Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008209.1 Hibiscus syriacus cultivar Beakdansim tig00110831_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: 6561538
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 30
Found at i:1423793 original size:30 final size:30
Alignment explanation
Indices: 1423723--1423798 Score: 75
Period size: 30 Copynumber: 2.5 Consensus size: 30
1423713 TTATTTGTAA
* *
1423723 TTACTGTTTAGACCTTCAAATGTCTGTTTT
1 TTACTGTTTAGCCCTTCAAATGTCTATTTT
* *
1423753 TATTCT-TTTAGCCCTGT-AAATTTCTATTTT
1 T-TACTGTTTAGCCCT-TCAAATGTCTATTTT
1423783 TTACTGTTTAGTCCCT
1 TTACTGTTTAG-CCCT
1423799 AAGTTTTGTT
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
29 3 0.08
30 26 0.70
31 8 0.22
ACGTcount: A:0.18, C:0.18, G:0.11, T:0.53
Consensus pattern (30 bp):
TTACTGTTTAGCCCTTCAAATGTCTATTTT
Found at i:1430765 original size:80 final size:80
Alignment explanation
Indices: 1430632--1430791 Score: 293
Period size: 80 Copynumber: 2.0 Consensus size: 80
1430622 GGGACCATTC
* *
1430632 CGCCACTTGGTACGAATGAATATAAGTATTTCATCTCTGAATTTCTCCTTAAAGTAATATTAAAT
1 CGCCACTTGGTACAAATGAATATAAGTATTCCATCTCTGAATTTCTCCTTAAAGTAATATTAAAT
*
1430697 GTTTGAATCTTAACG
66 GTTTAAATCTTAACG
1430712 CGCCACTTGGTACAAATGAATATAAGTATTCCATCTCTGAATTTCTCCTTAAAGTAATATTAAAT
1 CGCCACTTGGTACAAATGAATATAAGTATTCCATCTCTGAATTTCTCCTTAAAGTAATATTAAAT
1430777 GTTTAAATCTTAACG
66 GTTTAAATCTTAACG
1430792 ATTTCAAATG
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
80 77 1.00
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.37
Consensus pattern (80 bp):
CGCCACTTGGTACAAATGAATATAAGTATTCCATCTCTGAATTTCTCCTTAAAGTAATATTAAAT
GTTTAAATCTTAACG
Found at i:1433444 original size:21 final size:21
Alignment explanation
Indices: 1433419--1433460 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
1433409 AAGACAAGTT
1433419 CGATAATTGAAACAAAGTTTA
1 CGATAATTGAAACAAAGTTTA
*
1433440 CGATAATTGAAATAAAGTTTA
1 CGATAATTGAAACAAAGTTTA
1433461 AAAATAAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.48, C:0.07, G:0.14, T:0.31
Consensus pattern (21 bp):
CGATAATTGAAACAAAGTTTA
Found at i:1438925 original size:182 final size:182
Alignment explanation
Indices: 1438610--1438973 Score: 622
Period size: 182 Copynumber: 2.0 Consensus size: 182
1438600 CATCCTCCAG
* * *
1438610 AAAAGAACTTCAAAATGTGTTGGATGAAAGATGTATTAAGACCACTTATATAGCTCTCAAATTGT
1 AAAAGAACTTCAAAATGTGTTGGATGAAAGATGTATTAAGACCACTGATATAACCCTCAAATTGT
* *
1438675 GAACAGATATGATCATATTAATGACATTACATGGCATACACATCATACATGTCAAGCTGAATTGT
66 GAACAGATATGAACATATTAATGACATTACATGGCATACACATCATACATGTCAAGCTGAACTGT
1438740 GCAGACTAATCCAAACTACCATATAAAAAACGTAATGCCAATTTCATTTATA
131 GCAGACTAATCCAAACTACCATATAAAAAACGTAATGCCAATTTCATTTATA
* *
1438792 AAAAGAACTTCAAAATGTGTTGGATGAAAGATGTATTAAGGCCCCTGATATAACCCTCTAAA-TG
1 AAAAGAACTTCAAAATGTGTTGGATGAAAGATGTATTAAGACCACTGATATAACCCTC-AAATTG
*
1438856 TGAACAGATATGAACATATTAATGACATTACATGGCATACACATCATACATGTCAAGCTGGACTG
65 TGAACAGATATGAACATATTAATGACATTACATGGCATACACATCATACATGTCAAGCTGAACTG
* *
1438921 TGCAGACTAATCCAAACTACCATATAAAAAACGTAATGCTAGTTTCATTTATA
130 TGCAGACTAATCCAAACTACCATATAAAAAACGTAATGCCAATTTCATTTATA
1438974 GTTAGTACTT
Statistics
Matches: 171, Mismatches: 10, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
182 168 0.98
183 3 0.02
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.28
Consensus pattern (182 bp):
AAAAGAACTTCAAAATGTGTTGGATGAAAGATGTATTAAGACCACTGATATAACCCTCAAATTGT
GAACAGATATGAACATATTAATGACATTACATGGCATACACATCATACATGTCAAGCTGAACTGT
GCAGACTAATCCAAACTACCATATAAAAAACGTAATGCCAATTTCATTTATA
Found at i:1444707 original size:23 final size:24
Alignment explanation
Indices: 1444669--1444752 Score: 116
Period size: 24 Copynumber: 3.5 Consensus size: 24
1444659 AATTTTGTTA
*
1444669 TGATACATGACCTAGATTCTGATC
1 TGATACATGACATAGATTCTGATC
*
1444693 TGATAC-TGACATAGATTCTGATA
1 TGATACATGACATAGATTCTGATC
* *
1444716 TGATACATGACCTGGATTCTGATC
1 TGATACATGACATAGATTCTGATC
*
1444740 TGATACTTGACAT
1 TGATACATGACAT
1444753 GAATTATGTT
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
23 21 0.40
24 31 0.60
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.35
Consensus pattern (24 bp):
TGATACATGACATAGATTCTGATC
Found at i:1444874 original size:35 final size:35
Alignment explanation
Indices: 1444828--1444901 Score: 103
Period size: 35 Copynumber: 2.1 Consensus size: 35
1444818 GGAGGAATAA
* * * *
1444828 TACTTGGAGGCTCTTCGGCTTTGTGCTCAGGGCCT
1 TACTTGGAGGCTCCTCAGATTTGTACTCAGGGCCT
*
1444863 TACTTGGAGGCTCCTCAGATTTGTACTCAGGTCCT
1 TACTTGGAGGCTCCTCAGATTTGTACTCAGGGCCT
1444898 TACT
1 TACT
1444902 ATTCGTGACA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.14, C:0.26, G:0.26, T:0.35
Consensus pattern (35 bp):
TACTTGGAGGCTCCTCAGATTTGTACTCAGGGCCT
Found at i:1445728 original size:29 final size:29
Alignment explanation
Indices: 1445686--1445748 Score: 108
Period size: 29 Copynumber: 2.2 Consensus size: 29
1445676 TTGCTCGTTG
1445686 AACTTTAAAAGTTTTCAATTTCCTAACTA
1 AACTTTAAAAGTTTTCAATTTCCTAACTA
* *
1445715 AACTTTAAAAGTTTTTAATTTTCTAACTA
1 AACTTTAAAAGTTTTCAATTTCCTAACTA
1445744 AACTT
1 AACTT
1445749 AATACATTGG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.38, C:0.14, G:0.03, T:0.44
Consensus pattern (29 bp):
AACTTTAAAAGTTTTCAATTTCCTAACTA
Found at i:1445899 original size:35 final size:36
Alignment explanation
Indices: 1445830--1445916 Score: 122
Period size: 35 Copynumber: 2.4 Consensus size: 36
1445820 AATAACATTA
**
1445830 AAAAAGATGTCGTTTTAAAAACAATAAACTTTTACC
1 AAAAAGATGTCGTTTTAAAAACAATAAAAATTTACC
* *
1445866 AAAATGATGTCGTTTTAATAA-AATAAAAATTTACC
1 AAAAAGATGTCGTTTTAAAAACAATAAAAATTTACC
*
1445901 AAAACGATGTCGTTTT
1 AAAAAGATGTCGTTTT
1445917 GCATCTATAT
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
35 27 0.59
36 19 0.41
ACGTcount: A:0.45, C:0.11, G:0.10, T:0.33
Consensus pattern (36 bp):
AAAAAGATGTCGTTTTAAAAACAATAAAAATTTACC
Found at i:1446387 original size:21 final size:21
Alignment explanation
Indices: 1446304--1446401 Score: 83
Period size: 21 Copynumber: 4.7 Consensus size: 21
1446294 AGTGGGTTTG
* *
1446304 GGATTGATCCCTTTAC-ATAAA
1 GGATCGATCCCTTCACGA-AAA
* *
1446325 GGATCGAT-ACTTCGAGGAAAA
1 GGATCGATCCCTTC-ACGAAAA
* *
1446346 GGATCAATCCCTTCACCAAAA
1 GGATCGATCCCTTCACGAAAA
* *
1446367 GGATCGATCCCTTTATGAAAA
1 GGATCGATCCCTTCACGAAAA
*
1446388 AGATCGATCCCTTC
1 GGATCGATCCCTTC
1446402 CCTTAAAGAA
Statistics
Matches: 60, Mismatches: 14, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
20 3 0.05
21 52 0.87
22 5 0.08
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.26
Consensus pattern (21 bp):
GGATCGATCCCTTCACGAAAA
Found at i:1448379 original size:15 final size:16
Alignment explanation
Indices: 1448352--1448386 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
1448342 GCTTTCAAAA
1448352 TTGAAAAATGAAAATT
1 TTGAAAAATGAAAATT
*
1448368 TTGAAAAA-GAAATTT
1 TTGAAAAATGAAAATT
1448383 TTGA
1 TTGA
1448387 TTTAAAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.51, C:0.00, G:0.14, T:0.34
Consensus pattern (16 bp):
TTGAAAAATGAAAATT
Found at i:1455839 original size:20 final size:20
Alignment explanation
Indices: 1455814--1455852 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
1455804 TATCTTTGAG
1455814 TATCGATACCCAAAGAACAA
1 TATCGATACCCAAAGAACAA
*
1455834 TATCGATACCTAAAGAACA
1 TATCGATACCCAAAGAACA
1455853 GGCATCGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.23, G:0.10, T:0.18
Consensus pattern (20 bp):
TATCGATACCCAAAGAACAA
Found at i:1455861 original size:21 final size:20
Alignment explanation
Indices: 1455815--1455863 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
1455805 ATCTTTGAGT
*
1455815 ATCGATACCCAAAGAACAAT
1 ATCGATACCCAAAGAACAAC
* *
1455835 ATCGATACCTAAAGAACAGGC
1 ATCGATACCCAAAGAACA-AC
1455856 ATCGATAC
1 ATCGATAC
1455864 TCCCAACCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 17 0.68
21 8 0.32
ACGTcount: A:0.45, C:0.24, G:0.14, T:0.16
Consensus pattern (20 bp):
ATCGATACCCAAAGAACAAC
Found at i:1457389 original size:90 final size:92
Alignment explanation
Indices: 1457237--1457496 Score: 453
Period size: 89 Copynumber: 2.9 Consensus size: 92
1457227 TAGTCAATAG
*
1457237 CATTGGGCTATAAGTGAAGTAGTTA-CTTAGCCTATTAATTAGGCCCAAAATAT-AAAAGAGTTA
1 CATTGGGCTATAAGTGAAGTAGTTACCTTAGCCTATTAATTTGGCCCAAAATATCAAAAGAGTTA
1457300 GCATTATCGGTTTCAAATACTATA-AA
66 GCATTATCGGTTTCAAATACTATACAA
1457326 CATTGGGCTATAAGTGAAGTAGTTACCTTAGCCTATTAATTTGGCCC-AAATATCAAAAGAGTTA
1 CATTGGGCTATAAGTGAAGTAGTTACCTTAGCCTATTAATTTGGCCCAAAATATCAAAAGAGTTA
*
1457390 GCATTATCGGTTTCAAATGCTATACAA
66 GCATTATCGGTTTCAAATACTATACAA
1457417 CATTGGGCTATAA-TG-AGTAGTTACCTTAGCCTATTAATTTGGCCCAAAATATCAAAAGAGTTA
1 CATTGGGCTATAAGTGAAGTAGTTACCTTAGCCTATTAATTTGGCCCAAAATATCAAAAGAGTTA
1457480 G-ATTATCGGTTTCAAAT
66 GCATTATCGGTTTCAAAT
1457497 TCAGTATTGT
Statistics
Matches: 165, Mismatches: 2, Indels: 8
0.94 0.01 0.05
Matches are distributed among these distances:
89 77 0.47
90 73 0.44
91 15 0.09
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.32
Consensus pattern (92 bp):
CATTGGGCTATAAGTGAAGTAGTTACCTTAGCCTATTAATTTGGCCCAAAATATCAAAAGAGTTA
GCATTATCGGTTTCAAATACTATACAA
Found at i:1474299 original size:26 final size:26
Alignment explanation
Indices: 1474263--1474322 Score: 102
Period size: 26 Copynumber: 2.3 Consensus size: 26
1474253 CCAAGGAGTG
*
1474263 GCAAGCTAGGTGTCTGAGAGAAGCTA
1 GCAAGCTAGGTGTCCGAGAGAAGCTA
*
1474289 GCAAGCTAGGTGTCCGAGATAAGCTA
1 GCAAGCTAGGTGTCCGAGAGAAGCTA
1474315 GCAAGCTA
1 GCAAGCTA
1474323 AGGCGAGTCG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.32, C:0.18, G:0.32, T:0.18
Consensus pattern (26 bp):
GCAAGCTAGGTGTCCGAGAGAAGCTA
Found at i:1476967 original size:23 final size:21
Alignment explanation
Indices: 1476946--1476986 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
1476936 ACCTCAATTA
*
1476946 TTCCCCTTATAACACTTAAAT
1 TTCCCCTTAGAACACTTAAAT
*
1476967 TTCTCCTTAGAACACTTAAA
1 TTCCCCTTAGAACACTTAAA
1476987 ACTAAAAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.34, C:0.27, G:0.02, T:0.37
Consensus pattern (21 bp):
TTCCCCTTAGAACACTTAAAT
Found at i:1481997 original size:21 final size:21
Alignment explanation
Indices: 1481946--1482004 Score: 77
Period size: 20 Copynumber: 2.9 Consensus size: 21
1481936 GTGCCACATA
* * *
1481946 TTTGTCCCAAA-AACCATAGG
1 TTTGTCCCAAAGGACCACAAG
1481966 TTTGT-CCAAAGGACCACAAG
1 TTTGTCCCAAAGGACCACAAG
1481986 TTTGTCCCAAAGGACCACA
1 TTTGTCCCAAAGGACCACA
1482005 TAGAACCCTC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
19 5 0.15
20 16 0.47
21 13 0.38
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.22
Consensus pattern (21 bp):
TTTGTCCCAAAGGACCACAAG
Found at i:1485743 original size:13 final size:13
Alignment explanation
Indices: 1485725--1485750 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1485715 AACACCTCTC
1485725 ACATACCTTTTCA
1 ACATACCTTTTCA
1485738 ACATACCTTTTCA
1 ACATACCTTTTCA
1485751 TCTTTGGCCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.31, G:0.00, T:0.38
Consensus pattern (13 bp):
ACATACCTTTTCA
Found at i:1489441 original size:91 final size:91
Alignment explanation
