Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008558.1 Hibiscus syriacus cultivar Beakdansim tig00111463_pilon, whole genome shotgun sequence
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: 2950132
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 14
Found at i:1669555 original size:18 final size:18
Alignment explanation
Indices: 1669519--1669568 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 18
1669509 GTGCATGTGC
* * *
1669519 ATGTGCATGTGTATGTGT
1 ATGTGTATGTATATATGT
1669537 ATGTGTATGTATATATGT
1 ATGTGTATGTATATATGT
* *
1669555 ATATGTATCTATAT
1 ATGTGTATGTATAT
1669569 CGTCTCGTTC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.26, C:0.04, G:0.22, T:0.48
Consensus pattern (18 bp):
ATGTGTATGTATATATGT
Found at i:1672812 original size:134 final size:134
Alignment explanation
Indices: 1672633--1672877 Score: 382
Period size: 134 Copynumber: 1.8 Consensus size: 134
1672623 CCCTAAAATG
* * *
1672633 TAGCGAAGCATATCCCTTTTGTTTTCATATTTGATATTCCCTGAAGAGCACTGAAGCATATCCAT
1 TAGCAAAGCATATCCCTTTTGTTTTCAGATTTGATATTCCCTGAAGAGCACTGAAGCAGATCCAT
**
1672698 CCCAATTCAATCTTCCCTAAAGAGTAGTGAAGTGAGTTGAAGTTCCATGGTCTGATCGTCTCTAA
66 CCCAATTCAATCTTCCCTAAAGAGTAGTGAAGTGAGTCAAAGTTCCATGGTCTGATCGTCTCTAA
1672763 AGAA
131 AGAA
* * ** *
1672767 TAGCAAAGCATATCCCTTTTGTTTTCAGATTTGATCTTCCTTGAAGAGCTGTTAAGCAGATCCAT
1 TAGCAAAGCATATCCCTTTTGTTTTCAGATTTGATATTCCCTGAAGAGCACTGAAGCAGATCCAT
**
1672832 CCTGATTCAATCTTCCCTAAAGAGTAGTGAAGTGAGTCAAAGTTCC
66 CCCAATTCAATCTTCCCTAAAGAGTAGTGAAGTGAGTCAAAGTTCC
1672878 CGTCTGATCT
Statistics
Matches: 99, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
134 99 1.00
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.33
Consensus pattern (134 bp):
TAGCAAAGCATATCCCTTTTGTTTTCAGATTTGATATTCCCTGAAGAGCACTGAAGCAGATCCAT
CCCAATTCAATCTTCCCTAAAGAGTAGTGAAGTGAGTCAAAGTTCCATGGTCTGATCGTCTCTAA
AGAA
Found at i:1673310 original size:19 final size:19
Alignment explanation
Indices: 1673278--1673373 Score: 96
Period size: 20 Copynumber: 5.2 Consensus size: 19
1673268 TAATATATAT
1673278 TATATAGTTTTTGAAAATA
1 TATATAGTTTTTGAAAATA
1673297 GTATATAG-TTTTGAAAATA
1 -TATATAGTTTTTGAAAATA
1673316 TATTATAGTTTTTGAAAATA
1 TA-TATAGTTTTTGAAAATA
* * *
1673336 -ATATA-TGTAT--ATAT-
1 TATATAGTTTTTGAAAATA
1673350 TATATAGTTTTTGAAAATA
1 TATATAGTTTTTGAAAATA
1673369 GTATA
1 -TATA
1673374 AATATATTAT
Statistics
Matches: 62, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
15 8 0.13
16 3 0.05
17 3 0.05
18 9 0.15
19 17 0.27
20 22 0.35
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.47
Consensus pattern (19 bp):
TATATAGTTTTTGAAAATA
Found at i:1673348 original size:31 final size:31
Alignment explanation
Indices: 1673313--1673412 Score: 125
Period size: 31 Copynumber: 3.2 Consensus size: 31
1673303 AGTTTTGAAA
1673313 ATATAT-TATAGTTTTTGAAAATAATATATGT
1 ATATATATATAGTTTTTGAAAATAATATA-GT
* *
1673344 ATATATTATATAGTTTTTGAAAATAGTATA-A
1 ATATA-TATATAGTTTTTGAAAATAATATAGT
*
1673375 ATATATTATATAG-ATTTGAAAATAATATAGT
1 ATATA-TATATAGTTTTTGAAAATAATATAGT
1673406 ATATATA
1 ATATATA
1673413 GTTTTGAAAA
Statistics
Matches: 61, Mismatches: 5, Indels: 7
0.84 0.07 0.10
Matches are distributed among these distances:
30 16 0.26
31 23 0.38
32 1 0.02
33 21 0.34
ACGTcount: A:0.46, C:0.00, G:0.09, T:0.45
Consensus pattern (31 bp):
ATATATATATAGTTTTTGAAAATAATATAGT
Found at i:1673361 original size:33 final size:32
Alignment explanation
Indices: 1673319--1673411 Score: 136
Period size: 33 Copynumber: 2.9 Consensus size: 32
1673309 GAAAATATAT
1673319 TATAGTTTTTGAAAATAATATATGTATATATTA
1 TATAGTTTTTGAAAATAATATA-GTATATATTA
* *
1673352 TATAGTTTTTGAAAATAGTATA-AATATATTA
1 TATAGTTTTTGAAAATAATATAGTATATATTA
*
1673383 TATAG-ATTTGAAAATAATATAGTATATAT
1 TATAGTTTTTGAAAATAATATAGTATATAT
1673412 AGTTTTGAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
30 14 0.26
31 19 0.35
33 21 0.39
ACGTcount: A:0.45, C:0.00, G:0.10, T:0.45
Consensus pattern (32 bp):
TATAGTTTTTGAAAATAATATAGTATATATTA
Found at i:1673380 original size:26 final size:25
Alignment explanation
Indices: 1673350--1673508 Score: 84
Period size: 26 Copynumber: 6.2 Consensus size: 25
1673340 ATGTATATAT
1673350 TATATAGTTTTTGAAAATAGTATAAA
1 TATATAGTTTTTGAAAATA-TATAAA
*
1673376 TATATTA-TATAGATTTGAAAATAATATAGTA
1 TATA-TAGT-T---TTTGAAAAT-ATATA-AA
*
1673407 TATATAG-TTTTGAAAACATAT---
1 TATATAGTTTTTGAAAATATATAAA
*
1673428 TATATAGTTTTAGAAACA-ATATTAAA
1 TATATAGTTTTTGAAA-ATATA-TAAA
* * *
1673454 CATATAG-TTTTGAAAACATACT--T
1 TATATAGTTTTTGAAAATATA-TAAA
*
1673477 TATATGGTTTTTGAAAATATTATAAA
1 TATATAGTTTTTGAAAATA-TATAAA
1673503 TATATA
1 TATATA
1673509 TATATGGTCT
Statistics
Matches: 102, Mismatches: 12, Indels: 38
0.67 0.08 0.25
Matches are distributed among these distances:
21 7 0.07
22 10 0.10
23 7 0.07
24 12 0.12
25 17 0.17
26 24 0.24
27 3 0.03
29 1 0.01
30 15 0.15
31 6 0.06
ACGTcount: A:0.45, C:0.03, G:0.09, T:0.42
Consensus pattern (25 bp):
TATATAGTTTTTGAAAATATATAAA
Found at i:1673412 original size:33 final size:33
Alignment explanation
Indices: 1673260--1673412 Score: 134
Period size: 33 Copynumber: 4.5 Consensus size: 33
1673250 GCATAGTCAT
* *
1673260 AAATAAAATA-ATATATATTATATAGTTTTTGA
1 AAATAATATATATATATATTATATAGTATTTGA
* * * *
1673292 AAATAGTATATAGTTTTGAAAATATATTATAGTTTTTGA
1 AAATAATATATA--TAT--ATAT-TA-TATAGTATTTGA
* *
1673331 AAATAATATATGTATATATTATATAGTTTTTGA
1 AAATAATATATATATATATTATATAGTATTTGA
*
1673364 AAATAGTATA-A-ATATATTATATAG-ATTTGA
1 AAATAATATATATATATATTATATAGTATTTGA
1673394 AAATAATATAGTATATATA
1 AAATAATATA-TATATATA
1673413 GTTTTGAAAA
Statistics
Matches: 99, Mismatches: 12, Indels: 19
0.76 0.09 0.15
Matches are distributed among these distances:
30 14 0.14
31 13 0.13
32 9 0.09
33 27 0.27
34 2 0.02
35 5 0.05
37 5 0.05
38 2 0.02
39 22 0.22
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (33 bp):
AAATAATATATATATATATTATATAGTATTTGA
Found at i:1673449 original size:22 final size:21
Alignment explanation
Indices: 1673407--1673500 Score: 77
Period size: 21 Copynumber: 4.2 Consensus size: 21
1673397 TAATATAGTA
1673407 TATATAGTTTTGAAAACATAT
1 TATATAGTTTTGAAAACATAT
1673428 TATATAGTTTT-AGAAACAATAT
1 TATATAGTTTTGA-AAAC-ATAT
1673450 TAAACATATAGTTTTGAAAACATACTT
1 T----ATATAGTTTTGAAAACATA--T
*
1673477 TATATGGTTTTTG-AAA-ATAT
1 TATATAG-TTTTGAAAACATAT
1673497 TATA
1 TATA
1673501 AATATATATA
Statistics
Matches: 62, Mismatches: 1, Indels: 21
0.74 0.01 0.25
Matches are distributed among these distances:
20 6 0.10
21 15 0.24
22 8 0.13
23 8 0.13
24 5 0.08
25 3 0.05
26 14 0.23
27 3 0.05
ACGTcount: A:0.43, C:0.05, G:0.10, T:0.43
Consensus pattern (21 bp):
TATATAGTTTTGAAAACATAT
Found at i:1673508 original size:49 final size:46
Alignment explanation
Indices: 1673377--1673508 Score: 142
Period size: 47 Copynumber: 2.8 Consensus size: 46
1673367 TAGTATAAAT
* *
1673377 ATATTATATAG-ATTTGAAAATAATATAGTATATATAGTTTTGAAAAC
1 ATATTATATAGTTTTTGAAAAT-ATATA-AATATATAGTTTTGAAAAC
* *
1673424 ATATTATATAGTTTTAGAAACA-ATATTAAACATATAGTTTTGAAAAC
1 ATATTATATAGTTTTTGAAA-ATATA-TAAATATATAGTTTTGAAAAC
*
1673471 ATACTTTATATGGTTTTTGAAAATATTATAAATATATA
1 ATA--TTATATAGTTTTTGAAAATA-TATAAATATATA
1673509 TATATGGTCT
Statistics
Matches: 71, Mismatches: 7, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
47 34 0.48
48 9 0.13
49 26 0.37
50 2 0.03
ACGTcount: A:0.45, C:0.04, G:0.09, T:0.42
Consensus pattern (46 bp):
ATATTATATAGTTTTTGAAAATATATAAATATATAGTTTTGAAAAC
Found at i:1679266 original size:13 final size:13
Alignment explanation
Indices: 1679248--1679280 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
1679238 TGGAAGGTTT
1679248 GAAGGTCAAGTGG
1 GAAGGTCAAGTGG
1679261 GAAGGTCAAGTGG
1 GAAGGTCAAGTGG
1679274 GAAGGTC
1 GAAGGTC
1679281 CAATGAAGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.30, C:0.09, G:0.45, T:0.15
Consensus pattern (13 bp):
GAAGGTCAAGTGG
Found at i:1682295 original size:21 final size:19
Alignment explanation
Indices: 1682266--1682323 Score: 55
Period size: 19 Copynumber: 3.0 Consensus size: 19
1682256 TACCTCCTGA
1682266 GGGGG-TATCGGTACCATT
1 GGGGGATATCGGTACCATT
* * *
1682284 GCATGGGATATCGATACCACT
1 G--GGGGATATCGGTACCATT
*
1682305 GGGGGGTATCGGTACCATT
1 GGGGGATATCGGTACCATT
1682324 CGAGCATTTT
Statistics
Matches: 30, Mismatches: 7, Indels: 5
0.71 0.17 0.12
Matches are distributed among these distances:
18 1 0.03
19 14 0.47
20 3 0.10
21 12 0.40
ACGTcount: A:0.21, C:0.19, G:0.34, T:0.26
Consensus pattern (19 bp):
GGGGGATATCGGTACCATT
Found at i:1682320 original size:19 final size:20
Alignment explanation
Indices: 1682248--1682321 Score: 71
Period size: 21 Copynumber: 3.7 Consensus size: 20
1682238 ATATGCCTGA
*
1682248 GGGTAT-GGTACCTCCTGAGG
1 GGGTATCGGTACC-ACTGAGG
* *
1682268 GGGTATCGGTACCATTGCATG
1 GGGTATCGGTACCACTG-AGG
* *
1682289 GGATATCGATACCACTG-GG
1 GGGTATCGGTACCACTGAGG
1682308 GGGTATCGGTACCA
1 GGGTATCGGTACCA
1682322 TTCGAGCATT
Statistics
Matches: 43, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
19 13 0.30
20 8 0.19
21 22 0.51
ACGTcount: A:0.20, C:0.20, G:0.35, T:0.24
Consensus pattern (20 bp):
GGGTATCGGTACCACTGAGG
Found at i:1682382 original size:19 final size:20
Alignment explanation
Indices: 1682358--1682395 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1682348 CCAAAATGTT
*
1682358 TATA-GGGGTATCGGTACCC
1 TATAGGGGGTATCGATACCC
1682377 TATAGGGGGTATCGATACC
1 TATAGGGGGTATCGATACC
1682396 ATACTAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.26
Consensus pattern (20 bp):
TATAGGGGGTATCGATACCC
Found at i:1682585 original size:19 final size:20
Alignment explanation
Indices: 1682561--1682600 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
1682551 AATTTAATCG
* *
1682561 AATATATAAT-TTAAATTTC
1 AATATAAAATCTTAAAATTC
1682580 AATATAAAATCTTAAAATTC
1 AATATAAAATCTTAAAATTC
1682600 A
1 A
1682601 TTAACACTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (20 bp):
AATATAAAATCTTAAAATTC
Found at i:1689719 original size:19 final size:20
Alignment explanation
Indices: 1689695--1689733 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
1689685 CCGTTATATG
1689695 CCTGA-GGGTATCGGTACCT
1 CCTGAGGGGTATCGGTACCT
1689714 CCTGAGGGGGTATCGGTACC
1 CCTGA-GGGGTATCGGTACC
1689734 ATTTCATAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
21 13 0.72
ACGTcount: A:0.15, C:0.26, G:0.36, T:0.23
Consensus pattern (20 bp):
CCTGAGGGGTATCGGTACCT
Found at i:1689836 original size:19 final size:20
Alignment explanation
Indices: 1689812--1689849 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1689802 CCAAAATGTT
*
1689812 TATA-GGGGTATCGGTACCC
1 TATAGGGGGTATCGATACCC
1689831 TATAGGGGGTATCGATACC
1 TATAGGGGGTATCGATACC
1689850 ATACTAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.26
Consensus pattern (20 bp):
TATAGGGGGTATCGATACCC
Found at i:1690039 original size:19 final size:20
Alignment explanation
Indices: 1690015--1690054 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
1690005 AATTTAATCG
* *
1690015 AATATATAAT-TTAAATTTC
1 AATATAAAATCTTAAAATTC
1690034 AATATAAAATCTTAAAATTC
1 AATATAAAATCTTAAAATTC
1690054 A
1 A
1690055 TTAACACTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (20 bp):
AATATAAAATCTTAAAATTC
Found at i:1701282 original size:25 final size:25
Alignment explanation
Indices: 1701254--1701302 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
1701244 AATATATACG
1701254 TATACTTCTTAGTAACTAAAAAAGA
1 TATACTTCTTAGTAACTAAAAAAGA
*
1701279 TATATTTCTTAGTAACTAAAAAAG
1 TATACTTCTTAGTAACTAAAAAAG
1701303 CTGCCTCTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.47, C:0.10, G:0.08, T:0.35
Consensus pattern (25 bp):
TATACTTCTTAGTAACTAAAAAAGA
Found at i:1705190 original size:21 final size:21
Alignment explanation
Indices: 1705164--1705221 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 21
1705154 ATCAGATTGT
1705164 CCAGGGGGTACAGATTCCCCC
1 CCAGGGGGTACAGATTCCCCC
*
1705185 CCAGGGGGAACAGATTCCCCC
1 CCAGGGGGTACAGATTCCCCC
* * *
1705206 CTAGGGTGTACCGATT
1 CCAGGGGGTACAGATT
1705222 TCCCTGTCTA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.21, C:0.33, G:0.29, T:0.17
Consensus pattern (21 bp):
CCAGGGGGTACAGATTCCCCC
Found at i:1707835 original size:30 final size:30
Alignment explanation
Indices: 1707801--1707859 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
1707791 TAAATGAACA
1707801 CAAACATGATACTAAAAACTTAAACAAACC
1 CAAACATGATACTAAAAACTTAAACAAACC
*
1707831 CAAACATGATTCTAAAAACTTAAACAAAC
1 CAAACATGATACTAAAAACTTAAACAAAC
1707860 ATATAAACCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.56, C:0.22, G:0.03, T:0.19
Consensus pattern (30 bp):
CAAACATGATACTAAAAACTTAAACAAACC
Found at i:1710678 original size:55 final size:55
Alignment explanation
Indices: 1710618--1710913 Score: 310
Period size: 55 Copynumber: 5.6 Consensus size: 55
1710608 ACGAGTCCAT
* * * *
1710618 TCCCTATTCTTTCAGGGAGCATAAGACTCGAATAATCTTTAACAAATGTGTCTGC
1 TCCCTATTCATTCAGGGAGTATAAGACTCGAATAATCTTCAACAAACGTGTCTGC
* *
1710673 TCCCTATTCATTCAGGGAGTATAACACT-GAAACAATCTTCAACAAACGTGTCTGC
1 TCCCTATTCATTCAGGGAGTATAAGACTCG-AATAATCTTCAACAAACGTGTCTGC
* * *
1710728 TCCCTATTCGTTCAGGGAGTATAAGACTCGAATAATCTTCAACAAACGGGTCCGC
