Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168270.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_5, 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: 27802247
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 124000 characters in sequence are not A, C, G, or T
File 43 of 147
Found at i:8618133 original size:3 final size:3
Alignment explanation
Indices: 8618125--8618165 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
8618115 TTGCTTGATA
8618125 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
8618166 ATTAATCTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:8619061 original size:12 final size:11
Alignment explanation
Indices: 8619055--8619094 Score: 57
Period size: 12 Copynumber: 3.7 Consensus size: 11
8619045 TATTTTGATT
8619055 TTGATTTTAT-
1 TTGATTTTATG
8619065 TT-ATTTTATG
1 TTGATTTTATG
8619075 TTGATTTTTATG
1 TTGA-TTTTATG
8619087 TTGATTTT
1 TTGATTTT
8619095 TTATGATATT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
9 7 0.26
10 4 0.15
11 5 0.19
12 11 0.41
ACGTcount: A:0.17, C:0.00, G:0.12, T:0.70
Consensus pattern (11 bp):
TTGATTTTATG
Found at i:8619078 original size:26 final size:27
Alignment explanation
Indices: 8619032--8619082 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
8619022 AAATTTTCTC
*
8619032 TTTTTTTATTTTCTATTTTGATTTTGA
1 TTTTTTTATTTTCTATGTTGATTTTGA
8619059 TTTTATTTA-TTT-TATGTTGATTTT
1 TTTT-TTTATTTTCTATGTTGATTTT
8619083 TATGTTGATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 11 0.50
27 7 0.32
28 4 0.18
ACGTcount: A:0.16, C:0.02, G:0.08, T:0.75
Consensus pattern (27 bp):
TTTTTTTATTTTCTATGTTGATTTTGA
Found at i:8619109 original size:3 final size:3
Alignment explanation
Indices: 8619101--8619152 Score: 97
Period size: 3 Copynumber: 17.7 Consensus size: 3
8619091 TTTTTTATGA
8619101 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
8619148 TAT TA
1 TAT TA
8619153 CTAGTAATAA
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 46 0.96
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:8619689 original size:17 final size:17
Alignment explanation
Indices: 8619667--8619700 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
8619657 CAAAAGACCT
*
8619667 ATTATCAAATTTATAGG
1 ATTATCAAAATTATAGG
8619684 ATTATCAAAATTATAGG
1 ATTATCAAAATTATAGG
8619701 TTAAATCGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.12, T:0.38
Consensus pattern (17 bp):
ATTATCAAAATTATAGG
Found at i:8620126 original size:31 final size:31
Alignment explanation
Indices: 8620074--8620133 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 31
8620064 AACGATTTGA
*
8620074 ACTCAAATTAATTCTAATTTAAATTGATTCG
1 ACTCAAATTAATTCTAATTTAAAATGATTCG
8620105 ACTCAAAATT-ATT-TAACTTTAAAATGATT
1 ACTC-AAATTAATTCTAA-TTTAAAATGATT
8620134 ATAATTTTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 3 0.12
31 18 0.69
32 5 0.19
ACGTcount: A:0.42, C:0.12, G:0.05, T:0.42
Consensus pattern (31 bp):
ACTCAAATTAATTCTAATTTAAAATGATTCG
Found at i:8621158 original size:62 final size:61
Alignment explanation
Indices: 8621048--8621163 Score: 137
Period size: 62 Copynumber: 1.9 Consensus size: 61
8621038 TTAAAATGAA
* ** *
8621048 CATATAAAAATTATTTTAATTTTTAATTTTTTAATTATGATACTTAATTAGTTATTTAATTT
1 CATATAAAAATTATTTTAATATTTAATTTGATAATTATGATACATAATTA-TTATTTAATTT
* *
8621110 CATATAAAAATTATTTTAAATATTTAATTATGATACTTAT-TTA-ATAATTATTAT
1 CATATAAAAATTATTTT-AATATTTAATT-TGATAATTATGATACATAATTATTAT
8621164 AACATTATTT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
61 4 0.09
62 23 0.50
63 12 0.26
64 7 0.15
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (61 bp):
CATATAAAAATTATTTTAATATTTAATTTGATAATTATGATACATAATTATTATTTAATTT
Found at i:8621481 original size:27 final size:29
Alignment explanation
Indices: 8621447--8621500 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
8621437 ATTTATTATT
*
8621447 TTAATTATAT-T-TTTATATATATTCATG
1 TTAATTATATCTATTCATATATATTCATG
8621474 TTAATTATATCTATTCATATATATTCA
1 TTAATTATATCTATTCATATATATTCA
8621501 CATATATTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 10 0.42
28 1 0.04
29 13 0.54
ACGTcount: A:0.35, C:0.07, G:0.02, T:0.56
Consensus pattern (29 bp):
TTAATTATATCTATTCATATATATTCATG
Found at i:8621495 original size:39 final size:39
Alignment explanation
Indices: 8621463--8621538 Score: 107
Period size: 39 Copynumber: 1.9 Consensus size: 39
8621453 ATATTTTTAT
*
8621463 ATATATTCATGTTAATTATATCTATTCATATATATTCAC
1 ATATATTCATATTAATTATATCTATTCATATATATTCAC
* * *
8621502 ATATATTCATATTATTTATATTTATTTATATTATATT
1 ATATATTCATATTAATTATATCTATTCATA-TATATT
8621539 TAAGTAAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
39 26 0.81
40 6 0.19
ACGTcount: A:0.36, C:0.08, G:0.01, T:0.55
Consensus pattern (39 bp):
ATATATTCATATTAATTATATCTATTCATATATATTCAC
Found at i:8621498 original size:10 final size:10
Alignment explanation
Indices: 8621461--8621538 Score: 63
Period size: 10 Copynumber: 7.9 Consensus size: 10
8621451 TTATATTTTT
8621461 ATATATATTC
1 ATATATATTC
*
8621471 ATGT-TAATT-
1 ATATAT-ATTC
*
8621480 ATATCTATTC
1 ATATATATTC
8621490 ATATATATTC
1 ATATATATTC
*
8621500 ACATATATTC
1 ATATATATTC
*
8621510 ATAT-TATTT
1 ATATATATTC
* *
8621519 ATATTTATTT
1 ATATATATTC
8621529 ATATTATATT
1 ATA-TATATT
8621539 TAAGTAAATT
Statistics
Matches: 56, Mismatches: 7, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
9 15 0.27
10 36 0.64
11 5 0.09
ACGTcount: A:0.36, C:0.08, G:0.01, T:0.55
Consensus pattern (10 bp):
ATATATATTC
Found at i:8621523 original size:15 final size:15
Alignment explanation
Indices: 8621446--8621538 Score: 51
Period size: 15 Copynumber: 6.5 Consensus size: 15
8621436 TATTTATTAT
8621446 TTTA-ATTATATT--
1 TTTATATTATATTCA
8621458 TTTATA-TATATTCA
1 TTTATATTATATTCA
8621472 TGTTA-ATTATA-TCTA
1 T-TTATATTATATTC-A
*
8621487 TTCATA-TATATTCA
1 TTTATATTATATTCA
**
8621501 CATATATTCATATT-A
1 TTTATATT-ATATTCA
*
8621516 TTTATATT-TATTTA
1 TTTATATTATATTCA
8621530 TATTATATT
1 T-TTATATT
8621539 TAAGTAAATT
Statistics
Matches: 63, Mismatches: 6, Indels: 21
0.70 0.07 0.23
Matches are distributed among these distances:
12 10 0.16
13 5 0.08
14 16 0.25
15 27 0.43
16 5 0.08
ACGTcount: A:0.34, C:0.06, G:0.01, T:0.58
Consensus pattern (15 bp):
TTTATATTATATTCA
Found at i:8621605 original size:30 final size:32
Alignment explanation
Indices: 8621553--8621622 Score: 85
Period size: 30 Copynumber: 2.3 Consensus size: 32
8621543 TAAATTAATT
8621553 ATATATATTAATCATATCATA-TT-ATATATA
1 ATATATATTAATCATATCATATTTAATATATA
* *
8621583 ATATATATTAAAT-ATATTATATTTAATATTTA
1 ATATATATT-AATCATATCATATTTAATATATA
8621615 A-ATATATT
1 ATATATATT
8621623 TTATAATTCG
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
30 16 0.46
31 12 0.34
32 7 0.20
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (32 bp):
ATATATATTAATCATATCATATTTAATATATA
Found at i:8626872 original size:21 final size:20
Alignment explanation
Indices: 8626838--8626878 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
8626828 AAATTCGATC
*
8626838 TAATTTTATATTAAATTTATT
1 TAATTATATATT-AATTTATT
*
8626859 TAATTATATGTTAATTTATT
1 TAATTATATATTAATTTATT
8626879 GATTCAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (20 bp):
TAATTATATATTAATTTATT
Found at i:8637276 original size:2 final size:2
Alignment explanation
Indices: 8637269--8637303 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
8637259 AGTTTAACTG
8637269 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8637304 AGTTTTCATG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:8639475 original size:36 final size:36
Alignment explanation
Indices: 8639428--8639499 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
8639418 AATGTAGTTG
8639428 TAGCAAAACATGAGATTTAAAGTAGGAAGAAAATAA
1 TAGCAAAACATGAGATTTAAAGTAGGAAGAAAATAA
* *
8639464 TAGCAAAACATGAGATTTAGAGTGGGAAGAAAATAA
1 TAGCAAAACATGAGATTTAAAGTAGGAAGAAAATAA
8639500 CTATCATATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.53, C:0.06, G:0.22, T:0.19
Consensus pattern (36 bp):
TAGCAAAACATGAGATTTAAAGTAGGAAGAAAATAA
Found at i:8640832 original size:15 final size:15
Alignment explanation
Indices: 8640812--8640841 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
8640802 GAGATAAAAA
8640812 AATCCAGATTTGATC
1 AATCCAGATTTGATC
8640827 AATCCAGATTTGATC
1 AATCCAGATTTGATC
8640842 TTGTTAAGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.33
Consensus pattern (15 bp):
AATCCAGATTTGATC
Found at i:8641107 original size:40 final size:40
Alignment explanation
Indices: 8641063--8641148 Score: 172
Period size: 40 Copynumber: 2.1 Consensus size: 40
8641053 TCAAAAATTA
8641063 AAATTTAGCATGGTGCAAGCTAATTTTTTGTTTTTAATAG
