAAATCT
AAAAATAGGGTCGATACG
Found at i:13644175 original size:56 final size:56
Alignment explanation
Indices: 13644030--13644206 Score: 203
Period size: 56 Copynumber: 3.2 Consensus size: 56
13644020 GATAACATTG
* * * * *
13644030 TAAAATTTGAAAAATAGGGGCAAAAATATAAAATTTTAAAAATAAGAGCAAAATTT
1 TAAAATTTGAAAAATAGGGGCAAAACTATAAAATTTAAAAAATAAGGGCAAAACTA
* * * * ** * **
13644086 TAAAATCT-AAAAATAGGGTCGATACGGTAAAATTTGAAAAATAAGGGCAAAAGGA
1 TAAAATTTGAAAAATAGGGGCAAAACTATAAAATTTAAAAAATAAGGGCAAAACTA
*
13644141 TAAATTTTGAAAAATAGGGGCAAAACTATAAAATTTAAAAAATAAGGGCAAAACTA
1 TAAAATTTGAAAAATAGGGGCAAAACTATAAAATTTAAAAAATAAGGGCAAAACTA
*
13644197 TAAATTTTGA
1 TAAAATTTGA
13644207 GTTACAAGGG
Statistics
Matches: 98, Mismatches: 22, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
55 42 0.43
56 56 0.57
ACGTcount: A:0.54, C:0.06, G:0.16, T:0.25
Consensus pattern (56 bp):
TAAAATTTGAAAAATAGGGGCAAAACTATAAAATTTAAAAAATAAGGGCAAAACTA
Found at i:13644202 original size:83 final size:82
Alignment explanation
Indices: 13644029--13644203 Score: 194
Period size: 83 Copynumber: 2.1 Consensus size: 82
13644019 GGATAACATT
* * * *
13644029 GTAAAATTTGAAAAATAGGGGCAAAAATATAAAATTTTAAAAATAAGAGCAAAATTTTAAAATCT
1 GTAAAATTTGAAAAATAAGGGCAAAAAGATAAAATTTTAAAAATAAGAGCAAAACTATAAAATCT
* *
13644094 AAAAATAGGGTCGATAC
66 AAAAATAGGGTCAAAAC
* * *
13644111 GGTAAAATTTGAAAAATAAGGGCAAAAGGAT-AAATTTTGAAAAATAGGGGCAAAACTATAAAAT
1 -GTAAAATTTGAAAAATAAGGGCAAAAAGATAAAATTTT-AAAAATAAGAGCAAAACTATAAAAT
*
13644175 TTAAAAAATAAGGG-CAAAAC
64 CT-AAAAAT-AGGGTCAAAAC
13644195 -TATAAATTT
1 GTA-AAATTT
13644204 TGAGTTACAA
Statistics
Matches: 78, Mismatches: 10, Indels: 8
0.81 0.10 0.08
Matches are distributed among these distances:
82 9 0.12
83 55 0.71
84 10 0.13
85 4 0.05
ACGTcount: A:0.54, C:0.06, G:0.16, T:0.25
Consensus pattern (82 bp):
GTAAAATTTGAAAAATAAGGGCAAAAAGATAAAATTTTAAAAATAAGAGCAAAACTATAAAATCT
AAAAATAGGGTCAAAAC
Found at i:13646210 original size:24 final size:25
Alignment explanation
Indices: 13646171--13646233 Score: 101
Period size: 25 Copynumber: 2.5 Consensus size: 25
13646161 TCGATTTCAT
13646171 TTTTTTGAAAACAA-TTTAAATTTTA
1 TTTTTTGAAAA-AATTTTAAATTTTA
*
13646196 TTTTTTGAAAAAATTTTATATTTTA
1 TTTTTTGAAAAAATTTTAAATTTTA
13646221 TTTTTTGAAAAAA
1 TTTTTTGAAAAAA
13646234 ATTGTCAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
24 2 0.06
25 34 0.94
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.54
Consensus pattern (25 bp):
TTTTTTGAAAAAATTTTAAATTTTA
Found at i:13651817 original size:85 final size:84
Alignment explanation
Indices: 13651722--13651881 Score: 221
Period size: 85 Copynumber: 1.9 Consensus size: 84
13651712 GGATAAAATT
* * * * * *
13651722 GTAAAATTTGAAAAATAATGGCAAAACTATATAATCTTAAAAGTAGGGGCAAAATTGTAAAATTT
1 GTAAAATTTGAAAAATAATGGCAAAACGATAAAATATGAAAAATAGGGGCAAAATTGTAAAATCT
13651787 AGAAAAATAGGTTCAAATCA
66 A-AAAAATAGGTTCAAATCA
* * * *
13651807 GTAAAATTTGAAAAATAATTGCAAAAGGGTAAAATATGAAAAATAGGGGTAAAATTGTAAAATCT
1 GTAAAATTTGAAAAATAATGGCAAAACGATAAAATATGAAAAATAGGGGCAAAATTGTAAAATCT
13651872 AAAAAATAGG
66 AAAAAATAGG
13651882 GGAAAAATTG
Statistics
Matches: 65, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
84 9 0.14
85 56 0.86
ACGTcount: A:0.53, C:0.05, G:0.17, T:0.26
Consensus pattern (84 bp):
GTAAAATTTGAAAAATAATGGCAAAACGATAAAATATGAAAAATAGGGGCAAAATTGTAAAATCT
AAAAAATAGGTTCAAATCA
Found at i:13651889 original size:28 final size:28
Alignment explanation
Indices: 13651693--13651895 Score: 167
Period size: 28 Copynumber: 7.2 Consensus size: 28
13651683 GGTCAAGACA
* *
13651693 GTAAAATTTGTAAAATAGGGGATAAAATT
1 GTAAAATTTGAAAAATAGGGG-CAAAATT
** *
13651722 GTAAAATTTGAAAAATAATGGCAAAACT
1 GTAAAATTTGAAAAATAGGGGCAAAATT
* * *
13651750 ATATAATCTT-AAAAGTAGGGGCAAAATT
1 GTAAAAT-TTGAAAAATAGGGGCAAAATT
** *
13651778 GTAAAATTTAGAAAAATAGGTTC-AAATCA
1 GTAAAATTT-GAAAAATAGGGGCAAAAT-T
*** **
13651807 GTAAAATTTGAAAAATAATTGCAAAAGG
1 GTAAAATTTGAAAAATAGGGGCAAAATT
* *
13651835 GTAAAATATGAAAAATAGGGGTAAAATT
1 GTAAAATTTGAAAAATAGGGGCAAAATT
* * *
13651863 GTAAAATCTAAAAAATAGGGGAAAAATT
1 GTAAAATTTGAAAAATAGGGGCAAAATT
13651891 GTAAA
1 GTAAA
13651896 TTCTGAGTTA
Statistics
Matches: 137, Mismatches: 32, Indels: 11
0.76 0.18 0.06
Matches are distributed among these distances:
27 2 0.01
28 94 0.69
29 41 0.30
ACGTcount: A:0.52, C:0.04, G:0.18, T:0.26
Consensus pattern (28 bp):
GTAAAATTTGAAAAATAGGGGCAAAATT
Found at i:13666704 original size:50 final size:50
Alignment explanation
Indices: 13666597--13666834 Score: 230
Period size: 50 Copynumber: 4.7 Consensus size: 50
13666587 ATTTGGGTAA
* *
13666597 AGAGATCCCATGTAAGACCATGTCTGGGACATAGCATTGGCATCATTGAGGTTATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGA-G--ATG
*
13666653 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* ** ** *
13666703 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCACGGGCACCGATATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * * *
13666753 AGA-ACTCCCATGTAAGACCATATTTGGGATATGGCATTGGCA--GTACAAG
1 AGAGA-TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATG
* * *
13666802 AAACATCTCATGTAAGACCATGTCTGGGACATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATG
13666835 ACTTTCGCAT
Statistics
Matches: 156, Mismatches: 23, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
48 1 0.01
49 29 0.19
50 82 0.53
52 1 0.01
53 2 0.01
55 1 0.01
56 40 0.26
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (50 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:13676300 original size:26 final size:26
Alignment explanation
Indices: 13676266--13676316 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
13676256 TTTTGGATCA
* *
13676266 AAATAGTAAAATTTGAAAAATAGGGG
1 AAATAGTAAAATGTAAAAAATAGGGG
*
13676292 AAATTGTAAAATGTAAAAAATAGGG
1 AAATAGTAAAATGTAAAAAATAGGG
13676317 ACAAAATTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.55, C:0.00, G:0.22, T:0.24
Consensus pattern (26 bp):
AAATAGTAAAATGTAAAAAATAGGGG
Found at i:13679501 original size:88 final size:89
Alignment explanation
Indices: 13679266--13679558 Score: 407
Period size: 88 Copynumber: 3.3 Consensus size: 89
13679256 AACTGGTGAA
** * *
13679266 ACTATAAGTCCTAGCTCCCTGAACAGCAGTGGAATAGGTGGAAA-ATTATAAATCCTAACTCCCT
1 ACTATAAGTCCTAGCTCCCTGAACAGCAGTGGAATAGGCAGAAAGATTGTAAATCCTAGCTCCCT
*
13679330 GACCAGCATTGGAATAGGTGGAAG
66 GACCAGCAGTGGAATAGGTGGAAG
* *
13679354 ACTGA-AAGTCCTAG-TCCCTGAACAGCAATAGAATAGGCAG-AAGATTGTAAATCCTAGCTCCC
1 ACT-ATAAGTCCTAGCTCCCTGAACAGCAGTGGAATAGGCAGAAAGATTGTAAATCCTAGCTCCC
*
13679416 TGAACAGCAGTGGAATAGGTGGAAG
65 TGACCAGCAGTGGAATAGGTGGAAG
*
13679441 ACTATAAGTCCTAGCTCCCTGAACAGCAGTGGAATAGG-AGAAAGATTGTAAATCCTAGCTCCTT
1 ACTATAAGTCCTAGCTCCCTGAACAGCAGTGGAATAGGCAGAAAGATTGTAAATCCTAGCTCCCT
**
13679505 GACCAGCAGTGGAATAGGCAGAAG
66 GACCAGCAGTGGAATAGGTGGAAG
* * * *
13679529 ATTGTAAGTCCCAGCTCCCTGACCAGCAGT
1 ACTATAAGTCCTAGCTCCCTGAACAGCAGT
13679559 AGAGCAGGTT
Statistics
Matches: 182, Mismatches: 18, Indels: 10
0.87 0.09 0.05
Matches are distributed among these distances:
86 3 0.02
87 76 0.42
88 102 0.56
89 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.21
Consensus pattern (89 bp):
ACTATAAGTCCTAGCTCCCTGAACAGCAGTGGAATAGGCAGAAAGATTGTAAATCCTAGCTCCCT
GACCAGCAGTGGAATAGGTGGAAG
Found at i:13679574 original size:44 final size:44
Alignment explanation
Indices: 13679270--13679558 Score: 348
Period size: 44 Copynumber: 6.6 Consensus size: 44
13679260 GGTGAAACTA
* * *
13679270 TAAGTCCTAGCTCCCTGAACAGCAGTGGAATAGGTGGAAAATTA
1 TAAGTCCTAGCTCCCTGAACAGCAGTGGAATAGGTAGAAGATTG
* * * * * *
13679314 TAAATCCTAACTCCCTGACCAGCATTGGAATAGGTGGAAGACTG
1 TAAGTCCTAGCTCCCTGAACAGCAGTGGAATAGGTAGAAGATTG
* * * *
13679358 AAAGTCCTAG-TCCCTGAACAGCAATAGAATAGGCAGAAGATTG
1 TAAGTCCTAGCTCCCTGAACAGCAGTGGAATAGGTAGAAGATTG
* * * *
13679401 TAAATCCTAGCTCCCTGAACAGCAGTGGAATAGGTGGAAGACTA
1 TAAGTCCTAGCTCCCTGAACAGCAGTGGAATAGGTAGAAGATTG
13679445 TAAGTCCTAGCTCCCTGAACAGCAGTGGAATAGG-AGAAAGATTG
1 TAAGTCCTAGCTCCCTGAACAGCAGTGGAATAGGTAG-AAGATTG
* * * *
13679489 TAAATCCTAGCTCCTTGACCAGCAGTGGAATAGGCAGAAGATTG