1 TCCCTATTCATTCAGGGAGTATAAGACTCGAATAATCTTCAACAAACGTGTCTGC
* * * *
1710783 TCCCTATCCCTTCAGAGAGTATAAGACTCG-----TCTTCAATAAACGTGT-TCGC
1 TCCCTATTCATTCAGGGAGTATAAGACTCGAATAATCTTCAACAAACGTGTCT-GC
* * * *
1710833 TCCCTATTCTTTCAGAGAGTATAGGACTCG----ATCTTCAATAAACGTGTC-GC
1 TCCCTATTCATTCAGGGAGTATAAGACTCGAATAATCTTCAACAAACGTGTCTGC
* * *
1710883 TCCCTATTCCTTCAGAGAGTATAGGACTCGA
1 TCCCTATTCATTCAGGGAGTATAAGACTCGA
1710914 TCTTCATAAA
Statistics
Matches: 214, Mismatches: 21, Indels: 16
0.85 0.08 0.06
Matches are distributed among these distances:
50 74 0.35
51 16 0.07
54 1 0.00
55 122 0.57
56 1 0.00
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.29
Consensus pattern (55 bp):
TCCCTATTCATTCAGGGAGTATAAGACTCGAATAATCTTCAACAAACGTGTCTGC
Found at i:1710789 original size:110 final size:105
Alignment explanation
Indices: 1710618--1710919 Score: 346
Period size: 110 Copynumber: 2.9 Consensus size: 105
1710608 ACGAGTCCAT
* * * * *
1710618 TCCCTATTCTTTCAGGGAGCATAAGACTCGAATAATCTTTAACAAATGTGTCTGCTCCCTATTCA
1 TCCCTATTCTTTCAGGGAGTATAAGACTCGAATAATCTTCAACAAACGTGTCCGCTCCCTATTCC
*
1710683 TTCAGGGAGTATAACACTGAAACAATCTTCAACAAACGTG-TCTGC
66 TTCAGAGAGTATAACACT----C-ATCTTCAACAAACGTGTTC-GC
* * *
1710728 TCCCTATTCGTTCAGGGAGTATAAGACTCGAATAATCTTCAACAAACGGGTCCGCTCCCTATCCC
1 TCCCTATTCTTTCAGGGAGTATAAGACTCGAATAATCTTCAACAAACGTGTCCGCTCCCTATTCC
* * *
1710793 TTCAGAGAGTATAAGACTCGTCTTCAATAAACGTGTTCGC
66 TTCAGAGAGTATAACACTCATCTTCAACAAACGTGTTCGC
* * *
1710833 TCCCTATTCTTTCAGAGAGTATAGGACTCG----ATCTTCAATAAACGTGT-CGCTCCCTATTCC
1 TCCCTATTCTTTCAGGGAGTATAAGACTCGAATAATCTTCAACAAACGTGTCCGCTCCCTATTCC
**
1710893 TTCAGAGAGTATAGGACTCGATCTTCA
66 TTCAGAGAGTATAACACTC-ATCTTCA
1710920 TAAAATAAGT
Statistics
Matches: 170, Mismatches: 20, Indels: 13
0.84 0.10 0.06
Matches are distributed among these distances:
100 30 0.18
101 21 0.12
105 43 0.25
106 3 0.02
110 73 0.43
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (105 bp):
TCCCTATTCTTTCAGGGAGTATAAGACTCGAATAATCTTCAACAAACGTGTCCGCTCCCTATTCC
TTCAGAGAGTATAACACTCATCTTCAACAAACGTGTTCGC
Found at i:1710982 original size:37 final size:37
Alignment explanation
Indices: 1710930--1711042 Score: 194
Period size: 37 Copynumber: 3.1 Consensus size: 37
1710920 TAAAATAAGT
1710930 TTGCTTCA-TACTCTTCCGTGAAGGCTTAAGATTGAC
1 TTGCTTCACTACTCTTCCGTGAAGGCTTAAGATTGAC
*
1710966 TTGCTTCACTACTCTTCCGTGAAGGCTTATAGA-TGAT
1 TTGCTTCACTACTCTTCCGTGAAGGCTTA-AGATTGAC
1711003 TTGCTTCACTACTCTTCCGTGAAGGCTTAAGATTGAC
1 TTGCTTCACTACTCTTCCGTGAAGGCTTAAGATTGAC
1711040 TTG
1 TTG
1711043 TTTCGAAGGT
Statistics
Matches: 72, Mismatches: 2, Indels: 5
0.91 0.03 0.06
Matches are distributed among these distances:
36 11 0.15
37 58 0.81
38 3 0.04
ACGTcount: A:0.21, C:0.22, G:0.19, T:0.37
Consensus pattern (37 bp):
TTGCTTCACTACTCTTCCGTGAAGGCTTAAGATTGAC
Found at i:1712328 original size:7 final size:7
Alignment explanation
Indices: 1712312--1712483 Score: 63
Period size: 7 Copynumber: 23.9 Consensus size: 7
1712302 CCTCCTTTTA
1712312 TTTCTTT
1 TTTCTTT
*
1712319 TTCTTTTT
1 TT-TCTTT
1712327 TCTTCTTT
1 T-TTCTTT
1712335 TTTCATTT
1 TTTC-TTT
1712343 TTT-TATT
1 TTTCT-TT
*
1712350 TTTCATT
1 TTTCTTT
*
1712357 TTTCATTCA
1 TTTC-TT-T
*
1712366 TTT-TTC
1 TTTCTTT
*
1712372 ATTCATTTT
1 TTTC--TTT
*
1712381 TTTCATT
1 TTTCTTT
*
1712388 TTTC-AT
1 TTTCTTT
1712394 TTT-T-T
1 TTTCTTT
1712399 TTTCTTT
1 TTTCTTT
1712406 TCTTCATTTT
1 T-TTC--TTT
1712416 TTTCTTT
1 TTTCTTT
*
1712423 CTTCTTT
1 TTTCTTT
*
1712430 TCTCTTT
1 TTTCTTT
*
1712437 TCTCTTT
1 TTTCTTT
1712444 TTT-TTCT
1 TTTCTT-T
1712451 TTTCTCTT
1 TTTCT-TT
1712459 TTT-TTT
1 TTTCTTT
*
1712465 TTT-ATT
1 TTTCTTT
*
1712471 TTTCATT
1 TTTCTTT
1712478 TTTCTT
1 TTTCTT
1712484 CAAGCGAATT
Statistics
Matches: 128, Mismatches: 17, Indels: 40
0.69 0.09 0.22
Matches are distributed among these distances:
5 4 0.03
6 20 0.16
7 62 0.48
8 25 0.20
9 13 0.10
10 4 0.03
ACGTcount: A:0.07, C:0.16, G:0.00, T:0.77
Consensus pattern (7 bp):
TTTCTTT
Found at i:1712332 original size:16 final size:16
Alignment explanation
Indices: 1712313--1712483 Score: 92
Period size: 16 Copynumber: 10.7 Consensus size: 16
1712303 CTCCTTTTAT
1712313 TTCTTTTTCTTTTTTC
1 TTCTTTTTCTTTTTTC
*
1712329 TTCTTTTTTCATTTTT-
1 TTC-TTTTTCTTTTTTC
* *
1712345 TTATTTTTCATTTTTC
1 TTCTTTTTCTTTTTTC
*
1712361 ATTCATTTTTC---ATTC
1 -TTC-TTTTTCTTTTTTC
*
1712376 ATT-TTTTTCATTTTTC
1 -TTCTTTTTCTTTTTTC
1712392 ATT-TTTTT-TTCTTTTC
1 -TTCTTTTTCTT-TTTTC
*
1712408 TTCATTTTT-TTCTTTC
1 TTC-TTTTTCTTTTTTC
*
1712424 TTCTTTTCTCTTTTCTC
1 TTCTTTT-TCTTTTTTC
* *
1712441 TTTTTTTTCTTTTCTC
1 TTCTTTTTCTTTTTTC
*
1712457 TT-TTTTT-TTTTATTT
1 TTCTTTTTCTTTT-TTC
1712472 TTCATTTTTCTT
1 TTC-TTTTTCTT
1712484 CAAGCGAATT
Statistics
Matches: 127, Mismatches: 12, Indels: 30
0.75 0.07 0.18
Matches are distributed among these distances:
13 6 0.05
14 4 0.03
15 33 0.26
16 40 0.31
17 36 0.28
18 8 0.06
ACGTcount: A:0.07, C:0.16, G:0.00, T:0.77
Consensus pattern (16 bp):
TTCTTTTTCTTTTTTC
Found at i:1712386 original size:31 final size:26
Alignment explanation
Indices: 1712316--1712453 Score: 68
Period size: 26 Copynumber: 5.1 Consensus size: 26
1712306 CTTTTATTTC
* * *
1712316 TTTTTCTTTTTTC-TTCTTTTTTCAT
1 TTTTTCATTTTTCATTTTTTTTTCTT
* **
1712341 TTTTTTATTTTTCATTTTTCATTCATT
1 TTTTTCATTTTTCATTTTTTTTTC-TT
**
1712368 TTTCATTCATTTTTTTCATTTTTCATT-TT
1 TTT--TTCA--TTTTTCATTTTTTTTTCTT
*
1712397 TTTTTCTTTTCTTCATTTTTTTCTTTCTT
1 TTTTTCATTT-TTCA-TTTTTT-TTTCTT
*
1712426 CTTTTC-TCTTTTC-TCTTTTTTTTCTT
1 TTTTTCAT-TTTTCAT-TTTTTTTTCTT
1712452 TT
1 TT
1712454 CTCTTTTTTT
Statistics
Matches: 89, Mismatches: 12, Indels: 23
0.72 0.10 0.19
Matches are distributed among these distances:
25 14 0.16
26 19 0.21
27 17 0.19
28 6 0.07
29 17 0.19
31 16 0.18
ACGTcount: A:0.07, C:0.16, G:0.00, T:0.77
Consensus pattern (26 bp):
TTTTTCATTTTTCATTTTTTTTTCTT
Found at i:1712407 original size:47 final size:45
Alignment explanation
Indices: 1712312--1712480 Score: 54
Period size: 47 Copynumber: 3.6 Consensus size: 45
1712302 CCTCCTTTTA
* *
1712312 TTTC-TTTTTCTT-TTTTCTTC-TTTTTTCATTTTTTTATTTTTCATT
1 TTTCTTTTTTTTTCTTTTCTTCATTTTTTCA-T-TCTT-TTTTTCATT
*
1712357 TTTCATTCATTTTTCATTCATTTTTTTCA-TTTTTCATT-TTTTTTTC--T
1 TTTC-TT--TTTTT--TTC-TTTTCTTCATTTTTTCATTCTTTTTTTCATT
**
1712404 TTTCTTCATTTTTTTC-TTTCTTC-TTTTCTCTTTTCTCTTTTTTTTC-TT
1 TTTCTT--TTTTTTTCTTTTCTTCATTTT-T-TCAT-TC-TTTTTTTCATT
*
1712452 TTCTCTTTTTTTTT-TTATTTTTCATTTTT
1 TT-TCTTTTTTTTTCTT-TTCTTCATTTTT
1712481 CTTCAAGCGA
Statistics
Matches: 98, Mismatches: 6, Indels: 37
0.70 0.04 0.26
Matches are distributed among these distances:
42 9 0.09
43 1 0.01
44 5 0.05
45 5 0.05
46 9 0.09
47 22 0.22
48 9 0.09
49 18 0.18
50 2 0.02
51 3 0.03
52 1 0.01
53 14 0.14
ACGTcount: A:0.07, C:0.15, G:0.00, T:0.78
Consensus pattern (45 bp):
TTTCTTTTTTTTTCTTTTCTTCATTTTTTCATTCTTTTTTTCATT
Found at i:1720629 original size:123 final size:123
Alignment explanation
Indices: 1720410--1720655 Score: 474
Period size: 123 Copynumber: 2.0 Consensus size: 123
1720400 AAAGTCTAGC
* *
1720410 TGAAGTTGCTTCTCTACTTTTTCAATTTGATCTGCTCTGCTCTTCTGAATGTCAATCTCCAATCC
1 TGAAGTTGCTTCTCTACTTTTTCAATTCGATCTGCTCTACTCTTCTGAATGTCAATCTCCAATCC
1720475 CTTTTGATACACTTCATCTTCCAGCTTCTGCAAAGTCATTCTCCATTGTCTCCGTTCT
66 CTTTTGATACACTTCATCTTCCAGCTTCTGCAAAGTCATTCTCCATTGTCTCCGTTCT
1720533 TGAAGTTGCTTCTCTACTTTTTCAATTCGATCTGCTCTACTCTTCTGAATGTCAATCTCCAATCC
1 TGAAGTTGCTTCTCTACTTTTTCAATTCGATCTGCTCTACTCTTCTGAATGTCAATCTCCAATCC
1720598 CTTTTGATACACTTCATCTTCCAGCTTCTGCAAAGTCATTCTCCATTGTCTCCGTTCT
66 CTTTTGATACACTTCATCTTCCAGCTTCTGCAAAGTCATTCTCCATTGTCTCCGTTCT
1720656 GCTTTGAAAT
Statistics
Matches: 121, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
123 121 1.00
ACGTcount: A:0.18, C:0.29, G:0.11, T:0.42
Consensus pattern (123 bp):
TGAAGTTGCTTCTCTACTTTTTCAATTCGATCTGCTCTACTCTTCTGAATGTCAATCTCCAATCC
CTTTTGATACACTTCATCTTCCAGCTTCTGCAAAGTCATTCTCCATTGTCTCCGTTCT
Found at i:1722318 original size:46 final size:46
Alignment explanation
Indices: 1722215--1722366 Score: 234
Period size: 46 Copynumber: 3.3 Consensus size: 46
1722205 CCATGCTTTG
* * *
1722215 TTATTCACAAAAATAAATCCTAACTGCATGATATCTAATTCGCATGC
1 TTATTCAAAAAAATAAA-CCTAACCGCATGATATCTAGTTCGCATGC
1722262 TTATTC-AAAAAATAAACCTAACCGCATGATATCTAGTTCGCATGC
1 TTATTCAAAAAAATAAACCTAACCGCATGATATCTAGTTCGCATGC
1722307 TTATTCAAAAAAATAAACCTAACCGCATGATATCTAGTTCGCATGC
1 TTATTCAAAAAAATAAACCTAACCGCATGATATCTAGTTCGCATGC
*
1722353 ATTTATTCGAAAAA
1 --TTATTCAAAAAA
1722367 CAAAAATAAA
Statistics
Matches: 98, Mismatches: 4, Indels: 5
0.92 0.04 0.05
Matches are distributed among these distances:
45 33 0.34
46 48 0.49
47 6 0.06
48 11 0.11
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.30
Consensus pattern (46 bp):
TTATTCAAAAAAATAAACCTAACCGCATGATATCTAGTTCGCATGC
Found at i:1732375 original size:2 final size:2
Alignment explanation
Indices: 1732368--1732402 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
1732358 TAACGAAGAG
* *
1732368 CT CT CT CT CT GT CT CT CT CT CT CT CA CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1732403 AGCCCTCTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.03, C:0.49, G:0.03, T:0.46
Consensus pattern (2 bp):
CT
Found at i:1733364 original size:17 final size:19
Alignment explanation
Indices: 1733330--1733367 Score: 53
Period size: 17 Copynumber: 2.1 Consensus size: 19
1733320 TCACCCAGAA
1733330 GAGAGAAGAGTGGGAAGGG
1 GAGAGAAGAGTGGGAAGGG
*
1733349 GAGAGAA-AG-GGTAAGGG
1 GAGAGAAGAGTGGGAAGGG
1733366 GA
1 GA
1733368 AGCAAATTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 9 0.50
18 2 0.11
19 7 0.39
ACGTcount: A:0.39, C:0.00, G:0.55, T:0.05
Consensus pattern (19 bp):
GAGAGAAGAGTGGGAAGGG
Found at i:1736737 original size:30 final size:30
Alignment explanation
Indices: 1736697--1736753 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
1736687 GAAGCATTTA
* *
1736697 GGGACTAAAAGGGTAATTTTCAAAAGTTTC
1 GGGACCAAAAGGATAATTTTCAAAAGTTTC
1736727 GGGACCAAAAGGATAATTTTCAAAAGT
1 GGGACCAAAAGGATAATTTTCAAAAGT
1736754 CATGTATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.40, C:0.11, G:0.23, T:0.26
Consensus pattern (30 bp):
GGGACCAAAAGGATAATTTTCAAAAGTTTC
Found at i:1737919 original size:20 final size:19
Alignment explanation
Indices: 1737889--1737941 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
1737879 GTTGATGGTC
*
1737889 AATGCTTGAAATTACTGTTAG
1 AATG-TTGAAATTA-TATTAG
1737910 AATGTTGAAATTGATATTAG
1 AATGTTGAAATT-ATATTAG
1737930 AATG-TGAAATTA
1 AATGTTGAAATTA
1737942 GGTCACTTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
18 1 0.03
19 7 0.23
20 17 0.57
21 5 0.17
ACGTcount: A:0.40, C:0.04, G:0.19, T:0.38
Consensus pattern (19 bp):
AATGTTGAAATTATATTAG
Found at i:1738949 original size:18 final size:18
Alignment explanation
Indices: 1738926--1738960 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
1738916 TATGCTTTTT
1738926 TATGCTACTCTT-ATGTTA
1 TATGCTA-TCTTAATGTTA
1738944 TATGCTATCTTAATGTT
1 TATGCTATCTTAATGTT
1738961 TGAAATATGC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.23, C:0.14, G:0.11, T:0.51
Consensus pattern (18 bp):
TATGCTATCTTAATGTTA
Found at i:1739314 original size:26 final size:26
Alignment explanation
Indices: 1739230--1739313 Score: 109
Period size: 26 Copynumber: 3.2 Consensus size: 26
1739220 GAGTCTTGGT
* *
1739230 ATAAATAGCACTTTTGAGTACGAGTG
1 ATAAATAGCACTTTTGAGTGCAAGTG
*
1739256 ATAAATAGCACTTTCGAGTG-AGAGTG
1 ATAAATAGCACTTTTGAGTGCA-AGTG
1739282 ATAAAT-GACACTTTTGAGTGCAAGTG
1 ATAAATAG-CACTTTTGAGTGCAAGTG
1739308 ATAAAT
1 ATAAAT
1739314 GGAACTATAT
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
25 1 0.02
26 49 0.96
27 1 0.02
ACGTcount: A:0.37, C:0.11, G:0.23, T:0.30
Consensus pattern (26 bp):
ATAAATAGCACTTTTGAGTGCAAGTG
Found at i:1745225 original size:13 final size:13
Alignment explanation
Indices: 1745209--1745238 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
1745199 TTTAATTGCG
1745209 AAAATTAAAAATT
1 AAAATTAAAAATT
*
1745222 AAAATTAAAATTT
1 AAAATTAAAAATT
1745235 AAAA
1 AAAA
1745239 CATTCAATTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (13 bp):
AAAATTAAAAATT
Found at i:1747483 original size:84 final size:84
Alignment explanation
Indices: 1747382--1748260 Score: 1185
Period size: 84 Copynumber: 10.5 Consensus size: 84
1747372 TGGTATACCC
* * * *
1747382 TTGAGCTGAATGTAATCGAACTCAAAGGTCTTTTATTGGCAGATAACCCTTCTCGCCTTGAGCTA
1 TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAGCCCTTCTCGCCTTGAGCTA
*
1747447 T-ATAGCAAATGATGTGTCT
66 TGAT-GCAAATGATGTGCCT
* * * *
1747466 TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGAAGATAACCCTTCTCTCCTTTAGCTA
1 TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAGCCCTTCTCGCCTTGAGCTA
*
1747531 T-ACCGCAAATGATGTGCCT
66 TGA-TGCAAATGATGTGCCT
* * *
1747550 TTGAGCTGAGTGTAATTGAACTCGAAGGTATTTTGTTGGCAGATAGTCCTTCTCGCCTTGAGCTA
1 TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAGCCCTTCTCGCCTTGAGCTA
*
1747615 TGCTGCAAATGATGTGCCT
66 TGATGCAAATGATGTGCCT
* * * *
1747634 TTGAGCTGAGTCTAATCGAACTTGAAGGTCTTTTGTTGGCATATAGCCCTTCTCGCCTTAAGCTA
1 TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAGCCCTTCTCGCCTTGAGCTA
1747699 T-ATTGCAAATGATGTGCCT