1 AAATTTAGCATGGTGCAAGCTAATTTTTTGTTTTTAATAG
8641103 AAATTTAGCATGGTGCAAGCTAATTTTTTGTTTTTAATAG
1 AAATTTAGCATGGTGCAAGCTAATTTTTTGTTTTTAATAG
8641143 AAATTT
1 AAATTT
8641149 CAATTTTGAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.31, C:0.07, G:0.16, T:0.45
Consensus pattern (40 bp):
AAATTTAGCATGGTGCAAGCTAATTTTTTGTTTTTAATAG
Found at i:8649357 original size:14 final size:14
Alignment explanation
Indices: 8649338--8649369 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
8649328 TCTCATTGAA
8649338 CATATATTCATATT
1 CATATATTCATATT
*
8649352 CATATATTCATGTT
1 CATATATTCATATT
8649366 CATA
1 CATA
8649370 AATCGAAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.34, C:0.16, G:0.03, T:0.47
Consensus pattern (14 bp):
CATATATTCATATT
Found at i:8657759 original size:116 final size:117
Alignment explanation
Indices: 8657555--8657783 Score: 289
Period size: 116 Copynumber: 2.0 Consensus size: 117
8657545 TTTTTTGTTA
* * * * *
8657555 GTTTTTCAATACAATTTTAAGAATATGGATGAAAAAATTGAAGACAATTGGTTTATAATTTTGTT
1 GTTTATCAATACAATTTTAAGAACATAGATGAAAAAATTGAAGACAATTGGTTTATAAATTTGAT
* * * * *
8657620 GATAAATAATAGTTTATAAATTATCAATCTTATAGATTCAAAAATTGTAGAT
66 GACAAATAATAATTTATAAATTATCAACCTCATAGATTAAAAAATTGTAGAT
** * **
8657672 GTTTATCAATACAATTTTAAGAACATAGATG-AAATTTTTAAGATGATTGGTTTATAAATTTGAT
1 GTTTATCAATACAATTTTAAGAACATAGATGAAAAAATTGAAGACAATTGGTTTATAAATTTGAT
* * *
8657736 GACAGATAATAATTTATAAATTATTAACCTCATATATTAAAAAATTGT
66 GACAAATAATAATTTATAAATTATCAACCTCATAGATTAAAAAATTGT
8657784 TAATGCATGG
Statistics
Matches: 94, Mismatches: 18, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
116 66 0.70
117 28 0.30
ACGTcount: A:0.42, C:0.06, G:0.12, T:0.40
Consensus pattern (117 bp):
GTTTATCAATACAATTTTAAGAACATAGATGAAAAAATTGAAGACAATTGGTTTATAAATTTGAT
GACAAATAATAATTTATAAATTATCAACCTCATAGATTAAAAAATTGTAGAT
Found at i:8663627 original size:22 final size:23
Alignment explanation
Indices: 8663591--8663650 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 23
8663581 TTTAGCGAAA
*
8663591 AAAAAG-AGAAGAAAAGAAGAAGG
1 AAAAAGAAGAA-AAAAAAAGAAGG
*
8663614 -GAAAGAAGAAAAAAAAAGAAGG
1 AAAAAGAAGAAAAAAAAAGAAGG
*
8663636 AAAAAGAATAAAAAA
1 AAAAAGAAGAAAAAA
8663651 TAAAATAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
22 15 0.48
23 16 0.52
ACGTcount: A:0.75, C:0.00, G:0.23, T:0.02
Consensus pattern (23 bp):
AAAAAGAAGAAAAAAAAAGAAGG
Found at i:8663642 original size:20 final size:21
Alignment explanation
Indices: 8663591--8663650 Score: 68
Period size: 20 Copynumber: 2.7 Consensus size: 21
8663581 TTTAGCGAAA
8663591 AAAAAGAGAAGAAAAGAAGAAGGG
1 AAAAAGA-AA-AAAA-AAGAAGGG
8663615 AAAGAAGAAAAAAAAAGAA-GG
1 AAA-AAGAAAAAAAAAGAAGGG
*
8663636 AAAAAGAATAAAAAA
1 AAAAAGAAAAAAAAA
8663651 TAAAATAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
20 11 0.32
21 5 0.15
22 5 0.15
23 4 0.12
24 5 0.15
25 4 0.12
ACGTcount: A:0.75, C:0.00, G:0.23, T:0.02
Consensus pattern (21 bp):
AAAAAGAAAAAAAAAGAAGGG
Found at i:8663759 original size:24 final size:24
Alignment explanation
Indices: 8663702--8663759 Score: 61
Period size: 21 Copynumber: 2.6 Consensus size: 24
8663692 AATAAGAAAA
* * *
8663702 AAAG-AGAAGAGGGGAAAGAAGAG
1 AAAGAAGAAGAAGAGAAAAAAGAG
8663725 AAA-AA-AA-AAGAGAAAAAAGAG
1 AAAGAAGAAGAAGAGAAAAAAGAG
8663746 AAAGAAGAAGAAGA
1 AAAGAAGAAGAAGA
8663760 AAGTAAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
21 14 0.50
22 4 0.14
23 6 0.21
24 4 0.14
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (24 bp):
AAAGAAGAAGAAGAGAAAAAAGAG
Found at i:8666377 original size:19 final size:20
Alignment explanation
Indices: 8666353--8666390 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
8666343 TTGTTTATTG
*
8666353 ACAAAAAAA-AAATAAAAAT
1 ACAAAAAAAGAAAGAAAAAT
8666372 ACAAAAAAAGAAAGAAAAA
1 ACAAAAAAAGAAAGAAAAA
8666391 CTTTTGAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.84, C:0.05, G:0.05, T:0.05
Consensus pattern (20 bp):
ACAAAAAAAGAAAGAAAAAT
Found at i:8668967 original size:26 final size:26
Alignment explanation
Indices: 8668899--8668976 Score: 129
Period size: 26 Copynumber: 3.0 Consensus size: 26
8668889 TACTTGACAT
* *
8668899 ATAATATGTTATTATTCTACTAAAAG
1 ATAATATGTTATTATTTTATTAAAAG
8668925 ATAATATGTTATTATTTTATTAAAAG
1 ATAATATGTTATTATTTTATTAAAAG
*
8668951 ATAATATGTTATTATTTTATCAAAAG
1 ATAATATGTTATTATTTTATTAAAAG
8668977 TTATAAAAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 49 1.00
ACGTcount: A:0.42, C:0.04, G:0.08, T:0.46
Consensus pattern (26 bp):
ATAATATGTTATTATTTTATTAAAAG
Found at i:8669259 original size:16 final size:16
Alignment explanation
Indices: 8669230--8669262 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
8669220 ATTACATAAC
8669230 TAAATAATCAAACAAA
1 TAAATAATCAAACAAA
8669246 TAAATTAATC-AACAAA
1 TAAA-TAATCAAACAAA
8669262 T
1 T
8669263 TAGAGCATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (16 bp):
TAAATAATCAAACAAA
Found at i:8670485 original size:11 final size:11
Alignment explanation
Indices: 8670471--8670498 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
8670461 AAAAAAGGGG
8670471 AAAAAAAAGAA
1 AAAAAAAAGAA
8670482 AAAAAAAAGAA
1 AAAAAAAAGAA
8670493 AAAAAA
1 AAAAAA
8670499 GAAAGGAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (11 bp):
AAAAAAAAGAA
Found at i:8670665 original size:17 final size:17
Alignment explanation
Indices: 8670645--8670685 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
8670635 CAAGAAAACC
8670645 AGAAAAAATTCAAAAAA
1 AGAAAAAATTCAAAAAA
** *
8670662 AGAAAAGTTTGAAAAAA
1 AGAAAAAATTCAAAAAA
8670679 AGAAAAA
1 AGAAAAA
8670686 TTTTGAGAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.73, C:0.02, G:0.12, T:0.12
Consensus pattern (17 bp):
AGAAAAAATTCAAAAAA
Found at i:8675103 original size:13 final size:13
Alignment explanation
Indices: 8675085--8675109 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8675075 ATTGCAAATA
8675085 TAATGATATTTTG
1 TAATGATATTTTG
8675098 TAATGATATTTT
1 TAATGATATTTT
8675110 CAATTGTTGA
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:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TAATGATATTTTG
Found at i:8677156 original size:2 final size:2
Alignment explanation
Indices: 8677151--8677185 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
8677141 AAGAAGAAGC
8677151 AT AT AT AT AT -T 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
8677186 TAGCTGCTGA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:8677595 original size:11 final size:10
Alignment explanation
Indices: 8677581--8677614 Score: 52
Period size: 9 Copynumber: 3.4 Consensus size: 10
8677571 TCATTGGATC
8677581 TTTTGTTTGTT
1 TTTTGTTT-TT
8677592 TTTTGTTTTT
1 TTTTGTTTTT
8677602 TTTT-TTTTT
1 TTTTGTTTTT
8677611 TTTT
1 TTTT
8677615 TTGAAGAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 9 0.39
10 6 0.26
11 8 0.35
ACGTcount: A:0.00, C:0.00, G:0.09, T:0.91
Consensus pattern (10 bp):
TTTTGTTTTT
Found at i:8679521 original size:19 final size:20
Alignment explanation
Indices: 8679484--8679527 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
8679474 CATTTTTCCA
8679484 TTCTCTTTTTATATATTTT-
1 TTCTCTTTTTATATATTTTC
* *
8679503 TTCTCTTTTTATCTTTTTTC
1 TTCTCTTTTTATATATTTTC
8679523 TTCTC
1 TTCTC
8679528 ACCATAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.09, C:0.18, G:0.00, T:0.73
Consensus pattern (20 bp):
TTCTCTTTTTATATATTTTC
Found at i:8693133 original size:117 final size:117
Alignment explanation
Indices: 8692908--8693137 Score: 282
Period size: 117 Copynumber: 2.0 Consensus size: 117
8692898 TTTTTTGTTA
* * * * *
8692908 GTTTTTCAATACAATTTTAAGAATATGGATGAAAAAATTGAAGACAGTTGGTTTATAATTTTGTT
1 GTTTATCAATACAATTTTAAGAACATAGATGAAAAAATTGAAGACAGTTGGTTTATAAATTTGAT
* * ** * *
8692973 GATAAATAATAGTTTATAAATTATCAATGTTATAGATTCAAAAATTGTAGAT
66 GACAAATAATAATTTATAAATTATCAACCTCATAGATTAAAAAATTGTAGAT
*** *
8693025 GTTTATCAATACAATTTTAAGAACATAGATGAAATTTTTTAAGAC-GATTGGTTTATAAATTTGA
1 GTTTATCAATACAATTTTAAGAACATAGATGAAAAAATTGAAGACAG-TTGGTTTATAAATTTGA
* * *
8693089 TGACAGATAATAATTTATAAATTATTAACCTCATATATTAAAAAATTGT
65 TGACAAATAATAATTTATAAATTATCAACCTCATAGATTAAAAAATTGT
8693138 TAATGCATGG
Statistics
Matches: 94, Mismatches: 18, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
116 1 0.01
117 93 0.99
ACGTcount: A:0.42, C:0.06, G:0.13, T:0.40
Consensus pattern (117 bp):
GTTTATCAATACAATTTTAAGAACATAGATGAAAAAATTGAAGACAGTTGGTTTATAAATTTGAT
GACAAATAATAATTTATAAATTATCAACCTCATAGATTAAAAAATTGTAGAT
Found at i:8699029 original size:22 final size:23
Alignment explanation
Indices: 8698971--8699014 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
8698961 TAGCGAAAAA