Indices: 1489285--1489466 Score: 283
Period size: 91 Copynumber: 2.0 Consensus size: 91
1489275 GTAGTTGATG
* *
1489285 CTTGGCCGAATAGGGAGAGAACTCTTCATCTTGGCGCCTAAATGAACCATATGCAAGGCACATGG
1 CTTGGCCGAATAGGGAGAGAACTCTTCATCTTGGCACCTAAATGAACCACATGCAAGGCACATGG
1489350 GGGCTGATCACATGCAAAACACATGT
66 GGGCTGATCACATGCAAAACACATGT
* * *
1489376 CTTGGCTGAATAGGGAGAGAACTCTTCATCTTGGCACCTAAATGATCCACATGCAAGGCATATGG
1 CTTGGCCGAATAGGGAGAGAACTCTTCATCTTGGCACCTAAATGAACCACATGCAAGGCACATGG
* * **
1489441 GGGCTGGTCATATGCAAGGCACATGT
66 GGGCTGATCACATGCAAAACACATGT
1489467 GTGTTCTAGG
Statistics
Matches: 82, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
91 82 1.00
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.23
Consensus pattern (91 bp):
CTTGGCCGAATAGGGAGAGAACTCTTCATCTTGGCACCTAAATGAACCACATGCAAGGCACATGG
GGGCTGATCACATGCAAAACACATGT
Found at i:1501888 original size:3 final size:3
Alignment explanation
Indices: 1501880--1501914 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
1501870 AAGTTAACGT
1501880 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1501915 TGTAATGAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:1514253 original size:2 final size:2
Alignment explanation
Indices: 1514237--1514285 Score: 75
Period size: 2 Copynumber: 25.5 Consensus size: 2
1514227 GTTCTATTTA
*
1514237 AT AT AT AC AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1514278 AT A- AT AT A
1 AT AT AT AT A
1514286 GTTTTTAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
1 2 0.05
2 41 0.95
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:1514311 original size:37 final size:38
Alignment explanation
Indices: 1514268--1514421 Score: 126
Period size: 35 Copynumber: 4.2 Consensus size: 38
1514258 ATATATATAT
*
1514268 ATATATATATATAATATAGTTTTTAAAACATTTTCAAAA
1 ATATATATATAT-ATATAGTTTTGAAAACATTTTCAAAA
* **
1514307 ATATATATATAATATATAGTTTTGAAAGCATTTTTGAAA
1 ATATATATAT-ATATATAGTTTTGAAAACATTTTCAAAA
* ***
1514346 ATATATA-GTATAT-TA-TTTTGAAAATGGTTT-AGAAA
1 ATATATATATATATATAGTTTTGAAAACATTTTCA-AAA
* * *
1514381 ATATATA-GTATATA-A-TTTTGAAAACGTTTT-GAAA
1 ATATATATATATATATAGTTTTGAAAACATTTTCAAAA
1514415 ATATATA
1 ATATATA
1514422 ATTTTGAAAG
Statistics
Matches: 99, Mismatches: 13, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
34 10 0.10
35 41 0.41
36 2 0.02
37 4 0.04
38 1 0.01
39 39 0.39
40 2 0.02
ACGTcount: A:0.45, C:0.03, G:0.09, T:0.43
Consensus pattern (38 bp):
ATATATATATATATATAGTTTTGAAAACATTTTCAAAA
Found at i:1514311 original size:39 final size:40
Alignment explanation
Indices: 1514266--1514358 Score: 125
Period size: 39 Copynumber: 2.3 Consensus size: 40
1514256 ATATATATAT
*
1514266 ATATATATATATATAATATAGTTTTTAAAACATTTTCAAAA
1 ATATATATATATAT-ATATAGTTTTGAAAACATTTTCAAAA
* **
1514307 ATATATATATA-ATATATAGTTTTGAAAGCATTTTTGAAA
1 ATATATATATATATATATAGTTTTGAAAACATTTTCAAAA
1514346 ATATATAGTATAT
1 ATATATA-TATAT
1514359 TATTTTGAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
39 29 0.63
40 6 0.13
41 11 0.24
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.44
Consensus pattern (40 bp):
ATATATATATATATATATAGTTTTGAAAACATTTTCAAAA
Found at i:1514426 original size:27 final size:28
Alignment explanation
Indices: 1514389--1514449 Score: 106
Period size: 27 Copynumber: 2.2 Consensus size: 28
1514379 AAATATATAG
1514389 TATATAATTTTGAAAACGTTTT-GAAAA
1 TATATAATTTTGAAAACGTTTTGGAAAA
*
1514416 TATATAATTTTGAAAGCGTTTTGGAAAA
1 TATATAATTTTGAAAACGTTTTGGAAAA
1514444 TATATA
1 TATATA
1514450 TAATATATAT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 21 0.66
28 11 0.34
ACGTcount: A:0.43, C:0.03, G:0.13, T:0.41
Consensus pattern (28 bp):
TATATAATTTTGAAAACGTTTTGGAAAA
Found at i:1514426 original size:62 final size:64
Alignment explanation
Indices: 1514354--1514485 Score: 171
Period size: 62 Copynumber: 2.1 Consensus size: 64
1514344 AAATATATAG
* * *
1514354 TATATTATTTTGAAAATGGTTTAGAAAATATATAGT-ATATA-ATTTT-GAAAACGTTTTGAAAA
1 TATATAATTTTGAAAACGGTTTAGAAAATATATA-TAATATATATTTTAGAAAACATTTTGAAAA
* * *
1514416 TATATAATTTTGAAAGCGTTTTGGAAAATATATATAATATATATTTTAGAAAACATTTTGAAAA
1 TATATAATTTTGAAAACGGTTTAGAAAATATATATAATATATATTTTAGAAAACATTTTGAAAA
*
1514480 TTTATA
1 TATATA
1514486 TATACTATAA
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
61 1 0.02
62 34 0.57
63 5 0.08
64 20 0.33
ACGTcount: A:0.44, C:0.02, G:0.11, T:0.42
Consensus pattern (64 bp):
TATATAATTTTGAAAACGGTTTAGAAAATATATATAATATATATTTTAGAAAACATTTTGAAAA
Found at i:1514479 original size:36 final size:37
Alignment explanation
Indices: 1514414--1514512 Score: 105
Period size: 36 Copynumber: 2.6 Consensus size: 37
1514404 ACGTTTTGAA
* *
1514414 AATATATAATTTTGAAAGCGTTTTGGAAAATATATAT
1 AATATATAATTTTGAAAACATTTTGGAAAATATATAT
*
1514451 AATATAT-ATTTTAGAAAACATTTT-GAAAATTTATAT
1 AATATATAATTTT-GAAAACATTTTGGAAAATATATAT
*
1514487 -ATACTATAAGATTTTGAAAACTTTTT
1 AATA-TAT-A-ATTTTGAAAACATTTT
1514513 TTCCTTTCCC
Statistics
Matches: 53, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
35 3 0.06
36 19 0.36
37 16 0.30
38 10 0.19
39 5 0.09
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.43
Consensus pattern (37 bp):
AATATATAATTTTGAAAACATTTTGGAAAATATATAT
Found at i:1514506 original size:38 final size:36
Alignment explanation
Indices: 1514417--1514512 Score: 97
Period size: 38 Copynumber: 2.6 Consensus size: 36
1514407 TTTTGAAAAT
* *
1514417 ATATA-ATTTTGAAAGCGTTTTGGAAAATATATATA
1 ATATAGATTTTGAAAACATTTTGGAAAATATATATA
*
1514452 ATATATATTTTAGAAAACATTTT-GAAAATTTATATATA
1 ATATAGATTTT-GAAAACATTTTGGAAAA--TATATATA
* *
1514490 CTATAAGATTTTGAAAACTTTTT
1 ATAT-AGATTTTGAAAACATTTT
1514513 TTCCTTTCCC
Statistics
Matches: 51, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
35 5 0.10
36 10 0.20
37 9 0.18
38 21 0.41
39 6 0.12
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.44
Consensus pattern (36 bp):
ATATAGATTTTGAAAACATTTTGGAAAATATATATA
Found at i:1517028 original size:16 final size:16
Alignment explanation
Indices: 1517007--1517044 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
1516997 AAATAGTGGG
*
1517007 AGCTATCTGTAATAGA
1 AGCTATCCGTAATAGA
1517023 AGCTATCCGTAATAGA
1 AGCTATCCGTAATAGA
1517039 AGCTAT
1 AGCTAT
1517045 GGCAACGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.29
Consensus pattern (16 bp):
AGCTATCCGTAATAGA
Found at i:1527486 original size:11 final size:11
Alignment explanation
Indices: 1527430--1527485 Score: 53
Period size: 11 Copynumber: 5.2 Consensus size: 11
1527420 AAATTTTAGC
1527430 TTTTTTGTTTT
1 TTTTTTGTTTT
**
1527441 TTTTTTGCCTT
1 TTTTTTGTTTT
**
1527452 TTTTTTG-CCT
1 TTTTTTGTTTT
1527462 TTTTTTGTTTT
1 TTTTTTGTTTT
1527473 TTGTTTT-TTTT
1 TT-TTTTGTTTT
1527484 TT
1 TT
1527486 GAAAAAATAG
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
10 9 0.24
11 25 0.66
12 4 0.11
ACGTcount: A:0.00, C:0.07, G:0.09, T:0.84
Consensus pattern (11 bp):
TTTTTTGTTTT
Found at i:1528264 original size:16 final size:16
Alignment explanation
Indices: 1528231--1528260 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
1528221 TAAAGGTTCT
1528231 AAATAACTAATAAATA
1 AAATAACTAATAAATA
1528247 AAATAA-TAATAAAT
1 AAATAACTAATAAAT
1528261 TAAACATGTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (16 bp):
AAATAACTAATAAATA
Found at i:1529433 original size:16 final size:16
Alignment explanation
Indices: 1529412--1529442 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
1529402 TAATATTGAA
1529412 ACTTGAACTCAAAAAG
1 ACTTGAACTCAAAAAG
1529428 ACTTGAACTCAAAAA
1 ACTTGAACTCAAAAA
1529443 TAAAATTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.19, G:0.10, T:0.19
Consensus pattern (16 bp):
ACTTGAACTCAAAAAG
Found at i:1529485 original size:24 final size:25
Alignment explanation
Indices: 1529443--1529489 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
1529433 AACTCAAAAA
*
1529443 TAAAATTTGAAGCTCGATTGAAGCC
1 TAAAATTCGAAGCTCGATTGAAGCC
*
1529468 TAAAATTCG-AGCTTGATTGAAG
1 TAAAATTCGAAGCTCGATTGAAG
1529490 TGAAAGAGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.30
Consensus pattern (25 bp):
TAAAATTCGAAGCTCGATTGAAGCC
Found at i:1541533 original size:4 final size:4
Alignment explanation
Indices: 1541509--1541570 Score: 51
Period size: 4 Copynumber: 16.5 Consensus size: 4
1541499 TAATAACATA
* * *
1541509 ATGT AGGT ATGT A--T ATAT ATGT ATGC ATGT ATGT ATGT ATG- -TGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* *
1541553 ATAT ATGT ATGC ATGT AT
1 ATGT ATGT ATGT ATGT AT
1541571 ACATACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 8
0.73 0.15 0.13
Matches are distributed among these distances:
2 4 0.09
4 41 0.91
ACGTcount: A:0.29, C:0.03, G:0.23, T:0.45
Consensus pattern (4 bp):
ATGT
Found at i:1541543 original size:22 final size:22
Alignment explanation
Indices: 1541515--1541563 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
1541505 CATAATGTAG
*
1541515 GTATGTATATATATGTATGCAT
1 GTATGTATATATATGTATACAT
* * *
1541537 GTATGTATGTATGTGTATATAT
1 GTATGTATATATATGTATACAT
1541559 GTATG
1 GTATG
1541564 CATGTATACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.29, C:0.02, G:0.22, T:0.47
Consensus pattern (22 bp):
GTATGTATATATATGTATACAT
Found at i:1541549 original size:30 final size:30
Alignment explanation
Indices: 1541509--1541570 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
1541499 TAATAACATA
1541509 ATGTAGGTATGTATATATATGTATGCATGT
1 ATGTAGGTATGTATATATATGTATGCATGT
* *
1541539 ATGTATGTATGTGTATATATGTATGCATGT
1 ATGTAGGTATGTATATATATGTATGCATGT
1541569 AT
1 AT
1541571 ACATACATGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.29, C:0.03, G:0.23, T:0.45
Consensus pattern (30 bp):
ATGTAGGTATGTATATATATGTATGCATGT
Found at i:1542179 original size:16 final size:15
Alignment explanation
Indices: 1542158--1542193 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
1542148 TACCAACATT
1542158 AAATAAAACAAAATTA
1 AAATAAAACAAAA-TA
*
1542174 AAATAAAATAAAATA
1 AAATAAAACAAAATA
1542189 AAATA
1 AAATA
1542194 TTATATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.19
Consensus pattern (15 bp):
AAATAAAACAAAATA
Found at i:1542180 original size:5 final size:5
Alignment explanation
Indices: 1542158--1542193 Score: 54
Period size: 5 Copynumber: 7.0 Consensus size: 5
1542148 TACCAACATT
*
1542158 AAATA AAACA AAATTA AAATA AAATA AAATA AAATA
1 AAATA AAATA AAA-TA AAATA AAATA AAATA AAATA
1542194 TTATATAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 24 0.86
6 4 0.14
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:1543816 original size:54 final size:54
Alignment explanation
Indices: 1543750--1544031 Score: 381
Period size: 54 Copynumber: 5.2 Consensus size: 54
1543740 GATGCATACG
* *
1543750 TAGTGTCGATACGGTCGTTCAT-ATTCATATTATGAATTTCATGGGTTGCACACT
1 TAGTGTCGATACGGTCGTTCATCA-ACATATGATGAATTTCATGGGTTGCACACT
* * * *
1543804 TAATG-CATATACGGCCGTTCATCAACATATGATGAATTTCGTGGGTTGCACACT
1 TAGTGTC-GATACGGTCGTTCATCAACATATGATGAATTTCATGGGTTGCACACT
* * *
1543858 TAGTGTCGATACGGTTGTTCATCAACATATGATGAATTCCATGGGTTACACACT
1 TAGTGTCGATACGGTCGTTCATCAACATATGATGAATTTCATGGGTTGCACACT
* * *
1543912 TAGTGTCGATATGGTCATTTCATCAACATATGATGAA-TTCTATGGGTTGCACACA