66 TGA-TGCAAATGATGTGCCT
* *
1747718 TTGAGCTCAGTGTAATTGAACTCGAAGGTCTTTTGTTGGCAGATAGCCCTTCTCGCCTTGAGCTA
1 TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAGCCCTTCTCGCCTTGAGCTA
*
1747783 TGATGCAAATAATGTGCCT
66 TGATGCAAATGATGTGCCT
*
1747802 TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTA
1 TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAGCCCTTCTCGCCTTGAGCTA
*
1747867 TGCTGCAAATGATGTGCCT
66 TGATGCAAATGATGTGCCT
* * *
1747886 TTGAGCTGAGTGTAATTGAACTCGAAGGTCTTTTGTTGGCATATAGCTCTTCTCGCCTTGAGCTA
1 TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAGCCCTTCTCGCCTTGAGCTA
* * *
1747951 TGCTGTAAATAATGTGCCT
66 TGATGCAAATGATGTGCCT
* * * * *
1747970 TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGACAAATTGCCCTTCTTGCCTTGAGTTA
1 TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAGCCCTTCTCGCCTTGAGCTA
* *
1748035 TGCTGCAAATTATGTGCCT
66 TGATGCAAATGATGTGCCT
* * * * * *
1748054 TTGAGCTGAGTGTAATTGAACTCGAATGTATTTTGTTGGTAGATAACCCTTCTTGCCTTGAGCTA
1 TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAGCCCTTCTCGCCTTGAGCTA
*
1748119 T-ACTGCAAATGATGTACCT
66 TGA-TGCAAATGATGTGCCT
* * * *
1748138 TCGAGCTGAGTGTAATCGAACTCGAAGGTC-TTGGTTGACAGATAAG-CCTTCTCGCCTTGAGTT
1 TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGAT-AGCCCTTCTCGCCTTGAGCT
* ** *
1748201 ATGCTATAAATTTGATGTTCCT
65 ATGATGCAAA--TGATGTGCCT
*
1748223 TTGAGCTGAGTGTAATCGAACTCCAAGGTCTTTTGTTG
1 TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTG
1748261 AAGGTGTTTT
Statistics
Matches: 704, Mismatches: 81, Indels: 18
0.88 0.10 0.02
Matches are distributed among these distances:
83 31 0.04
84 629 0.89
85 38 0.05
86 6 0.01
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (84 bp):
TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAGCCCTTCTCGCCTTGAGCTA
TGATGCAAATGATGTGCCT
Found at i:1749183 original size:95 final size:95
Alignment explanation
Indices: 1749007--1749254 Score: 293
Period size: 95 Copynumber: 2.6 Consensus size: 95
1748997 TATAAATCCG
* * * ** *
1749007 GGGCATTTGACCAATTGCTCTAGAGGGACAACTCAATATCGTTGTA-CATATATTATGATCACCT
1 GGGCGTTTAACCAATTGCTCTAGAGGGACAACTC-A-AGC-TT-TATTGTATATTATAATCACCT
1749071 TTATCAGGCTAGCTGAATATTATCCACAAAGCCA
62 TTATCAGGCTAGCTGAATATTATCCACAAAGCCA
** *
1749105 GGGCGTTTAACCAATTGCTCTAGAGGGGTAACTCGAGCTTTATTGTATATTATAATCACCTTTAT
1 GGGCGTTTAACCAATTGCTCTAGAGGGACAACTCAAGCTTTATTGTATATTATAATCACCTTTAT
* * * * * *
1749170 CATGCTAGTTGAATCTTATCCATAAAGTCG
66 CAGGCTAGCTGAATATTATCCACAAAGCCA
* *
1749200 GGGCGTTTAACCAATTGCTTTAGAGGGACGACTCAAGCTTTATTGTATA-TATAAT
1 GGGCGTTTAACCAATTGCTCTAGAGGGACAACTCAAGCTTTATTGTATATTATAAT
1749255 ATTATAATCT
Statistics
Matches: 129, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
94 8 0.06
95 89 0.69
96 2 0.02
98 30 0.23
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (95 bp):
GGGCGTTTAACCAATTGCTCTAGAGGGACAACTCAAGCTTTATTGTATATTATAATCACCTTTAT
CAGGCTAGCTGAATATTATCCACAAAGCCA
Found at i:1758917 original size:25 final size:24
Alignment explanation
Indices: 1758889--1758943 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
1758879 AAATCCCTTA
*
1758889 GATCGATAGTGGTAATCGG-CTGTTT
1 GATCGAT-GTGATAATCGGTC-GTTT
*
1758914 GATCGGATGTGATAGTCGGTCGTTT
1 GATC-GATGTGATAATCGGTCGTTT
1758939 GATCG
1 GATCG
1758944 GCCGTGGCAG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 1 0.04
25 21 0.81
26 4 0.15
ACGTcount: A:0.18, C:0.13, G:0.35, T:0.35
Consensus pattern (24 bp):
GATCGATGTGATAATCGGTCGTTT
Found at i:1761296 original size:218 final size:218
Alignment explanation
Indices: 1760604--1761543 Score: 1650
Period size: 219 Copynumber: 4.3 Consensus size: 218
1760594 GTTGTTAAAA
*
1760604 ATCATGAAATAGGCCACCTTGGACCAACCTAGAATTAATATCCTATGTATTGTTTTAATGACAAT
1 ATCATGAAATAGGCCACCTTGGACCAACCTAGAATTAATATCCTATTTATTGTTTTAATGACAAT
1760669 TATCTCAAATGTCAAATATGGGTAAAATTTTATTTATTTAACGACAATTATGATGGTGTTCTCAC
66 TATCTCAAATGTCAAATATGGGTAAAATTTTATTTATTTAACGACAATTATGATGGTGTTCTCAC
* *
1760734 ATATTTTTTTTGTTAGGTTTTGAATAGCAACCAATTAGTTAAACCTCTTTTCTAACAAATTTGAG
131 ATA-TTTTTTTGTTAGGTTTTGAATAGCAACCAATTAGTTAAACCTCTTTTCTAATAAACTTGAG
*
1760799 GAAGAATCAAATCTATATTATTGT
195 GAAGAATCAGATCTATATTATTGT
*
1760823 ATCATGAAATAGGCCACCTTGGACCAACCTAGAATTAATATCCTATTTATTGTTTTAATGACAGT
1 ATCATGAAATAGGCCACCTTGGACCAACCTAGAATTAATATCCTATTTATTGTTTTAATGACAAT
* *
1760888 TATCTCAAATGT-AGAATATGGGTAAAATTTTATTTATTTAACGAAAATTATGACGGTGTTCTCA
66 TATCTCAAATGTCA-AATATGGGTAAAATTTTATTTATTTAACGACAATTATGATGGTGTTCTCA
*
1760952 CATATTTCTTTTATTAGGTTTTGAATAG-AATCCAATTAGTTAAACCTCTTTTCTAATAAACTTG
130 CATATTT-TTTTGTTAGGTTTTGAATAGCAA-CCAATTAGTTAAACCTCTTTTCTAATAAACTTG
*
1761016 AGGAAGAATCAGATCTATATTATTAT
193 AGGAAGAATCAGATCTATATTATTGT
* * *
1761042 AACATGAAATAGGCCACCTTGGACCAAACAAGAATTAATATCCTATTTATTGTTTTAATGACAAT
1 ATCATGAAATAGGCCACCTTGGACCAACCTAGAATTAATATCCTATTTATTGTTTTAATGACAAT
*
1761107 TATCTCAATTGTCAAATATGGGTAAAATTTTATTTATTTAACGACAATTATGATGGTGTTCTCAC
66 TATCTCAAATGTCAAATATGGGTAAAATTTTATTTATTTAACGACAATTATGATGGTGTTCTCAC
*
1761172 ATATTTTTTTGTTAGGTTTTGAATAGCAACCAATTAGTTAAACCTCTTTTTTAATAAACTTGAGG
131 ATATTTTTTTGTTAGGTTTTGAATAGCAACCAATTAGTTAAACCTCTTTTCTAATAAACTTGAGG
1761237 AAGAATCAGATCTATATTATTGT
196 AAGAATCAGATCTATATTATTGT
*
1761260 ATCATGAAATAGGCCACCTTGGACCAACCTAGAATTAATATCCTATTTATTGTTTGAATGACAAT
1 ATCATGAAATAGGCCACCTTGGACCAACCTAGAATTAATATCCTATTTATTGTTTTAATGACAAT
1761325 TATCTCAAATGTCAAATATGGGTAAAATTTTATTTATTTAACGACAATTATGATGGTGTTCTCAC
66 TATCTCAAATGTCAAATATGGGTAAAATTTTATTTATTTAACGACAATTATGATGGTGTTCTCAC
*
1761390 ATATTTTTTTGTTAGGTTTTGAATATCAACCAATTAGTTAAACCTCTTTTCTAATAAACTTGAGG
131 ATATTTTTTTGTTAGGTTTTGAATAGCAACCAATTAGTTAAACCTCTTTTCTAATAAACTTGAGG
*
1761455 AAGAAACAGATCTATATATTATTGT
196 AAGAATCAGATC--TATATTATTGT
*
1761480 ATCATAAAATAGGCCACCTTGGACCAACCTAGAATTAATATCCTATTTATTGTTTTAATGACAA
1 ATCATGAAATAGGCCACCTTGGACCAACCTAGAATTAATATCCTATTTATTGTTTTAATGACAA
1761544 AAATGGCTGT
Statistics
Matches: 685, Mismatches: 29, Indels: 13
0.94 0.04 0.02
Matches are distributed among these distances:
218 281 0.41
219 330 0.48
220 74 0.11
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.38
Consensus pattern (218 bp):
ATCATGAAATAGGCCACCTTGGACCAACCTAGAATTAATATCCTATTTATTGTTTTAATGACAAT
TATCTCAAATGTCAAATATGGGTAAAATTTTATTTATTTAACGACAATTATGATGGTGTTCTCAC
ATATTTTTTTGTTAGGTTTTGAATAGCAACCAATTAGTTAAACCTCTTTTCTAATAAACTTGAGG
AAGAATCAGATCTATATTATTGT
Found at i:1762116 original size:218 final size:218
Alignment explanation
Indices: 1761731--1763542 Score: 3372
Period size: 218 Copynumber: 8.3 Consensus size: 218
1761721 TGGATGGTCA
*
1761731 TTATTGTTTTAATGACAATTATCTCAAATGTCAAATATGAGTAAAATTTTATTTATTTAACGACA
1 TTATTGTTTTAATGACAATTATCTCAAATGTCAAATATGGGTAAAATTTTATTTATTTAACGACA
* *
1761796 ATTATGATGGCGTTCTCACATATTTTTTTGTCAGGTTTTGAATAGCAACCAATTAGTTAAACCTC
66 ATTATGATGGTGTTCTCACATATTTTTTTGTTAGGTTTTGAATAGCAACCAATTAGTTAAACCTC
* * *
1761861 TTTTTTAATAAACTTGAGGAAGAATCAGATTTATATTATTGTATCATGAAATTGGCCACCTTGGA
131 TTTTCTAATAAACTTGAGGAAGAATCAGATCTATATTATTGTATCATGAAATAGGCCACCTTGGA
*
1761926 CCAACCTAGAATTAGTATCCTAT
196 CCAACCTAGAATTAATATCCTAT
1761949 TTATTGTTTTAATGACAATTATCTCAAATGTCAAATATGGGTAAAATTTTATTTATTTAACGACA
1 TTATTGTTTTAATGACAATTATCTCAAATGTCAAATATGGGTAAAATTTTATTTATTTAACGACA
1762014 ATTATGATGGTGTTCTCACATATTTTTTTGTTAGGTTTTGAATAGCAACCAATTAGTTAAACCTC
66 ATTATGATGGTGTTCTCACATATTTTTTTGTTAGGTTTTGAATAGCAACCAATTAGTTAAACCTC
1762079 TTTTCTAATAAACTTGAGGAAGAATCAGATCTATATTATTGTATCATGAAATAGGCCACCTTGGA
131 TTTTCTAATAAACTTGAGGAAGAATCAGATCTATATTATTGTATCATGAAATAGGCCACCTTGGA
1762144 CCAACCTAGAATTAATATCCTAT
196 CCAACCTAGAATTAATATCCTAT
1762167 TTATTGTTTTAATGACAATTATCTCAAATGTCAAATATGGGTAAAATTTTATTTATTTAACGACA
1 TTATTGTTTTAATGACAATTATCTCAAATGTCAAATATGGGTAAAATTTTATTTATTTAACGACA
*
1762232 ATTATGACGGTGTTCTCACATATTTTTTTGTTAGGTTTTGAATAGCAACCAATTAGTTAAACCTC
66 ATTATGATGGTGTTCTCACATATTTTTTTGTTAGGTTTTGAATAGCAACCAATTAGTTAAACCTC
* * *
1762297 TTTTCTAATAAATTTGAGGAAAAATCAGATCTATATTATTGTATCATGAAATAGGTCACCTTGGA
131 TTTTCTAATAAACTTGAGGAAGAATCAGATCTATATTATTGTATCATGAAATAGGCCACCTTGGA
1762362 CCAACCTAGAATTAATATCCTAT
196 CCAACCTAGAATTAATATCCTAT
*
1762385 TTATTGTTTTATTGACAATTATCTCAAATGTCAAATATGGGTAAAATTTTATTTATTTAACGACA
1 TTATTGTTTTAATGACAATTATCTCAAATGTCAAATATGGGTAAAATTTTATTTATTTAACGACA
1762450 ATTATGATGGTGTTCTCACATATTTTTTTGTTAGGTTTTGAATAGCAACCAATTAGTTAAACCTC
66 ATTATGATGGTGTTCTCACATATTTTTTTGTTAGGTTTTGAATAGCAACCAATTAGTTAAACCTC
1762515 TTTTCTAATAAACTTGAGGAAGAATCAGATCTATATTATTGTATCATGAAATAGGCCACCTTGGA
131 TTTTCTAATAAACTTGAGGAAGAATCAGATCTATATTATTGTATCATGAAATAGGCCACCTTGGA
1762580 CCAACCTAGAATTAATATCCTAT
196 CCAACCTAGAATTAATATCCTAT
* *
1762603 TTATTGTTTTAATGATAATTATCTCAAATGTCAAATATGGGTAAAACTTTATTTATTTAACGACA
1 TTATTGTTTTAATGACAATTATCTCAAATGTCAAATATGGGTAAAATTTTATTTATTTAACGACA
1762668 ATTATGATGGTGTTCTCACATATTTTTTTGTTAGGTTTTGAATAGCAACCAATTAGTTAAACCTC
66 ATTATGATGGTGTTCTCACATATTTTTTTGTTAGGTTTTGAATAGCAACCAATTAGTTAAACCTC
* *
1762733 TTTTCTAATAAACTTGAGGAAGAAACCGATCTATATTATTGTATCATGAAATAGGCCACCTTGGA
131 TTTTCTAATAAACTTGAGGAAGAATCAGATCTATATTATTGTATCATGAAATAGGCCACCTTGGA
1762798 CCAACCTAGAATTAATATCCTAT
196 CCAACCTAGAATTAATATCCTAT
1762821 TTATTGTTTTAATGACAATTATCTCAAATGTCAAATATGGGTAAAATTTTATTTATTTAACGACA
1 TTATTGTTTTAATGACAATTATCTCAAATGTCAAATATGGGTAAAATTTTATTTATTTAACGACA
* * *
1762886 ATTATGATGGTATTCTCACATATTTTTTTATCAGGTTTTGAATAGCAACCAATTAGTTAAACCTC
66 ATTATGATGGTGTTCTCACATATTTTTTTGTTAGGTTTTGAATAGCAACCAATTAGTTAAACCTC
* *
1762951 TTTTTTAATAAACTTGAGGAAGAATCAGATCTATATTATTGTATCATGAAATTGGCCACCTTGGA
131 TTTTCTAATAAACTTGAGGAAGAATCAGATCTATATTATTGTATCATGAAATAGGCCACCTTGGA
1763016 CCAACCTAGAATTAATATCCTAT
196 CCAACCTAGAATTAATATCCTAT
1763039 TTATTGTTTTAATGACAATTATCTCAAATGTCAAATATGGGTAAAATTTTATTTATTTAACGACA
1 TTATTGTTTTAATGACAATTATCTCAAATGTCAAATATGGGTAAAATTTTATTTATTTAACGACA
*
1763104 ATTATGATGGTGTTCTCACATATTTTTTTGTTAGGTTTTGAATAGCAACCAATTAGTTAAACCCC
66 ATTATGATGGTGTTCTCACATATTTTTTTGTTAGGTTTTGAATAGCAACCAATTAGTTAAACCTC
* *
1763169 TTTTCTAATAAACTTGAGGAAGAATCAGATCTATATTATTGTATCATGAAATAGTCCAACTTGGA
131 TTTTCTAATAAACTTGAGGAAGAATCAGATCTATATTATTGTATCATGAAATAGGCCACCTTGGA
1763234 CCAACCTAGAATTAATATCCTAT
196 CCAACCTAGAATTAATATCCTAT
1763257 TTATTGTTTTAATGACAATTATCTCAAATGTCAAATATGGGTAAAATTTTATTTATTTAACGACA
1 TTATTGTTTTAATGACAATTATCTCAAATGTCAAATATGGGTAAAATTTTATTTATTTAACGACA
* * *
1763322 ATTAGGATGGTGTTCTCATATATTGTTTTGTTAGGTTTTGAATAGCAACCAATTAGTTAAACCTC
66 ATTATGATGGTGTTCTCACATATTTTTTTGTTAGGTTTTGAATAGCAACCAATTAGTTAAACCTC
1763387 TTTTCTAATAAACTTGAGGAAGAATCAGATCTATATTATTGTATCATGAAATAGGCCACCTTGGA
131 TTTTCTAATAAACTTGAGGAAGAATCAGATCTATATTATTGTATCATGAAATAGGCCACCTTGGA
1763452 CCAACCTAGAATTAATATCCTAT
196 CCAACCTAGAATTAATATCCTAT
*
1763475 TTATTGTTTTAATGACAATTATCTCAAATGTCAAATATGGGTAAAATTTTATTTATTTAATGACA
1 TTATTGTTTTAATGACAATTATCTCAAATGTCAAATATGGGTAAAATTTTATTTATTTAACGACA
1763540 ATT
66 ATT
1763543 TTTTTGAAAA
Statistics
Matches: 1549, Mismatches: 45, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
218 1549 1.00
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.39
Consensus pattern (218 bp):
TTATTGTTTTAATGACAATTATCTCAAATGTCAAATATGGGTAAAATTTTATTTATTTAACGACA
ATTATGATGGTGTTCTCACATATTTTTTTGTTAGGTTTTGAATAGCAACCAATTAGTTAAACCTC
TTTTCTAATAAACTTGAGGAAGAATCAGATCTATATTATTGTATCATGAAATAGGCCACCTTGGA
CCAACCTAGAATTAATATCCTAT
Found at i:1762582 original size:654 final size:654
Alignment explanation
Indices: 1760604--1763542 Score: 4455
Period size: 654 Copynumber: 4.5 Consensus size: 654
1760594 GTTGTTAAAA
*
1760604 ATCATGAAATAGGCCACCTTGGACCAACCTAGAATTAATATCCTATGTATTGTTTTAATGACAAT
1 ATCATGAAATAGGCCACCTTGGACCAACCTAGAATTAATATCCTATTTATTGTTTTAATGACAAT
1760669 TATCTCAAATGTCAAATATGGGTAAAATTTTATTTATTTAACGACAATTATGATGGTGTTCTCAC
66 TATCTCAAATGTCAAATATGGGTAAAATTTTATTTATTTAACGACAATTATGATGGTGTTCTCAC
* *
1760734 ATATTTTTTTTGTTAGGTTTTGAATAGCAACCAATTAGTTAAACCTCTTTTCTAACAAATTTGAG
131 ATA-TTTTTTTGTTAGGTTTTGAATAGCAACCAATTAGTTAAACCTCTTTTCTAATAAACTTGAG
*
1760799 GAAGAATCAAATCTATATTATTGTATCATGAAATAGGCCACCTTGGACCAACCTAGAATTAATAT
195 GAAGAATCAGATCTATATTATTGTATCATGAAATAGGCCACCTTGGACCAACCTAGAATTAATAT
*
1760864 CCTATTTATTGTTTTAATGACAGTTATCTCAAATGT-AGAATATGGGTAAAATTTTATTTATTTA
260 CCTATTTATTGTTTTAATGACAATTATCTCAAATGTCA-AATATGGGTAAAATTTTATTTATTTA
*
1760928 ACGAAAATTATGACGGTGTTCTCACATATTTCTTTTATTAGGTTTTGAATAG-AATCCAATTAGT
324 ACGACAATTATGACGGTGTTCTCACATATTT-TTTTATTAGGTTTTGAATAGCAA-CCAATTAGT
* * *
1760992 TAAACCTCTTTTCTAATAAACTTGAGGAAGAATCAGATCTATATTATTATAACATGAAATAGGCC
387 TAAACCTCTTTTCTAATAAACTTGAGGAAAAATCAGATCTATATTATTGTATCATGAAATAGGCC
* * *
1761057 ACCTTGGACCAAACAAGAATTAATATCCTATTTATTGTTTTAATGACAATTATCTCAATTGTCAA
452 ACCTTGGACCAACCTAGAATTAATATCCTATTTATTGTTTTAATGACAATTATCTCAAATGTCAA
1761122 ATATGGGTAAAATTTTATTTATTTAACGACAATTATGATGGTGTTCTCACATATTTTTTTGTTAG
517 ATATGGGTAAAATTTTATTTATTTAACGACAATTATGATGGTGTTCTCACATATTTTTTTGTTAG
*
1761187 GTTTTGAATAGCAACCAATTAGTTAAACCTCTTTTTTAATAAACTTGAGGAAGAATCAGATCTAT
582 GTTTTGAATAGCAACCAATTAGTTAAACCTCTTTTCTAATAAACTTGAGGAAGAATCAGATCTAT
1761252 ATTATTGT
647 ATTATTGT
*
1761260 ATCATGAAATAGGCCACCTTGGACCAACCTAGAATTAATATCCTATTTATTGTTTGAATGACAAT
1 ATCATGAAATAGGCCACCTTGGACCAACCTAGAATTAATATCCTATTTATTGTTTTAATGACAAT