* *
8698971 AAAG-AGAAGAAAAGAAGAAGGG
1 AAAGAAGAAAAAAAAAAGAAGGG
8698993 AAAGAAGAAAAAAAAAAGAAGG
1 AAAGAAGAAAAAAAAAAGAAGG
8699015 AAAAATAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (23 bp):
AAAGAAGAAAAAAAAAAGAAGGG
Found at i:8699138 original size:24 final size:24
Alignment explanation
Indices: 8699081--8699138 Score: 61
Period size: 21 Copynumber: 2.6 Consensus size: 24
8699071 AATAAGAAAA
* * *
8699081 AAAG-AGAAGAGGGGAAAGAAGAG
1 AAAGAAGAAGAAGAGAAAAAAGAG
8699104 AAA-AA-AA-AAGAGAAAAAAGAG
1 AAAGAAGAAGAAGAGAAAAAAGAG
8699125 AAAGAAGAAGAAGA
1 AAAGAAGAAGAAGA
8699139 AAGTAAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
21 14 0.50
22 4 0.14
23 6 0.21
24 4 0.14
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (24 bp):
AAAGAAGAAGAAGAGAAAAAAGAG
Found at i:8701012 original size:14 final size:14
Alignment explanation
Indices: 8700993--8701022 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
8700983 TTAATGTTTA
8700993 AATTTGATTTCTTT
1 AATTTGATTTCTTT
*
8701007 AATTTGATTTTTTT
1 AATTTGATTTCTTT
8701021 AA
1 AA
8701023 AAATTGTTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.27, C:0.03, G:0.07, T:0.63
Consensus pattern (14 bp):
AATTTGATTTCTTT
Found at i:8702045 original size:29 final size:29
Alignment explanation
Indices: 8702012--8702068 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
8702002 ATATCTTAAT
8702012 ATGCATTCCATATCATCACAATGAGATAC
1 ATGCATTCCATATCATCACAATGAGATAC
* * * *
8702041 ATGCATTCTATCTCATTATAATGAGATA
1 ATGCATTCCATATCATCACAATGAGATA
8702069 GTACATACAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (29 bp):
ATGCATTCCATATCATCACAATGAGATAC
Found at i:8704338 original size:26 final size:26
Alignment explanation
Indices: 8704270--8704347 Score: 120
Period size: 26 Copynumber: 3.0 Consensus size: 26
8704260 TACTTGACAT
* * *
8704270 ATAATATGTTATTATTCTACTAAAAA
1 ATAATATGTTATTATTTTATTAAAAG
8704296 ATAATATGTTATTATTTTATTAAAAG
1 ATAATATGTTATTATTTTATTAAAAG
*
8704322 ATAATATGTTATTATTTTATCAAAAG
1 ATAATATGTTATTATTTTATTAAAAG
8704348 TTATAAAAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 48 1.00
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.46
Consensus pattern (26 bp):
ATAATATGTTATTATTTTATTAAAAG
Found at i:8704633 original size:16 final size:16
Alignment explanation
Indices: 8704604--8704636 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
8704594 ATTACATAAC
8704604 TAAATAATCAAACAAA
1 TAAATAATCAAACAAA
8704620 TAAATTAATC-AACAAA
1 TAAA-TAATCAAACAAA
8704636 T
1 T
8704637 TAGAGCATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (16 bp):
TAAATAATCAAACAAA
Found at i:8705859 original size:10 final size:10
Alignment explanation
Indices: 8705846--8705875 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
8705836 AAAAAAGGGG
8705846 AAAAAAAGAA
1 AAAAAAAGAA
8705856 AAAAAAAG-A
1 AAAAAAAGAA
8705865 AAAAAAAGAA
1 AAAAAAAGAA
8705875 A
1 A
8705876 GGAAAAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.47
10 10 0.53
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (10 bp):
AAAAAAAGAA
Found at i:8705881 original size:10 final size:9
Alignment explanation
Indices: 8705846--8705875 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
8705836 AAAAAAGGGG
8705846 AAAAAAAGAA
1 AAAAAAAG-A
8705856 AAAAAAAGA
1 AAAAAAAGA
8705865 AAAAAAAGA
1 AAAAAAAGA
8705874 AA
1 AA
8705876 GGAAAAAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.60
10 8 0.40
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (9 bp):
AAAAAAAGA
Found at i:8706038 original size:17 final size:17
Alignment explanation
Indices: 8706018--8706058 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
8706008 CAAGAAAACC
8706018 AGAAAAAATTCAAAAAA
1 AGAAAAAATTCAAAAAA
** *
8706035 AGAAAAGTTTGAAAAAA
1 AGAAAAAATTCAAAAAA
8706052 AGAAAAA
1 AGAAAAA
8706059 TTTTGAGAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.73, C:0.02, G:0.12, T:0.12
Consensus pattern (17 bp):
AGAAAAAATTCAAAAAA
Found at i:8710500 original size:13 final size:13
Alignment explanation
Indices: 8710482--8710506 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8710472 ATTGCAAATA
8710482 TAATGATATTTTG
1 TAATGATATTTTG
8710495 TAATGATATTTT
1 TAATGATATTTT
8710507 CAATTGTTGA
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:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TAATGATATTTTG
Found at i:8712567 original size:2 final size:2
Alignment explanation
Indices: 8712562--8712595 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
8712552 AAAAAGAAGC
8712562 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
8712596 TAGCTGCTGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8714336 original size:14 final size:13
Alignment explanation
Indices: 8714286--8714334 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 13
8714276 ATGTTTTCTT
8714286 CTTTTTTTTTTTA
1 CTTTTTTTTTTTA
8714299 GCTTTTTTGTTTTT-
1 -CTTTTTT-TTTTTA
*
8714313 CTTTTGTTCTTTTA
1 CTTTT-TTTTTTTA
8714327 CTTTTTTT
1 CTTTTTTT
8714335 CTCAACTTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
13 11 0.37
14 14 0.47
15 5 0.17
ACGTcount: A:0.04, C:0.10, G:0.06, T:0.80
Consensus pattern (13 bp):
CTTTTTTTTTTTA
Found at i:8714771 original size:19 final size:18
Alignment explanation
Indices: 8714749--8714789 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 18
8714739 CATTTTTCCA
8714749 TTCTCTTTTTATATATTTT
1 TTCTCTTTTTATAT-TTTT
*
8714768 TTCTCTTTTTATCTTTTT
1 TTCTCTTTTTATATTTTT
8714786 TTCT
1 TTCT
8714790 TCTCACCATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.10, C:0.15, G:0.00, T:0.76
Consensus pattern (18 bp):
TTCTCTTTTTATATTTTT
Found at i:8714952 original size:15 final size:15
Alignment explanation
Indices: 8714932--8714987 Score: 51
Period size: 15 Copynumber: 3.6 Consensus size: 15
8714922 CTCGGATTTG
8714932 TTTCTTTTTTGTCAT
1 TTTCTTTTTTGTCAT
* *
8714947 TTTCTTTTTACTTTTGA-
1 TTTC-TTTT--TTGTCAT
*
8714964 TTTCTTTTTTGCCAT
1 TTTCTTTTTTGTCAT
8714979 TTTCTTTTT
1 TTTCTTTTT
8714988 CTTTTTACTC
Statistics
Matches: 32, Mismatches: 5, Indels: 8
0.71 0.11 0.18
Matches are distributed among these distances:
14 3 0.09
15 13 0.41
16 8 0.25
17 4 0.12
18 4 0.12
ACGTcount: A:0.07, C:0.14, G:0.05, T:0.73
Consensus pattern (15 bp):
TTTCTTTTTTGTCAT
Found at i:8714992 original size:31 final size:31
Alignment explanation
Indices: 8714928--8714992 Score: 105
Period size: 32 Copynumber: 2.1 Consensus size: 31
8714918 GGCACTCGGA
*
8714928 TTTGTTTCTTTTTTGTCATTTTCTTTTTACT
1 TTTGTTTCTTTTTTGCCATTTTCTTTTTACT
8714959 TTTGATTTCTTTTTTGCCATTTTCTTTTT-CT
1 TTTG-TTTCTTTTTTGCCATTTTCTTTTTACT
8714990 TTT
1 TTT
8714993 TACTCTTTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 9 0.28
32 23 0.72
ACGTcount: A:0.06, C:0.14, G:0.06, T:0.74
Consensus pattern (31 bp):
TTTGTTTCTTTTTTGCCATTTTCTTTTTACT
Found at i:8716058 original size:12 final size:12
Alignment explanation
Indices: 8716041--8716066 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
8716031 AAAGTATATA
8716041 TTTTATTTTAAT
1 TTTTATTTTAAT
8716053 TTTTATTTTAAT
1 TTTTATTTTAAT
8716065 TT
1 TT
8716067 AATTATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTTATTTTAAT
Found at i:8716851 original size:20 final size:21
Alignment explanation
Indices: 8716814--8716856 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
8716804 TTTTTTAATT
8716814 TTTTGATTTTTGTGTTTTTTA
1 TTTTGATTTTTGTGTTTTTTA
8716835 TTTTGA-TTTTGAT-TTTTTTA
1 TTTTGATTTTTG-TGTTTTTTA
8716855 TT
1 TT
8716857 AGATACATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.12, C:0.00, G:0.12, T:0.77
Consensus pattern (21 bp):
TTTTGATTTTTGTGTTTTTTA
Found at i:8717385 original size:16 final size:17
Alignment explanation
Indices: 8717345--8717385 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
8717335 CAACCAAATG
8717345 ATAACAATAAATAATGAA
1 ATAA-AATAAATAATGAA
*
8717363 A-ATAATAAATAAT-AA
1 ATAAAATAAATAATGAA
8717378 ATAAAATA
1 ATAAAATA
8717386 CTTTTGGACC
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
15 3 0.15
16 15 0.75
17 1 0.05
18 1 0.05
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (17 bp):
ATAAAATAAATAATGAA
Found at i:8721190 original size:2 final size:2
Alignment explanation
Indices: 8721183--8721208 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
8721173 ATTTGGTCAA
8721183 TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG
8721209 AGAGAGAGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:8721213 original size:2 final size:2
Alignment explanation
Indices: 8721208--8721248 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
8721198 GTGTGTGTGT
8721208 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
