Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168459.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_67, 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: 134467
ACGTcount: A:0.43, C:0.09, G:0.10, T:0.37
Warning! 1000 characters in sequence are not A, C, G, or T
File 4 of 4
Found at i:117473 original size:41 final size:43
Alignment explanation
Indices: 117426--117517 Score: 161
Period size: 41 Copynumber: 2.2 Consensus size: 43
117416 TATGTACATT
117426 TAAATATTGAGATGTAATTTTAACTTTTTATTAA-TTTACTTA
1 TAAATATTGAGATGTAATTTTAACTTTTTATTAATTTTACTTA
*
117468 T-AATATTGAGATGTAATTTTAATTTTTTATTAATTTTACTTA
1 TAAATATTGAGATGTAATTTTAACTTTTTATTAATTTTACTTA
117510 TAAATATT
1 TAAATATT
117518 TTTATTAATT
Statistics
Matches: 47, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
41 31 0.66
42 10 0.21
43 6 0.13
ACGTcount: A:0.36, C:0.03, G:0.07, T:0.54
Consensus pattern (43 bp):
TAAATATTGAGATGTAATTTTAACTTTTTATTAATTTTACTTA
Found at i:117532 original size:12 final size:11
Alignment explanation
Indices: 117486--117536 Score: 57
Period size: 12 Copynumber: 4.3 Consensus size: 11
117476 AGATGTAATT
117486 TTAATTTTTTA
1 TTAATTTTTTA
117497 TTAATTTTACTTA
1 TTAATTTT--TTA
*
117510 TAAATATTTTTA
1 TTAAT-TTTTTA
117522 TTAATTATTTTA
1 TTAATT-TTTTA
117534 TTA
1 TTA
117537 TAAAATCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
11 9 0.26
12 15 0.44
13 7 0.21
14 3 0.09
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (11 bp):
TTAATTTTTTA
Found at i:117769 original size:12 final size:11
Alignment explanation
Indices: 117731--117781 Score: 66
Period size: 12 Copynumber: 4.3 Consensus size: 11
117721 AGATGTAATT
117731 TTAATTTTTTA
1 TTAATTTTTTA
117742 TTAATTTTACTTA
1 TTAATTTT--TTA
117755 TTAATATTTTTA
1 TTAAT-TTTTTA
117767 TTAATTATTTTA
1 TTAATT-TTTTA
117779 TTA
1 TTA
117782 TAAAATCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
11 9 0.25
12 16 0.44
13 8 0.22
14 3 0.08
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (11 bp):
TTAATTTTTTA
Found at i:117779 original size:24 final size:23
Alignment explanation
Indices: 117731--117781 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 23
117721 AGATGTAATT
117731 TTAATTTTTTATTAATTTTACTTA
1 TTAATTTTTTATTAATTTTA-TTA
117755 TTAATATTTTTATTAATTATT-TTA
1 TTAAT-TTTTTATTAATT-TTATTA
117779 TTA
1 TTA
117782 TAAAATCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
24 11 0.44
25 12 0.48
26 2 0.08
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (23 bp):
TTAATTTTTTATTAATTTTATTA
Found at i:117896 original size:245 final size:247
Alignment explanation
Indices: 117466--117961 Score: 969
Period size: 245 Copynumber: 2.0 Consensus size: 247
117456 TTAATTTACT
117466 TATAATATTGAGATGTAATTTTAATTTTTTATTAATTTTACTTATAAATATTTTTATTAATTATT
1 TATAATATTGAGATGTAATTTTAATTTTTTATTAATTTTACTTATAAATATTTTTATTAATTATT
117531 TTATTATAAAATCAAATAATAAATATTTTTTTTAAAGTACTTAATTTTATAATTCTCTCCTTTTT
66 TTATTATAAAATCAAATAATAAATATTTTTTTTAAAGTACTTAATTTTATAATTCTCTCCTTTTT
117596 TCGTAGGCCTAATTATTTTCTAATCATCTATGCTAGTAACAGATATTAATTAAAAAAGCTACTTT
131 TCGTAGGCCTAATTATTTTCTAATCATCTATGCTAGTAACAGATATTAATTAAAAAAGCTACTTT
117661 GGCTTGTCTTTGAATCCGACATACTAAAAGATAACATCAATC-C-AATAAAA
196 GGCTTGTCTTTGAATCCGACATACTAAAAGATAACATCAATCACTAATAAAA
*
117711 TATAATATTGAGATGTAATTTTAATTTTTTATTAATTTTACTTATTAATATTTTTATTAATTATT
1 TATAATATTGAGATGTAATTTTAATTTTTTATTAATTTTACTTATAAATATTTTTATTAATTATT
117776 TTATTATAAAATCAAATAATAAATATTTTTTTTAAAGTACTTAATTTTATAATTCTCTCCTTTTT
66 TTATTATAAAATCAAATAATAAATATTTTTTTTAAAGTACTTAATTTTATAATTCTCTCCTTTTT
117841 TCGTAGGCCTAATTATTTTCTAATCATCTATGCTAGTAACAGATATTAATTAAAAAAGCTACTTT
131 TCGTAGGCCTAATTATTTTCTAATCATCTATGCTAGTAACAGATATTAATTAAAAAAGCTACTTT
117906 GGCTTGTCTTTGAATCCGACATACTAAAAGATAACATCAATCACTAATAAAA
196 GGCTTGTCTTTGAATCCGACATACTAAAAGATAACATCAATCACTAATAAAA
117958 TATA
1 TATA
117962 TTCGATATTT
Statistics
Matches: 248, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
245 236 0.95
246 1 0.00
247 11 0.04
ACGTcount: A:0.37, C:0.11, G:0.07, T:0.45
Consensus pattern (247 bp):
TATAATATTGAGATGTAATTTTAATTTTTTATTAATTTTACTTATAAATATTTTTATTAATTATT
TTATTATAAAATCAAATAATAAATATTTTTTTTAAAGTACTTAATTTTATAATTCTCTCCTTTTT
TCGTAGGCCTAATTATTTTCTAATCATCTATGCTAGTAACAGATATTAATTAAAAAAGCTACTTT
GGCTTGTCTTTGAATCCGACATACTAAAAGATAACATCAATCACTAATAAAA
Found at i:118041 original size:245 final size:245
Alignment explanation
Indices: 117533--118015 Score: 663
Period size: 245 Copynumber: 2.0 Consensus size: 245
117523 TAATTATTTT
117533 ATTATAAAATCAAATAATAAATATTTTTTTTAAAGTACTTAATTTTATAATTCTCTCCTTTTTTC
1 ATTATAAAATCAAATAATAAATATTTTTTTTAAAGTACTTAATTTTATAATTCTCTCCTTTTTTC
117598 GTAGGCCTAATTATTTTCTAATCATCTATGCTAGTAACAGATATTAATTAAAAAAGCTACTTTGG
66 GTAGGCCTAATTATTTTCTAATCATCTATGCTAGTAACAGATATTAATTAAAAAAGCTACTTTGG
*
117663 CTTGTCTTTGAATCCGACATACTAAAAGATAACATCAATCCAATAAAATATAATATTGAGATGTA
131 CTTGTCTTTGAATCCGACATACTAAAAGATAACATCAATCCAATAAAATATAATATCGAGATGTA
*** ** * * ** ** * **** * ****
117728 ATTTTAATTTTTTATTAATTTTACTTATTAATATTTTTATTAATTATTTT
196 ATAGCAAGCTGTTATCAATAATACAAACTAATATCGAAAATAATTAGAAA
117778 ATTATAAAATCAAATAATAAATATTTTTTTTAAAGTACTTAATTTTATAATTCTCTCCTTTTTTC
1 ATTATAAAATCAAATAATAAATATTTTTTTTAAAGTACTTAATTTTATAATTCTCTCCTTTTTTC
117843 GTAGGCCTAATTATTTTCTAATCATCTATGCTAGTAACAGATATTAATTAAAAAAGCTACTTTGG
66 GTAGGCCTAATTATTTTCTAATCATCTATGCTAGTAACAGATATTAATTAAAAAAGCTACTTTGG
*
117908 CTTGTCTTTGAATCCGACATACTAAAAGATAACATCAATCACTAATAAAATAT-AT-TCGATATT
131 CTTGTCTTTGAATCCGACATACTAAAAGATAACATCAATC-C-AATAAAATATAATATCGAGA-T
* *
117971 TTGATAAGCAAGCTGTT-TCAA-AATACAAACT-A-ATCGAAAATAATT
193 GTAAT-AGCAAGCTGTTATCAATAATACAAACTAATATCGAAAATAATT
118016 GGAGAAAACT
Statistics
Matches: 213, Mismatches: 21, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
243 8 0.04
244 1 0.00
245 179 0.84
246 10 0.05
247 15 0.07
ACGTcount: A:0.38, C:0.12, G:0.08, T:0.42
Consensus pattern (245 bp):
ATTATAAAATCAAATAATAAATATTTTTTTTAAAGTACTTAATTTTATAATTCTCTCCTTTTTTC
GTAGGCCTAATTATTTTCTAATCATCTATGCTAGTAACAGATATTAATTAAAAAAGCTACTTTGG
CTTGTCTTTGAATCCGACATACTAAAAGATAACATCAATCCAATAAAATATAATATCGAGATGTA
ATAGCAAGCTGTTATCAATAATACAAACTAATATCGAAAATAATTAGAAA
Found at i:118428 original size:6 final size:6
Alignment explanation
Indices: 118417--118449 Score: 57
Period size: 6 Copynumber: 5.3 Consensus size: 6
118407 GTTTATTAAG