1761325 TATCTCAAATGTCAAATATGGGTAAAATTTTATTTATTTAACGACAATTATGATGGTGTTCTCAC
66 TATCTCAAATGTCAAATATGGGTAAAATTTTATTTATTTAACGACAATTATGATGGTGTTCTCAC
*
1761390 ATATTTTTTTGTTAGGTTTTGAATATCAACCAATTAGTTAAACCTCTTTTCTAATAAACTTGAGG
131 ATATTTTTTTGTTAGGTTTTGAATAGCAACCAATTAGTTAAACCTCTTTTCTAATAAACTTGAGG
* *
1761455 AAGAAACAGATCTATATATTATTGTATCATAAAATAGGCCACCTTGGACCAACCTAGAATTAATA
196 AAGAATCAGATC--TATATTATTGTATCATGAAATAGGCCACCTTGGACCAACCTAGAATTAATA
** ** ** *** *** * * **
1761520 TCCTATTTATTGTTTTAATGACAAAAATGGC---TGTC-CCT-TTTTTCCCA-TATATATAGGGT
259 TCCTATTTATTGTTTTAATGACAATTATCTCAAATGTCAAATATGGGTAAAATTTTATTTA-TTT
* ** ** * ** * * * * ** * ** ** ** * *
1761579 AAGGGGGAGGTAAGATAGTAGACTACCCCCA-A------CACCAGATTGAGAGCAGCTTCC-GTA
323 AA-CGACAATTATGACGGT-G--TTCTCACATATTTTTTTATTAGGTTTTGAATAGCAACCAATT
* * ** *** * * * * ** ** ** *
1761636 AG--AGACCTCCGAATTATGAAATGCCCTCCGTGG--GACTC-GATC-CCACGA---CCTCAAG-
384 AGTTAAACCT-C---TTTTCTAATAAACT-TGAGGAAAAATCAGATCTATATTATTGTATCATGA
** * * * * * ** *
1761691 GTTAAG-AACCTTGTG-CTCTACCAATTGAGCTGGATGGT-C-A-TTATTGTTTTAATGACAATT
444 AATAGGCCACCTTG-GAC-CAACC--TAGA-ATTAAT-ATCCTATTTATTGTTTTAATGACAATT
* *
1761751 ATCTCAAATGTCAAATATGAGTAAAATTTTATTTATTTAACGACAATTATGATGGCGTTCTCACA
503 ATCTCAAATGTCAAATATGGGTAAAATTTTATTTATTTAACGACAATTATGATGGTGTTCTCACA
* *
1761816 TATTTTTTTGTCAGGTTTTGAATAGCAACCAATTAGTTAAACCTCTTTTTTAATAAACTTGAGGA
568 TATTTTTTTGTTAGGTTTTGAATAGCAACCAATTAGTTAAACCTCTTTTCTAATAAACTTGAGGA
*
1761881 AGAATCAGATTTATATTATTGT
633 AGAATCAGATCTATATTATTGT
* *
1761903 ATCATGAAATTGGCCACCTTGGACCAACCTAGAATTAGTATCCTATTTATTGTTTTAATGACAAT
1 ATCATGAAATAGGCCACCTTGGACCAACCTAGAATTAATATCCTATTTATTGTTTTAATGACAAT
1761968 TATCTCAAATGTCAAATATGGGTAAAATTTTATTTATTTAACGACAATTATGATGGTGTTCTCAC
66 TATCTCAAATGTCAAATATGGGTAAAATTTTATTTATTTAACGACAATTATGATGGTGTTCTCAC
1762033 ATATTTTTTTGTTAGGTTTTGAATAGCAACCAATTAGTTAAACCTCTTTTCTAATAAACTTGAGG
131 ATATTTTTTTGTTAGGTTTTGAATAGCAACCAATTAGTTAAACCTCTTTTCTAATAAACTTGAGG
1762098 AAGAATCAGATCTATATTATTGTATCATGAAATAGGCCACCTTGGACCAACCTAGAATTAATATC
196 AAGAATCAGATCTATATTATTGTATCATGAAATAGGCCACCTTGGACCAACCTAGAATTAATATC
1762163 CTATTTATTGTTTTAATGACAATTATCTCAAATGTCAAATATGGGTAAAATTTTATTTATTTAAC
261 CTATTTATTGTTTTAATGACAATTATCTCAAATGTCAAATATGGGTAAAATTTTATTTATTTAAC
*
1762228 GACAATTATGACGGTGTTCTCACATATTTTTTTGTTAGGTTTTGAATAGCAACCAATTAGTTAAA
326 GACAATTATGACGGTGTTCTCACATATTTTTTTATTAGGTTTTGAATAGCAACCAATTAGTTAAA
* *
1762293 CCTCTTTTCTAATAAATTTGAGGAAAAATCAGATCTATATTATTGTATCATGAAATAGGTCACCT
391 CCTCTTTTCTAATAAACTTGAGGAAAAATCAGATCTATATTATTGTATCATGAAATAGGCCACCT
*
1762358 TGGACCAACCTAGAATTAATATCCTATTTATTGTTTTATTGACAATTATCTCAAATGTCAAATAT
456 TGGACCAACCTAGAATTAATATCCTATTTATTGTTTTAATGACAATTATCTCAAATGTCAAATAT
1762423 GGGTAAAATTTTATTTATTTAACGACAATTATGATGGTGTTCTCACATATTTTTTTGTTAGGTTT
521 GGGTAAAATTTTATTTATTTAACGACAATTATGATGGTGTTCTCACATATTTTTTTGTTAGGTTT
1762488 TGAATAGCAACCAATTAGTTAAACCTCTTTTCTAATAAACTTGAGGAAGAATCAGATCTATATTA
586 TGAATAGCAACCAATTAGTTAAACCTCTTTTCTAATAAACTTGAGGAAGAATCAGATCTATATTA
1762553 TTGT
651 TTGT
*
1762557 ATCATGAAATAGGCCACCTTGGACCAACCTAGAATTAATATCCTATTTATTGTTTTAATGATAAT
1 ATCATGAAATAGGCCACCTTGGACCAACCTAGAATTAATATCCTATTTATTGTTTTAATGACAAT
*
1762622 TATCTCAAATGTCAAATATGGGTAAAACTTTATTTATTTAACGACAATTATGATGGTGTTCTCAC
66 TATCTCAAATGTCAAATATGGGTAAAATTTTATTTATTTAACGACAATTATGATGGTGTTCTCAC
1762687 ATATTTTTTTGTTAGGTTTTGAATAGCAACCAATTAGTTAAACCTCTTTTCTAATAAACTTGAGG
131 ATATTTTTTTGTTAGGTTTTGAATAGCAACCAATTAGTTAAACCTCTTTTCTAATAAACTTGAGG
* *
1762752 AAGAAACCGATCTATATTATTGTATCATGAAATAGGCCACCTTGGACCAACCTAGAATTAATATC
196 AAGAATCAGATCTATATTATTGTATCATGAAATAGGCCACCTTGGACCAACCTAGAATTAATATC
1762817 CTATTTATTGTTTTAATGACAATTATCTCAAATGTCAAATATGGGTAAAATTTTATTTATTTAAC
261 CTATTTATTGTTTTAATGACAATTATCTCAAATGTCAAATATGGGTAAAATTTTATTTATTTAAC
* * *
1762882 GACAATTATGATGGTATTCTCACATATTTTTTTATCAGGTTTTGAATAGCAACCAATTAGTTAAA
326 GACAATTATGACGGTGTTCTCACATATTTTTTTATTAGGTTTTGAATAGCAACCAATTAGTTAAA
* * *
1762947 CCTCTTTTTTAATAAACTTGAGGAAGAATCAGATCTATATTATTGTATCATGAAATTGGCCACCT
391 CCTCTTTTCTAATAAACTTGAGGAAAAATCAGATCTATATTATTGTATCATGAAATAGGCCACCT
1763012 TGGACCAACCTAGAATTAATATCCTATTTATTGTTTTAATGACAATTATCTCAAATGTCAAATAT
456 TGGACCAACCTAGAATTAATATCCTATTTATTGTTTTAATGACAATTATCTCAAATGTCAAATAT
1763077 GGGTAAAATTTTATTTATTTAACGACAATTATGATGGTGTTCTCACATATTTTTTTGTTAGGTTT
521 GGGTAAAATTTTATTTATTTAACGACAATTATGATGGTGTTCTCACATATTTTTTTGTTAGGTTT
*
1763142 TGAATAGCAACCAATTAGTTAAACCCCTTTTCTAATAAACTTGAGGAAGAATCAGATCTATATTA
586 TGAATAGCAACCAATTAGTTAAACCTCTTTTCTAATAAACTTGAGGAAGAATCAGATCTATATTA
1763207 TTGT
651 TTGT
* *
1763211 ATCATGAAATAGTCCAACTTGGACCAACCTAGAATTAATATCCTATTTATTGTTTTAATGACAAT
1 ATCATGAAATAGGCCACCTTGGACCAACCTAGAATTAATATCCTATTTATTGTTTTAATGACAAT
* *
1763276 TATCTCAAATGTCAAATATGGGTAAAATTTTATTTATTTAACGACAATTAGGATGGTGTTCTCAT
66 TATCTCAAATGTCAAATATGGGTAAAATTTTATTTATTTAACGACAATTATGATGGTGTTCTCAC
*
1763341 ATATTGTTTTGTTAGGTTTTGAATAGCAACCAATTAGTTAAACCTCTTTTCTAATAAACTTGAGG
131 ATATTTTTTTGTTAGGTTTTGAATAGCAACCAATTAGTTAAACCTCTTTTCTAATAAACTTGAGG
1763406 AAGAATCAGATCTATATTATTGTATCATGAAATAGGCCACCTTGGACCAACCTAGAATTAATATC
196 AAGAATCAGATCTATATTATTGTATCATGAAATAGGCCACCTTGGACCAACCTAGAATTAATATC
*
1763471 CTATTTATTGTTTTAATGACAATTATCTCAAATGTCAAATATGGGTAAAATTTTATTTATTTAAT
261 CTATTTATTGTTTTAATGACAATTATCTCAAATGTCAAATATGGGTAAAATTTTATTTATTTAAC
1763536 GACAATT
326 GACAATT
1763543 TTTTTGAAAA
Statistics
Matches: 2043, Mismatches: 191, Indels: 100
0.88 0.08 0.04
Matches are distributed among these distances:
641 84 0.04
642 12 0.01
643 373 0.18
644 8 0.00
645 18 0.01
646 10 0.00
647 16 0.01
648 22 0.01
649 22 0.01
650 10 0.00
651 10 0.00
652 15 0.01
653 13 0.01
654 1133 0.55
655 78 0.04
656 143 0.07
657 76 0.04
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (654 bp):
ATCATGAAATAGGCCACCTTGGACCAACCTAGAATTAATATCCTATTTATTGTTTTAATGACAAT
TATCTCAAATGTCAAATATGGGTAAAATTTTATTTATTTAACGACAATTATGATGGTGTTCTCAC
ATATTTTTTTGTTAGGTTTTGAATAGCAACCAATTAGTTAAACCTCTTTTCTAATAAACTTGAGG
AAGAATCAGATCTATATTATTGTATCATGAAATAGGCCACCTTGGACCAACCTAGAATTAATATC
CTATTTATTGTTTTAATGACAATTATCTCAAATGTCAAATATGGGTAAAATTTTATTTATTTAAC
GACAATTATGACGGTGTTCTCACATATTTTTTTATTAGGTTTTGAATAGCAACCAATTAGTTAAA
CCTCTTTTCTAATAAACTTGAGGAAAAATCAGATCTATATTATTGTATCATGAAATAGGCCACCT
TGGACCAACCTAGAATTAATATCCTATTTATTGTTTTAATGACAATTATCTCAAATGTCAAATAT
GGGTAAAATTTTATTTATTTAACGACAATTATGATGGTGTTCTCACATATTTTTTTGTTAGGTTT
TGAATAGCAACCAATTAGTTAAACCTCTTTTCTAATAAACTTGAGGAAGAATCAGATCTATATTA
TTGT
Found at i:1774089 original size:218 final size:218
Alignment explanation
Indices: 1773517--1774760 Score: 2154
Period size: 217 Copynumber: 5.7 Consensus size: 218
1773507 ATCGATCCAC
* * *
1773517 GTGTACTCACATATTTTTTTTTGTTAGGTTTTAAATAGCAACCAATTAGTTGAACCTCTTTTCTA
1 GTGTTCTCACATA--TTTTTTTGTTAGGTTTTGAATAGCAACCAATTAGTTAAACCTCTTTTCTA
* *
1773582 ATAAACTTGAAGAAGAATCAGATCTATATTATTATATCATGAAATAGGCCACCTTGGACCAACCT
64 ATAAACTTGAGGAAGAATCAGATCTATATTATTGTATCATGAAATAGGCCACCTTGGACCAACCT
* * * *
1773647 AAAATTCATATCCTATTTATTGCTTTAATGACAATTATCTCAAATATCAAATATGGGTAAAATTT
129 AGAATTAATATCCTATTTATTGTTTTAATGACAATTATCTCAAATGTCAAATATGGGTAAAATTT
1773712 TATTTATTTAACGACAATTATGATG
194 TATTTATTTAACGACAATTATGATG
* * * *
1773737 GCGTTCTCATATATTTTTTTTGTTAGGTTTTAAATAGCAACCAATTAGTTAAACCTCTTCTCTAA
1 GTGTTCTCACATA-TTTTTTTGTTAGGTTTTGAATAGCAACCAATTAGTTAAACCTCTTTTCTAA
1773802 TAAACTTGAGGAAGAATCAGATCTATATTATTGTATCATGAAATAGGCCACCTTGGACCAACCTA
65 TAAACTTGAGGAAGAATCAGATCTATATTATTGTATCATGAAATAGGCCACCTTGGACCAACCTA
1773867 GAATTAATATCCTATTTATTGTTTTAATGACAATTATCTCAAATGTCAAATATGGGTAAAATTTT
130 GAATTAATATCCTATTTATTGTTTTAATGACAATTATCTCAAATGTCAAATATGGGTAAAATTTT
1773932 ATTTATTTAACGACAATTATGATG
195 ATTTATTTAACGACAATTATGATG
1773956 GTGTTCTCACATATTTTTTTGTTAGGTTTTGAATAGCAACCAATTAGTTAAACCTCTTTTCTAAT
1 GTGTTCTCACATATTTTTTTGTTAGGTTTTGAATAGCAACCAATTAGTTAAACCTCTTTTCTAAT
* * *
1774021 AAACTTGAGGAAGAATCAGATCTATATTATTGTATCATGAAATAGGCCACCTTTGATCAACTTAG
66 AAACTTGAGGAAGAATCAGATCTATATTATTGTATCATGAAATAGGCCACCTTGGACCAACCTAG
1774086 AATTAATATCCTATTTATTGTTTTAATGACAATTATCTCAAATGTCAAATATGGGTAAAATTTTA
131 AATTAATATCCTATTTATTGTTTTAATGACAATTATCTCAAATGTCAAATATGGGTAAAATTTTA
*
1774151 TTTATTTAATGACAATTATGATG
196 TTTATTTAACGACAATTATGATG
* *
1774174 GTATTCTCAC--ATTTTTTTGTTAGGTTTTGAATAACAACCAATTAGTTAAACCTCTTTTCTAAT
1 GTGTTCTCACATATTTTTTTGTTAGGTTTTGAATAGCAACCAATTAGTTAAACCTCTTTTCTAAT
* * * * *
1774237 AAAGTTTAGGAAGAATCATATCTATATTATTGTATCATGAAATAGGTCACCTTGGAGCAACCTAG
66 AAACTTGAGGAAGAATCAGATCTATATTATTGTATCATGAAATAGGCCACCTTGGACCAACCTAG
1774302 AATTAATATCCTATTTATTGTTTTAATGACAATTATCTCAAATGTCAAATATGGGTAAAATTTTA
131 AATTAATATCCTATTTATTGTTTTAATGACAATTATCTCAAATGTCAAATATGGGTAAAATTTTA
1774367 TTTATTTAACGACAATTATGATG
196 TTTATTTAACGACAATTATGATG
1774390 GTGTTCTCACATA-TTTTTTGTTAGGTTTTGAATAGCAACCAATTAGTTAAACCTCTTTTCTAAT
1 GTGTTCTCACATATTTTTTTGTTAGGTTTTGAATAGCAACCAATTAGTTAAACCTCTTTTCTAAT
*
1774454 AAACTTGAGGAAGAATCAGATCTATATTATTGTATCATGAAATAGGCTACCTTGGACCAACCTAG
66 AAACTTGAGGAAGAATCAGATCTATATTATTGTATCATGAAATAGGCCACCTTGGACCAACCTAG
*
1774519 AATTAATATCGTATTTATTGTTTTAATGACAATTATCTCAAATGTCAAATATGGGTAAAATTTTA
131 AATTAATATCCTATTTATTGTTTTAATGACAATTATCTCAAATGTCAAATATGGGTAAAATTTTA
1774584 TTTATTTAACGACAATTATGATG
196 TTTATTTAACGACAATTATGATG
** *
1774607 GTGTTCTCACAT-TTTTTTTGTTAGGTTTTGAATAGTGACCAGTTAGTTAAACCTCTTTTCTAAT
1 GTGTTCTCACATATTTTTTTGTTAGGTTTTGAATAGCAACCAATTAGTTAAACCTCTTTTCTAAT
* *
1774671 AAACTTGAGGAAGAATCATATCTATATTATTGTATCATGAAATAGGCTACCTTGGACCAACCTAG
66 AAACTTGAGGAAGAATCAGATCTATATTATTGTATCATGAAATAGGCCACCTTGGACCAACCTAG
1774736 AATTAATATCCTATTTATTGTTTTA
131 AATTAATATCCTATTTATTGTTTTA
1774761 GCAGCTTATT
Statistics
Matches: 978, Mismatches: 43, Indels: 9
0.95 0.04 0.01
Matches are distributed among these distances:
216 206 0.21
217 344 0.35
218 209 0.21
219 209 0.21
220 10 0.01
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.40
Consensus pattern (218 bp):
GTGTTCTCACATATTTTTTTGTTAGGTTTTGAATAGCAACCAATTAGTTAAACCTCTTTTCTAAT
AAACTTGAGGAAGAATCAGATCTATATTATTGTATCATGAAATAGGCCACCTTGGACCAACCTAG
AATTAATATCCTATTTATTGTTTTAATGACAATTATCTCAAATGTCAAATATGGGTAAAATTTTA
TTTATTTAACGACAATTATGATG
Found at i:1777761 original size:65 final size:66
Alignment explanation
Indices: 1777574--1777792 Score: 334
Period size: 66 Copynumber: 3.3 Consensus size: 66
1777564 CATAGGTTTA
* * *
1777574 TATCGGCATAAAAGGTGCCACTAATGAAAATTATCGATCAATTTTGATTAATGCATAACGGTGCA
1 TATCGGCATAAAAGGTACCACTAATGAAAATTATCGATCGATTTTGATTAATGCATAATGGTGCA
1777639 T
66 T
* *
1777640 TATCGGCATAAAAGG-AGCCACTAATGAAAATTATCGATCGATTTTAATTAGTGCATAATGGTGC
1 TATCGGCATAAAAGGTA-CCACTAATGAAAATTATCGATCGATTTTGATTAATGCATAATGGTGC
1777704 AT
65 AT
* * *
1777706 CATCAGTATAAAAGGTACCACT-ATGAAAATTATCGATCGATTTTGATTAATGCATAATGGTGCA
1 TATCGGCATAAAAGGTACCACTAATGAAAATTATCGATCGATTTTGATTAATGCATAATGGTGCA
1777770 T
66 T
*
1777771 TATCGGCATAAAAGGTGCCACT
1 TATCGGCATAAAAGGTACCACT
1777793 TATCGTGTTC
Statistics
Matches: 137, Mismatches: 14, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
65 59 0.43
66 77 0.56
67 1 0.01
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.30
Consensus pattern (66 bp):
TATCGGCATAAAAGGTACCACTAATGAAAATTATCGATCGATTTTGATTAATGCATAATGGTGCA
T
Found at i:1783985 original size:20 final size:20
Alignment explanation
Indices: 1783960--1784011 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
1783950 ATACTACTGT
1783960 AGGTATCGATACTAAGAGGA
1 AGGTATCGATACTAAGAGGA
1783980 AGGTATCGATACTAAGAGGA
1 AGGTATCGATACTAAGAGGA
1784000 AGGTATCGATAC
1 AGGTATCGATAC
1784012 CATGGATTCC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.38, C:0.12, G:0.29, T:0.21
Consensus pattern (20 bp):
AGGTATCGATACTAAGAGGA
Found at i:1784348 original size:31 final size:31
Alignment explanation
Indices: 1784313--1784376 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
1784303 TACATCATTA
1784313 CAACATACTAGCGAGGCATATCAGGTGAGTG
1 CAACATACTAGCGAGGCATATCAGGTGAGTG
*
1784344 CAACATACTAGCGAGGCATATCATGTGAGTG
1 CAACATACTAGCGAGGCATATCAGGTGAGTG
1784375 CA
1 CA
1784377 TTTATTGTAC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.33, C:0.20, G:0.27, T:0.20
Consensus pattern (31 bp):
CAACATACTAGCGAGGCATATCAGGTGAGTG
Found at i:1784753 original size:66 final size:66
Alignment explanation
Indices: 1784648--1784863 Score: 333
Period size: 66 Copynumber: 3.3 Consensus size: 66
1784638 GGTTCATATT
* *
1784648 GGCATAAAAGGTGCCACTAATGAAAATTATCGATTAATTTTGATTAATGCATAACGGTGTATTAT
1 GGCATAAAAGGTGCCACTAATGAAAATTATCGATCAATTTTGATTAATGCATAACGGTGCATTAT
*
1784713 T
66 C
* * * * *
1784714 GGCATAAAAGGTTCCACTAATGAAAATTATCTATCAATTTCGATTAATACATAACGATGCATTAT
1 GGCATAAAAGGTGCCACTAATGAAAATTATCGATCAATTTTGATTAATGCATAACGGTGCATTAT
1784779 C
66 C
* * *
1784780 GGCATAAAATGTGCCACTAATGAAAATTATCGATCAATTTTCATTAATGCATAAAGGTGCATTAT
1 GGCATAAAAGGTGCCACTAATGAAAATTATCGATCAATTTTGATTAATGCATAACGGTGCATTAT
1784845 C
66 C
1784846 GGCATAAAAGGTGCCACT
1 GGCATAAAAGGTGCCACT
1784864 CATGGTGTTC
Statistics
Matches: 133, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
66 133 1.00
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.31
Consensus pattern (66 bp):
GGCATAAAAGGTGCCACTAATGAAAATTATCGATCAATTTTGATTAATGCATAACGGTGCATTAT
C
Found at i:1787877 original size:23 final size:23