8721249 GTGAAGATAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:8721743 original size:2 final size:2
Alignment explanation
Indices: 8721736--8721766 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
8721726 CCTATTAAGA
8721736 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8721767 AGAAAAAAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8722827 original size:10 final size:10
Alignment explanation
Indices: 8722812--8722841 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
8722802 ATTAAATTTT
8722812 TATATTTTAA
1 TATATTTTAA
8722822 TATATTTTAA
1 TATATTTTAA
8722832 T-TATTTTAA
1 TATATTTTAA
8722841 T
1 T
8722842 TGATAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (10 bp):
TATATTTTAA
Found at i:8724627 original size:6 final size:6
Alignment explanation
Indices: 8724618--8724642 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
8724608 ATAAAAATTT
8724618 TTATAA TTATAA TTATAA TTATAA T
1 TTATAA TTATAA TTATAA TTATAA T
8724643 ATTTTATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TTATAA
Found at i:8725578 original size:20 final size:20
Alignment explanation
Indices: 8725553--8725593 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
8725543 TTGATCTCCT
8725553 TCACAGCATCTATTTCAGGA
1 TCACAGCATCTATTTCAGGA
*
8725573 TCACAGCATCTCTTTCAGGA
1 TCACAGCATCTATTTCAGGA
8725593 T
1 T
8725594 TTAATGCTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.32
Consensus pattern (20 bp):
TCACAGCATCTATTTCAGGA
Found at i:8726220 original size:21 final size:20
Alignment explanation
Indices: 8726196--8726235 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
8726186 GATTAAAAAG
8726196 ATTCAAATTTCCATCAAAATT
1 ATTC-AATTTCCATCAAAATT
* *
8726217 ATTCATTTTTCATCAAAAT
1 ATTCAATTTCCATCAAAAT
8726236 GGATGCCCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.40, C:0.17, G:0.00, T:0.42
Consensus pattern (20 bp):
ATTCAATTTCCATCAAAATT
Found at i:8734951 original size:2 final size:2
Alignment explanation
Indices: 8734909--8734938 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
8734899 AATGGCAACA
8734909 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
8734939 CCAGTCAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8735593 original size:2 final size:2
Alignment explanation
Indices: 8735586--8735617 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
8735576 ATCAATCAAG
8735586 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
8735618 GCACTGAGGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8737974 original size:63 final size:61
Alignment explanation
Indices: 8737870--8738025 Score: 154
Period size: 61 Copynumber: 2.5 Consensus size: 61
8737860 ATTTCCTTTG
* * *** * *
8737870 AAATTTTTTCAGAGGATTATTTAAGGCATTTTTGGTAAAAAAATGCATTCAATATTCTGATTCA
1 AAATTTTTT-AGAAGATTATTGAAGGCATTTTCAAT-AAAAAATGCATTCAATAATCT-ATACA
* *
8737934 AAATTTTTTAGAAGATTATTGAAGGCATTTTCAATCAAAAATGCCTTCAATAATCTATACA
1 AAATTTTTTAGAAGATTATTGAAGGCATTTTCAATAAAAAATGCATTCAATAATCTATACA
* *
8737995 AAA--ATTTAGAAGGGATTATTGAAGGTATTTT
1 AAATTTTTTAGAA--GATTATTGAAGGCATTTT
8738026 TAGTCAGAAA
Statistics
Matches: 79, Mismatches: 11, Indels: 7
0.81 0.11 0.07
Matches are distributed among these distances:
59 7 0.09
61 24 0.30
62 18 0.23
63 21 0.27
64 9 0.11
ACGTcount: A:0.38, C:0.09, G:0.14, T:0.38
Consensus pattern (61 bp):
AAATTTTTTAGAAGATTATTGAAGGCATTTTCAATAAAAAATGCATTCAATAATCTATACA
Found at i:8738025 original size:61 final size:61
Alignment explanation
Indices: 8737908--8738047 Score: 158
Period size: 61 Copynumber: 2.3 Consensus size: 61
8737898 TTTTTGGTAA
* * * *
8737908 AAAAATGCATTCAATATTCTGATTCAAAATTTTTTAGAAGATTATTGAAGGCATTTTCAATC
1 AAAAATGCCTTCAATAATCTGATACAAAA-TATTTAGAAGATTATTGAAGGCATTTTCAATC
* * *
8737970 AAAAATGCCTTCAATAATCT-ATACAAAA-ATTTAGAAGGGATTATTGAAGGTATTTTTAGTC
1 AAAAATGCCTTCAATAATCTGATACAAAATATTTAGAA--GATTATTGAAGGCATTTTCAATC
* *
8738031 AGAAACGCCTTCAATAA
1 AAAAATGCCTTCAATAA
8738048 CCCCATTCAA
Statistics
Matches: 67, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
59 7 0.10
61 42 0.63
62 18 0.27
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.34
Consensus pattern (61 bp):
AAAAATGCCTTCAATAATCTGATACAAAATATTTAGAAGATTATTGAAGGCATTTTCAATC
Found at i:8738190 original size:34 final size:34
Alignment explanation
Indices: 8738147--8738214 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
8738137 ATACACATAA
* *
8738147 AGTTAGTTGTAGTTTTATGCCCAAAAAATATTTG
1 AGTTAGTTGTAGGTTTATGCCCAAAAAACATTTG
*
8738181 AGTTAGTTGTAGGTTTATGTCCAAAAAACATTTG
1 AGTTAGTTGTAGGTTTATGCCCAAAAAACATTTG
8738215 GTTTATATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (34 bp):
AGTTAGTTGTAGGTTTATGCCCAAAAAACATTTG
Found at i:8741274 original size:25 final size:25
Alignment explanation
Indices: 8741246--8741340 Score: 100
Period size: 25 Copynumber: 3.8 Consensus size: 25
8741236 CATTCAGTAA
***
8741246 ACCATTTAGCAATGTGTTCAAAAAC
1 ACCATTTAGCAAACCGTTCAAAAAC
8741271 ACCATTTAGCAAACCGTTCAAAAAC
1 ACCATTTAGCAAACCGTTCAAAAAC
* * * *
8741296 ACCATTCAGGAAACCATTCAGAAAC
1 ACCATTTAGCAAACCGTTCAAAAAC
* * *
8741321 ACCATTCAGTAAACCATTCA
1 ACCATTTAGCAAACCGTTCA
8741341 GCAAACCAAT
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 62 1.00
ACGTcount: A:0.42, C:0.26, G:0.09, T:0.22
Consensus pattern (25 bp):
ACCATTTAGCAAACCGTTCAAAAAC
Found at i:8741312 original size:37 final size:37
Alignment explanation
Indices: 8741287--8741376 Score: 90
Period size: 40 Copynumber: 2.3 Consensus size: 37
8741277 TAGCAAACCG
*
8741287 TTCAAAAACACCATTCAGGAAACCATTCAGAAACACCA
1 TTCAAAAA-ACCATTCAGCAAACCATTCAGAAACACCA
** * *
8741325 TTCAGTAAACCATTCAGCAAACCAATATCATACAATACCA
1 TTCAAAAAACCATTCAGCAAACC-AT-TCAGA-AACACCA
*
8741365 TTCAACAAACCA
1 TTCAAAAAACCA
8741377 CAATATTTAA
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
37 14 0.33
38 8 0.19
39 4 0.10
40 16 0.38
ACGTcount: A:0.47, C:0.29, G:0.06, T:0.19
Consensus pattern (37 bp):
TTCAAAAAACCATTCAGCAAACCATTCAGAAACACCA
Found at i:8741313 original size:12 final size:12
Alignment explanation
Indices: 8741271--8741348 Score: 75
Period size: 12 Copynumber: 6.3 Consensus size: 12
8741261 GTTCAAAAAC
* *
8741271 ACCATTTAGCAA
1 ACCATTCAGAAA
* *
8741283 ACCGTTCAAAAA
1 ACCATTCAGAAA
*
8741295 CACCATTCAGGAA
1 -ACCATTCAGAAA
8741308 ACCATTCAGAAA
1 ACCATTCAGAAA
*
8741320 CACCATTCAGTAA
1 -ACCATTCAGAAA
*
8741333 ACCATTCAGCAA
1 ACCATTCAGAAA
8741345 ACCA
1 ACCA
8741349 ATATCATACA
Statistics
Matches: 54, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
12 34 0.63
13 20 0.37
ACGTcount: A:0.44, C:0.29, G:0.09, T:0.18
Consensus pattern (12 bp):
ACCATTCAGAAA
Found at i:8741341 original size:25 final size:25
Alignment explanation
Indices: 8741262--8741340 Score: 113
Period size: 25 Copynumber: 3.2 Consensus size: 25
8741252 TAGCAATGTG
* *
8741262 TTCAAAAACACCATTTAGCAAACCG
1 TTCAAAAACACCATTCAGCAAACCA
*
8741287 TTCAAAAACACCATTCAGGAAACCA
1 TTCAAAAACACCATTCAGCAAACCA
* *
8741312 TTCAGAAACACCATTCAGTAAACCA
1 TTCAAAAACACCATTCAGCAAACCA
8741337 TTCA
1 TTCA
8741341 GCAAACCAAT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 49 1.00
ACGTcount: A:0.44, C:0.28, G:0.08, T:0.20
Consensus pattern (25 bp):
TTCAAAAACACCATTCAGCAAACCA
Found at i:8742230 original size:191 final size:188
Alignment explanation
Indices: 8741983--8742844 Score: 680
Period size: 191 Copynumber: 4.5 Consensus size: 188
8741973 ATTTCTTTAA
** *
8741983 AAAATTTAAGAAAATTATTAAAGACATTTTCTATAGAAAATCATCTTTACTGATATTC-CTTTGA
1 AAAATTTAAGAGGATTATTAAAG-TATTTT-TATAGAAAATCATCTTTACTGATATTCTC-TTGA
* * * * *
8742047 TAAAAATGAAAGGATTATTGAAGGTGTAGTATGCAAAAAATGCCTTCAATAAATTCCTTTAAAAA
63 TAAAAATGAAAGGATTATTGAAGGCGTATTATGCAAAAAATACCTTTAATAAATTCTTTTAAAAA
*
8742112 TTTTGAGGTGATTAGTGAATG-TGCTTTTAGTAAAAAAAAACATCTATACTAATCTTCTCATC
128 TTTTGAGGTGATTAGTGAA-GATGCTTTTAGT-AAAAAAAACATCTATAATAATCTTCTCATC
* *
8742174 AAAATTTAAGAGGATTATTGAAAGTATTTTTACTAAAAAATTATCTTTACTGATATTCTCTTGAT
1 AAAATTTAAGAGGATTATT-AAAGTATTTTTA-TAGAAAATCATCTTTACTGATATTCTCTTGAT
** * * * *
8742239 -AAAATAGAGGGGATTATTGAAAGCATATTATACAAAAAATATCTTTAATAAATTCTTTTAAAAA
64 AAAAAT-GAAAGGATTATTGAAGGCGTATTATGCAAAAAATACCTTTAATAAATTCTTTTAAAAA
* * * **
8742303 ATTTGAGGTGATTAGTGAAGGCGTTCACTAATTGTTTTTAGTCAAAAATGC-T-TATAATAATCT
128 TTTTGAGGTGATTAGTGAA---G-------A-TGCTTTTAGTAAAAAAAACATCTATAATAATCT
* *
8742366 TATCGTC
182 TCTCATC
* * * *
8742373 AAAATTTAAGAGGATTATTAAAGGTATTTTTGGTAGAAAATCA-CATTCACTAATATTCTCATGA
1 AAAATTTAAGAGGATTATTAAA-GTATTTTT-ATAGAAAATCATC-TTTACTGATATTCTCTTGA
* *
8742437 TAAAAATTAAAAGAATTATTGAAGGCGTATTATGCAAAAAATACCTTTAATAAATTCTTTTAAAA
63 TAAAAA-TGAAAGGATTATTGAAGGCGTATTATGCAAAAAATACCTTTAATAAATTCTTTTAAAA