1 TAGTGTCGATACGGTC-GTTCATCAACATATGATGAATTTC-ATGGGTTGCACACT
* *
1543967 TAGTGTCGATACGGTCGTTCCTCAACATATGATGAATTTCGTGGGTTGCACACT
1 TAGTGTCGATACGGTCGTTCATCAACATATGATGAATTTCATGGGTTGCACACT
1544021 TAGTGTCGATA
1 TAGTGTCGATA
1544032 GTACACAAAG
Statistics
Matches: 198, Mismatches: 24, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
53 1 0.01
54 146 0.74
55 51 0.26
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.34
Consensus pattern (54 bp):
TAGTGTCGATACGGTCGTTCATCAACATATGATGAATTTCATGGGTTGCACACT
Found at i:1543980 original size:109 final size:109
Alignment explanation
Indices: 1543750--1544031 Score: 385
Period size: 109 Copynumber: 2.6 Consensus size: 109
1543740 GATGCATACG
* * *
1543750 TAGTGTCGATACGGTCGTTCAT-ATTCATATTATGAATTTCATGGGTTGCACACTTAATG-C-AT
1 TAGTGTCGATACGGTCGTTCATCA-ACATATGATGAATTTCATGGGTTGCACACTTAGTGTCGAT
* * *
1543812 ATACGGCCGTTCATCAACATATGATGAATTTCGTGGGTTGCACACT
65 ATA-GGCAGTTCATCAACATATGATGAATTTCATGGGTTGCACACA
* * *
1543858 TAGTGTCGATACGGTTGTTCATCAACATATGATGAATTCCATGGGTTACACACTTAGTGTCGATA
1 TAGTGTCGATACGGTCGTTCATCAACATATGATGAATTTCATGGGTTGCACACTTAGTGTCGATA
*
1543923 T-GGTCATTTCATCAACATATGATGAA-TTCTATGGGTTGCACACA
66 TAGG-CAGTTCATCAACATATGATGAATTTC-ATGGGTTGCACACA
* *
1543967 TAGTGTCGATACGGTCGTTCCTCAACATATGATGAATTTCGTGGGTTGCACACTTAGTGTCGATA
1 TAGTGTCGATACGGTCGTTCATCAACATATGATGAATTTCATGGGTTGCACACTTAGTGTCGATA
1544032 GTACACAAAG
Statistics
Matches: 154, Mismatches: 15, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
108 56 0.36
109 94 0.61
110 4 0.03
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.34
Consensus pattern (109 bp):
TAGTGTCGATACGGTCGTTCATCAACATATGATGAATTTCATGGGTTGCACACTTAGTGTCGATA
TAGGCAGTTCATCAACATATGATGAATTTCATGGGTTGCACACA
Found at i:1544476 original size:20 final size:20
Alignment explanation
Indices: 1544448--1544498 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
1544438 GGAATCCATG
1544448 GTATCGATACCTTCCTCATA
1 GTATCGATACCTTCCTCATA
*
1544468 GTATTGATACCTTCCTCATA
1 GTATCGATACCTTCCTCATA
*
1544488 GTATCAATACC
1 GTATCGATACC
1544499 CACATCTCAG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.27, C:0.27, G:0.10, T:0.35
Consensus pattern (20 bp):
GTATCGATACCTTCCTCATA
Found at i:1550426 original size:30 final size:30
Alignment explanation
Indices: 1550348--1550444 Score: 97
Period size: 30 Copynumber: 3.2 Consensus size: 30
1550338 CCCGAAGGAC
** *
1550348 CTATCCAGAGGTCACAAAG-ACCCCGACAA
1 CTATCCAGAGGTCACAAAGAACCTAGGCAA
* * *
1550377 CTATCCAGAGATCATAAAGAACCTTGGCAA
1 CTATCCAGAGGTCACAAAGAACCTAGGCAA
* * *
1550407 CTATCCATAGGTCCCAAAGAACCTAGGTAAA
1 CTATCCAGAGGTCACAAAGAACCTAGG-CAA
1550438 CTATCCA
1 CTATCCA
1550445 TATGTTTCGA
Statistics
Matches: 55, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
29 17 0.31
30 29 0.53
31 9 0.16
ACGTcount: A:0.38, C:0.29, G:0.15, T:0.18
Consensus pattern (30 bp):
CTATCCAGAGGTCACAAAGAACCTAGGCAA
Found at i:1557914 original size:19 final size:19
Alignment explanation
Indices: 1557890--1557928 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
1557880 TTAGGTGAAT
1557890 GGTGAGATCGACAATAGGG
1 GGTGAGATCGACAATAGGG
1557909 GGTGAGATCGACAATAGGG
1 GGTGAGATCGACAATAGGG
1557928 G
1 G
1557929 CATGATTTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.31, C:0.10, G:0.44, T:0.15
Consensus pattern (19 bp):
GGTGAGATCGACAATAGGG
Found at i:1558505 original size:3 final size:3
Alignment explanation
Indices: 1558480--1558517 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
1558470 TATGTAAATA
* *
1558480 AAT ATT AAT AA- AAT AAT AGT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1558518 TAATTAATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:1559137 original size:37 final size:36
Alignment explanation
Indices: 1559096--1559202 Score: 84
Period size: 37 Copynumber: 3.1 Consensus size: 36
1559086 AAAGAAACTG
1559096 TCTCAAGTGAGACAAAACTTTGTTTCGAGAGAAACAA
1 TCTCAAG-GAGACAAAACTTTGTTTCGAGAGAAACAA
** * **
1559133 TCTCAA--AG-----GTTTATGTTTCAAGAGAAACTT
1 TCTCAAGGAGACAAAACTT-TGTTTCGAGAGAAACAA
*
1559163 TCTCAAGCGAGACAAAACTTTGTTTTGAGAGAAACAA
1 TCTCAAG-GAGACAAAACTTTGTTTCGAGAGAAACAA
1559200 TCT
1 TCT
1559203 AAAAGGTTTA
Statistics
Matches: 50, Mismatches: 11, Indels: 18
0.63 0.14 0.23
Matches are distributed among these distances:
29 2 0.04
30 20 0.40
33 2 0.04
34 2 0.04
37 22 0.44
38 2 0.04
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.29
Consensus pattern (36 bp):
TCTCAAGGAGACAAAACTTTGTTTCGAGAGAAACAA
Found at i:1559187 original size:67 final size:67
Alignment explanation
Indices: 1559079--1559255 Score: 273
Period size: 67 Copynumber: 2.6 Consensus size: 67
1559069 AGATTAATTT
* * * * *
1559079 TGTTTTAAAAGAAACTGTCTCAAGTGAGACAAAACTTTGTTTCGAGAGAAACAATCTCAAAGGTT
1 TGTTTCAAGAGAAACTATCTCAAGCGAGACAAAACTTTGTTTCGAGAGAAACAATCTAAAAGGTT
1559144 TA
66 TA
* *
1559146 TGTTTCAAGAGAAACTTTCTCAAGCGAGACAAAACTTTGTTTTGAGAGAAACAATCTAAAAGGTT
1 TGTTTCAAGAGAAACTATCTCAAGCGAGACAAAACTTTGTTTCGAGAGAAACAATCTAAAAGGTT
1559211 TA
66 TA
* *
1559213 TGTTTCAAGAGAAACCATCTCAAGGGAGACAAAACTTTGTTTC
1 TGTTTCAAGAGAAACTATCTCAAGCGAGACAAAACTTTGTTTC
1559256 ATGGAAAACT
Statistics
Matches: 100, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
67 100 1.00
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.29
Consensus pattern (67 bp):
TGTTTCAAGAGAAACTATCTCAAGCGAGACAAAACTTTGTTTCGAGAGAAACAATCTAAAAGGTT
TA
Found at i:1559430 original size:95 final size:95
Alignment explanation
Indices: 1559261--1559440 Score: 213
Period size: 95 Copynumber: 1.9 Consensus size: 95
1559251 GTTTCATGGA
* * * * * * *
1559261 AAACTATCTCAAGTGAGATTAATTTTGTTTCAAGTGAGATAACTTCAAAATTTATGTTTTGAAGG
1 AAACAATCTCAAGTGAGATAAATTATGTTTCAAGTGAAACAACTTCAAAATTTATGTTCTCAAGG
*
1559326 AGGAATGTCTCAAGCGAGACAATTGTTTTT
66 AGAAATGTCTCAAGCGAGACAATTGTTTTT
* *
1559356 AAACAATCTCAAGTGATATAAATTATGTTTCAAGTGAAACAATTTCAAAA-TT-TGTATCTCAAG
1 AAACAATCTCAAGTGAGATAAATTATGTTTCAAGTGAAACAACTTCAAAATTTATGT-TCTCAAG
*
1559419 G-GAAAACTGTCTCAAGTGAGAC
65 GAG-AAA-TGTCTCAAGCGAGAC
1559441 GAAATTTGTT
Statistics
Matches: 71, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
93 4 0.06
94 10 0.14
95 57 0.80
ACGTcount: A:0.37, C:0.12, G:0.17, T:0.33
Consensus pattern (95 bp):
AAACAATCTCAAGTGAGATAAATTATGTTTCAAGTGAAACAACTTCAAAATTTATGTTCTCAAGG
AGAAATGTCTCAAGCGAGACAATTGTTTTT
Found at i:1560100 original size:11 final size:11
Alignment explanation
Indices: 1560084--1560116 Score: 66
Period size: 11 Copynumber: 3.0 Consensus size: 11
1560074 TTTCTATTGC
1560084 AATGTATGATG
1 AATGTATGATG
1560095 AATGTATGATG
1 AATGTATGATG
1560106 AATGTATGATG
1 AATGTATGATG
1560117 CAAAGATGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.27, T:0.36
Consensus pattern (11 bp):
AATGTATGATG
Found at i:1565363 original size:6 final size:6
Alignment explanation
Indices: 1565352--1565432 Score: 108
Period size: 6 Copynumber: 13.5 Consensus size: 6
1565342 TAAATAAAAC
* * * * * *
1565352 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATG AAAATG
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG
1565400 AAAATG AAAATG AAAATG AAAATG AAAATG AAA
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAA
1565433 TATTATATTA
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
6 74 1.00
ACGTcount: A:0.68, C:0.00, G:0.09, T:0.23
Consensus pattern (6 bp):
AAAATG
Found at i:1572448 original size:3 final size:3
Alignment explanation
Indices: 1572442--1572478 Score: 56
Period size: 3 Copynumber: 12.0 Consensus size: 3
1572432 ATTATTATTT
*
1572442 TAA TAA TAA TAA TATA TAA TAA TTA TAA TAA TAA TAA
1 TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA
1572479 AATGGGTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:1572839 original size:113 final size:112
Alignment explanation
Indices: 1572705--1573879 Score: 1375
Period size: 113 Copynumber: 10.4 Consensus size: 112
1572695 TAGAGTTATT
* * * * *
1572705 CAAAAGGTTGAATAAGCTCTTCTCATTATGAACTTCTTCTTTCTCCTTCAGATGAGTTCTTCTCA
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
**** ** * **
1572770 TTATGAACTTTCTCTGGAAAAACTGATCCATCAAGTGATGGATTTGAG
66 TTATGAACTCGAACTGGAAATGCTGATCCATCAA-TGATGAATTCAAG
* * *
1572818 CAAAAAGTTGAGCAAATTCTTCTCATTATGAACTTGTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * * * * * * * **
1572883 TTATGATCTCAAATTGGAAAAGCTAAACCATCAAGCGATGGATTTGAG
66 TTATGAACTCGAACTGGAAATGCTGATCCATCAA-TGATGAATTCAAG
* * *
1572931 CAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGATGAGTTCTTC
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTC--A-GATGAGTTCTTC
* * * * * * *
1572996 TCATTATGAACTCTACCTGGCAATGTTAATCCATCGAATGATGAATTTAAA
63 TCATTATGAACTCGAACTGGAAATGCTGATCCATC-AATGATGAATTCAAG
* * * * *
1573047 TAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAAATGAGTTCTTCTTA
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * * *
1573112 TTATGAACTTC--TCTTGAACA-ACTGATCCATCAAATGATGAATTCAAT
66 TTATGAAC-TCGAACTGGAA-ATGCTGATCCATC-AATGATGAATTCAAG
1573159 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * * *
1573224 TTATGAACTCGAACTGGTAACGCTGATCCATTGAATGATGAATTCAAT
66 TTATGAACTCGAACTGGAAATGCTGATCCA-TCAATGATGAATTCAAG
1573272 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * * * * *
1573337 ATATGAACTCGAACTGGTAACGATGATCCATTGAATCATGAATTCAAG
66 TTATGAACTCGAACTGGAAATGCTGATCCA-TCAATGATGAATTCAAG
***
1573385 CAAAAAGTTGTGTAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * *
1573450 TTATGAACTCGAACTGGAAACGCTGATCCATTGAATCATGAATTCAAG
66 TTATGAACTCGAACTGGAAATGCTGATCCA-TCAATGATGAATTCAAG
**
1573498 CAAAAAGTTGAGTAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * * *
1573563 TTATGAACACGAACTGGAAATGTTGATCCACCGAATCATGAATTCAAG
66 TTATGAACTCGAACTGGAAATGCTGATCCATC-AATGATGAATTCAAG
** * *
1573611 CAAAAAGTTGAGTAAGTTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGATGAGTTGTTCTCA
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * * *
1573676 TTATGAACTCGAACTGGAAATGTTGATCCACCGAGTCATGAATTCAAG
66 TTATGAACTCGAACTGGAAATGCTGATCCATC-AATGATGAATTCAAG
**
1573724 CAAAAAGTTGAGTAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGATGAGTTCTTC
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTC--A-GATGAGTTCTTC
* * * * * * *
1573789 TCATTATGAACTCTACCTGGCAATGTTAATCCATCAAATGATGAATTTAAA
63 TCATTATGAACTCGAACTGGAAATGCTGATCCATC-AATGATGAATTCAAG
* * *
1573840 CAAAAGGTTAAACAAATTCTTCTCATTATGAACTTCTTCT
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCT
1573880 GGAAAAGCTG
Statistics
Matches: 954, Mismatches: 94, Indels: 25
0.89 0.09 0.02
Matches are distributed among these distances:
111 2 0.00
112 94 0.10
113 668 0.70
114 4 0.00
115 2 0.00
116 182 0.19
117 2 0.00
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.36
Consensus pattern (112 bp):
CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
TTATGAACTCGAACTGGAAATGCTGATCCATCAATGATGAATTCAAG
Found at i:1574756 original size:115 final size:114
Alignment explanation
Indices: 1574596--1574811 Score: 353
Period size: 115 Copynumber: 1.9 Consensus size: 114
1574586 GATCATGCAG
* * *