Alignment explanation
Indices: 1787847--1787975 Score: 181
Period size: 23 Copynumber: 5.7 Consensus size: 23
1787837 GTCGAGGATT
*
1787847 CTATGTGGTTCTTCGGGACAAAC
1 CTATGTGGTCCTTCGGGACAAAC
1787870 CTATGTGGTCCTTCGGGACAAAC
1 CTATGTGGTCCTTCGGGACAAAC
**
1787893 CTATGTGGTCCTTCGGGACAATT
1 CTATGTGGTCCTTCGGGACAAAC
*
1787916 CTATGTGGTCCTTCGGGACAAAA
1 CTATGTGGTCCTTCGGGACAAAC
* *
1787939 CTATGTAGTCTTTCGGGACAAA-
1 CTATGTGGTCCTTCGGGACAAAC
*
1787961 -TATGTGGTACTTCGG
1 CTATGTGGTCCTTCGG
1787976 TGCAAATTAT
Statistics
Matches: 96, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
21 12 0.12
23 84 0.88
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.31
Consensus pattern (23 bp):
CTATGTGGTCCTTCGGGACAAAC
Found at i:1787955 original size:69 final size:67
Alignment explanation
Indices: 1787844--1787975 Score: 201
Period size: 69 Copynumber: 1.9 Consensus size: 67
1787834 AGAGTCGAGG
* * * *
1787844 ATTCTATGTGGTTCTTCGGGACAAACCTATGTGGTCCTTCGGGACAAACCTATGTGGTCCTTCGG
1 ATTCTATGTGGTCCTTCGGGACAAAACTATGTAGTCCTTCGGGACAAA--TATGTGGTACTTCGG
1787909 GACA
64 GACA
*
1787913 ATTCTATGTGGTCCTTCGGGACAAAACTATGTAGTCTTTCGGGACAAATATGTGGTACTTCGG
1 ATTCTATGTGGTCCTTCGGGACAAAACTATGTAGTCCTTCGGGACAAATATGTGGTACTTCGG
1787976 TGCAAATTAT
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
67 14 0.24
69 44 0.76
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.32
Consensus pattern (67 bp):
ATTCTATGTGGTCCTTCGGGACAAAACTATGTAGTCCTTCGGGACAAATATGTGGTACTTCGGGA
CA
Found at i:1790725 original size:40 final size:41
Alignment explanation
Indices: 1790651--1790793 Score: 150
Period size: 40 Copynumber: 3.5 Consensus size: 41
1790641 ATAGTATTCG
**
1790651 AAATATATAATATATAT-TTTCAATAAAACCATATAT-ATTTTA
1 AAATATATAATATATATATTT--A-AAAATTATATATGATTTTA
*
1790693 AAATATATAATATATATATTTAAAAATTATATATGTTTTTA
1 AAATATATAATATATATATTTAAAAATTATATATGATTTTA
* *
1790734 AAAT-TTTAGA-ATATATATTTAAAAATTATATATGTTTTTA
1 AAATATATA-ATATATATATTTAAAAATTATATATGATTTTA
* *
1790774 AAATTTTAGAATATATATAT
1 AAA-TATATAATATATATAT
1790794 ATATATATAT
Statistics
Matches: 89, Mismatches: 6, Indels: 12
0.83 0.06 0.11
Matches are distributed among these distances:
40 46 0.52
41 13 0.15
42 27 0.30
43 3 0.03
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.47
Consensus pattern (41 bp):
AAATATATAATATATATATTTAAAAATTATATATGATTTTA
Found at i:1790747 original size:42 final size:42
Alignment explanation
Indices: 1790688--1790793 Score: 173
Period size: 40 Copynumber: 2.6 Consensus size: 42
1790678 ACCATATATA
* *
1790688 TTTTAAAA-TATATAATATATATATTTAAAAATTATATATGT
1 TTTTAAAATTTTAGAATATATATATTTAAAAATTATATATGT
1790729 TTTTAAAATTTTAG-A-ATATATATTTAAAAATTATATATGT
1 TTTTAAAATTTTAGAATATATATATTTAAAAATTATATATGT
1790769 TTTTAAAATTTTAGAATATATATAT
1 TTTTAAAATTTTAGAATATATATAT
1790794 ATATATATAT
Statistics
Matches: 60, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
40 39 0.65
41 10 0.17
42 11 0.18
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (42 bp):
TTTTAAAATTTTAGAATATATATATTTAAAAATTATATATGT
Found at i:1790748 original size:38 final size:40
Alignment explanation
Indices: 1790704--1790791 Score: 176
Period size: 40 Copynumber: 2.2 Consensus size: 40
1790694 AATATATAAT
1790704 ATATATATTTAAAAATTATATATGTTTTTAAAATTTTAGA
1 ATATATATTTAAAAATTATATATGTTTTTAAAATTTTAGA
1790744 ATATATATTTAAAAATTATATATGTTTTTAAAATTTTAGA
1 ATATATATTTAAAAATTATATATGTTTTTAAAATTTTAGA
1790784 ATATATAT
1 ATATATAT
1790792 ATATATATAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (40 bp):
ATATATATTTAAAAATTATATATGTTTTTAAAATTTTAGA
Found at i:1790791 original size:2 final size:2
Alignment explanation
Indices: 1790784--1790818 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
1790774 AAATTTTAGA
1790784 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1790819 ATAGGAAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1794775 original size:34 final size:35
Alignment explanation
Indices: 1794720--1795020 Score: 116
Period size: 36 Copynumber: 8.1 Consensus size: 35
1794710 AGTCATGTCA
* **
1794720 AGAAAATATCTCGAGTGAGATGAATTTTTTTCTTG
1 AGAAAATATCTCAAGTGAGATGAATTTTTTTCGAG
1794755 AGAAAATAT-TCAAGTGAGATGAAATTTTGTTTCGAG
1 AGAAAATATCTCAAGTGAGATG-AATTTT-TTTCGAG
* * *
1794791 AGAAAACTGTCTCGAA-TGAGACGAATTTTTTT-AAG
1 AGAAAA-TATCTC-AAGTGAGATGAATTTTTTTCGAG
* * *
1794826 AGAAATTGTGATTATGTTTCAAGTGAGATGTGATTCTGTTTCGAG
1 AGAAA-----A-TA--TCTCAAGTGAGATG-AATT-TTTTTCGAG
* ** *
1794871 AGGAAACTATCTCAAGTGAGACAAAAATTGTTTT--A-
1 A-GAAAATATCTCAAGTGAG--ATGAATTTTTTTCGAG
*
1794906 ATGAAAACTATCTAAAGTGAGAT-AATTTTTTTCCGAG
1 A-GAAAA-TATCTCAAGTGAGATGAATTTTTTT-CGAG
* * ** * *
1794943 AGAAACTATCTCGAGTGAGACAAAAATTATTTT-AAG
1 AGAAAATATCTCAAGTGAG--ATGAATTTTTTTCGAG
* *
1794979 -GAAAACTATATCAAGTGAGATGCAATTTTCTTTCAAG
1 AGAAAA-TATCTCAAGTGAGATG-AATTTT-TTTCGAG
1795016 AGAAA
1 AGAAA
1795021 TTGTCTTGAG
Statistics
Matches: 197, Mismatches: 37, Indels: 61
0.67 0.13 0.21
Matches are distributed among these distances:
33 8 0.04
34 13 0.07
35 47 0.24
36 48 0.24
37 13 0.07
38 33 0.17
39 5 0.03
40 5 0.03
41 2 0.01
42 9 0.05
43 3 0.02
44 4 0.02
45 3 0.02
46 4 0.02
ACGTcount: A:0.38, C:0.10, G:0.20, T:0.33
Consensus pattern (35 bp):
AGAAAATATCTCAAGTGAGATGAATTTTTTTCGAG
Found at i:1794924 original size:36 final size:35
Alignment explanation
Indices: 1794874--1794998 Score: 121
Period size: 36 Copynumber: 3.5 Consensus size: 35
1794864 TTTCGAGAGG
*
1794874 AAACTATCTCAAGTGAGACAAAAATTGTTTTAATGA
1 AAACTATCTCAAGTGAGACAAAAATTATTTTAA-GA
* * * *
1794910 AAACTATCTAAAGTGAG---ATAATTTTTTTCCGAGA
1 AAACTATCTCAAGTGAGACAAAAATTATTTT--AAGA
*
1794944 GAAACTATCTCGAGTGAGACAAAAATTATTTTAAGGA
1 -AAACTATCTCAAGTGAGACAAAAATTATTTTAA-GA
*
1794981 AAACTATATCAAGTGAGA
1 AAACTATCTCAAGTGAGA
1794999 TGCAATTTTC
Statistics
Matches: 71, Mismatches: 11, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
33 9 0.13
34 2 0.03
35 16 0.23
36 33 0.46
37 2 0.03
38 9 0.13
ACGTcount: A:0.43, C:0.11, G:0.16, T:0.30
Consensus pattern (35 bp):
AAACTATCTCAAGTGAGACAAAAATTATTTTAAGA
Found at i:1794954 original size:71 final size:71
Alignment explanation
Indices: 1794864--1795073 Score: 262
Period size: 71 Copynumber: 2.9 Consensus size: 71
1794854 TGTGATTCTG
* * *
1794864 TTTCGAGAGGAAACTATCTCAAGTGAGACAAAAATTGTTTTAATGAAAACTATCTAAAGTGAGAT
1 TTTCGAGA-GAAACTATCTCGAGTGAGACAAAAATTGTTTTAAGGAAAACTATCTCAAGTGAGAT
1794929 AATTTT-
65 AATTTTC
* *
1794935 TTTCCGAGAGAAACTATCTCGAGTGAGACAAAAATTATTTTAAGGAAAACTATATCAAGTGAGAT
1 TTT-CGAGAGAAACTATCTCGAGTGAGACAAAAATTGTTTTAAGGAAAACTATCTCAAGTGAGAT
1795000 GCAATTTTC
65 --AATTTTC
* * * * * * *
1795009 TTTCAAGAGAAATTGTCTTGAGTGAGACAAATA-TGTTTTAAGGAAAATTATCTCAATTGAGATA
1 TTTCGAGAGAAACTATCTCGAGTGAGACAAAAATTGTTTTAAGGAAAACTATCTCAAGTGAGATA
1795073 A
66 A
1795074 AATTTTTGTT
Statistics
Matches: 121, Mismatches: 14, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
70 2 0.02
71 54 0.45
72 31 0.26
73 31 0.26
74 3 0.02
ACGTcount: A:0.40, C:0.10, G:0.18, T:0.32
Consensus pattern (71 bp):
TTTCGAGAGAAACTATCTCGAGTGAGACAAAAATTGTTTTAAGGAAAACTATCTCAAGTGAGATA
ATTTTC
Found at i:1798628 original size:10 final size:10
Alignment explanation
Indices: 1798613--1798658 Score: 67
Period size: 10 Copynumber: 4.6 Consensus size: 10
1798603 AGGTTAAAAG
1798613 TAAAAATAAA
1 TAAAAATAAA
1798623 TAAAAATGAAA
1 TAAAAAT-AAA
*
1798634 -CAAAATAAA
1 TAAAAATAAA
1798643 TAAAAATAAA
1 TAAAAATAAA
1798653 TAAAAA
1 TAAAAA
1798659 ATTAAATGCT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
9 3 0.09
10 26 0.81
11 3 0.09
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.17
Consensus pattern (10 bp):
TAAAAATAAA
Found at i:1799849 original size:18 final size:18
Alignment explanation
Indices: 1799826--1799918 Score: 124
Period size: 18 Copynumber: 5.3 Consensus size: 18
1799816 AATTTTTCGT
1799826 TTATTATTATTAAAATTA
1 TTATTATTATTAAAATTA
1799844 TTATTATTATT---ATTA
1 TTATTATTATTAAAATTA
1799859 TTATT-TTATTAAAATTA
1 TTATTATTATTAAAATTA
1799876 TTATTATTATTAAATATTA
1 TTATTATTATTAAA-ATTA
*
1799895 TTATTATATATT-ATATTA
1 TTATTAT-TATTAAAATTA
1799913 TTATTA
1 TTATTA
1799919 AATAATTATT
Statistics
Matches: 68, Mismatches: 1, Indels: 12
0.84 0.01 0.15
Matches are distributed among these distances:
14 5 0.07
15 9 0.13
17 9 0.13
18 29 0.43
19 12 0.18
20 4 0.06
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TTATTATTATTAAAATTA
Found at i:1799927 original size:32 final size:31
Alignment explanation
Indices: 1799827--1799929 Score: 138
Period size: 32 Copynumber: 3.3 Consensus size: 31
1799817 ATTTTTCGTT
*
1799827 TATTATTATTAAAATTATTATTATTATT-AT
1 TATTATTATTAAAATTATTATTATTATTAAA
1799857 TATTATTTTATTAAAATTATTATTATTATTAAA
1 TATTA--TTATTAAAATTATTATTATTATTAAA
*
1799890 TATTATTATTATATATTA-TATTATTATTAAA
1 TATTATTATTA-AAATTATTATTATTATTAAA
1799921 TAATTATTA
1 T-ATTATTA
1799930 CAAGCCCAAA
Statistics
Matches: 66, Mismatches: 2, Indels: 8
0.87 0.03 0.11
Matches are distributed among these distances:
30 5 0.08
31 20 0.30
32 35 0.53
33 6 0.09
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (31 bp):
TATTATTATTAAAATTATTATTATTATTAAA
Found at i:1799929 original size:3 final size:3
Alignment explanation
Indices: 1799826--1799918 Score: 109
Period size: 3 Copynumber: 31.0 Consensus size: 3
1799816 AATTTTTCGT
** **
1799826 TTA TTA TTA TTA AAA TTA TTA TTA TTA TTA TTA TTA TT- TTA TTA AAA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
1799873 TTA TTA TTA TTA TTAA ATA TTA TTA TTA TATA TTA -TA TTA TTA TTA
1 TTA TTA TTA TTA TT-A TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
1799919 AATAATTATT
Statistics
Matches: 76, Mismatches: 10, Indels: 8
0.81 0.11 0.09
Matches are distributed among these distances:
2 4 0.05
3 67 0.88
4 5 0.07
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:1800455 original size:18 final size:19
Alignment explanation
Indices: 1800428--1800471 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
1800418 CAAAAAAAAA
1800428 ACAACAAGCAAC-AACCAC
1 ACAACAAGCAACAAACCAC
* *
1800446 ACAACCAGCAGCAAACCAC
1 ACAACAAGCAACAAACCAC
*
1800465 AAAACAA
1 ACAACAA
1800472 AAAAAAGAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.57, C:0.36, G:0.07, T:0.00
Consensus pattern (19 bp):
ACAACAAGCAACAAACCAC
Found at i:1802239 original size:28 final size:27
Alignment explanation
Indices: 1802208--1802261 Score: 81
Period size: 28 Copynumber: 2.0 Consensus size: 27
1802198 TAATTCTTTC
*
1802208 TTTTCAAAATTTTTATATATACTTATTA
1 TTTTCAAAATATTTATATATA-TTATTA
*
1802236 TTTTCATAATATTTATATATATTATT
1 TTTTCAAAATATTTATATATATTATT
1802262 TCATTTTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 5 0.21
28 19 0.79
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (27 bp):
TTTTCAAAATATTTATATATATTATTA
Found at i:1804647 original size:21 final size:22
Alignment explanation
Indices: 1804602--1804656 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 22
1804592 CATACATGCA
*
1804602 TTTACATTTTGTATCTGTGCAT
1 TTTACATTTTGTATCTGTACAT
*
1804624 TTT-CATTTTGTATTCT-TACTT
1 TTTACATTTTGTA-TCTGTACAT
1804645 TTTACATCTTTG
1 TTTACAT-TTTG
1804657 CATTACACAG
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
21 15 0.54
22 9 0.32
23 4 0.14
ACGTcount: A:0.16, C:0.15, G:0.09, T:0.60
Consensus pattern (22 bp):
TTTACATTTTGTATCTGTACAT
Found at i:1809048 original size:114 final size:114
Alignment explanation
Indices: 1808848--1809181 Score: 560
Period size: 114 Copynumber: 2.9 Consensus size: 114
1808838 CATGTTCTCG
* *
1808848 TAGTAGAAATAAGGAGACCCAATAGCATCTTCTAGAAGTATTCTTTGAGTTATCTGATCTGGTTT
1 TAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTT
* * *
1808913 GGTATGAACCTTAAAACCAATCATTGGGTTTGAAAGATGAATTTGCTCA
66 GGTATGAACCCTAAAACCAATCATTAGATTTGAAAGATGAATTTGCTCA
*
1808962 TAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTT
1 TAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTT
1809027 GGTATGAACCCTAAAACCAATCATTAGATTTGAAAGATGAATTTGCTCA
66 GGTATGAACCCTAAAACCAATCATTAGATTTGAAAGATGAATTTGCTCA
*
1809076 TAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTC
1 TAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTT
* * * * *
1809141 AGTAGGAACCCCAGAACCAATCATTAGAATTGAAAGATGAA
66 GGTATGAACCCTAAAACCAATCATTAGATTTGAAAGATGAA
1809182 CTGCATGATC
Statistics
Matches: 207, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
114 207 1.00
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (114 bp):
TAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTT
GGTATGAACCCTAAAACCAATCATTAGATTTGAAAGATGAATTTGCTCA
Found at i:1811511 original size:22 final size:22
Alignment explanation
Indices: 1811483--1811537 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
1811473 ATCTACACTC
1811483 TTCAAAGATGATAAATTATCTT
1 TTCAAAGATGATAAATTATCTT
* * *
1811505 TTTAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAAATTATCTT
1811527 TTCAAAGATGA
1 TTCAAAGATGA
1811538 AAGCTTTATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (22 bp):
TTCAAAGATGATAAATTATCTT
Found at i:1812021 original size:76 final size:76
Alignment explanation
Indices: 1811922--1812369 Score: 844
Period size: 76 Copynumber: 5.9 Consensus size: 76
1811912 CTATTTCCTA
