Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167904.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_17, 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: 21107920
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Warning! 100000 characters in sequence are not A, C, G, or T
File 83 of 121
Found at i:14138303 original size:20 final size:21
Alignment explanation
Indices: 14138267--14138305 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
14138257 TTCAGTCAAT
*
14138267 TTGTTGCCCACTTTCTTTTCA
1 TTGTTCCCCACTTTCTTTTCA
14138288 TTGTTCCCCA-TTTCTTTT
1 TTGTTCCCCACTTTCTTTT
14138306 GCGGCGAGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.08, C:0.28, G:0.08, T:0.56
Consensus pattern (21 bp):
TTGTTCCCCACTTTCTTTTCA
Found at i:14143605 original size:15 final size:15
Alignment explanation
Indices: 14143585--14143616 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
14143575 GAATTACAGC
14143585 ACCGGTTACATTTTT
1 ACCGGTTACATTTTT
14143600 ACCGGTTACATTTTT
1 ACCGGTTACATTTTT
14143615 AC
1 AC
14143617 TAGTAGCTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.22, C:0.22, G:0.12, T:0.44
Consensus pattern (15 bp):
ACCGGTTACATTTTT
Found at i:14145119 original size:14 final size:14
Alignment explanation
Indices: 14145086--14145124 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
14145076 TATAATTACA
*
14145086 ATTAAAAAATTTTT
1 ATTAAAAAATTTAT
*
14145100 AATAAAAAATTTAT
1 ATTAAAAAATTTAT
14145114 ATTAAATAAAT
1 ATTAAA-AAAT
14145125 ATAAAAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 17 0.81
15 4 0.19
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
ATTAAAAAATTTAT
Found at i:14153324 original size:14 final size:15
Alignment explanation
Indices: 14153300--14153328 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
14153290 CATCAATTAT
14153300 AAAAGTTTCTCATCC
1 AAAAGTTTCTCATCC
14153315 AAAA-TTTCTCATCC
1 AAAAGTTTCTCATCC
14153329 TTTTGGATGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.34, C:0.28, G:0.03, T:0.34
Consensus pattern (15 bp):
AAAAGTTTCTCATCC
Found at i:14155461 original size:28 final size:28
Alignment explanation
Indices: 14155419--14155477 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
14155409 GAGCCCATGA
*
14155419 CCTAGAAGCCCATCAAAATTGGTTCATT
1 CCTAGAAGCCCATCAAAATTGGTCCATT
* * *
14155447 CCTATAAGCCTATCAAAGTTGGTCCATT
1 CCTAGAAGCCCATCAAAATTGGTCCATT
14155475 CCT
1 CCT
14155478 GGCTTAGATT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.31
Consensus pattern (28 bp):
CCTAGAAGCCCATCAAAATTGGTCCATT
Found at i:14155611 original size:22 final size:23
Alignment explanation
Indices: 14155569--14155611 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
14155559 TCTTTTTTTT
*
14155569 TCTTTTGTCATATATTTTATGAG
1 TCTTTAGTCATATATTTTATGAG
*
14155592 TCTTTAGTCAT-TTTTTTATG
1 TCTTTAGTCATATATTTTATG
14155612 CTTGTTATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.19, C:0.09, G:0.12, T:0.60
Consensus pattern (23 bp):
TCTTTAGTCATATATTTTATGAG
Found at i:14156325 original size:8 final size:8
Alignment explanation
Indices: 14156314--14156518 Score: 61
Period size: 8 Copynumber: 25.9 Consensus size: 8
14156304 GAAAAATTCC
14156314 AAAACCTT
1 AAAACCTT
**
14156322 AAAACTCCA
1 AAAAC-CTT
*
14156331 AAAACCCT
1 AAAACCTT
* *
14156339 AAAATCTC
1 AAAACCTT
*
14156347 GAAACCTT
1 AAAACCTT
*
14156355 AAAA-CTC
1 AAAACCTT
* **
14156362 GAAATTTT
1 AAAACCTT
* *
14156370 AAAATCTC
1 AAAACCTT
14156378 AAAACC-T
1 AAAACCTT
*
14156385 AAAA-ATT
1 AAAACCTT
14156392 CAAAACCCTT
1 -AAAA-CCTT
14156402 AAAACCTT
1 AAAACCTT
14156410 AAAATCC--
1 AAAA-CCTT
*
14156417 AAAACCCT
1 AAAACCTT
*
14156425 AAAACTTT
1 AAAACCTT
*
14156433 CAAACCTT
1 AAAACCTT
14156441 AAAATCC--
1 AAAA-CCTT
14156448 AAAACCTT
1 AAAACCTT
14156456 AAAA-CTT
1 AAAACCTT
* *
14156463 CCAAACCCT
1 -AAAACCTT
14156472 AAAA--TAT
1 AAAACCT-T
*
14156479 AAAACCCT
1 AAAACCTT
*
14156487 AAAACCCTC
1 AAAA-CCTT
*
14156496 AAAACATT
1 AAAACCTT
* *
14156504 ATAATCTT
1 AAAACCTT
14156512 AAAACCT
1 AAAACCT
14156519 CGAGACCCTA
Statistics
Matches: 139, Mismatches: 40, Indels: 36
0.65 0.19 0.17
Matches are distributed among these distances:
6 4 0.03
7 26 0.19
8 85 0.61
9 22 0.16
10 2 0.01
ACGTcount: A:0.50, C:0.26, G:0.01, T:0.22
Consensus pattern (8 bp):
AAAACCTT
Found at i:14156334 original size:17 final size:17
Alignment explanation
Indices: 14156313--14156518 Score: 91
Period size: 15 Copynumber: 13.5 Consensus size: 17
14156303 AGAAAAATTC
14156313 CAAAACCTTAAAACTC-
1 CAAAACCTTAAAACTCT
*
14156329 CAAAAACCCTAAAA-TCT
1 C-AAAACCTTAAAACTCT
*
14156346 CGAAACCTTAAAA--CT
1 CAAAACCTTAAAACTCT
* **
14156361 CGAAATTTTAAAA-TCT
1 CAAAACCTTAAAACTCT
*
14156377 CAAAACC-TAAAAAT-T
1 CAAAACCTTAAAACTCT
14156392 CAAAACC------CT-T
1 CAAAACCTTAAAACTCT
14156402 -AAAACCTTAAAA-TC-
1 CAAAACCTTAAAACTCT
* *
14156416 CAAAACCCTAAAACTTT
1 CAAAACCTTAAAACTCT
14156433 C-AAACCTTAAAA-TC-
1 CAAAACCTTAAAACTCT
14156447 CAAAACCTTAAAACT-T
1 CAAAACCTTAAAACTCT
* * *
14156463 CCAAACCCTAAAA-TAT
1 CAAAACCTTAAAACTCT
* *
14156479 -AAAACCCTAAAACCCT
1 CAAAACCTTAAAACTCT
* *
14156495 CAAAACATTATAA-TCT
1 CAAAACCTTAAAACTCT
*
14156511 TAAAACCT
1 CAAAACCT
14156519 CGAGACCCTA
Statistics
Matches: 146, Mismatches: 24, Indels: 40
0.70 0.11 0.19
Matches are distributed among these distances:
9 6 0.04
10 2 0.01
14 2 0.01
15 61 0.42
16 53 0.36
17 22 0.15
ACGTcount: A:0.50, C:0.27, G:0.01, T:0.22
Consensus pattern (17 bp):
CAAAACCTTAAAACTCT
Found at i:14156405 original size:24 final size:23
Alignment explanation
Indices: 14156378--14156429 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 23
14156368 TTAAAATCTC
*
14156378 AAAACCTAAAAATTCAAAACCCTT
1 AAAACCTAAAAATCCAAAACCC-T
*
14156402 AAAACCTTAAAATCCAAAACCCT
1 AAAACCTAAAAATCCAAAACCCT
14156425 AAAAC
1 AAAAC
14156430 TTTCAAACCT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
23 6 0.23
24 20 0.77
ACGTcount: A:0.56, C:0.27, G:0.00, T:0.17
Consensus pattern (23 bp):
AAAACCTAAAAATCCAAAACCCT
Found at i:14156438 original size:31 final size:31
Alignment explanation
Indices: 14156403--14156491 Score: 133
Period size: 31 Copynumber: 2.9 Consensus size: 31
14156393 AAAACCCTTA
*
14156403 AAACCTTAAAATCCAAAACCCTAAAACTTTC
1 AAACCTTAAAATCCAAAACCCTAAAACTTCC
*
14156434 AAACCTTAAAATCCAAAACCTTAAAACTTCC
1 AAACCTTAAAATCCAAAACCCTAAAACTTCC
* **
