Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008053.1 Hibiscus syriacus cultivar Beakdansim tig00110548_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: 6772376
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 30 of 32
Found at i:6266758 original size:24 final size:24
Alignment explanation
Indices: 6266731--6266786 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
6266721 AGAAGCCGGC
*
6266731 GCTTTCTTGGCTTTAGGTTCTTCG
1 GCTTTCTTGGCTTTAGATTCTTCG
*
6266755 GCTTTCTTGGCTTTAGATTCTTTG
1 GCTTTCTTGGCTTTAGATTCTTCG
6266779 GCTTTCTT
1 GCTTTCTT
6266787 CGCCTTGCCC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.05, C:0.20, G:0.21, T:0.54
Consensus pattern (24 bp):
GCTTTCTTGGCTTTAGATTCTTCG
Found at i:6268185 original size:54 final size:55
Alignment explanation
Indices: 6268102--6268215 Score: 203
Period size: 54 Copynumber: 2.1 Consensus size: 55
6268092 TGTCATTGCT
*
6268102 TAATTCTTTGCCTAATTGCAGGCATAGTACAAATGAAAGTAGGTAACAACATATA
1 TAATTCTTTGCCTAATTGCAGGCATAGTACAAAGGAAAGTAGGTAACAACATATA
*
6268157 TAATTC-TTGCCTAATTGTAGGCATAGTACAAAGGAAAGTAGGTAACAACATATA
1 TAATTCTTTGCCTAATTGCAGGCATAGTACAAAGGAAAGTAGGTAACAACATATA
6268211 TAATT
1 TAATT
6268216 GTGTAGGCAG
Statistics
Matches: 57, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
54 51 0.89
55 6 0.11
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (55 bp):
TAATTCTTTGCCTAATTGCAGGCATAGTACAAAGGAAAGTAGGTAACAACATATA
Found at i:6269741 original size:188 final size:188
Alignment explanation
Indices: 6269418--6269771 Score: 515
Period size: 188 Copynumber: 1.9 Consensus size: 188
6269408 AAAGATAATT
* *
6269418 TTTAATTTGAATATTAGTAAGATAATTACTCTTTTAATAAGTTAAAAAAGGTATTTGTTATCATT
1 TTTAATTTGAATATTAGTAAGATAATTACTCTTTGAATAAGTTAAAAAAGATATTTGTTATCATT
* * * *
6269483 TTATTTTTGAATATTAAAAAATAATTATATAATTTTTGTATATTTCAAATTAAAATGATATATGT
66 TTATTGTTGAATATTAAAAAATAATTATATAATTTTTGTATATTTCAAATTAAAATAATACATAT
*
6269548 TTAAGTTTGAAT-AGTAAAAGGAGTT-TATCTTTTGACCATTGTAAATTAAATATATTA
131 TTAAGTTTGAATGA-TAAAAGAAGTTGTATCTTTTGACCATTGTAAATTAAATATATTA
* *
6269605 TTTAATTTGAATATTAGTAAGATAATTACTCTTTGAATATGTCAACTTAAAAAGATATTTGTTAT
1 TTTAATTTGAATATTAGTAAGATAATTACTCTTTGAATAAGT----TAAAAAAGATATTTGTTAT
6269670 C-TTTT-TTACGTTGAATATT-AAAAA-AATTATAT-ATTTTTGTATATTTCAAATTAAAATAAT
62 CATTTTATT--GTTGAATATTAAAAAATAATTATATAATTTTTGTATATTTCAAATTAAAATAAT
6269730 ACATATTTAAGTTTGAATGATAAAAGAAGTTGTATCTTTTGA
125 ACATATTTAAGTTTGAATGATAAAAGAAGTTGTATCTTTTGA
6269772 ATATTTCAAA
Statistics
Matches: 150, Mismatches: 9, Indels: 14
0.87 0.05 0.08
Matches are distributed among these distances:
187 40 0.27
188 53 0.35
189 21 0.14
190 9 0.06
191 27 0.18
ACGTcount: A:0.40, C:0.05, G:0.10, T:0.45
Consensus pattern (188 bp):
TTTAATTTGAATATTAGTAAGATAATTACTCTTTGAATAAGTTAAAAAAGATATTTGTTATCATT
TTATTGTTGAATATTAAAAAATAATTATATAATTTTTGTATATTTCAAATTAAAATAATACATAT
TTAAGTTTGAATGATAAAAGAAGTTGTATCTTTTGACCATTGTAAATTAAATATATTA
Found at i:6270484 original size:39 final size:39
Alignment explanation
Indices: 6270393--6270593 Score: 224
Period size: 39 Copynumber: 5.2 Consensus size: 39
6270383 TGAAGATGGG
* * * * *
6270393 TAGGTCTATTCCACCGTCTGGTACTAAT-AAAAGGGAAA
1 TAGGCCTATCCCACCATCAGGTCCTAATAAAAAGGGAAA
*
6270431 TAGGCCTATCCCACCATCAGGTCCTAATAAAAAAGGAAA
1 TAGGCCTATCCCACCATCAGGTCCTAATAAAAAGGGAAA
* ** * * *
6270470 CAGGTTTATTCCACCATCTGGTCCTAATAAAAAGGGAGA
1 TAGGCCTATCCCACCATCAGGTCCTAATAAAAAGGGAAA
* * *
6270509 TAGGCCTATCCCACCATCAGGTCCTAATAATATGGGGAA
1 TAGGCCTATCCCACCATCAGGTCCTAATAAAAAGGGAAA
* * *
6270548 TAGTCCTATCTCACCTTCAGGTCCTAATAAAAAGGGAAA
1 TAGGCCTATCCCACCATCAGGTCCTAATAAAAAGGGAAA
*
6270587 TAAGCCT
1 TAGGCCT
6270594 CCAATGTAAT
Statistics
Matches: 132, Mismatches: 30, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
38 23 0.17
39 109 0.83
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.24
Consensus pattern (39 bp):
TAGGCCTATCCCACCATCAGGTCCTAATAAAAAGGGAAA
Found at i:6276572 original size:13 final size:13
Alignment explanation
Indices: 6276554--6276586 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
6276544 AGGTTATGCA
6276554 TCTGTCATCATTC
1 TCTGTCATCATTC
6276567 TCTGTCATCATTC
1 TCTGTCATCATTC
6276580 TCTGTCA
1 TCTGTCA
6276587 ATCTTTGGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.15, C:0.30, G:0.09, T:0.45
Consensus pattern (13 bp):
TCTGTCATCATTC
Found at i:6281748 original size:42 final size:42
Alignment explanation
Indices: 6281701--6281786 Score: 163
Period size: 42 Copynumber: 2.0 Consensus size: 42
6281691 CAACTTAGAT
*
6281701 TGTCATCAATTTTTTAACGAAAAATGACGAGTTTGAAACATA
1 TGTCATCAATTTTTTAACGAAAAATAACGAGTTTGAAACATA
6281743 TGTCATCAATTTTTTAACGAAAAATAACGAGTTTGAAACATA
1 TGTCATCAATTTTTTAACGAAAAATAACGAGTTTGAAACATA
6281785 TG
1 TG
6281787 AATAGGCATG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.34
Consensus pattern (42 bp):
TGTCATCAATTTTTTAACGAAAAATAACGAGTTTGAAACATA
Found at i:6285533 original size:23 final size:23
Alignment explanation
Indices: 6285484--6285542 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 23
6285474 ATAAAAGATG
* * *
6285484 TAAAAGAACACAATAAACGAACG
1 TAAACGAACATAATAAACGAACA
* *
6285507 TAAACGAACATAATAAATGCACA
1 TAAACGAACATAATAAACGAACA
*
6285530 TAAACAAACATAA
1 TAAACGAACATAA
6285543 ATTAAAATAT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.61, C:0.17, G:0.08, T:0.14
Consensus pattern (23 bp):
TAAACGAACATAATAAACGAACA
Found at i:6290754 original size:15 final size:16
Alignment explanation
Indices: 6290690--6290757 Score: 63
Period size: 15 Copynumber: 4.4 Consensus size: 16
6290680 TAAATAGTTA
6290690 TATTTATATT-AATA-
1 TATTTATATTAAATAT
*
6290704 TATTTAT-GTAAATAT
1 TATTTATATTAAATAT
* *
6290719 TATTTTTATTAAAATAA
1 TATTTATATT-AAATAT
*
6290736 TATTTATA-TAATTAT
1 TATTTATATTAAATAT
6290751 TATTTAT
1 TATTTAT
6290758 TTAGAATTAT
Statistics
Matches: 43, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
13 1 0.02
14 11 0.26
15 17 0.40
16 2 0.05
17 12 0.28
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.57
Consensus pattern (16 bp):
TATTTATATTAAATAT
Found at i:6292002 original size:28 final size:30
Alignment explanation
Indices: 6291971--6292046 Score: 77
Period size: 31 Copynumber: 2.5 Consensus size: 30
6291961 TTTTTTAACT
*
6291971 TTTAAATACAT-AAATATT-TTTAT-ATTTA
1 TTTAAATA-ATAAAATATTAGTTATAATTTA
*
6291999 TTTAATATAATAAAATATTAGTTATAATTTT
1 TTTAA-ATAATAAAATATTAGTTATAATTTA
*
6292030 TTTAAAAAATAATAATA
1 TTTAAATAATAA-AATA
6292047 ATTCCTTCTA
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
28 7 0.17
29 10 0.25
30 10 0.25
31 13 0.32
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (30 bp):
TTTAAATAATAAAATATTAGTTATAATTTA
Found at i:6294537 original size:30 final size:32
Alignment explanation
Indices: 6294491--6294568 Score: 88
Period size: 33 Copynumber: 2.4 Consensus size: 32
6294481 TTTAAATAGT
*
6294491 TATTATATTTTATATT-AAT-ATATTTATGTAAA
1 TATTAT-TTTT-TATTAAATAATATTTATATAAA
*
6294523 TATTATTTTTTATTAAAATAATATTTATATAAT
1 TATTATTTTTTATT-AAATAATATTTATATAAA
6294556 TATTATTTATTTA
1 TATTATTT-TTTA
6294569 GAATTATTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
30 4 0.10
31 4 0.10
32 9 0.22
33 19 0.47
34 4 0.10
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (32 bp):
TATTATTTTTTATTAAATAATATTTATATAAA
Found at i:6294731 original size:17 final size:17
Alignment explanation
Indices: 6294709--6294762 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
6294699 AATGTTAATA
6294709 TTTAAATTTATTTTTAT
1 TTTAAATTTATTTTTAT
* * * *
6294726 TTTAAAGTTATTATGAA
1 TTTAAATTTATTTTTAT
* *
6294743 TTTATATTAATTTTTAT
1 TTTAAATTTATTTTTAT
6294760 TTT
1 TTT
6294763 TTATAATGTA
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (17 bp):
TTTAAATTTATTTTTAT
Found at i:6297349 original size:19 final size:20
Alignment explanation
Indices: 6297311--6297362 Score: 70
Period size: 19 Copynumber: 2.5 Consensus size: 20
6297301 ATAATATTCA
6297311 TTTTAAGTAATAAAATTAATAT
1 TTTTAA-TAA-AAAATTAATAT
6297333 TTTTAATAAAAAA-TAATAT
1 TTTTAATAAAAAATTAATAT
*
6297352 TTTAAATAAAA
1 TTTTAATAAAA
6297363 TTCTACTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 16 0.55
20 4 0.14
21 3 0.10
22 6 0.21
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (20 bp):
TTTTAATAAAAAATTAATAT
Found at i:6310936 original size:14 final size:13
Alignment explanation
Indices: 6310870--6310933 Score: 58
Period size: 14 Copynumber: 4.8 Consensus size: 13
6310860 ATCATAAGTT
6310870 AGGGTTTAGGTTA
1 AGGGTTTAGGTTA
*
6310883 TGAGG-TTATGGTTA
1 AG-GGTTTA-GGTTA
6310897 AGGGTTTAGGTTA
1 AGGGTTTAGGTTA
* * *
6310910 TGAGATTATGGTTA
1 AGGGTTTA-GGTTA
6310924 AGGGTTTAGG
1 AGGGTTTAGG
6310934 GTTTAAGATT
Statistics
Matches: 39, Mismatches: 8, Indels: 8
0.71 0.15 0.15
Matches are distributed among these distances:
13 18 0.46
14 21 0.54
ACGTcount: A:0.23, C:0.00, G:0.38, T:0.39
Consensus pattern (13 bp):
AGGGTTTAGGTTA
Found at i:6310943 original size:27 final size:27
Alignment explanation
Indices: 6310870--6310933 Score: 119
Period size: 27 Copynumber: 2.4 Consensus size: 27
6310860 ATCATAAGTT
*
6310870 AGGGTTTAGGTTATGAGGTTATGGTTA
1 AGGGTTTAGGTTATGAGATTATGGTTA
6310897 AGGGTTTAGGTTATGAGATTATGGTTA
1 AGGGTTTAGGTTATGAGATTATGGTTA
6310924 AGGGTTTAGG
1 AGGGTTTAGG
6310934 GTTTAAGATT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.23, C:0.00, G:0.38, T:0.39
Consensus pattern (27 bp):
AGGGTTTAGGTTATGAGATTATGGTTA
Found at i:6312120 original size:37 final size:38
Alignment explanation
Indices: 6312035--6312120 Score: 97
Period size: 37 Copynumber: 2.3 Consensus size: 38
6312025 ATTAAACCTT
*
6312035 TTTTATATTTTTAATTTTGTAAAAAAAATTATATAAATA
1 TTTTATA-ATTTAATTTTGTAAAAAAAATTATATAAATA
* * *
6312074 --TTACGAATTTAATTTTTTAAAGAAAA-TATATAAATA
1 TTTTA-TAATTTAATTTTGTAAAAAAAATTATATAAATA
6312110 TTTTATAATTT
1 TTTTATAATTT
6312121 GTAATATTAT
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
36 10 0.26
37 25 0.64
38 4 0.10
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.50
Consensus pattern (38 bp):
TTTTATAATTTAATTTTGTAAAAAAAATTATATAAATA
Found at i:6313534 original size:4 final size:4
Alignment explanation