118417 TTAAAT TTAAATT TTAAAT TTAAAT TTAAAT TT
1 TTAAAT TTAAA-T TTAAAT TTAAAT TTAAAT TT
118450 GATTTTAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 20 0.77
7 6 0.23
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (6 bp):
TTAAAT
Found at i:118435 original size:13 final size:13
Alignment explanation
Indices: 118417--118458 Score: 61
Period size: 12 Copynumber: 3.4 Consensus size: 13
118407 GTTTATTAAG
118417 TTAAATTTAAATT
1 TTAAATTTAAATT
118430 TTAAATTTAAA-T
1 TTAAATTTAAATT
*
118442 TTAAATTT-GATT
1 TTAAATTTAAATT
118454 TTAAA
1 TTAAA
118459 AAATATTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
11 1 0.04
12 15 0.56
13 11 0.41
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (13 bp):
TTAAATTTAAATT
Found at i:118477 original size:18 final size:18
Alignment explanation
Indices: 118456--118494 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
118446 ATTTGATTTT
* *
118456 AAAAAATATTATTAAAAG
1 AAAAAAAATTAATAAAAG
*
118474 AAAAAAAATTAATAAATG
1 AAAAAAAATTAATAAAAG
118492 AAA
1 AAA
118495 GTAATCCATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (18 bp):
AAAAAAAATTAATAAAAG
Found at i:118804 original size:53 final size:52
Alignment explanation
Indices: 118709--118812 Score: 129
Period size: 53 Copynumber: 2.0 Consensus size: 52
118699 CTATCGGAAA
* ** *
118709 TACCATCCAAAACCAATACTACCCAAATCGACTTTTAGGATGCCCCTAATCT
1 TACCATCCAAAACCAATACTACCCAAACCGACTTAGAAGATGCCCCTAATCT
* *
118761 TACCATCCAAATCC-ATACTACCCTAAAGCCGACTTAGAAGATGCCCTTAATC
1 TACCATCCAAAACCAATACTACCC-AAA-CCGACTTAGAAGATGCCCCTAATC
118813 CAGCCTATTG
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
51 9 0.20
52 16 0.36
53 19 0.43
ACGTcount: A:0.35, C:0.33, G:0.09, T:0.24
Consensus pattern (52 bp):
TACCATCCAAAACCAATACTACCCAAACCGACTTAGAAGATGCCCCTAATCT
Found at i:119737 original size:18 final size:18
Alignment explanation
Indices: 119716--119750 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
119706 TATTTTTGAA
119716 TTTTTTAATCATTTTGTC
1 TTTTTTAATCATTTTGTC
* *
119734 TTTTTTTATTATTTTGT
1 TTTTTTAATCATTTTGT
119751 TGATTTGTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.14, C:0.06, G:0.06, T:0.74
Consensus pattern (18 bp):
TTTTTTAATCATTTTGTC
Found at i:121354 original size:3 final size:3
Alignment explanation
Indices: 121336--121410 Score: 71
Period size: 3 Copynumber: 24.7 Consensus size: 3
121326 ATAAACATTG
* * ** * *
121336 TAA TAT TAA TTAA TAA TAA TTA TAA TCTT TAA AAA TAA TAA TGA T-A
1 TAA TAA TAA -TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA
121382 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
121411 GTTTTATCCA
Statistics
Matches: 58, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
2 2 0.03
3 52 0.90
4 4 0.07
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:121520 original size:11 final size:13
Alignment explanation
Indices: 121491--121542 Score: 58
Period size: 12 Copynumber: 4.3 Consensus size: 13
121481 TATGGTATTG
*
121491 ATTATAACT-ATT
1 ATTATAATTAATT
121503 ATTATAATTAA-T
1 ATTATAATTAATT
*
121515 -TTATAAATAATT
1 ATTATAATTAATT
121527 ATTATAATT-ATT
1 ATTATAATTAATT
121539 ATTA
1 ATTA
121543 ATATATTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
11 9 0.26
12 17 0.50
13 8 0.24
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (13 bp):
ATTATAATTAATT
Found at i:121579 original size:24 final size:22
Alignment explanation
Indices: 121492--121578 Score: 77
Period size: 24 Copynumber: 3.8 Consensus size: 22
121482 ATGGTATTGA
* *
121492 TTATAACTATTATTATAATTAAT
1 TTATAAATATAATTATAATT-AT
*
121515 TTATAAATAATTATTATAATTA-
1 TTATAAAT-ATAATTATAATTAT
* *
121537 TTATTAATATATTTAATATATTAT
1 TTATAAATATAATT-ATA-ATTAT
121561 TTGATAAATATAATTATA
1 TT-ATAAATATAATTATA
121579 TAATTATATT
Statistics
Matches: 53, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
21 4 0.08
22 10 0.19
23 12 0.23
24 17 0.32
25 10 0.19
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (22 bp):
TTATAAATATAATTATAATTAT
Found at i:121660 original size:23 final size:25
Alignment explanation
Indices: 121632--121691 Score: 72
Period size: 23 Copynumber: 2.5 Consensus size: 25
121622 ATTATAATCA
121632 ATTAATTATAATAATTA-TTAATTT
1 ATTAATTATAATAATTATTTAATTT
* *
121656 A-TAATTAT-ATAGTTATTTTATTT
1 ATTAATTATAATAATTATTTAATTT
121679 ATTAATATATAAT
1 ATTAAT-TATAAT
121692 TGTTCAGTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
22 6 0.20
23 14 0.47
24 5 0.17
25 3 0.10
26 2 0.07
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (25 bp):
ATTAATTATAATAATTATTTAATTT
Found at i:122038 original size:21 final size:21
Alignment explanation
Indices: 122014--122060 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
122004 AACTTATTTG
122014 TTATTATTAATAATTTAATAA
1 TTATTATTAATAATTTAATAA
* * * *
122035 TTATTTTTAGTTATTTGATAA
1 TTATTATTAATAATTTAATAA
122056 TTATT
1 TTATT
122061 CTAATAGTAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (21 bp):
TTATTATTAATAATTTAATAA
Found at i:122300 original size:20 final size:20
Alignment explanation
Indices: 122275--122354 Score: 74
Period size: 20 Copynumber: 4.0 Consensus size: 20
122265 AATTATTAAT
* *
122275 ATTATAATTTATATTATTAC
1 ATTATAATTAATATAATTAC
* *
122295 ATTATAATAAATATAATTAT
1 ATTATAATTAATATAATTAC
*
122315 ATTATAATTAATTATAA-TAT
1 ATTATAATTAA-TATAATTAC
122335 ATT-TAATATAAATATAATTA
1 ATTATAAT-T-AATATAATTA
122355 ATATTAATAT
Statistics
Matches: 51, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
19 4 0.08
20 38 0.75
21 9 0.18
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (20 bp):
ATTATAATTAATATAATTAC
Found at i:122315 original size:15 final size:15
Alignment explanation
Indices: 122265--122356 Score: 77
Period size: 15 Copynumber: 6.2 Consensus size: 15
122255 TTATATATCA
*
122265 AATTATTAATATTA-T
1 AATTA-TAATATAATT
*
122280 AATT-T-ATATTATT
1 AATTATAATATAATT
122293 ACATTATAATA-AATAT
1 A-ATTATAATATAAT-T
*
122309 AATTATATTATAATT
1 AATTATAATATAATT
*
122324 AATTATAATATATTT
1 AATTATAATATAATT
122339 AA-TATAAATATAATT
1 AATTAT-AATATAATT
122354 AAT
1 AAT
122357 ATTAATATTT
Statistics
Matches: 64, Mismatches: 5, Indels: 15
0.76 0.06 0.18
Matches are distributed among these distances:
12 6 0.09
13 3 0.05
14 6 0.09
15 41 0.64
16 8 0.12
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (15 bp):
AATTATAATATAATT
Found at i:122331 original size:30 final size:29