1574596 TTCATCTTTTAATTCCAATGATTGGTTCTGTGGTTCCTACCAAACCAGATCAAATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTCTGTGGTTCATACCAAACCAGATCAAATAACTCAAAGA
*
1574661 ACACTTCCAGAAGATGCTATTGGGTATTC-TTATTTCTACTATGAGCACA
66 ACACTTCCAGAAGATGCTATTGAGT-TTCTTTATTTCTACTATGAGCACA
* *
1574710 TTCATCTTTCAAATCCAATGATTGGTTTTTGTGGTTCATACCAAACCAGATCAGATAACTCAAAG
1 TTCATCTTTCAAATCCAATGATTGG-TTCTGTGGTTCATACCAAACCAGATCAAATAACTCAAAG
1574775 AACACTTCCAGAAGATGCTATTGAGTTTCTTTATTTC
65 AACACTTCCAGAAGATGCTATTGAGTTTCTTTATTTC
1574812 AAATCCAATG
Statistics
Matches: 94, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
114 26 0.28
115 68 0.72
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (114 bp):
TTCATCTTTCAAATCCAATGATTGGTTCTGTGGTTCATACCAAACCAGATCAAATAACTCAAAGA
ACACTTCCAGAAGATGCTATTGAGTTTCTTTATTTCTACTATGAGCACA
Found at i:1574875 original size:94 final size:94
Alignment explanation
Indices: 1574699--1576010 Score: 2235
Period size: 94 Copynumber: 14.0 Consensus size: 94
1574689 CTTATTTCTA
* * *
1574699 CTATGAGCACATTCATCTTTCAAATCCAATGATTGG-TTTTTGTGGTTCATACCAAACCAGATCA
1 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTTTTTGGGGTTCATACCAAACCAGATCA
1574763 GATAACTCAAAGAACACTTCCAGAAGATG
66 GATAACTCAAAGAACACTTCCAGAAGATG
** * *
1574792 CTATTGAGTTTC-TTTAT-TT-CAAATCCAATGATTGGTTTTTTCGGGGTTCATACCAAACCAGA
1 CTA-TGAG-CACATTCATCTTCCAAATTCAATGATTGGTTTTTT-GGGGTTCATACCAAACCAGA
*
1574854 TCAGATAACTCAAAGAACACTTCCATAAGATG
63 TCAGATAACTCAAAGAACACTTCCAGAAGATG
* *
1574886 CTATGAGCACATTCATTTTTCAAATTCAATGATTGGTTTTTTGGGGTTCATACCAAACCAGATCA
1 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTTTTTGGGGTTCATACCAAACCAGATCA
1574951 GATAACTCAAAGAACACTTCCAGAAGATG
66 GATAACTCAAAGAACACTTCCAGAAGATG
* *
1574980 CTATGAGAACATTCATCTTCCAAATTCAATGATTGGTTTTTTGAGGTTCATACCAAACCAGATCA
1 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTTTTTGGGGTTCATACCAAACCAGATCA
*
1575045 GATAACTCAAAAAACACTTCCAGAAGATG
66 GATAACTCAAAGAACACTTCCAGAAGATG
1575074 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTTTTTGGGGTTCATACCAAACCAGATCA
1 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTTTTTGGGGTTCATACCAAACCAGATCA
1575139 GATAACTCAAAGAACACTTCCAGAAGATG
66 GATAACTCAAAGAACACTTCCAGAAGATG
* * *
1575168 CTATGAGCACATTTATCTTCCAAATTCAATGATTGGTTTTTT-GAGTTCATATCAAACCAGATCA
1 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTTTTTGGGGTTCATACCAAACCAGATCA
*
1575232 GATAACTCAAAGAACACTTCTAGAAGATG
66 GATAACTCAAAGAACACTTCCAGAAGATG
*
1575261 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTTTTTGAGGTTCATACCAAACCAGATCA
1 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTTTTTGGGGTTCATACCAAACCAGATCA
1575326 GATAACTCAAAGAACACTTCCAGAAGATG
66 GATAACTCAAAGAACACTTCCAGAAGATG
*
1575355 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTTTTTGAGGTTCATACCAAACCAGATCA
1 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTTTTTGGGGTTCATACCAAACCAGATCA
* *
1575420 GACAACTCAAAGAACACTTCCAAAAGATG
66 GATAACTCAAAGAACACTTCCAGAAGATG
*
1575449 CTATGAGCACATTCATCTTCCAAATTTAATGATTGGTTTTTTGGGGTTCATACCAAACCAGATCA
1 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTTTTTGGGGTTCATACCAAACCAGATCA
1575514 GATAACTCAAAGAACACTTCCAGAAGATG
66 GATAACTCAAAGAACACTTCCAGAAGATG
* *
1575543 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTTTTT-GAGTTCATATCAAACCAGATCA
1 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTTTTTGGGGTTCATACCAAACCAGATCA
1575607 GATAACTCAAAGAACACTTCCAGAAGATG
66 GATAACTCAAAGAACACTTCCAGAAGATG
**
1575636 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTTTTTTAGGTTCATACCAAACCAGATCA
1 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTTTTTGGGGTTCATACCAAACCAGATCA
1575701 GATAACTCAAAGAACACTTCCAGAAGATG
66 GATAACTCAAAGAACACTTCCAGAAGATG
* *
1575730 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTTTTTGAGGTTCATACCAAACCATATCA
1 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTTTTTGGGGTTCATACCAAACCAGATCA
*
1575795 GATAACTCAAAGAACACTTCTAGAAGATG
66 GATAACTCAAAGAACACTTCCAGAAGATG
*
1575824 CTATGAGTACATTCATCTTCCAAATTCAATGAATT-GTTTTTTGGGGTTCATACCAAACCAGATC
1 CTATGAGCACATTCATCTTCCAAATTCAATG-ATTGGTTTTTTGGGGTTCATACCAAACCAGATC
1575888 AGATAACTCAAAGAACACTTCCAGAAGATG
65 AGATAACTCAAAGAACACTTCCAGAAGATG
* **
1575918 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTTTTT-GAGTTCATATTAAACCAGATCA
1 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTTTTTGGGGTTCATACCAAACCAGATCA
1575982 GATAACTCAAAGAACACTTCCAGAAGATG
66 GATAACTCAAAGAACACTTCCAGAAGATG
1576011 TTATTGGGTC
Statistics
Matches: 1158, Mismatches: 50, Indels: 22
0.94 0.04 0.02
Matches are distributed among these distances:
92 17 0.01
93 249 0.22
94 867 0.75
95 25 0.02
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (94 bp):
CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTTTTTGGGGTTCATACCAAACCAGATCA
GATAACTCAAAGAACACTTCCAGAAGATG
Found at i:1575277 original size:281 final size:282
Alignment explanation
Indices: 1574699--1576010 Score: 2237
Period size: 281 Copynumber: 4.7 Consensus size: 282
1574689 CTTATTTCTA
* * *
1574699 CTATGAGCACATTCATCTTTCAAATCCAATGATTGG-TTTTTGTGGTTCATACCAAACCAGATCA
1 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTTTTTGAGGTTCATACCAAACCAGATCA
** * *
1574763 GATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGTTTC-TTTAT-TT-CAAATCCAATGATT
66 GATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAG-CACATTCATCTTCCAAATTCAATGATT
*
1574825 GGTTTTTTCGGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCATAAGATGCTAT
129 GGTTTTTT-GGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
* * *
1574890 GAGCACATTCATTTTTCAAATTCAATGATTGGTTTTTTGGGGTTCATACCAAACCAGATCAGATA
193 GAGCACATTCATCTTCCAAATTCAATGATTGGTTTTTTGGAGTTCATACCAAACCAGATCAGATA
1574955 ACTCAAAGAACACTTCCAGAAGATG
258 ACTCAAAGAACACTTCCAGAAGATG
*
1574980 CTATGAGAACATTCATCTTCCAAATTCAATGATTGGTTTTTTGAGGTTCATACCAAACCAGATCA
1 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTTTTTGAGGTTCATACCAAACCAGATCA
*
1575045 GATAACTCAAAAAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAATTCAATGATTGG
66 GATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAATTCAATGATTGG
1575110 TTTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAG
131 TTTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAG
* *
1575175 CACATTTATCTTCCAAATTCAATGATTGGTTTTTT-GAGTTCATATCAAACCAGATCAGATAACT
196 CACATTCATCTTCCAAATTCAATGATTGGTTTTTTGGAGTTCATACCAAACCAGATCAGATAACT
*
1575239 CAAAGAACACTTCTAGAAGATG
261 CAAAGAACACTTCCAGAAGATG
1575261 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTTTTTGAGGTTCATACCAAACCAGATCA
1 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTTTTTGAGGTTCATACCAAACCAGATCA
1575326 GATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAATTCAATGATTGG
66 GATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAATTCAATGATTGG
* * *
1575391 TTTTTTGAGGTTCATACCAAACCAGATCAGACAACTCAAAGAACACTTCCAAAAGATGCTATGAG
131 TTTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAG
* *
1575456 CACATTCATCTTCCAAATTTAATGATTGGTTTTTTGGGGTTCATACCAAACCAGATCAGATAACT
196 CACATTCATCTTCCAAATTCAATGATTGGTTTTTTGGAGTTCATACCAAACCAGATCAGATAACT
1575521 CAAAGAACACTTCCAGAAGATG
261 CAAAGAACACTTCCAGAAGATG
*
1575543 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTTTTTGA-GTTCATATCAAACCAGATCA
1 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTTTTTGAGGTTCATACCAAACCAGATCA
1575607 GATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAATTCAATGATTGG
66 GATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAATTCAATGATTGG
**
1575672 TTTTTTTAGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAG
131 TTTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAG
*
1575737 CACATTCATCTTCCAAATTCAATGATTGGTTTTTT-GAGGTTCATACCAAACCATATCAGATAAC
196 CACATTCATCTTCCAAATTCAATGATTGGTTTTTTGGA-GTTCATACCAAACCAGATCAGATAAC
*
1575801 TCAAAGAACACTTCTAGAAGATG
260 TCAAAGAACACTTCCAGAAGATG
* *
1575824 CTATGAGTACATTCATCTTCCAAATTCAATGAATT-GTTTTTTGGGGTTCATACCAAACCAGATC
1 CTATGAGCACATTCATCTTCCAAATTCAATG-ATTGGTTTTTTGAGGTTCATACCAAACCAGATC
1575888 AGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAATTCAATGATTG
65 AGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAATTCAATGATTG
* **
1575953 GTTTTTT-GAGTTCATATTAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATG
130 GTTTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATG
1576011 TTATTGGGTC
Statistics
Matches: 982, Mismatches: 41, Indels: 16
0.95 0.04 0.02
Matches are distributed among these distances:
280 2 0.00
281 624 0.64
282 335 0.34
283 21 0.02
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (282 bp):
CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTTTTTGAGGTTCATACCAAACCAGATCA
GATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAATTCAATGATTGG
TTTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAG
CACATTCATCTTCCAAATTCAATGATTGGTTTTTTGGAGTTCATACCAAACCAGATCAGATAACT
CAAAGAACACTTCCAGAAGATG
Found at i:1575389 original size:375 final size:375
Alignment explanation
Indices: 1574699--1576010 Score: 2319
Period size: 375 Copynumber: 3.5 Consensus size: 375
1574689 CTTATTTCTA
* * *
1574699 CTATGAGCACATTCATCTTTCAAATCCAATGATTGG-TTTTTGTGGTTCATACCAAACCAGATCA
1 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTTTTTGGGGTTCATACCAAACCAGATCA
** * *
1574763 GATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGTTTC-TTTAT-TT-CAAATCCAATGATT
66 GATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAG-CACATTCATCTTCCAAATTCAATGATT
* * *
1574825 GGTTTTTTCGGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCATAAGATGCTAT
129 GGTTTTTT--GAGTTCATATCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
* * *
1574890 GAGCACATTCATTTTTCAAATTCAATGATTGGTTTTTTGGGGTTCATACCAAACCAGATCAGATA
192 GAGCACATTCATCTTCCAAATTCAATGATTGGTTTTTTGAGGTTCATACCAAACCAGATCAGATA
*
1574955 ACTCAAAGAACACTTCCAGAAGATGCTATGAGAACATTCATCTTCCAAATTCAATGATTGGTTTT
257 ACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTTT
*
1575020 TTGAGGTTCATACCAAACCAGATCAGATAACTCAAAAAACACTTCCAGAAGATG
322 TTGAGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATG
1575074 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTTTTTGGGGTTCATACCAAACCAGATCA
1 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTTTTTGGGGTTCATACCAAACCAGATCA
*
1575139 GATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTTATCTTCCAAATTCAATGATTGG
66 GATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAATTCAATGATTGG
*
1575204 TTTTTTGAGTTCATATCAAACCAGATCAGATAACTCAAAGAACACTTCTAGAAGATGCTATGAGC
131 TTTTTTGAGTTCATATCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGC
1575269 ACATTCATCTTCCAAATTCAATGATTGGTTTTTTGAGGTTCATACCAAACCAGATCAGATAACTC
196 ACATTCATCTTCCAAATTCAATGATTGGTTTTTTGAGGTTCATACCAAACCAGATCAGATAACTC
1575334 AAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTTTTTGA
261 AAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTTTTTGA
* *
1575399 GGTTCATACCAAACCAGATCAGACAACTCAAAGAACACTTCCAAAAGATG
326 GGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATG
*
1575449 CTATGAGCACATTCATCTTCCAAATTTAATGATTGGTTTTTTGGGGTTCATACCAAACCAGATCA
1 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTTTTTGGGGTTCATACCAAACCAGATCA
1575514 GATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAATTCAATGATTGG
66 GATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAATTCAATGATTGG
1575579 TTTTTTGAGTTCATATCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGC
131 TTTTTTGAGTTCATATCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGC
*
1575644 ACATTCATCTTCCAAATTCAATGATTGGTTTTTTTAGGTTCATACCAAACCAGATCAGATAACTC
196 ACATTCATCTTCCAAATTCAATGATTGGTTTTTTGAGGTTCATACCAAACCAGATCAGATAACTC
1575709 AAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTTTTTGA
261 AAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTTTTTGA
* *
1575774 GGTTCATACCAAACCATATCAGATAACTCAAAGAACACTTCTAGAAGATG
326 GGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATG
*
1575824 CTATGAGTACATTCATCTTCCAAATTCAATGAATT-GTTTTTTGGGGTTCATACCAAACCAGATC
1 CTATGAGCACATTCATCTTCCAAATTCAATG-ATTGGTTTTTTGGGGTTCATACCAAACCAGATC
1575888 AGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAATTCAATGATTG
65 AGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAATTCAATGATTG
*
1575953 GTTTTTTGAGTTCATATTAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATG
130 GTTTTTTGAGTTCATATCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATG
1576011 TTATTGGGTC
Statistics
Matches: 904, Mismatches: 28, Indels: 10
0.96 0.03 0.01
Matches are distributed among these distances:
374 1 0.00
375 818 0.90
376 64 0.07
377 21 0.02
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (375 bp):
CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTTTTTGGGGTTCATACCAAACCAGATCA
GATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAATTCAATGATTGG
TTTTTTGAGTTCATATCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGC
ACATTCATCTTCCAAATTCAATGATTGGTTTTTTGAGGTTCATACCAAACCAGATCAGATAACTC
AAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTTTTTGA
GGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATG
Found at i:1577012 original size:1 final size:1
Alignment explanation
Indices: 1577008--1577066 Score: 55
Period size: 1 Copynumber: 59.0 Consensus size: 1
1576998 CTTGACCCCC
* * * * * * *
1577008 TTTTTCTTTTTTCTTTTCTTTTTTCTTTTCTTTTTTTTCTTTTTTTTTTCTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1577067 CTTCAAGCAT
Statistics
Matches: 44, Mismatches: 14, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 44 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (1 bp):
T
Found at i:1577026 original size:12 final size:12
Alignment explanation
Indices: 1577009--1577066 Score: 84
Period size: 12 Copynumber: 4.8 Consensus size: 12
1576999 TTGACCCCCT
1577009 TTTTCTTTTTTC
1 TTTTCTTTTTTC
1577021 TTTTCTTTTTTC
1 TTTTCTTTTTTC
1577033 TTTTCTTTTTTTTC
1 TTTTC--TTTTTTC
1577047 TTTT-TTTTTTC
1 TTTTCTTTTTTC
1577058 TTTT-TTTTT
1 TTTTCTTTTT
1577067 CTTCAAGCAT
Statistics
Matches: 44, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
11 16 0.36
12 17 0.39
14 11 0.25
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (12 bp):
TTTTCTTTTTTC
Found at i:1577035 original size:25 final size:23
Alignment explanation
Indices: 1577007--1577066 Score: 84
Period size: 26 Copynumber: 2.4 Consensus size: 23
1576997 TCTTGACCCC
1577007 CTTTTTCTTTTTTCTTTTCTTTTTT
1 CTTTTT-TTTTTTCTTTT-TTTTTT
1577032 CTTTTCTTTTTTTTCTTTTTTTTTT
1 C-TTT-TTTTTTTTCTTTTTTTTTT
1577057 CTTTTTTTTT
1 CTTTTTTTTT
1577067 CTTCAAGCAT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
23 6 0.18
24 3 0.09
25 8 0.24
26 14 0.42
27 2 0.06
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (23 bp):
CTTTTTTTTTTTCTTTTTTTTTT
Found at i:1577065 original size:20 final size:20
Alignment explanation
Indices: 1577008--1577065 Score: 82
Period size: 20 Copynumber: 2.9 Consensus size: 20
1576998 CTTGACCCCC
* *
1577008 TTTTTCTTT-TTTCTTTTCT
1 TTTTTTTTTCTTTTTTTTCT
1577027 TTTTTCTTTTCTTTTTTTTCT
1 TTTTT-TTTTCTTTTTTTTCT
1577048 TTTTTTTTTCTTTTTTTT
1 TTTTTTTTTCTTTTTTTT
1577066 TCTTCAAGCA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
19 5 0.14
20 16 0.46
21 14 0.40
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (20 bp):
TTTTTTTTTCTTTTTTTTCT
Found at i:1577066 original size:21 final size:21
Alignment explanation
Indices: 1577008--1577069 Score: 90
Period size: 21 Copynumber: 2.9 Consensus size: 21
1576998 CTTGACCCCC
1577008 TTTTTCTTTTTTCTTTTCTTTTT
1 TTTTTC-TTTTT-TTTTCTTTTT
1577031 TCTTTTC-TTTTTTTTCTTTTT
1 T-TTTTCTTTTTTTTTCTTTTT
1577052 TTTTTCTTTTTTTTTCTT
1 TTTTTCTTTTTTTTTCTT
1577070 CAAGCATAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.14
21 22 0.59
22 4 0.11
23 1 0.03
24 5 0.14
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (21 bp):
TTTTTCTTTTTTTTTCTTTTT
Found at i:1582274 original size:18 final size:18
Alignment explanation
Indices: 1582253--1582293 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
1582243 CGCCGGTCAA
**
1582253 CGGGTCAACGGGTTGGGT
1 CGGGTCAACGGGACGGGT
*
1582271 CGGGTCAATGGGACGGGT
1 CGGGTCAACGGGACGGGT
1582289 CGGGT
1 CGGGT
1582294 TGGGTTATGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.12, C:0.17, G:0.51, T:0.20
Consensus pattern (18 bp):
CGGGTCAACGGGACGGGT
Found at i:1584260 original size:44 final size:43
Alignment explanation
Indices: 1584176--1584524 Score: 531
Period size: 43 Copynumber: 8.1 Consensus size: 43
1584166 ACAAAAACGA
* * * *
1584176 TAAGGTCTTATCCTTGCACATAGCAAA-AGAGCCTGGGGAAACTG
1 TAAGG-CTTACCCTTGCACACAGCAAAGGGA-CCTGGGGGAACTG
*
1584220 TAAGGCTTACCCTTGCACACAACAAAGGGACCTGGGGGAAACTG
1 TAAGGCTTACCCTTGCACACAGCAAAGGGACCTGGGGG-AACTG
* *
1584264 TAAGGCTTACCCTTACACACAACAAAGGGACCTGGGGGAAACTG
1 TAAGGCTTACCCTTGCACACAGCAAAGGGACCTGGGGG-AACTG
*
1584308 TAAGGCTTACCCTTGCACACATCAAAGGGACCTGGGGGAACTG
1 TAAGGCTTACCCTTGCACACAGCAAAGGGACCTGGGGGAACTG
*
1584351 TAAGGCTTACCCTTGCACACATCAAAGGGACCTGGGGGAACTG
1 TAAGGCTTACCCTTGCACACAGCAAAGGGACCTGGGGGAACTG
* *
1584394 TAAGGCTTACCCTTGCACACAGTAAAGGGATCTGGGGGAACTG
1 TAAGGCTTACCCTTGCACACAGCAAAGGGACCTGGGGGAACTG
*
1584437 TAAGGGTTACCCTTGCACACAGCAAAGGGACCTGGGGGAACTG
1 TAAGGCTTACCCTTGCACACAGCAAAGGGACCTGGGGGAACTG
*
1584480 TAAGGCTTACCCTTGCACACATCAAAGGGACCT-GGGGAACTG
1 TAAGGCTTACCCTTGCACACAGCAAAGGGACCTGGGGGAACTG
1584522 TAA
1 TAA
1584525 CGGTAATTAA
Statistics
Matches: 287, Mismatches: 16, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
42 12 0.04
43 184 0.64
44 91 0.32
ACGTcount: A:0.30, C:0.24, G:0.28, T:0.19
Consensus pattern (43 bp):
TAAGGCTTACCCTTGCACACAGCAAAGGGACCTGGGGGAACTG
Found at i:1587297 original size:13 final size:13
Alignment explanation
Indices: 1587279--1587339 Score: 50
Period size: 13 Copynumber: 4.3 Consensus size: 13
1587269 GGTCAATGTC
1587279 GGTCAACGGGTCG
1 GGTCAACGGGTCG
* *
1587292 GGTCAACGAGTCA
1 GGTCAACGGGTCG
*
1587305 GGTTAACGGGTCAAGTCG
1 GGTCAAC-GG----GTCG
1587323 GGTCAACGGGTCG
1 GGTCAACGGGTCG
1587336 GGTC
1 GGTC
1587340 GGGTTATGAC
Statistics
Matches: 37, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
13 25 0.68
14 1 0.03
17 2 0.05
18 9 0.24
ACGTcount: A:0.20, C:0.21, G:0.41, T:0.18
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:1591116 original size:50 final size:50
Alignment explanation
Indices: 1591062--1591168 Score: 214
Period size: 50 Copynumber: 2.1 Consensus size: 50
1591052 TTCTTACCCC
1591062 GTTTGTGATTTGATGTTCGTTTGATTTTTTTTTATTTCATTTCCAATTTT
1 GTTTGTGATTTGATGTTCGTTTGATTTTTTTTTATTTCATTTCCAATTTT
1591112 GTTTGTGATTTGATGTTCGTTTGATTTTTTTTTATTTCATTTCCAATTTT
1 GTTTGTGATTTGATGTTCGTTTGATTTTTTTTTATTTCATTTCCAATTTT
1591162 GTTTGTG
1 GTTTGTG
1591169 TTGATCTTTG
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 57 1.00
ACGTcount: A:0.13, C:0.07, G:0.16, T:0.64
Consensus pattern (50 bp):
GTTTGTGATTTGATGTTCGTTTGATTTTTTTTTATTTCATTTCCAATTTT
Found at i:1591565 original size:29 final size:29
Alignment explanation
Indices: 1591533--1591606 Score: 121
Period size: 29 Copynumber: 2.5 Consensus size: 29
1591523 TCTCCGTTTG
1591533 TTGGACCTTGACCTTGGCTTGAGTTCTGA
1 TTGGACCTTGACCTTGGCTTGAGTTCTGA
*
1591562 TTGGACCTTGACCTTTGCTTGAGTTCTGA
1 TTGGACCTTGACCTTGGCTTGAGTTCTGA
*
1591591 CTGGACCTTGGACCTT
1 TTGGACCTT-GACCTT
1591607 CATTTTAGAC
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
29 36 0.86
30 6 0.14
ACGTcount: A:0.14, C:0.23, G:0.26, T:0.38
Consensus pattern (29 bp):
TTGGACCTTGACCTTGGCTTGAGTTCTGA
Found at i:1591704 original size:16 final size:17
Alignment explanation
Indices: 1591677--1591710 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
1591667 AATATATATA
1591677 TATATATATTTTAAAAAC
1 TATATAT-TTTTAAAAAC
*
1591695 TATATGTTTTTAAAAA
1 TATATATTTTTAAAAA
1591711 TTGTATAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (17 bp):
TATATATTTTTAAAAAC
Found at i:1591756 original size:46 final size:44
Alignment explanation
Indices: 1591681--1591767 Score: 104
Period size: 46 Copynumber: 1.9 Consensus size: 44
1591671 TATATATATA
* * *
1591681 TATATTTTAAAAACTATATGTTTTTAAAAATTGTATAATATTTGT
1 TATATTTTAAAAACTATATGATTTCAAAAATTATAT-ATATTTGT
*
1591726 TATATTTTCAAAAA-TCGTATGATTTCAAAAATTATATATATT
1 TATATTTT-AAAAACT-ATATGATTTCAAAAATTATATATATT
1591768 AAATAAGTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
45 14 0.39
46 22 0.61
ACGTcount: A:0.41, C:0.05, G:0.06, T:0.48
Consensus pattern (44 bp):
TATATTTTAAAAACTATATGATTTCAAAAATTATATATATTTGT
Found at i:1591892 original size:2 final size:2
Alignment explanation
Indices: 1591885--1591922 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
1591875 ATATTTTCAA
1591885 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1591923 TAAAACTCTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1593420 original size:20 final size:22
Alignment explanation
Indices: 1593386--1593425 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
1593376 CACTCAACCA
*
1593386 CTTTAGGTATTGAT-ATCAAGC
1 CTTTAGGTATGGATAATCAAGC
1593407 CTTT-GGTATGGATAATCAA
1 CTTTAGGTATGGATAATCAA
1593426 TCTTTTGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.30, C:0.12, G:0.20, T:0.38
Consensus pattern (22 bp):
CTTTAGGTATGGATAATCAAGC
Found at i:1593432 original size:21 final size:21
Alignment explanation
Indices: 1593386--1593440 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 21
1593376 CACTCAACCA
*
1593386 CTTTAGGTATTGAT-ATCAAG
1 CTTTTGGTATTGATAATCAAG
* * *
1593406 CCTTTGGTATGGATAATCAAT
1 CTTTTGGTATTGATAATCAAG
1593427 CTTTT-GTATTGATA
1 CTTTTGGTATTGATA
1593441 CCAGTTTTTT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
20 19 0.68
21 9 0.32
ACGTcount: A:0.27, C:0.11, G:0.18, T:0.44
Consensus pattern (21 bp):
CTTTTGGTATTGATAATCAAG
Found at i:1593455 original size:20 final size:19
Alignment explanation
Indices: 1593428--1593466 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
1593418 ATAATCAATC
* *
1593428 TTTTGTATTGATACCAGTT
1 TTTTGTATAGAGACCAGTT
1593447 TTTTAGTATAGAGACCAGTT
1 TTTT-GTATAGAGACCAGTT
1593467 CTCTAGTATG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.26, C:0.10, G:0.18, T:0.46
Consensus pattern (19 bp):
TTTTGTATAGAGACCAGTT
Found at i:1593481 original size:20 final size:20
Alignment explanation
Indices: 1593440--1593502 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
1593430 TTGTATTGAT
*
1593440 ACCAGTTTTTTAGTAT-AGAG
1 ACCAGTTTTCTAGTATGA-AG
*
1593460 ACCAGTTCTCTAGTATGAAG