Indices: 6313525--6313570 Score: 74
Period size: 4 Copynumber: 11.5 Consensus size: 4
6313515 GTCAAAATGT
* *
6313525 TCCA TCCA TCCA TCCA TCCA TCCA TCCA TCCA TCTA TCTA TCCA TC
1 TCCA TCCA TCCA TCCA TCCA TCCA TCCA TCCA TCCA TCCA TCCA TC
6313571 TATATGTTGC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 40 1.00
ACGTcount: A:0.24, C:0.46, G:0.00, T:0.30
Consensus pattern (4 bp):
TCCA
Found at i:6314844 original size:31 final size:32
Alignment explanation
Indices: 6314809--6314869 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
6314799 GACTATATTA
*
6314809 TAATAGTTCAAT-AATTTCAATGATCATTTAG
1 TAATACTTCAATAAATTTCAATGATCATTTAG
** *
6314840 TAATACTTTGATAAATTTTAATGATCATTT
1 TAATACTTCAATAAATTTCAATGATCATTT
6314870 GTATATTTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
31 9 0.36
32 16 0.64
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (32 bp):
TAATACTTCAATAAATTTCAATGATCATTTAG
Found at i:6314891 original size:20 final size:20
Alignment explanation
Indices: 6314835--6314888 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
6314825 TCAATGATCA
* *
6314835 TTTAGTAATACTTTGATAAAT
1 TTTAATAATA-TTTGATATAT
*
6314856 TTTAATGATCATTTG-TATAT
1 TTTAATAAT-ATTTGATATAT
6314876 TTTAATAATATTT
1 TTTAATAATATTT
6314889 TGTTATATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 4 0.14
20 12 0.43
21 11 0.39
22 1 0.04
ACGTcount: A:0.35, C:0.04, G:0.07, T:0.54
Consensus pattern (20 bp):
TTTAATAATATTTGATATAT
Found at i:6318449 original size:60 final size:57
Alignment explanation
Indices: 6318363--6318545 Score: 172
Period size: 60 Copynumber: 3.1 Consensus size: 57
6318353 GTCAATTTGG
* *
6318363 GGATGAAATTGGACTATTCAAAAGTTTAGGGATCAATTTAGAAAGGGAGTCATAATTTAA
1 GGATGAAATT-GAATATTCAAAAGTTTA--GATCAATTTAGAAAGAGAGTCATAATTTAA
* * * *
6318423 GGATGAAATTAGAATGTTCAAAAGTTTTAGAACTAATTTAGAATA-AGAGTCATTATTTAG
1 GGATGAAATT-GAATATTCAAAAG-TTTAGATC-AATTTAGAA-AGAGAGTCATAATTTAA
* * *
6318483 GGATGAAATTGAAACATTCAAAAGTTTAACAATCAATTTA-AAATGAGAGTCATAATTTGA
1 GGATGAAATTG-AATATTCAAAAGTTT-A-GATCAATTTAGAAA-GAGAGTCATAATTTAA
6318543 GGA
1 GGA
6318546 CATATGATGC
Statistics
Matches: 101, Mismatches: 14, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
58 1 0.01
59 9 0.09
60 84 0.83
61 7 0.07
ACGTcount: A:0.43, C:0.07, G:0.20, T:0.31
Consensus pattern (57 bp):
GGATGAAATTGAATATTCAAAAGTTTAGATCAATTTAGAAAGAGAGTCATAATTTAA
Found at i:6319313 original size:21 final size:20
Alignment explanation
Indices: 6319262--6319313 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 20
6319252 TTTTCCCAAT
*
6319262 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGAAAA
* * **
6319282 TCGTAACGCGAATTGGGAAAA
1 TCGCAATGCGAA-TAAGAAAA
6319303 TCGCAATGCGA
1 TCGCAATGCGA
6319314 TACTTACTAT
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
20 10 0.42
21 14 0.58
ACGTcount: A:0.38, C:0.17, G:0.25, T:0.19
Consensus pattern (20 bp):
TCGCAATGCGAATAAGAAAA
Found at i:6319327 original size:20 final size:20
Alignment explanation
Indices: 6319302--6319396 Score: 75
Period size: 20 Copynumber: 4.7 Consensus size: 20
6319292 AATTGGGAAA
*
6319302 ATCGCAATGCGATACTTACT
1 ATCGCAACGCGATACTTACT
* * *
6319322 ATCGCAATGCGATA-ATACAAA
1 ATCGCAACGCGATACTTAC--T
* *
6319343 ATCGCAACGAGATACTGACT
1 ATCGCAACGCGATACTTACT
* * *
6319363 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTTACT
*
6319383 TTCGCAACGCGATA
1 ATCGCAACGCGATA
6319397 ATTCATAATC
Statistics
Matches: 61, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
19 3 0.05
20 44 0.72
21 12 0.20
22 2 0.03
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGATACTTACT
Found at i:6319612 original size:22 final size:22
Alignment explanation
Indices: 6319584--6319627 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
6319574 CACTCTCTCA
6319584 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
6319606 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
6319628 TATCTCCATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:6319944 original size:20 final size:20
Alignment explanation
Indices: 6319890--6319948 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
6319880 GCGATTCTCT
**
6319890 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCG
6319910 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
* **
6319930 TGTTGCGATTTTCATTTTC
1 CGTTGCGATAGTCATTTTC
6319949 AGAAACTATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.17, C:0.19, G:0.22, T:0.42
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:6321289 original size:18 final size:18
Alignment explanation
Indices: 6321268--6321312 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
6321258 TCCACTTCGG
*
6321268 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
6321286 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
6321304 GAGCCATCA
1 GAGCCATCA
6321313 TCTGATCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:6321819 original size:20 final size:20
Alignment explanation
Indices: 6321794--6321839 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
6321784 TAGTTTACTT
6321794 TCGCAACACGAAAATGACTA
1 TCGCAACACGAAAATGACTA
* * *
6321814 TCGCAACGCGGAAATGGCTA
1 TCGCAACACGAAAATGACTA
6321834 TCGCAA
1 TCGCAA
6321840 TGCGAAATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.37, C:0.26, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACACGAAAATGACTA
Found at i:6321868 original size:14 final size:14
Alignment explanation
Indices: 6321849--6321906 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
6321839 ATGCGAAATA
6321849 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
6321863 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAC
6321879 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
6321895 AAAATCGCAACG
1 AAAATCGCAACG
6321907 CGAAACACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.24, G:0.17, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:6321891 original size:32 final size:33
Alignment explanation
Indices: 6321833--6321922 Score: 137
Period size: 32 Copynumber: 2.8 Consensus size: 33
6321823 GGAAATGGCT
6321833 ATCGCAATGCGAAATAAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATAAAAATCGCAACGACAAA
*
6321866 ATCGCAATGCGAAAT-GAAATCGCAACGACAAA
1 ATCGCAATGCGAAATAAAAATCGCAACGACAAA
* * *
6321898 ATCGCAACGCGAAACACAAATCGCA
1 ATCGCAATGCGAAATAAAAATCGCA
6321923 TTGCGATTTT
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
32 29 0.56
33 23 0.44
ACGTcount: A:0.48, C:0.24, G:0.17, T:0.11
Consensus pattern (33 bp):
ATCGCAATGCGAAATAAAAATCGCAACGACAAA
Found at i:6321959 original size:14 final size:14
Alignment explanation
Indices: 6321940--6322030 Score: 65
Period size: 14 Copynumber: 5.9 Consensus size: 14
6321930 TTTCATTTCG
6321940 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
6321954 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
*
6321970 CGCATTGTGATTTTGT
1 CG--TTGCGATTTTGT
*
6321986 CGTTGCGATTTTCATTT
1 CGTTGCGA-TTT--TGT
6322003 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
*
6322019 CGTTGTGATTTT
1 CGTTGCGATTTT
6322031 CATTTCGCAT
Statistics
Matches: 61, Mismatches: 7, Indels: 18
0.71 0.08 0.21
Matches are distributed among these distances:
14 25 0.41
15 3 0.05
16 12 0.20
17 4 0.07
18 11 0.18
19 6 0.10
ACGTcount: A:0.11, C:0.15, G:0.23, T:0.51
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:6322004 original size:33 final size:33
Alignment explanation
Indices: 6321923--6322046 Score: 214
Period size: 33 Copynumber: 3.8 Consensus size: 33
6321913 ACAAATCGCA
*
6321923 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
*
6321956 TTGCGA-TTTCATTTCGCATTGTGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
6321988 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
*
6322021 TTGTGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
6322047 AGCCATTTCC
Statistics
Matches: 86, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
32 30 0.35
33 56 0.65
ACGTcount: A:0.12, C:0.17, G:0.22, T:0.49
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:6322065 original size:20 final size:19
Alignment explanation
Indices: 6322031--6322086 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
6322021 TTGTGATTTT
* *
6322031 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGA
6322050 CATTTCCGCGTTGCGATAGA
1 CATTT-CGCGTTGCGATAGA
6322070 CATTTTCGCGTTGCGAT
1 CA-TTTCGCGTTGCGAT
6322087 TTTAAGTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 5 0.15
20 25 0.76
21 3 0.09
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.34
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGA
Found at i:6322548 original size:41 final size:41
Alignment explanation
Indices: 6322452--6322539 Score: 122
Period size: 41 Copynumber: 2.1 Consensus size: 41
6322442 GACTCACCTG
* * *
6322452 TCATCCCTCAAGAGTCCCCTCCAATCGTTCAAGAGGCCCCTA
1 TCATCCCTCAAGAGTCCCC-CCCACCGTTCAAGAGGCCACTA
* *
6322494 TCCTCCCTCAAGAGTCCCCCCCACCGTTCAAGAGGCCACTG
1 TCATCCCTCAAGAGTCCCCCCCACCGTTCAAGAGGCCACTA
6322535 TCATC
1 TCATC
6322540 GTTGAAGAGG
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
41 22 0.55
42 18 0.45
ACGTcount: A:0.22, C:0.43, G:0.15, T:0.20
Consensus pattern (41 bp):
TCATCCCTCAAGAGTCCCCCCCACCGTTCAAGAGGCCACTA
Found at i:6323973 original size:14 final size:14
Alignment explanation
Indices: 6323954--6323989 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
6323944 ATTGTTTAAT
6323954 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
6323968 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
6323982 TGATTTGT
1 TGATTTGT
6323990 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:6324150 original size:19 final size:19
Alignment explanation
Indices: 6324126--6324193 Score: 101
Period size: 19 Copynumber: 3.8 Consensus size: 19
6324116 ATCGCAACGA
6324126 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
6324145 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
6324164 GAAAATCGCAA--CG--A-
1 GAAAATCGCAATGCGAAAT
6324178 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
6324194 TTTTCATTTC
Statistics
Matches: 46, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
14 11 0.24
15 1 0.02
16 2 0.04