1811922 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
1811987 AGCCTCAGGGT
66 AGCCTTAGGGT
1811998 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTC-GGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1812062 AGCCTTAGGGT
66 AGCCTTAGGGT
*
1812073 CATCTGTAAGTCCTGCAGTGCATAATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1812138 AGCCTTAGGGT
66 AGCCTTAGGGT
*
1812149 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1812214 AGCCTTAGGGT
66 AGCCTTAGGGT
*
1812225 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCTTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
1812290 AACCTTAGGGT
66 AGCCTTAGGGT
1812301 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1812366 AGCC
66 AGCC
1812370 CTTCAGTGCA
Statistics
Matches: 362, Mismatches: 9, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
75 73 0.20
76 289 0.80
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.34
Consensus pattern (76 bp):
CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGT
Found at i:1812555 original size:15 final size:16
Alignment explanation
Indices: 1812535--1812651 Score: 147
Period size: 15 Copynumber: 7.6 Consensus size: 16
1812525 AATTTTTCGT
1812535 TTATTATTATTA-AAA
1 TTATTATTATTATAAA
1812550 TTATTATTATTATAAA
1 TTATTATTATTATAAA
*
1812566 TT-TTATTATTAT-TA
1 TTATTATTATTATAAA
1812580 TTATTATTATTA-AAA
1 TTATTATTATTATAAA
1812595 TTATTATTATTATTAAA
1 TTATTATTATTA-TAAA
*
1812612 -TATTATTATTATATA
1 TTATTATTATTATAAA
1812627 TTA-TATTATTATTAAA
1 TTATTATTATTA-TAAA
*
1812643 TAATTATTA
1 TTATTATTA
1812652 CAAGCCCAAA
Statistics
Matches: 89, Mismatches: 5, Indels: 14
0.82 0.05 0.13
Matches are distributed among these distances:
14 3 0.03
15 55 0.62
16 23 0.26
17 8 0.09
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TTATTATTATTATAAA
Found at i:1812651 original size:3 final size:3
Alignment explanation
Indices: 1812535--1812640 Score: 117
Period size: 3 Copynumber: 35.0 Consensus size: 3
1812525 AATTTTTCGT
** *
1812535 TTA TTA TTA TTA AAA TTA TTA TTA TTA TAAA TT- TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
** *
1812580 TTA TTA TTA TTA AAA TTA TTA TTA TTA TTAA ATA TTA TTA TTA TATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA T-TA
1812627 TTA -TA TTA TTA TTA
1 TTA TTA TTA TTA TTA
1812641 AATAATTATT
Statistics
Matches: 86, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
2 4 0.05
3 75 0.87
4 7 0.08
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:1817047 original size:22 final size:23
Alignment explanation
Indices: 1817022--1817065 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
1817012 AATTAAGTTT
1817022 TAATCTTA-AAACAATTTCAAAA
1 TAATCTTACAAACAATTTCAAAA
* **
1817044 TAATTTTACAAAGTATTTCAAA
1 TAATCTTACAAACAATTTCAAA
1817066 CCATTTCAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.50, C:0.11, G:0.02, T:0.36
Consensus pattern (23 bp):
TAATCTTACAAACAATTTCAAAA
Found at i:1829913 original size:22 final size:22
Alignment explanation
Indices: 1829887--1829944 Score: 116
Period size: 22 Copynumber: 2.6 Consensus size: 22
1829877 CTCAGAGGGA
1829887 ACCGATTCCCCCCTAAGGGGGT
1 ACCGATTCCCCCCTAAGGGGGT
1829909 ACCGATTCCCCCCTAAGGGGGT
1 ACCGATTCCCCCCTAAGGGGGT
1829931 ACCGATTCCCCCCT
1 ACCGATTCCCCCCT
1829945 GAATGGTTTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.17, C:0.41, G:0.22, T:0.19
Consensus pattern (22 bp):
ACCGATTCCCCCCTAAGGGGGT
Found at i:1837162 original size:24 final size:24
Alignment explanation
Indices: 1837120--1837172 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 24
1837110 GAGTTCTTTC
* *
1837120 TTTTCTTTTCTTTTCAAGTTTTCAT
1 TTTTATTTTATTTTCAAGTTTT-AT
1837145 TTTTATTTTATTTT-AAGTTTTAT
1 TTTTATTTTATTTTCAAGTTTTAT
1837168 TTTTA
1 TTTTA
1837173 AACATTCTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 7 0.27
24 7 0.27
25 12 0.46
ACGTcount: A:0.17, C:0.08, G:0.04, T:0.72
Consensus pattern (24 bp):
TTTTATTTTATTTTCAAGTTTTAT
Found at i:1837173 original size:13 final size:13
Alignment explanation
Indices: 1837125--1837173 Score: 50
Period size: 13 Copynumber: 3.9 Consensus size: 13
1837115 CTTTCTTTTC
* *
1837125 TTTTCTTTTCAAG
1 TTTTATTTTTAAG
1837138 TTTTCATTTTT-A-
1 TTTT-ATTTTTAAG
1837150 TTTTA-TTTTAAG
1 TTTTATTTTTAAG
1837162 TTTTATTTTTAA
1 TTTTATTTTTAA
1837174 ACATTCTATG
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
10 4 0.13
11 2 0.07
12 9 0.30
13 11 0.37
14 4 0.13
ACGTcount: A:0.20, C:0.06, G:0.04, T:0.69
Consensus pattern (13 bp):
TTTTATTTTTAAG
Found at i:1837779 original size:17 final size:17
Alignment explanation
Indices: 1837756--1837797 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
1837746 TATTTTCTTT
1837756 ATTTTTACT-TTAAATC
1 ATTTTTACTATTAAATC
* *
1837772 ACTTTTTATTATTTAATC
1 A-TTTTTACTATTAAATC
1837790 ATTTTTAC
1 ATTTTTAC
1837798 CAAACCCCTC
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
16 1 0.05
17 13 0.62
18 7 0.33
ACGTcount: A:0.29, C:0.12, G:0.00, T:0.60
Consensus pattern (17 bp):
ATTTTTACTATTAAATC
Found at i:1841320 original size:19 final size:20
Alignment explanation
Indices: 1841273--1841330 Score: 57
Period size: 23 Copynumber: 2.8 Consensus size: 20
1841263 TAAATCAGGT
*
1841273 CAAGTAACAGATCGGAATCAGG
1 CAAGTAACAGATCAGAATC--G
1841295 TCAAGTAACAGATCAGAATC-
1 -CAAGTAACAGATCAGAATCG
1841315 CAAGTAA-AGTATCAGA
1 CAAGTAACAG-ATCAGA
1841331 TCAGAATCTA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
18 2 0.06
19 13 0.39
23 18 0.55
ACGTcount: A:0.45, C:0.17, G:0.21, T:0.17
Consensus pattern (20 bp):
CAAGTAACAGATCAGAATCG
Found at i:1841330 original size:24 final size:24
Alignment explanation
Indices: 1841271--1841385 Score: 135
Period size: 24 Copynumber: 4.8 Consensus size: 24
1841261 CATAAATCAG
* * *
1841271 GTCAAGTAACAGATCGGAAT-CAG
1 GTCAAGTATCAGATCAGAATCCAT
* *
1841294 GTCAAGTAACAGATCAGAATCCAA
1 GTCAAGTATCAGATCAGAATCCAT
* *
1841318 GTAAAGTATCAGATCAGAATCTAT
1 GTCAAGTATCAGATCAGAATCCAT
*
1841342 GTC-AGATATCATATCAGAATCCAT
1 GTCAAG-TATCAGATCAGAATCCAT
1841366 GTCAAGTATCAGATCAGAAT
1 GTCAAGTATCAGATCAGAAT
1841386 TCAAATCGAA
Statistics
Matches: 79, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
23 21 0.27
24 56 0.71
25 2 0.03
ACGTcount: A:0.41, C:0.17, G:0.18, T:0.23
Consensus pattern (24 bp):
GTCAAGTATCAGATCAGAATCCAT
Found at i:1845194 original size:172 final size:172
Alignment explanation
Indices: 1844897--1845242 Score: 593
Period size: 172 Copynumber: 2.0 Consensus size: 172
1844887 TGCTCCAGTT
* *
1844897 TCGTGCACATCTTTTTATTAAACGATGCATGTTATCATTACCTTTTAGTAGGCTGAAGCACATTA
1 TCGTGCACATCTTTTTATTAAACGACGCATATTATCATTACCTTTTAGTAGGCTGAAGCACATTA
* * *
1844962 GCCAAACCCTTCAAAACATTTGTCACCTATTCTAAAGCATATACTTGTTGTCGTCCATTCACCTA
66 GCCAAACCCTTCAAAAAATTTGTCACCTATTCTAAAGCATATACTTGTTGCCGCCCATTCACCTA
* *
1845027 TCCCTTTCTTTCTTCTTTTTCATTGATTATAGGCTTCACATA
131 TCCCTTTCTTTCTTCTTTTGCATTGATTATAGGCCTCACATA
* *
1845069 TCGTGCGCATCTTTTTATTAAACGACGCATATTATCATTTCCTTTTAGTAGGCTGAAGCACATTA
1 TCGTGCACATCTTTTTATTAAACGACGCATATTATCATTACCTTTTAGTAGGCTGAAGCACATTA
1845134 GCCAAACCCTTCAAAAAATTTGTCACCTATTCTAAAGCATATACTTGTTGCCGCCCATTCACCTA
66 GCCAAACCCTTCAAAAAATTTGTCACCTATTCTAAAGCATATACTTGTTGCCGCCCATTCACCTA
* *
1845199 TCCCTTTCTTTTTTCTTTTGCGTTGATTATAGGCCTCACATA
131 TCCCTTTCTTTCTTCTTTTGCATTGATTATAGGCCTCACATA
1845241 TC
1 TC
1845243 CTATCTCCCC
Statistics
Matches: 163, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
172 163 1.00
ACGTcount: A:0.25, C:0.25, G:0.12, T:0.39
Consensus pattern (172 bp):
TCGTGCACATCTTTTTATTAAACGACGCATATTATCATTACCTTTTAGTAGGCTGAAGCACATTA
GCCAAACCCTTCAAAAAATTTGTCACCTATTCTAAAGCATATACTTGTTGCCGCCCATTCACCTA
TCCCTTTCTTTCTTCTTTTGCATTGATTATAGGCCTCACATA
Found at i:1847976 original size:77 final size:77
Alignment explanation
Indices: 1847785--1847989 Score: 267
Period size: 76 Copynumber: 2.7 Consensus size: 77
1847775 CCGTTGTACA
* * * * *
1847785 AGGGGGGAATCGGTACCCCCT-TGGGGGGG-ATCGGTTCCCTTCGAGCATACTGGAATTCTCAGA
1 AGGGGGGAATCGGTTCCTCCTATGGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCAGA
*
1847848 GCAAAACTGTTT
66 GCAAAACTATTT
* *
1847860 AGGGGGGAATCGGTTCCTCCTAT-GGGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGG
1 AGGGGGGAATCGGTTCCTCCTATGGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCAGA
1847924 GCCAAAAAC-ATTT
66 G-C-AAAACTATTT
* *
1847937 A-GGGGGAATCGGTTCCTCCTATGGGGGGGAATCGGTTCCCTCTGAGCAATCTG
1 AGGGGGGAATCGGTTCCTCCTATGGGGGGGAATCGGTTCCCTCCGAGCATTCTG
1847990 TAATTTTTGG
Statistics
Matches: 115, Mismatches: 10, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
75 25 0.22
76 52 0.45
77 33 0.29
78 5 0.04
ACGTcount: A:0.20, C:0.23, G:0.33, T:0.24
Consensus pattern (77 bp):
AGGGGGGAATCGGTTCCTCCTATGGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCAGA
GCAAAACTATTT
Found at i:1850624 original size:36 final size:36
Alignment explanation
Indices: 1850550--1850671 Score: 101
Period size: 36 Copynumber: 3.5 Consensus size: 36
1850540 TTAAAAATTG
**
1850550 TTTTTCAAAACCATATAATATATGTTTTCAATTTAA
1 TTTTTCAAAACCATATAATATATGTTTTCAATAAAA
* *
1850586 TTTTTCAAAACTATATGATATAT-TTTTCAAATAAAA
1 TTTTTCAAAACCATATAATATATGTTTTC-AATAAAA
* * * **
1850622 -TTTT--AAACCATATCATACATTTTTTTTA-AAAA
1 TTTTTCAAAACCATATAATATATGTTTTCAATAAAA
*
1850654 TGTTTTAAAAACCATATA
1 T-TTTTCAAAACCATATA
1850672 TCATTCGTTT
Statistics
Matches: 70, Mismatches: 10, Indels: 12
0.76 0.11 0.13
Matches are distributed among these distances:
32 4 0.06
33 14 0.20
34 8 0.11
35 9 0.13
36 35 0.50
ACGTcount: A:0.42, C:0.11, G:0.02, T:0.45
Consensus pattern (36 bp):
TTTTTCAAAACCATATAATATATGTTTTCAATAAAA
Found at i:1850734 original size:35 final size:34
Alignment explanation
Indices: 1850644--1850790 Score: 117
Period size: 35 Copynumber: 4.3 Consensus size: 34
1850634 TCATACATTT
*
1850644 TTTTTAAAAATGTTTTAAAAACCATATATCATTCG
1 TTTTT-AAAATGTTTTAAAAACCATATATTATTCG
* *
1850679 TTTTT-TAAT-TTTAAAAAAAAACCATATATTATTCG
1 TTTTTAAAATGTTT---TAAAAACCATATATTATTCG
* * *
1850714 TTTTTAAAATGGTTTCAAAAACTATATATTATTTG
1 TTTTTAAAAT-GTTTTAAAAACCATATATTATTCG
* *
1850749 -TTTCAAAATTATTTTAAAAACC--ATATTATAT-G
1 TTTTTAAAA-TGTTTTAAAAACCATATATTAT-TCG
1850781 TTTTTAAAAT
1 TTTTTAAAAT
1850791 TATTATTTTA
Statistics
Matches: 91, Mismatches: 12, Indels: 21
0.73 0.10 0.17
Matches are distributed among these distances:
32 12 0.13
33 11 0.12
34 16 0.18
35 46 0.51
36 3 0.03
38 3 0.03
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.46
Consensus pattern (34 bp):
TTTTTAAAATGTTTTAAAAACCATATATTATTCG
Found at i:1850803 original size:36 final size:37
Alignment explanation
Indices: 1850756--1850863 Score: 134
Period size: 36 Copynumber: 2.9 Consensus size: 37
1850746 TTGTTTCAAA
1850756 ATTATTTTAAAAACCATAT-TATATGTTTTTAAAATT
1 ATTATTTTAAAAACCATATATATATGTTTTTAAAATT
* *
1850792 ATTATTTTAAAAACTATATACTATATGTTTTCAAAATT
1 ATTATTTTAAAAACCATATA-TATATGTTTTTAAAATT
*
1850830 A--A-TTTAAAAACCATATACTACATGTTTTTTAAAA
1 ATTATTTTAAAAACCATATA-TATATG-TTTTTAAAA
1850864 CCATTTTATA
Statistics
Matches: 64, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
35 20 0.31
36 27 0.42
38 17 0.27
ACGTcount: A:0.44, C:0.08, G:0.03, T:0.45
Consensus pattern (37 bp):
ATTATTTTAAAAACCATATATATATGTTTTTAAAATT
Found at i:1850837 original size:71 final size:70
Alignment explanation
Indices: 1850730--1850898 Score: 216
Period size: 71 Copynumber: 2.4 Consensus size: 70
1850720 AAATGGTTTC
* * *
1850730 AAAAACTATATATTATTTG-TTTCAAAATTATTTTAAAAACCATAT-TATATGTTTTTAAAATTA
1 AAAAACTATATATTATATGTTTTCAAAATTAATTTAAAAACCATATATACATGTTTTTAAAA--A
**
1850793 TTATTTT
64 CCATTTT
* *
1850800 AAAAACTATATACTATATGTTTTCAAAATTAATTTAAAAACCATATACTACATGTTTTTTAAAAC
1 AAAAACTATATATTATATGTTTTCAAAATTAATTTAAAAACCATATA-TACATGTTTTTAAAAAC
1850865 CATTTT
65 CATTTT
* *
1850871 ATAAACTATATATTATATGTATTCAAAA
1 AAAAACTATATATTATATGTTTTCAAAA
1850899 ACTATATTTT
Statistics
Matches: 86, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
70 17 0.20
71 56 0.65
73 13 0.15
ACGTcount: A:0.44, C:0.09, G:0.03, T:0.44
Consensus pattern (70 bp):
AAAAACTATATATTATATGTTTTCAAAATTAATTTAAAAACCATATATACATGTTTTTAAAAACC
ATTTT
Found at i:1850846 original size:35 final size:35
Alignment explanation
Indices: 1850695--1850898 Score: 157
Period size: 35 Copynumber: 5.8 Consensus size: 35
1850685 AATTTTAAAA
* **
1850695 AAAAACCATATATTAT-TCGTTTTTAAAA-TGGTTT
1 AAAAACCATATATTATAT-GTTTTCAAAATTAATTT
* * *
1850729 CAAAAACTATATATTATTTG-TTTCAAAATTATTTT
1 -AAAAACCATATATTATATGTTTTCAAAATTAATTT
*
1850764 AAAAACC--ATATTATATGTTTTTAAAATTATTATTTT
1 AAAAACCATATATTATATGTTTTCAAAATTA--A-TTT
* *
1850800 AAAAACTATATACTATATGTTTTCAAAATTAATTT
1 AAAAACCATATATTATATGTTTTCAAAATTAATTT
* * * ** *
1850835 AAAAACCATATACTACATGTTTTTTAAAACCATTTT
1 AAAAACCATATATTATATG-TTTTCAAAATTAATTT
* * *
1850871 ATAAACTATATATTATATGTATTCAAAA
1 AAAAACCATATATTATATGTTTTCAAAA
1850899 ACTATATTTT
Statistics
Matches: 137, Mismatches: 23, Indels: 18
0.77 0.13 0.10
Matches are distributed among these distances:
32 9 0.07
33 10 0.07
34 13 0.09
35 47 0.34
36 38 0.28
38 20 0.15
ACGTcount: A:0.43, C:0.09, G:0.04, T:0.44
Consensus pattern (35 bp):
AAAAACCATATATTATATGTTTTCAAAATTAATTT
Found at i:1850900 original size:36 final size:35