1 TAAGTCCTAGCTCCCTGAACAGCAGTGGAATAGGTAGAAGATTG
* *
13679533 TAAGTCCCAGCTCCCTGACCAGCAGT
1 TAAGTCCTAGCTCCCTGAACAGCAGT
13679559 AGAGCAGGTT
Statistics
Matches: 208, Mismatches: 34, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
43 36 0.17
44 170 0.82
45 2 0.01
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.21
Consensus pattern (44 bp):
TAAGTCCTAGCTCCCTGAACAGCAGTGGAATAGGTAGAAGATTG
Found at i:13680303 original size:13 final size:13
Alignment explanation
Indices: 13680287--13680312 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
13680277 AACAACAGAG
13680287 AATAACAAGAAAA
1 AATAACAAGAAAA
13680300 AATAACAAGAAAA
1 AATAACAAGAAAA
13680313 TATAGGAAAT
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:0.77, C:0.08, G:0.08, T:0.08
Consensus pattern (13 bp):
AATAACAAGAAAA
Found at i:13684222 original size:21 final size:21
Alignment explanation
Indices: 13684198--13684245 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
13684188 GGTTTCAAAT
* *
13684198 CGTGTGACAAAGGTACACGGC
1 CGTGTGACAAAGATACACGAC
* *
13684219 CGTGTGGCTAAGATACACGAC
1 CGTGTGACAAAGATACACGAC
13684240 CGTGTG
1 CGTGTG
13684246 GGTAGCCCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.25, C:0.23, G:0.33, T:0.19
Consensus pattern (21 bp):
CGTGTGACAAAGATACACGAC
Found at i:13688579 original size:152 final size:152
Alignment explanation
Indices: 13688303--13688612 Score: 566
Period size: 152 Copynumber: 2.0 Consensus size: 152
13688293 ATATGTGTGA
*
13688303 GATTGATTGATTTTTCTATGAATGATGTTATGATTTAAATGTTTTGAATAGTTGATAGTTTTGAG
1 GATTGGTTGATTTTTCTATGAATGATGTTATGATTTAAATGTTTTGAATAGTTGATAGTTTTGAG
* *
13688368 TTGTAAACTTTTGATAATGCTCCGTAACCCTATTCCAACAATAGATACGGGATAAGGGTGTTACA
66 GTGTAAACTTTCGATAATGCTCCGTAACCCTATTCCAACAATAGATACGGGATAAGGGTGTTACA
13688433 CATGGCCGGTCATGGGAAAGGG
131 CATGGCCGGTCATGGGAAAGGG
*
13688455 GATTGGTTGATTTTTCTATGAATGATGTTATGATTTAAATGTTTTGAATATTTGATAGTTTTGAG
1 GATTGGTTGATTTTTCTATGAATGATGTTATGATTTAAATGTTTTGAATAGTTGATAGTTTTGAG
*
13688520 GTGTAAACTTTCGATAATGCTCCGTAACCCTATTCCAACAATGGATACGGGATAAGGGTGTTACA
66 GTGTAAACTTTCGATAATGCTCCGTAACCCTATTCCAACAATAGATACGGGATAAGGGTGTTACA
*
13688585 CATGGCCGGTCATGGGAAGGGG
131 CATGGCCGGTCATGGGAAAGGG
13688607 GATTGG
1 GATTGG
13688613 ATGCTATTTT
Statistics
Matches: 152, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
152 152 1.00
ACGTcount: A:0.28, C:0.11, G:0.25, T:0.36
Consensus pattern (152 bp):
GATTGGTTGATTTTTCTATGAATGATGTTATGATTTAAATGTTTTGAATAGTTGATAGTTTTGAG
GTGTAAACTTTCGATAATGCTCCGTAACCCTATTCCAACAATAGATACGGGATAAGGGTGTTACA
CATGGCCGGTCATGGGAAAGGG
Found at i:13691452 original size:12 final size:12
Alignment explanation
Indices: 13691435--13691469 Score: 70
Period size: 12 Copynumber: 2.9 Consensus size: 12
13691425 CAAAACTGGT
13691435 TTTTAGCGGCAC
1 TTTTAGCGGCAC
13691447 TTTTAGCGGCAC
1 TTTTAGCGGCAC
13691459 TTTTAGCGGCA
1 TTTTAGCGGCA
13691470 TTTGGACAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.17, C:0.23, G:0.26, T:0.34
Consensus pattern (12 bp):
TTTTAGCGGCAC
Found at i:13691558 original size:27 final size:26
Alignment explanation
Indices: 13691520--13691570 Score: 84
Period size: 27 Copynumber: 1.9 Consensus size: 26
13691510 GCTTTATGGA
*
13691520 AAATGCCGCTAAAAAGAGCATTAGAG
1 AAATGCCACTAAAAAGAGCATTAGAG
13691546 AAATCGCCACTAAAAAGAGCATTAG
1 AAAT-GCCACTAAAAAGAGCATTAG
13691571 CGGCGTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 4 0.17
27 19 0.83
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.16
Consensus pattern (26 bp):
AAATGCCACTAAAAAGAGCATTAGAG
Found at i:13691728 original size:40 final size:41
Alignment explanation
Indices: 13691616--13691890 Score: 306
Period size: 41 Copynumber: 6.8 Consensus size: 41
13691606 GTCACCTTTT
* * *
13691616 GGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTT
1 GGGGTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTA
*
13691657 GGGGTTTTAGCGACGTTTTTGAAAAAGCGCCGCTAATGCTA
1 GGGGTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTA
* * *
13691698 GGGGTTTTAGC-GCGGTTTTGCAAATGCGCCGCTAATGCTA
1 GGGGTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTA
* * *
13691738 GGGGTTTTAGCGGCGTTTTTG-GATAGCGCCGCTAGTGCTA
1 GGGGTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTA
* * * * * * * *
13691778 GGAGCTTTAACAGCGTTTTTGGAAAAGTGCAGCTAATGCTC
1 GGGGTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTA
* *
13691819 GGGGTTTTAGCGGCGTTTGTGAAAAGGCGCCGCTAATGCT-
1 GGGGTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTA
* * *
13691859 -CGGTCTTTAGCTGCATTTTTGAAAAAGCGCCG
1 GGGGT-TTTAGCGGCGTTTTTGAAAAAGCGCCG
13691891 TAAAAAACAT
Statistics
Matches: 194, Mismatches: 37, Indels: 7
0.82 0.16 0.03
Matches are distributed among these distances:
39 3 0.02
40 91 0.47
41 100 0.52
ACGTcount: A:0.20, C:0.19, G:0.32, T:0.30
Consensus pattern (41 bp):
GGGGTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTA
Found at i:13691734 original size:81 final size:81
Alignment explanation
Indices: 13691616--13691890 Score: 313
Period size: 81 Copynumber: 3.4 Consensus size: 81
13691606 GTCACCTTTT
* * *
13691616 GGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTTGGGGTTTTAGCGACGTTTTTGAAA
1 GGGGCTTTAGCAGCGTTTTTGA-AAAGCGCCGCTAATGCTAGGGGTTTTAGCGGCGTTTTTGAAA
13691681 AAGCGCCGCTAATGCTA
65 AAGCGCCGCTAATGCTA
* * * *
13691698 GGGGTTTTAGC-GCGGTTTTGCAAATGCGCCGCTAATGCTAGGGGTTTTAGCGGCGTTTTTG-GA
1 GGGGCTTTAGCAGCGTTTTTG-AAAAGCGCCGCTAATGCTAGGGGTTTTAGCGGCGTTTTTGAAA
* *
13691761 TAGCGCCGCTAGTGCTA
65 AAGCGCCGCTAATGCTA
* * * * * *
13691778 GGAGCTTTAACAGCGTTTTTGGAAAAGTGCAGCTAATGCTCGGGGTTTTAGCGGCGTTTGTGAAA
1 GGGGCTTTAGCAGCGTTTTT-GAAAAGCGCCGCTAATGCTAGGGGTTTTAGCGGCGTTTTTGAAA
*
13691843 AGGCGCCGCTAATGCT-
65 AAGCGCCGCTAATGCTA
* * * *
13691859 CGGTCTTTAGCTGCATTTTTGAAAAAGCGCCG
1 GGGGCTTTAGCAGCGTTTTTG-AAAAGCGCCG
13691891 TAAAAAACAT
Statistics
Matches: 159, Mismatches: 29, Indels: 11
0.80 0.15 0.06
Matches are distributed among these distances:
80 25 0.16
81 108 0.68
82 26 0.16
ACGTcount: A:0.20, C:0.19, G:0.32, T:0.30
Consensus pattern (81 bp):
GGGGCTTTAGCAGCGTTTTTGAAAAGCGCCGCTAATGCTAGGGGTTTTAGCGGCGTTTTTGAAAA
AGCGCCGCTAATGCTA
Found at i:13692353 original size:15 final size:16
Alignment explanation
Indices: 13692333--13692363 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
13692323 GGGTTAAGAG
13692333 TTAGGGATT-TAGGGT
1 TTAGGGATTCTAGGGT
13692348 TTAGGGATTCTAGGGT
1 TTAGGGATTCTAGGGT
13692364 CGGGTTAGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.19, C:0.03, G:0.39, T:0.39
Consensus pattern (16 bp):
TTAGGGATTCTAGGGT
Found at i:13692699 original size:291 final size:286
Alignment explanation
Indices: 13692167--13692721 Score: 753
Period size: 291 Copynumber: 1.9 Consensus size: 286
13692157 TATCACTATA
*
13692167 GTTTAGGGTTTTTGGTTTAGGGTATATGATTAATTTAAGATTTAAGGCCGGTTTAGGAGTTACTA
1 GTTTAGGATTTTTGGTTTAGGGTATATGATTAATTTAAGATTTAAGGCCGGTTTAGGAGTTACTA
* * * **
13692232 TTTTAAGGTTAATTTAGGGATTAGTATGGATTTAGGGATTATGGTTTAAGGGCTGAGATTTAAAG
66 TTTTAAGG---ATTTAGGGA-GAGTATAGATTTAGGGATTATGGATTAAGGAATGAGATTTAAAG
* * *
13692297 TTTAGGGGTTTAAGAGTTAAATGTTAGGGTTAAGAGTTAGGGATTTAGGGTTTAGGGATTCTAGG
127 TTTAGGGGTTTAAGAGTTAAATGTTAGGGTTAAGAGTTAGGGATTTAAGGTTTAGGGATTCAAGA
13692362 GTCGGGTTAGGGTTTTGGGTTTAGATTAATTAGTTTTTTGAATTTATATATTAAATATGTTCTTA
192 GTCGGGTTAGGGTTTTGGGTTTAGATTAATTAGTTTTTTGAATTTATATATTAAATATGTTCTTA
13692427 TATAATTGTAAAAGAGATAATAATAAATTT
257 TATAATTGTAAAAGAGATAATAATAAATTT
* *
13692457 GTTTAGGATTTTTTGTTTAGGGTATATGATTAATTTAAGATTTAAGGCTGGTTTAGGAGTTACTA
1 GTTTAGGATTTTTGGTTTAGGGTATATGATTAATTTAAGATTTAAGGCCGGTTTAGGAGTTACTA
* *
13692522 TTTTAAGG-TTTAGGG-GAGTATAGATTTAGGGATTATGGATT-AGGAATTATGGTTTAAGGGTC
66 TTTTAAGGATTTAGGGAGAGTATAGATTTAGGGATTATGGATTAAGGAATGA-GATTTAA-----
* * * *
13692584 GGGATTTA-GGGTTTAAGGGTTAGACAT-TATA-GGTTCAGGGTTAGGGATTTAAGGTTTAGGGA
125 -AG-TTTAGGGGTTTAAGAGTTA-A-ATGT-TAGGGTTAAGAGTTAGGGATTTAAGGTTTAGGGA
* * *
13692646 TTCAAGAGTCGGGTTAGGGTTTTGGGTTTAGATTAATTAGTTTTTTTAATTTATATTTTATATAT