Alignment explanation
Indices: 122277--122356 Score: 90
Period size: 30 Copynumber: 2.7 Consensus size: 29
122267 TTATTAATAT
*
122277 TATAATT-TATATTATTACATTATAATAAA
1 TATAATTATATATAATTA-ATTATAATAAA
*
122306 TATAATTATATTATAATTAATTATAATATA
1 TATAATTATA-TATAATTAATTATAATAAA
* *
122336 TTTAATATAAATATAATTAAT
1 TATAAT-TATATATAATTAAT
122357 ATTAATATTT
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
29 7 0.16
30 27 0.61
31 10 0.23
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (29 bp):
TATAATTATATATAATTAATTATAATAAA
Found at i:122344 original size:24 final size:24
Alignment explanation
Indices: 122317--122395 Score: 63
Period size: 28 Copynumber: 3.1 Consensus size: 24
122307 ATAATTATAT
122317 TATAATTAATTATAATATATTTAA
1 TATAATTAATTATAATATATTTAA
*
122341 TATAAATATAATTAATATTAATATTTAAA
1 TAT-AAT-TAATT-ATAAT-ATATTT-AA
* *
122370 TATTCATTAATTA-AATA-ATATAA
1 TA-TAATTAATTATAATATATTTAA
122393 TAT
1 TAT
122396 TATATAAATA
Statistics
Matches: 45, Mismatches: 4, Indels: 14
0.71 0.06 0.22
Matches are distributed among these distances:
22 1 0.02
23 4 0.09
24 6 0.13
25 4 0.09
26 7 0.16
27 5 0.11
28 11 0.24
29 6 0.13
30 1 0.02
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (24 bp):
TATAATTAATTATAATATATTTAA
Found at i:122357 original size:15 final size:15
Alignment explanation
Indices: 122301--122411 Score: 71
Period size: 15 Copynumber: 7.9 Consensus size: 15
122291 TTACATTATA
122301 ATAAATATAATT-AT
1 ATAAATATAATTAAT
122315 AT---TATAATTAAT
1 ATAAATATAATTAAT
*
122327 -TATAATATATTTAAT
1 ATA-AATATAATTAAT
122342 ATAAATATAATTAAT
1 ATAAATATAATTAAT
*
122357 ATTAATAT--TTAAAT
1 ATAAATATAATT-AAT
**
122371 ATTCAT-TAATTAA-
1 ATAAATATAATTAAT
*
122384 AT-AATATAATATTAT
1 ATAAATATAAT-TAAT
*
122399 ATAAATATTATTA
1 ATAAATATAATTA
122412 GATAATATAT
Statistics
Matches: 76, Mismatches: 8, Indels: 25
0.70 0.07 0.23
Matches are distributed among these distances:
11 8 0.11
12 4 0.05
13 9 0.12
14 14 0.18
15 32 0.42
16 9 0.12
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (15 bp):
ATAAATATAATTAAT
Found at i:122422 original size:57 final size:57
Alignment explanation
Indices: 122319--122447 Score: 149
Period size: 57 Copynumber: 2.2 Consensus size: 57
122309 AATTATATTA
*
122319 TAATTAATTATAATATATTTAATATAAATATAATTAATATTAATATTTAAATATT-CAT
1 TAATTAA-TATAATATATTTAATATAAATATAATTAATAATAATATTTAAATATTAC-T
* *
122377 TAATTAA-ATAATATAATATT-ATATAAATATTATTAGATAAT-ATATTTTAATATTACT
1 TAATTAATATAATAT-AT-TTAATATAAATATAATTA-ATAATAATATTTAAATATTACT
122434 TAATTATATATAAT
1 TAATTA-ATATAAT
122448 CTAAATTAGA
Statistics
Matches: 62, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
56 7 0.11
57 35 0.56
58 15 0.24
59 5 0.08
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.48
Consensus pattern (57 bp):
TAATTAATATAATATATTTAATATAAATATAATTAATAATAATATTTAAATATTACT
Found at i:122478 original size:18 final size:18
Alignment explanation
Indices: 122413--122491 Score: 58
Period size: 18 Copynumber: 4.3 Consensus size: 18
122403 ATATTATTAG
122413 ATAATATATTT-TAATATT
1 ATAATATATTTATAATA-T
* *
122431 ACTTAAT-TATATATAATCT
1 A--TAATATATTTATAATAT
*
122450 A-AATTAGATTTATAATAT
1 ATAA-TATATTTATAATAT
122468 ATAATATATTTAT-ATAT
1 ATAATATATTTATAATAT
122485 ATTAATA
1 A-TAATA
122492 ATTATTATTT
Statistics
Matches: 48, Mismatches: 6, Indels: 14
0.71 0.09 0.21
Matches are distributed among these distances:
16 2 0.04
17 6 0.12
18 24 0.50
19 8 0.17
20 8 0.17
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.49
Consensus pattern (18 bp):
ATAATATATTTATAATAT
Found at i:122931 original size:16 final size:16
Alignment explanation
Indices: 122912--122960 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
122902 ATTATAAGAT
122912 TATAAATTAATAATTA
1 TATAAATTAATAATTA
122928 TATATAATT-ATGAA-TA
1 TATA-AATTAAT-AATTA
122944 TAATAAATTAAT-ATTA
1 T-ATAAATTAATAATTA
122960 T
1 T
122961 TTTATATTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
15 1 0.04
16 16 0.57
17 11 0.39
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (16 bp):
TATAAATTAATAATTA
Found at i:123136 original size:17 final size:17
Alignment explanation
Indices: 123114--123225 Score: 71
Period size: 17 Copynumber: 6.7 Consensus size: 17
123104 AACAATAAAT
123114 TAATTATTAATATTATA
1 TAATTATTAATATTATA
123131 TAATTA-TAACTAATTATA
1 TAATTATTAA-T-ATTATA
123149 TAATTTATTAAT-TTATA
1 TAA-TTATTAATATTATA
*
123166 T--TCTA--AATATAAGTA
1 TAAT-TATTAATATTA-TA
123181 TAA-TATATAATATT-TA
1 TAATTAT-TAATATTATA
*
123197 TAATTATTTAATAATA-A
1 TAATTA-TTAATATTATA
*
123214 TTATTATTAATA
1 TAATTATTAATA
123226 GTGTAACTAA
Statistics
Matches: 76, Mismatches: 4, Indels: 31
0.68 0.04 0.28
Matches are distributed among these distances:
13 3 0.04
14 3 0.04
15 7 0.09
16 14 0.18
17 27 0.36
18 15 0.20
19 4 0.05
20 3 0.04
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.50
Consensus pattern (17 bp):
TAATTATTAATATTATA
Found at i:123620 original size:20 final size:20
Alignment explanation
Indices: 123597--123650 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 20
123587 ATAAATAGTT
123597 TTATAATTTTATAATATTAA
1 TTATAATTTTATAATATTAA
* * * *
123617 TTATAATATTAGAAGATTTA
1 TTATAATTTTATAATATTAA
*
123637 TAAT-ATTTTATAAT
1 TTATAATTTTATAAT
123651 TAATTAATAT
Statistics
Matches: 26, Mismatches: 8, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
19 7 0.27
20 19 0.73
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (20 bp):
TTATAATTTTATAATATTAA
Found at i:123660 original size:18 final size:18
Alignment explanation
Indices: 123600--123672 Score: 58
Period size: 18 Copynumber: 4.0 Consensus size: 18
123590 AATAGTTTTA
* *
123600 TAATTTTATAATATTAATT
1 TAATATTATAAAATTAA-T
* * *
123619 ATAATATTAGAAGATTTA-
1 -TAATATTATAAAATTAAT
* *
123637 TAATATTTTATAATTAAT
1 TAATATTATAAAATTAAT
123655 TAATATTATAAAATTAAT
1 TAATATTATAAAATTAAT
123673 GATAAATTAA
Statistics
Matches: 41, Mismatches: 11, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
17 12 0.29
18 16 0.39
20 13 0.32
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (18 bp):
TAATATTATAAAATTAAT
Found at i:124382 original size:13 final size:13
Alignment explanation
Indices: 124364--124406 Score: 63
Period size: 13 Copynumber: 3.4 Consensus size: 13
124354 ATATTTATAA
124364 ATTATACTAATAT
1 ATTATACTAATAT
124377 ATTATACT-ATAT
1 ATTATACTAATAT