Alignment explanation
Indices: 1850730--1850898 Score: 128
Period size: 36 Copynumber: 4.8 Consensus size: 35
1850720 AAATGGTTTC
* * **
1850730 AAAAACTATATATTATTTG-TTTCAAAATTATTTT
1 AAAAACTATATACTATATGTTTTCAAAACCATTTT
* * **
1850764 AAAAACCATAT--TATATGTTTTTAAAATTATTATTTT
1 AAAAACTATATACTATATG-TTTTCAAA--ACCATTTT
** *
1850800 AAAAACTATATACTATATGTTTTCAAAATTAATTT
1 AAAAACTATATACTATATGTTTTCAAAACCATTTT
* * *
1850835 AAAAACCATATACTACATGTTTTTTAAAACCATTTT
1 AAAAACTATATACTATATG-TTTTCAAAACCATTTT
* * *
1850871 ATAAACTATATATTATATGTATTCAAAA
1 AAAAACTATATACTATATGTTTTCAAAA
1850899 ACTATATTTT
Statistics
Matches: 110, Mismatches: 18, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
32 5 0.05
34 16 0.15
35 31 0.28
36 45 0.41
37 7 0.06
38 6 0.05
ACGTcount: A:0.44, C:0.09, G:0.03, T:0.44
Consensus pattern (35 bp):
AAAAACTATATACTATATGTTTTCAAAACCATTTT
Found at i:1852861 original size:32 final size:32
Alignment explanation
Indices: 1852825--1852907 Score: 130
Period size: 32 Copynumber: 2.6 Consensus size: 32
1852815 GCTCATGTGT
* * *
1852825 ATTATCTAAATGCAACATTAACTCTGATATTC
1 ATTATCTAAATGCAACACTAACACTGATATGC
1852857 ATTATCTAAATGCAACACTAACACTGATATGC
1 ATTATCTAAATGCAACACTAACACTGATATGC
*
1852889 ATTATCTGAATGCAACACT
1 ATTATCTAAATGCAACACT
1852908 GATTGTTCTA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 47 1.00
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.33
Consensus pattern (32 bp):
ATTATCTAAATGCAACACTAACACTGATATGC
Found at i:1855466 original size:18 final size:18
Alignment explanation
Indices: 1855445--1855492 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
1855435 AATTAATGGA
1855445 GTAAAAAAATAAAAAAAG
1 GTAAAAAAATAAAAAAAG
*
1855463 GTAAAAGAAAT-TAAAAAG
1 GTAAAA-AAATAAAAAAAG
1855481 G-AATAAAAATAA
1 GTAA-AAAAATAA
1855493 TGTGTACAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
17 6 0.24
18 15 0.60
19 4 0.16
ACGTcount: A:0.73, C:0.00, G:0.12, T:0.15
Consensus pattern (18 bp):
GTAAAAAAATAAAAAAAG
Found at i:1855617 original size:16 final size:16
Alignment explanation
Indices: 1855596--1855654 Score: 52
Period size: 16 Copynumber: 3.7 Consensus size: 16
1855586 ATTAAGAGAA
1855596 AAATAATAGAAAAAAT
1 AAATAATAGAAAAAAT
*
1855612 AAATAA-AGTAAAATAT
1 AAATAATAG-AAAAAAT
*
1855628 AATATATATA-AATAAAT
1 AA-ATA-ATAGAAAAAAT
1855645 AAA-AATAGAA
1 AAATAATAGAA
1855655 TATTAAGAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 11
0.71 0.06 0.22
Matches are distributed among these distances:
14 3 0.09
15 5 0.14
16 15 0.43
17 10 0.29
18 1 0.03
19 1 0.03
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (16 bp):
AAATAATAGAAAAAAT
Found at i:1855640 original size:25 final size:25
Alignment explanation
Indices: 1855610--1855657 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
1855600 AATAGAAAAA
*
1855610 ATAAATAAAGT-AAAATATAATATAT
1 ATAAATAAA-TAAAAATAGAATATAT
1855635 ATAAATAAATAAAAATAGAATAT
1 ATAAATAAATAAAAATAGAATAT
1855658 TAAGAAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 1 0.05
25 20 0.95
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (25 bp):
ATAAATAAATAAAAATAGAATATAT
Found at i:1855696 original size:37 final size:36
Alignment explanation
Indices: 1855628--1855719 Score: 116
Period size: 37 Copynumber: 2.6 Consensus size: 36
1855618 AGTAAAATAT
1855628 AATATATATAAATAAATAAAAATAGAATATTAAGAA
1 AATATATATAAATAAATAAAAATAGAATATTAAGAA
* *
1855664 AATATATATAAA-AACGTATAAAATATAATATTAAGAA
1 AATATATATAAATAA-ATA-AAAATAGAATATTAAGAA
* *
1855701 AAAATATATACAT-AATAAA
1 AATATATATAAATAAATAAA
1855720 TGGAGAAAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
35 4 0.08
36 16 0.33
37 28 0.58
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.28
Consensus pattern (36 bp):
AATATATATAAATAAATAAAAATAGAATATTAAGAA
Found at i:1858307 original size:67 final size:68
Alignment explanation
Indices: 1858163--1858325 Score: 181
Period size: 68 Copynumber: 2.4 Consensus size: 68
1858153 GGAAACGATC
* * * * * *
1858163 TCAAAGATATCTGTTGTTTCATGAAAAACGGTCTTAAGGGAAATAAAATTTTGTTTTAAGGGAAA
1 TCAAAGAT-TTTG-TGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATTTTGTTTTAAGGGAAA
1858228 TAAAT
64 TAAAT
** *
1858233 TTGAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAA-TTTGTTTT-AGGAGAAAT
1 TCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATTTTGTTTTAAGG-GAAAT
1858296 AAAT
65 AAAT
*
1858300 TCAAAGA-TTT-TGTTTCAAGGGAAACT
1 TCAAAGATTTTGTGTTTCAAGAGAAACT
1858326 TGGAAACTGT
Statistics
Matches: 80, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
65 15 0.19
66 6 0.08
67 22 0.28
68 28 0.35
69 3 0.04
70 6 0.08
ACGTcount: A:0.38, C:0.08, G:0.20, T:0.34
Consensus pattern (68 bp):
TCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATTTTGTTTTAAGGGAAATA
AAT
Found at i:1859307 original size:32 final size:32
Alignment explanation
Indices: 1859266--1859383 Score: 134
Period size: 32 Copynumber: 3.8 Consensus size: 32
1859256 TTTGCATCAG
* * *
1859266 GATGTTGAAT-TCCCAAAGATGCCCCAATATTC
1 GATGTTGAATCT-CCAAAAATGCCCCAACATTT
* *
1859298 GATGTTGAATCTCAAAAAATTCCCCAACATTT
1 GATGTTGAATCTCCAAAAATGCCCCAACATTT
*
1859330 GATGTTAAATCT--AAAAATGCCCCAACATTT
1 GATGTTGAATCTCCAAAAATGCCCCAACATTT
* *
1859360 GATGTTGAATCTTCAAAGATGCCC
1 GATGTTGAATCTCCAAAAATGCCC
1859384 TCATTGTTCC
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
30 28 0.38
32 45 0.61
33 1 0.01
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.30
Consensus pattern (32 bp):
GATGTTGAATCTCCAAAAATGCCCCAACATTT
Found at i:1860412 original size:69 final size:69
Alignment explanation
Indices: 1860301--1860435 Score: 243
Period size: 69 Copynumber: 2.0 Consensus size: 69
1860291 TGTCTCTCTC
1860301 TTGATGCTCTATGATCTTCGAGTGAAGTGATTCAGTGATTCGGAAATGATTGTGCTCGATCAATC
1 TTGATGCTCTATGATCTTCGAGTGAAGTGATTCAGTGATTCGGAAATGATTGTGCTCGATCAATC
1860366 TCAT
66 TCAT
* * *
1860370 TTGATGGTCTATGATCTTTGAGTGAAGTGATTCAGTGATTCGGAAATGATTGTGCTTGATCAATC
1 TTGATGCTCTATGATCTTCGAGTGAAGTGATTCAGTGATTCGGAAATGATTGTGCTCGATCAATC
1860435 T
66 T
1860436 TATAGTTTGA
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
69 63 1.00
ACGTcount: A:0.24, C:0.13, G:0.24, T:0.38
Consensus pattern (69 bp):
TTGATGCTCTATGATCTTCGAGTGAAGTGATTCAGTGATTCGGAAATGATTGTGCTCGATCAATC
TCAT
Found at i:1860526 original size:12 final size:12
Alignment explanation
Indices: 1860521--1860561 Score: 75
Period size: 12 Copynumber: 3.5 Consensus size: 12
1860511 TTTTCCTTTG
1860521 TTTTTTTCT-TT
1 TTTTTTTCTCTT
1860532 TTTTTTTCTCTT
1 TTTTTTTCTCTT
1860544 TTTTTTTCTCTT
1 TTTTTTTCTCTT
1860556 TTTTTT
1 TTTTTT
1860562 CTTTTTGTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
11 9 0.31
12 20 0.69
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (12 bp):
TTTTTTTCTCTT
Found at i:1860527 original size:13 final size:12
Alignment explanation
Indices: 1860511--1860561 Score: 61
Period size: 12 Copynumber: 4.2 Consensus size: 12
1860501 TTTTCTTCAA
1860511 TTTTCCTTTGTTT
1 TTTTCCTTT-TTT
1860524 TTTT-CTTTTTT
1 TTTTCCTTTTTT
1860535 TTTT-CTCTTTTT
1 TTTTCCT-TTTTT
1860547 TTTTCTCTTTTTT
1 TTTTC-CTTTTTT
1860560 TT
1 TT
1860562 CTTTTTGTTC
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
11 9 0.26
12 13 0.37
13 11 0.31
14 2 0.06
ACGTcount: A:0.00, C:0.14, G:0.02, T:0.84
Consensus pattern (12 bp):
TTTTCCTTTTTT
Found at i:1860562 original size:11 final size:11
Alignment explanation
Indices: 1860521--1860567 Score: 69
Period size: 11 Copynumber: 4.3 Consensus size: 11
1860511 TTTTCCTTTG
*
1860521 TTTTTTTCTTT
1 TTTTTTTCTCT
1860532 TTTTTTTCTCTT
1 TTTTTTTCTC-T
1860544 TTTTTTTCTCT
1 TTTTTTTCTCT
1860555 TTTTTTTCT-T
1 TTTTTTTCTCT
1860565 TTT
1 TTT
1860568 GTTCTGATTG
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
10 4 0.12
11 19 0.56
12 11 0.32
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (11 bp):
TTTTTTTCTCT
Found at i:1860563 original size:23 final size:22
Alignment explanation
Indices: 1860511--1860567 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 22
1860501 TTTTCTTCAA
* *
1860511 TTTTCCTTTGTTTTTTTCTTTTT
1 TTTTTCTTT-TTTTTTTCTCTTT
1860534 TTTTTCTCTTTTTTTTTCTCTTT
1 TTTTTCT-TTTTTTTTTCTCTTT
1860557 TTTTTCTTTTT
1 TTTTTCTTTTT
1860568 GTTCTGATTG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
22 4 0.13
23 25 0.81
24 2 0.06
ACGTcount: A:0.00, C:0.14, G:0.02, T:0.84
Consensus pattern (22 bp):
TTTTTCTTTTTTTTTTCTCTTT
Found at i:1865095 original size:19 final size:19
Alignment explanation
Indices: 1865073--1865114 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
1865063 AAAACACGTA
*
1865073 AAAAATAATAGAAAAT-AAT
1 AAAAATAA-ACAAAATGAAT
1865092 AAAAATAAACAAAATGAAT
1 AAAAATAAACAAAATGAAT
1865111 AAAA
1 AAAA
1865115 TGTTAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.76, C:0.02, G:0.05, T:0.17
Consensus pattern (19 bp):
AAAAATAAACAAAATGAAT
Found at i:1865188 original size:18 final size:17
Alignment explanation
Indices: 1865156--1865202 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
1865146 AATTAATGGA
1865156 GTAAAAAAATAAAAAAG
1 GTAAAAAAATAAAAAAG
* *
1865173 GTAAAAGAAATTAAAAAT
1 GTAAAA-AAATAAAAAAG
1865191 G-AATAAAAATAA
1 GTAA-AAAAATAA
1865203 TGTGTACACA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
17 13 0.52
18 12 0.48
ACGTcount: A:0.72, C:0.00, G:0.11, T:0.17
Consensus pattern (17 bp):
GTAAAAAAATAAAAAAG
Found at i:1865328 original size:15 final size:13
Alignment explanation
Indices: 1865300--1865324 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1865290 CATGATATTA
1865300 AGAAAAAAATAAT
1 AGAAAAAAATAAT
1865313 AGAAAAAAATAA
1 AGAAAAAAATAA
1865325 AATAAAGTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.00, G:0.08, T:0.12
Consensus pattern (13 bp):
AGAAAAAAATAAT
Found at i:1865382 original size:37 final size:37
Alignment explanation
Indices: 1865341--1865433 Score: 118
Period size: 37 Copynumber: 2.5 Consensus size: 37
1865331 GTAAAAATAT
1865341 AATATATATAAATAAATAAAAAATAGAATATTAAGAA
1 AATATATATAAATAAATAAAAAATAGAATATTAAGAA
* **
1865378 AATATATATAAA-AACATATAAAATTTAATATTAAGAA
1 AATATATATAAATAA-ATAAAAAATAGAATATTAAGAA
* *
1865415 AAAATATATACAT-AATAAA
1 AATATATATAAATAAATAAA
1865434 TGGAGAAAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
36 6 0.12
37 42 0.88
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.29
Consensus pattern (37 bp):
AATATATATAAATAAATAAAAAATAGAATATTAAGAA
Found at i:1865399 original size:39 final size:35
Alignment explanation
Indices: 1865294--1865424 Score: 102
Period size: 37 Copynumber: 3.6 Consensus size: 35
1865284 GATATACATG
* *
1865294 ATATTAAGAAAAAAATAATAGAAAAAAATAAAATA-A
1 ATATTAAG-AAAATAT-ATATAAAAAAATAAAATAGA
** * * *
1865330 AGTAAAAATATAATATATATAAATAAATAAAAAATAGA
1 A-TATTAAGAAAATATATATAAA-AAA-ATAAAATAGA
**
1865368 ATATTAAGAAAATATATATAAAAACATATAAAATTTA
1 ATATTAAGAAAATATATATAAAAA-A-ATAAAATAGA
*
1865405 ATATTAAGAAAAAATATATA
1 ATATTAAGAAAATATATATA
1865425 CATAATAAAT
Statistics
Matches: 75, Mismatches: 15, Indels: 9
0.76 0.15 0.09
Matches are distributed among these distances:
35 6 0.08
36 11 0.15
37 56 0.75
38 2 0.03
ACGTcount: A:0.68, C:0.01, G:0.05, T:0.27
Consensus pattern (35 bp):
ATATTAAGAAAATATATATAAAAAAATAAAATAGA
Found at i:1865505 original size:14 final size:14
Alignment explanation
Indices: 1865475--1865514 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 14
1865465 ATATATAATG
1865475 ATATAAGATATATATA
1 ATATAA-ATA-ATATA
1865491 ATATAAATAATATA
1 ATATAAATAATATA
1865505 ATATAAATAA
1 ATATAAATAA
1865515 AAAAAGGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 15 0.62
15 3 0.12
16 6 0.25
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (14 bp):
ATATAAATAATATA
Found at i:1865567 original size:39 final size:41
Alignment explanation
Indices: 1865481--1865556 Score: 104
Period size: 39 Copynumber: 1.9 Consensus size: 41
1865471 AATGATATAA
* *
1865481 GATATATA-TAATATAAATAATATAATATAAATAAAAAAAG
1 GATATATAGTAATATAAATAAAAAAATATAAATAAAAAAAG
*
1865521 GA-ATATAGTAA-ATAAATAAAAAAATATAATTAAAAA
1 GATATATAGTAATATAAATAAAAAAATATAAATAAAAA
1865557 TATATATATA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
39 27 0.84
40 5 0.16
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (41 bp):
GATATATAGTAATATAAATAAAAAAATATAAATAAAAAAAG
Found at i:1866506 original size:40 final size:40
Alignment explanation
Indices: 1866462--1866538 Score: 93
Period size: 40 Copynumber: 1.9 Consensus size: 40
1866452 AGTCAAATTT
*
1866462 TGCACAATAGTG-TTGAGGTCGAGCTCTGCTCACCTAATAA
1 TGCACAATAGTGCTT-AGGTCGAGCTCTGCCCACCTAATAA
** * *
1866502 TGCACCGTAGTGCTTAGGTCGGGCTTTGCCCACCTAA
1 TGCACAATAGTGCTTAGGTCGAGCTCTGCCCACCTAA
1866539 CTTGTACTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
40 29 0.94
41 2 0.06
ACGTcount: A:0.22, C:0.26, G:0.25, T:0.27
Consensus pattern (40 bp):
TGCACAATAGTGCTTAGGTCGAGCTCTGCCCACCTAATAA
Found at i:1877029 original size:30 final size:30
Alignment explanation
Indices: 1876990--1877060 Score: 101
Period size: 30 Copynumber: 2.4 Consensus size: 30
1876980 GGGTAAAAAC
1876990 ACCT-AACTTTTAAAAATTACACTTTTTG-T
1 ACCTAAACTTTTAAAAATTAC-CTTTTTGAT
*
1877019 ACCTAAACTTTTCAAAATTACCTTTTTGAT
1 ACCTAAACTTTTAAAAATTACCTTTTTGAT
*
1877049 ACCTAAAATTTT