14156465 AAACCCTAAAATATAAAACCCTAAAAC
1 AAACCTTAAAATCCAAAACCCTAAAAC
14156492 CCTCAAAACA
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 52 1.00
ACGTcount: A:0.52, C:0.28, G:0.00, T:0.20
Consensus pattern (31 bp):
AAACCTTAAAATCCAAAACCCTAAAACTTCC
Found at i:14156686 original size:16 final size:16
Alignment explanation
Indices: 14156660--14156699 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
14156650 TCCAAATCCA
*
14156660 AAAACCTTCAAAATCTT
1 AAAACC-TCAAAAGCTT
*
14156677 GAAACCTCAAAAGCTT
1 AAAACCTCAAAAGCTT
14156693 AAAACCT
1 AAAACCT
14156700 TAGAATGCTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 15 0.75
17 5 0.25
ACGTcount: A:0.47, C:0.25, G:0.05, T:0.23
Consensus pattern (16 bp):
AAAACCTCAAAAGCTT
Found at i:14159068 original size:20 final size:20
Alignment explanation
Indices: 14159043--14159088 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
14159033 AAAGTCTATT
*
14159043 AAAAGAAAAACAACAAAAAA
1 AAAAGAAAAACAAAAAAAAA
* *
14159063 AAAAGAATAGCAAAAAAAAA
1 AAAAGAAAAACAAAAAAAAA
14159083 AAAAGA
1 AAAAGA
14159089 GCAAAAAGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.83, C:0.07, G:0.09, T:0.02
Consensus pattern (20 bp):
AAAAGAAAAACAAAAAAAAA
Found at i:14159091 original size:17 final size:17
Alignment explanation
Indices: 14159056--14159102 Score: 67
Period size: 17 Copynumber: 2.7 Consensus size: 17
14159046 AGAAAAACAA
* *
14159056 CAAAAAAAAAAGAATAG
1 CAAAAAAAAAAAAAGAG
14159073 CAAAAAAAAAAAAAGAG
1 CAAAAAAAAAAAAAGAG
14159090 CAAAAAGAAAAAA
1 CAAAAA-AAAAAA
14159103 TGAAGTTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 21 0.78
18 6 0.22
ACGTcount: A:0.81, C:0.06, G:0.11, T:0.02
Consensus pattern (17 bp):
CAAAAAAAAAAAAAGAG
Found at i:14159479 original size:23 final size:23
Alignment explanation
Indices: 14159324--14159506 Score: 113
Period size: 22 Copynumber: 8.1 Consensus size: 23
14159314 TGAGATTTAT
* * *
14159324 GCCCAGATTAGCTGGCACTT-AA
1 GCCCAGATTAGTTAGCATTTCAA
* *
14159346 GACCAGATTAGCTAGCATTT-AA
1 GCCCAGATTAGTTAGCATTTCAA
* * ** *
14159368 GCCTATATTAGTTAGCA-CCCAT
1 GCCCAGATTAGTTAGCATTTCAA
* * *
14159390 GTCCATATTAGTTAGCATATCAA
1 GCCCAGATTAGTTAGCATTTCAA
* * **
14159413 GCCCAAATTAGTTGGCA-CCCAA
1 GCCCAGATTAGTTAGCATTTCAA
* * * *
14159435 ACCTAGGTTATTTAGCATTTCAA
1 GCCCAGATTAGTTAGCATTTCAA
*
14159458 GCCCAGATTAGTTGGCATTTCAA
1 GCCCAGATTAGTTAGCATTTCAA
* * *
14159481 GCCCAAATTAGTTGGCATTTTAA
1 GCCCAGATTAGTTAGCATTTCAA
14159504 GCC
1 GCC
14159507 TAATTCAGTT
Statistics
Matches: 123, Mismatches: 35, Indels: 5
0.75 0.21 0.03
Matches are distributed among these distances:
22 62 0.50
23 61 0.50
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (23 bp):
GCCCAGATTAGTTAGCATTTCAA
Found at i:14159516 original size:23 final size:22
Alignment explanation
Indices: 14159396--14159517 Score: 84
Period size: 23 Copynumber: 5.4 Consensus size: 22
14159386 CCATGTCCAT
* *
14159396 ATTAGTTAGCATATCAAGCCCAA
1 ATTAGTTGGCATTTCAAG-CCAA
** * *
14159419 ATTAGTTGGCA-CCCAAACCTAG
1 ATTAGTTGGCATTTCAAGCC-AA
* * * *
14159441 GTTATTTAGCATTTCAAGCCCAG
1 ATTAGTTGGCATTTCAAG-CCAA
14159464 ATTAGTTGGCATTTCAAGCCCAA
1 ATTAGTTGGCATTTCAAG-CCAA
* *
14159487 ATTAGTTGGCATTTTAAGCCTA
1 ATTAGTTGGCATTTCAAGCCAA
14159509 ATTCAGTTG
1 ATT-AGTTG
14159518 AAACCCAAGT
Statistics
Matches: 78, Mismatches: 17, Indels: 8
0.76 0.17 0.08
Matches are distributed among these distances:
21 2 0.03
22 18 0.23
23 56 0.72
24 2 0.03
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.32
Consensus pattern (22 bp):
ATTAGTTGGCATTTCAAGCCAA
Found at i:14159615 original size:22 final size:23
Alignment explanation
Indices: 14159587--14159629 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
14159577 TTTTCTTCAA
*
14159587 AGATTTC-TCAGTGGTGATATGG
1 AGATTTCTTCAATGGTGATATGG
14159609 AGATTTCTTCAATGGTGATAT
1 AGATTTCTTCAATGGTGATAT
14159630 TCGAGTTTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.26, C:0.09, G:0.26, T:0.40
Consensus pattern (23 bp):
AGATTTCTTCAATGGTGATATGG
Found at i:14159638 original size:23 final size:23
Alignment explanation
Indices: 14159587--14159640 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
14159577 TTTTCTTCAA
* *
14159587 AGATTTC-TCAGTGGTGATATGG
1 AGATTTCTTCAATGGTGATATCG
14159609 AGATTTCTTCAATGGTGATATTCG
1 AGATTTCTTCAATGGTGATA-TCG
14159633 AG-TTTCTT
1 AGATTTCTT
14159641 TCTATAATGA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 7 0.25
23 17 0.61
24 4 0.14
ACGTcount: A:0.22, C:0.11, G:0.24, T:0.43
Consensus pattern (23 bp):
AGATTTCTTCAATGGTGATATCG
Found at i:14160352 original size:35 final size:34
Alignment explanation
Indices: 14160265--14160403 Score: 108
Period size: 35 Copynumber: 4.0 Consensus size: 34
14160255 TTTCATTTTT
* * * *
14160265 TGACTTTTGATTTAGTCTCGATCGTC-TTTATTCTT
1 TGACTTGTGGTTTAATCTC-ATCGTCTTTTATT-TC
* * *
14160300 TGACTTATGGCTCAATCTCGATCGTCTTTTATTTC
1 TGACTTGTGGTTTAATCTC-ATCGTCTTTTATTTC
*
14160335 TGACTTGTGGTTTAATCT--TGGTCATTTTACTCTTC
1 TGACTTGTGGTTTAATCTCATCGTC-TTTTA-T-TTC
14160370 -GACTTGTGGTTTAATCTCAGTCGT-TTTTATTTC
1 TGACTTGTGGTTTAATCTCA-TCGTCTTTTATTTC
14160403 T
1 T
14160404 TGATTAACGA
Statistics
Matches: 85, Mismatches: 11, Indels: 17
0.75 0.10 0.15
Matches are distributed among these distances:
32 4 0.05
33 8 0.09
34 19 0.22
35 45 0.53
36 6 0.07
37 3 0.04
ACGTcount: A:0.15, C:0.18, G:0.16, T:0.51
Consensus pattern (34 bp):
TGACTTGTGGTTTAATCTCATCGTCTTTTATTTC
Found at i:14160490 original size:35 final size:35
Alignment explanation
Indices: 14160450--14160687 Score: 137
Period size: 35 Copynumber: 6.9 Consensus size: 35
14160440 AACTTGCAGC
14160450 TCAATCTCAGTCATTTTTATTTTTTGACTTATAGT
1 TCAATCTCAGTCATTTTTATTTTTTGACTTATAGT
* * * * **
14160485 TCAATCT-TGATCATTTTCATTTTCTAACTTGCAGT
1 TCAATCTCAG-TCATTTTTATTTTTTGACTTATAGT
* * * *
14160520 TCAGTCTCAGTCATCTTTATTCTTTGACTTATGGT
1 TCAATCTCAGTCATTTTTATTTTTTGACTTATAGT
* * *
14160555 TCAATCAT-AGTC-GTCTTA-TTTTTGACTAATAGT
1 TCAATC-TCAGTCATTTTTATTTTTTGACTTATAGT
* * * ** **
14160588 TCAATCCCAGCCA-TCTTGCTTTTCAACTTATAGT
1 TCAATCTCAGTCATTTTTATTTTTTGACTTATAGT
* * * * * *
14160622 TCAATTTCAGTCGTTTTCATTTTCTGA-TTATGGC
1 TCAATCTCAGTCATTTTTATTTTTTGACTTATAGT
* * * * *
14160656 TCAGTCTCACTCATCTTTATTCTTCGACTTAT
1 TCAATCTCAGTCATTTTTATTTTTTGACTTAT
14160688 GATTCAGTCC
Statistics
Matches: 144, Mismatches: 51, Indels: 16
0.68 0.24 0.08
Matches are distributed among these distances:
33 25 0.17
34 48 0.33
35 69 0.48
36 2 0.01
ACGTcount: A:0.21, C:0.21, G:0.11, T:0.47
Consensus pattern (35 bp):
TCAATCTCAGTCATTTTTATTTTTTGACTTATAGT
Found at i:14160753 original size:136 final size:135
Alignment explanation
Indices: 14160471--14160719 Score: 322
Period size: 136 Copynumber: 1.8 Consensus size: 135
14160461 CATTTTTATT
* * *
14160471 TTTTGACTTATAGTTCAATCTTGATCATTTTCATTTTCTAACTTGCAGTTCAGTCTCAGTCATCT
1 TTTTGACTTATAGTTCAATCTTCATCATTTTCATTTTCTAACTTG-AGCTCAGTCTCACTCATCT
* * *
14160536 TTATTCTTTGACTTATGGTTCAATCATAGTCGTCTTATTTTTGACTAATAGTTCAATCCCAGCCA
65 TTATTCTTCGACTTATGATTCAATCATAGTCGTCTTATTTCTGACTAATAGTTCAATCCCAGCCA
14160601 TCTTGC
130 TCTTGC
* * * *
14160607 TTTTCAACTTATAGTTCAAT-TTCAGTCGTTTTCATTTTCTGATTATG-GCTCAGTCTCACTCAT
1 TTTT-GACTTATAGTTCAATCTTCA-TCATTTTCATTTTCTAACT-TGAGCTCAGTCTCACTCAT
* * *
14160670 CTTTATTCTTCGACTTATGATTCAGTCCTGGTCGTCTTTATTTCTGACTA
63 CTTTATTCTTCGACTTATGATTCAATCATAGTCGTC-TTATTTCTGACTA
14160720 TGATTTAGTC
Statistics
Matches: 96, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
136 52 0.54
137 42 0.44
138 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.12, T:0.47
Consensus pattern (135 bp):
TTTTGACTTATAGTTCAATCTTCATCATTTTCATTTTCTAACTTGAGCTCAGTCTCACTCATCTT
TATTCTTCGACTTATGATTCAATCATAGTCGTCTTATTTCTGACTAATAGTTCAATCCCAGCCAT
CTTGC
Found at i:14161089 original size:21 final size:21
Alignment explanation
Indices: 14161065--14161105 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
14161055 AGAGAAAACA
*
14161065 AACAAACAAAACCAAAATTGC
1 AACAAAAAAAACCAAAATTGC
*
14161086 AACAAAAAAAACCTAAATTG
1 AACAAAAAAAACCAAAATTG
14161106 TTACCTCTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.63, C:0.20, G:0.05, T:0.12
Consensus pattern (21 bp):
AACAAAAAAAACCAAAATTGC
Found at i:14161344 original size:20 final size:20
Alignment explanation
Indices: 14161294--14161344 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
14161284 CAAAATCTAA
*
14161294 AATTTGATTAACTTAGGATT
1 AATTTGATTACCTTAGGATT
*
14161314 AATTTTATTACCTTAGGATT
1 AATTTGATTACCTTAGGATT
14161334 AATTTGATTAC
1 AATTTGATTAC
14161345 ATTAACTAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.33, C:0.08, G:0.12, T:0.47
Consensus pattern (20 bp):
AATTTGATTACCTTAGGATT
Found at i:14163759 original size:8 final size:8
Alignment explanation
Indices: 14163748--14163849 Score: 53
Period size: 8 Copynumber: 12.6 Consensus size: 8
14163738 AAATTCAAAT
14163748 CCCTAAAA
1 CCCTAAAA
14163756 CCCTCAAAA
1 CCCT-AAAA
*
14163765 CCCTAGAA
1 CCCTAAAA
*
14163773 GCCTAAAA
1 CCCTAAAA
* *
14163781 CCTTGAAA
1 CCCTAAAA
* *
14163789 TCGTAAAA
1 CCCTAAAA
**
14163797 TTC-AAAA
1 CCCTAAAA
* *
14163804 TCCAAAAA
1 CCCTAAAA
14163812 CCCTAAAAA
1 CCCT-AAAA
* * *
14163821 TCTTGAAA
1 CCCTAAAA
*
14163829 CCCCAAAA
1 CCCTAAAA
14163837 CCCTAAAA
1 CCCTAAAA
14163845 CCCTA
1 CCCTA
14163850 GAATGTTAAA
Statistics
Matches: 69, Mismatches: 22, Indels: 6
0.71 0.23 0.06
Matches are distributed among these distances:
7 6 0.09
8 49 0.71
9 14 0.20
ACGTcount: A:0.47, C:0.31, G:0.05, T:0.17
Consensus pattern (8 bp):
CCCTAAAA
Found at i:14167360 original size:16 final size:16
Alignment explanation
Indices: 14167335--14167365 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
14167325 TGTTAAGACA
*
14167335 ATTTTTAGTTTAAATT
1 ATTTTAAGTTTAAATT
14167351 ATTTTAAGTTTAAAT
1 ATTTTAAGTTTAAAT
14167366 CATTATGAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.58
Consensus pattern (16 bp):
ATTTTAAGTTTAAATT
Found at i:14168268 original size:16 final size:15
Alignment explanation
Indices: 14168243--14168311 Score: 56
Period size: 16 Copynumber: 4.6 Consensus size: 15
14168233 CATAATTAAA
14168243 AATAATTATAAAAAT
1 AATAATTATAAAAAT
*
14168258 AATAATATATAAAATT
1 AATAAT-TATAAAAAT
*
14168274 AATAA--A-AAATATT
1 AATAATTATAAA-AAT
14168287 AAT-ATTAATAAAAAT
1 AATAATT-ATAAAAAT
14168302 AATTAATTAT
1 AA-TAATTAT
14168312 TTACCCATGA
Statistics
Matches: 44, Mismatches: 2, Indels: 15
0.72 0.03 0.25
Matches are distributed among these distances:
12 4 0.09
13 7 0.16
15 11 0.25
16 19 0.43
17 3 0.07
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
AATAATTATAAAAAT
Found at i:14168270 original size:28 final size:29
Alignment explanation
Indices: 14168239--14168307 Score: 90
Period size: 28 Copynumber: 2.4 Consensus size: 29
14168229 ATGTCATAAT
14168239 TAAAAATAATTATAAAAATAATAATA-T-A
1 TAAAAATAATTA-AAAAATAATAATATTAA
* *
14168267 TAAAATTAA-TAAAAAATATTAATATTAA
1 TAAAAATAATTAAAAAATAATAATATTAA
14168295 TAAAAATAATTAA
1 TAAAAATAATTAA
14168308 TTATTTACCC
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
26 12 0.34
27 3 0.09
28 17 0.49
29 3 0.09
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (29 bp):
TAAAAATAATTAAAAAATAATAATATTAA
Found at i:14168306 original size:19 final size:19
Alignment explanation
Indices: 14168239--14168308 Score: 65
Period size: 19 Copynumber: 3.7 Consensus size: 19
14168229 ATGTCATAAT
**
14168239 TAAAAATAATT-ATAAAAA
1 TAAAAATAATTAATATTAA
* *
14168257 TAATAAT-ATATAAAATTAA
1 TAAAAATAAT-TAATATTAA
14168276 TAAAAA-ATATTAATATTAA
1 TAAAAATA-ATTAATATTAA
14168295 TAAAAATAATTAAT
1 TAAAAATAATTAAT
14168309 TATTTACCCA
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
17 2 0.05
18 7 0.17
19 29 0.71
20 3 0.07
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
TAAAAATAATTAATATTAA
Found at i:14168549 original size:21 final size:21
Alignment explanation
Indices: 14168501--14168550 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
14168491 AATTAATTAT
* * *
14168501 TATATATTAATAAATAATATT
1 TATATTTTAATAAATAAAATA
14168522 TATATTTTAATAAATAAAATA
1 TATATTTTAATAAATAAAATA
14168543 -ATAATTTT
1 TAT-ATTTT
14168551 TATTTATAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 2 0.08
21 23 0.92
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
TATATTTTAATAAATAAAATA
Found at i:14168561 original size:13 final size:14
Alignment explanation
Indices: 14168543--14168591 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
14168533 AAATAAAATA
14168543 ATAATT-TTTATTT
1 ATAATTATTTATTT
14168556 ATAATTATTTA-TT
1 ATAATTATTTATTT
*
14168569 AGTTATTATTTA-TT
1 A-TAATTATTTATTT
*
14168583 ATATTTATT
1 ATAATTATT
14168592 AAAATATAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
13 15 0.48
14 16 0.52
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (14 bp):