1 ACCAGTTTTCTAGTATGAAG
* * *
1593480 ACTATTTTTCCAGTATGAAG
1 ACCAGTTTTCTAGTATGAAG
1593500 ACC
1 ACC
1593503 CAGTGGTTTC
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
20 34 0.97
21 1 0.03
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.35
Consensus pattern (20 bp):
ACCAGTTTTCTAGTATGAAG
Found at i:1593542 original size:20 final size:20
Alignment explanation
Indices: 1593519--1593557 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1593509 TTTCGAGACT
*
1593519 GAGCATCCGGTATCGATACC
1 GAGCATACGGTATCGATACC
*
1593539 GAGCATATGGTATCGATAC
1 GAGCATACGGTATCGATAC
1593558 TACATCCCTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (20 bp):
GAGCATACGGTATCGATACC
Found at i:1594346 original size:18 final size:19
Alignment explanation
Indices: 1594316--1594357 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
1594306 TTATCTAGCT
1594316 TGAA-AGAAGAAGAAAGAA
1 TGAAGAGAAGAAGAAAGAA
**
1594334 TGAAGAGAA-AAGAGGGAA
1 TGAAGAGAAGAAGAAAGAA
1594352 TGAAGA
1 TGAAGA
1594358 AGGAGAAGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.60, C:0.00, G:0.33, T:0.07
Consensus pattern (19 bp):
TGAAGAGAAGAAGAAAGAA
Found at i:1601746 original size:32 final size:32
Alignment explanation
Indices: 1601710--1601771 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
1601700 TAATTATCTT
1601710 TTTGAATTCATGATATAATAAAAAATAATGGA
1 TTTGAATTCATGATATAATAAAAAATAATGGA
* *
1601742 TTTGAATTCATGGTATAGTAAAAAATAATG
1 TTTGAATTCATGATATAATAAAAAATAATG
1601772 CAAGAAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.47, C:0.03, G:0.15, T:0.35
Consensus pattern (32 bp):
TTTGAATTCATGATATAATAAAAAATAATGGA
Found at i:1607641 original size:31 final size:31
Alignment explanation
Indices: 1607582--1607643 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
1607572 AAGTATCAGC
* *
1607582 TTGAACTTTAAATTTAAAATTAGGTATCAAA
1 TTGAACTTTAAATGTAAAATTAGATATCAAA
*
1607613 TTGAACTTTAAA-GTCAAATCTAGATATCAAA
1 TTGAACTTTAAATGTAAAAT-TAGATATCAAA
1607644 ATGTATATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 5 0.19
31 22 0.81
ACGTcount: A:0.45, C:0.10, G:0.10, T:0.35
Consensus pattern (31 bp):
TTGAACTTTAAATGTAAAATTAGATATCAAA
Found at i:1608027 original size:5 final size:5
Alignment explanation
Indices: 1608019--1608051 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
1608009 TCGAAAAGCA
*
1608019 CAACA CAACT CAACT CAACT CAACT CAACT CAA
1 CAACT CAACT CAACT CAACT CAACT CAACT CAA
1608052 ACAGAAGCAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.45, C:0.39, G:0.00, T:0.15
Consensus pattern (5 bp):
CAACT
Found at i:1624469 original size:17 final size:19
Alignment explanation
Indices: 1624434--1624507 Score: 57
Period size: 16 Copynumber: 3.8 Consensus size: 19
1624424 AATACATATA
*
1624434 TTAAAAATTATATATATTT
1 TTAAAAACTATATATATTT
1624453 TTAAAAACTATA-A-A-TT
1 TTAAAAACTATATATATTT
*
1624469 TCAAAATA-TATATATATATAT
1 TTAAAA-ACTATATATAT-T-T
1624490 ATTAAAAACTATACTATA
1 -TTAAAAACTATA-TATA
1624508 CAATATATAT
Statistics
Matches: 43, Mismatches: 3, Indels: 14
0.72 0.05 0.23
Matches are distributed among these distances:
16 11 0.26
17 3 0.07
18 2 0.05
19 11 0.26
20 1 0.02
21 2 0.05
22 9 0.21
23 4 0.09
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (19 bp):
TTAAAAACTATATATATTT
Found at i:1624481 original size:2 final size:2
Alignment explanation
Indices: 1624474--1624533 Score: 61
Period size: 2 Copynumber: 30.0 Consensus size: 2
1624464 AAATTTCAAA
* * *
1624474 AT AT AT AT AT AT AT AT AT -T AA AA ACT AT ACT AT AC A- AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT A-T AT A-T AT AT AT AT AT AT
1624516 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
1624534 TAAAATTAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
1 2 0.04
2 46 0.90
3 3 0.06
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (2 bp):
AT
Found at i:1624500 original size:38 final size:38
Alignment explanation
Indices: 1624442--1624529 Score: 117
Period size: 38 Copynumber: 2.3 Consensus size: 38
1624432 TATTAAAAAT
* *
1624442 TATATATAT-TTTTAAAAACTATAA-ATTTCAAAATATA
1 TATATATATATATTAAAAACTATAATA-TACAAAATATA
* *
1624479 TATATATATATATTAAAAACTATACTATACAATATATA
1 TATATATATATATTAAAAACTATAATATACAAAATATA
1624517 TATATATATATAT
1 TATATATATATAT
1624530 ATATTAAAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
37 9 0.20
38 35 0.78
39 1 0.02
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (38 bp):
TATATATATATATTAAAAACTATAATATACAAAATATA
Found at i:1637266 original size:19 final size:19
Alignment explanation
Indices: 1637213--1637259 Score: 94
Period size: 19 Copynumber: 2.5 Consensus size: 19
1637203 CTAGGCTTGC
1637213 TTGCTTGGTCAGGCTTGTA
1 TTGCTTGGTCAGGCTTGTA
1637232 TTGCTTGGTCAGGCTTGTA
1 TTGCTTGGTCAGGCTTGTA
1637251 TTGCTTGGT
1 TTGCTTGGT
1637260 TGAGCTTTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.09, C:0.15, G:0.32, T:0.45
Consensus pattern (19 bp):
TTGCTTGGTCAGGCTTGTA
Found at i:1638222 original size:2 final size:2
Alignment explanation
Indices: 1638215--1638254 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
1638205 TCGAATTTTA
1638215 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T A- AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1638255 TAACAATTGT
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 2 0.06
2 34 0.94
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1642164 original size:21 final size:21
Alignment explanation
Indices: 1642138--1642182 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
1642128 GAAAATAATT
*
1642138 GATCCCTTGACCAAAGGGATC
1 GATCCCATGACCAAAGGGATC
1642159 GATCCCATGACCAAAGGGATC
1 GATCCCATGACCAAAGGGATC
1642180 GAT
1 GAT
1642183 ACCAAAGTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.31, C:0.27, G:0.24, T:0.18
Consensus pattern (21 bp):
GATCCCATGACCAAAGGGATC
Found at i:1642227 original size:20 final size:20
Alignment explanation
Indices: 1642202--1642256 Score: 110
Period size: 20 Copynumber: 2.8 Consensus size: 20
1642192 TTTGTCTAGC
1642202 AAAGGATCGATCCCTTTTCA
1 AAAGGATCGATCCCTTTTCA
1642222 AAAGGATCGATCCCTTTTCA
1 AAAGGATCGATCCCTTTTCA
1642242 AAAGGATCGATCCCT
1 AAAGGATCGATCCCT
1642257 CAAAAAAAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.27
Consensus pattern (20 bp):
AAAGGATCGATCCCTTTTCA
Found at i:1642264 original size:20 final size:20
Alignment explanation
Indices: 1642202--1642296 Score: 75
Period size: 20 Copynumber: 4.7 Consensus size: 20
1642192 TTTGTCTAGC
***
1642202 AAAGGATCGATCCCTTTTCA
1 AAAGGATCGATCCCTTAAAA
***
1642222 AAAGGATCGATCCCTTTTCA
1 AAAGGATCGATCCCTTAAAA
*
1642242 AAAGGATCGATCCCTCAAAA
1 AAAGGATCGATCCCTTAAAA
* *
1642262 AAAAGATTGATCCC-TAGACAA
1 AAAGGATCGATCCCTTA-A-AA
*
1642283 AAAGAATCGATCCC
1 AAAGGATCGATCCC
1642297 AAACTTTCTG
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
19 1 0.02
20 49 0.78
21 13 0.21
ACGTcount: A:0.39, C:0.24, G:0.15, T:0.22
Consensus pattern (20 bp):
AAAGGATCGATCCCTTAAAA
Found at i:1647115 original size:36 final size:36
Alignment explanation
Indices: 1647065--1647153 Score: 135
Period size: 35 Copynumber: 2.5 Consensus size: 36
1647055 TTTTCCCGTA
* * *
1647065 TCAGCACTTTCGATTCAAAGTGAACGGAAGGAAGCT
1 TCAGCACTTTCGATTCAAAGTGAACAGAAGAAAGCG
*
1647101 TCGGCACTTTCGATTC-AAGTGAACAGAAGAAAGCG
1 TCAGCACTTTCGATTCAAAGTGAACAGAAGAAAGCG
1647136 TCAGCACTTTCGATTCAA
1 TCAGCACTTTCGATTCAA
1647154 TTGTTCATCT
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
35 31 0.66
36 16 0.34
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.24
Consensus pattern (36 bp):
TCAGCACTTTCGATTCAAAGTGAACAGAAGAAAGCG
Found at i:1647259 original size:6 final size:6
Alignment explanation
Indices: 1647250--1647280 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
1647240 GTGTAATGCC
1647250 ATGCAT ATGCAT ATGCAT ATGCAT CATGCAT
1 ATGCAT ATGCAT ATGCAT ATGCAT -ATGCAT
1647281 GTTCAGGTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 18 0.75
7 6 0.25
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.32
Consensus pattern (6 bp):
ATGCAT
Found at i:1650605 original size:18 final size:18
Alignment explanation
Indices: 1650582--1650624 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
1650572 CTTTAGATTA
*
1650582 TTTATTTAATTATTTTCT
1 TTTATTTAATTATTATCT
*
1650600 TTTATTTAATTCTTATCT
1 TTTATTTAATTATTATCT
1650618 TTTATTT
1 TTTATTT
1650625 TAAAAACAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTATTTAATTATTATCT
Found at i:1650699 original size:19 final size:19
Alignment explanation
Indices: 1650675--1650722 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
1650665 TTATTTATTA
1650675 ATTTATTATTTCTCT-TTTT
1 ATTTATTATTTCT-TATTTT
*
1650694 ATTTATTATTACTTATTTT
1 ATTTATTATTTCTTATTTT
1650713 ATTT-TTATTT
1 ATTTATTATTT
1650723 TTAAATTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 6 0.23
19 20 0.77
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.73
Consensus pattern (19 bp):
ATTTATTATTTCTTATTTT
Found at i:1656087 original size:5 final size:5
Alignment explanation
Indices: 1656077--1656170 Score: 75
Period size: 5 Copynumber: 18.2 Consensus size: 5
1656067 CATTCCGATC
***
1656077 TATTT TATTT TATTT TATTT CGT-TTT TACTTT TATTT TATTT TCAGCA
1 TATTT TATTT TATTT TATTT --TATTT TA-TTT TATTT TATTT T-ATTT
* * *
1656125 AACTT TATTT TCATTA TA-TT TATTT TATTT TATTT TATTT TATTT T
1 TATTT TATTT T-ATTT TATTT TATTT TATTT TATTT TATTT TATTT T
1656171 TCTCTGAACA
Statistics
Matches: 71, Mismatches: 11, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
4 4 0.06
5 53 0.75
6 13 0.18
7 1 0.01
ACGTcount: A:0.21, C:0.06, G:0.02, T:0.70
Consensus pattern (5 bp):
TATTT
Found at i:1659073 original size:18 final size:18
Alignment explanation
Indices: 1659050--1659092 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
1659040 TTTTAGATTA
1659050 TTTATTTAATTATTT-TCT
1 TTTATTTAATT-TTTATCT
1659068 TTTATTTAATTTTTATCT
1 TTTATTTAATTTTTATCT
1659086 TTTATTT
1 TTTATTT
1659093 TAAAAACAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 3 0.12
18 21 0.88
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTATTTAATTTTTATCT
Found at i:1659185 original size:15 final size:14
Alignment explanation
Indices: 1659165--1659219 Score: 60
Period size: 15 Copynumber: 3.9 Consensus size: 14
1659155 TCCACTTTTA
1659165 TTTATTATTACTTAT
1 TTTATTATTA-TTAT
1659180 TTTATTATTATTAT
1 TTTATTATTATTAT
*
1659194 TTTAAATTATAATTA-
1 TTT--ATTATTATTAT
1659209 TTTATT-TTATT
1 TTTATTATTATT
1659220 TCAAACTTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
12 4 0.11
13 3 0.08
14 7 0.19
15 13 0.36
16 9 0.25
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (14 bp):
TTTATTATTATTAT
Found at i:1660978 original size:4 final size:4
Alignment explanation
Indices: 1660969--1661007 Score: 60
Period size: 4 Copynumber: 9.8 Consensus size: 4
1660959 TTATACTAGA
* *
1660969 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AGAT ATAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
1661008 GATATATTCT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.26
Consensus pattern (4 bp):
AAAT
Found at i:1662647 original size:81 final size:82