1 ACCTAAACTTTT
1877061 CCAAATTTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
29 11 0.29
30 27 0.71
ACGTcount: A:0.35, C:0.18, G:0.03, T:0.44
Consensus pattern (30 bp):
ACCTAAACTTTTAAAAATTACCTTTTTGAT
Found at i:1878046 original size:4 final size:4
Alignment explanation
Indices: 1878037--1878068 Score: 55
Period size: 4 Copynumber: 7.8 Consensus size: 4
1878027 TCTTGTATTA
1878037 TTAT TTAT TTAT TTAT TTAT TTAT TTAAT TTA
1 TTAT TTAT TTAT TTAT TTAT TTAT TT-AT TTA
1878069 CTTTGTTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (4 bp):
TTAT
Found at i:1890159 original size:14 final size:14
Alignment explanation
Indices: 1890136--1890165 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
1890126 GGTTTTGGGA
1890136 GTCATACTTCCTTT
1 GTCATACTTCCTTT
*
1890150 GTCATTCTTCCTTT
1 GTCATACTTCCTTT
1890164 GT
1 GT
1890166 TTTTAACTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.10, C:0.27, G:0.10, T:0.53
Consensus pattern (14 bp):
GTCATACTTCCTTT
Found at i:1896649 original size:23 final size:23
Alignment explanation
Indices: 1896623--1896666 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
1896613 AATGTTATCA
*
1896623 AAGTTGATTTCATGCTTGAATCG
1 AAGTTGATTTAATGCTTGAATCG
1896646 AAGTTGATTTAATGCTTGAAT
1 AAGTTGATTTAATGCTTGAAT
1896667 TGAATCAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (23 bp):
AAGTTGATTTAATGCTTGAATCG
Found at i:1900316 original size:34 final size:33
Alignment explanation
Indices: 1900142--1900319 Score: 95
Period size: 34 Copynumber: 5.3 Consensus size: 33
1900132 AATATGTTAC
*
1900142 ATTAAAAGATATTTATTATCTATTTAACTTTGAAT
1 ATTAAAAGATA-TTATTATCT-TTTAAATTTGAAT
* *
1900177 ATTAAAATATAATTATATAT-TTTTGAATATTTCAA-
1 ATTAAAAGAT-ATTAT-TATCTTTT-AA-ATTTGAAT
* * *
1900212 ATT-AAA-ATA--A-CATCTATTCAAGTTTGAAT
1 ATTAAAAGATATTATTATCT-TTTAAATTTGAAT
* * *
1900241 AGTAAAAGATGTCTA-TATCTTTTGAATATTTCAA-
1 ATTAAAAGATAT-TATTATCTTTT-AA-ATTTGAAT
* *
1900275 GTCAAAAGATATTATTATCTGTTTAAATTTGAAT
1 ATTAAAAGATATTATTATCT-TTTAAATTTGAAT
1900309 ATTAAAAGATA
1 ATTAAAAGATA
1900320 ACTGGTTATA
Statistics
Matches: 106, Mismatches: 20, Indels: 35
0.66 0.12 0.22
Matches are distributed among these distances:
28 7 0.07
29 5 0.05
30 6 0.06
31 2 0.02
32 1 0.01
33 12 0.11
34 37 0.35
35 27 0.25
36 9 0.08
ACGTcount: A:0.43, C:0.06, G:0.08, T:0.43
Consensus pattern (33 bp):
ATTAAAAGATATTATTATCTTTTAAATTTGAAT
Found at i:1900714 original size:18 final size:19
Alignment explanation
Indices: 1900693--1900728 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1900683 ATTTTCATTT
*
1900693 AATTTTT-ATTTGTTCTAA
1 AATTTTTAATTTCTTCTAA
1900711 AATTTTTAATTTCTTCTA
1 AATTTTTAATTTCTTCTA
1900729 TTTAATTTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.28, C:0.08, G:0.03, T:0.61
Consensus pattern (19 bp):
AATTTTTAATTTCTTCTAA
Found at i:1902429 original size:16 final size:16
Alignment explanation
Indices: 1902408--1902439 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
1902398 AAGTTGCAAC
1902408 ATGTCTATAATTCAAA
1 ATGTCTATAATTCAAA
1902424 ATGTCTATAATTCAAA
1 ATGTCTATAATTCAAA
1902440 CTCAATCTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.12, G:0.06, T:0.38
Consensus pattern (16 bp):
ATGTCTATAATTCAAA
Found at i:1906866 original size:36 final size:35
Alignment explanation
Indices: 1906804--1907063 Score: 293
Period size: 36 Copynumber: 7.3 Consensus size: 35
1906794 AAAAAATCAG
1906804 TTTTTG-AAA-ATATA-T-TATAGTTTTGAAAACGA
1 TTTTTGAAAATATATATTATATAGTTTTGAAAAC-A
1906836 TTTTTGAAAATATATATTATATAGTTTTGAAAACAA
1 TTTTTGAAAATATATATTATATAGTTTTGAAAAC-A
*
1906872 TTTTTGAAAATATATATTATATATTTTTGAAAACGA
1 TTTTTGAAAATATATATTATATAGTTTTGAAAAC-A
1906908 TTTTTGAAAATATAAATATTATATAGTTTTTGAAAACA
1 TTTTTGAAAATAT--ATATTATATAG-TTTTGAAAACA
* *
1906946 -TTTTGAAAATATATATTATCTAATTTTTGAAAACA
1 TTTTTGAAAATATATATTATAT-AGTTTTGAAAACA
*
1906981 -TTTTGAATATATATATAATATATAGTTTTTGAAAACA
1 TTTTTGAA-A-ATATATATTATATAG-TTTTGAAAACA
* *
1907018 -TTTTGAAAATATATATAACATATAGTTTTTAAAA-A
1 TTTTTGAAAATATATAT--TATATAGTTTTGAAAACA
1907053 TATTTTGAAAA
1 T-TTTTGAAAA
1907064 CATACTTTTC
Statistics
Matches: 201, Mismatches: 12, Indels: 25
0.84 0.05 0.11
Matches are distributed among these distances:
32 6 0.03
33 3 0.01
34 5 0.02
35 35 0.17
36 75 0.37
37 56 0.28
38 11 0.05
39 10 0.05
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.45
Consensus pattern (35 bp):
TTTTTGAAAATATATATTATATAGTTTTGAAAACA
Found at i:1907010 original size:37 final size:35
Alignment explanation
Indices: 1906805--1907063 Score: 307
Period size: 37 Copynumber: 7.3 Consensus size: 35
1906795 AAAAATCAGT
1906805 TTTTG-AAA-ATATA-T-TATAG-TTTTGAAAACGA
1 TTTTGAAAATATATATTATATAGTTTTTGAAAAC-A
1906836 TTTTTGAAAATATATATTATATAG-TTTTGAAAACAA
1 -TTTTGAAAATATATATTATATAGTTTTTGAAAAC-A
1906872 TTTTTGAAAATATATATTATATA-TTTTTGAAAACGA
1 -TTTTGAAAATATATATTATATAGTTTTTGAAAAC-A
1906908 TTTTTGAAAATATAAATATTATATAGTTTTTGAAAACA
1 -TTTTGAAAATAT--ATATTATATAGTTTTTGAAAACA
* *
1906946 TTTTGAAAATATATATTATCTAATTTTTGAAAACA
1 TTTTGAAAATATATATTATATAGTTTTTGAAAACA
*
1906981 TTTTGAATATATATATAATATATAGTTTTTGAAAACA
1 TTTTGAA-A-ATATATATTATATAGTTTTTGAAAACA
* * *
1907018 TTTTGAAAATATATATAACATATAGTTTTTAAAAATA
1 TTTTGAAAATATATAT--TATATAGTTTTTGAAAACA
1907055 TTTTGAAAA
1 TTTTGAAAA
1907064 CATACTTTTC
Statistics
Matches: 204, Mismatches: 11, Indels: 19
0.87 0.05 0.08
Matches are distributed among these distances:
32 5 0.02
33 3 0.01
34 5 0.02
35 36 0.18
36 65 0.32
37 68 0.33
38 11 0.05
39 11 0.05
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.45
Consensus pattern (35 bp):
TTTTGAAAATATATATTATATAGTTTTTGAAAACA
Found at i:1909519 original size:86 final size:86
Alignment explanation
Indices: 1909317--1909672 Score: 455
Period size: 86 Copynumber: 4.1 Consensus size: 86
1909307 CCAAATTTAC
* * **
1909317 AGGACATATCAAATTTACAGCATAGCTCAAGGCGAAAAGGGCTAGATGTCAACAAAAAAACCTTC
1 AGGACATATCAAATTTACAGCATAGCTCAAGGAGAGAAGGGCTATCTGTCAAC-AAAAAACCTTC
*
1909382 AAGTTCGATCCCATTCAGCTCA
65 GAGTTCGATCCCATTCAGCTCA
* *
1909404 AGGACATATCAAATTTACAACATAGCTCAAGGAGAGAAGGGTTATCTGTCAACAAAAAACCTTCG
1 AGGACATATCAAATTTACAGCATAGCTCAAGGAGAGAAGGGCTATCTGTCAACAAAAAACCTTCG
* *
1909469 AGTCCGATTCCATTCAGCTCA
66 AGTTCGATCCCATTCAGCTCA
* * * * *
1909490 AGGACATATCAAGTTTACAGCATAACTCAAGGTGAGAAGAGCTATCTGTCAACAAAAACCCTTCG
1 AGGACATATCAAATTTACAGCATAGCTCAAGGAGAGAAGGGCTATCTGTCAACAAAAAACCTTCG
*
1909555 AGTTCGATTCCATTCAGCTCA
66 AGTTCGATCCCATTCAGCTCA
* * * * * * *
1909576 AGTACATATCAAATTTACATCATAGCTCAAGGTA-AGAAGGGTTATTTGTTAACAAAAAACTTTT
1 AGGACATATCAAATTTACAGCATAGCTCAAGG-AGAGAAGGGCTATCTGTCAACAAAAAACCTTC
* *
1909640 GAGTTCGATCCCACTCAACTC-
65 GAGTTCGATCCCATTCAGCTCA
1909661 AGTGACATATCA
1 AG-GACATATCA
1909673 GCCACATGGT
Statistics
Matches: 234, Mismatches: 33, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
85 2 0.01
86 185 0.79
87 47 0.20
ACGTcount: A:0.37, C:0.22, G:0.17, T:0.25
Consensus pattern (86 bp):
AGGACATATCAAATTTACAGCATAGCTCAAGGAGAGAAGGGCTATCTGTCAACAAAAAACCTTCG
AGTTCGATCCCATTCAGCTCA
Found at i:1910343 original size:34 final size:34
Alignment explanation
Indices: 1910283--1910381 Score: 121
Period size: 36 Copynumber: 2.8 Consensus size: 34
1910273 CTTTTTTTAA
1910283 AAAATCGATTTTTG-AAA-ATATATTATAGTTTTG
1 AAAA-CGATTTTTGAAAATATATATTATAGTTTTG
1910316 AAAACGATTTTTGAAAATATATATTATATAGTTTTG
1 AAAACGATTTTTGAAAATATATA-T-TATAGTTTTG
* *
1910352 AAAACTATTTTTAAAAAAATATATATTATA
1 AAAACGATTTTT--GAAAATATATATTATA
1910382 TAGTTTTTAA
Statistics
Matches: 58, Mismatches: 2, Indels: 9
0.84 0.03 0.13
Matches are distributed among these distances:
32 9 0.16
33 7 0.12
34 5 0.09
35 1 0.02
36 25 0.43
37 1 0.02
38 10 0.17
ACGTcount: A:0.45, C:0.03, G:0.08, T:0.43
Consensus pattern (34 bp):
AAAACGATTTTTGAAAATATATATTATAGTTTTG
Found at i:1910353 original size:36 final size:35
Alignment explanation
Indices: 1910290--1910573 Score: 181
Period size: 38 Copynumber: 8.2 Consensus size: 35
1910280 TAAAAAATCG
1910290 ATTTTTG-AAA-ATATA-T-TATAGTTTTGAAAAC
1 ATTTTTGAAAATATATATTATATAGTTTTGAAAAC
1910321 GATTTTTGAAAATATATATTATATAGTTTTGAAAAC
1 -ATTTTTGAAAATATATATTATATAGTTTTGAAAAC
* *
1910357 TATTTTTAAAAAAATATATATTATATAGTTTTTAAAA-
1 -ATTTTT--GAAAATATATATTATATAGTTTTGAAAAC
* *
1910394 A----T----ATATATAATATATAGTTTTTGAAAAT
1 ATTTTTGAAAATATATATTATATAG-TTTTGAAAAC
* *
1910422 ATTTTTATAAAATATATATAATATATAGTTTTTAAAAAAC
1 ATTTTT-GAAAATATATAT--TATATAG-TTTT-GAAAAC
*
1910462 A-TTTTGAAAACATATATAATATATAGTTTTGAAAAC
1 ATTTTTG-AAA-ATATATATTATATAGTTTTGAAAAC
** * *
1910498 ATTTTAAAAACATATATGTAATATATAGTTTTTGAAAAT
1 ATTTTTGAAA-ATATA--TATTATATAG-TTTTGAAAAC
* *
1910537 ATTTTTG-AAA-ATGTA-TATATAG-TTTGAAAAT
1 ATTTTTGAAAATATATATTATATAGTTTTGAAAAC
1910568 ATTTTT
1 ATTTTT
1910574 TATATATTAT
Statistics
Matches: 209, Mismatches: 17, Indels: 53
0.75 0.06 0.19
Matches are distributed among these distances:
26 14 0.07
27 8 0.04
28 1 0.00
31 15 0.07
32 9 0.04
33 10 0.05
34 7 0.03
35 1 0.00
36 39 0.19
37 15 0.07
38 45 0.22
39 33 0.16
40 12 0.06
ACGTcount: A:0.45, C:0.02, G:0.07, T:0.45
Consensus pattern (35 bp):
ATTTTTGAAAATATATATTATATAGTTTTGAAAAC
Found at i:1910380 original size:38 final size:37
Alignment explanation
Indices: 1910306--1910547 Score: 190
Period size: 38 Copynumber: 6.7 Consensus size: 37
1910296 GAAAATATAT
* *
1910306 TATAGTTTTGAAAACGATTTTT--GAAAATATATATTA
1 TATAGTTTTGAAAAC-ATTTTTAAAAAAATATATAATA
1910342 TATAGTTTTGAAAACTATTTTTAAAAAAATATAT-AT-
1 TATAGTTTTGAAAAC-ATTTTTAAAAAAATATATAATA
* *
1910378 TATA----T----A-GTTTTTAAAAATATATATAATA
1 TATAGTTTTGAAAACATTTTTAAAAAAATATATAATA
* *
1910406 TATAGTTTTTGAAAATATTTTTATAAAATATATATAATA
1 TATAG-TTTTGAAAACATTTTTA-AAAAAATATATAATA
* * *
1910445 TATAGTTTTTAAAAAACA-TTTTGAAAACATATATAATA
1 TATAG-TTTT-GAAAACATTTTTAAAAAAATATATAATA
*
1910483 TATAGTTTTGAAAACA-TTTTAAAAACATATATGTAATA
1 TATAGTTTTGAAAACATTTTTAAAAA-A-ATATATAATA
* *
1910521 TATAGTTTTTGAAAATATTTTTGAAAA
1 TATAG-TTTTGAAAACATTTTTAAAAA
1910548 TGTATATATA
Statistics
Matches: 170, Mismatches: 16, Indels: 36
0.77 0.07 0.16
Matches are distributed among these distances:
26 16 0.09
27 2 0.01
28 5 0.03
32 1 0.01
33 1 0.01
36 39 0.23
37 6 0.04
38 48 0.28
39 39 0.23
40 13 0.08
ACGTcount: A:0.46, C:0.02, G:0.07, T:0.44
Consensus pattern (37 bp):
TATAGTTTTGAAAACATTTTTAAAAAAATATATAATA
Found at i:1910431 original size:28 final size:26
Alignment explanation
Indices: 1910359--1910423 Score: 103
Period size: 26 Copynumber: 2.5 Consensus size: 26
1910349 TTGAAAACTA
* *
1910359 TTTTTAAAAAAATATATATTATATAG
1 TTTTTAAAAATATATATAATATATAG
1910385 TTTTTAAAAATATATATAATATATAG
1 TTTTTAAAAATATATATAATATATAG
*
1910411 TTTTTGAAAATAT
1 TTTTTAAAAATAT
1910424 TTTTATAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (26 bp):
TTTTTAAAAATATATATAATATATAG
Found at i:1910436 original size:28 final size:26
Alignment explanation
Indices: 1910359--1910437 Score: 86
Period size: 26 Copynumber: 3.0 Consensus size: 26
1910349 TTGAAAACTA
* **
1910359 TTTTTAAAAAAATATATATTATATAG
1 TTTTTAAAAATATATATAAAATATAG
*
1910385 TTTTTAAAAATATATATAATATATAG
1 TTTTTAAAAATATATATAAAATATAG
* *
1910411 TTTTTGAAAATATTTTTATAAAATATA
1 TTTTT-AAAA-ATATATATAAAATATA
1910438 TATAATATAT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
26 29 0.63
27 4 0.09
28 13 0.28
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (26 bp):
TTTTTAAAAATATATATAAAATATAG
Found at i:1910451 original size:65 final size:62
Alignment explanation
Indices: 1910323--1910459 Score: 204
Period size: 65 Copynumber: 2.2 Consensus size: 62
1910313 TTGAAAACGA
* *
1910323 TTTTTGAAAATATATATTATATAGTTTTGAAAACTATTTTTAAAAAAATATATATTATATAG
1 TTTTTAAAAATATATATTATATAGTTTTGAAAACTATTTTTAAAAAAATATATAATATATAG
*
1910385 TTTTTAAAAATATATATAATATATAGTTTTTGAAAA-TATTTTTATAAAATATATATAATATATA
1 TTTTTAAAAATATATAT--TATATAG-TTTTGAAAACTATTTTTA-AAAAAATATATAATATATA
1910449 G
62 G
1910450 TTTTTAAAAA
1 TTTTTAAAAA
1910460 ACATTTTGAA
Statistics
Matches: 68, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
62 16 0.24
64 15 0.22
65 37 0.54
ACGTcount: A:0.47, C:0.01, G:0.05, T:0.47
Consensus pattern (62 bp):
TTTTTAAAAATATATATTATATAGTTTTGAAAACTATTTTTAAAAAAATATATAATATATAG
Found at i:1910453 original size:103 final size:100
Alignment explanation
Indices: 1910306--1910496 Score: 235
Period size: 103 Copynumber: 1.9 Consensus size: 100
1910296 GAAAATATAT
* *
1910306 TATAGTTTTGAAAACGATTTTTGAAAATATATATTATATAG-TTTT-GAAAACTATTTTTAAAAA
1 TATAGTTTTGAAAACGATTTTTGAAAATATATATAATATAGTTTTTAAAAAAC-A-TTTTAAAAA
* *
1910369 AATATATATTATATAGTTTTTAAAAATATATATAATA
64 AATATATAATATATAGTTTTGAAAAATATATATAATA
* * *
1910406 TATAGTTTTTGAAAA-TATTTTTATAAAATATATATAATATATAGTTTTTAAAAAACATTTTGAA
1 TATAG-TTTTGAAAACGATTTTT-GAAAATATATAT-A-ATATAGTTTTTAAAAAACATTTTAAA
*
1910470 AACATATATAATATATAGTTTTGAAAA
62 AAAATATATAATATATAGTTTTGAAAA
1910497 CATTTTAAAA
Statistics
Matches: 77, Mismatches: 8, Indels: 9
0.82 0.09 0.10
Matches are distributed among these distances:
100 11 0.14
101 20 0.26
103 36 0.47
104 5 0.06
105 5 0.06
ACGTcount: A:0.47, C:0.02, G:0.07, T:0.45
Consensus pattern (100 bp):
TATAGTTTTGAAAACGATTTTTGAAAATATATATAATATAGTTTTTAAAAAACATTTTAAAAAAA
TATATAATATATAGTTTTGAAAAATATATATAATA
Done.