124389 AATTATA-TAATAT
1 -ATTATACTAATAT
124402 ATTAT
1 ATTAT
124407 TTATTTATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
12 10 0.36
13 18 0.64
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.49
Consensus pattern (13 bp):
ATTATACTAATAT
Found at i:124423 original size:35 final size:34
Alignment explanation
Indices: 124384--124492 Score: 98
Period size: 35 Copynumber: 3.1 Consensus size: 34
124374 TATATTATAC
124384 TATATAATTATATAATATATTATTTATTTATTAAT
1 TATATAATTATATAATATATTATTTATTTATT-AT
*
124419 TATATAA-TAT-TAATAACTATTATATATTTAAGTTAT
1 TATATAATTATATAAT-A-TATTATTTATTT-A-TTAT
* * *
124455 T-TATAATTATTATATTTATTTTAATTATTTATTAT
1 TATATAATTA-TATA-ATATATTATTTATTTATTAT
124490 TAT
1 TAT
124493 TTTAATGATT
Statistics
Matches: 60, Mismatches: 5, Indels: 17
0.73 0.06 0.21
Matches are distributed among these distances:
33 4 0.07
34 4 0.07
35 28 0.47
36 8 0.13
37 12 0.20
38 3 0.05
39 1 0.02
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.58
Consensus pattern (34 bp):
TATATAATTATATAATATATTATTTATTTATTAT
Found at i:124427 original size:27 final size:25
Alignment explanation
Indices: 124348--124428 Score: 92
Period size: 27 Copynumber: 3.1 Consensus size: 25
124338 ATAATCTAAT
* *
124348 TATATCATATTTATAAATTATACTAA
1 TATATTATATTTATTAATTATA-TAA
*
124374 TATATTATA-CTATATAATTATATAA
1 TATATTATATTTAT-TAATTATATAA
124399 TATATTATTTATTTATTAATTATATAA
1 TATATTA--TATTTATTAATTATATAA
124426 TAT
1 TAT
124429 TAATAACTAT
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
25 13 0.28
26 15 0.32
27 16 0.34
28 3 0.06
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (25 bp):
TATATTATATTTATTAATTATATAA
Found at i:124441 original size:27 final size:26
Alignment explanation
Indices: 124358--124441 Score: 82
Period size: 27 Copynumber: 3.2 Consensus size: 26
124348 TATATCATAT
*
124358 TTATAAATTATACTAATATATTATACTA
1 TTATTAATTATA-TAATATATTA-ACTA
**
124386 -TA-TAATTATATAATATATTATTTA
1 TTATTAATTATATAATATATTAACTA
*
124410 TTTATTAATTATATAATATTAATAACTA
1 -TTATTAATTATATAATA-TATTAACTA
124438 TTAT
1 TTAT
124442 ATATTTAAGT
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
24 2 0.04
25 10 0.22
26 9 0.20
27 19 0.41
28 6 0.13
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (26 bp):
TTATTAATTATATAATATATTAACTA
Found at i:124483 original size:28 final size:31
Alignment explanation
Indices: 124436--124493 Score: 86
Period size: 28 Copynumber: 2.0 Consensus size: 31
124426 TATTAATAAC
124436 TATTATATATTTAAGTTATTTATAATTATTA
1 TATTATATATTTAAGTTATTTATAATTATTA
*
124467 TATT-TAT-TTTAA-TTATTTATTATTATT
1 TATTATATATTTAAGTTATTTATAATTATT
124494 TTAATGATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 14 0.54
29 5 0.19
30 3 0.12
31 4 0.15
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (31 bp):
TATTATATATTTAAGTTATTTATAATTATTA
Found at i:124492 original size:19 final size:19
Alignment explanation
Indices: 124451--124503 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
124441 TATATTTAAG
124451 TTATTTATAATTA-TTATAT
1 TTATTT-TAATTATTTATAT
124470 TTATTTTAATTATTTAT-T
1 TTATTTTAATTATTTATAT
*
124488 ATTATTTTAATGATTT
1 -TTATTTTAATTATTT
124504 GAAATAAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
18 7 0.23
19 24 0.77
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (19 bp):
TTATTTTAATTATTTATAT
Found at i:124503 original size:28 final size:29
Alignment explanation
Indices: 124445--124503 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 29
124435 CTATTATATA
* *
124445 TTTAAGTTATTTATAATTATTATATTTAT
1 TTTAAGTTATTTATAATTATTATAATGAT
* *
124474 TTTAA-TTATTTATTATTATTTTAATGAT
1 TTTAAGTTATTTATAATTATTATAATGAT
124502 TT
1 TT
124504 GAAATAAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
28 21 0.81
29 5 0.19
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.64
Consensus pattern (29 bp):
TTTAAGTTATTTATAATTATTATAATGAT
Found at i:124757 original size:21 final size:21
Alignment explanation
Indices: 124733--124778 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
124723 TTTGAACGTG
124733 TTATAAATAATATATTA-TA-AA
1 TTAT-AATAATA-ATTATTACAA
124754 TTATAATAATAATTATTACAA
1 TTATAATAATAATTATTACAA
124775 TTAT
1 TTAT
124779 CTTAGTTCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 4 0.17
20 9 0.39
21 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (21 bp):
TTATAATAATAATTATTACAA
Found at i:125042 original size:12 final size:12
Alignment explanation
Indices: 125025--125113 Score: 60
Period size: 12 Copynumber: 7.3 Consensus size: 12
125015 AATTATTCAA
125025 ATTAATAATTAT
1 ATTAATAATTAT
125037 ATTAATATATTAT
1 ATTAATA-ATTAT
125050 AATT-ATAA-TAT
1 -ATTAATAATTAT
* * *
125061 AATATTAAATAT
1 ATTAATAATTAT
*
125073 ATTAATAAAATAT
1 ATTAAT-AATTAT
125086 ATT-ATAATT-T
1 ATTAATAATTAT
*
125096 ATCATATAATTAAT
1 ATTA-ATAATT-AT
125110 ATTA
1 ATTA
125114 TCTGAATAAT
Statistics
Matches: 61, Mismatches: 7, Indels: 16
0.73 0.08 0.19
Matches are distributed among these distances:
10 5 0.08
11 9 0.15
12 23 0.38
13 17 0.28
14 7 0.11
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (12 bp):
ATTAATAATTAT
Found at i:125048 original size:13 final size:13
Alignment explanation
Indices: 125007--125091 Score: 63
Period size: 13 Copynumber: 6.5 Consensus size: 13
124997 TATAACCTTT
125007 TATTA-ATTAAT-
1 TATTATATTAATA
*
125018 TATTCAAATTAATA
1 TATT-ATATTAATA
125032 -ATTATATTAATA
1 TATTATATTAATA
125044 TATTATAATT-ATAA
1 TATTAT-ATTAAT-A
*
125058 TATAATATTAAATA
1 TATTATATT-AATA
*
125072 TATTA-ATAAAATA
1 TATTATAT-TAATA
125085 TATTATA
1 TATTATA
125092 ATTTATCATA
Statistics
Matches: 60, Mismatches: 4, Indels: 17
0.74 0.05 0.21
Matches are distributed among these distances:
11 4 0.07
12 9 0.15
13 30 0.50
14 15 0.25
15 2 0.03
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (13 bp):
TATTATATTAATA
Found at i:125053 original size:19 final size:19
Alignment explanation
Indices: 125029--125079 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
125019 ATTCAAATTA
125029 ATAATTATATTAATATATT
1 ATAATTATATTAATATATT
*
125048 ATAATTATAAT-ATAATATT
1 ATAATTATATTAAT-ATATT
125067 A-AA-TATATTAATA
1 ATAATTATATTAATA
125080 AAATATATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
17 6 0.21
18 6 0.21
19 16 0.57
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
ATAATTATATTAATATATT
Found at i:125140 original size:14 final size:14