ATAATTATTTATTT
Found at i:14169149 original size:14 final size:16
Alignment explanation
Indices: 14169119--14169150 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
14169109 TTTATATGTT
14169119 TTAATATATATTAATA
1 TTAATATATATTAATA
14169135 TTAATATA-ATT-ATA
1 TTAATATATATTAATA
14169149 TT
1 TT
14169151 TTATTATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.31
15 3 0.19
16 8 0.50
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TTAATATATATTAATA
Found at i:14169153 original size:32 final size:30
Alignment explanation
Indices: 14169117--14169178 Score: 70
Period size: 32 Copynumber: 2.0 Consensus size: 30
14169107 TTTTTATATG
* *
14169117 TTTTAATATATATTAATATTAATATAATTATA
1 TTTTAATATATATGAAAATTAAT-T-ATTATA
* *
14169149 TTTTATTATTTATGAAAATTAATTATTATA
1 TTTTAATATATATGAAAATTAATTATTATA
14169179 AATTACATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
30 6 0.23
31 1 0.04
32 19 0.73
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (30 bp):
TTTTAATATATATGAAAATTAATTATTATA
Found at i:14170659 original size:22 final size:23
Alignment explanation
Indices: 14170646--14170688 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
14170636 ATGCATATAG
14170646 ATAAT-TCAAAACATGTCAAATC
1 ATAATATCAAAACATGTCAAATC
*
14170668 ATAATATCAAAACATTTCAAA
1 ATAATATCAAAACATGTCAAA
14170689 AATCATCATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.53, C:0.16, G:0.02, T:0.28
Consensus pattern (23 bp):
ATAATATCAAAACATGTCAAATC
Found at i:14170839 original size:16 final size:16
Alignment explanation
Indices: 14170818--14170848 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
14170808 ATTTTTAAAA
14170818 ATCATCATAAATCATT
1 ATCATCATAAATCATT
14170834 ATCATCATAAATCAT
1 ATCATCATAAATCAT
14170849 CACCAACAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.45, C:0.19, G:0.00, T:0.35
Consensus pattern (16 bp):
ATCATCATAAATCATT
Found at i:14172307 original size:22 final size:23
Alignment explanation
Indices: 14172267--14172309 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
14172257 TTATTATTAT
*
14172267 TAATAATAATTAAATATTTATCC
1 TAATAATAATTAAACATTTATCC
*
14172290 TAATAA-ATTTAAACATTTAT
1 TAATAATAATTAAACATTTAT
14172310 GCATAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (23 bp):
TAATAATAATTAAACATTTATCC
Found at i:14173694 original size:73 final size:73
Alignment explanation
Indices: 14173532--14174602 Score: 1152
Period size: 73 Copynumber: 14.8 Consensus size: 73
14173522 AAGAAAATCA
* * * * * * *
14173532 GGATTAAACCACAAATCAAATATTAACGATGACTAGGACTAAACCGCAAGTCGAGAGAATTAAAG
1 GGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGCAAGTCAAGA-AATTAATG
14173597 AAATGATCG
65 AAATGATCG
* * *
14173606 AGATTAAACCACGAGTCAAAGATTAAAGAAGACTGAGACTAAACCGCAAGTCAAGAAATTAATGA
1 GGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGCAAGTCAAGAAATTAATGA
*
14173671 AATAATCG
66 AATGATCG
* * *
14173679 GGATTAAACCACGAGTCAAATATTAAAGATGACTGGGACTGAACCACAAGTC-AGAGAATTAATG
1 GGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGCAAGTCAAGA-AATTAATG
14173743 AAATGA-CTG
65 AAATGATC-G
* * * * ** *
14173752 GGATTAAATCGCGAGTCAATGATTAAAGATGACTAGGACTAAATTGCAAGTCAGGAAATTAATGA
1 GGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGCAAGTCAAGAAATTAATGA
14173817 AATGATCG
66 AATGATCG
* * * * * * * *
14173825 GGATTAAATCACGAGTC-AAGATTAAAGATGATTAGGATTAAACTGTAAGTCGAGGAA-TAATGA
1 GGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGCAAGTCAAGAAATTAATGA
14173888 AATGATCG
66 AATGATCG
*** * * * *
14173896 GGATTAAACTGTGAGTC--AGATTAAAGATGACTGGGATTGAACTGTAAGTCAGAGAAA-TAATG
1 GGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGCAAGTCA-AGAAATTAATG
14173958 AAATGATCG
65 AAATGATCG
* * * * *
14173967 AGATTAAATCACGAGTCAAAGATTAAAGATGACTGGGACTGAATCGCAAGTTAGAGAAA-TAATG
1 GGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGCAAGTCA-AGAAATTAATG
14174031 AAATGATCG
65 AAATGATCG
* ** * *
14174040 GGATTAAATCGTGAGTCAAAGATTAAAGATGACTGGGACTAAACCGTAAGTCAAAAAATTAATGA
1 GGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGCAAGTCAAGAAATTAATGA
14174105 AATGATCG
66 AATGATCG
** * * * *
14174113 GGATTAAACCGTGAGTCACAGATTAAAGATGACTGGGATTGAACCGTAAGTC-AGAAAATTAATG
1 GGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGCAAGTCAAG-AAATTAATG
14174177 AAATGATCG
65 AAATGATCG
* * * *
14174186 GGATTAAAGCACGAGTCAAAGATTAAAGATGACTGGGATTGAACCACAAGTC-AGAGAATTAATG
1 GGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGCAAGTCAAGA-AATTAATG
14174250 AAATGATCG
65 AAATGATCG
* * * * * *
14174259 GGATTAAACCGCAAGTCAATGATTAAAGATGATTGGGACTAAATCGCAAGTCAAAAAATTAATGA
1 GGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGCAAGTCAAGAAATTAATGA
14174324 AATGA-CTG
66 AATGATC-G
* * * *
14174332 GGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAATCGTAAGTCGAGGAA-TAATGA
1 GGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGCAAGTCAAGAAATTAATGA
14174396 AATGA-CTG
66 AATGATC-G
* * * * * *
14174404 AGATTAAATCACGATTCAAAGATTAAAGATGACTGGGACTAAATCGTAAGTCGAGAAA-TAATGA
1 GGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGCAAGTCAAGAAATTAATGA
14174468 AATGATCG
66 AATGATCG
* ** * * ** * *
14174476 AGATTAAACTGCGAGTCAAAGATTAAAGATGACTGAGATTGGATCGCAAGTC-AG--A-GAATGA
1 GGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGCAAGTCAAGAAATTAATGA
* *
14174537 AATGACCA
66 AATGATCG
* * * *
14174545 GGATTAAACCACGAGTCAAAGATTAAAGATGACTGAGATTGAACCGCAAGTCGAGAAA
1 GGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGCAAGTCAAGAAA
14174603 CTATATAAGA
Statistics
Matches: 867, Mismatches: 114, Indels: 34
0.85 0.11 0.03
Matches are distributed among these distances:
69 59 0.07
70 32 0.04
71 59 0.07
72 167 0.19
73 498 0.57
74 52 0.06
ACGTcount: A:0.43, C:0.12, G:0.23, T:0.22
Consensus pattern (73 bp):
GGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACCGCAAGTCAAGAAATTAATGA
AATGATCG
Found at i:14174412 original size:37 final size:37
Alignment explanation
Indices: 14174360--14174472 Score: 104
Period size: 37 Copynumber: 3.1 Consensus size: 37
14174350 AAGATTAAAG
*
14174360 ATGACTGGGACTAAATCGTAAGTCGAGGAATAATGAA
1 ATGACTGAGACTAAATCGTAAGTCGAGGAATAATGAA
* *** * * * * *
14174397 ATGACTGAGATTAAATCACGATTCAAAGATTAA--AG
1 ATGACTGAGACTAAATCGTAAGTCGAGGAATAATGAA
* *
14174432 ATGACTGGGACTAAATCGTAAGTCGAGAAATAATGAA
1 ATGACTGAGACTAAATCGTAAGTCGAGGAATAATGAA
14174469 ATGA
1 ATGA
14174473 TCGAGATTAA
Statistics