Alignment explanation
Indices: 1662554--1662709 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 82
1662544 AAACTTGTAC
* * * *
1662554 TTTAGTGGCGTTTTAAGCATAAACGCCGCTAAATAC-TATACTTTAGTGGCGTTTTATATAAACG
1 TTTAGTGGCGTTTTAAGCATAAACGCCGCTAAAGACTTACACTTTAGTAGCCTTTTATATAAACG
1662618 CCGCCAAATACACATAA
66 CCGCCAAATACACATAA
* *
1662635 TTTATTGGCGTTTTAATCATAAACGCCGCTAAAGACTTACACTTTAGTAGCCTTTTATATAAACG
1 TTTAGTGGCGTTTTAAGCATAAACGCCGCTAAAGACTTACACTTTAGTAGCCTTTTATATAAACG
*
1662700 CCGCTAAATA
66 CCGCCAAATA
1662710 AATAAAGCCA
Statistics
Matches: 67, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
81 33 0.49
82 34 0.51
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.33
Consensus pattern (82 bp):
TTTAGTGGCGTTTTAAGCATAAACGCCGCTAAAGACTTACACTTTAGTAGCCTTTTATATAAACG
CCGCCAAATACACATAA
Found at i:1662705 original size:40 final size:39
Alignment explanation
Indices: 1662373--1662709 Score: 203
Period size: 41 Copynumber: 8.3 Consensus size: 39
1662363 TTGAAAAAAA
* * *
1662373 GCCGGTAAATACTCATACTTT-GTGGCGTTTTTGTACAAAC
1 GCCGCTAAATACT-ATACTTTAGTGGCG-TTTTATATAAAC
* *
1662413 GCCGCTAAAAAC-ACTCACGTTAGTGGC-TTTTATATGTAAAC
1 GCCGCTAAATACTA-T-ACTTTAGTGGCGTTTTATA--TAAAC
* * * * * * *
1662454 GCCGCTAAATATTATATTTTAGTGTCATTTTTTGAACAAAA
1 GCCGCTAAATACTATACTTTAGTGGCGTTTTAT--ATAAAC
* * * * ** * *
1662495 TCCGGTAAATACTAGTATTTTGGTGGTATTAGTATACAAAC
1 GCCGCTAAATACTA-TACTTTAGTGGCGTT-TTATATAAAC
* * * * *
1662536 GCGGCCAAAAACTTGTACTTTAGTGGCGTTTTAAGCATAAAC
1 GCCGCTAAATAC-TATACTTTAGTGGCGTTTT-A-TATAAAC
1662578 GCCGCTAAATACTATACTTTAGTGGCGTTTTATATAAAC
1 GCCGCTAAATACTATACTTTAGTGGCGTTTTATATAAAC
* * * *
1662617 GCCGCCAAATACACATAATTTATTGGCGTTTTAATCATAAAC
1 GCCGCTAAATAC-TATACTTTAGTGGCGTTTT-AT-ATAAAC
* * * *
1662659 GCCGCTAAAGACTTACACTTTAGTAGCCTTTTATATAAAC
1 GCCGCTAAATAC-TATACTTTAGTGGCGTTTTATATAAAC
1662699 GCCGCTAAATA
1 GCCGCTAAATA
1662710 AATAAAGCCA
Statistics
Matches: 226, Mismatches: 54, Indels: 34
0.72 0.17 0.11
Matches are distributed among these distances:
38 1 0.00
39 24 0.11
40 56 0.25
41 85 0.38
42 57 0.25
43 3 0.01
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (39 bp):
GCCGCTAAATACTATACTTTAGTGGCGTTTTATATAAAC
Found at i:1666871 original size:42 final size:43
Alignment explanation
Indices: 1666820--1666924 Score: 167
Period size: 43 Copynumber: 2.5 Consensus size: 43
1666810 TTTGTATAAA
* *
1666820 AAAAACGCCGCTATAGATCTA-ACCTTTTCCGGCTTTTGTTTC
1 AAAAACGCCGCTATAGATCTAGACCTTTTCCGGCGTTTGTTCC
* *
1666862 AAAAACGCCGCTATAGATATAGACCTTTTGCGGCGTTTGTTCC
1 AAAAACGCCGCTATAGATCTAGACCTTTTCCGGCGTTTGTTCC
1666905 AAAAACGCCGCTATAGATCT
1 AAAAACGCCGCTATAGATCT
1666925 TGGCCTATTG
Statistics
Matches: 57, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
42 20 0.35
43 37 0.65
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (43 bp):
AAAAACGCCGCTATAGATCTAGACCTTTTCCGGCGTTTGTTCC
Found at i:1666936 original size:43 final size:43
Alignment explanation
Indices: 1666820--1666942 Score: 158
Period size: 43 Copynumber: 2.9 Consensus size: 43
1666810 TTTGTATAAA
* * * *
1666820 AAAAACGCCGCTATAGATC-TAACCTTTTCCGGCTTTTGTTTC
1 AAAAACGCCGCTATAGATCTTGACCTTTTGCGGCGTTTGTTCC
* *
1666862 AAAAACGCCGCTATAGATATAGACCTTTTGCGGCGTTTGTTCC
1 AAAAACGCCGCTATAGATCTTGACCTTTTGCGGCGTTTGTTCC
* * *
1666905 AAAAACGCCGCTATAGATCTTGGCCTATTGCGACGTTT
1 AAAAACGCCGCTATAGATCTTGACCTTTTGCGGCGTTT
1666943 TTTGTTCTCA
Statistics
Matches: 69, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
42 18 0.26
43 51 0.74
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (43 bp):
AAAAACGCCGCTATAGATCTTGACCTTTTGCGGCGTTTGTTCC
Found at i:1669990 original size:54 final size:53
Alignment explanation
Indices: 1669932--1670184 Score: 323
Period size: 54 Copynumber: 4.7 Consensus size: 53
1669922 GTAATTCAAA
* * * * *
1669932 AACATATTATGAACTCAGTGGGTTGCACACATAGTGCCTAAACAGTTGTTCATC
1 AACATATGATGAA-TCAGTGAGTTGCACACTTAGTGCCGAAACGGTTGTTCATC
*
1669986 AACATATGATGAATTTC-GTGAGTTGCACACTTAGTGTCGAAACGGTTGTTCATC
1 AACATATGATGAA--TCAGTGAGTTGCACACTTAGTGCCGAAACGGTTGTTCATC
* * *
1670040 AACATATGATGAATTATGTGAGTTGCACACTTAGTACCGAAATGGTTGTTCATC
1 AACATATGATGAATCA-GTGAGTTGCACACTTAGTGCCGAAACGGTTGTTCATC
*
1670094 AACATATGATGAATTCCGTGAGTTGCACACTTAGTGCCGAAACGGTTGTTCATC
1 AACATATGATGAA-TCAGTGAGTTGCACACTTAGTGCCGAAACGGTTGTTCATC
*
1670148 AACATATGATGAAT-ACGTGAATTGCACA-TATAGTGCC
1 AACATATGATGAATCA-GTGAGTTGCACACT-TAGTGCC
1670185 TATAGTACAC
Statistics
Matches: 176, Mismatches: 17, Indels: 13
0.85 0.08 0.06
Matches are distributed among these distances:
52 2 0.01
53 19 0.11
54 152 0.86
55 3 0.02
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.31
Consensus pattern (53 bp):
AACATATGATGAATCAGTGAGTTGCACACTTAGTGCCGAAACGGTTGTTCATC
Found at i:1670088 original size:108 final size:107
Alignment explanation
Indices: 1669953--1670181 Score: 359
Period size: 108 Copynumber: 2.1 Consensus size: 107
1669943 AACTCAGTGG
* * *
1669953 GTTGCACACATAGTGCCTAAACAGTTGTTCATCAACATATGATGAATTTCGTGAGTTGCACACTT
1 GTTGCACACATAGTACCGAAACAGTTGTTCATCAACATATGATGAATTCCGTGAGTTGCACACTT
* *
1670018 AGTGTCGAAACGGTTGTTCATCAACATATGATGAATTATGTGA
66 AGTGCCGAAACGGTTGTTCATCAACATATGATGAA-TACGTGA
* **
1670061 GTTGCACACTTAGTACCGAAATGGTTGTTCATCAACATATGATGAATTCCGTGAGTTGCACACTT
1 GTTGCACACATAGTACCGAAACAGTTGTTCATCAACATATGATGAATTCCGTGAGTTGCACACTT
1670126 AGTGCCGAAACGGTTGTTCATCAACATATGATGAATACGTGA
66 AGTGCCGAAACGGTTGTTCATCAACATATGATGAATACGTGA
* *
1670168 ATTGCACATATAGT
1 GTTGCACACATAGT
1670182 GCCTATAGTA
Statistics
Matches: 110, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
107 17 0.15
108 93 0.85
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (107 bp):
GTTGCACACATAGTACCGAAACAGTTGTTCATCAACATATGATGAATTCCGTGAGTTGCACACTT
AGTGCCGAAACGGTTGTTCATCAACATATGATGAATACGTGA
Found at i:1676229 original size:54 final size:54
Alignment explanation
Indices: 1676083--1676367 Score: 363
Period size: 54 Copynumber: 5.3 Consensus size: 54
1676073 TTCGTTGCGA
* * * ** * * * * *
1676083 TGCACACATAGTGCCTATACGGTCATTCATAAACATATTATGAACTCCATGGGT
1 TGCACACTTAGTGCCGAAACGGTTGTTCATCAACATATGATGAATTCCGTGAGT
* *
1676137 TGCACACATAGTGCCTAAACGGTTGTTCATCAACATATGATGAATTCCGTGAGT
1 TGCACACTTAGTGCCGAAACGGTTGTTCATCAACATATGATGAATTCCGTGAGT
* * **
1676191 TGCACACTTAGTGTCAAAACGGTTGTTCATCAACATATGATGAATTTTGTGAGT
1 TGCACACTTAGTGCCGAAACGGTTGTTCATCAACATATGATGAATTCCGTGAGT
*
1676245 TGCACACTTAGTGCCGAAACGGTTGTTCATCAACATATGATGAATTCAGTGAGT
1 TGCACACTTAGTGCCGAAACGGTTGTTCATCAACATATGATGAATTCCGTGAGT
* * * * *
1676299 TACACACTTGGTGTCGAAATGGTTGTTCATCAACATATGATGAATTCCGTGAAT
1 TGCACACTTAGTGCCGAAACGGTTGTTCATCAACATATGATGAATTCCGTGAGT
*
1676353 TGCACACATAGTGCC
1 TGCACACTTAGTGCC
1676368 TATAGTACAC
Statistics
Matches: 204, Mismatches: 27, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 204 1.00
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (54 bp):
TGCACACTTAGTGCCGAAACGGTTGTTCATCAACATATGATGAATTCCGTGAGT
Found at i:1688547 original size:32 final size:32
Alignment explanation
Indices: 1688511--1688573 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
1688501 GAAAAAGACC
1688511 GAGCATACAGGCATATCAGTGAAATTCAACCA
1 GAGCATACAGGCATATCAGTGAAATTCAACCA
1688543 GAGCATACAGGCATATCAGTGAAATTCAACC
1 GAGCATACAGGCATATCAGTGAAATTCAACC
1688574 CGACATCGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.40, C:0.22, G:0.19, T:0.19
Consensus pattern (32 bp):
GAGCATACAGGCATATCAGTGAAATTCAACCA
Found at i:1691942 original size:21 final size:21
Alignment explanation
Indices: 1691918--1691957 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
1691908 TCCGAGTTAC
1691918 CCGCGACGGCCGCAATAGCGT
1 CCGCGACGGCCGCAATAGCGT
1691939 CCGCGACGGCCGCAATAGC
1 CCGCGACGGCCGCAATAGC
1691958 ACCCGCAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.20, C:0.40, G:0.33, T:0.07
Consensus pattern (21 bp):
CCGCGACGGCCGCAATAGCGT
Found at i:1691963 original size:21 final size:21
Alignment explanation
Indices: 1691916--1691963 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
1691906 CGTCCGAGTT
1691916 ACCCGCGACGGCCGCAATAGC
1 ACCCGCGACGGCCGCAATAGC
**
1691937 GTCCGCGACGGCCGCAATAGC
1 ACCCGCGACGGCCGCAATAGC
1691958 ACCCGC
1 ACCCGC
1691964 AATCACGGTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.21, C:0.44, G:0.29, T:0.06
Consensus pattern (21 bp):
ACCCGCGACGGCCGCAATAGC
Found at i:1703781 original size:62 final size:62
Alignment explanation
Indices: 1703705--1703840 Score: 272
Period size: 62 Copynumber: 2.2 Consensus size: 62
1703695 TCTGAGTTAG
1703705 GGTATCGATACTAACCAGGGTATCTATACCAAATTCTGATTCGATGTTATAAAAATTTCCTT
1 GGTATCGATACTAACCAGGGTATCTATACCAAATTCTGATTCGATGTTATAAAAATTTCCTT
1703767 GGTATCGATACTAACCAGGGTATCTATACCAAATTCTGATTCGATGTTATAAAAATTTCCTT
1 GGTATCGATACTAACCAGGGTATCTATACCAAATTCTGATTCGATGTTATAAAAATTTCCTT
1703829 GGTATCGATACT
1 GGTATCGATACT
1703841 CTTATGGGGA
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 74 1.00
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (62 bp):
GGTATCGATACTAACCAGGGTATCTATACCAAATTCTGATTCGATGTTATAAAAATTTCCTT
Found at i:1703894 original size:18 final size:19
Alignment explanation
Indices: 1703849--1703898 Score: 66
Period size: 18 Copynumber: 2.6 Consensus size: 19
1703839 CTCTTATGGG
*
1703849 GAGTATCGATACTCTACCCT
1 GAGTATCGATACTC-ACCAT
*
1703869 GGGTATCGATACTC-CCAT
1 GAGTATCGATACTCACCAT
1703887 GAGTATCGATAC
1 GAGTATCGATAC
1703899 CAATACCCAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
18 14 0.52
20 13 0.48
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (19 bp):
GAGTATCGATACTCACCAT
Found at i:1703907 original size:22 final size:23
Alignment explanation
Indices: 1703848--1703925 Score: 75
Period size: 24 Copynumber: 3.7 Consensus size: 23
1703838 ACTCTTATGG
1703848 GGAGTATCGATACTC--TACCC-T
1 GGAGTATCGATAC-CAATACCCAT
1703869 GG-GTATCGATA-C--T-CCCAT
1 GGAGTATCGATACCAATACCCAT
1703887 -GAGTATCGATACCAATACCCAT
1 GGAGTATCGATACCAATACCCAT
1703909 GGGAGTATCGATACCAA
1 -GGAGTATCGATACCAA
1703926 ATTTGGATTC
Statistics
Matches: 49, Mismatches: 0, Indels: 13
0.79 0.00 0.21
Matches are distributed among these distances:
17 4 0.08
18 12 0.24
19 1 0.02
20 9 0.18
21 3 0.06
22 5 0.10
24 15 0.31
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (23 bp):
GGAGTATCGATACCAATACCCAT
Found at i:1704901 original size:18 final size:18
Alignment explanation
Indices: 1704878--1704913 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
1704868 ACATATCACA
*
1704878 TATGTCCCGAAGGACCAC
1 TATGTCACGAAGGACCAC
1704896 TATGTCACGAAGGACCAC
1 TATGTCACGAAGGACCAC
1704914 GTAGAACCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.31, G:0.22, T:0.17
Consensus pattern (18 bp):
TATGTCACGAAGGACCAC
Found at i:1705908 original size:35 final size:35
Alignment explanation
Indices: 1705862--1705933 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
1705852 GTACACTCTG
*
1705862 TAGTGTATCGGTATATTCCTTAACGTGTGTATCGA
1 TAGTGTATCGGTACATTCCTTAACGTGTGTATCGA
1705897 TAGTGTATCGGTACATTCCTTAACGTGTGTATCGA
1 TAGTGTATCGGTACATTCCTTAACGTGTGTATCGA
1705932 TA
1 TA
1705934 CACTACCTAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.24, C:0.15, G:0.22, T:0.39