Alignment explanation
Indices: 125123--125175 Score: 58
Period size: 14 Copynumber: 3.9 Consensus size: 14
125113 ATCTGAATAA
125123 TAATTAATTATATT
1 TAATTAATTATATT
*
125137 TAATTAATT-TAAGT
1 TAATTAATTAT-ATT
125151 TAATTAATTA-ATT
1 TAATTAATTATATT
125164 TATATT-ATTATA
1 TA-ATTAATTATA
125176 AAGTATAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
13 9 0.27
14 24 0.73
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (14 bp):
TAATTAATTATATT
Found at i:125228 original size:21 final size:20
Alignment explanation
Indices: 125204--125243 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
125194 AATATTAATT
*
125204 AATAATAATTATAATCTTTAA
1 AATAATAATAATAAT-TTTAA
125225 AATAATAATAATAATTTTA
1 AATAATAATAATAATTTTA
125244 TCCAATTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (20 bp):
AATAATAATAATAATTTTAA
Found at i:125362 original size:9 final size:10
Alignment explanation
Indices: 125348--125387 Score: 50
Period size: 9 Copynumber: 4.2 Consensus size: 10
125338 TAATTTATAA
125348 ATAAT-TATT
1 ATAATATATT
125357 ATAAT-TATT
1 ATAATATATT
125366 ATTAATATATT
1 A-TAATATATT
125377 -TAATATATT
1 ATAATATATT
125386 AT
1 AT
125388 TTGATAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
9 19 0.68
10 5 0.18
11 4 0.14
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (10 bp):
ATAATATATT
Found at i:125404 original size:29 final size:29
Alignment explanation
Indices: 125379--125432 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
125369 AATATATTTA
125379 ATAT-ATTAT-TTGATAAATATTAATATT
1 ATATAATTATATTGATAAATATTAATATT
* *
125406 ATATAATTATATTTATTAATATTAATA
1 ATATAATTATATTGATAAATATTAATA
125433 AAAAATATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 4 0.17
28 5 0.22
29 14 0.61
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (29 bp):
ATATAATTATATTGATAAATATTAATATT
Found at i:125440 original size:23 final size:23
Alignment explanation
Indices: 125396--125441 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
125386 ATTTGATAAA
**
125396 TATTAATATTATATAATTATATT
1 TATTAATATTATATAAAAATATT
125419 TATTAATATTA-ATAAAAAATATT
1 TATTAATATTATAT-AAAAATATT
125442 AATACTGATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 2 0.10
23 18 0.90
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (23 bp):
TATTAATATTATATAAAAATATT
Found at i:125515 original size:25 final size:25
Alignment explanation
Indices: 125474--125552 Score: 72
Period size: 25 Copynumber: 3.1 Consensus size: 25
125464 TTAATTACAA
125474 TAATTATTAATTTATAATTATAAAT
1 TAATTATTAATTTATAATTATAAAT
* *
125499 TAATT-TTTATTTAATAATTATATAT
1 TAATTATTAATTT-ATAATTATAAAT
* *
125524 TAAATA-TAATATATTTAATTATAATAT
1 TAATTATTAAT-T-TATAATTATAA-AT
125551 TA
1 TA
125553 TATAGTTATT
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
24 6 0.14
25 23 0.53
26 9 0.21
27 5 0.12
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (25 bp):
TAATTATTAATTTATAATTATAAAT
Found at i:125517 original size:18 final size:18
Alignment explanation
Indices: 125461--125548 Score: 51
Period size: 18 Copynumber: 4.8 Consensus size: 18
125451 TTATTATAAT
*
125461 TAATTAA-TTACAA-TAA
1 TAATTAATTTATAATTAA
*
125477 TTATTAATTTATAATT-A
1 TAATTAATTTATAATTAA
* *
125494 TAAATTAATTTTTATTTAA
1 T-AATTAATTTATAATTAA
125513 TAATTATATATTA-AATATAA
1 TAATTA-AT-TTATAAT-TAA
125533 TATATTTAA-TTATAAT
1 TA-A-TTAATTTATAAT
125549 ATTATATAGT
Statistics
Matches: 55, Mismatches: 7, Indels: 16
0.71 0.09 0.21
Matches are distributed among these distances:
16 6 0.11
17 7 0.13
18 18 0.33
19 9 0.16
20 10 0.18
21 2 0.04
22 3 0.05
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (18 bp):
TAATTAATTTATAATTAA
Found at i:125541 original size:15 final size:16
Alignment explanation
Indices: 125512--125555 Score: 54
Period size: 15 Copynumber: 2.7 Consensus size: 16
125502 TTTTTATTTA
125512 ATAATTATATATTAAAT
1 ATAA-TATATATTAAAT
*
125529 ATAATATAT-TTAATT
1 ATAATATATATTAAAT
125544 ATAATATTATAT
1 ATAATA-TATAT
125556 AGTTATTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 11 0.46
16 8 0.33
17 5 0.21
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
ATAATATATATTAAAT
Found at i:125657 original size:53 final size:52
Alignment explanation
Indices: 125505--125663 Score: 135
Period size: 53 Copynumber: 2.9 Consensus size: 52
125495 AAATTAATTT
* *
125505 TTATTTAATAATT-ATATATTA-AATATAATATATTTAATTATAATATTATATAG
1 TTATTTAAT-ATTAATA-ATTATAATATAATA-ATATAATTATATTATTATATAG
* * * *
125558 TTATTAAAAAATTAATAATTATGACTATTTATAATAATAGTTATTATATTCTTATATTAG
1 TTATT-TAATATTAATAATTAT-A--A--TATAATAATA-TAATTATATTATTATA-TAG
125618 CTTATTTAATATTAATAATTATAATATAATAA-ATAATTATATTATT
1 -TTATTTAATATTAATAATTATAATATAATAATATAATTATATTATT
125664 TAATTATTTA
Statistics
Matches: 85, Mismatches: 10, Indels: 22
0.73 0.09 0.19
Matches are distributed among these distances:
53 23 0.27
54 6 0.07
55 9 0.11
57 2 0.02
58 2 0.02
59 21 0.25
60 17 0.20
61 5 0.06
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.50
Consensus pattern (52 bp):
TTATTTAATATTAATAATTATAATATAATAATATAATTATATTATTATATAG
Found at i:125867 original size:18 final size:19
Alignment explanation
Indices: 125841--125891 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 19
125831 TTTGTTATTG
*
125841 TAAATTTATATAAATA-AT
1 TAAAATTATATAAATATAT
*
125859 TAAAATTAT-TAATTATAT
1 TAAAATTATATAAATATAT
*
125877 TAATATTA-ATAAATA
1 TAAAATTATATAAATA
125892 GTATAATTTG
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
17 5 0.19
18 22 0.81
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
TAAAATTATATAAATATAT
Found at i:129894 original size:174 final size:175
Alignment explanation
Indices: 129403--129913 Score: 467
Period size: 174 Copynumber: 2.9 Consensus size: 175
129393 CTAATAATCT
* * * * * * * * * * *
129403 AAAAATTAATTTGTTTACTAAATAA-TTTTAAATAATTATGACTATTTGAATAATTATTTATTTG
1 AAAAATAAATATGTTTACTGAACAAGTTTAAAATAGTGATGACCATTTAAATAATTATCTATTTC
* * * * * * ** * * *
129467 AAATCACTATAACCTTTTGTTTTGTCATAAAATAAAAATTTTTATTCATACAAGCTTATTTCGAA
66 AAATTACTATGACATTTTCTTTTGTAATAAAACAATTATTTCTATTCATACAAACTTA-TTCAAA
* *
129532 -TAAAATAATACAAATTTATTAATATTAAGACAGTTAATAAGTAAAAGATTTA
130 GTAAAATAATACTAATTTATTAATATT-------TTGATAAGTAAAAGATTTA
* * * * * * *
129584 AAAAATAAATTTGTTTACTGAACAAGTTTAAAATCGTTATGACTATTTAAGTAATTTTTTATTTC