185 TTCAAGAGTCGGGTTAGGGTTTTGGGTTTAGATTAATTAGTTTTTTGAATTTATATATTAAATAT
13692711 GTTCTTATATA
250 GTTCTTATATA
13692722 TTAATTAAAA
Statistics
Matches: 234, Mismatches: 20, Indels: 21
0.85 0.07 0.08
Matches are distributed among these distances:
283 5 0.02
284 29 0.12
286 7 0.03
290 84 0.36
291 105 0.45
292 4 0.02
ACGTcount: A:0.28, C:0.03, G:0.27, T:0.43
Consensus pattern (286 bp):
GTTTAGGATTTTTGGTTTAGGGTATATGATTAATTTAAGATTTAAGGCCGGTTTAGGAGTTACTA
TTTTAAGGATTTAGGGAGAGTATAGATTTAGGGATTATGGATTAAGGAATGAGATTTAAAGTTTA
GGGGTTTAAGAGTTAAATGTTAGGGTTAAGAGTTAGGGATTTAAGGTTTAGGGATTCAAGAGTCG
GGTTAGGGTTTTGGGTTTAGATTAATTAGTTTTTTGAATTTATATATTAAATATGTTCTTATATA
ATTGTAAAAGAGATAATAATAAATTT
Found at i:13694790 original size:26 final size:27
Alignment explanation
Indices: 13694758--13694816 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
13694748 ATATTTTTTA
*
13694758 TTTTTA-TTTTTTAATTTTAAAATATT
1 TTTTTATTTTTTTAATTTTAAAATAAT
*
13694784 TTTTTATTTTTTTATTTTTAAAATAAT
1 TTTTTATTTTTTTAATTTTAAAATAAT
13694811 TTTTTA
1 TTTTTA
13694817 ATGTTTATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
26 6 0.20
27 24 0.80
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (27 bp):
TTTTTATTTTTTTAATTTTAAAATAAT
Found at i:13694803 original size:33 final size:34
Alignment explanation
Indices: 13694741--13694804 Score: 96
Period size: 32 Copynumber: 1.9 Consensus size: 34
13694731 CCGAATATAA
13694741 TAAATATATATTTTTTATTTTTATTTTTTAATTT
1 TAAATATATATTTTTTATTTTTATTTTTTAATTT
*
13694775 TAAA-ATAT-TTTTTTATTTTTTTATTTTTAA
1 TAAATATATATTTTTTATTTTTAT-TTTTTAA
13694805 AATAATTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 13 0.46
33 11 0.39
34 4 0.14
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (34 bp):
TAAATATATATTTTTTATTTTTATTTTTTAATTT
Found at i:13694823 original size:26 final size:26
Alignment explanation
Indices: 13694758--13694825 Score: 91
Period size: 27 Copynumber: 2.6 Consensus size: 26
13694748 ATATTTTTTA
* *
13694758 TTTTTATTTTTTAATTTTAAAATATT
1 TTTTTATTTTTTATTTTTAAAATAAT
13694784 TTTTTATTTTTTTATTTTTAAAATAAT
1 TTTTTA-TTTTTTATTTTTAAAATAAT
* *
13694811 TTTTTAATGTTTATT
1 TTTTTATTTTTTATT
13694826 AAAAATGGGC
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
26 13 0.35
27 24 0.65
ACGTcount: A:0.28, C:0.00, G:0.01, T:0.71
Consensus pattern (26 bp):
TTTTTATTTTTTATTTTTAAAATAAT
Found at i:13696305 original size:38 final size:38
Alignment explanation
Indices: 13696220--13696292 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 38
13696210 ATCTAATTAC
*
13696220 ATATACAAATATCACGTGTTGAAATTTACTTTGATCAT
1 ATATATAAATATCACGTGTTGAAATTTACTTTGATCAT
* *
13696258 ATATATAAATATCATGTGTCT-AAATTTATTTTGAT
1 ATATATAAATATCACGTGT-TGAAATTTACTTTGAT
13696293 TTTCTATGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
38 30 0.97
39 1 0.03
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.44
Consensus pattern (38 bp):
ATATATAAATATCACGTGTTGAAATTTACTTTGATCAT
Found at i:13698090 original size:61 final size:57
Alignment explanation
Indices: 13697987--13698107 Score: 154
Period size: 61 Copynumber: 2.1 Consensus size: 57
13697977 CAATTAAATA
*
13697987 ACTAAATTGTAATTTTTTTAATTAACCATAACAAAAATTGATTCTTATTCATAATTTAGTG
1 ACTAAATTGTAAGTTTTTTAATTAACCATAACAAAAATTGATTC----TCATAATTTAGTG
* **
13698048 ACTAAATTGTAAGTTTTTTAATTAATCATAAC-GGAATCTGATTCTCATAATTTAGTG
1 ACTAAATTGTAAGTTTTTTAATTAACCATAACAAAAAT-TGATTCTCATAATTTAGTG
13698105 ACT
1 ACT
13698108 TATGTGTAAC
Statistics
Matches: 55, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
57 16 0.29
60 3 0.05
61 36 0.65
ACGTcount: A:0.37, C:0.11, G:0.09, T:0.43
Consensus pattern (57 bp):
ACTAAATTGTAAGTTTTTTAATTAACCATAACAAAAATTGATTCTCATAATTTAGTG
Found at i:13698180 original size:26 final size:27
Alignment explanation
Indices: 13698144--13698207 Score: 87
Period size: 26 Copynumber: 2.4 Consensus size: 27
13698134 AACTCAATTA
*
13698144 ATTTTCATATCAATTTTTTTCAA-ATAT
1 ATTTTCATATC-ATTTTTTTAAAGATAT
13698171 ATTTTC-TATCATTTTTTTAAAGATAT
1 ATTTTCATATCATTTTTTTAAAGATAT
13698197 ATTTGTCATAT
1 ATTT-TCATAT
13698208 TATTCTGTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
25 10 0.30
26 12 0.36
27 8 0.24
28 3 0.09
ACGTcount: A:0.31, C:0.09, G:0.03, T:0.56
Consensus pattern (27 bp):
ATTTTCATATCATTTTTTTAAAGATAT
Found at i:13705828 original size:40 final size:40
Alignment explanation
Indices: 13705783--13705903 Score: 242
Period size: 40 Copynumber: 3.0 Consensus size: 40
13705773 ATAAAGAGAC
13705783 ACCCATTAGATTAGAACTCATAACACATTCAGAGAATTTT
1 ACCCATTAGATTAGAACTCATAACACATTCAGAGAATTTT
13705823 ACCCATTAGATTAGAACTCATAACACATTCAGAGAATTTT
1 ACCCATTAGATTAGAACTCATAACACATTCAGAGAATTTT
13705863 ACCCATTAGATTAGAACTCATAACACATTCAGAGAATTTT
1 ACCCATTAGATTAGAACTCATAACACATTCAGAGAATTTT
13705903 A
1 A
13705904 TGTTTACGTT
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 81 1.00
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (40 bp):
ACCCATTAGATTAGAACTCATAACACATTCAGAGAATTTT
Found at i:13709663 original size:26 final size:26
Alignment explanation
Indices: 13709599--13709663 Score: 62
Period size: 26 Copynumber: 2.5 Consensus size: 26
13709589 AATTAGAAAA
*
13709599 AAAATATAGAAAATATTATAAAAATAT
1 AAAAGATA-AAAATATTATAAAAATAT
* *
13709626 ATATAG-GAAAAATATTAT-AAAATAT
1 A-AAAGATAAAAATATTATAAAAATAT
13709651 AAAAGATATAAAA
1 AAAAGATA-AAAA
13709664 AAAAATAAAG
Statistics
Matches: 30, Mismatches: 5, Indels: 7
0.71 0.12 0.17
Matches are distributed among these distances:
24 3 0.10
25 9 0.30
26 14 0.47
27 2 0.07
28 2 0.07
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (26 bp):
AAAAGATAAAAATATTATAAAAATAT
Found at i:13709883 original size:23 final size:23
Alignment explanation
Indices: 13709855--13709898 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
13709845 TGTTTTAAAA
*
13709855 TATAAAAAATATAGAAAAATTAT
1 TATAAAAAATATAAAAAAATTAT
**
13709878 TATAAAATGTATAAAAAAATT
1 TATAAAAAATATAAAAAAATT
13709899 CCCCCCTTTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.32
Consensus pattern (23 bp):
TATAAAAAATATAAAAAAATTAT
Found at i:13710411 original size:17 final size:20
Alignment explanation
Indices: 13710378--13710428 Score: 65
Period size: 18 Copynumber: 2.8 Consensus size: 20
13710368 TGATAATTAT
13710378 ATTT-TATATTTTATAAT-A
1 ATTTATATATTTTATAATAA
*
13710396 GTTTA-ATATTTT-TAATAA
1 ATTTATATATTTTATAATAA
13710414 ATTTATATATTTTAT
1 ATTTATATATTTTAT
13710429 TGTTATTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
17 4 0.15
18 15 0.56
19 7 0.26
20 1 0.04
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (20 bp):
ATTTATATATTTTATAATAA
Found at i:13712683 original size:18 final size:17
Alignment explanation
Indices: 13712656--13712689 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
13712646 ACAACATAAT
*
13712656 TTATTAAATTGTTTTTA
1 TTATTAAATTATTTTTA
13712673 TTATATAAATTATTTTT
1 TTAT-TAAATTATTTTT
13712690 TAATTTAATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (17 bp):
TTATTAAATTATTTTTA
Found at i:13713045 original size:22 final size:22
Alignment explanation
Indices: 13713020--13713089 Score: 90
Period size: 22 Copynumber: 3.2 Consensus size: 22
13713010 AAATTCAATA
13713020 TCAATTTCCTTCAAAAATTCTC
1 TCAATTTCCTTCAAAAATTCTC
13713042 TCAA-TTCCGTTCAAAAATTCTC
1 TCAATTTCC-TTCAAAAATTCTC
* *
13713064 TCAAATTACTTTC-AAAATTCTC
1 TC-AATTTCCTTCAAAAATTCTC
13713086 TCAA
1 TCAA
13713090 ACTCTCAAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
21 6 0.14
22 30 0.70
23 5 0.12
24 2 0.05
ACGTcount: A:0.34, C:0.26, G:0.01, T:0.39
Consensus pattern (22 bp):
TCAATTTCCTTCAAAAATTCTC
Found at i:13713089 original size:11 final size:11
Alignment explanation
Indices: 13713055--13713119 Score: 59
Period size: 11 Copynumber: 6.2 Consensus size: 11
13713045 ATTCCGTTCA
13713055 AAAATTCTCTC
1 AAAATTCTCTC
*
13713066 -AAATTACTTTC
1 AAAATT-CTCTC
13713077 AAAATTCTCTC
1 AAAATTCTCTC
13713088 -AAA--CTCTC
1 AAAATTCTCTC
*
13713096 AAATTTCT-TCC
1 AAAATTCTCT-C
13713107 AAAATTCTCTC
1 AAAATTCTCTC
13713118 AA
1 AA
13713120 TTTCCTTCAA
Statistics