17 2 0.04
19 30 0.65
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.13
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:6324247 original size:20 final size:20
Alignment explanation
Indices: 6324224--6324287 Score: 67
Period size: 20 Copynumber: 3.2 Consensus size: 20
6324214 TTTCTAGTTA
6324224 CGATAGCCATTTTCGCGTTG
1 CGATAGCCATTTTCGCGTTG
*** **
6324244 CGATTTTTCA-TTTCGAATTG
1 CGA-TAGCCATTTTCGCGTTG
6324264 CGATAGCCATTTTCGCGTTG
1 CGATAGCCATTTTCGCGTTG
6324284 CGAT
1 CGAT
6324288 TTCCCCGTTG
Statistics
Matches: 32, Mismatches: 10, Indels: 4
0.70 0.22 0.09
Matches are distributed among these distances:
19 3 0.09
20 26 0.81
21 3 0.09
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.39
Consensus pattern (20 bp):
CGATAGCCATTTTCGCGTTG
Found at i:6324250 original size:34 final size:36
Alignment explanation
Indices: 6324200--6324289 Score: 94
Period size: 40 Copynumber: 2.4 Consensus size: 36
6324190 GCGATTTTCA
* * *
6324200 TTTCGCATTGCAATTTTC-T-AGTTACGATAGCCAT
1 TTTCGCGTTGCGATTTTCTTCAATTACGATAGCCAT
*
6324234 TTTCGCGTTGCGATTTTTCATTTCGAATTGCGATAGCCAT
1 TTTCGCGTTGCGA-TTTTC--TTC-AATTACGATAGCCAT
6324274 TTTCGCGTTGCGATTT
1 TTTCGCGTTGCGATTT
6324290 CCCCGTTGCG
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
34 11 0.24
35 5 0.11
38 1 0.02
39 3 0.07
40 26 0.57
ACGTcount: A:0.18, C:0.20, G:0.19, T:0.43
Consensus pattern (36 bp):
TTTCGCGTTGCGATTTTCTTCAATTACGATAGCCAT
Found at i:6324526 original size:20 final size:20
Alignment explanation
Indices: 6324501--6324550 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
6324491 TTGAAGATGA
6324501 TTGCGATTTTCAGAATCTCG
1 TTGCGATTTTCAGAATCTCG
***
6324521 TTGCGAAAGTCAGAATCTCG
1 TTGCGATTTTCAGAATCTCG
6324541 TTGCGATTTT
1 TTGCGATTTT
6324551 GTATTATCTC
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.38
Consensus pattern (20 bp):
TTGCGATTTTCAGAATCTCG
Found at i:6324823 original size:12 final size:12
Alignment explanation
Indices: 6324804--6324837 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
6324794 CTCTCCGGCG
6324804 ACATCCGTTCCT
1 ACATCCGTTCCT
*
6324816 ATATCCGTTCCT
1 ACATCCGTTCCT
6324828 ACATCC-TTCC
1 ACATCCGTTCC
6324838 CCATCCGGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 4 0.20
12 16 0.80
ACGTcount: A:0.18, C:0.41, G:0.06, T:0.35
Consensus pattern (12 bp):
ACATCCGTTCCT
Found at i:6325637 original size:12 final size:12
Alignment explanation
Indices: 6325620--6325656 Score: 74
Period size: 12 Copynumber: 3.1 Consensus size: 12
6325610 ATATAATCCT
6325620 GAAGAAGAAAAA
1 GAAGAAGAAAAA
6325632 GAAGAAGAAAAA
1 GAAGAAGAAAAA
6325644 GAAGAAGAAAAA
1 GAAGAAGAAAAA
6325656 G
1 G
6325657 TCCCCGAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:6327990 original size:33 final size:33
Alignment explanation
Indices: 6327948--6328074 Score: 184
Period size: 33 Copynumber: 3.8 Consensus size: 33
6327938 GGAAATTACT
6327948 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* **
6327981 ATCGCAATGCGAAATAAAAATCGCAACGCTA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* * *
6328013 TTTCGCAATGCGAAATGAAAATCACAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
6328047 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
6328075 CGAATTTAAT
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
32 1 0.01
33 79 0.98
34 1 0.01
ACGTcount: A:0.44, C:0.20, G:0.21, T:0.15
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:6328055 original size:66 final size:66
Alignment explanation
Indices: 6327949--6328081 Score: 230
Period size: 66 Copynumber: 2.0 Consensus size: 66
6327939 GAAATTACTA
* *
6327949 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATAAAAATCGCAACGCTAAT
1 TCGCAATGCGAAATGAAAATCACAACGAGAGAATCGCAATGCGAAATAAAAATCGCAACGCGAAT
6328014 T
66 T
* *
6328015 TCGCAATGCGAAATGAAAATCACAACGAGGGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
1 TCGCAATGCGAAATGAAAATCACAACGAGAGAATCGCAATGCGAAATAAAAATCGCAACGCGAAT
6328080 T
66 T
6328081 T
1 T
6328082 AATTTCGCTT
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 63 1.00
ACGTcount: A:0.43, C:0.20, G:0.21, T:0.17
Consensus pattern (66 bp):
TCGCAATGCGAAATGAAAATCACAACGAGAGAATCGCAATGCGAAATAAAAATCGCAACGCGAAT
T
Found at i:6328131 original size:19 final size:19
Alignment explanation
Indices: 6328103--6328149 Score: 76
Period size: 19 Copynumber: 2.5 Consensus size: 19
6328093 GCGATTCTCT
6328103 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
6328122 CGTTGTGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
6328141 CATTGCGAT
1 CGTTGCGAT
6328150 AGTACTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.13, C:0.19, G:0.21, T:0.47
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:6328275 original size:14 final size:14
Alignment explanation
Indices: 6328256--6328292 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
6328246 CATCAATTAA
6328256 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
6328270 ACAAATCACCTTTT
1 ACAAATCAACTTTT
6328284 ACAAATCAA
1 ACAAATCAA
6328293 TTACACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:6329693 original size:21 final size:21
Alignment explanation
Indices: 6329669--6329784 Score: 58
Period size: 21 Copynumber: 5.5 Consensus size: 21
6329659 GTGGGAGGGA
6329669 CCTCTTCAACGATGACAGTGG
1 CCTCTTCAACGATGACAGTGG
* * *
6329690 CCTCTTGAACGGTGGA-AGGGG
1 CCTCTTCAACGAT-GACAGTGG
* * * * *
6329711 ACTC-TCGAGGAATGATAGGGG
1 CCTCTTCAACG-ATGACAGTGG
*
6329732 CCTCTTCAACGAT-AGGAGTGG
1 CCTCTTCAACGATGA-CAGTGG
* * **
6329753 ACTCTTGAGGGATGACAGTGG
1 CCTCTTCAACGATGACAGTGG
*
6329774 CCTCTTGAACG
1 CCTCTTCAACG
6329785 GTGGGAGGGG
Statistics
Matches: 68, Mismatches: 21, Indels: 12
0.67 0.21 0.12
Matches are distributed among these distances:
20 6 0.09
21 55 0.81
22 7 0.10
ACGTcount: A:0.23, C:0.22, G:0.33, T:0.22
Consensus pattern (21 bp):
CCTCTTCAACGATGACAGTGG
Found at i:6329734 original size:42 final size:41
Alignment explanation
Indices: 6329688--6329851 Score: 184
Period size: 42 Copynumber: 3.9 Consensus size: 41
6329678 CGATGACAGT
*
6329688 GGCCTCTTGAACGGTGGAAGGGGACTCTCGAGGAATGATAGG
1 GGCCTCTTCAACGGTGG-AGGGGACTCTCGAGGAATGATAGG
* * * * * *
6329730 GGCCTCTTCAACGATAGGAGTGGACTCTTGAGGGATGACAGT
1 GGCCTCTTCAACGGT-GGAGGGGACTCTCGAGGAATGATAGG
*
6329772 GGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGG
1 GGCCTCTTCAACGGT-GGAGGGGACTCTCGAGGAATGATAGG
* * * *
6329814 GGCCTCTTCAACGATAGGAGTGGACTCTTGAGGGATGA
1 GGCCTCTTCAACGGT-GGAGGGGACTCTCGAGGAATGA
6329852 CAGGCGAGTC
Statistics
Matches: 100, Mismatches: 21, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
42 98 0.98
43 2 0.02
ACGTcount: A:0.23, C:0.18, G:0.38, T:0.21
Consensus pattern (41 bp):
GGCCTCTTCAACGGTGGAGGGGACTCTCGAGGAATGATAGG
Found at i:6329794 original size:84 final size:84
Alignment explanation
Indices: 6329679--6329854 Score: 343
Period size: 84 Copynumber: 2.1 Consensus size: 84
6329669 CCTCTTCAAC
6329679 GATGACAGTGGCCTCTTGAACGGTGGAAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
1 GATGACAGTGGCCTCTTGAACGGTGGAAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
6329744 TAGGAGTGGACTCTTGAGG
66 TAGGAGTGGACTCTTGAGG
*
6329763 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
1 GATGACAGTGGCCTCTTGAACGGTGGAAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
6329828 TAGGAGTGGACTCTTGAGG
66 TAGGAGTGGACTCTTGAGG
6329847 GATGACAG
1 GATGACAG
6329855 GCGAGTCGGG
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
84 91 1.00
ACGTcount: A:0.24, C:0.18, G:0.38, T:0.21
Consensus pattern (84 bp):
GATGACAGTGGCCTCTTGAACGGTGGAAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
TAGGAGTGGACTCTTGAGG
Found at i:6330236 original size:78 final size:79
Alignment explanation
Indices: 6330092--6330244 Score: 245
Period size: 78 Copynumber: 1.9 Consensus size: 79
6330082 AAGACAAAAC
*
6330092 AAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAA
1 AAAGACAAATACTAACTTCACAGTGTT--A-AATAAACAGTTTAGCAGAATTGGCAGCAACCGAA
6330157 TAAATTTACTTCAACCA
63 TAAATTTACTTCAACCA
* *
6330174 AAAGACAAATACTAACTTCACAGTGTT-AATAAACAGTTTAGCAGTATTGGCAGTAACCGAATAA
1 AAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAGCAGAATTGGCAGCAACCGAATAA
6330238 ATTTACT
66 ATTTACT
6330245 AAGCAATCTA
Statistics
Matches: 68, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
78 41 0.60
82 27 0.40
ACGTcount: A:0.43, C:0.18, G:0.14, T:0.25
Consensus pattern (79 bp):
AAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAGCAGAATTGGCAGCAACCGAATAA
ATTTACTTCAACCA
Found at i:6331966 original size:20 final size:19
Alignment explanation
Indices: 6331931--6332052 Score: 66
Period size: 20 Copynumber: 6.8 Consensus size: 19
6331921 TCTTTTGGTT
*
6331931 GAAATGAAAATTGCAACGA
1 GAAATGAAAATCGCAACGA
* *
6331950 GATAATGAGAATCGCAACGCG
1 GA-AATGAAAATCGCAACG-A
**
6331971 GAAATGACTATCGCAACGA
1 GAAATGAAAATCGCAACGA
*
6331990 G--A-G--AATCGCAACGC
1 GAAATGAAAATCGCAACGA
** *
6332004 GAAATGACTATCGCGACGA
1 GAAATGAAAATCGCAACGA
*
6332023 G--A-G--AATCGCAACGC
1 GAAATGAAAATCGCAACGA
6332037 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
6332053 TGCGATTTTG
Statistics
Matches: 77, Mismatches: 14, Indels: 24
0.67 0.12 0.21
Matches are distributed among these distances:
14 19 0.25
16 4 0.05
17 4 0.05
19 20 0.26
20 28 0.36
21 2 0.03
ACGTcount: A:0.43, C:0.20, G:0.25, T:0.13
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGA
Found at i:6332013 original size:33 final size:33
Alignment explanation
Indices: 6331956--6332052 Score: 158
Period size: 33 Copynumber: 2.9 Consensus size: 33
6331946 ACGAGATAAT
6331956 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACGA
*
6331990 GAGAATCGCAACGCGAAATGACTATCGCGACGA
1 GAGAATCGCAACGCGAAATGACTATCGCAACGA
**
6332023 GAGAATCGCAACGCGAAATGAAAATCGCAA
1 GAGAATCGCAACGCGAAATGACTATCGCAA
6332053 TGCGATTTTG
Statistics
Matches: 59, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
33 45 0.76
34 14 0.24
ACGTcount: A:0.40, C:0.23, G:0.26, T:0.11
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACGA
Found at i:6332086 original size:19 final size:19
Alignment explanation
Indices: 6332053--6332116 Score: 101