* * *
8742502 ATTTTGAGGTGATTAATGAAGATGTTTTTAGT-AAAAAAACGTCTATAATAATC-TCATCATC
127 ATTTTGAGGTGATTAGTGAAGATGCTTTTAGTAAAAAAAACATCTATAATAATCTTC-TCATC
* * * * *
8742563 AAAATTTAA-AGAGATTATTAAAGGCGTTTTTTTTGTAGAAAATCGTCTTCACTAATATT-TACT
1 AAAATTTAAGAG-GATTATTAAA---G-TATTTTTATAGAAAATCATCTTTACTGATATTCT-CT
* * * * *
8742626 TGATAAAAAT-AGAGGAAATTATTAAAGGCATATTATACAAAAAAAACGCTTTTAATAAATTCTT
60 TGATAAAAATGAAAGG--ATTATTGAAGGCGTATTATGCAAAAAATAC-C-TTTAATAAATTC-T
* * * ** *
8742690 TTTAAAAA-TTTGAGGGGA-TAGTAAAGGTATTTTTAGTAAAAAAATGC--CTATAATAATC-TC
120 TTTAAAAATTTTGAGGTGATTAGTGAAGATGCTTTTAGTAAAAAAA-ACATCTATAATAATCTTC
**
8742750 ATTGTC
184 -TCATC
* * * * * * * * *
8742756 AAAATTTCAG-GAGATTATTGAAGGCATTTTTTGTA-AAAAACTACCTTCACTGATATTCACCTG
1 AAAATTTAAGAG-GATTATT-AAAGTA-TTTTTATAGAAAATC-ATCTTTACTGATATTCTCTTG
8742819 ATAAAAATGAAGAGGATTATTGAAGG
62 ATAAAAATGAA-AGGATTATTGAAGG
8742845 TATTTGTTTA
Statistics
Matches: 553, Mismatches: 75, Indels: 86
0.77 0.11 0.12
Matches are distributed among these distances:
188 6 0.01
189 14 0.03
190 49 0.09
191 159 0.29
192 65 0.12
193 61 0.11
194 29 0.05
195 10 0.02
197 1 0.00
198 4 0.01
199 67 0.12
200 72 0.13
201 7 0.01
202 9 0.02
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (188 bp):
AAAATTTAAGAGGATTATTAAAGTATTTTTATAGAAAATCATCTTTACTGATATTCTCTTGATAA
AAATGAAAGGATTATTGAAGGCGTATTATGCAAAAAATACCTTTAATAAATTCTTTTAAAAATTT
TGAGGTGATTAGTGAAGATGCTTTTAGTAAAAAAAACATCTATAATAATCTTCTCATC
Found at i:8742772 original size:193 final size:191
Alignment explanation
Indices: 8742337--8742844 Score: 543
Period size: 192 Copynumber: 2.7 Consensus size: 191
8742327 TCACTAATTG
* * * *
8742337 TTTTTAGT-CAAAAATGCTTATAATAATCTTATCGTCAAAATTTAAGAGGATTATTAAA-G-GTA
1 TTTTTAGTAAAAAAATGCCTATAATAATCTCATCGTCAAAATTTAAGA-GATTATTAAAGGCGTT
* *
8742399 TTTTTGGTAGAAAATCACATTCACTAATATTCTCATGATAAAAATTAAAAGAATTATTGAAGGCG
65 TTTTTGGTAGAAAATCACATTCACTAATATTCTCATGATAAAAATTAAAAGAATTATTAAAGGCA
* * * * *
8742464 TATTATGCAAAAAATACCTTTAATAAATTCTTTTAAAAATTTTGAGGTGATTAATGAAGATG
130 TATTATACAAAAAAAACCTTTAATAAATTCTTTTAAAAATTTTGAGGGGATTAATAAAGATA
* * *
8742526 TTTTTAGTAAAAAAACGTCTATAATAATCTCATCATCAAAATTTAAAGAGATTATTAAAGGCGTT
1 TTTTTAGTAAAAAAATGCCTATAATAATCTCATCGTCAAAATTT-AAGAGATTATTAAAGGCGTT
* * * * *
8742591 TTTTTTGTAGAAAATCGTC-TTCACTAATATT-TACTTGATAAAAA-TAGAGGAAATTATTAAAG
65 TTTTTGGTAGAAAATC-ACATTCACTAATATTCT-CATGATAAAAATTAAAAG-AATTATTAAAG
*
8742653 GCATATTATACAAAAAAAACGCTTTTAATAAATTCTTTTTAAAAA-TTTGAGGGGA-TAGTAAAG
127 GCATATTATACAAAAAAAAC-C-TTTAATAAATTC-TTTTAAAAATTTTGAGGGGATTAATAAAG
*
8742716 GTA
189 ATA
* * * *
8742719 TTTTTAGTAAAAAAATGCCTATAATAATCTCATTGTCAAAATTTCAGGAGATTATTGAAGGC-AT
1 TTTTTAGTAAAAAAATGCCTATAATAATCTCATCGTCAAAATTT-AAGAGATTATTAAAGGCGTT
* * * * * * * * *
8742783 TTTTT-GTA-AAAAACTACCTTCACTGATATTCACCTGATAAAAATGAAGAGGATTATTGAAGG
65 TTTTTGGTAGAAAATC-ACATTCACTAATATTCTCATGATAAAAATTAAAAGAATTATTAAAGG
8742845 TATTTGTTTA
Statistics
Matches: 265, Mismatches: 41, Indels: 24
0.80 0.12 0.07
Matches are distributed among these distances:
189 8 0.03
190 45 0.17
191 44 0.17
192 74 0.28
193 64 0.24
194 21 0.08
195 9 0.03
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (191 bp):
TTTTTAGTAAAAAAATGCCTATAATAATCTCATCGTCAAAATTTAAGAGATTATTAAAGGCGTTT
TTTTGGTAGAAAATCACATTCACTAATATTCTCATGATAAAAATTAAAAGAATTATTAAAGGCAT
ATTATACAAAAAAAACCTTTAATAAATTCTTTTAAAAATTTTGAGGGGATTAATAAAGATA
Found at i:8745196 original size:21 final size:21
Alignment explanation
Indices: 8745148--8745190 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
8745138 AGCCTCATAT
8745148 TACTCAAGTTGGTGATATTGA
1 TACTCAAGTTGGTGATATTGA
*
8745169 TACTCAAGTTGGTGATCTTGA
1 TACTCAAGTTGGTGATATTGA
8745190 T
1 T
8745191 GTTCAAAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.26, C:0.12, G:0.23, T:0.40
Consensus pattern (21 bp):
TACTCAAGTTGGTGATATTGA
Found at i:8749092 original size:42 final size:41
Alignment explanation
Indices: 8749046--8749124 Score: 97
Period size: 41 Copynumber: 1.9 Consensus size: 41
8749036 AAGAAGTTTT
8749046 AAACAAAGGTAAATTTCTTAAA-TTAGCGACGTTTATATTAAA
1 AAACAAAGGTAAA-TTC-TAAATTTAGCGACGTTTATATTAAA
** * *
8749088 AAACACCGTTAAATTCTAAATTTAGCGGCGTTTATAT
1 AAACAAAGGTAAATTCTAAATTTAGCGACGTTTATAT
8749125 AATACAAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
40 4 0.12
41 18 0.56
42 10 0.31
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.34
Consensus pattern (41 bp):
AAACAAAGGTAAATTCTAAATTTAGCGACGTTTATATTAAA
Found at i:8749902 original size:2 final size:2
Alignment explanation
Indices: 8749895--8749932 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
8749885 AAGAACCACC
8749895 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8749933 ACTTCTTCCA
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):
TA
Found at i:8753135 original size:19 final size:19
Alignment explanation
Indices: 8753083--8753122 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
8753073 TAATGAACAC
* *
8753083 AAAATATAACAAAGATAAA
1 AAAATAAAACAAAAATAAA
8753102 AAAATAAAACAAAAATAAA
1 AAAATAAAACAAAAATAAA
8753121 AA
1 AA
8753123 TATAGAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.80, C:0.05, G:0.03, T:0.12
Consensus pattern (19 bp):
AAAATAAAACAAAAATAAA
Found at i:8755606 original size:2 final size:2
Alignment explanation
Indices: 8755599--8755647 Score: 57
Period size: 2 Copynumber: 24.5 Consensus size: 2
8755589 CTTTAATAAC
*
8755599 TA TA TA TA GA TA TA TA TCA T- TGA TA TA -A TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA T-A TA T-A TA TA TA TA TA TA TA TA TA TA
8755641 TA TA TA T
1 TA TA TA T
8755648 GTTTTTGGGT
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
1 2 0.05
2 36 0.88
3 3 0.07
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (2 bp):
TA
Found at i:8762355 original size:29 final size:30
Alignment explanation
Indices: 8762309--8762382 Score: 98
Period size: 29 Copynumber: 2.5 Consensus size: 30
8762299 TTCGCTTAAT
*
8762309 TATATATAAATATAATTTTTATTAA-ACTAA
1 TATATATAAATATAATTTTCATTAATA-TAA
*
8762339 TATAT-TAAATATTATTTTCATTAATATAA
1 TATATATAAATATAATTTTCATTAATATAA
*
8762368 TACATATAAATATAA
1 TATATATAAATATAA
8762383 ATTAAATAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
29 24 0.63
30 14 0.37
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (30 bp):
TATATATAAATATAATTTTCATTAATATAA
Found at i:8763229 original size:20 final size:20
Alignment explanation
Indices: 8763206--8763244 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
8763196 ATTTATCTAA
*
8763206 TAAAATATAAAATTAAAAAC
1 TAAAATAAAAAATTAAAAAC
*
8763226 TAAATTAAAAAATTAAAAA
1 TAAAATAAAAAATTAAAAA
8763245 ACAAAAAAAA
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:0.72, C:0.03, G:0.00, T:0.26
Consensus pattern (20 bp):
TAAAATAAAAAATTAAAAAC
Found at i:8766137 original size:21 final size:21
Alignment explanation
Indices: 8766107--8766152 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
8766097 TTAAAAAAAA
*
8766107 TAAAATTATTATAATTATAAT
1 TAAAAATATTATAATTATAAT
8766128 TAAAAATATTATAATTATAAT
1 TAAAAATATTATAATTATAAT
8766149 TAAA
1 TAAA
8766153 GAAATTTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
TAAAAATATTATAATTATAAT
Found at i:8769085 original size:4 final size:4
Alignment explanation
Indices: 8769069--8769104 Score: 54
Period size: 4 Copynumber: 8.5 Consensus size: 4
8769059 TAATCTAATT
8769069 TTAA TTGAA TTAA TTAA TTAA TTAA TTAAA TTAA TT
1 TTAA TT-AA TTAA TTAA TTAA TTAA TT-AA TTAA TT
8769105 GATTTGTTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 22 0.73
5 8 0.27
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (4 bp):
TTAA
Found at i:8769091 original size:17 final size:17
Alignment explanation
Indices: 8769069--8769104 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
8769059 TAATCTAATT
8769069 TTAATTGAATT-AATTAA
1 TTAATT-AATTAAATTAA
8769086 TTAATTAATTAAATTAA
1 TTAATTAATTAAATTAA
8769103 TT
1 TT
8769105 GATTTGTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (17 bp):
TTAATTAATTAAATTAA
Found at i:8780288 original size:19 final size:19
Alignment explanation
Indices: 8780264--8780302 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
8780254 CTTTGTAAGC
8780264 TCTTCACTGATCTAACTTT
1 TCTTCACTGATCTAACTTT
*
8780283 TCTTCATTGATCTAACTTT
1 TCTTCACTGATCTAACTTT
8780302 T
1 T
8780303 TTTTTTTTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.23, G:0.05, T:0.51
Consensus pattern (19 bp):
TCTTCACTGATCTAACTTT
Found at i:8785232 original size:98 final size:99
Alignment explanation
Indices: 8785123--8785320 Score: 344
Period size: 98 Copynumber: 2.0 Consensus size: 99
8785113 ACAATATAAG