Matches: 43, Mismatches: 4, Indels: 14
0.70 0.07 0.23
Matches are distributed among these distances:
8 5 0.12
9 2 0.05
10 9 0.21
11 21 0.49
12 6 0.14
ACGTcount: A:0.37, C:0.26, G:0.00, T:0.37
Consensus pattern (11 bp):
AAAATTCTCTC
Found at i:13713090 original size:22 final size:23
Alignment explanation
Indices: 13713029--13713090 Score: 92
Period size: 22 Copynumber: 2.8 Consensus size: 23
13713019 ATCAATTTCC
*
13713029 TTCAAAAATTCTCTC-AATTCCG
1 TTCAAAAATTCTCTCAAATTACG
*
13713051 TTCAAAAATTCTCTCAAATTACT
1 TTCAAAAATTCTCTCAAATTACG
13713074 TTC-AAAATTCTCTCAAA
1 TTCAAAAATTCTCTCAAA
13713091 CTCTCAAATT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
22 29 0.78
23 8 0.22
ACGTcount: A:0.37, C:0.24, G:0.02, T:0.37
Consensus pattern (23 bp):
TTCAAAAATTCTCTCAAATTACG
Found at i:13713095 original size:30 final size:30
Alignment explanation
Indices: 13713061--13713119 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
13713051 TTCAAAAATT
*
13713061 CTCTCAAATTACTTTCAAAATTCTCTCAAA
1 CTCTCAAATTACTTCCAAAATTCTCTCAAA
*
13713091 CTCTCAAATTTCTTCCAAAATTCTCTCAA
1 CTCTCAAATTACTTCCAAAATTCTCTCAA
13713120 TTTCCTTCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.34, C:0.29, G:0.00, T:0.37
Consensus pattern (30 bp):
CTCTCAAATTACTTCCAAAATTCTCTCAAA
Found at i:13713123 original size:21 final size:23
Alignment explanation
Indices: 13713091--13713142 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 23
13713081 TTCTCTCAAA
* *
13713091 CTCTCAAATTT-CTTCCAAAATT
1 CTCTCAAATTTCCTTCAAAAAAT
13713113 CTCTC-AATTTCCTTCAAAAAAT
1 CTCTCAAATTTCCTTCAAAAAAT
13713135 CTC-CAAAT
1 CTCTCAAAT
13713143 CCATATTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
21 6 0.23
22 20 0.77
ACGTcount: A:0.35, C:0.29, G:0.00, T:0.37
Consensus pattern (23 bp):
CTCTCAAATTTCCTTCAAAAAAT
Found at i:13713320 original size:52 final size:52
Alignment explanation
Indices: 13713242--13713350 Score: 202
Period size: 52 Copynumber: 2.1 Consensus size: 52
13713232 AATATTTTCA
13713242 ACAATGGCCGAATCATTGATTCGTCTTGATAGGAATCACATATCGGTGGAGC
1 ACAATGGCCGAATCATTGATTCGTCTTGATAGGAATCACATATCGGTGGAGC
*
13713294 ACAATGGCCGGATCATTGATTCGTCTTGATAGGAATCACATATCGGTGGAGC
1 ACAATGGCCGAATCATTGATTCGTCTTGATAGGAATCACATATCGGTGGAGC
13713346 A-AATG
1 ACAATG
13713351 AAAATGGTAA
Statistics
Matches: 56, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
51 4 0.07
52 52 0.93
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (52 bp):
ACAATGGCCGAATCATTGATTCGTCTTGATAGGAATCACATATCGGTGGAGC
Found at i:13713411 original size:14 final size:15
Alignment explanation
Indices: 13713382--13713415 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
13713372 AAAATTTAAA
13713382 TTTTATTTAAGATAT
1 TTTTATTTAAGATAT
*
13713397 TTTTATTTATG-TAT
1 TTTTATTTAAGATAT
13713411 TTTTA
1 TTTTA
13713416 GATATTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (15 bp):
TTTTATTTAAGATAT
Found at i:13715602 original size:28 final size:28
Alignment explanation
Indices: 13715562--13716402 Score: 847
Period size: 28 Copynumber: 30.4 Consensus size: 28
13715552 TTTTGACATT
* *
13715562 ATTTGATTAAAAACCCTAACTTAACTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
* *
13715590 ATTTAATTAAAAACCCTTACCCTAACCTA
1 ATTTAATTAAAAACCC-TAACCTAACTTA
*
13715619 ATTTAATTAAAAACCCTAACTTAACTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
*
13715647 A-TT-A--AAAAA-CCTAACCTAATTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
*
13715670 ATTTAATTAAAAACCCTAACCTAACCTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
* *
13715698 AATTAATTAAAAACCCTAACCTAATTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
13715726 ATTTAATTAAAAACCCTAA-C--A--TA
1 ATTTAATTAAAAACCCTAACCTAACTTA
* *
13715749 ATTTAGTTAAAAACCCTAACCCTAACCTA
1 ATTTAATTAAAAACCCTAA-CCTAACTTA
* * *
13715778 TTTTACA-TGAAAACCCTAACCCTAACCTA
1 ATTTA-ATTAAAAACCCTAA-CCTAACTTA
* * *
13715807 ATTTAATTAAAAACCCTCACATAATTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
* * *
13715835 ATTTAATTAAAAACACTAACATAATTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
*
13715863 ATTTAATTAAAAACCCTAACCCTAACCTA
1 ATTTAATTAAAAACCCTAA-CCTAACTTA
* * * *
13715892 TTTTAAATGAAAACCCTAACCCTAACCTA
1 ATTTAATTAAAAACCCTAA-CCTAACTTA
* *
13715921 ATTTAATTAAAAACCCTAACATAATTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
* * *
13715949 ATTTAATTAAAAACACTAACATAATTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
13715977 ATTTAATTAAAAACCCTAA-C--A--TA
1 ATTTAATTAAAAACCCTAACCTAACTTA
* *
13716000 ATTTAGTTAAAAACCCTAACCCTAACCTA
1 ATTTAATTAAAAACCCTAA-CCTAACTTA
* * *
13716029 TTTTACA-TGAAAACCCTAACCCTAACCTA
1 ATTTA-ATTAAAAACCCTAA-CCTAACTTA
* *
13716058 ATTTAATTAAAAACCCTAACATAATTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
* * *
13716086 ATTTAATTAAAAACACTAACATAATTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
13716114 ATTTAATTAAAAACCCTAA-C--A--TA
1 ATTTAATTAAAAACCCTAACCTAACTTA
* *
13716137 ATTTAGTTAAAAACCCTAACCCTAACCTA
1 ATTTAATTAAAAACCCTAA-CCTAACTTA
*
13716166 ATTTAATTAAAAACCCTAACCTAATTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
*
13716194 ATTTAATTAAAAACCCTAACCTAATTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
13716222 A-TTAATTAAAAACCCTAA-C--A--TA
1 ATTTAATTAAAAACCCTAACCTAACTTA
* *
13716244 ATTTAGTTAAAAACCCTAACCCTAACCTA
1 ATTTAATTAAAAACCCTAA-CCTAACTTA
13716273 ATTTAATTAAAAACCCTAACCCTAACCCTAACCTA
1 ATTTAATTAAAAACCCTAA-CCTAA--CT----TA
*
13716308 ATTTAATTAAAAACCCTAACCTAATTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
* * *
13716336 ATTTAATTTAATACCCTAACCTAACATA
1 ATTTAATTAAAAACCCTAACCTAACTTA
* *
13716364 ATTTAGTTAAAAACCCTAACCCTAACCTA
1 ATTTAATTAAAAACCCTAA-CCTAACTTA
13716393 ATTTAATTAA
1 ATTTAATTAA
13716403 TGTAAAAAAA
Statistics
Matches: 698, Mismatches: 72, Indels: 85
0.82 0.08 0.10
Matches are distributed among these distances:
22 3 0.00
23 89 0.13
24 8 0.01
25 8 0.01
26 2 0.00
27 29 0.04
28 312 0.45
29 219 0.31
31 1 0.00
32 1 0.00
34 5 0.01
35 21 0.03
ACGTcount: A:0.46, C:0.21, G:0.01, T:0.32
Consensus pattern (28 bp):
ATTTAATTAAAAACCCTAACCTAACTTA
Found at i:13715854 original size:137 final size:136
Alignment explanation
Indices: 13715562--13716402 Score: 822
Period size: 137 Copynumber: 6.1 Consensus size: 136
13715552 TTTTGACATT
* * *
13715562 ATTTGATTAAAAACCCTAACTTAACTTAATTTAATTAAAAACCCTTACCCTAACCTAATTTAATT
1 ATTTAATTAAAAACCCTAACATAATTTAATTTAATT-AAAA-----ACCCTAACCTAATTTAATT
* *
13715627 AAAAACCCTAA--CT----TAACTTAATTAAAAAACCTAACCTAATTTAATTTAATTAAAAACCC
60 AAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTTAATTAAAAACCC
* **
13715686 TAACCTAACCTA
125 TAACATAATTTA
* * * *
13715698 AATTAATTAAAAACCCTAACCTAATTTAATTTAATTAAAAACCCTAACATAATTTAGTTAAAAAC
1 ATTTAATTAAAAACCCTAACATAATTTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAAC
* * ** *
13715763 CCTAACCCTAACCTATTTTACA-TGAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTCAC
66 CCTAACCCTAACCTAATTTA-ATTAAAAACCCTAA-CCTAATTTAATTTAATTAAAAACCCTAAC
13715827 ATAATTTA
129 ATAATTTA
* *
13715835 ATTTAATTAAAAACACTAACATAATTTAATTTAATTAAAAACCCTAACCCTAACCTATTTTAAAT
1 ATTTAATTAAAAACCCTAACATAATTTAATTTAATTAAAAACCCTAA-CCT-A---A-TTTAATT
* * *
13715900 GAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACATAATTTAATTTAATTAAAAACAC
60 AAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTTAATTAAAAACCC
13715965 TAACATAATTTA
125 TAACATAATTTA
* * *
13715977 ATTTAATTAAAAACCCTAACATAATTT-AGTTAA--AAACCCTAACCCTAACCTATTTTACA-TG
1 ATTTAATTAAAAACCCTAACATAATTTAATTTAATTAAA----AACCCTAACCTAATTTA-ATTA
* *
13716038 AAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACATAATTTAATTTAATTAAAAACACT
61 AAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTTAATTAAAAACCCT
13716103 AACATAATTTA
126 AACATAATTTA
*
13716114 ATTTAATTAAAAACCCTAACATAATTT-AGTTAA--AAACCCTAACCCTAACCTAATTTAATTAA
1 ATTTAATTAAAAACCCTAACATAATTTAATTTAATTAAA----AACCCTAACCTAATTTAATTAA
**
13716176 AAACCCTAA-CCTAATTTAATTTAATTAAAAACCCTAACCTAATTTAA-TTAATTAAAAACCCTA
62 AAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTTAATTAAAAACCCTA
13716239 ACATAATTT-
127 ACATAATTTA
* * * * *
13716248 AGTTAA--AAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCCTAACCTAATT
1 ATTTAATTAAA----AACCCTAACATAATTTAATT--TAA--TTAA---AAACCCTAACCTAATT
** * * ** *
13716311 TAATTAAAAACCCTAA-CCTAATTTAATTTAATTTAATACCCTAACCTAACATAATTTAGTTAAA
55 TAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTTAATTAAA
* **
13716375 AACCCTAACCCTAACCTA
120 AACCCTAA-CATAATTTA
13716393 ATTTAATTAA
1 ATTTAATTAA
13716403 TGTAAAAAAA
Statistics
Matches: 612, Mismatches: 53, Indels: 69
0.83 0.07 0.09
Matches are distributed among these distances:
130 28 0.05
132 5 0.01
134 5 0.01
135 28 0.05
136 98 0.16
137 227 0.37
138 3 0.00
139 6 0.01
141 6 0.01
142 128 0.21
143 66 0.11
144 5 0.01
145 5 0.01
147 2 0.00
ACGTcount: A:0.46, C:0.21, G:0.01, T:0.32
Consensus pattern (136 bp):
ATTTAATTAAAAACCCTAACATAATTTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAAC
CCTAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTTAATTAAAAACCCTAACAT
AATTTA
Found at i:13716301 original size:35 final size:35
Alignment explanation
Indices: 13716255--13716328 Score: 148
Period size: 35 Copynumber: 2.1 Consensus size: 35
13716245 TTTAGTTAAA
13716255 AACCCTAACCCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCCTAACCTAATTTAATTAAAAACCCT
13716290 AACCCTAACCCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCCTAACCTAATTTAATTAAAAACCCT
13716325 AACC
1 AACC
13716329 TAATTTAATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.43, C:0.32, G:0.00, T:0.24
Consensus pattern (35 bp):
AACCCTAACCCTAACCTAATTTAATTAAAAACCCT
Found at i:13719733 original size:123 final size:124
Alignment explanation
Indices: 13719509--13719772 Score: 361
Period size: 123 Copynumber: 2.1 Consensus size: 124
13719499 CCACGAGGGC
* * *
13719509 GCGATTTGACACTATTTGCTTAGAAACGTCAAAAAAATTTATTTCCTACATGACCAATTGTAGCG
1 GCGATTTGACACTATTTACTCAGAAACGTCAAAAAAATTTATTTCCTACATGACCAACTGTAGCG
* * * * * * **
13719574 AAATTGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCATATAGCATCCTGGTATTA
66 AAATCGCATCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTAGTAGAA
* * *
13719633 GCGATTTTATACTATTTACTCAGAAAACGTCAAAAAAA-TTATTTCTTACATGACC-ACTGTAGC
1 GCGATTTGACACTATTTACTCAG-AAACGTCAAAAAAATTTATTTCCTACATGACCAACTGTAGC
13719696 GAAATCGCATCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTAGTAGAA
65 GAAATCGCATCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTAGTAGAA
**
13719756 GCGATTTCCCACTATTT
1 GCGATTTGACACTATTT
13719773 GACCAGATAC
Statistics
Matches: 122, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
123 73 0.60
124 35 0.29
125 14 0.11
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.31
Consensus pattern (124 bp):
GCGATTTGACACTATTTACTCAGAAACGTCAAAAAAATTTATTTCCTACATGACCAACTGTAGCG
AAATCGCATCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTAGTAGAA
Found at i:13723529 original size:43 final size:43
Alignment explanation
Indices: 13723437--13723531 Score: 109
Period size: 43 Copynumber: 2.2 Consensus size: 43
13723427 CCTAAGACAC
* * * * *
13723437 GAGCATGTGTCTCAGCCGTGTGAGTCACACGGCCTGGCTACAC
1 GAGCGTGTGTCTCAGCCGTGTGAGTCACACGGCCCGACCACAA
* * *
13723480 TAGCGTGTGTCTCAGCCGTTTGAGTCATACGGCCCGACCACAA
1 GAGCGTGTGTCTCAGCCGTGTGAGTCACACGGCCCGACCACAA
*
13723523 GGGCGTGTG
1 GAGCGTGTG
13723532 ACCCCTGTAG
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.18, C:0.28, G:0.32, T:0.22
Consensus pattern (43 bp):
GAGCGTGTGTCTCAGCCGTGTGAGTCACACGGCCCGACCACAA
Found at i:13725760 original size:114 final size:113
Alignment explanation
Indices: 13725621--13726031 Score: 475
Period size: 114 Copynumber: 3.6 Consensus size: 113
13725611 GATTTTGTTG
* * * *
13725621 AAGCGTCGCAAATAAACCGAAGCCCAACGATGCCGTTTTCTGAGCGTTCAGGGATTTAGTGGCTT
1 AAGCGCCGCAAATAAACCGAAGCCCAACGACGCCGTTTTCTGAGCATTCAGGGATTTAGCGGCTT
** *
13725686 TTTCGGCGAAGCGCAGCTAATGCTCAGAACTTTAGCGGCGTTTTTGAGT
66 TTTCGGTAAAGCGC-GCTAATGCTCAGGACTTTAGCGGCGTTTTTGAGT
* * * * *
13725735 AAGCGTCGCAAATAAACCGAAGCCCAACGACGCTGTTTTCTGATCATTCGGGGATTTAGTGG-TA
1 AAGCGCCGCAAATAAACCGAAGCCCAACGACGCCGTTTTCTGAGCATTCAGGGATTTAGCGGCT-
* *
13725799 TTTTCGGTAAAGCGTCGCTAATGTTCAGGACTTTAGCGGTGTTTTTGAGT
65 TTTTCGGTAAAGCG-CGCTAATGCTCAGGACTTTAGCGGCGTTTTTGAGT
* * * * * *
13725849 AAGCGCCGCAAATAAACCAAAGCCCAACGACGCTGTTTTTTGAGCATTCGGGGATTTTGCGGCGT
1 AAGCGCCGCAAATAAACCGAAGCCCAACGACGCCGTTTTCTGAGCATTCAGGGATTTAGCGGCTT
* * * * *
13725914 TTTAGGTAAAGCGCTGCTAATGCTCAGGACTCTATCGGCGTTTTTTGTGG
66 TTTCGGTAAAGCGC-GCTAATGCTCAGGACTTTAGCGGCG-TTTTTGAGT
* * * * * *
13725964 AAGCGCCGCGAA-AAGCCTAAGCCCAACGATGCCATTTTCTGAGCATTCAGGAATTTAGCGGCGT
1 AAGCGCCGCAAATAAACCGAAGCCCAACGACGCCGTTTTCTGAGCATTCAGGGATTTAGCGGC-T
13726028 TTTT
65 TTTT
13726032 GATGAAGCGC
Statistics
Matches: 256, Mismatches: 35, Indels: 11
0.85 0.12 0.04
Matches are distributed among these distances:
113 2 0.01
114 231 0.90
115 23 0.09
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.28
Consensus pattern (113 bp):
AAGCGCCGCAAATAAACCGAAGCCCAACGACGCCGTTTTCTGAGCATTCAGGGATTTAGCGGCTT
TTTCGGTAAAGCGCGCTAATGCTCAGGACTTTAGCGGCGTTTTTGAGT
Found at i:13730503 original size:15 final size:16
Alignment explanation
Indices: 13730466--13730509 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
13730456 TATAAATATT
*
13730466 TATATACATTTTTAATA
1 TATATA-ATTTTTAAAA
13730483 TATAT-ATTTTTAAAA
1 TATATAATTTTTAAAA
*
13730498 TCTATAATTTTT
1 TATATAATTTTT
13730510 TCAAGATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 13 0.54
16 6 0.25
17 5 0.21
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.57
Consensus pattern (16 bp):
TATATAATTTTTAAAA
Found at i:13730570 original size:13 final size:13
Alignment explanation
Indices: 13730552--13730579 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
13730542 AACTCAAATT
13730552 TATCAATAATATA
1 TATCAATAATATA
13730565 TATCAATAATATA
1 TATCAATAATATA
13730578 TA
1 TA
13730580 ATAACATACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (13 bp):
TATCAATAATATA
Found at i:13730647 original size:33 final size:35
Alignment explanation
Indices: 13730579--13730651 Score: 107
Period size: 35 Copynumber: 2.1 Consensus size: 35
13730569 AATAATATAT
13730579 AATAACATACAATATAATAACTTATACATAACTTA
1 AATAACATACAATATAATAACTTATACATAACTTA
*
13730614 AATAACATACAATAT-ATAAAC-T-TGCATAACTTA
1 AATAACATACAATATAAT-AACTTATACATAACTTA
13730647 AATAA
1 AATAA
13730652 TTATAAATAA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
33 15 0.42
34 3 0.08
35 18 0.50
ACGTcount: A:0.55, C:0.14, G:0.01, T:0.30
Consensus pattern (35 bp):
AATAACATACAATATAATAACTTATACATAACTTA
Found at i:13730816 original size:23 final size:23
Alignment explanation
Indices: 13730788--13730831 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
13730778 CTTATATGTA
13730788 AACTTACATAATACATAACTTTT
1 AACTTACATAATACATAACTTTT
13730811 AACTTACATAATACATAACTT
1 AACTTACATAATACATAACTT
13730832 ACAAAATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.45, C:0.18, G:0.00, T:0.36
Consensus pattern (23 bp):
AACTTACATAATACATAACTTTT
Found at i:13730945 original size:20 final size:19
Alignment explanation
Indices: 13730920--13731080 Score: 58
Period size: 19 Copynumber: 8.4 Consensus size: 19
13730910 AAACTGGCAT
*
13730920 AACTTACGTAATAACATAAC
1 AACTTACATAAT-ACATAAC
13730940 AACTTACATAATACATAGCATAC
1 AACTTACATAATACAT---A-AC
13730963 ATAACTTACATAATAC--AA-
1 --AACTTACATAATACATAAC
*
13730981 AACTTACATAACTTA-A-AAT
1 AACTTACATAA--TACATAAC
* *
13731000 ATCTTACACAACTTACATAAC
1 AACTTACATAA--TACATAAC
**
13731021 --C-TACATAATACAT-TT
1 AACTTACATAATACATAAC
13731036 AACTTACATAAATTACAT---
1 AACTTACAT-AA-TACATAAC
*
13731054 AACTTACATAATACATAAT
1 AACTTACATAATACATAAC
13731073 AACTTACA
1 AACTTACA
13731081 ACTTACATAA
Statistics
Matches: 114, Mismatches: 7, Indels: 41
0.70 0.04 0.25
Matches are distributed among these distances:
16 21 0.18
17 3 0.03
18 24 0.21
19 29 0.25
20 18 0.16
21 2 0.02
22 1 0.01
23 2 0.02
25 14 0.12
ACGTcount: A:0.49, C:0.20, G:0.01, T:0.30