Matches: 53, Mismatches: 21, Indels: 4
0.68 0.27 0.05
Matches are distributed among these distances:
35 24 0.45
37 29 0.55
ACGTcount: A:0.43, C:0.11, G:0.23, T:0.23
Consensus pattern (37 bp):
ATGACTGAGACTAAATCGTAAGTCGAGGAATAATGAA
Found at i:14174447 original size:35 final size:35
Alignment explanation
Indices: 14173532--14174584 Score: 321
Period size: 35 Copynumber: 29.1 Consensus size: 35
14173522 AAGAAAATCA
* * * * *
14173532 GGATTAAACCACAAATCAAATATTAACGATGACTA
1 GGATTAAATCACAAGTCAAAGATTAAAGATGACTG
* * * *
14173567 GGACTAAACCGCAAGTCGAGAGAATTAAAGAAATGA-TCG
1 GGATTAAATCACAAGTC-AAAG-ATTAAAG--ATGACT-G
* * * *
14173606 AGATTAAACCACGAGTCAAAGATTAAAGAAGACTG
1 GGATTAAATCACAAGTCAAAGATTAAAGATGACTG
* * * * * * *
14173641 AGACTAAACCGCAAGTCAAGAAATTAATGAAAT-AATCG
1 GGATTAAATCACAAGTCAA-AGATTAA--AGATGACT-G
* * *
14173679 GGATTAAACCACGAGTCAAATATTAAAGATGACTG
1 GGATTAAATCACAAGTCAAAGATTAAAGATGACTG
* * * * *
14173714 GGACTGAACCACAAGTCAGAGAATTAATGAAATGACTG
1 GGATTAAATCACAAGTCAAAG-ATTAA--AGATGACTG
* * * *
14173752 GGATTAAATCGCGAGTCAATGATTAAAGATGACTA
1 GGATTAAATCACAAGTCAAAGATTAAAGATGACTG
* ** *
14173787 GGACTAAATTGCAAGTCAGGAA-ATTAATGAAATGA-TCG
1 GGATTAAATCACAAGTCA--AAGATTAA--AGATGACT-G
* * *
14173825 GGATTAAATCACGAGTC-AAGATTAAAGATGATTA
1 GGATTAAATCACAAGTCAAAGATTAAAGATGACTG
** * * * *
14173859 GGATTAAA-CTGTAAGTCGAGGAATAATGAAATGA-TCG
1 GGATTAAATC-ACAAGTCAAAGATTAA--AGATGACT-G
***
14173896 GGATTAAA-CTGTGAGTC--AGATTAAAGATGACTG
1 GGATTAAATC-ACAAGTCAAAGATTAAAGATGACTG
* ** * * *
14173929 GGATTGAA-CTGTAAGTCAGAGAAATAATGAAATGA-TCG
1 GGATTAAATC-ACAAGTCAAAG-ATTAA--AGATGACT-G
* *
14173967 AGATTAAATCACGAGTCAAAGATTAAAGATGACTG
1 GGATTAAATCACAAGTCAAAGATTAAAGATGACTG
* * * * * * *
14174002 GGACTGAATCGCAAGTTAGAGAAATAATGAAATGA-TCG
1 GGATTAAATCACAAGTCAAAG-ATTAA--AGATGACT-G
***
14174040 GGATTAAATCGTGAGTCAAAGATTAAAGATGACTG
1 GGATTAAATCACAAGTCAAAGATTAAAGATGACTG
* * ** * *
14174075 GGACTAAACCGTAAGTCAAAAAATTAATGAAATGA-TCG
1 GGATTAAATCACAAGTC-AAAGATTAA--AGATGACT-G
* *** *
14174113 GGATTAAACCGTGAGTCACAGATTAAAGATGACTG
1 GGATTAAATCACAAGTCAAAGATTAAAGATGACTG
* * ** * *
14174148 GGATTGAACCGTAAGTCAGAAAATTAATGAAATGA-TCG
1 GGATTAAATCACAAGTCA-AAGATTAA--AGATGACT-G
* *
14174186 GGATTAAAGCACGAGTCAAAGATTAAAGATGACTG
1 GGATTAAATCACAAGTCAAAGATTAAAGATGACTG
* * * *
14174221 GGATTGAACCACAAGTCAGAGAATTAATGAAATGA-TCG
1 GGATTAAATCACAAGTCAAAG-ATTAA--AGATGACT-G
* * * *
14174259 GGATTAAACCGCAAGTCAATGATTAAAGATGATTG
1 GGATTAAATCACAAGTCAAAGATTAAAGATGACTG
* * * *
14174294 GGACTAAATCGCAAGTCAAAAAATTAATGAAATGACTG
1 GGATTAAATCACAAGTC-AAAGATTAA--AGATGACTG
* *
14174332 GGATTAAACCACGAGTCAAAGATTAAAGATGACTG
1 GGATTAAATCACAAGTCAAAGATTAAAGATGACTG
* ** * * * *
14174367 GGACTAAATCGTAAGTCGAGGAATAATGAAATGACTG
1 GGATTAAATCACAAGTCAAAGATTAA--AGATGACTG
* * *
14174404 AGATTAAATCACGATTCAAAGATTAAAGATGACTG
1 GGATTAAATCACAAGTCAAAGATTAAAGATGACTG
* ** *
14174439 GGACTAAATCGTAAGTCGAGAA-A-TAATGAAATGA-TCG
1 GGATTAAATCACAAGTC-A-AAGATTAA--AGATGACT-G
* * *
14174476 AGATTAAA-CTGCGAGTCAAAGATTAAAGATGACTG
1 GGATTAAATC-ACAAGTCAAAGATTAAAGATGACTG
* ** * * * * **
14174511 AGATTGGATCGCAAGTCAGAGAATGAA-ATGACCA
1 GGATTAAATCACAAGTCAAAGATTAAAGATGACTG
* *
14174545 GGATTAAACCACGAGTCAAAGATTAAAGATGACTG
1 GGATTAAATCACAAGTCAAAGATTAAAGATGACTG
*
14174580 AGATT
1 GGATT
14174585 GAACCGCAAG
Statistics
Matches: 758, Mismatches: 189, Indels: 142
0.70 0.17 0.13
Matches are distributed among these distances:
33 22 0.03
34 41 0.05
35 282 0.37
36 74 0.10
37 136 0.18
38 185 0.24
39 18 0.02
ACGTcount: A:0.43, C:0.12, G:0.23, T:0.22
Consensus pattern (35 bp):
GGATTAAATCACAAGTCAAAGATTAAAGATGACTG
Found at i:14175656 original size:27 final size:27
Alignment explanation
Indices: 14175626--14175731 Score: 81
Period size: 27 Copynumber: 3.6 Consensus size: 27
14175616 GAATAACTTC
*
14175626 TTTTCTCT-TTTTTTTTTCTATTTTTAT
1 TTTTCTATATTTTTTTTT-TATTTTTAT
*
14175653 TTTTTTATATTTTTTTTTTATTTTTTCATT
1 TTTTCTATATTTTTTTTTTA-TTTTT-A-T
*
14175683 TTTTCATTTATTATTTTTTTTTGTTTTTTTTAT
1 TTTTC---TA-TA-TTTTTTTT-TTATTTTTAT
14175716 TTTT-TATATTTTTTTT
1 TTTTCTATATTTTTTTT
14175732 GCCTCTTGTT
Statistics
Matches: 65, Mismatches: 4, Indels: 20
0.73 0.04 0.22
Matches are distributed among these distances:
27 16 0.25
28 16 0.25
29 3 0.05
30 5 0.08
33 7 0.11
34 3 0.05
35 13 0.20
36 2 0.03
ACGTcount: A:0.11, C:0.05, G:0.01, T:0.83
Consensus pattern (27 bp):
TTTTCTATATTTTTTTTTTATTTTTAT
Found at i:14175657 original size:16 final size:16
Alignment explanation
Indices: 14175636--14175702 Score: 63
Period size: 16 Copynumber: 4.4 Consensus size: 16
14175626 TTTTCTCTTT
14175636 TTTTTTTCTATTTTTA
1 TTTTTTTCTATTTTTA
*
14175652 TTTTTTTATATTTTT-
1 TTTTTTTCTATTTTTA
* *
14175667 TTTTTAT-T-TTTTCA
1 TTTTTTTCTATTTTTA
14175681 -TTTTTTC-ATTTATTA
1 TTTTTTTCTATTT-TTA
14175696 TTTTTTT
1 TTTTTTT
14175703 TTGTTTTTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
13 9 0.22
14 4 0.10
15 8 0.20
16 20 0.49
ACGTcount: A:0.13, C:0.04, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTTTTTCTATTTTTA
Found at i:14175658 original size:29 final size:29
Alignment explanation
Indices: 14175633--14175731 Score: 96
Period size: 34 Copynumber: 3.3 Consensus size: 29
14175623 TTCTTTTCTC
*
14175633 TTTTTTTTTTCTATTTTT-ATTTTTTTATA
1 TTTTTTTTTTAT-TTTTTCATTTTTTTATA
14175662 TTTTTTTTTTATTTTTTCATTTTTTCATTTATTA
1 TTTTTTTTTTATTTTTTCA--TTTT--TTTA-TA
*
14175696 TTTTTTTTTGT-TTTTTTTA-TTTTTTATA
1 TTTTTTTTT-TATTTTTTCATTTTTTTATA
14175724 TTTTTTTT
1 TTTTTTTT
14175732 GCCTCTTGTT
Statistics
Matches: 61, Mismatches: 2, Indels: 15
0.78 0.03 0.19
Matches are distributed among these distances:
28 15 0.25
29 16 0.26
31 7 0.11
33 4 0.07
34 18 0.30
35 1 0.02
ACGTcount: A:0.12, C:0.03, G:0.01, T:0.84
Consensus pattern (29 bp):
TTTTTTTTTTATTTTTTCATTTTTTTATA
Found at i:14175745 original size:1 final size:1
Alignment explanation
Indices: 14175633--14175731 Score: 54
Period size: 1 Copynumber: 99.0 Consensus size: 1
14175623 TTCTTTTCTC
* * * * * * ** ** * *
14175633 TTTTTTTTTTCTATTTTTATTTTTTTATATTTTTTTTTTATTTTTTCATTTTTTCATTTATTATT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * *
14175698 TTTTTTTGTTTTTTTTATTTTTTATATTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
14175732 GCCTCTTGTT
Statistics
Matches: 68, Mismatches: 30, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
1 68 1.00
ACGTcount: A:0.12, C:0.03, G:0.01, T:0.84