Consensus pattern (35 bp):
TAGTGTATCGGTACATTCCTTAACGTGTGTATCGA
Found at i:1710555 original size:21 final size:22
Alignment explanation
Indices: 1710531--1710578 Score: 53
Period size: 23 Copynumber: 2.2 Consensus size: 22
1710521 CACCAAAGTG
*
1710531 CCAC-ATAAATGTCCCGAAGGA
1 CCACTATAAATGTACCGAAGGA
* *
1710552 CCACCTATATATGTACTGAAGGA
1 CCA-CTATAAATGTACCGAAGGA
1710575 CCAC
1 CCAC
1710579 GTAGAGTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
21 3 0.14
22 2 0.09
23 17 0.77
ACGTcount: A:0.35, C:0.29, G:0.17, T:0.19
Consensus pattern (22 bp):
CCACTATAAATGTACCGAAGGA
Found at i:1710628 original size:21 final size:21
Alignment explanation
Indices: 1710603--1710672 Score: 104
Period size: 21 Copynumber: 3.3 Consensus size: 21
1710593 TATGACTGTG
*
1710603 TATATGTTCCAAAGGACCAAA
1 TATATGTTCCAAAGGACCACA
* *
1710624 TATATGTCCCAAAGGACCGCA
1 TATATGTTCCAAAGGACCACA
*
1710645 TATATGTTCCAAATGACCACA
1 TATATGTTCCAAAGGACCACA
1710666 TATATGT
1 TATATGT
1710673 CCCGAAAGAC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.37, C:0.21, G:0.14, T:0.27
Consensus pattern (21 bp):
TATATGTTCCAAAGGACCACA
Found at i:1710650 original size:42 final size:42
Alignment explanation
Indices: 1710603--1710690 Score: 133
Period size: 42 Copynumber: 2.1 Consensus size: 42
1710593 TATGACTGTG
1710603 TATATGTTCCAAAGGACCAAATATATGTCCC-AAAGGACCGCA
1 TATATGTTCCAAAGGACCAAATATATGTCCCGAAA-GACCGCA
* * *
1710645 TATATGTTCCAAATGACCACATATATGTCCCGAAAGACCGCG
1 TATATGTTCCAAAGGACCAAATATATGTCCCGAAAGACCGCA
1710687 TATA
1 TATA
1710691 CCCTCGACTC
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
42 39 0.93
43 3 0.07
ACGTcount: A:0.36, C:0.24, G:0.16, T:0.24
Consensus pattern (42 bp):
TATATGTTCCAAAGGACCAAATATATGTCCCGAAAGACCGCA
Found at i:1710683 original size:21 final size:21
Alignment explanation
Indices: 1710603--1710680 Score: 102
Period size: 21 Copynumber: 3.7 Consensus size: 21
1710593 TATGACTGTG
* *
1710603 TATATGTTCCAAAGGACCAAA
1 TATATGTCCCAAAGGACCACA
*
1710624 TATATGTCCCAAAGGACCGCA
1 TATATGTCCCAAAGGACCACA
* *
1710645 TATATGTTCCAAATGACCACA
1 TATATGTCCCAAAGGACCACA
1710666 TATATGTCCCGAAAG
1 TATATGTCCC-AAAG
1710681 ACCGCGTATA
Statistics
Matches: 48, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
21 45 0.94
22 3 0.06
ACGTcount: A:0.37, C:0.23, G:0.15, T:0.24
Consensus pattern (21 bp):
TATATGTCCCAAAGGACCACA
Found at i:1710690 original size:21 final size:21
Alignment explanation
Indices: 1710603--1710690 Score: 97
Period size: 21 Copynumber: 4.2 Consensus size: 21
1710593 TATGACTGTG
* **
1710603 TATATGTTCCAAAGGACCAAA
1 TATATGTCCCAAAGGACCGCA
1710624 TATATGTCCCAAAGGACCGCA
1 TATATGTCCCAAAGGACCGCA
* * *
1710645 TATATGTTCCAAATGACCACA
1 TATATGTCCCAAAGGACCGCA
*
1710666 TATATGTCCCGAAA-GACCGCG
1 TATATGTCCC-AAAGGACCGCA
1710687 TATA
1 TATA
1710691 CCCTCGACTC
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
21 54 0.95
22 3 0.05
ACGTcount: A:0.36, C:0.24, G:0.16, T:0.24
Consensus pattern (21 bp):
TATATGTCCCAAAGGACCGCA
Found at i:1714634 original size:41 final size:41
Alignment explanation
Indices: 1714579--1714941 Score: 392
Period size: 41 Copynumber: 8.8 Consensus size: 41
1714569 CAAAATACTA
* * *
1714579 TACTTTAGTGGCGTTTATATAAAAACGCCGCTAAAGAATCG
1 TACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGAATCG
* * *
1714620 TAATGTAGTGGCGTTTTTATACAAACGCCGCTATA-AACTAG
1 TACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGAA-TCG
* **
1714661 TATTTTAGTGGCGTTTTTATACAAACGCTACTATAGACA-CG
1 TACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGA-ATCG
* * * * *
1714702 TACTTTTGTGGCGTTTTAATACCAAACGACGCTATAGACTCA
1 TACTTTAGTGGCGTTTTTATA-CAAACGCCGCTATAGAATCG
* *
1714744 TACTTTAGTGGCATTTTTACACAAACGCCGCTATAGACA-CG
1 TACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGA-ATCG
* * *
1714785 TACTTTTGTGGCGTTTTAATACCAAACGCCGCTATAGATTCG
1 TACTTTAGTGGCGTTTTTATA-CAAACGCCGCTATAGAATCG
* *
1714827 TACTTTAGTGGCGTTTTTACACAAATGCCGCTATAGACA-CG
1 TACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGA-ATCG
* * * *
1714868 TACTTTTGTGGCGTTTTAATAACAAACGCCGCTATAGACTCA
1 TACTTTAGTGGCGTTTTTAT-ACAAACGCCGCTATAGAATCG
*
1714910 TACTTTAGTGGCGTTTTAATACCAAACGCCGC
1 TACTTTAGTGGCGTTTTTATA-CAAACGCCGC
1714942 AATTGTCATA
Statistics
Matches: 267, Mismatches: 43, Indels: 23
0.80 0.13 0.07
Matches are distributed among these distances:
40 2 0.01
41 150 0.56
42 114 0.43
43 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.33
Consensus pattern (41 bp):
TACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGAATCG
Found at i:1714761 original size:83 final size:83
Alignment explanation
Indices: 1714560--1714941 Score: 502
Period size: 83 Copynumber: 4.6 Consensus size: 83
1714550 CGTTTTTGAA
* * * * * * *
1714560 CAAACGCCGCAAAATACT-ATACTTTAGTGGCGTTTATATAAAAACGCCGCTAAAGA-ATCGTAA
1 CAAACGCCGCTATAGACTCATACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACA-CGTAC
* * *
1714623 TGTAGTGGCGTTTTTATA-
65 TTTTGTGGCGTTTTAATAC
* * **
1714641 CAAACGCCGCTATAAACT-AGTATTTTAGTGGCGTTTTTATACAAACGCTACTATAGACACGTAC
1 CAAACGCCGCTATAGACTCA-TACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACACGTAC
1714705 TTTTGTGGCGTTTTAATAC
65 TTTTGTGGCGTTTTAATAC
* * *
1714724 CAAACGACGCTATAGACTCATACTTTAGTGGCATTTTTACACAAACGCCGCTATAGACACGTACT
1 CAAACGCCGCTATAGACTCATACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACACGTACT
1714789 TTTGTGGCGTTTTAATAC
66 TTTGTGGCGTTTTAATAC
* * * *
1714807 CAAACGCCGCTATAGATTCGTACTTTAGTGGCGTTTTTACACAAATGCCGCTATAGACACGTACT
1 CAAACGCCGCTATAGACTCATACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACACGTACT
*
1714872 TTTGTGGCGTTTTAATAA
66 TTTGTGGCGTTTTAATAC
*
1714890 CAAACGCCGCTATAGACTCATACTTTAGTGGCGTTTTAATACCAAACGCCGC
1 CAAACGCCGCTATAGACTCATACTTTAGTGGCGTTTTTATA-CAAACGCCGC
1714942 AATTGTCATA
Statistics
Matches: 265, Mismatches: 31, Indels: 7
0.87 0.10 0.02
Matches are distributed among these distances:
81 16 0.06
82 50 0.19
83 189 0.71
84 10 0.04
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (83 bp):
CAAACGCCGCTATAGACTCATACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACACGTACT
TTTGTGGCGTTTTAATAC
Found at i:1719671 original size:21 final size:21
Alignment explanation
Indices: 1719629--1719687 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
1719619 TGATTTATTA
**
1719629 TTATGGATTTCATTTTTCTTG
1 TTATGGATTTCAAGTTTCTTG
* *
1719650 TTATGGATTTTAAGTTTGTTG
1 TTATGGATTTCAAGTTTCTTG
* *
1719671 TTATCGATGTCAAGTTT
1 TTATGGATTTCAAGTTT
1719688 ATTGGAAAAT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.19, C:0.07, G:0.19, T:0.56
Consensus pattern (21 bp):
TTATGGATTTCAAGTTTCTTG
Found at i:1719904 original size:43 final size:42
Alignment explanation
Indices: 1719840--1720064 Score: 263
Period size: 43 Copynumber: 5.3 Consensus size: 42
1719830 ACCAGATCTT
* *
1719840 TTGCGGTGTTTGTGGGAAAAACGCCGCTAAATATCAAGACCTA
1 TTGCGGCGTTTGT-GGAAAAACGCCGCTAAATATCAACACCTA
* ** *
1719883 TTACATCCTTTGTGGACAAAACGCCGCTAAATATCAACACCTA
1 TTGCGGCGTTTGTGGA-AAAACGCCGCTAAATATCAACACCTA
* *
1719926 TTGCGGCGTTTGTGGAAAAAACGCCGCTAAATCTCAACACATA
1 TTGCGGCGTTTGTGG-AAAAACGCCGCTAAATATCAACACCTA
* *
1719969 TTGCGGCGTTTGTTGGAAAAA-GCCACCAAATATCAACACCTA
1 TTGCGGCGTTTG-TGGAAAAACGCCGCTAAATATCAACACCTA
* * ***
1720011 TTGCGGCGTTTGTTGGACAAACGCCGCTATATATCGTTACCTA
1 TTGCGGCGTTTG-TGGAAAAACGCCGCTAAATATCAACACCTA
1720054 TTGCGGCGTTT
1 TTGCGGCGTTT
1720065 TTTGTTACCA
Statistics
Matches: 155, Mismatches: 23, Indels: 8
0.83 0.12 0.04
Matches are distributed among these distances:
42 40 0.26
43 111 0.72
44 4 0.03
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (42 bp):
TTGCGGCGTTTGTGGAAAAACGCCGCTAAATATCAACACCTA
Found at i:1720056 original size:85 final size:86
Alignment explanation
Indices: 1719840--1720064 Score: 267
Period size: 85 Copynumber: 2.6 Consensus size: 86
1719830 ACCAGATCTT
* * * * ** *
1719840 TTGCGGTGTTTGTGGGAAAAACGCCGCTAAATATCAAGACCTATTACATCCTTTGTGGACAAAAC
1 TTGCGGCGTTTGTTGGAAAAACGCCGCTAAATATCAACACCTATTGCGGCGTTTGTGGACAAAAC
* *
1719905 GCCGCTAAATATCAACACCTA
66 GCCACCAAATATCAACACCTA
* *
1719926 TTGCGGCGTTTG-TGGAAAAAACGCCGCTAAATCTCAACACATATTGCGGCGTTTGTTGGA-AAA
1 TTGCGGCGTTTGTTGG-AAAAACGCCGCTAAATATCAACACCTATTGCGGCGTTTG-TGGACAAA
1719989 A-GCCACCAAATATCAACACCTA
64 ACGCCACCAAATATCAACACCTA
* * ***
1720011 TTGCGGCGTTTGTTGGACAAACGCCGCTATATATCGTTACCTATTGCGGCGTTT
1 TTGCGGCGTTTGTTGGAAAAACGCCGCTAAATATCAACACCTATTGCGGCGTTT
1720065 TTTGTTACCA
Statistics
Matches: 118, Mismatches: 18, Indels: 7
0.83 0.13 0.05
Matches are distributed among these distances:
85 64 0.54
86 50 0.42
87 4 0.03
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (86 bp):
TTGCGGCGTTTGTTGGAAAAACGCCGCTAAATATCAACACCTATTGCGGCGTTTGTGGACAAAAC
GCCACCAAATATCAACACCTA
Found at i:1730141 original size:23 final size:23
Alignment explanation
Indices: 1730111--1730156 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
1730101 TCATATAAAA
*
1730111 TGCACCAAAGTGCCACGTAGAAT
1 TGCACCAAAGTGCCACATAGAAT
1730134 TGCACCAAAGTGCCACATAGAAT
1 TGCACCAAAGTGCCACATAGAAT
1730157 GTCCCGAAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.37, C:0.26, G:0.20, T:0.17
Consensus pattern (23 bp):
TGCACCAAAGTGCCACATAGAAT
Found at i:1730203 original size:23 final size:23
Alignment explanation
Indices: 1730146--1730213 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 23
1730136 CACCAAAGTG
*
1730146 CCACATAG-AATGTCCCGAA-GA
1 CCACCTAGAAATGTCCCGAAGGA
* *
1730167 CCACCTATATATGTCCCGAAGGA
1 CCACCTAGAAATGTCCCGAAGGA
* * *
1730190 CCGCGTAGAAATGTCCCAAAGGA
1 CCACCTAGAAATGTCCCGAAGGA
1730213 C
1 C
1730214 TACGTATATT
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
21 6 0.16
22 10 0.27
23 21 0.57
ACGTcount: A:0.34, C:0.29, G:0.21, T:0.16
Consensus pattern (23 bp):
CCACCTAGAAATGTCCCGAAGGA
Found at i:1730229 original size:23 final size:22
Alignment explanation
Indices: 1730203--1730310 Score: 87
Period size: 21 Copynumber: 5.0 Consensus size: 22
1730193 CGTAGAAATG
* *
1730203 TCCCAAAGGACTACGTATATTT
1 TCCCAAAGGACTACATATATGT
* *
1730225 ATCCCATATGACTACATATATGT
1 -TCCCAAAGGACTACATATATGT
* *
1730248 T-CCAAAGGACCAAATATATG-
1 TCCCAAAGGACTACATATATGT
* **
1730268 TCCCGAAGGACCGCATATATGT
1 TCCCAAAGGACTACATATATGT
* *
1730290 T-CCAAAAGACCACATATATGT
1 TCCCAAAGGACTACATATATGT
1730311 CCCGAATGAC
Statistics
Matches: 69, Mismatches: 14, Indels: 6
0.78 0.16 0.07
Matches are distributed among these distances:
20 1 0.01
21 48 0.70
22 2 0.03
23 18 0.26
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.27
Consensus pattern (22 bp):
TCCCAAAGGACTACATATATGT
Found at i:1730265 original size:21 final size:21
Alignment explanation
Indices: 1730238--1730310 Score: 101
Period size: 21 Copynumber: 3.5 Consensus size: 21
1730228 CCATATGACT
1730238 ACATATATGTTCCAAAGGACC
1 ACATATATGTTCCAAAGGACC
* * *
1730259 AAATATATGTCCCGAAGGACC
1 ACATATATGTTCCAAAGGACC
* *
1730280 GCATATATGTTCCAAAAGACC
1 ACATATATGTTCCAAAGGACC
1730301 ACATATATGT
1 ACATATATGT
1730311 CCCGAATGAC
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.38, C:0.22, G:0.15, T:0.25
Consensus pattern (21 bp):
ACATATATGTTCCAAAGGACC
Done.