Period size: 19 Copynumber: 3.4 Consensus size: 19
6332043 AAAATCGCAA
**
6332053 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTTATTTCGCGT
6332072 TGCGATTTTTATTTCGCGT
1 TGCGATTTTTATTTCGCGT
*
6332091 TGTGATTTTTATTTCGCGT
1 TGCGATTTTTATTTCGCGT
6332110 TGCGATT
1 TGCGATT
6332117 CTCTCGTTGC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 41 1.00
ACGTcount: A:0.09, C:0.14, G:0.25, T:0.52
Consensus pattern (19 bp):
TGCGATTTTTATTTCGCGT
Found at i:6332729 original size:20 final size:20
Alignment explanation
Indices: 6332704--6332757 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
6332694 GATTTTGTAT
6332704 TATCGCATTGCGATAGTAAG
1 TATCGCATTGCGATAGTAAG
*
6332724 TATCGCATTGCGATAGTCAG
1 TATCGCATTGCGATAGTAAG
6332744 TATCGCATTGCGAT
1 TATCGCATTGCGAT
6332758 TTACCCAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (20 bp):
TATCGCATTGCGATAGTAAG
Found at i:6332790 original size:20 final size:21
Alignment explanation
Indices: 6332746--6332797 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
6332736 ATAGTCAGTA
6332746 TCGCATTGCGATTTACCCAAT
1 TCGCATTGCGATTTACCCAAT
* **
6332767 TCGCGTTGCGATTTA-CTTAT
1 TCGCATTGCGATTTACCCAAT
6332787 TCGCATTGCGA
1 TCGCATTGCGA
6332798 ATTGGGAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 13 0.48
21 14 0.52
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.37
Consensus pattern (21 bp):
TCGCATTGCGATTTACCCAAT
Found at i:6332852 original size:21 final size:21
Alignment explanation
Indices: 6332828--6332881 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
6332818 ACTGTAGACC
*
6332828 ATCGCAACGCGATTTCTAACT
1 ATCGCAACGCGATTTCCAACT
6332849 ATCGCAACGCGATTTCCAACT
1 ATCGCAACGCGATTTCCAACT
6332870 ATCGCAACGCGA
1 ATCGCAACGCGA
6332882 AATGTAACGC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.22
Consensus pattern (21 bp):
ATCGCAACGCGATTTCCAACT
Found at i:6333755 original size:60 final size:60
Alignment explanation
Indices: 6333653--6333775 Score: 147
Period size: 60 Copynumber: 2.0 Consensus size: 60
6333643 AACATTATGA
* * * * * * * *
6333653 ATAGTCGGGTGATCATTTTGTAACTTTTGATAGTCAATAGACTCAACAAAGCAACACTAT
1 ATAGTAGGATGATCATTTTATAACTTTTAATAATCAAGAGACTCAACAAAACAACACCAT
* * *
6333713 ATAGTAGGATGATCATTTTATAACTTTTAATAATCGAGAGACTTAATAAAACAACACCAT
1 ATAGTAGGATGATCATTTTATAACTTTTAATAATCAAGAGACTCAACAAAACAACACCAT
6333773 ATA
1 ATA
6333776 ATCGGGGACC
Statistics
Matches: 52, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
60 52 1.00
ACGTcount: A:0.40, C:0.15, G:0.14, T:0.32
Consensus pattern (60 bp):
ATAGTAGGATGATCATTTTATAACTTTTAATAATCAAGAGACTCAACAAAACAACACCAT
Found at i:6342326 original size:13 final size:13
Alignment explanation
Indices: 6342308--6342332 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6342298 TTCATTGAAA
6342308 AACCGAAAAACCG
1 AACCGAAAAACCG
6342321 AACCGAAAAACC
1 AACCGAAAAACC
6342333 CAAACTGTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.32, G:0.12, T:0.00
Consensus pattern (13 bp):
AACCGAAAAACCG
Found at i:6355789 original size:18 final size:18
Alignment explanation
Indices: 6355766--6355800 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
6355756 TGGTTTAGTA
6355766 GTTTTTTTTTCTTTCTCT
1 GTTTTTTTTTCTTTCTCT
6355784 GTTTTTTTTTCTTTCTC
1 GTTTTTTTTTCTTTCTC
6355801 CGGTTCTGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.00, C:0.17, G:0.06, T:0.77
Consensus pattern (18 bp):
GTTTTTTTTTCTTTCTCT
Found at i:6356278 original size:17 final size:15
Alignment explanation
Indices: 6356235--6356275 Score: 68
Period size: 14 Copynumber: 2.9 Consensus size: 15
6356225 GGTCTGTAAT
6356235 TATTTATTT-ATATA
1 TATTTATTTAATATA
6356249 TATTTATTTAATATA
1 TATTTATTTAATATA
6356264 TATTTA-TTAATA
1 TATTTATTTAATA
6356276 ATAATAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
14 15 0.58
15 11 0.42
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
TATTTATTTAATATA
Found at i:6356279 original size:3 final size:3
Alignment explanation
Indices: 6356271--6356398 Score: 229
Period size: 3 Copynumber: 42.7 Consensus size: 3
6356261 ATATATTTAT
*
6356271 TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
6356319 TAA TAA TAA TAA TAA TAA TAA TAA AAA TAA AAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
6356367 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
6356399 TGGATAAAAA
Statistics
Matches: 119, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 119 1.00
ACGTcount: A:0.67, C:0.00, G:0.01, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:6356906 original size:117 final size:117
Alignment explanation
Indices: 6356625--6357051 Score: 576
Period size: 117 Copynumber: 3.7 Consensus size: 117
6356615 TAGAATTATG
* * * * *
6356625 CAAAAAGTTGAACAAGTTCTTCTTATTATGAACTTTTTCTTTCTTCTTCATATGAGGAGTTCTTC
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGATGAGTTCTTC
* * * * *
6356690 TCATTATGAACT-TTCTCTGG-AA-GAAATAATCCATCCAGTGATGAATTCAGA-
66 TCATTATGAACTCTT-TCTGGCAATG--TTGATCCATCAAATGATGAATTCAAAC
* * * *
6356741 TAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTC
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGATGAGTTCTTC
6356806 TCATTATGAACTCTTTCTGGCAATGTTGATCCATCAAATGATGAATTCAAAC
66 TCATTATGAACTCTTTCTGGCAATGTTGATCCATCAAATGATGAATTCAAAC
* * *
6356858 CAAAAGGTTGAACAAGTTCTTCTTATTATGAACTTCTTTTTCCTTCTTCAGATGATGAGTTCTTC
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGATGAGTTCTTC
**
6356923 TCATTATGAACTCTACCTGGCAATGTTGATCCATCAAATGATGAATTCAAAC
66 TCATTATGAACTCTTTCTGGCAATGTTGATCCATCAAATGATGAATTCAAAC
* * **
6356975 CAAAAAATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCTTCAT-ATGAGTTCTT
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTC-AGATGATGAGTTCTT
6357039 CTCATTATGAACT
65 CTCATTATGAACT
6357052 TTCTGCTGGG
Statistics
Matches: 279, Mismatches: 27, Indels: 9
0.89 0.09 0.03
Matches are distributed among these distances:
116 95 0.34
117 181 0.65
118 3 0.01
ACGTcount: A:0.29, C:0.19, G:0.12, T:0.39
Consensus pattern (117 bp):
CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGATGAGTTCTTC
TCATTATGAACTCTTTCTGGCAATGTTGATCCATCAAATGATGAATTCAAAC
Found at i:6357128 original size:95 final size:93
Alignment explanation
Indices: 6357014--6357207 Score: 271
Period size: 95 Copynumber: 2.1 Consensus size: 93
6357004 GAACTTCTTC
* * ** * * *
6357014 TTCTTTCTTCTTCATATGAGTTCTTCTCATTATGAACTTTCTGCTGGGGATGATGCTCCATCAAG
1 TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCT-CTGGAAAAGATGATCCATCAAA
*
6357079 TAATGGATTCATGTAAAAGGTTTGAACAAA
65 TAATGGATTCAAGTAAAAGG-TTGAACAAA
* *
6357109 TTCTTCCTTCTTTAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAAT
1 TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGATGATCCATCAAAT
*
6357174 GATGGATTCAAGTAAAAGGTTGAACAAA
66 AATGGATTCAAGTAAAAGGTTGAACAAA
6357202 TTCTTC
1 TTCTTC
6357208 TCATTATGAA
Statistics
Matches: 88, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
93 15 0.17
94 34 0.39
95 39 0.44
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.38
Consensus pattern (93 bp):
TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGATGATCCATCAAAT
AATGGATTCAAGTAAAAGGTTGAACAAA
Found at i:6357229 original size:113 final size:112
Alignment explanation
Indices: 6357109--6357397 Score: 515
Period size: 113 Copynumber: 2.6 Consensus size: 112
6357099 TTTGAACAAA
*
6357109 TTCTTCCTTCTTTAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAAT
1 TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAA-CTGATCCATCAAAT
*
6357174 GATGGATTCAAGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTT
65 GATGGATTCAAGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTC
6357222 TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAACTGATCCATCAAAT
1 TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG-AAAACTGATCCATCAAAT
*
6357287 GATGGATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTC
65 GATGGATTCAAGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTC
*
6357335 TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAGAAATGATCCATCAA
1 TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAA-AACTGATCCATCAA
6357398 GTGGATTCGA
Statistics
Matches: 170, Mismatches: 4, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
112 2 0.01
113 164 0.96
114 4 0.02
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.38
Consensus pattern (112 bp):
TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAACTGATCCATCAAATG
ATGGATTCAAGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTC
Found at i:6358277 original size:82 final size:82
Alignment explanation
Indices: 6358140--6358600 Score: 767
Period size: 82 Copynumber: 5.7 Consensus size: 82
6358130 CCTACTGAAT
*
6358140 CAGATCAGATAACTCAAAGAACAATTCCAGAAGATGCTATGAACACATTCATCTTCTAAACTCAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCTAAACTCAA
6358205 TGATTGTTCTGTCCAAC
66 TGATTGTTCTGTCCAAC
* * *
6358222 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGATATTG-GCAAATTCATCTTCTAAACTCA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAACACATTCATCTTCTAAACTCA
6358286 ATGATTGGTTCTG-CCAAAC
65 ATGATT-GTTCTGTCC-AAC
*
6358305 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCCAAA-T--A
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCTAAACTCAA
6358367 --ATTGTTCTGTCCAAC
66 TGATTGTTCTGTCCAAC
*
6358382 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTG-ACAAATTCATCTTCTAAACTCA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAACACATTCATCTTCTAAACTCA
6358446 ATGATTGTTCTGTCCAAC
65 ATGATTGTTCTGTCCAAC
*
6358464 CAAATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCTAAACTCAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCTAAACTCAA
6358529 TGATTGTTCTGTCCAAC
66 TGATTGTTCTGTCCAAC
6358546 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTT
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTT
6358601 TCATTTAATT
Statistics
Matches: 354, Mismatches: 13, Indels: 24
0.91 0.03 0.06
Matches are distributed among these distances:
77 64 0.18
78 8 0.02
80 2 0.01
81 2 0.01
82 214 0.60
83 64 0.18
ACGTcount: A:0.38, C:0.23, G:0.12, T:0.26
Consensus pattern (82 bp):
CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCTAAACTCAA
TGATTGTTCTGTCCAAC
Found at i:6359403 original size:16 final size:18
Alignment explanation
Indices: 6359363--6359408 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
6359353 ATCATAGAAG
*
6359363 AATAAATTGAATTTCCCAA
1 AATAAATTGAATCTCCC-A
6359382 AATAAATTGAATCT-CC-
1 AATAAATTGAATCTCCCA
6359398 AATAAATTGAA
1 AATAAATTGAA
6359409 CTTTAAATAG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 11 0.42
18 2 0.08
19 13 0.50
ACGTcount: A:0.50, C:0.13, G:0.07, T:0.30
Consensus pattern (18 bp):
AATAAATTGAATCTCCCA
Found at i:6371168 original size:20 final size:20
Alignment explanation
Indices: 6371145--6371183 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
6371135 AAATATAAAC
*
6371145 AAATAAAATTAAAACAATAA
1 AAATAAAACTAAAACAATAA
**
6371165 AAATACCACTAAAACAATA
1 AAATAAAACTAAAACAATA
6371184 TATTTTAAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.69, C:0.13, G:0.00, T:0.18
Consensus pattern (20 bp):
AAATAAAACTAAAACAATAA
Found at i:6371994 original size:19 final size:19
Alignment explanation
Indices: 6371970--6372006 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
6371960 TGGTTTAGTA
6371970 GTTTTTTTTTTCTTTCTCT
1 GTTTTTTTTTTCTTTCTCT
6371989 GTTTTTTTTTTCTTTCTC
1 GTTTTTTTTTTCTTTCTC
6372007 CGGTTCTGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.00, C:0.16, G:0.05, T:0.78
Consensus pattern (19 bp):
GTTTTTTTTTTCTTTCTCT
Found at i:6372502 original size:17 final size:15
Alignment explanation
Indices: 6372459--6372499 Score: 68
Period size: 14 Copynumber: 2.9 Consensus size: 15
6372449 GGTCTGTAAT
6372459 TATTTATTT-ATATA
1 TATTTATTTAATATA
6372473 TATTTATTTAATATA
1 TATTTATTTAATATA
6372488 TATTTA-TTAATA
1 TATTTATTTAATA
6372500 ATAATAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
14 15 0.58
15 11 0.42
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
TATTTATTTAATATA
Found at i:6372503 original size:3 final size:3
Alignment explanation
Indices: 6372495--6372568 Score: 132
Period size: 3 Copynumber: 25.0 Consensus size: 3
6372485 ATATATTTAT
*
6372495 TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
6372543 TAA TAA TAA T-A TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
6372569 ATATGGATAA
Statistics
Matches: 68, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
2 2 0.03
3 66 0.97
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:6373068 original size:32 final size:31
Alignment explanation
Indices: 6373032--6373100 Score: 86
Period size: 32 Copynumber: 2.2 Consensus size: 31
6373022 CCGTGTCCCG
6373032 ACCCGGATGTTATG-GGTACCCGGTAATCGGAT
1 ACCCGG-T-TTATGAGGTACCCGGTAATCGGAT
* *
6373064 ACCCGGTTTTTGCAGGTACCCGGTAATCGGGT
1 ACCCGGTTTATG-AGGTACCCGGTAATCGGAT
6373096 ACCCG
1 ACCCG
6373101 ATACTCGGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
30 4 0.12
31 1 0.03
32 28 0.85
ACGTcount: A:0.19, C:0.26, G:0.30, T:0.25
Consensus pattern (31 bp):
ACCCGGTTTATGAGGTACCCGGTAATCGGAT
Found at i:6373098 original size:15 final size:15
Alignment explanation
Indices: 6373045--6373100 Score: 58
Period size: 15 Copynumber: 3.6 Consensus size: 15
6373035 CGGATGTTAT
6373045 GGGTACCCGGTAATC
1 GGGTACCCGGTAATC
* **
6373060 GGATACCCGGTTTTTGC
1 GGGTACCCGG-TAAT-C
*
6373077 AGGTACCCGGTAATC
1 GGGTACCCGGTAATC
6373092 GGGTACCCG
1 GGGTACCCG
6373101 ATACTCGGTT
Statistics
Matches: 31, Mismatches: 8, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
15 18 0.58
16 4 0.13
17 9 0.29
ACGTcount: A:0.18, C:0.27, G:0.32, T:0.23
Consensus pattern (15 bp):
GGGTACCCGGTAATC
Found at i:6375906 original size:21 final size:20
Alignment explanation
Indices: 6375839--6375913 Score: 78
Period size: 21 Copynumber: 3.6 Consensus size: 20
6375829 CAGTTTCCAA
* * *
6375839 AATCGCAACGCGATTCTTGAC
1 AATCGCAATGCGATT-TTCAT
6375860 AATCGCAATGCGATTTTCAT
1 AATCGCAATGCGATTTTCAT
* *
6375880 ATTCGCATTGCGATTTTCCAT
1 AATCGCAATGCGATTTT-CAT
*
6375901 AATCGCAACGCGA
1 AATCGCAATGCGA
6375914 ATATGAAAAT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 18 0.40
21 27 0.60
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.29
Consensus pattern (20 bp):
AATCGCAATGCGATTTTCAT
Found at i:6375926 original size:20 final size:20
Alignment explanation
Indices: 6375901--6376053 Score: 75
Period size: 20 Copynumber: 7.7 Consensus size: 20
6375891 GATTTTCCAT
* *
6375901 AATCGCAACGCGAATATGA-A
1 AATCGCAACGCGAACA-CATA
6375921 AATCGCAACGCGAACACATA
1 AATCGCAACGCGAACACATA
* *
6375941 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
6375961 AATCGCAACGTGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* *
6375981 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
6376001 AATCGCAATGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
6376021 TATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
6376041 AATCGCAACGCGA
1 AATCGCAACGCGA
6376054 TTTTTAAAGC
Statistics
Matches: 121, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
19 2 0.02
20 117 0.97
21 2 0.02
ACGTcount: A:0.34, C:0.27, G:0.20, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGAACACATA
Found at i:6375949 original size:40 final size:40
Alignment explanation
Indices: 6375897--6376052 Score: 136
Period size: 40 Copynumber: 3.9 Consensus size: 40
6375887 TTGCGATTTT
*
6375897 CCAT-AATCGCAACGCGAATATGAAAATCGCAACGCG-AA
1 CCATAAATCGCAACGCGAATACGAAAATCGCAACGCGTAA
* * * * *
6375935 CACATAAATCGCAACGCGTATCCGTAAATCGCAACGTGTAT
1 C-CATAAATCGCAACGCGAATACGAAAATCGCAACGCGTAA
* * * * * *
6375976 CCGTAAATCGCAACGCGTATCCGTAAATCGCAATGCGTAT
1 CCATAAATCGCAACGCGAATACGAAAATCGCAACGCGTAA
* * * * *
6376016 CCGTATATCGCAACGCGTATCCGTAAATCGCAACGCG
1 CCATAAATCGCAACGCGAATACGAAAATCGCAACGCG
6376053 ATTTTTAAAG
Statistics
Matches: 104, Mismatches: 11, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
38 1 0.01
39 3 0.03
40 98 0.94
41 2 0.02
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.19
Consensus pattern (40 bp):
CCATAAATCGCAACGCGAATACGAAAATCGCAACGCGTAA
Found at i:6375984 original size:60 final size:59
Alignment explanation
Indices: 6375901--6376053 Score: 207
Period size: 60 Copynumber: 2.6 Consensus size: 59
6375891 GATTTTCCAT
* ** *
6375901 AATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAAC-CATAAATCGCAACGCGTATCCGTA
* * * *
6375961 AATCGCAACGTGTATCCGTAAATCGCAACGCGTATCCGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCG-AACCATAAATCGCAACGCGTATCCGTA
*
6376021 TATCGCAACGCGTATCCGTAAATCGCAACGCGA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGA
6376054 TTTTTAAAGC
Statistics
Matches: 82, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
59 1 0.01
60 79 0.96
61 2 0.02
ACGTcount: A:0.34, C:0.27, G:0.20, T:0.19
Consensus pattern (59 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGCGAACCATAAATCGCAACGCGTATCCGTA
Found at i:6376471 original size:33 final size:33
Alignment explanation
Indices: 6376432--6376502 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
6376422 TTCACTTAGA
6376432 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
6376465 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
6376498 TTTCA
1 TTTCA
6376503 AGTTAGTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.11, C:0.24, G:0.17, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:6376607 original size:21 final size:20
Alignment explanation
Indices: 6376581--6376687 Score: 102
Period size: 21 Copynumber: 5.5 Consensus size: 20
6376571 TGCAGAAGAG
6376581 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-AAATGAAAA
* **
6376602 TCGCAACGTGAAAATGACTA
1 TCGCAACGAGAAAATGAAAA
6376622 TCTGCAACGAGAAAAATGAAAA
1 TC-GCAACGAG-AAAATGAAAA
6376644 TCGCAACGAG---A-G--AA
1 TCGCAACGAGAAAATGAAAA
*
6376658 TCGCAACGCG-AAATGAAAA
1 TCGCAACGAGAAAATGAAAA
6376677 TCGCAACGAGA
1 TCGCAACGAGA
6376688 GAATCGCAAC
Statistics
Matches: 70, Mismatches: 8, Indels: 17
0.74 0.08 0.18
Matches are distributed among these distances:
14 11 0.16
16 2 0.03
17 2 0.03
19 11 0.16
20 9 0.13
21 25 0.36
22 10 0.14
ACGTcount: A:0.47, C:0.19, G:0.21, T:0.13
Consensus pattern (20 bp):
TCGCAACGAGAAAATGAAAA
Found at i:6376661 original size:14 final size:14
Alignment explanation
Indices: 6376642--6376698 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
6376632 GAAAAATGAA
6376642 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
6376656 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
6376675 AATCGCAACGAGAG
1 AATCGCAACGAGAG
6376689 AATCGCAACG
1 AATCGCAACG
6376699 CGAAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:6376673 original size:33 final size:33
Alignment explanation
Indices: 6376635--6376714 Score: 142
Period size: 33 Copynumber: 2.4 Consensus size: 33
6376625 GCAACGAGAA
6376635 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
1 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
6376668 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
1 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
**
6376701 AAACCAAAATCGCA
1 AAATGAAAATCGCA
6376715 TTGCGATTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.47, C:0.23, G:0.21, T:0.09
Consensus pattern (33 bp):
AAATGAAAATCGCAACGAGAGAATCGCAACGCG
Found at i:6376732 original size:19 final size:19
Alignment explanation
Indices: 6376710--6376837 Score: 87
Period size: 19 Copynumber: 7.1 Consensus size: 19
6376700 GAAACCAAAA
*
6376710 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
6376729 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
6376743 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
6376762 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
6376776 TCTCGTTGCGATTTTCATTT
1 TCGCGTTGCGATTTTCA-TT
* ***
6376796 CTCTCGTTGCGACAGTCATT
1 -TCGCGTTGCGATTTTCATT
*
6376816 CTCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
6376836 TC
1 TC
6376838 AACCAAAGAC
Statistics
Matches: 87, Mismatches: 10, Indels: 24
0.72 0.08 0.20
Matches are distributed among these distances:
14 20 0.23
16 6 0.07
17 6 0.07
19 22 0.25
20 19 0.22
21 14 0.16
ACGTcount: A:0.11, C:0.25, G:0.19, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:6376751 original size:14 final size:14
Alignment explanation