Consensus pattern (19 bp):
AACTTACATAATACATAAC
Found at i:13730972 original size:9 final size:9
Alignment explanation
Indices: 13730940--13731239 Score: 224
Period size: 9 Copynumber: 34.8 Consensus size: 9
13730930 ATAACATAAC
13730940 AACTTACAT
1 AACTTACAT
13730949 AA--TACAT
1 AACTTACAT
* *
13730956 AGCATACAT
1 AACTTACAT
13730965 AACTTACAT
1 AACTTACAT
*
13730974 AA--TACAA
1 AACTTACAT
13730981 AACTTACAT
1 AACTTACAT
*
13730990 AACTTAAAAT
1 AACTT-ACAT
* *
13731000 ATCTTACAC
1 AACTTACAT
13731009 AACTTACAT
1 AACTTACAT
*
13731018 AACCTACAT
1 AACTTACAT
13731027 AA--TACATTT
1 AACTTACA--T
13731036 AACTTACAT
1 AACTTACAT
*
13731045 AAATTACAT
1 AACTTACAT
13731054 AACTTACAT
1 AACTTACAT
*
13731063 AATACATA-AT
1 -A-ACTTACAT
13731073 AACTTAC--
1 AACTTACAT
13731080 AACTTACAT
1 AACTTACAT
*
13731089 AACATACAT
1 AACTTACAT
* **
13731098 TACTTTGAT
1 AACTTACAT
13731107 AACTTACAT
1 AACTTACAT
13731116 AACTTACAT
1 AACTTACAT
*
13731125 AA-TT-CAC
1 AACTTACAT
13731132 AACTTACAT
1 AACTTACAT
* *
13731141 AGCTTACTT
1 AACTTACAT
13731150 AA--TACAT
1 AACTTACAT
13731157 AACTTACAT
1 AACTTACAT
*
13731166 AA--TACAC
1 AACTTACAT
13731173 AACTTACAT
1 AACTTACAT
* *
13731182 AGCTTACTT
1 AACTTACAT
13731191 AA--TACAT
1 AACTTACAT
13731198 AACTTACAT
1 AACTTACAT
13731207 AA--TACAT
1 AACTTACAT
*
13731214 ACACGTACAT
1 A-ACTTACAT
13731224 AACTTACAT
1 AACTTACAT
*
13731233 AATTTAC
1 AACTTAC
13731240 TTAATACATA
Statistics
Matches: 228, Mismatches: 38, Indels: 50
0.72 0.12 0.16
Matches are distributed among these distances:
7 51 0.22
8 9 0.04
9 144 0.63
10 16 0.07
11 8 0.04
ACGTcount: A:0.46, C:0.21, G:0.02, T:0.32
Consensus pattern (9 bp):
AACTTACAT
Found at i:13730978 original size:16 final size:16
Alignment explanation
Indices: 13730959--13731250 Score: 145
Period size: 16 Copynumber: 17.5 Consensus size: 16
13730949 AATACATAGC
13730959 ATACATAACTTACATA
1 ATACATAACTTACATA
*
13730975 ATACAAAACTTACATA
1 ATACATAACTTACATA
* * *
13730991 ACTTAAAATATCTTACACA
1 A--T-ACATAACTTACATA
*
13731010 ACTTACATAACCTACATA
1 A--TACATAACTTACATA
13731028 ATACATTTAACTTACATAA
1 ATACA--TAACTTACAT-A
13731047 ATTACATAACTTACATA
1 A-TACATAACTTACATA
*
13731064 ATACATAA-TAAC-T-
1 ATACATAACTTACATA
13731077 -TAC--AACTTACATAA
1 ATACATAACTTACAT-A
* **
13731091 CATACATTACTTTGATA
1 -ATACATAACTTACATA
13731108 ACTTACATAACTTACATA
1 A--TACATAACTTACATA
* *
13731126 ATTCACAACTTACATA
1 ATACATAACTTACATA
* *
13731142 GCTTACTTAA--TACATA
1 --ATACATAACTTACATA
*
13731158 ACTTACATAA--TACACA
1 A--TACATAACTTACATA
* *
13731174 ACTTACATAGCTTACTTA
1 A--TACATAACTTACATA
13731192 ATACATAACTTACATA
1 ATACATAACTTACATA
*
13731208 ATACATACACGTACATA
1 ATACATA-ACTTACATA
* *
13731225 ACTTACATAATTTACTTA
1 A--TACATAACTTACATA
13731243 ATACATAA
1 ATACATAA
13731251 ATATATATCA
Statistics
Matches: 214, Mismatches: 36, Indels: 52
0.71 0.12 0.17
Matches are distributed among these distances:
10 2 0.01
11 3 0.01
12 4 0.02
14 1 0.00
15 3 0.01
16 97 0.45
17 12 0.06
18 66 0.31
19 22 0.10
20 4 0.02
ACGTcount: A:0.46, C:0.20, G:0.01, T:0.33
Consensus pattern (16 bp):
ATACATAACTTACATA
Found at i:13731082 original size:71 final size:70
Alignment explanation
Indices: 13730928--13731126 Score: 191
Period size: 71 Copynumber: 2.8 Consensus size: 70
13730918 ATAACTTACG
* *
13730928 TAATAACATAACAACTTACATAA-TACATAGCATACA--TAACTTACAT-AA-TACAAAACTTAC
1 TAATAAC-TTACAACTTACATAACTACATA--ATACATTTAACTTACATAAATTACATAACTTAC
13730988 ATAACTTAA
63 ATAAC-TAA
*
13730997 -AATATCTTACACAACTTACATAACCTACATAATACATTTAACTTACATAAATTACATAACTTAC
1 TAATAACTT--ACAACTTACATAA-CTACATAATACATTTAACTTACATAAATTACATAACTTAC
13731061 ATAA-TACA
63 ATAACTA-A
* *
13731069 TAATAACTTACAACTTACATAACATACAT--TACTTTGATAACTTACATAACTTACATAA
1 TAATAACTTACAACTTACATAAC-TACATAATACATT--TAACTTACATAAATTACATAA
13731127 TTCACAACTT
Statistics
Matches: 111, Mismatches: 6, Indels: 24
0.79 0.04 0.17
Matches are distributed among these distances:
67 1 0.01
68 5 0.05
69 23 0.21
70 1 0.01
71 56 0.50
72 3 0.03
73 22 0.20
ACGTcount: A:0.48, C:0.20, G:0.01, T:0.31
Consensus pattern (70 bp):
TAATAACTTACAACTTACATAACTACATAATACATTTAACTTACATAAATTACATAACTTACATA
ACTAA
Found at i:13731090 original size:19 final size:19
Alignment explanation
Indices: 13730918--13731080 Score: 85
Period size: 18 Copynumber: 8.5 Consensus size: 19
13730908 ATAAACTGGC
*
13730918 ATAACTTACGTAATAACATA
1 ATAACTTACATAAT-ACATA
*
13730938 ACAACTTACATAATACATAGCATA
1 ATAACTTAC---ATA-ATA-CATA
13730962 CATAACTTACATAATAC--A
1 -ATAACTTACATAATACATA
13730980 A-AACTTACATAACTTA-A-A
1 ATAACTTACATAA--TACATA
* * *
13730998 ATATCTTACA-CA-ACTTA
1 ATAACTTACATAATACATA
*
13731015 CATAACCTACATAATACAT-
1 -ATAACTTACATAATACATA
* *
13731034 TTAACTTACATAA-A-TTA
1 ATAACTTACATAATACATA
13731051 CATAACTTACATAATACATA
1 -ATAACTTACATAATACATA
13731071 ATAACTTACA
1 ATAACTTACA
13731081 ACTTACATAA
Statistics
Matches: 109, Mismatches: 15, Indels: 39
0.67 0.09 0.24
Matches are distributed among these distances:
15 1 0.01
16 12 0.11
17 3 0.03
18 37 0.34
19 19 0.17
20 14 0.13
21 3 0.03
22 3 0.03
23 3 0.03
24 6 0.06
25 8 0.07
ACGTcount: A:0.49, C:0.20, G:0.01, T:0.30
Consensus pattern (19 bp):
ATAACTTACATAATACATA
Found at i:13731160 original size:25 final size:25
Alignment explanation
Indices: 13730940--13731167 Score: 170
Period size: 25 Copynumber: 9.1 Consensus size: 25
13730930 ATAACATAAC
* *
13730940 AACTTACATAATACATAGCATACAT
1 AACTTACATAATACATAACTTACAT
*
13730965 AACTTACATAATACAAAACTTACAT
1 AACTTACATAATACATAACTTACAT
*
13730990 AACTTA-A-AAT--AT--CTTACAC
1 AACTTACATAATACATAACTTACAT
13731009 AACTTACATAACCTACATAA--TACATTT
1 AACTTACATAA--TACATAACTTACA--T
13731036 AACTTACATAAATTACATAACTTACAT
1 AACTTACAT-AA-TACATAACTTACAT
*
13731063 AA--TACATAATAACTTACAACTTACAT
1 AACTTACATAAT-AC--ATAACTTACAT
* * **
13731089 AACATACATTACTTTGATAACTTACAT
1 AACTTACA-TA-ATACATAACTTACAT
* *
13731116 AACTTACATAATTCACAACTTACAT
1 AACTTACATAATACATAACTTACAT
* *
13731141 AGCTTACTTAATACATAACTTACAT
1 AACTTACATAATACATAACTTACAT
13731166 AA
1 AA
13731168 TACACAACTT
Statistics
Matches: 162, Mismatches: 21, Indels: 40
0.73 0.09 0.18
Matches are distributed among these distances:
19 12 0.07
20 1 0.01
21 3 0.02
23 5 0.03
24 5 0.03
25 73 0.45
26 14 0.09
27 36 0.22
28 6 0.04
29 6 0.04
30 1 0.01
ACGTcount: A:0.46, C:0.20, G:0.01, T:0.32
Consensus pattern (25 bp):
AACTTACATAATACATAACTTACAT
Found at i:13731180 original size:25 final size:25
Alignment explanation
Indices: 13730917--13731235 Score: 86
Period size: 25 Copynumber: 12.6 Consensus size: 25
13730907 TATAAACTGG
*
13730917 CATAACTTACGTAATAACATAACAACTTA
1 CATAACTTACATAAT-ACAT---AACTTA
13730946 CATAA--TACATAGCATACATAACTTA
1 CATAACTTACATA--ATACATAACTTA
*
13730971 CATAA--TACAAAACTTACATAACTTAA
1 CATAACTTACATAA--TACATAACTT-A
* * * *
13730997 AATATCTTACACAACTTACATAACCTA
1 CATAACTTACATAA--TACATAACTTA
13731024 CATAA--TACAT--T---TAACTTA
1 CATAACTTACATAATACATAACTTA
* *
13731042 CATAAATTACATAACTTACATAATACATA
1 CATAACTTACATAA--TACAT-A-ACTTA
* *
13731071 -ATAACTTACA-ACTTACATAACATA
1 CATAACTTACATA-ATACATAACTTA
* **
13731095 CATTACTTTGATAACTTACATAACTTA
1 CATAACTTACATAA--TACATAACTTA
* *
13731122 CATAA-TTCACA-ACTTACATAGCTTA
1 CATAACTT-ACATA-ATACATAACTTA
*
13731147 CTTAA--TACATAACTTACATAA--TA
1 CATAACTTACATAA--TACATAACTTA
* * *
13731170 CACAACTTACATAGCTTACTTAA--TA
1 CATAACTTACATA--ATACATAACTTA
*
13731195 CATAACTTACATAATACATACACGTA
1 CATAACTTACATAATACATA-ACTTA
13731221 CATAACTTACATAAT
1 CATAACTTACATAAT
13731236 TTACTTAATA
Statistics
Matches: 222, Mismatches: 33, Indels: 73
0.68 0.10 0.22
Matches are distributed among these distances:
18 11 0.05
20 5 0.02
21 1 0.00
23 14 0.06
24 9 0.04
25 84 0.38
26 30 0.14
27 26 0.12
28 31 0.14
29 11 0.05
ACGTcount: A:0.46, C:0.21, G:0.02, T:0.31
Consensus pattern (25 bp):
CATAACTTACATAATACATAACTTA
Found at i:13731841 original size:44 final size:44
Alignment explanation
Indices: 13731778--13731866 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
13731768 AACCCGGAAC