1 AAAAATAAATATGTTTACTGAACAAGTTTAAAATAGTGATGACCATTTAAATAATTATCTATTTC
* * * * * * ** *
129649 AACTTGCTATGACTTTTTGTTTTGTCATAAAACAATTGTTTCTATTCATACAAGTTTATTCAAAT
66 AAATTACTATGACATTTTCTTTTGTAATAAAACAATTATTTCTATTCATACAAACTTATTCAAAG
*
129714 TAAAATAATATTAATTTATTAATATTTTGATAAGTAAAAGATTTA
131 TAAAATAATACTAATTTATTAATATTTTGATAAGTAAAAGATTTA
* *
129759 AAAAATAAATATGTTTA-TGGAATAAG-TTCAAATAGTGATGACCATTTAAATAATTATCTATTT
1 AAAAATAAATATGTTTACT-GAACAAGTTTAAAATAGTGATGACCATTTAAATAATTATCTATTT
* * *
129822 CAAATTATTATGACATTTTCTTTTGTAATAAAAGAATTATTTC-AGTTCATACAAACTTA-TCTG
65 CAAATTACTATGACATTTTCTTTTGTAATAAAACAATTATTTCTA-TTCATACAAACTTATTC-A
129885 AAGTAAAATAATACTAATTTATTAATATT
128 AAGTAAAATAATACTAATTTATTAATATT
129914 CTGAAAATTA
Statistics
Matches: 278, Mismatches: 47, Indels: 17
0.81 0.14 0.05
Matches are distributed among these distances:
173 3 0.01
174 105 0.38
175 40 0.14
181 27 0.10
182 103 0.37
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.43
Consensus pattern (175 bp):
AAAAATAAATATGTTTACTGAACAAGTTTAAAATAGTGATGACCATTTAAATAATTATCTATTTC
AAATTACTATGACATTTTCTTTTGTAATAAAACAATTATTTCTATTCATACAAACTTATTCAAAG
TAAAATAATACTAATTTATTAATATTTTGATAAGTAAAAGATTTA
Found at i:130016 original size:182 final size:176
Alignment explanation
Indices: 129403--130078 Score: 596
Period size: 182 Copynumber: 3.8 Consensus size: 176
129393 CTAATAATCT
* ** * * * * *
129403 AAAAATTAATTTGTTTACTAAATAATTTTAAATAATTATGACTATTTGAATAATTATTTATTTGA
1 AAAAATAAATTTGTTTACCGAATAAGTTTAAATATTTATGACTA-TTAAATAATTATCTATTTCA
* * * * ** *
129468 AATCACTATAACCTTTTGTTTTGTCATAAAATAAAAATTTTTATTCATACAAGCTTATTTCGAAT
65 AATTATTATGA-CTTTTGTTTTGTCATAAAACAATTATTTCTATTCATACAAGCTTA-TTCGAAT
* * *
129533 AAAATAATACAAATTTATTAATATTAAGACAGTTAATAAGTAAAAGATTTA
128 AAAATAATACTAATTTATTAATATTATGA-AATTAAT-AGTAAAAGATTTA
* * * * *
129584 AAAAATAAATTTGTTTACTGAACAAGTTTAAA-ATCGTTATGACTATTTAAGTAATTTTTTATTT
1 AAAAATAAATTTGTTTACCGAATAAGTTTAAATAT--TTATGACTA-TTAAATAATTATCTATTT
* ** * * *
129648 CAACTTGCTATGACTTTTTGTTTTGTCATAAAACAATTGTTTCTATTCATACAAGTTTATTCAAA
63 CAAATTATTATGAC-TTTTGTTTTGTCATAAAACAATTATTTCTATTCATACAAGCTTATTCGAA
* *
129713 TTAAAATAATATTAATTTATTAATATTTTG--A-T-A-AGTAAAAGATTTA
127 -TAAAATAATACTAATTTATTAATATTATGAAATTAATAGTAAAAGATTTA
* ** * * * *
129759 AAAAATAAATATGTTTATGGAATAAGTTCAAATAGTGATGACCATTTAAATAATTATCTATTTCA
1 AAAAATAAATTTGTTTACCGAATAAGTTTAAATATTTATGACTA-TTAAATAATTATCTATTTCA
* * * *
129824 AATTATTATGACATTTTCTTTTGTAATAAAAGAATTATTTC-AGTTCATACAAACTTA-TCTGAA
65 AATTATTATGAC-TTTTGTTTTGTCATAAAACAATTATTTCTA-TTCATACAAGCTTATTC-GAA
* * *
129887 GTAAAATAATACTAATTTATTAATATTCTGAAAATTAATGAGTAAGAGAATTA
127 -TAAAATAATACTAATTTATTAATATTATG-AAATTAAT-AGTAAAAGATTTA
* * * **
129940 AAAAAAAGAATTTGTTTACCGAATAAGTTTAAATATTTATGACTATCTGAACAATTATCTATCAC
1 AAAAATA-AATTTGTTTACCGAATAAGTTTAAATATTTATGACTAT-TAAATAATTATCTATTTC
* * **
130005 AAAATATTATGACTTTATGTTTTGTCATAAAACAATTGGTTT-TATTCATGTAAGCTTATTTCGA
64 AAATTATTATGACTTT-TGTTTTGTCATAAAACAATT-ATTTCTATTCATACAAGCTTA-TTCGA
*
130069 AAAAAATAAT
126 ATAAAATAAT
130079 TTATTAATTA
Statistics
Matches: 401, Mismatches: 73, Indels: 41
0.78 0.14 0.08
Matches are distributed among these distances:
173 3 0.01
174 99 0.25
175 40 0.10
176 1 0.00
177 2 0.00
178 2 0.00
179 1 0.00
180 1 0.00
181 55 0.14
182 188 0.47
183 7 0.02
184 2 0.00
ACGTcount: A:0.42, C:0.08, G:0.09, T:0.41
Consensus pattern (176 bp):
AAAAATAAATTTGTTTACCGAATAAGTTTAAATATTTATGACTATTAAATAATTATCTATTTCAA
ATTATTATGACTTTTGTTTTGTCATAAAACAATTATTTCTATTCATACAAGCTTATTCGAATAAA
ATAATACTAATTTATTAATATTATGAAATTAATAGTAAAAGATTTA
Found at i:130176 original size:24 final size:26
Alignment explanation
Indices: 130149--130214 Score: 73
Period size: 24 Copynumber: 2.6 Consensus size: 26
130139 TATTTACTAA
*
130149 ATTATAATATTATTATAATA-AT-TT
1 ATTATAATATTATAATAATACATATT
* *
130173 ATTATATTAATATAATAATACATATT
1 ATTATAATATTATAATAATACATATT
*
130199 ATTATTAATTTTATAA
1 ATTA-TAATATTATAA
130215 GATTTAGTAA
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
24 17 0.52
25 2 0.06
26 6 0.18
27 8 0.24
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (26 bp):
ATTATAATATTATAATAATACATATT
Found at i:130181 original size:29 final size:28
Alignment explanation
Indices: 130100--130181 Score: 78
Period size: 29 Copynumber: 2.9 Consensus size: 28
130090 TTTTATATCA
* *
130100 ATTATTAACTAA-TTATTATTATAATAAT
1 ATTATTAAATAATTTATTA-TATTATAAT
* *
130128 ATTTAATTAAAT-ATTTACTAAATTATAAT
1 A-TT-ATTAAATAATTTATTATATTATAAT
130157 ATTATTATAATAATTTATTATATTA
1 ATTATTA-AATAATTTATTATATTA
130182 ATATAATAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 9
0.74 0.10 0.16
Matches are distributed among these distances:
27 4 0.09
28 6 0.14
29 22 0.51
30 11 0.26
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.51
Consensus pattern (28 bp):
ATTATTAAATAATTTATTATATTATAAT
Found at i:130424 original size:15 final size:16
Alignment explanation
Indices: 130404--130441 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
130394 TAATAATATT
130404 TATAATTTAA-TTATA
1 TATAATTTAATTTATA
130419 TATAATTTAATTTATA
1 TATAATTTAATTTATA
130435 TATAATT
1 TATAATT
130442 ATTGGTATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 10 0.45
16 12 0.55
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TATAATTTAATTTATA
Found at i:130526 original size:15 final size:15
Alignment explanation
Indices: 130506--130541 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
130496 AAAGATAACT
*
130506 ATAATAAATTTAATA
1 ATAATAAATTAAATA
130521 ATAATAAATTAAATA
1 ATAATAAATTAAATA
*
130536 TTAATA
1 ATAATA
130542 TATAAATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
ATAATAAATTAAATA
Found at i:130580 original size:17 final size:16
Alignment explanation
Indices: 130560--130593 Score: 59
Period size: 17 Copynumber: 2.1 Consensus size: 16
130550 AATTTATATG
130560 AATAATTATTAGTTATT
1 AATAATTATTAG-TATT
130577 AATAATTATTAGTATT
1 AATAATTATTAGTATT
130593 A
1 A
130594 TTTATAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (16 bp):
AATAATTATTAGTATT
Found at i:130618 original size:39 final size:40
Alignment explanation
Indices: 130572--130686 Score: 103
Period size: 41 Copynumber: 2.8 Consensus size: 40
130562 TAATTATTAG
130572 TTATTAATAATTATTAGTATTATTTATAAATTATAAA-ATA
1 TTATTAATAATTATTA-TATTATTTATAAATTATAAATATA
* * *
130612 TT-TTAATTTATATATTA-ATAATTTATATAATAATAAATATA