Indices: 6376732--6376788 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
6376722 TTTCATTTCG
6376732 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
6376746 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
6376765 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
6376779 CGTTGCGATT
1 CGTTGCGATT
6376789 TTCATTTCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:6376757 original size:33 final size:33
Alignment explanation
Indices: 6376715--6376837 Score: 165
Period size: 33 Copynumber: 3.5 Consensus size: 33
6376705 CAAAATCGCA
6376715 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
6376748 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
6376781 TTGCGATTTTCATTTCTCTCGTTGCGACAGTCATTCTCTCG
1 TTGCGATTTTCA-TT-TCGCGTT--G-C-G--ATTCTCTCG
6376822 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
6376838 AACCAAAGAC
Statistics
Matches: 81, Mismatches: 1, Indels: 10
0.88 0.01 0.11
Matches are distributed among these distances:
33 45 0.56
34 2 0.02
35 6 0.07
37 1 0.01
38 1 0.01
39 3 0.04
40 2 0.02
41 21 0.26
ACGTcount: A:0.11, C:0.24, G:0.19, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:6376799 original size:21 final size:21
Alignment explanation
Indices: 6376773--6376837 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
6376763 CGCGTTGCGA
6376773 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
6376794 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
6376814 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
6376835 TTC
1 TTC
6376838 AACCAAAGAC
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 17 0.46
21 20 0.54
ACGTcount: A:0.11, C:0.26, G:0.15, T:0.48
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:6378867 original size:21 final size:21
Alignment explanation
Indices: 6378841--6378885 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
6378831 GATTTCTGGG
* *
6378841 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
6378862 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
6378883 CAA
1 CAA
6378886 ACGACAGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:6379673 original size:31 final size:31
Alignment explanation
Indices: 6379635--6379772 Score: 203
Period size: 31 Copynumber: 4.6 Consensus size: 31
6379625 AAGGTCGAGG
6379635 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
6379666 GTTTACCTATG---TTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* *
6379694 GTTTACCTATGTTCTT-GGAACATACGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
6379724 GTTTACCTATGTCCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* *
6379755 GATTACCTAGGTTCTTCG
1 GTTTACCTATGTTCTTCG
6379773 AATCTATGGA
Statistics
Matches: 95, Mismatches: 8, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
28 28 0.29
30 27 0.28
31 40 0.42
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.37
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:6379689 original size:28 final size:28
Alignment explanation
Indices: 6379635--6379768 Score: 160
Period size: 28 Copynumber: 4.5 Consensus size: 28
6379625 AAGGTCGAGG
6379635 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATG---TTCGGGACATATGGACT
6379666 GTTTACCTATGTTCGGGACATATGGACT
1 GTTTACCTATGTTCGGGACATATGGACT
* *
6379694 GTTTACCTATGTTCTTGGAACATACGGACT
1 GTTTACCTATGTTC--GGGACATATGGACT
6379724 GTTTACCTATGTCCTTCGGGACATATGGACT
1 GTTTACCTATG---TTCGGGACATATGGACT
* *
6379755 GATTACCTAGGTTC
1 GTTTACCTATGTTC
6379769 TTCGAATCTA
Statistics
Matches: 92, Mismatches: 6, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
28 34 0.37
30 23 0.25
31 32 0.35
33 3 0.03
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.37
Consensus pattern (28 bp):
GTTTACCTATGTTCGGGACATATGGACT
Found at i:6379784 original size:61 final size:58
Alignment explanation
Indices: 6379637--6379785 Score: 192
Period size: 61 Copynumber: 2.5 Consensus size: 58
6379627 GGTCGAGGGT
* * *
6379637 TTACCTATGTTCTTCGGGACATATGGACTGTTTACCTATGTTCGGGACATATGGACTGT
1 TTACCTAGGTTCTTC-GAACATATGGACTGTTTACCTATGTTCGGGACATATGGACTGA
* * *
6379696 TTACCTATGTTCTTGGAACATACGGACTGTTTACCTATGTCCTTCGGGACATATGGACTGA
1 TTACCTAGGTTCTTCGAACATATGGACTGTTTACCTATG---TTCGGGACATATGGACTGA
6379757 TTACCTAGGTTCTTCGAATC-TATGGACTG
1 TTACCTAGGTTCTTCGAA-CATATGGACTG
6379786 GTCCTTCGGG
Statistics
Matches: 79, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
58 22 0.28
59 14 0.18
61 42 0.53
62 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.36
Consensus pattern (58 bp):
TTACCTAGGTTCTTCGAACATATGGACTGTTTACCTATGTTCGGGACATATGGACTGA
Found at i:6382766 original size:21 final size:21
Alignment explanation
Indices: 6382740--6382784 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
6382730 GATTTCTGGG
* *
6382740 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
6382761 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
6382782 CAA
1 CAA
6382785 ACGACAGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:6383588 original size:31 final size:31
Alignment explanation
Indices: 6383539--6383670 Score: 221
Period size: 31 Copynumber: 4.3 Consensus size: 31
6383529 AGGGTCGAGG
6383539 GTTTACCTATG-TCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
6383569 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* *
6383600 GTTTACCTATGTTCTTCGGAACATACGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
6383631 GTTTACCTATGTCCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
6383662 GATTACCTA
1 GTTTACCTA
6383671 GGTTTCGGAA
Statistics
Matches: 95, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
30 11 0.12
31 84 0.88
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.36
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:6385088 original size:14 final size:14
Alignment explanation
Indices: 6385071--6385097 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
6385061 AACGCGAAAC
6385071 CAAAATCGCAACGA
1 CAAAATCGCAACGA
6385085 CAAAATCGCAACG
1 CAAAATCGCAACG
6385098 CGAAACCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.30, G:0.15, T:0.07
Consensus pattern (14 bp):
CAAAATCGCAACGA
Found at i:6385092 original size:52 final size:53
Alignment explanation
Indices: 6385004--6385113 Score: 141
Period size: 52 Copynumber: 2.1 Consensus size: 53
6384994 TAGTTTACTT
* * * **
6385004 TCGCAACACGAAACTTAAAATCAAAACGAGAGAATCGCAACGCGAAATGAAAA
1 TCGCAACACGAAACTCAAAATCAAAACGACAAAATCGCAACGCGAAACCAAAA
* **
6385057 TCGCAACGCGAAAC-CAAAATCGCAACGACAAAATCGCAACGCGAAACCAAAA
1 TCGCAACACGAAACTCAAAATCAAAACGACAAAATCGCAACGCGAAACCAAAA
6385109 TCGCA
1 TCGCA
6385114 TTGCGATTTT
Statistics
Matches: 49, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
52 36 0.73
53 13 0.27
ACGTcount: A:0.48, C:0.26, G:0.16, T:0.09
Consensus pattern (53 bp):
TCGCAACACGAAACTCAAAATCAAAACGACAAAATCGCAACGCGAAACCAAAA
Found at i:6385119 original size:19 final size:19
Alignment explanation
Indices: 6385036--6385113 Score: 103
Period size: 19 Copynumber: 4.4 Consensus size: 19
6385026 AAAACGAGAG
**
6385036 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAACCAA
6385055 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAACCAA
6385074 AATCGCAA--CG--A-CAA
1 AATCGCAACGCGAAACCAA
6385088 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAACCAA
6385107 AATCGCA
1 AATCGCA
6385114 TTGCGATTTT
Statistics
Matches: 52, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
14 11 0.21
15 1 0.02
16 2 0.04
17 2 0.04
18 1 0.02
19 35 0.67
ACGTcount: A:0.47, C:0.28, G:0.17, T:0.08
Consensus pattern (19 bp):
AATCGCAACGCGAAACCAA
Found at i:6385136 original size:19 final size:19
Alignment explanation
Indices: 6385109--6385263 Score: 125
Period size: 19 Copynumber: 8.7 Consensus size: 19
6385099 GAAACCAAAA
*
6385109 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
6385128 TTGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
6385142 TCTCGTTGCGATTTTTGTT
1 TCGCGTTGCGATTTTCATT
*
6385161 TCGCGTTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
6385177 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
6385194 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
**
6385213 TCGCGTTGCGA-TTTGGTT
1 TCGCGTTGCGATTTTCATT
* *
6385231 TCTCGTTGCGATTCTCATT
1 TCGCGTTGCGATTTTCATT
6385250 TCGCGTTGCGATTT
1 TCGCGTTGCGATTT
6385264 AAGTTTCGTG
Statistics
Matches: 108, Mismatches: 17, Indels: 22
0.73 0.12 0.15
Matches are distributed among these distances:
14 17 0.16
16 7 0.06
17 7 0.06
18 17 0.16
19 60 0.56
ACGTcount: A:0.08, C:0.20, G:0.25, T:0.47
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:6385156 original size:33 final size:33
Alignment explanation
Indices: 6385114--6385206 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
6385104 CAAAATCGCA
*
6385114 TTGCGATTTTCATTTTGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
** *
6385147 TTGCGATTTTTGTTTCGCGTTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
6385180 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
6385207 TTGGTTTCGC
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 54 1.00
ACGTcount: A:0.09, C:0.19, G:0.24, T:0.48
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:6385183 original size:14 final size:14
Alignment explanation
Indices: 6385131--6385187 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
6385121 TTTCATTTTG
*
6385131 CGTTGCGATTCTCT
1 CGTTGCGATTCTGT
*
6385145 CGTTGCGATTTTTGTTT
1 CGTTGCGA-TTCTG--T
6385162 CGCGTTGCGATTCTGT
1 --CGTTGCGATTCTGT
6385178 CGTTGCGATT
1 CGTTGCGATT
6385188 TTCATTTCGC
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 18 0.51
15 3 0.09
16 1 0.03
17 1 0.03
18 4 0.11
19 8 0.23
ACGTcount: A:0.07, C:0.21, G:0.26, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTGT
Found at i:6385252 original size:37 final size:37
Alignment explanation
Indices: 6385109--6385263 Score: 114
Period size: 33 Copynumber: 4.4 Consensus size: 37
6385099 GAAACCAAAA
* *
6385109 TCGCATTGCGATTTTCATTTTGCGTTGCGATTCTC---
1 TCGCGTTGCGA-TTTCATTTCGCGTTGCGATTCTCATT
** *
6385144 T--CGTTGCGATTTTTGTTTCGCGTTGCGA-T-TC-TG
1 TCGCGTTGCGA-TTTCATTTCGCGTTGCGATTCTCATT
* **
6385177 T--CGTTGCGATTTTCATTTCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGA-TTTCATTTCGCGTTGCGATTCTCATT