13731778 AAGTGTACATCATAAAGAGCCGAATGGAGAAGCGGAAAAGTTCT
1 AAGTGTACATCATAAAGAGCCGAATGGAGAAGCGGAAAAGTTCT
13731822 AAGTGTACATCATAAAGAGCCGAATGGAGAAGCGGAAAAGTTCT
1 AAGTGTACATCATAAAGAGCCGAATGGAGAAGCGGAAAAGTTCT
13731866 A
1 A
13731867 CGCGCTACTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.42, C:0.13, G:0.27, T:0.18
Consensus pattern (44 bp):
AAGTGTACATCATAAAGAGCCGAATGGAGAAGCGGAAAAGTTCT
Found at i:13736770 original size:21 final size:21
Alignment explanation
Indices: 13736753--13736794 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
13736743 AGGGAAGCGA
13736753 AGGCTGCAGCGA-GAGAAGCAG
1 AGGCTGCAGC-ATGAGAAGCAG
13736774 AGGCTGCAGCATGAGAAGCAG
1 AGGCTGCAGCATGAGAAGCAG
13736795 CAAGAGAAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 1 0.05
21 19 0.95
ACGTcount: A:0.33, C:0.19, G:0.40, T:0.07
Consensus pattern (21 bp):
AGGCTGCAGCATGAGAAGCAG
Found at i:13737274 original size:43 final size:41
Alignment explanation
Indices: 13737178--13737406 Score: 228
Period size: 43 Copynumber: 5.4 Consensus size: 41
13737168 AATTCCAAAA
* * *
13737178 TTAGTGGCGTTTTTTATAAAAGCGCCGCTAAAGAACATTA-CTT
1 TTAGCGGCG-TTTTT-TGAAAGCGCCGCTAAAGAACATGATC-T
* **
13737221 TTCGCGGCGTTCGTGATGAAAGCGCCGCTAAAGAACATGATCT
1 TTAGCGGCGTT--TTTTGAAAGCGCCGCTAAAGAACATGATCT
* * * *
13737264 ATAGCAGCGTTTTTTTACCAAGCGTCGCTAAAGAACATGATCT
1 TTAGCGGCGTTTTTTGA--AAGCGCCGCTAAAGAACATGATCT
*
13737307 TTAGCGGCATTTTTTTGAAAGCGCCGCTAAAGAACATGATCT
1 TTAGCGGC-GTTTTTTGAAAGCGCCGCTAAAGAACATGATCT
* *
13737349 TTAACGGCGTCTTTTTTCG-AAGCGCCGCTAAAGAACATGATAT
1 TTAGCGGCG--TTTTTT-GAAAGCGCCGCTAAAGAACATGATCT
13737392 TTAGCGGCGTTTTTT
1 TTAGCGGCGTTTTTT
13737407 CTGTAAACGC
Statistics
Matches: 155, Mismatches: 22, Indels: 20
0.79 0.11 0.10
Matches are distributed among these distances:
41 9 0.06
42 32 0.21
43 104 0.67
44 10 0.06
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (41 bp):
TTAGCGGCGTTTTTTGAAAGCGCCGCTAAAGAACATGATCT
Found at i:13737347 original size:85 final size:85
Alignment explanation
Indices: 13737197--13737406 Score: 262
Period size: 85 Copynumber: 2.5 Consensus size: 85
13737187 TTTTTTATAA
* * * * **
13737197 AAGCGCCGCTAAAGAACATTACT-TTTCGCGGCGTTCGTGATGAAAGCGCCGCTAAAGAACATGA
1 AAGCGCCGCTAAAGAACATGA-TATTTAGCGGCATT-TTTTTGAAAGCGCCGCTAAAGAACATGA
*
13737261 TCTATAGCAGCGT-TTTTTTACC
64 TCTATAACAGCGTCTTTTTT-CC
* *
13737283 AAGCGTCGCTAAAGAACATGATCTTTAGCGGCATTTTTTTGAAAGCGCCGCTAAAGAACATGATC
1 AAGCGCCGCTAAAGAACATGATATTTAGCGGCATTTTTTTGAAAGCGCCGCTAAAGAACATGATC
* * *
13737348 TTTAACGGCGTCTTTTTTCG
66 TATAACAGCGTCTTTTTTCC
*
13737368 AAGCGCCGCTAAAGAACATGATATTTAGCGGCGTTTTTT
1 AAGCGCCGCTAAAGAACATGATATTTAGCGGCATTTTTT
13737407 CTGTAAACGC
Statistics
Matches: 108, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
85 73 0.68
86 35 0.32
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.30
Consensus pattern (85 bp):
AAGCGCCGCTAAAGAACATGATATTTAGCGGCATTTTTTTGAAAGCGCCGCTAAAGAACATGATC
TATAACAGCGTCTTTTTTCC
Found at i:13739541 original size:61 final size:61
Alignment explanation
Indices: 13739447--13739573 Score: 146
Period size: 61 Copynumber: 2.1 Consensus size: 61
13739437 AATTTTTTAA
* * * * * * **
13739447 TTTTTAGAGTTAGGACTAAATTGGCAGATTTTGTAAATGTTGAGGGCCAAATTTATTGAAT
1 TTTTTAGAATTAGAACTAAAATGACAAAATTTGTAAACATTGAGGGCCAAATTTATTGAAT
* * * *
13739508 TTTTTAGAATTAGAACTAAAATGACAAAATTTGTAAACATTTAGGGCTAAATTTGTTGATT
1 TTTTTAGAATTAGAACTAAAATGACAAAATTTGTAAACATTGAGGGCCAAATTTATTGAAT
13739569 TTTTT
1 TTTTT
13739574 TATATTTAGG
Statistics
Matches: 54, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
61 54 1.00
ACGTcount: A:0.34, C:0.06, G:0.18, T:0.42
Consensus pattern (61 bp):
TTTTTAGAATTAGAACTAAAATGACAAAATTTGTAAACATTGAGGGCCAAATTTATTGAAT
Found at i:13743480 original size:9 final size:9
Alignment explanation
Indices: 13743466--13743568 Score: 102
Period size: 9 Copynumber: 11.4 Consensus size: 9
13743456 GTAGTGATTC
13743466 AATTCGGTT
1 AATTCGGTT
13743475 AATTCGGTT
1 AATTCGGTT
*
13743484 AATTCGGGT
1 AATTCGGTT
*
13743493 AATTCGGGT
1 AATTCGGTT
*
13743502 AATTAGGTT
1 AATTCGGTT
*
13743511 AATTCGGGT
1 AATTCGGTT
13743520 AATTCGAG-T
1 AATTCG-GTT
13743529 AATTCGGTT
1 AATTCGGTT
* *
13743538 AATCCAAG-T
1 AATTC-GGTT
*
13743547 AATTAGGTT
1 AATTCGGTT
*
13743556 AATTCAGTT
1 AATTCGGTT
13743565 AATT
1 AATT
13743569 TTTAACCAAA
Statistics
Matches: 78, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
8 2 0.03
9 74 0.95
10 2 0.03
ACGTcount: A:0.29, C:0.10, G:0.22, T:0.39
Consensus pattern (9 bp):
AATTCGGTT
Found at i:13743498 original size:27 final size:27
Alignment explanation
Indices: 13743466--13743568 Score: 127
Period size: 27 Copynumber: 3.8 Consensus size: 27
13743456 GTAGTGATTC
13743466 AATTCGGTTAATTCGGTTAATTCGGGT
1 AATTCGGTTAATTCGGTTAATTCGGGT
* *
13743493 AATTCGGGTAATTAGGTTAATTCGGGT
1 AATTCGGTTAATTCGGTTAATTCGGGT
* **
13743520 AATTCGAG-TAATTCGGTTAATCCAAGT
1 AATTCG-GTTAATTCGGTTAATTCGGGT
* *
13743547 AATTAGGTTAATTCAGTTAATT
1 AATTCGGTTAATTCGGTTAATT
13743569 TTTAACCAAA
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
26 1 0.02
27 63 0.97
28 1 0.02
ACGTcount: A:0.29, C:0.10, G:0.22, T:0.39
Consensus pattern (27 bp):
AATTCGGTTAATTCGGTTAATTCGGGT
Found at i:13746543 original size:24 final size:24
Alignment explanation
Indices: 13746500--13746545 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
13746490 TAATCATAGT
**
13746500 TAAATATATTATGTTAATAAATGC
1 TAAATATATTATACTAATAAATGC
*
13746524 TAAATATATTATACTCATAAAT
1 TAAATATATTATACTAATAAAT
13746546 AATAAATCTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.48, C:0.07, G:0.04, T:0.41
Consensus pattern (24 bp):
TAAATATATTATACTAATAAATGC
Found at i:13746551 original size:24 final size:24
Alignment explanation
Indices: 13746500--13746552 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
13746490 TAATCATAGT
** **
13746500 TAAATATATTATGTTAATAAATGC
1 TAAATATATTATACTAATAAATAA
*
13746524 TAAATATATTATACTCATAAATAA
1 TAAATATATTATACTAATAAATAA
13746548 TAAAT
1 TAAAT
13746553 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.51, C:0.06, G:0.04, T:0.40
Consensus pattern (24 bp):
TAAATATATTATACTAATAAATAA
Found at i:13753430 original size:21 final size:21
Alignment explanation
Indices: 13753406--13753445 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
13753396 CACCTAAAGT
* *
13753406 GGTATTGCAATATCCACTTTA
1 GGTATCGCAATACCCACTTTA
13753427 GGTATCGCAATACCCACTT
1 GGTATCGCAATACCCACTT
13753446 GCCAAGGATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.33
Consensus pattern (21 bp):
GGTATCGCAATACCCACTTTA
Found at i:13754948 original size:22 final size:22
Alignment explanation
Indices: 13754916--13754977 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
13754906 TGCATTATGA
13754916 TGCCTACTGATTTACACTACAG
1 TGCCTACTGATTTACACTACAG
* * * *
13754938 TGCGTACTGATTCACATTTCAG
1 TGCCTACTGATTTACACTACAG
* *
13754960 TGCCTACTGCTCTACACT
1 TGCCTACTGATTTACACT
13754978 TTGGTGCCTA
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.23, C:0.29, G:0.15, T:0.34
Consensus pattern (22 bp):
TGCCTACTGATTTACACTACAG
Found at i:13754984 original size:22 final size:22
Alignment explanation
Indices: 13754959--13755011 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
13754949 TCACATTTCA
* *
13754959 GTGCCTACTGCTCTACACTTTG
1 GTGCCTACTGATCAACACTTTG
*
13754981 GTGCCTATTGATCAACACTTTG
1 GTGCCTACTGATCAACACTTTG
*
13755003 GTGACTACT
1 GTGCCTACT
13755012 ATTTAAATAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.19, C:0.26, G:0.19, T:0.36
Consensus pattern (22 bp):
GTGCCTACTGATCAACACTTTG
Found at i:13780810 original size:6 final size:6
Alignment explanation
Indices: 13780799--13780835 Score: 56
Period size: 6 Copynumber: 6.0 Consensus size: 6
13780789 ACGACCTGAA
*
13780799 AAAAAT AAAAAT AAAAGT AAAAAAT AAAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT -AAAAAT AAAAAT AAAAAT
13780836 CGTATCTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 23 0.82
7 5 0.18
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:13780821 original size:13 final size:13