Consensus pattern (1 bp):
T
Found at i:14177836 original size:21 final size:21
Alignment explanation
Indices: 14177812--14177857 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
14177802 ATTTGGGGGT
*
14177812 ACTTGGTTTCGTACTCTATAA
1 ACTTGGTCTCGTACTCTATAA
* *
14177833 ACTTTGTCTCGTACTCTGTAA
1 ACTTGGTCTCGTACTCTATAA
14177854 ACTT
1 ACTT
14177858 TTTACTCAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.22, C:0.22, G:0.13, T:0.43
Consensus pattern (21 bp):
ACTTGGTCTCGTACTCTATAA
Found at i:14187419 original size:14 final size:15
Alignment explanation
Indices: 14187400--14187440 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
14187390 CTTTTTAAAA
14187400 TATATTATTATT-TT
1 TATATTATTATTATT
14187414 TATATTATT-TTCATT
1 TATATTATTATT-ATT
14187429 T-TATTATTATTA
1 TATATTATTATTA
14187441 ATAATAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
13 2 0.08
14 17 0.71
15 5 0.21
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.68
Consensus pattern (15 bp):
TATATTATTATTATT
Found at i:14187479 original size:22 final size:23
Alignment explanation
Indices: 14187439--14187481 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
14187429 TTATTATTAT
*
14187439 TAATAATAATTAAATATTTATCC
1 TAATAATAATTAAACATTTATCC
*
14187462 TAATAA-ATTTAAACATTTAT
1 TAATAATAATTAAACATTTAT
14187482 GCATAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (23 bp):
TAATAATAATTAAACATTTATCC
Found at i:14187976 original size:23 final size:24
Alignment explanation
Indices: 14187950--14187996 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
14187940 GGCCGGCCGA
* *
14187950 CCGTTCTTCCGTCA-CTGCCGTCG
1 CCGTTCGTCCGTCACCGGCCGTCG
*
14187973 CCGTTCGTCGGTCACCGGCCGTCG
1 CCGTTCGTCCGTCACCGGCCGTCG
14187997 TTGACGGTGG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.04, C:0.43, G:0.28, T:0.26
Consensus pattern (24 bp):
CCGTTCGTCCGTCACCGGCCGTCG
Found at i:14188532 original size:10 final size:10
Alignment explanation
Indices: 14188519--14188543 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
14188509 TCTGTTCTCT
14188519 TTTTTTTGTA
1 TTTTTTTGTA
14188529 TTTTTTTGTA
1 TTTTTTTGTA
14188539 TTTTT
1 TTTTT
14188544 GTATTTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.00, G:0.08, T:0.84
Consensus pattern (10 bp):
TTTTTTTGTA
Found at i:14188542 original size:7 final size:7
Alignment explanation
Indices: 14188532--14188626 Score: 65
Period size: 7 Copynumber: 13.6 Consensus size: 7
14188522 TTTTGTATTT
14188532 TTTTGTA
1 TTTTGTA
14188539 TTTTTGTA
1 -TTTTGTA
14188547 TTTTAGTA
1 TTTT-GTA
14188555 TTTTGTA
1 TTTTGTA
14188562 TTTTGTA
1 TTTTGTA
*
14188569 TTAT-T-
1 TTTTGTA
*
14188574 TTTGGTA
1 TTTTGTA
14188581 TATTT-T-
1 T-TTTGTA
14188587 TTTTGTA
1 TTTTGTA
**
14188594 TTTCATA
1 TTTTGTA
14188601 TTTTGTAA
1 TTTTGT-A
*
14188609 TATTTTTA
1 T-TTTGTA
14188617 TTTT-TA
1 TTTTGTA
14188623 TTTT
1 TTTT
14188627 ATTTTATTTT
Statistics
Matches: 70, Mismatches: 9, Indels: 18
0.72 0.09 0.19
Matches are distributed among these distances:
5 5 0.07
6 10 0.14
7 31 0.44
8 20 0.29
9 4 0.06
ACGTcount: A:0.18, C:0.01, G:0.09, T:0.72
Consensus pattern (7 bp):
TTTTGTA
Found at i:14188542 original size:8 final size:8
Alignment explanation
Indices: 14188521--14188570 Score: 59
Period size: 8 Copynumber: 6.2 Consensus size: 8
14188511 TGTTCTCTTT
14188521 TTTTTGTA
1 TTTTTGTA
14188529 TTTTTTTGTA
1 --TTTTTGTA
14188539 TTTTTGTA
1 TTTTTGTA
*
14188547 TTTTAGTA
1 TTTTTGTA
14188555 -TTTTGTA
1 TTTTTGTA
14188562 -TTTTGTA
1 TTTTTGTA
14188569 TT
1 TT
14188571 ATTTTTGGTA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
7 13 0.35
8 16 0.43
10 8 0.22
ACGTcount: A:0.14, C:0.00, G:0.12, T:0.74
Consensus pattern (8 bp):
TTTTTGTA
Found at i:14188558 original size:15 final size:14
Alignment explanation
Indices: 14188532--14188626 Score: 65
Period size: 15 Copynumber: 6.8 Consensus size: 14
14188522 TTTTGTATTT
14188532 TTTTGTATTTTTGTA
1 TTTTGTA-TTTTGTA
14188547 TTTTAGTATTTTGTA
1 TTTT-GTATTTTGTA
*
14188562 TTTTGTATTAT-T-
1 TTTTGTATTTTGTA
*
14188574 TTTGGTATATTT-T-
1 TTTTGTAT-TTTGTA
**
14188587 TTTTGTATTTCATA
1 TTTTGTATTTTGTA
*
14188601 TTTTGTAATATTTTTA
1 TTTTGT-AT-TTTGTA
14188617 TTTT-TATTTT
1 TTTTGTATTTT
14188627 ATTTTATTTT
Statistics
Matches: 67, Mismatches: 7, Indels: 14
0.76 0.08 0.16
Matches are distributed among these distances:
12 9 0.13
13 15 0.22
14 14 0.21
15 18 0.27
16 11 0.16
ACGTcount: A:0.18, C:0.01, G:0.09, T:0.72
Consensus pattern (14 bp):
TTTTGTATTTTGTA
Found at i:14188603 original size:39 final size:41
Alignment explanation
Indices: 14188522--14188615 Score: 115
Period size: 39 Copynumber: 2.4 Consensus size: 41
14188512 GTTCTCTTTT
* **
14188522 TTTTGTATT-TTTTTGTATTTTTGTATTTTAGTATTTTGTA
1 TTTTGTATTATTTTTGTATATTTGTATTTTAGTATTTCATA
14188562 TTTTGTATTATTTTTGGTATATTT-T-TTTT-GTATTTCATA
1 TTTTGTATTATTTTT-GTATATTTGTATTTTAGTATTTCATA
*
14188601 TTTTGTAATATTTTT
1 TTTTGTATTATTTTT
14188616 ATTTTTATTT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
39 22 0.46
40 13 0.27
41 6 0.12
42 7 0.15
ACGTcount: A:0.17, C:0.01, G:0.11, T:0.71
Consensus pattern (41 bp):
TTTTGTATTATTTTTGTATATTTGTATTTTAGTATTTCATA
Found at i:14191104 original size:128 final size:128
Alignment explanation
Indices: 14190874--14191175 Score: 318
Period size: 128 Copynumber: 2.4 Consensus size: 128
14190864 TAATGTGACA
* **
14190874 TTTTGTTTGAAAATTATTATAATATTTCTATTAAATTACATATTAAATTTTAATATAATATAAAA
1 TTTTGTTTGAAAATTAATATAATATCCCTATTAAATTACATATTAAATTTTAATATAATATAAAA
* *
14190939 TTAACCTCATTTAAATTATTAAAATATTCTTACCATTA-TTTCATAAAAATTTAACATGTGGCG
66 TTAACCTCATTTAAATTACTAAAATACTCTTACCATTACTTT-ATAAAAATTTAACATGTGGCG
* * *
14191002 TTTTGTTTGAAATTTAATATAATATCCCTTTTAAATTATATATTAAATTTTAATATAATATAAAC
1 TTTTGTTTGAAAATTAATATAATATCCCTATTAAATTACATATTAAATTTTAATATAATATAAA-
** * * *
14191067 A-TAA-CTACATGTTAAA-TACTAAAATAC-CTTTGTCATTACTTTATGAAAATTTGACTTGT-G
65 ATTAACCT-CAT-TTAAATTACTAAAATACTC-TTACCATTACTTTATAAAAATTTAACATGTGG
*
14191127 -A
127 CG
* * *
14191128 TATTT-TAT-AAAATTATTATAATA-CTCCTATTAAAATACATATTAAATT
1 T-TTTGTTTGAAAATTAATATAATATC-CCTATTAAATTACATATTAAATT
14191176 AATTACATAA
Statistics
Matches: 147, Mismatches: 20, Indels: 17
0.80 0.11 0.09
Matches are distributed among these distances:
124 1 0.01
125 33 0.22
126 3 0.02
127 7 0.05
128 94 0.64
129 9 0.06
ACGTcount: A:0.41, C:0.09, G:0.05, T:0.45