** *
6385213 TCGCGTTGCGATTTGGTTTCTCGTTGCGATTCTCATT
1 TCGCGTTGCGATTTCATTTCGCGTTGCGATTCTCATT
6385250 TCGCGTTGCGATTT
1 TCGCGTTGCGATTT
6385264 AAGTTTCGTG
Statistics
Matches: 99, Mismatches: 14, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
31 2 0.02
32 1 0.01
33 49 0.49
34 1 0.01
35 2 0.02
36 2 0.02
37 34 0.34
38 8 0.08
ACGTcount: A:0.08, C:0.20, G:0.25, T:0.47
Consensus pattern (37 bp):
TCGCGTTGCGATTTCATTTCGCGTTGCGATTCTCATT
Found at i:6385260 original size:56 final size:52
Alignment explanation
Indices: 6385145--6385263 Score: 168
Period size: 56 Copynumber: 2.2 Consensus size: 52
6385135 GCGATTCTCT
* *
6385145 CGTTGCGATTTTTGTTTCGCGTTGCGATTCTGTCGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTGGTTTCGCGTTGCGATTCTGTCGTTGCGATTCTCATTTCG
6385197 CGTTGCGATTTTGGTTTCGCGTTGCGATT-TGGTTTCTCGTTGCGATTCTCATTTCG
1 CGTTGCGATTTTGGTTTCGCGTTGCGATTCT-G----TCGTTGCGATTCTCATTTCG
6385253 CGTTGCGATTT
1 CGTTGCGATTT
6385264 AAGTTTCGTG
Statistics
Matches: 60, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
51 1 0.02
52 29 0.48
56 30 0.50
ACGTcount: A:0.08, C:0.19, G:0.26, T:0.47
Consensus pattern (52 bp):
CGTTGCGATTTTGGTTTCGCGTTGCGATTCTGTCGTTGCGATTCTCATTTCG
Found at i:6385750 original size:42 final size:42
Alignment explanation
Indices: 6385671--6385789 Score: 98
Period size: 42 Copynumber: 2.8 Consensus size: 42
6385661 GACTCGCCTG
* * * * * * * *
6385671 TCATCCCTCAAGAGTCCACTCCTATCGTTGAATAGGCCCCTA
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
*
6385713 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
* * *
6385755 TCA-TCATTGAAGAGGT-CCCTCCCACCATTCAAGAG
1 TCATTCCTCG-AGA-GTCCCCTCCCACCGTTCAAGAG
6385790 CCGATTCACA
Statistics
Matches: 63, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
41 4 0.06
42 57 0.90
43 2 0.03
ACGTcount: A:0.24, C:0.36, G:0.17, T:0.24
Consensus pattern (42 bp):
TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
Found at i:6387192 original size:14 final size:14
Alignment explanation
Indices: 6387173--6387208 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
6387163 ATTGTTTAAT
6387173 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
6387187 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
6387201 TGATTTGT
1 TGATTTGT
6387209 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:6387322 original size:19 final size:19
Alignment explanation
Indices: 6387298--6387385 Score: 123
Period size: 19 Copynumber: 4.8 Consensus size: 19
6387288 GCATTATGTT
6387298 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAATGC
6387317 GAAATGAAAATCGCAA--C
1 GAAATGAAAATCGCAATGC
*
6387334 G--A-GAGAATCGCAATGC
1 GAAATGAAAATCGCAATGC
6387350 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAATGC
6387369 GGAAATGAAAATCGCAA
1 -GAAATGAAAATCGCAA
6387386 CGAGAGAATC
Statistics
Matches: 61, Mismatches: 2, Indels: 11
0.82 0.03 0.15
Matches are distributed among these distances:
14 10 0.16
15 1 0.02
16 2 0.03
17 2 0.03
18 1 0.02
19 29 0.48
20 16 0.26
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.14
Consensus pattern (19 bp):
GAAATGAAAATCGCAATGC
Found at i:6387417 original size:53 final size:53
Alignment explanation
Indices: 6387298--6387404 Score: 207
Period size: 53 Copynumber: 2.0 Consensus size: 53
6387288 GCATTATGTT
6387298 GAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGC
1 GAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGC
6387350 GAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGC
1 GAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGC
6387403 GA
1 GA
6387405 TTTTCATTTC
Statistics
Matches: 54, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 19 0.35
53 35 0.65
ACGTcount: A:0.46, C:0.17, G:0.24, T:0.13
Consensus pattern (53 bp):
GAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGC
Found at i:6387422 original size:19 final size:19
Alignment explanation
Indices: 6387394--6387652 Score: 294
Period size: 19 Copynumber: 14.7 Consensus size: 19
6387384 AACGAGAGAA
*
6387394 TCGCAATGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
6387413 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
6387432 TCCGCATTGCGA--TTC-TC
1 T-CGCATTGCGATTTTCATT
6387449 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
6387466 TCGCATTGCGA--TTC---
1 TCGCATTGCGATTTTCATT
6387480 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
6387497 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
6387516 TCCGCATTGCGA--TTC-TC
1 T-CGCATTGCGATTTTCATT
6387533 TCG--TTGCGA-TTTCATT
1 TCGCATTGCGATTTTCATT
6387549 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
6387568 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
6387587 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
6387606 TCCGCATTGCGATTTTC--T
1 T-CGCATTGCGATTTTCATT
*
6387624 T-G--TTGGGATTTTCATT
1 TCGCATTGCGATTTTCATT
6387640 TCGCATTGCGATT
1 TCGCATTGCGATT
6387653 CTCTCGTTGC
Statistics
Matches: 208, Mismatches: 7, Indels: 50
0.78 0.03 0.19
Matches are distributed among these distances:
12 6 0.03
14 28 0.13
15 3 0.01
16 14 0.07
17 15 0.07
18 14 0.07
19 93 0.45
20 35 0.17
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.46
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:6387541 original size:84 final size:85
Alignment explanation
Indices: 6387400--6387666 Score: 430
Period size: 84 Copynumber: 3.1 Consensus size: 85
6387390 AGAATCGCAA
6387400 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCAT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCAT
6387465 TTCGCATTGCGA-TTCTCGT
66 TTCGCATTGCGATTTCTCGT
6387484 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGA-TTTCAT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCAT
6387548 TTCGCATTGCGATTTTCATTTCGCAT
66 TTCGCATTGCGA-TTTC---TCG--T
* * *
6387574 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTTTCTTGTTGGGATTTTCAT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCAT
6387639 TTCGCATTGCGATTCTCTCGT
66 TTCGCATTGCGATT-TCTCGT
6387660 TGCGATT
1 TGCGATT
6387667 GTAATTTCCG
Statistics
Matches: 171, Mismatches: 3, Indels: 16
0.90 0.02 0.08
Matches are distributed among these distances:
83 18 0.11
84 58 0.34
85 3 0.02
86 8 0.05
88 6 0.04
90 58 0.34
91 20 0.12
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.46
Consensus pattern (85 bp):
TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCAT
TTCGCATTGCGATTTCTCGT
Found at i:6387567 original size:71 final size:68
Alignment explanation
Indices: 6387400--6387652 Score: 259
Period size: 71 Copynumber: 3.6 Consensus size: 68
6387390 AGAATCGCAA
*
6387400 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGA--TTC-TCTCG--TTGCGATT
1 TGCGA-TTTCATTTCGCATTGCGATTTTCATTT-CGCATTGCGATTTTCATTTCGCATTGCGATT
6387460 TTCAT
64 TTCAT
* *
6387465 TTCGCATTGCGATTCTCG--TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGA
1 TGCG-ATTTC-ATT-TCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTT-CGCATTGCGA
*
6387528 TTCTCTCGT
62 TT-T-TCAT
6387537 TGCGATTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTT
1 TGCGATTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTT
6387602 CATT
66 CA-T
* * *** *
6387606 TCCGCATTGCGATTTTCTTGTTGGGATTTTCATTTCGCATTGCGATT
1 TGCG-ATTTC-A-TTTCGCATTGCGATTTTCATTTCGCATTGCGATT
6387653 CTCTCGTTGC
Statistics
Matches: 158, Mismatches: 13, Indels: 27
0.80 0.07 0.14
Matches are distributed among these distances:
64 10 0.06
65 21 0.13
66 7 0.04
67 5 0.03
68 4 0.03
69 8 0.05
70 27 0.17
71 40 0.25
72 36 0.23
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.46
Consensus pattern (68 bp):
TGCGATTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTT
CAT
Found at i:6387681 original size:53 final size:53
Alignment explanation
Indices: 6387577--6387681 Score: 124
Period size: 53 Copynumber: 2.0 Consensus size: 53
6387567 TTCGCATTGC
* * * *
6387577 GATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTTTCTTGTTGG
1 GATTTTCATTTCGCATTGCGATTTTCAGTTCCGCATTGCAATTTCCGTGTTGG
* *
6387630 GATTTTCATTTCGCATTGCGATTCTCTC-GTTGCG-ATTGTAATTTCCGTGTTG
1 GATTTTCATTTCGCATTGCGATT-T-TCAGTTCCGCATTGCAATTTCCGTGTTG
6387682 CGATAGTCAA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
53 37 0.84
54 5 0.11
55 2 0.05
ACGTcount: A:0.13, C:0.19, G:0.20, T:0.48
Consensus pattern (53 bp):
GATTTTCATTTCGCATTGCGATTTTCAGTTCCGCATTGCAATTTCCGTGTTGG
Found at i:6389901 original size:12 final size:12
Alignment explanation
Indices: 6389886--6389910 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6389876 TTTTCGGGGA
6389886 CTTTTTCTTCTT
1 CTTTTTCTTCTT
6389898 CTTTTTCTTCTT
1 CTTTTTCTTCTT
6389910 C
1 C
6389911 AGGATTAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:6390114 original size:24 final size:24
Alignment explanation
Indices: 6390080--6390126 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
6390070 CTGAAACATC
6390080 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
6390104 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
6390127 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:6390704 original size:20 final size:21
Alignment explanation
Indices: 6390675--6390713 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
6390665 ACCTGTTGCC
*
6390675 GGATTGGGAA-GGATGTCGTT
1 GGATTAGGAACGGATGTCGTT
6390695 GGATTAGGAACGGATGTCG
1 GGATTAGGAACGGATGTCG
6390714 CCGGAGAGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.23, C:0.08, G:0.44, T:0.26
Consensus pattern (21 bp):
GGATTAGGAACGGATGTCGTT
Found at i:6390851 original size:20 final size:19
Alignment explanation
Indices: 6390828--6390998 Score: 177
Period size: 20 Copynumber: 8.7 Consensus size: 19
6390818 TTTAAGATTC
6390828 TCGTTGCGATTTACGGATTA
1 TCGTTGCGATTTACGGA-TA
* *
6390848 TCGTTGCGATTTACAGATTC
1 TCGTTGCGATTTACGGA-TA
6390868 TCGTTGCGATTTACGGATTA
1 TCGTTGCGATTTACGGA-TA
6390888 TCGTTGCGATTTACGGATA
1 TCGTTGCGATTTACGGATA
* *
6390907 CGCGTTGCGATATACGGATA
1 -TCGTTGCGATTTACGGATA
6390927 -CGCATTGCGATTTACGGATA
1 TCG--TTGCGATTTACGGATA
*
6390947 -CGCGTGCGATTTACGGATA
1 TCG-TTGCGATTTACGGATA
*
6390966 CACGTTGCGA-TTACGGATA
1 -TCGTTGCGATTTACGGATA
*
6390985 CGCGTTGCGATTTA
1 -TCGTTGCGATTTA