* * *
8785123 CAAAAATAGAAATCAATATAAAGCTAAATACCTAAATCAAAATTCAATTAACTCTAAATAGTATA
1 CAAAAACAGAAATCAATATAAAGCTAAATACCTAAACCAAAATTCAATTAACTCTAAATAGCATA
8785188 AA-CAAAAGTAATAATGCAAGAAAATAAGCAATA
66 AACCAAAAGTAATAATGCAAGAAAATAAGCAATA
*
8785221 CAAAAACAGAAATCAATATAAAGCTAAATACCTAAACCAAAATTTAATTAACTCTAAATAGCATA
1 CAAAAACAGAAATCAATATAAAGCTAAATACCTAAACCAAAATTCAATTAACTCTAAATAGCATA
*
8785286 AACCAAAAGTAATAATGTAAGAAAATAAGCAATA
66 AACCAAAAGTAATAATGCAAGAAAATAAGCAATA
8785320 C
1 C
8785321 TAGTTAAAAG
Statistics
Matches: 94, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
98 63 0.67
99 31 0.33
ACGTcount: A:0.58, C:0.14, G:0.07, T:0.22
Consensus pattern (99 bp):
CAAAAACAGAAATCAATATAAAGCTAAATACCTAAACCAAAATTCAATTAACTCTAAATAGCATA
AACCAAAAGTAATAATGCAAGAAAATAAGCAATA
Found at i:8786337 original size:14 final size:14
Alignment explanation
Indices: 8786320--8786367 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
8786310 GCTTTTCAAT
8786320 AGAAACTTTTAAAA
1 AGAAACTTTTAAAA
* * *
8786334 AGAAAGCTTATCAAT
1 AGAAA-CTTTTAAAA
8786349 AGAAACTTTTAAAA
1 AGAAACTTTTAAAA
8786363 AGAAA
1 AGAAA
8786368 GCTTCTAGAT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
14 16 0.59
15 11 0.41
ACGTcount: A:0.56, C:0.08, G:0.10, T:0.25
Consensus pattern (14 bp):
AGAAACTTTTAAAA
Found at i:8786341 original size:29 final size:29
Alignment explanation
Indices: 8786275--8786371 Score: 133
Period size: 29 Copynumber: 3.4 Consensus size: 29
8786265 AGATTCTTAT
* * * * *
8786275 AAAGAAAGCTTCTCAATGGAGACTCTTAG
1 AAAGAAAGCTTATCAATAGAAACTTTTAA
*
8786304 AAA-AAAGCTTTTCAATAGAAACTTTTAA
1 AAAGAAAGCTTATCAATAGAAACTTTTAA
8786332 AAAGAAAGCTTATCAATAGAAACTTTTAA
1 AAAGAAAGCTTATCAATAGAAACTTTTAA
8786361 AAAGAAAGCTT
1 AAAGAAAGCTT
8786372 CTAGATCTTT
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
28 23 0.38
29 38 0.62
ACGTcount: A:0.47, C:0.12, G:0.13, T:0.27
Consensus pattern (29 bp):
AAAGAAAGCTTATCAATAGAAACTTTTAA
Found at i:8790796 original size:15 final size:15
Alignment explanation
Indices: 8790773--8790802 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
8790763 GATTTATTAG
*
8790773 TTTTTAAATTTTAAA
1 TTTTAAAATTTTAAA
8790788 TTTTAAAATTTTAAA
1 TTTTAAAATTTTAAA
8790803 ATATTATTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TTTTAAAATTTTAAA
Found at i:8790813 original size:13 final size:13
Alignment explanation
Indices: 8790795--8790833 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
8790785 AAATTTTAAA
*
8790795 ATTTTAAAATATT
1 ATTTTAATATATT
**
8790808 ATTTTAATATAAA
1 ATTTTAATATATT
8790821 ATTTTAATATATT
1 ATTTTAATATATT
8790834 TAAATATATT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
ATTTTAATATATT
Found at i:8790822 original size:18 final size:18
Alignment explanation
Indices: 8790799--8790865 Score: 59
Period size: 18 Copynumber: 3.8 Consensus size: 18
8790789 TTTAAAATTT
8790799 TAAAATATTATTTTAATA
1 TAAAATATTATTTTAATA
* * *
8790817 TAAAATTTTAATAT-AT-
1 TAAAATATTATTTTAATA
* *
8790833 TTAAATA-TATTTTGATA
1 TAAAATATTATTTTAATA
8790850 TAAAATAATTATTTTA
1 TAAAAT-ATTATTTTA
8790866 TTTTATAATA
Statistics
Matches: 36, Mismatches: 9, Indels: 7
0.69 0.17 0.13
Matches are distributed among these distances:
15 4 0.11
16 7 0.19
17 7 0.19
18 12 0.33
19 6 0.17
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (18 bp):
TAAAATATTATTTTAATA
Found at i:8790851 original size:33 final size:34
Alignment explanation
Indices: 8790785--8790855 Score: 101
Period size: 34 Copynumber: 2.1 Consensus size: 34
8790775 TTTAAATTTT
8790785 AAATTTTAAAATTTTAAAATATTATTTTAATATA
1 AAATTTTAAAATTTTAAAATATTATTTTAATATA
* *
8790819 AAATTTTAATATATTT-AAATA-TATTTTGATATA
1 AAATTTTAAAAT-TTTAAAATATTATTTTAATATA
8790852 AAAT
1 AAAT
8790856 AATTATTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
33 15 0.44
34 16 0.47
35 3 0.09
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (34 bp):
AAATTTTAAAATTTTAAAATATTATTTTAATATA
Found at i:8791326 original size:30 final size:30
Alignment explanation
Indices: 8791292--8791375 Score: 134
Period size: 30 Copynumber: 2.8 Consensus size: 30
8791282 AAACCTGTGG
8791292 AAACCCTGGATCAGGTACAATCTCTCCATT
1 AAACCCTGGATCAGGTACAATCTCTCCATT
*
8791322 AAACCCTGGATCAGGTACTA-CTTCTCCATT
1 AAACCCTGGATCAGGTACAATC-TCTCCATT
*
8791352 AAACCCTGAATCAGGTACAATCTC
1 AAACCCTGGATCAGGTACAATCTC
8791376 CTAACAACTG
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
29 1 0.02
30 47 0.96
31 1 0.02
ACGTcount: A:0.31, C:0.30, G:0.13, T:0.26
Consensus pattern (30 bp):
AAACCCTGGATCAGGTACAATCTCTCCATT
Found at i:8791932 original size:22 final size:22
Alignment explanation
Indices: 8791905--8791949 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
8791895 AATCTAGAAT
8791905 ATAATAATCATTATTATATAAA
1 ATAATAATCATTATTATATAAA
* * *
8791927 ATAATAATTATTTTTATTTAAA
1 ATAATAATCATTATTATATAAA
8791949 A
1 A
8791950 ATTTCTTTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (22 bp):
ATAATAATCATTATTATATAAA
Found at i:8792276 original size:19 final size:19
Alignment explanation
Indices: 8792252--8792290 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
8792242 CCTAAACCGT
8792252 CCTGTACCCTTTACTTATG
1 CCTGTACCCTTTACTTATG
8792271 CCTGTACCCTTTACTTATG
1 CCTGTACCCTTTACTTATG
8792290 C
1 C
8792291 AATTTTCGAC
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:0.15, C:0.33, G:0.10, T:0.41
Consensus pattern (19 bp):
CCTGTACCCTTTACTTATG
Found at i:8792427 original size:15 final size:17
Alignment explanation
Indices: 8792384--8792435 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
8792374 AAATTTGTTG
* *
8792384 ATATATTTATATATATA
1 ATATAATTATTTATATA
*
8792401 ATATAATGATTTATATA
1 ATATAATTATTTATATA
8792418 A-A-AATTATTTATTATA
1 ATATAATTATTTA-TATA
8792434 AT
1 AT
8792436 TCATATTAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
15 8 0.28
16 6 0.21
17 15 0.52
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (17 bp):
ATATAATTATTTATATA
Found at i:8792509 original size:17 final size:19
Alignment explanation
Indices: 8792470--8792512 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 19
8792460 TATATATTTT
*
8792470 AATTTTATAATTTATATAT
1 AATTTTATAATTTATATAA
*
8792489 AATTTT-TATTTTAT-TAA
1 AATTTTATAATTTATATAA
8792506 AATTTTA
1 AATTTTA
8792513 AATCATCTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 8 0.38
18 7 0.33
19 6 0.29
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
AATTTTATAATTTATATAA
Found at i:8794104 original size:18 final size:18
Alignment explanation
Indices: 8794081--8794120 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
8794071 ATATTACGTG
*
8794081 TACATATTATGTATATCA
1 TACATATTACGTATATCA
8794099 TACATATTACGTATATCA
1 TACATATTACGTATATCA
8794117 TACA
1 TACA
8794121 AATATTCTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.40, C:0.15, G:0.05, T:0.40
Consensus pattern (18 bp):
TACATATTACGTATATCA
Found at i:8798403 original size:16 final size:15
Alignment explanation
Indices: 8798382--8798418 Score: 56
Period size: 16 Copynumber: 2.4 Consensus size: 15
8798372 ATTATTTTTG
8798382 TTATATCATGGTATTA
1 TTATATCATGGTA-TA
*
8798398 TTATATCATGTTATA
1 TTATATCATGGTATA
8798413 TTATAT
1 TTATAT
8798419 TATATTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 8 0.40
16 12 0.60
ACGTcount: A:0.32, C:0.05, G:0.08, T:0.54
Consensus pattern (15 bp):
TTATATCATGGTATA
Found at i:8798443 original size:3 final size:3
Alignment explanation
Indices: 8798411--8798537 Score: 115
Period size: 3 Copynumber: 43.7 Consensus size: 3
8798401 TATCATGTTA
* * * *
8798411 TAT TA- TAT TA- TAT TTT TAT T-T TAC TAT TAT TAT TAT TAT CAT TAG
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
8798456 TAT CAT ATAT GGTAT T-C TAT TA- CAT T-T T-T TAT TAT TAT TAT TAT
1 TAT TAT -TAT --TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
8798500 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
8798538 CTACTACTAC
Statistics
Matches: 101, Mismatches: 15, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
2 12 0.12
3 84 0.83
4 2 0.02
5 3 0.03
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:8798542 original size:3 final size:3
Alignment explanation
Indices: 8798536--8798588 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
8798526 TTATTATTAT
8798536 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC
8798584 TAC TA
1 TAC TA
8798589 TTATTGTCTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.34, C:0.32, G:0.00, T:0.34
Consensus pattern (3 bp):
TAC
Found at i:8799247 original size:19 final size:19
Alignment explanation
Indices: 8799225--8799262 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
8799215 TTTGAGGATG
*