Consensus pattern (128 bp):
TTTTGTTTGAAAATTAATATAATATCCCTATTAAATTACATATTAAATTTTAATATAATATAAAA
TTAACCTCATTTAAATTACTAAAATACTCTTACCATTACTTTATAAAAATTTAACATGTGGCG
Found at i:14191217 original size:13 final size:14
Alignment explanation
Indices: 14191171--14191222 Score: 52
Period size: 14 Copynumber: 3.5 Consensus size: 14
14191161 AATACATATT
14191171 AAATTAAT-TACATA
1 AAATTAATATA-ATA
*
14191185 AAACTTAACTATATATT
1 AAA-TTAA-TATA-ATA
14191202 AAATTAATATAATA
1 AAATTAATATAATA
14191216 AAATTAA
1 AAATTAA
14191223 AATTAAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
14 12 0.38
15 8 0.25
16 5 0.16
17 7 0.22
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.37
Consensus pattern (14 bp):
AAATTAATATAATA
Found at i:14199934 original size:39 final size:40
Alignment explanation
Indices: 14199854--14199950 Score: 117
Period size: 39 Copynumber: 2.5 Consensus size: 40
14199844 AAAATATTTA
* * * *
14199854 AATAAACATTATAACATGTTGACAAGAAAGGAGAGATTGT
1 AATAAACATCATAACAGGTTGACAAGAAAGGAGAAAATGT
*
14199894 AATAAACATCAT-ACAGGTTGACAAGAAAGGATAAAATGT
1 AATAAACATCATAACAGGTTGACAAGAAAGGAGAAAATGT
* *
14199933 AATCAA-ATGATAACAGGT
1 AATAAACATCATAACAGGT
14199951 GGACTGGAAA
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
38 4 0.08
39 34 0.69
40 11 0.22
ACGTcount: A:0.49, C:0.09, G:0.19, T:0.23
Consensus pattern (40 bp):
AATAAACATCATAACAGGTTGACAAGAAAGGAGAAAATGT
Found at i:14200173 original size:31 final size:30
Alignment explanation
Indices: 14200116--14200173 Score: 80
Period size: 31 Copynumber: 1.9 Consensus size: 30
14200106 ATTAGATTAT
*
14200116 TATTTTTATATTTAATTTCAATTTAATCTA
1 TATTTTTATATCTAATTTCAATTTAATCTA
* *
14200146 TATTTTTAATATCTGATTTTAATTTAAT
1 TATTTTT-ATATCTAATTTCAATTTAAT
14200174 ATTTGTATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 7 0.29
31 17 0.71
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (30 bp):
TATTTTTATATCTAATTTCAATTTAATCTA
Found at i:14200297 original size:24 final size:22
Alignment explanation
Indices: 14200239--14200298 Score: 68
Period size: 22 Copynumber: 2.6 Consensus size: 22
14200229 TATTAATAAA
*
14200239 AATATTTATTTTTAATATAAATT
1 AATATTT-TTATTAATATAAATT
*
14200262 -ATATTTTAATTATATATAAATAT
1 AATATTTTTATTA-ATATAAAT-T
14200285 AATATTTTTATTAA
1 AATATTTTTATTAA
14200299 ATTAATGAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
21 4 0.13
22 14 0.45
23 2 0.06
24 11 0.35
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
AATATTTTTATTAATATAAATT
Found at i:14200775 original size:29 final size:30
Alignment explanation
Indices: 14200729--14200787 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
14200719 GCTATCTTTC
* * *
14200729 TTTAAGAAAAATATAAGATTTAA-GTTTGA
1 TTTAAAAAAAAAAAAAGATTTAAGGTTTGA
14200758 TTTAAAAAAAAAAAAAGATTTAAGGTTTGA
1 TTTAAAAAAAAAAAAAGATTTAAGGTTTGA
14200788 ATTCTCCTGC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 20 0.77
30 6 0.23
ACGTcount: A:0.53, C:0.00, G:0.14, T:0.34
Consensus pattern (30 bp):
TTTAAAAAAAAAAAAAGATTTAAGGTTTGA
Found at i:14212423 original size:19 final size:19
Alignment explanation
Indices: 14212396--14212432 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
14212386 GAGTTAACTT
*
14212396 TAGTTTCTATCATTTAAAG
1 TAGTCTCTATCATTTAAAG
*
14212415 TAGTCTCTATCTTTTAAA
1 TAGTCTCTATCATTTAAA
14212433 TTATTTTATT
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:0.30, C:0.14, G:0.08, T:0.49
Consensus pattern (19 bp):
TAGTCTCTATCATTTAAAG
Found at i:14213278 original size:28 final size:28
Alignment explanation
Indices: 14213220--14213280 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 28
14213210 TATATCTTTT
* ** * *
14213220 ATATATATTTTTATTTAAAAATATATTA
1 ATATATATGTTTATACAAAAATACATAA
*
14213248 ATATATATGTTTATACAAAATTACATAA
1 ATATATATGTTTATACAAAAATACATAA
14213276 ATATA
1 ATATA
14213281 AAAAATATAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.46
Consensus pattern (28 bp):
ATATATATGTTTATACAAAAATACATAA
Found at i:14213301 original size:19 final size:18
Alignment explanation
Indices: 14213259--14213310 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 18
14213249 TATATATGTT
* * *
14213259 TATACAAAATTACATAAA
1 TATAAAAAATTAAAAAAA
14213277 TATAAAAAATATAAAAAAA
1 TATAAAAAAT-TAAAAAAA
*
14213296 TGTAAAAAATTAAAA
1 TATAAAAAATTAAAA
14213311 TATTATTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
18 14 0.48
19 15 0.52
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.25
Consensus pattern (18 bp):
TATAAAAAATTAAAAAAA
Found at i:14213438 original size:17 final size:18
Alignment explanation
Indices: 14213407--14213442 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
14213397 AAATATGTAT
14213407 TAAATATAGATACAAAAA
1 TAAATATAGATACAAAAA
14213425 TAAATATA-ATACAAAAA
1 TAAATATAGATACAAAAA
14213442 T
1 T
14213443 TTAAAGATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.67, C:0.06, G:0.03, T:0.25
Consensus pattern (18 bp):
TAAATATAGATACAAAAA
Found at i:14220089 original size:21 final size:21
Alignment explanation
Indices: 14220065--14220109 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
14220055 GTAAGGTAGA
*
14220065 GTAGAGAAGAGGGGGCCCAAG
1 GTAGAGAAGAAGGGGCCCAAG
*
14220086 GTAGAGGAGAAGGGGCCCAAG
1 GTAGAGAAGAAGGGGCCCAAG
14220107 GTA
1 GTA
14220110 AAAGCCACGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.13, G:0.47, T:0.07
Consensus pattern (21 bp):
GTAGAGAAGAAGGGGCCCAAG
Found at i:14220262 original size:2 final size:2
Alignment explanation
Indices: 14220255--14220307 Score: 54
Period size: 2 Copynumber: 27.0 Consensus size: 2
14220245 TATGGATGAT
* * * * *
14220255 TA TA TA TA TG TG TA TA CA TA TA TA TA TA TG TA TA -A AA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14220296 TA TA TA TA TA TA
1 TA TA TA TA TA TA
14220308 CATGTATGGA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (2 bp):
TA
Found at i:14221249 original size:18 final size:18
Alignment explanation
Indices: 14221226--14221261 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
14221216 TTTAATCGAA
14221226 ATATAA-TAAAAATTATAT
1 ATATAACTAAAAA-TATAT
14221244 ATATAACTAAAAATATAT
1 ATATAACTAAAAATATAT
14221262 GAAATTACTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (18 bp):
ATATAACTAAAAATATAT
Found at i:14228814 original size:15 final size:15
Alignment explanation
Indices: 14228790--14228831 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