6390999 TGTGTTCGCG
Statistics
Matches: 134, Mismatches: 11, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
18 2 0.01
19 35 0.26
20 95 0.71
21 2 0.01
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.33
Consensus pattern (19 bp):
TCGTTGCGATTTACGGATA
Found at i:6390870 original size:40 final size:39
Alignment explanation
Indices: 6390829--6390998 Score: 229
Period size: 40 Copynumber: 4.3 Consensus size: 39
6390819 TTAAGATTCT
* * *
6390829 CGTTGCGATTTACGGATTATCGTTGCGATTTACAGATTCT
1 CGTTGCGATTTACGGA-TATCGTTGCGATTTACGGATACG
6390869 CGTTGCGATTTACGGATTATCGTTGCGATTTACGGATACG
1 CGTTGCGATTTACGGA-TATCGTTGCGATTTACGGATACG
*
6390909 CGTTGCGATATACGGATA-CGCATTGCGATTTACGGATACG
1 CGTTGCGATTTACGGATATCG--TTGCGATTTACGGATACG
*
6390949 CG-TGCGATTTACGGATACACGTTGCGA-TTACGGATACG
1 CGTTGCGATTTACGGATA-TCGTTGCGATTTACGGATACG
6390987 CGTTGCGATTTA
1 CGTTGCGATTTA
6390999 TGTGTTCGCG
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
38 15 0.12
39 31 0.26
40 72 0.60
41 2 0.02
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.33
Consensus pattern (39 bp):
CGTTGCGATTTACGGATATCGTTGCGATTTACGGATACG
Found at i:6390901 original size:60 final size:60
Alignment explanation
Indices: 6390823--6390998 Score: 225
Period size: 60 Copynumber: 3.0 Consensus size: 60
6390813 TGTGATTTAA
* * * * *
6390823 GATTCTCGTTGCGATTTACGGATTA-TCGTTGCGATTTACAGATTCTCGTTGCGATTTACG
1 GATTATCGTTGCGATTTACGGA-TACACGTTGCGATTTACGGATACGCGTTGCGATTTACG
* * *
6390883 GATTATCGTTGCGATTTACGGATACGCGTTGCGATATACGGATACGCATTGCGATTTACG
1 GATTATCGTTGCGATTTACGGATACACGTTGCGATTTACGGATACGCGTTGCGATTTACG
*
6390943 GA-TA-CGCGTGCGATTTACGGATACACGTTGCGA-TTACGGATACGCGTTGCGATTTA
1 GATTATCG-TTGCGATTTACGGATACACGTTGCGATTTACGGATACGCGTTGCGATTTA
6390999 TGTGTTCGCG
Statistics
Matches: 103, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
58 23 0.22
59 28 0.27
60 52 0.50
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.34
Consensus pattern (60 bp):
GATTATCGTTGCGATTTACGGATACACGTTGCGATTTACGGATACGCGTTGCGATTTACG
Found at i:6391011 original size:39 final size:40
Alignment explanation
Indices: 6390829--6391017 Score: 226
Period size: 40 Copynumber: 4.8 Consensus size: 40
6390819 TTAAGATTCT
* * * *
6390829 CGTTGCGATTTACGGATTA-TCGTTGCGATTTACAGATTCT
1 CGTTGCGATTTACGGA-TACGCGTTGCGATTTACGGATACG
*
6390869 CGTTGCGATTTACGGATTA-TCGTTGCGATTTACGGATACG
1 CGTTGCGATTTACGGA-TACGCGTTGCGATTTACGGATACG
* *
6390909 CGTTGCGATATACGGATACGCATTGCGATTTACGGATACG
1 CGTTGCGATTTACGGATACGCGTTGCGATTTACGGATACG
*
6390949 CG-TGCGATTTACGGATACACGTTGCGA-TTACGGATACG
1 CGTTGCGATTTACGGATACGCGTTGCGATTTACGGATACG
* *
6390987 CGTTGCGATTTATGTG-TTCGCGTTGCGATTT
1 CGTTGCGATTTACG-GATACGCGTTGCGATTT
6391018 TCATATTCGC
Statistics
Matches: 133, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
38 13 0.10
39 44 0.33
40 76 0.57
ACGTcount: A:0.20, C:0.19, G:0.27, T:0.34
Consensus pattern (40 bp):
CGTTGCGATTTACGGATACGCGTTGCGATTTACGGATACG
Found at i:6391026 original size:20 final size:19
Alignment explanation
Indices: 6390985--6391038 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
6390975 ATTACGGATA
* *
6390985 CGCGTTGCGATTTATGTGTT
1 CGCGTTGCGATTT-TATATT
6391005 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTT-ATATT
*
6391025 CGCGTTGCAATTTT
1 CGCGTTGCGATTTT
6391039 GGAAACTGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
19 1 0.03
20 29 0.97
ACGTcount: A:0.13, C:0.19, G:0.24, T:0.44
Consensus pattern (19 bp):
CGCGTTGCGATTTTATATT
Found at i:6391029 original size:78 final size:78
Alignment explanation
Indices: 6390849--6391095 Score: 238
Period size: 78 Copynumber: 3.1 Consensus size: 78
6390839 TACGGATTAT
* *
6390849 CGTTGCGATTTACAGATTCTCGTTGCGATTTACGGATTATCGTTGCGATTTACGGATACGCGTTG
1 CGTTGCGATTTACAGATTCGCGTTGCGATTTACGGA-TAACGTTGCGA-TTACGGATACGCGTTG
* * *
6390914 CGATATACG-GATACG
64 CGATTTATGTG-TTCG
* * *
6390929 CATTGCGATTTACGGATACGCG-TGCGATTTACGGATACACGTTGCGATTACGGATACGCGTTGC
1 CGTTGCGATTTACAGATTCGCGTTGCGATTTACGGATA-ACGTTGCGATTACGGATACGCGTTGC
6390993 GATTTATGTGTTCG
65 GATTTATGTGTTCG
* * * *
6391007 CGTTGCGATTTTCATATTCGCGTTGCAATTT-TGGA-AACTGATTGCGATT-CTGGGGAT-CGCG
1 CGTTGCGATTTACAGATTCGCGTTGCGATTTACGGATAAC-G-TTGCGATTAC---GGATACGCG
* *
6391068 TTGCGATTTTTAT-TTCG
61 TTGCGATTTATGTGTTCG
6391085 CGTTGCGATTT
1 CGTTGCGATTT
6391096 GTTGGTCATT
Statistics
Matches: 142, Mismatches: 17, Indels: 18
0.80 0.10 0.10
Matches are distributed among these distances:
76 2 0.01
77 3 0.02
78 71 0.50
79 44 0.31
80 22 0.15
ACGTcount: A:0.19, C:0.18, G:0.27, T:0.36
Consensus pattern (78 bp):
CGTTGCGATTTACAGATTCGCGTTGCGATTTACGGATAACGTTGCGATTACGGATACGCGTTGCG
ATTTATGTGTTCG
Found at i:6393221 original size:57 final size:57
Alignment explanation
Indices: 6393133--6393246 Score: 228
Period size: 57 Copynumber: 2.0 Consensus size: 57
6393123 ATGGTTAGGA
6393133 CGTGATAATCTATAATAATTAATAACATGACATATGAATTAAATTGATAATTTAAAC
1 CGTGATAATCTATAATAATTAATAACATGACATATGAATTAAATTGATAATTTAAAC
6393190 CGTGATAATCTATAATAATTAATAACATGACATATGAATTAAATTGATAATTTAAAC
1 CGTGATAATCTATAATAATTAATAACATGACATATGAATTAAATTGATAATTTAAAC
6393247 ATGACAGATA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.47, C:0.09, G:0.09, T:0.35
Consensus pattern (57 bp):
CGTGATAATCTATAATAATTAATAACATGACATATGAATTAAATTGATAATTTAAAC
Found at i:6398913 original size:40 final size:39
Alignment explanation
Indices: 6398832--6398939 Score: 121
Period size: 39 Copynumber: 2.7 Consensus size: 39
6398822 AGTGATACTT
* * **
6398832 AAAATTTAGTTTTTAATTCGT-TTTAATATTTTTTCGTTAAA
1 AAAATTTAGTTTTT-ATT-TTATTTAGTATTTCATCGTT-AA
6398873 AAAATTTAGTTTTTATTTTATTTAGTATTTCATCGTTAA
1 AAAATTTAGTTTTTATTTTATTTAGTATTTCATCGTTAA
*
6398912 AAATTTTAG-TTTTATTTTATTTTAGTAT
1 AAAATTTAGTTTTTATTTTA-TTTAGTAT
6398940 CCAAATTCAA
Statistics
Matches: 60, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
38 10 0.17
39 19 0.32
40 17 0.28
41 14 0.23
ACGTcount: A:0.31, C:0.04, G:0.07, T:0.58
Consensus pattern (39 bp):
AAAATTTAGTTTTTATTTTATTTAGTATTTCATCGTTAA
Found at i:6399117 original size:2 final size:2
Alignment explanation
Indices: 6399110--6399136 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6399100 CCCTATTTAA
6399110 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
6399137 AATTAAATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6400444 original size:21 final size:21
Alignment explanation
Indices: 6400403--6400455 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 21
6400393 AATTTAATAG
* *
6400403 TATTTTAATTTATATAAAAAA
1 TATTTAAATTTATAAAAAAAA
*
6400424 TATTTAAATTTAAAAATAAAAA
1 TATTTAAATTTATAAA-AAAAA
*
6400446 AATATTAAAT
1 TAT-TTAAAT
6400456 ATTTAATCAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 13 0.50
22 7 0.27
23 6 0.23
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
TATTTAAATTTATAAAAAAAA
Found at i:6401686 original size:9 final size:9
Alignment explanation
Indices: 6401658--6401691 Score: 50
Period size: 9 Copynumber: 3.6 Consensus size: 9
6401648 CGTAAGCAAC
6401658 TTAACTTTAA
1 TTAA-TTTAA
6401668 TTATATTTAA
1 TTA-ATTTAA
6401678 TTAATTTAA
1 TTAATTTAA
6401687 TTAAT
1 TTAAT
6401692 AAGGACAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 11 0.48
10 11 0.48
11 1 0.04
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (9 bp):
TTAATTTAA
Found at i:6407323 original size:38 final size:38
Alignment explanation
Indices: 6407247--6407325 Score: 90
Period size: 39 Copynumber: 2.1 Consensus size: 38
6407237 CTATATCTAA
* * *
6407247 TTTTAGTTTTTGTTTCATTTTAGTACTCGCCGTTAAAAT
1 TTTTAGCTTTTGTTTCATTTTAGTAC-CGACATTAAAAT
6407286 TTTTAGCTTTTGTTTCATTTTAGTGA-C-ACATTCAAAAT
1 TTTTAGCTTTTGTTTCATTTTAGT-ACCGACATT-AAAAT
6407324 TT
1 TT
6407326 GACGTTAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
37 3 0.09
38 8 0.23
39 23 0.66
40 1 0.03
ACGTcount: A:0.23, C:0.13, G:0.11, T:0.53
Consensus pattern (38 bp):
TTTTAGCTTTTGTTTCATTTTAGTACCGACATTAAAAT
Found at i:6411690 original size:58 final size:59
Alignment explanation
Indices: 6411615--6411730 Score: 162
Period size: 59 Copynumber: 2.0 Consensus size: 59
6411605 ATAGTTCCCA
* * *
6411615 ACTATAGAATATTACTTTATTAAGTCTCT-GAATATTAAAAGTTACAAAATGATCACCG
1 ACTATAGAATACTACTTTATTAAATCCCTGGAATATTAAAAGTTACAAAATGATCACCG
* * * *
6411673 ACTATAGAATGCTACTTTGTTAAATCCCTGGACTATTAAAAGTTATAAAATGATCACC
1 ACTATAGAATACTACTTTATTAAATCCCTGGAATATTAAAAGTTACAAAATGATCACC
6411731 TAACTATTCA
Statistics
Matches: 50, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
58 24 0.48
59 26 0.52
ACGTcount: A:0.40, C:0.16, G:0.11, T:0.34
Consensus pattern (59 bp):
ACTATAGAATACTACTTTATTAAATCCCTGGAATATTAAAAGTTACAAAATGATCACCG
Found at i:6424098 original size:50 final size:50
Alignment explanation
Indices: 6424023--6424223 Score: 285
Period size: 50 Copynumber: 4.0 Consensus size: 50
6424013 AATTTAATGT
* ** *
6424023 TACATGATTGGGAGAAAAGAGTAGAGGGGCTTGTATAAGAGTGTAACATC
1 TACATGATTGGTAGAAAAGAGTAGAGGGATTTGTATAAAAGTGTAACATC
* *
6424073 TACATGATTGGTAGAAAAGAGTAGAGGGATTTATATAAAAGTGTAATATC
1 TACATGATTGGTAGAAAAGAGTAGAGGGATTTGTATAAAAGTGTAACATC
* * *
6424123 TACATGATTGGTGGAAATGAGTAGAGGGATTTGTATAAAAGTGTAATATC
1 TACATGATTGGTAGAAAAGAGTAGAGGGATTTGTATAAAAGTGTAACATC
* * * *
6424173 TACATGATTGGTGGAAATGAGTAGAGGAATTTGTATGAAAGTGTAACATC
1 TACATGATTGGTAGAAAAGAGTAGAGGGATTTGTATAAAAGTGTAACATC
6424223 T
1 T
6424224 CTACTTAAAT
Statistics
Matches: 139, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 139 1.00
ACGTcount: A:0.37, C:0.05, G:0.28, T:0.29
Consensus pattern (50 bp):
TACATGATTGGTAGAAAAGAGTAGAGGGATTTGTATAAAAGTGTAACATC
Found at i:6428195 original size:31 final size:32
Alignment explanation
Indices: 6428151--6428222 Score: 112
Period size: 31 Copynumber: 2.3 Consensus size: 32
6428141 AAAATAAAAT
*
6428151 ATTAGTCATTAATATTATCGATTTATAACAAA
1 ATTAGTCACTAATATTATCGATTTATAACAAA
*
6428183 ATTA-TCACTAATATTATCGATTTGTAACAAA
1 ATTAGTCACTAATATTATCGATTTATAACAAA
6428214 A-TAGTCACT
1 ATTAGTCACT
6428223 CTGCCCTCAT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
30 2 0.05
31 31 0.84
32 4 0.11
ACGTcount: A:0.42, C:0.12, G:0.07, T:0.39
Consensus pattern (32 bp):
ATTAGTCACTAATATTATCGATTTATAACAAA
Done.