1 TTATTAA-TAAT-TATTATATTATTTATA-AATTATAAATATA
*
130653 TTATATTATAATTATTA-ATTATTCATATAAATTA
1 TTAT-TAATAATTATTATATTATT--TATAAATTA
130687 ATTATAATTA
Statistics
Matches: 60, Mismatches: 7, Indels: 14
0.74 0.09 0.17
Matches are distributed among these distances:
39 13 0.22
40 13 0.22
41 20 0.33
42 8 0.13
43 6 0.10
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (40 bp):
TTATTAATAATTATTATATTATTTATAAATTATAAATATA
Found at i:130635 original size:15 final size:15
Alignment explanation
Indices: 130615--130665 Score: 59
Period size: 15 Copynumber: 3.3 Consensus size: 15
130605 TAAAATATTT
130615 TAATTTATATATTAA
1 TAATTTATATATTAA
*
130630 TAATTTATATAATAA
1 TAATTTATATATTAA
*
130645 TAAATATATTATATT-A
1 T-AATTTA-TATATTAA
130661 TAATT
1 TAATT
130666 ATTAATTATT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
15 18 0.60
16 7 0.23
17 5 0.17
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
TAATTTATATATTAA
Found at i:130710 original size:17 final size:17
Alignment explanation
Indices: 130690--130722 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
130680 TAAATTAATT
*
130690 ATAATTAAATATTTATC
1 ATAATTAAATACTTATC
130707 ATAATTAAATACTTAT
1 ATAATTAAATACTTAT
130723 TTAATGATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (17 bp):
ATAATTAAATACTTATC
Found at i:130789 original size:10 final size:12
Alignment explanation
Indices: 130764--130833 Score: 52
Period size: 12 Copynumber: 5.4 Consensus size: 12
130754 ATGTTATAAT
130764 AATATAATTATA
1 AATATAATTATA
130776 AATATAATTA-A
1 AATATAATTATA
* *
130787 ATATAGTACTTAAA
1 A-ATA-TAATTATA
130801 CAATAATTAATTATA
1 -AAT-A-TAATTATA
*
130816 AATATTATTATTA
1 AATATAATTA-TA
130829 AATAT
1 AATAT
130834 TTATTAATTA
Statistics
Matches: 47, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
11 2 0.04
12 18 0.38
13 13 0.28
14 6 0.13
15 8 0.17
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.41
Consensus pattern (12 bp):
AATATAATTATA
Found at i:130819 original size:30 final size:29
Alignment explanation
Indices: 130784--130852 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 29
130774 TAAATATAAT
130784 TAAATATAGTACTTAAACAATAATTAATTA
1 TAAATATAGTA-TTAAACAATAATTAATTA
* * * *
130814 TAAATATTATTATTAAATATTTATTAATTA
1 TAAATA-TAGTATTAAACAATAATTAATTA
130844 TAAACTATA
1 TAAA-TATA
130853 TTATAACTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
30 27 0.82
31 6 0.18
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.43
Consensus pattern (29 bp):
TAAATATAGTATTAAACAATAATTAATTA
Found at i:131051 original size:9 final size:9
Alignment explanation
Indices: 131031--131063 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
131021 TTCATATTAT
131031 TTATTAATAG
1 TTATT-ATAG
131041 TTATTATAG
1 TTATTATAG
131050 TTATTATAG
1 TTATTATAG
131059 -TATTA
1 TTATTA
131064 ATTTGAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 5 0.22
9 13 0.57
10 5 0.22
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (9 bp):
TTATTATAG
Found at i:132007 original size:9 final size:8
Alignment explanation
Indices: 131950--132091 Score: 65
Period size: 8 Copynumber: 16.8 Consensus size: 8
131940 AAAATTTATG
131950 AAAAATAA
1 AAAAATAA
* *
131958 ATAAAGAA
1 AAAAATAA
*
131966 AGAAAT-A
1 AAAAATAA
131973 AAAAATAA
1 AAAAATAA
131981 AATAAATAA
1 AA-AAATAA
* *
131990 AATAAGAA
1 AAAAATAA
131998 AAAAATGAA
1 AAAAAT-AA
*
132007 AGCAAAACAA
1 A--AAAATAA
132017 AAAAGATAA
1 AAAA-ATAA
*
132026 ATAAAGTACAA
1 A-AAA--ATAA
*
132037 AAAAAGGAA
1 AAAAA-TAA
132046 AAAAATCAA
1 AAAAAT-AA
**
132055 TACCAAT-A
1 -AAAAATAA
132063 AAAAAT-A
1 AAAAATAA
132070 AAAAATAA
1 AAAAATAA
*
132078 AAAAAGAA
1 AAAAATAA
132086 AAAAAT
1 AAAAAT
132092 TGAATAAAAT
Statistics
Matches: 101, Mismatches: 21, Indels: 24
0.69 0.14 0.16
Matches are distributed among these distances:
7 17 0.17
8 39 0.39
9 24 0.24
10 13 0.13
11 8 0.08
ACGTcount: A:0.77, C:0.04, G:0.07, T:0.12
Consensus pattern (8 bp):
AAAAATAA
Found at i:132076 original size:48 final size:48
Alignment explanation
Indices: 131968--132087 Score: 115
Period size: 48 Copynumber: 2.5 Consensus size: 48
131958 ATAAAGAAAG
* *
131968 AAATAAAAAATAAAATAAATAAAATAAGAAAAAAATGAAAGCAAAACA
1 AAATAAAAAATAAAATAAATAAAATAAGAAAAAAATCAAACCAAAACA
* *
132016 AAA-AAGATAAATAAAGTACAA-AAAA-AGGAAAAAAATCAATACCAATAA-A
1 AAATAA-A-AAATAAAATA-AATAAAATAAGAAAAAAATCAA-ACCAA-AACA
*
132065 AAATAAAAAATAAAA-AAAGAAAA
1 AAATAAAAAATAAAATAAATAAAA
132088 AAATTGAATA
Statistics
Matches: 60, Mismatches: 5, Indels: 15
0.75 0.06 0.19
Matches are distributed among these distances:
46 2 0.03
47 7 0.12
48 23 0.38
49 22 0.37
50 6 0.10
ACGTcount: A:0.77, C:0.05, G:0.07, T:0.12
Consensus pattern (48 bp):
AAATAAAAAATAAAATAAATAAAATAAGAAAAAAATCAAACCAAAACA
Found at i:132563 original size:24 final size:22
Alignment explanation
Indices: 132536--132591 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 22
132526 ACAAAGACAA
132536 AAAAAAAT-AAGAAAATGAGAAAAT
1 AAAAAAATCAA-AAAAT-A-AAAAT
132560 AAAAAAGATTCAAAAAATAAAAAT
1 AAAAAA-A-TCAAAAAATAAAAAT
132584 AAAAAAAT
1 AAAAAAAT
132592 TTTGAAGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
22 1 0.03
23 1 0.03
24 17 0.59
25 2 0.07
26 6 0.21
27 2 0.07
ACGTcount: A:0.77, C:0.02, G:0.07, T:0.14
Consensus pattern (22 bp):
AAAAAAATCAAAAAATAAAAAT
Found at i:132629 original size:11 final size:11
Alignment explanation
Indices: 132615--132672 Score: 59
Period size: 11 Copynumber: 5.3 Consensus size: 11
132605 AAATTTTTTT
132615 AAAAATAAATA
1 AAAAATAAATA
132626 AAAAATAAA-A
1 AAAAATAAATA
132636 GAAAAATAAATTA
1 -AAAAATAAA-TA
132649 AAAGAA-AAATA
1 AAA-AATAAATA
*
132660 AAATA-AAATA
1 AAAAATAAATA
132670 AAA
1 AAA
132673 TACTAAAAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
10 10 0.24
11 23 0.55
12 6 0.14
13 3 0.07
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.16
Consensus pattern (11 bp):
AAAAATAAATA
Found at i:132635 original size:16 final size:16
Alignment explanation
Indices: 132617--132690 Score: 57
Period size: 16 Copynumber: 4.6 Consensus size: 16
132607 ATTTTTTTAA
*
132617 AAATAAATAA-AAAAT
1 AAATAAAAAATAAAAT
*
132632 AAA-AGAAAAATAAATT
1 AAATA-AAAAATAAAAT
132648 AAA-AGAAAAATAAAAT
1 AAATA-AAAAATAAAAT
*
132664 AAAATAAAATACTAAAA-
1 -AAATAAAA-AATAAAAT
132681 AAATAAAAAA
1 AAATAAAAAA
132691 GGTATGAAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 10