8799225 AAATTTTGAATTTTTCGGT
1 AAATGTTGAATTTTTCGGT
8799244 AAATGTTGAATTTTTCGGT
1 AAATGTTGAATTTTTCGGT
8799263 GGGATTTTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.26, C:0.05, G:0.18, T:0.50
Consensus pattern (19 bp):
AAATGTTGAATTTTTCGGT
Found at i:8799658 original size:87 final size:87
Alignment explanation
Indices: 8799512--8799679 Score: 327
Period size: 87 Copynumber: 1.9 Consensus size: 87
8799502 AAACTAGAGA
*
8799512 TAGTGATAAGGAATTTGACATCAAAATTTATAGAGGTTCAATCTTTTCTCTAGGCACCTACGTCC
1 TAGTGATAAGGAATTTGACATCAAAATTTATAAAGGTTCAATCTTTTCTCTAGGCACCTACGTCC
8799577 ACTCCCTTAACGTCTCATTGGC
66 ACTCCCTTAACGTCTCATTGGC
8799599 TAGTGATAAGGAATTTGACATCAAAATTTATAAAGGTTCAATCTTTTCTCTAGGCACCTACGTCC
1 TAGTGATAAGGAATTTGACATCAAAATTTATAAAGGTTCAATCTTTTCTCTAGGCACCTACGTCC
8799664 ACTCCCTTAACGTCTC
66 ACTCCCTTAACGTCTC
8799680 TTGCCAAGGA
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
87 80 1.00
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (87 bp):
TAGTGATAAGGAATTTGACATCAAAATTTATAAAGGTTCAATCTTTTCTCTAGGCACCTACGTCC
ACTCCCTTAACGTCTCATTGGC
Found at i:8799741 original size:58 final size:58
Alignment explanation
Indices: 8799651--8799767 Score: 225
Period size: 58 Copynumber: 2.0 Consensus size: 58
8799641 CTTTTCTCTA
8799651 GGCACCTACGTCCACTCCCTTAACGTCTCTTGCCAAGGAGTTGAATCCATAATGTATT
1 GGCACCTACGTCCACTCCCTTAACGTCTCTTGCCAAGGAGTTGAATCCATAATGTATT
*
8799709 GGCACCTACGTCCTCTCCCTTAACGTCTCTTGCCAAGGAGTTGAATCCATAATGTATT
1 GGCACCTACGTCCACTCCCTTAACGTCTCTTGCCAAGGAGTTGAATCCATAATGTATT
8799767 G
1 G
8799768 AAGAATACAA
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.23, C:0.29, G:0.18, T:0.30
Consensus pattern (58 bp):
GGCACCTACGTCCACTCCCTTAACGTCTCTTGCCAAGGAGTTGAATCCATAATGTATT
Found at i:8800429 original size:73 final size:74
Alignment explanation
Indices: 8800314--8800450 Score: 231
Period size: 73 Copynumber: 1.9 Consensus size: 74
8800304 GGGGGGATCA
* * * *
8800314 ATCCCTTTTGCTTATTTTCGAGCAAGAAAAGCTTTTTGTTTCAGAATCGATTGATCCCCTTAATG
1 ATCCCTTTTGCTTAGTTTCAAGCAAGAAAAGCTTTCTATTTCAGAATCGATTGATCCCCTTAATG
8800379 GAGAGATTG
66 GAGAGATTG
8800388 ATCCCTTTTGCTT-GTTTCAAGCAAGAAAAGCTTTCTATTTCAGAATCGATTGATCCCCTTAAT
1 ATCCCTTTTGCTTAGTTTCAAGCAAGAAAAGCTTTCTATTTCAGAATCGATTGATCCCCTTAAT
8800451 TTCTATCCTC
Statistics
Matches: 59, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
73 46 0.78
74 13 0.22
ACGTcount: A:0.26, C:0.20, G:0.16, T:0.38
Consensus pattern (74 bp):
ATCCCTTTTGCTTAGTTTCAAGCAAGAAAAGCTTTCTATTTCAGAATCGATTGATCCCCTTAATG
GAGAGATTG
Found at i:8808846 original size:24 final size:24
Alignment explanation
Indices: 8808797--8808847 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
8808787 ACCATTCCAG
* **
8808797 CTAAGATACTAAACCTACTTGGAT
1 CTAAAATACTAAACCTAAATGGAT
*
8808821 CTAAAATACTAAACCTAAATGTAT
1 CTAAAATACTAAACCTAAATGGAT
8808845 CTA
1 CTA
8808848 TTTATGTTCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.43, C:0.20, G:0.08, T:0.29
Consensus pattern (24 bp):
CTAAAATACTAAACCTAAATGGAT
Found at i:8810624 original size:7 final size:8
Alignment explanation
Indices: 8810623--8810680 Score: 52
Period size: 9 Copynumber: 7.4 Consensus size: 8
8810613 TTTTAAATTT
8810623 TATTTTAA
1 TATTTTAA
8810631 TATTTTATA
1 TATTTTA-A
*
8810640 TATATTAA
1 TATTTTAA
8810648 TTATTTTAA
1 -TATTTTAA
8810657 -A-TTT--
1 TATTTTAA
8810661 TATTTTAA
1 TATTTTAA
8810669 TATTTTATA
1 TATTTTA-A
8810678 TAT
1 TAT
8810681 ATTACAAGTG
Statistics
Matches: 41, Mismatches: 2, Indels: 13
0.73 0.04 0.23
Matches are distributed among these distances:
5 1 0.02
6 6 0.15
7 1 0.02
8 15 0.37
9 18 0.44
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (8 bp):
TATTTTAA
Found at i:8810627 original size:12 final size:12
Alignment explanation
Indices: 8810610--8810676 Score: 73
Period size: 12 Copynumber: 5.3 Consensus size: 12
8810600 TAGCAATGTA
8810610 TTATTTTAAATT
1 TTATTTTAAATT
8810622 TTATTTTAATATT
1 TTATTTTAA-ATT
* *
8810635 TTA-TATATATT
1 TTATTTTAAATT
8810646 AATTATTTTAAATT
1 --TTATTTTAAATT
8810660 TTATTTTAATATT
1 TTATTTTAA-ATT
8810673 TTAT
1 TTAT
8810677 ATATATTACA
Statistics
Matches: 46, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
11 3 0.07
12 21 0.46
13 16 0.35
14 6 0.13
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (12 bp):
TTATTTTAAATT
Found at i:8810654 original size:38 final size:38
Alignment explanation
Indices: 8810609--8810684 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
8810599 ATAGCAATGT
8810609 ATTATTTTAAATTTTATTTTAATATTTTATATATATTA
1 ATTATTTTAAATTTTATTTTAATATTTTATATATATTA
8810647 ATTATTTTAAATTTTATTTTAATATTTTATATATATTA
1 ATTATTTTAAATTTTATTTTAATATTTTATATATATTA
8810685 CAAGTGAATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (38 bp):
ATTATTTTAAATTTTATTTTAATATTTTATATATATTA
Found at i:8814966 original size:23 final size:23
Alignment explanation
Indices: 8814923--8814966 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
8814913 ATTTAAGTCA
* *
8814923 ATTTTTATTATTTATATTTTAAC
1 ATTTTTATTATTTAAAGTTTAAC
8814946 ATTTTTAATT-TTTAAAGTTTA
1 ATTTTT-ATTATTTAAAGTTTA
8814967 CTCAATAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 15 0.83
24 3 0.17
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (23 bp):
ATTTTTATTATTTAAAGTTTAAC
Found at i:8818604 original size:16 final size:16
Alignment explanation
Indices: 8818583--8818631 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
8818573 AACAAATTAC
*
8818583 TTTTAAATAGTTTAAT
1 TTTTAAATAATTTAAT
*
8818599 TTTTAAA-ATTTTAAGT
1 TTTTAAATAATTTAA-T
*
8818615 TTTTATATAATTTAAT
1 TTTTAAATAATTTAAT
8818631 T
1 T
8818632 ATATTTATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
15 6 0.21
16 16 0.57
17 6 0.21
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (16 bp):
TTTTAAATAATTTAAT
Found at i:8818825 original size:16 final size:16
Alignment explanation
Indices: 8818804--8818843 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
8818794 AAACTTCACT
8818804 TAATTTAAATCCAAAA
1 TAATTTAAATCCAAAA
* *
8818820 TGATTTAAATTCAAAA
1 TAATTTAAATCCAAAA
8818836 TAATTTAA
1 TAATTTAA
8818844 TTTTTTCTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.53, C:0.07, G:0.03, T:0.38
Consensus pattern (16 bp):
TAATTTAAATCCAAAA
Found at i:8829601 original size:29 final size:28
Alignment explanation
Indices: 8829569--8829636 Score: 91
Period size: 28 Copynumber: 2.4 Consensus size: 28
8829559 ATATTGTACT
8829569 AAATAAATTTTAAATTTTAAATTTTATTC
1 AAATAAATTTT-AATTTTAAATTTTATTC
* * *
8829598 AAATAAACTTTAATTTTAATTTTTATTT
1 AAATAAATTTTAATTTTAAATTTTATTC
*
8829626 AAATACATTTT
1 AAATAAATTTT
8829637 TAATATAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 24 0.71
29 10 0.29
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (28 bp):
AAATAAATTTTAATTTTAAATTTTATTC
Found at i:8829784 original size:7 final size:8
Alignment explanation
Indices: 8829758--8829786 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
8829748 ATTTTAAAAA
8829758 ATTTTAAT
1 ATTTTAAT
8829766 ATTTTAAT
1 ATTTTAAT
8829774 ATTTT-AT
1 ATTTTAAT
8829781 ATTTTA
1 ATTTTA
8829787 CGTAAACATG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.35
8 13 0.65
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (8 bp):
ATTTTAAT
Found at i:8836519 original size:3 final size:3
Alignment explanation
Indices: 8836511--8836536 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
8836501 GGGTCAACTT
8836511 TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TT
8836537 ATTATTATCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:8840426 original size:20 final size:20
Alignment explanation
Indices: 8840401--8840439 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
8840391 GAGAATATGG
*
8840401 GTCATTCTATAGAAACATGA
1 GTCATTCCATAGAAACATGA
8840421 GTCATTCCATAGAAACATG
1 GTCATTCCATAGAAACATG
8840440 CTCTGCTTTC
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:0.38, C:0.18, G:0.15, T:0.28
Consensus pattern (20 bp):
GTCATTCCATAGAAACATGA
Found at i:8842670 original size:18 final size:18
Alignment explanation
Indices: 8842611--8842676 Score: 57
Period size: 18 Copynumber: 3.7 Consensus size: 18
8842601 TACAGTTTAT
*
8842611 GAATCCTTAC-AAACTTGA
1 GAATTCTTACAAAACTT-A
* *
8842629 AAATTCTTACGAAA--TA
1 GAATTCTTACAAAACTTA
8842645 GAAATTCTTACAAAACTTA
1 G-AATTCTTACAAAACTTA
*
8842664 GAATTCTTGCAAA
1 GAATTCTTACAAA
8842677 CTTTTGTGAA
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
16 1 0.03
17 13 0.33
18 19 0.49
19 6 0.15
ACGTcount: A:0.44, C:0.17, G:0.09, T:0.30
Consensus pattern (18 bp):
GAATTCTTACAAAACTTA
Found at i:8842900 original size:63 final size:64
Alignment explanation
Indices: 8842815--8843034 Score: 192