Alignment explanation
Indices: 13780799--13780834 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
13780789 ACGACCTGAA
13780799 AAAAAT-AAAAAT
1 AAAAATAAAAAAT
*
13780811 AAAAGTAAAAAAT
1 AAAAATAAAAAAT
13780824 AAAAATAAAAA
1 AAAAATAAAAA
13780835 TCGTATCTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 5 0.24
13 16 0.76
ACGTcount: A:0.83, C:0.00, G:0.03, T:0.14
Consensus pattern (13 bp):
AAAAATAAAAAAT
Found at i:13786947 original size:20 final size:19
Alignment explanation
Indices: 13786920--13786964 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
13786910 TTTAGAATGT
*
13786920 AAAAATTAAATTAAAAACA
1 AAAAATTAAAATAAAAACA
*
13786939 AAAATATTAAAATAAAAATA
1 AAAA-ATTAAAATAAAAACA
13786959 AAAAAT
1 AAAAAT
13786965 GGCTAAATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (19 bp):
AAAAATTAAAATAAAAACA
Found at i:13792250 original size:17 final size:17
Alignment explanation
Indices: 13792200--13792262 Score: 54
Period size: 17 Copynumber: 3.6 Consensus size: 17
13792190 CTTATCTTTG
*
13792200 GCGAATAAGAATTGCCTA
1 GCGAAT-AGTATTGCCTA
** * *
13792218 GTAAATAGAATAGCCTA
1 GCGAATAGTATTGCCTA
* *
13792235 GCGGATAGTATTGCCTG
1 GCGAATAGTATTGCCTA
13792252 GCGAATAGTAT
1 GCGAATAGTAT
13792263 CACTCGACGG
Statistics
Matches: 35, Mismatches: 10, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
17 31 0.89
18 4 0.11
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.25
Consensus pattern (17 bp):
GCGAATAGTATTGCCTA
Found at i:13805892 original size:14 final size:15
Alignment explanation
Indices: 13805870--13805946 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
13805860 CAATCAAACA
13805870 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
13805884 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
13805899 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
13805919 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
13805933 ACGGAAAA-CATTTT
1 CCAGAAAATCATTTT
13805947 ACTGGCAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 22 0.44
15 14 0.28
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.32
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:13805911 original size:20 final size:20
Alignment explanation
Indices: 13805886--13805925 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
13805876 AATATTTTCC
*
13805886 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
13805906 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
13805926 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:13805931 original size:34 final size:35
Alignment explanation
Indices: 13805874--13805940 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
13805864 CAAACACCAG
*
13805874 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
13805909 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
13805941 CATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:13805947 original size:14 final size:14
Alignment explanation
Indices: 13805909--13805948 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
13805899 ACAGAAAAGT
*
13805909 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
13805923 AAATCATTTTACGG
1 AAAACATTTTACAG
13805937 AAAACATTTTAC
1 AAAACATTTTAC
13805949 TGGCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:13806076 original size:20 final size:20
Alignment explanation
Indices: 13806051--13806119 Score: 57
Period size: 20 Copynumber: 3.5 Consensus size: 20
13806041 TTATATGGAA
13806051 TTGCACTTCGGTGCCTCTGT
1 TTGCACTTCGGTGCCTCTGT
** * *
13806071 TTGCACTTTTGTGCCTTTAT
1 TTGCACTTCGGTGCCTCTGT
** * *
13806091 TCACACTTTGGTGTCTCTGT
1 TTGCACTTCGGTGCCTCTGT
*
13806111 TAGCACTTC
1 TTGCACTTC
13806120 TATGCCTCTA
Statistics
Matches: 36, Mismatches: 13, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.10, C:0.26, G:0.19, T:0.45
Consensus pattern (20 bp):
TTGCACTTCGGTGCCTCTGT
Found at i:13808845 original size:16 final size:17
Alignment explanation
Indices: 13808824--13808858 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
13808814 AGATGTGTAA
*
13808824 GTAATGAA-TTAATCAT
1 GTAATGAACTTAAACAT
13808840 GTAATGAACTTAAACAT
1 GTAATGAACTTAAACAT
13808857 GT
1 GT
13808859 TAAGTAGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.43, C:0.09, G:0.14, T:0.34
Consensus pattern (17 bp):
GTAATGAACTTAAACAT
Found at i:13818658 original size:82 final size:82
Alignment explanation
Indices: 13818362--13818713 Score: 406
Period size: 81 Copynumber: 4.3 Consensus size: 82
13818352 TAAAAACTAA
** * * * *
13818362 AATTGAATAA-TCTGTTCGGGGATTTATTCTCGCTGTTCAATAGATTTTATTCGATTTTGATTTT
1 AATTGAATAATTCTGTTTTGGGATTTATTCCCACTGTTTAACAGATTTTATTCGATTTTGATTTT
* ** *
13818426 GTTTCAAAATGAGAAAT
66 GTTTCCAAACAAGAATT
* * ** *
13818443 AATTGAATAA-ACTGTTTTGGGATTTATTCCCACAGTTTAACAGATTTTATTTTAGTTTGATTTT
1 AATTGAATAATTCTGTTTTGGGATTTATTCCCACTGTTTAACAGATTTTATTCGATTTTGATTTT
*
13818507 GTTTCCAAACGAGAATT
66 GTTTCCAAACAAGAATT
* * * * *
13818524 AATTGAATAATT-TGTTTTGGAATTTATTACCAATGTTTAATAGATTTTATTCGATTGTGATTTT
1 AATTGAATAATTCTGTTTTGGGATTTATTCCCACTGTTTAACAGATTTTATTCGATTTTGATTTT
*
13818588 GTTTCCAAACAAGATTT
66 GTTTCCAAACAAGAATT
* * * *
13818605 AATTAAATAATTCTGTTTCGGGATTTATTCCCTCCGTTTAACAGATTTTATTCGATTTTGATTTT
1 AATTGAATAATTCTGTTTTGGGATTTATTCCCACTGTTTAACAGATTTTATTCGATTTTGATTTT
*
13818670 GTTTCCAAACAAGATTT
66 GTTTCCAAACAAGAATT
* *
13818687 AATT-ATACAATTCTATTTTGGGATTTA
1 AATTGA-ATAATTCTGTTTTGGGATTTA
13818714 ATCCTATCGG
Statistics
Matches: 230, Mismatches: 38, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
81 147 0.64
82 83 0.36
ACGTcount: A:0.29, C:0.11, G:0.14, T:0.46
Consensus pattern (82 bp):
AATTGAATAATTCTGTTTTGGGATTTATTCCCACTGTTTAACAGATTTTATTCGATTTTGATTTT
GTTTCCAAACAAGAATT
Found at i:13818678 original size:163 final size:162
Alignment explanation
Indices: 13818395--13818690 Score: 430
Period size: 163 Copynumber: 1.8 Consensus size: 162
13818385 TTATTCTCGC
* ** *
13818395 TGTTCAATAGATTTTATTCGATTTTGATTTTGTTTCAAAATGAGAAATAATTGAATAAACTGTTT
1 TGTTCAATAGATTTTATTCGATTGTGATTTTGTTTCAAAACAAGAAATAATTAAATAAACTGTTT
* ** *
13818460 TGGGATTTATTCCCACAGTTTAACAGATTTTATTTTAGTTTGATTTTGTTTCCAAACGAGAATTA
66 CGGGATTTATTCCCACAGTTTAACAGATTTTATTCGAGTTTGATTTTGTTTCCAAACAAGAATTA
13818525 ATTGAATAATTTGTTTTGGAATTTATTACCAA
131 ATTGAATAATTTGTTTTGGAATTTATTACCAA
* * ** *
13818557 TGTTTAATAGATTTTATTCGATTGTGATTTTGTTTCCAAACAAGATTTAATTAAATAATTCTGTT
1 TGTTCAATAGATTTTATTCGATTGTGATTTTGTTTCAAAACAAGAAATAATTAAATAA-ACTGTT
* * * *
13818622 TCGGGATTTATTCCCTCCGTTTAACAGATTTTATTCGATTTTGATTTTGTTTCCAAACAAGATTT
65 TCGGGATTTATTCCCACAGTTTAACAGATTTTATTCGAGTTTGATTTTGTTTCCAAACAAGAATT
13818687 AATT
130 AATT
13818691 ATACAATTCT
Statistics
Matches: 116, Mismatches: 17, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
162 50 0.43
163 66 0.57
ACGTcount: A:0.30, C:0.10, G:0.14, T:0.47
Consensus pattern (162 bp):
TGTTCAATAGATTTTATTCGATTGTGATTTTGTTTCAAAACAAGAAATAATTAAATAAACTGTTT
CGGGATTTATTCCCACAGTTTAACAGATTTTATTCGAGTTTGATTTTGTTTCCAAACAAGAATTA
ATTGAATAATTTGTTTTGGAATTTATTACCAA
Found at i:13822773 original size:22 final size:22
Alignment explanation
Indices: 13822747--13822796 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
13822737 ATAAATATAA
13822747 ATATTT-TTTATATTAACTTATTT
1 ATATTTGTTTATA-TAA-TTATTT
13822770 -TATTTGTTTATATAATTATTT
1 ATATTTGTTTATATAATTATTT
13822791 ATATTT
1 ATATTT
13822797 ATATTTGTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
21 6 0.24
22 13 0.52
23 6 0.24
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (22 bp):
ATATTTGTTTATATAATTATTT
Found at i:13837150 original size:16 final size:18
Alignment explanation
Indices: 13837118--13837150 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
13837108 GCAAAATATG
13837118 TGTGACTTTGTAATTGGT
1 TGTGACTTTGTAATTGGT
13837136 TGTGA-TTTG-AATTGG
1 TGTGACTTTGTAATTGG
13837151 AATTTGATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 4 0.27
18 5 0.33
ACGTcount: A:0.18, C:0.03, G:0.30, T:0.48
Consensus pattern (18 bp):
TGTGACTTTGTAATTGGT
Done.