0.77 0.08 0.16
Matches are distributed among these distances:
14 1 0.02
15 8 0.16
16 27 0.55
17 6 0.12
18 7 0.14
ACGTcount: A:0.80, C:0.01, G:0.03, T:0.16
Consensus pattern (16 bp):
AAATAAAAAATAAAAT
Found at i:132662 original size:5 final size:5
Alignment explanation
Indices: 132616--132688 Score: 58
Period size: 5 Copynumber: 13.8 Consensus size: 5
132606 AATTTTTTTA
* * * *
132616 AAAAT AAATAA AAAAT AAAAGA AAAAT AAATT AAAAGA AAAAT AAAAT
1 AAAAT AAA-AT AAAAT AAAA-T AAAAT AAAAT AAAA-T AAAAT AAAAT
132664 AAAAT AAAAT ACTAAA- AAAAT AAAA
1 AAAAT AAAAT A--AAAT AAAAT AAAA
132689 AAGGTATGAA
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
4 3 0.06
5 35 0.65
6 13 0.24
7 3 0.06
ACGTcount: A:0.79, C:0.01, G:0.03, T:0.16
Consensus pattern (5 bp):
AAAAT
Found at i:133029 original size:14 final size:15
Alignment explanation
Indices: 133010--133042 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
133000 CAAATAAGTT
133010 AAAAGAAA-AAGAAA
1 AAAAGAAAGAAGAAA
133024 AAAAGAAAGAAGAAA
1 AAAAGAAAGAAGAAA
133039 AAAA
1 AAAA
133043 AGAATTATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (15 bp):
AAAAGAAAGAAGAAA
Found at i:133186 original size:8 final size:8
Alignment explanation
Indices: 133175--133352 Score: 58
Period size: 9 Copynumber: 20.1 Consensus size: 8
133165 TAAATTTTTT
133175 ATAAAAAA
1 ATAAAAAA
133183 ATAACAAAA
1 ATAA-AAAA
* *
133192 AT-TAACA
1 ATAAAAAA
133199 ATAAAAAA
1 ATAAAAAA
133207 A-AAGAAAA
1 ATAA-AAAA
133215 ATGTAAAATAA
1 A--TAAAA-AA
133226 ATAATAAAA
1 ATAA-AAAA
*
133235 A-ACACAAA
1 ATA-AAAAA
133243 ATAAAAAA
1 ATAAAAAA
133251 A-AGAAAGAA
1 ATA-AAA-AA
*
133260 ATGAAAAA
1 ATAAAAAA
133268 ATGAATCAGAAA
1 AT-AA--A-AAA
133280 ATTTAAAAAA
1 A--TAAAAAA
133290 ACTACAAAAA
1 A-TA-AAAAA
*
133300 CTAAAAAAA
1 AT-AAAAAA
*
133309 ATGAAAAA
1 ATAAAAAA
133317 ATGAAAAAA
1 AT-AAAAAA
*
133326 ATGAGAAAA
1 AT-AAAAAA
* *
133335 ATGACAAA
1 ATAAAAAA
133343 ATAGAAAAA
1 ATA-AAAAA
133352 A
1 A
133353 ATTTAGTTTA
Statistics
Matches: 128, Mismatches: 19, Indels: 45
0.67 0.10 0.23
Matches are distributed among these distances:
7 8 0.06
8 42 0.33
9 50 0.39
10 14 0.11
11 7 0.05
12 4 0.03
13 2 0.02
14 1 0.01
ACGTcount: A:0.74, C:0.05, G:0.07, T:0.13
Consensus pattern (8 bp):
ATAAAAAA
Found at i:133214 original size:23 final size:24
Alignment explanation
Indices: 133175--133226 Score: 72
Period size: 23 Copynumber: 2.2 Consensus size: 24
133165 TAAATTTTTT
133175 ATAAAAAAATAACAAAAAT-TAACA
1 ATAAAAAAATAACAAAAATGTAA-A
*
133199 ATAAAAAAA-AAGAAAAATGTAAA
1 ATAAAAAAATAACAAAAATGTAAA
133222 ATAAA
1 ATAAA
133227 TAATAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 14 0.54
24 12 0.46
ACGTcount: A:0.77, C:0.04, G:0.04, T:0.15
Consensus pattern (24 bp):
ATAAAAAAATAACAAAAATGTAAA
Found at i:133315 original size:7 final size:8
Alignment explanation
Indices: 133304--133352 Score: 62
Period size: 9 Copynumber: 5.8 Consensus size: 8
133294 CAAAAACTAA
133304 AAAAAATG
1 AAAAAATG
133312 AAAAAATG
1 AAAAAATG
133320 AAAAAAATG
1 -AAAAAATG
133329 AGAAAAATG
1 A-AAAAATG
*
133338 ACAAAATAG
1 AAAAAAT-G
133347 AAAAAA
1 AAAAAA
133353 ATTTAGTTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
8 14 0.39
9 22 0.61
ACGTcount: A:0.76, C:0.02, G:0.12, T:0.10
Consensus pattern (8 bp):
AAAAAATG
Found at i:133315 original size:17 final size:17
Alignment explanation
Indices: 133201--133336 Score: 64
Period size: 18 Copynumber: 7.4 Consensus size: 17
133191 AATTAACAAT
133201 AAAAAA-AAAGAAAAATG
1 AAAAAATAAA-AAAAATG
*
133218 TAAAATAAATAATAAAAAA-C
1 --AAA-AAATAA-AAAAAATG
*
133238 ACAAAATAAAAAAAA-G
1 AAAAAATAAAAAAAATG
133254 AAAGAAATGAAAAAATGAATCAG
1 AAA-AAAT-AAAAAA--AAT--G
** *
133277 AAAATTTAAAAAAACT-
1 AAAAAATAAAAAAAATG
133293 ACAAAAACTAAAAAAAATG
1 A-AAAAA-TAAAAAAAATG
*
133312 AAAAAATGAAAAAAATG
1 AAAAAATAAAAAAAATG
133329 AGAAAAAT
1 A-AAAAAT
133337 GACAAAATAG
Statistics
Matches: 92, Mismatches: 11, Indels: 29
0.70 0.08 0.22
Matches are distributed among these distances:
16 9 0.10
17 24 0.26
18 28 0.30
19 6 0.07
20 5 0.05
21 13 0.14
22 3 0.03
23 4 0.04
ACGTcount: A:0.74, C:0.04, G:0.08, T:0.13
Consensus pattern (17 bp):
AAAAAATAAAAAAAATG
Found at i:133352 original size:18 final size:18
Alignment explanation
Indices: 133240--133354 Score: 69
Period size: 17 Copynumber: 6.3 Consensus size: 18
133230 TAAAAAACAC
*
133240 AAAAT-AAAAAAAAGAAA
1 AAAATGAAAAAAATGAAA
*
133257 GAAATG-AAAAAATGAATCA
1 AAAATGAAAAAAATGAA--A
*
133276 GAAAATTTAAAAAAACT-ACAA
1 -AAAA-TGAAAAAAA-TGA-AA
* *
133297 AAACTAAAAAAAATG-AA
1 AAAATGAAAAAAATGAAA
*
133314 AAAATGAAAAAAATGAGA
1 AAAATGAAAAAAATGAAA
*
133332 AAAATG-ACAAAATAGAAA
1 AAAATGAAAAAAAT-GAAA
133350 AAAAT
1 AAAAT
133355 TTAGTTTATA
Statistics
Matches: 76, Mismatches: 11, Indels: 21
0.70 0.10 0.19
Matches are distributed among these distances:
17 34 0.45
18 16 0.21
19 9 0.12
20 6 0.08
21 2 0.03
22 7 0.09
23 2 0.03
ACGTcount: A:0.73, C:0.04, G:0.10, T:0.13
Consensus pattern (18 bp):
AAAATGAAAAAAATGAAA
Found at i:133394 original size:19 final size:19
Alignment explanation
Indices: 133372--133408 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
133362 ATAAAATACA
133372 AACAAAAAATAAAAAATAT
1 AACAAAAAATAAAAAATAT
* *
133391 AACAAATAATAAGAAATA
1 AACAAAAAATAAAAAATA
133409 AAGATATAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.76, C:0.05, G:0.03, T:0.16
Consensus pattern (19 bp):
AACAAAAAATAAAAAATAT
Found at i:133429 original size:16 final size:15
Alignment explanation
Indices: 133399--133440 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
133389 ATAACAAATA
*
133399 ATAAGAAATAAAGAT
1 ATAAAAAATAAAGAT
133414 ATAAAAAATCAAAGAT
1 ATAAAAAAT-AAAGAT
*
133430 A-AAAAATTAAA
1 ATAAAAAATAAA
133441 AGAAGAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 3 0.12
15 14 0.58
16 7 0.29
ACGTcount: A:0.71, C:0.02, G:0.07, T:0.19
Consensus pattern (15 bp):
ATAAAAAATAAAGAT
Found at i:133827 original size:26 final size:23
Alignment explanation
Indices: 133811--133855 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
133801 AAAATGCATA
133811 AAAATAAAAAAAAAAGAAAAAGCT
1 AAAA-AAAAAAAAAAGAAAAAGCT
*
133835 AAAAAAAAAGAAAAGAAAAAG
1 AAAAAAAAAAAAAAGAAAAAG
133856 GAAGTAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.82, C:0.02, G:0.11, T:0.04
Consensus pattern (23 bp):
AAAAAAAAAAAAAAGAAAAAGCT
Done.