Period size: 64 Copynumber: 3.4 Consensus size: 64
8842805 GGACCTGTAG
** * *
8842815 TTCAATCTCAATCACTTGTTTCAATCTCAGCTCAATTCAAATCATTTTATTTTTAGAGCTACGA
1 TTCAATCTCAATCACTCATTTCAATCTCAGCTCAATCCAAATCATTTTATTTTTAGACCTACGA
* * * * *
8842879 TTCAATCTC-ATCACTCATTTCAATCTCAACTCGATCCAAATCATTTTATTTTTTTGACCTGCGG
1 TTCAATCTCAATCACTCATTTCAATCTCAGCTCAATCCAAATCATTTTA-TTTTTAGACCTACGA
*** * * ** * * * *
8842943 TTCAATCTGGGTTATTCATTTTGATCTCAGC-CTAGTCCAGATCATTTTATTTTTAGATCTACAA
1 TTCAATCTCAATCACTCATTTCAATCTCAGCTC-AATCCAAATCATTTTATTTTTAGACCTACGA
* * **
8843007 TTTAATCCCGGTCACTCATTTCAATCTC
1 TTCAATCTCAATCACTCATTTCAATCTC
8843035 GGCTTAGTCT
Statistics
Matches: 122, Mismatches: 31, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
63 34 0.28
64 60 0.49
65 28 0.23
ACGTcount: A:0.26, C:0.24, G:0.09, T:0.41
Consensus pattern (64 bp):
TTCAATCTCAATCACTCATTTCAATCTCAGCTCAATCCAAATCATTTTATTTTTAGACCTACGA
Found at i:8842948 original size:64 final size:65
Alignment explanation
Indices: 8842793--8842950 Score: 185
Period size: 64 Copynumber: 2.5 Consensus size: 65
8842783 AAAATTTTGA
** ** ** * *
8842793 ATTTTATTTTTCGGACCTGTAGTTCAATCTCAATCACTTGTTTCAATCTCAGCTCAATTCAAATC
1 ATTTTATTTTTTAGACCTGCGGTTCAATCTCAATCACTCATTTCAATCTCAACTCAATCCAAATC
* * * *
8842858 ATTTTA-TTTTTAGAGCTACGATTCAATCTC-ATCACTCATTTCAATCTCAACTCGATCCAAATC
1 ATTTTATTTTTTAGACCTGCGGTTCAATCTCAATCACTCATTTCAATCTCAACTCAATCCAAATC
*
8842921 ATTTTATTTTTTTGACCTGCGGTTCAATCT
1 ATTTTATTTTTTAGACCTGCGGTTCAATCT
8842951 GGGTTATTCA
Statistics
Matches: 76, Mismatches: 16, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
63 34 0.45
64 36 0.47
65 6 0.08
ACGTcount: A:0.26, C:0.23, G:0.09, T:0.42
Consensus pattern (65 bp):
ATTTTATTTTTTAGACCTGCGGTTCAATCTCAATCACTCATTTCAATCTCAACTCAATCCAAATC
Found at i:8843043 original size:64 final size:63
Alignment explanation
Indices: 8842815--8843061 Score: 190
Period size: 64 Copynumber: 3.8 Consensus size: 63
8842805 GGACCTGTAG
** ** * * * *
8842815 TTCAATCTCAATCACTTGTTTCAATCTCAGCTCAATTCAAATCATTTTATTTTTAGAGCTACGA
1 TTCAATCTCGGTCACTCATTTCAATCTCAGCT-AGTCCAGATCATTTTATTTTTAGACCTACGA
* * * * * * *
8842879 TTCAATCTC-ATCACTCATTTCAATCTCAACTCGATCCAAATCATTTTATTTTTTTGACCTGCGG
1 TTCAATCTCGGTCACTCATTTCAATCTCAGCTAG-TCCAGATCATTTTA-TTTTTAGACCTACGA
* * * ** * *
8842943 TTCAATCTGGGTTATTCATTTTGATCTCAGCCTAGTCCAGATCATTTTATTTTTAGATCTACAA
1 TTCAATCTCGGTCACTCATTTCAATCTCAG-CTAGTCCAGATCATTTTATTTTTAGACCTACGA
* * * * *
8843007 TTTAATCCCGGTCACTCATTTCAATCTCGGCTTAGTCTAGATTATTTTTATTTTT
1 TTCAATCTCGGTCACTCATTTCAATCTCAGC-TAGTCCAGATCA-TTTTATTTTT
8843062 TTGACTCGTG
Statistics
Matches: 143, Mismatches: 34, Indels: 11
0.76 0.18 0.06
Matches are distributed among these distances:
63 33 0.23
64 70 0.49
65 37 0.26
66 3 0.02
ACGTcount: A:0.25, C:0.22, G:0.10, T:0.43
Consensus pattern (63 bp):
TTCAATCTCGGTCACTCATTTCAATCTCAGCTAGTCCAGATCATTTTATTTTTAGACCTACGA
Found at i:8843091 original size:130 final size:128
Alignment explanation
Indices: 8842793--8843144 Score: 289
Period size: 128 Copynumber: 2.7 Consensus size: 128
8842783 AAAATTTTGA
** ** * * * * * * * *
8842793 ATTTTATTTTTCGGACCTGTAGTTCAATCTCAATCACTT-GTTTCAATCTCAGCTCAATTCAAAT
1 ATTTTATTTTTTTGACCTGCGGTTCAATCCCAGTCA-TTCATTTCGATCTCAACTCAGTCCAGAT
* * * * *
8842857 CATTTTATTTTTAGAGCTACGATTCAATCTCATCACTCATTTCAATCTCAACTCGATCCAAATC
65 CATTTTATTTTTAGAACTACAATTTAATCCCATCACTCATTTCAATCTCAACTAGATCCAAATC
*** * * *
8842921 ATTTTATTTTTTTGACCTGCGGTTCAATCTGGGTTATTCATTTTGATCTCAGC-CTAGTCCAGAT
1 ATTTTATTTTTTTGACCTGCGGTTCAATCCCAGTCATTCATTTCGATCTCAACTC-AGTCCAGAT
* * ** * *
8842985 CATTTTATTTTTAGATCTACAATTTAATCCCGGTCACTCATTTCAATCTCGGCTTAG-TCTAGAT
65 CATTTTATTTTTAGAACTACAATTTAATCCC-ATCACTCATTTCAATCTCAAC-TAGATCCAAAT
*
8843049 T
128 C
* * * *
8843050 ATTTTTATTTTTTTGA-CTCGTGGTTCAATCCCAGTCATTCATTTCGATCTTAACTCAGTTCATA
1 A-TTTTATTTTTTTGACCT-GCGGTTCAATCCCAGTCATTCATTTCGATCTCAACTCAGTCCAGA
**
8843114 TCATTTTATTTTTCTAACTCACAATTTAATC
64 TCATTTTATTTTTAGAACT-ACAATTTAATC
8843145 TTAATCATCT
Statistics
Matches: 178, Mismatches: 38, Indels: 13
0.78 0.17 0.06
Matches are distributed among these distances:
127 3 0.02
128 72 0.40
129 26 0.15
130 65 0.37
131 12 0.07
ACGTcount: A:0.25, C:0.22, G:0.10, T:0.44
Consensus pattern (128 bp):
ATTTTATTTTTTTGACCTGCGGTTCAATCCCAGTCATTCATTTCGATCTCAACTCAGTCCAGATC
ATTTTATTTTTAGAACTACAATTTAATCCCATCACTCATTTCAATCTCAACTAGATCCAAATC
Found at i:8843514 original size:3 final size:3
Alignment explanation
Indices: 8843508--8843587 Score: 106
Period size: 3 Copynumber: 26.7 Consensus size: 3
8843498 ACTTTTGTTG
8843508 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * *
8843556 TTA TCA TCA TCA TCA TCA TCA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
8843588 TTCTTTCTTT
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 75 1.00
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:8846301 original size:355 final size:356
Alignment explanation
Indices: 8845616--8846326 Score: 1165
Period size: 355 Copynumber: 2.0 Consensus size: 356
8845606 GTCAGTTTGC
* *
8845616 ATGATTATACATGTAATTGATTTAGGTTGCATTCTATTTTGATATATTTGATCTATCTAGCTTTC
1 ATGATTATACATGTAATTGATTTAGGGTGCATTCTATTTTGATATATTTGATCAATCTAGCTTTC
8845681 GATTTTATGTTTTATGGTTTTCGGTTTATGTCCATTAGGGTTTTTATTGTTTCGTTTTTTACAGT
66 GATTTTATGTTTTATGGTTTTCGGTTTATGTCCATTAGGGTTTTTATTGTTTCGTTTTTTACAGT
* * *
8845746 TTAGGGCTTATTTAATTTCTATTTCTTATTTTTTTTTATGTTATAGCTTCGATTTGTTTAGTTTT
131 TTAGGGCTTATTTAATTTCTATTTCATATTTGTTTTTATGCTATAGCTTCGATTTGTTTAGTTTT
* * *
8845811 GATTAATTGAATCTTATTATTTTCAGTTTGCATTAATTTAGCTTTAATTCATAGTAGTATTGCAT
196 GATCAATTAAATCTTATTATTTTCAATTTGCATTAATTTAGCTTTAATTCATAGTAGTATTGCAT
* *
8845876 ATTTTATGTTTAATTTGTTTAGTTTATATTCTATTTTAACTTGAATTATCTAAGTATAGGTTTGG
261 ATTTTATGTTTAATTTGTTTAGTTTATATTCTATTTTAACTTGAATTATCTAAGTATAGATTTAG
8845941 GTGAAAGAATTTTGGTACTTGAGTCTCTCAA
326 GTGAAAGAATTTTGGTACTTGAGTCTCTCAA
* * *
8845972 ATGATTGTGCATGTAATTTATTTAGGGTGCATTCTATTTTGATATATTTGATCAATCTAGCTTTC
1 ATGATTATACATGTAATTGATTTAGGGTGCATTCTATTTTGATATATTTGATCAATCTAGCTTTC
* * * * *
8846037 GGTTTTATGTTTTCTGGTTTTCGGTTTATGTTCATTAGGGTTTTTATTGTTTTGTTTTTTATAGT
66 GATTTTATGTTTTATGGTTTTCGGTTTATGTCCATTAGGGTTTTTATTGTTTCGTTTTTTACAGT
* * *
8846102 TTAGGGCTTATTTAATTTC-AGTTTCATA-TTGTTTTTATGCTATAGTTTTGGTTTGTTTAGTTT
131 TTAGGGCTTATTTAATTTCTA-TTTCATATTTGTTTTTATGCTATAGCTTCGATTTGTTTAGTTT
*
8846165 TGATCAATTAAATCTTATTATTTTCAATTTGCATTAATTTAGCTTTAATTCATAGTAGTTTTGCA
195 TGATCAATTAAATCTTATTATTTTCAATTTGCATTAATTTAGCTTTAATTCATAGTAGTATTGCA
* *
8846230 TGTTTTATGTTTAATTTGTTTAGTTTATATTTTATTTTAACTTGAATTATCTAAGTATAGATTTA
260 TATTTTATGTTTAATTTGTTTAGTTTATATTCTATTTTAACTTGAATTATCTAAGTATAGATTTA
* *
8846295 GGTGAAATAATTTTGGTACTTGTGTCTCTCAA
325 GGTGAAAGAATTTTGGTACTTGAGTCTCTCAA
8846327 TATTCATTCT
Statistics
Matches: 328, Mismatches: 26, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
355 183 0.56
356 145 0.44
ACGTcount: A:0.23, C:0.08, G:0.15, T:0.54
Consensus pattern (356 bp):
ATGATTATACATGTAATTGATTTAGGGTGCATTCTATTTTGATATATTTGATCAATCTAGCTTTC
GATTTTATGTTTTATGGTTTTCGGTTTATGTCCATTAGGGTTTTTATTGTTTCGTTTTTTACAGT
TTAGGGCTTATTTAATTTCTATTTCATATTTGTTTTTATGCTATAGCTTCGATTTGTTTAGTTTT
GATCAATTAAATCTTATTATTTTCAATTTGCATTAATTTAGCTTTAATTCATAGTAGTATTGCAT
ATTTTATGTTTAATTTGTTTAGTTTATATTCTATTTTAACTTGAATTATCTAAGTATAGATTTAG
GTGAAAGAATTTTGGTACTTGAGTCTCTCAA
Found at i:8847197 original size:20 final size:19
Alignment explanation
Indices: 8847164--8847201 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
8847154 CTTTTTTCTC
8847164 ATTTCTTTTATATTCTTTG
1 ATTTCTTTTATATTCTTTG
*
8847183 ATTTCATTTTTTATTCTTT
1 ATTTC-TTTTATATTCTTT
8847202 TTTCCTTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.16, C:0.11, G:0.03, T:0.71
Consensus pattern (19 bp):
ATTTCTTTTATATTCTTTG
Found at i:8847883 original size:19 final size:18
Alignment explanation
Indices: 8847855--8847890 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
8847845 ATCATCATAC
8847855 TAAATTAAATTAAAAATG
1 TAAATTAAATTAAAAATG
8847873 TAAATTTAAATTAAAAAT
1 TAAA-TTAAATTAAAAAT
8847891 AATATACTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (18 bp):
TAAATTAAATTAAAAATG
Found at i:8848808 original size:26 final size:26
Alignment explanation
Indices: 8848775--8848837 Score: 108
Period size: 26 Copynumber: 2.4 Consensus size: 26
8848765 TAATTTTAAA
8848775 GTGTACTTTATTAATAAATTATTTTT
1 GTGTACTTTATTAATAAATTATTTTT
8848801 GTGTACTTTATTAATAAATTATTTTT
1 GTGTACTTTATTAATAAATTATTTTT
* *
8848827 GTATACATTAT
1 GTGTACTTTAT
8848838 ATTTTATTTG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.32, C:0.05, G:0.08, T:0.56
Consensus pattern (26 bp):
GTGTACTTTATTAATAAATTATTTTT
Done.