14228780 TCCTTTGTAT
14228790 CTTATGTATTTATTA
1 CTTATGTATTTATTA
*
14228805 CTTATTTATTTATTA
1 CTTATGTATTTATTA
14228820 CTACTATGTATT
1 CT--TATGTATT
14228832 AATATATGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 16 0.70
17 7 0.30
ACGTcount: A:0.26, C:0.10, G:0.05, T:0.60
Consensus pattern (15 bp):
CTTATGTATTTATTA
Found at i:14228941 original size:10 final size:10
Alignment explanation
Indices: 14228921--14228985 Score: 51
Period size: 10 Copynumber: 6.2 Consensus size: 10
14228911 ATTTATCTAG
14228921 TTATATATTTA
1 TTAT-TATTTA
14228932 TTATTATTTA
1 TTATTATTTA
*
14228942 TTCATTTATATA
1 TT-A-TTATTTA
*
14228954 TTATAATTTA
1 TTATTATTTA
*
14228964 TCTGTTA-TTA
1 T-TATTATTTA
*
14228974 TTATTTTTTA
1 TTATTATTTA
14228984 TT
1 TT
14228986 TATCTTGTAA
Statistics
Matches: 43, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
9 3 0.07
10 23 0.53
11 9 0.21
12 8 0.19
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.66
Consensus pattern (10 bp):
TTATTATTTA
Found at i:14228950 original size:26 final size:25
Alignment explanation
Indices: 14228893--14229062 Score: 93
Period size: 24 Copynumber: 7.2 Consensus size: 25
14228883 TTTCTGTTAA
*
14228893 TATTTATATATGTATTTTATTTATC
1 TATTTATATATTTATTTTATTTATC
*
14228918 TAGTTATATATTTATTATTATTTAT-
1 TATTTATATATTTATT-TTATTTATC
*
14228943 TCATTTATATA-TTA--TAATTTATC
1 T-ATTTATATATTTATTTTATTTATC
* *
14228966 T-GTTAT-TATTATTTTTTATTTATC
1 TATTTATATATT-TATTTTATTTATC
* *
14228990 T-TGTA-ATA-TT-TTTGATTTATC
1 TATTTATATATTTATTTTATTTATC
* *
14229011 T-TATTAT-T-TTTTTTTCTAATTATC
1 TAT-TTATATATTTATTT-TATTTATC
14229035 TA-TTA-ATATTT-TTTTATTTATC
1 TATTTATATATTTATTTTATTTATC
14229057 TGATTT
1 T-ATTT
14229063 TTTTTAGGAC
Statistics
Matches: 113, Mismatches: 14, Indels: 37
0.69 0.09 0.23
Matches are distributed among these distances:
20 2 0.02
21 17 0.15
22 22 0.19
23 13 0.12
24 25 0.22
25 18 0.16
26 16 0.14
ACGTcount: A:0.26, C:0.05, G:0.04, T:0.65
Consensus pattern (25 bp):
TATTTATATATTTATTTTATTTATC
Found at i:14229001 original size:21 final size:20
Alignment explanation
Indices: 14228975--14229057 Score: 67
Period size: 23 Copynumber: 3.8 Consensus size: 20
14228965 CTGTTATTAT
14228975 TATTTTTTATTTATCTTGTAA
1 TATTTTTTATTTATCTT-TAA
* *
14228996 TATTTTTGATTTATCTTATTATT
1 TATTTTTTATTTATC-T-TTA-A
* *
14229019 TTTTTTTCTAATTATCTATTAA
1 TATTTTT-TATTTATCT-TTAA
14229041 TATTTTTTTATTTATCT
1 TA-TTTTTTATTTATCT
14229058 GATTTTTTTT
Statistics
Matches: 49, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
21 14 0.29
22 12 0.24
23 17 0.35
24 6 0.12
ACGTcount: A:0.23, C:0.06, G:0.02, T:0.69
Consensus pattern (20 bp):
TATTTTTTATTTATCTTTAA
Found at i:14229018 original size:19 final size:20
Alignment explanation
Indices: 14228971--14229021 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 20
14228961 TTATCTGTTA
*
14228971 TTATTATTTTTTATTTATCT
1 TTATTATTTTTGATTTATCT
*
14228991 TGTAATATTTTTGATTTATC-
1 T-TATTATTTTTGATTTATCT
14229011 TTATTATTTTT
1 TTATTATTTTT
14229022 TTTTCTAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 9 0.33
20 2 0.07
21 16 0.59
ACGTcount: A:0.22, C:0.04, G:0.04, T:0.71
Consensus pattern (20 bp):
TTATTATTTTTGATTTATCT
Found at i:14229066 original size:45 final size:44
Alignment explanation
Indices: 14228959--14229067 Score: 125
Period size: 45 Copynumber: 2.4 Consensus size: 44
14228949 ATATATTATA
*
14228959 ATTTATCTG-TTATTATTATTTTTTATTTATCTTGTAATATTTTTG
1 ATTTATCTGATTATT-TT-TTTTTTAATTATCTTGTAATATTTTTG
* *
14229004 ATTTATCTTATTATTTTTTTTTCTAATTATCTAT-TAATATTTTTTT
1 ATTTATCTGATTATTTTTTTTT-TAATTATCT-TGTAATA-TTTTTG
14229050 ATTTATCTGATT-TTTTTT
1 ATTTATCTGATTATTTTTT
14229068 AGGACTGAGA
Statistics
Matches: 56, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
44 5 0.09
45 29 0.52
46 22 0.39
ACGTcount: A:0.22, C:0.06, G:0.04, T:0.69
Consensus pattern (44 bp):
ATTTATCTGATTATTTTTTTTTTAATTATCTTGTAATATTTTTG
Found at i:14229348 original size:12 final size:12
Alignment explanation
Indices: 14229326--14229370 Score: 58
Period size: 12 Copynumber: 3.9 Consensus size: 12
14229316 TTAAAATCGG
*
14229326 TGGAAAATTTTT
1 TGGAAATTTTTT
*
14229338 TGGAGATTTTTT
1 TGGAAATTTTTT
14229350 TGGAAA--TTTT
1 TGGAAATTTTTT
14229360 TGGAAATTTTT
1 TGGAAATTTTT
14229371 AGATTTCGGT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
10 10 0.36
12 18 0.64
ACGTcount: A:0.27, C:0.00, G:0.20, T:0.53
Consensus pattern (12 bp):
TGGAAATTTTTT
Found at i:14229359 original size:10 final size:10
Alignment explanation
Indices: 14229346--14229370 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
14229336 TTTGGAGATT
14229346 TTTTTGGAAA
1 TTTTTGGAAA
14229356 TTTTTGGAAA
1 TTTTTGGAAA
14229366 TTTTT
1 TTTTT
14229371 AGATTTCGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.24, C:0.00, G:0.16, T:0.60
Consensus pattern (10 bp):
TTTTTGGAAA
Found at i:14229947 original size:6 final size:6
Alignment explanation
Indices: 14229936--14230040 Score: 76
Period size: 6 Copynumber: 17.7 Consensus size: 6
14229926 ATTTAATATT
* * * *
14229936 TTTTTA TTTTTA TCTTTA TCTTTA -TTTTA TTTTTA TTTTTG TTTTAA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
* * *
14229983 TTTTCT- TTATT- TTTTTA TTTTTAA TTTTCA CTTTTA TTTTGT- TTTATTA
1 TTTT-TA TTTTTA TTTTTA TTTTT-A TTTTTA TTTTTA TTTT-TA TTT-TTA
14230032 -TTTTA TTTT
1 TTTTTA TTTT
14230041 CTTTAAATGA
Statistics
Matches: 79, Mismatches: 12, Indels: 16
0.74 0.11 0.15
Matches are distributed among these distances:
5 12 0.15
6 60 0.76
7 7 0.09
ACGTcount: A:0.16, C:0.05, G:0.02, T:0.77
Consensus pattern (6 bp):
TTTTTA
Found at i:14229963 original size:17 final size:17
Alignment explanation
Indices: 14229923--14229995 Score: 64
Period size: 17 Copynumber: 4.5 Consensus size: 17
14229913 TTAGATTAGG
*
14229923 TTTATTTAATATTT-T-
1 TTTATTTTATATTTATC
*
14229938 TTTATTTTTATCTTTATC
1 TTTA-TTTTATATTTATC
* *
14229956 TTTATTTTATTTTTATT
1 TTTATTTTATATTTATC
*
14229973 TTTGTTTTA-ATTT-TC
1 TTTATTTTATATTTATC
14229988 TTTATTTT
1 TTTATTTT
14229996 TTTATTTTTA
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
15 12 0.26
16 11 0.23
17 20 0.43
18 4 0.09
ACGTcount: A:0.18, C:0.04, G:0.01, T:0.77
Consensus pattern (17 bp):
TTTATTTTATATTTATC
Found at i:14229985 original size:23 final size:23
Alignment explanation
Indices: 14229937--14230040 Score: 88
Period size: 23 Copynumber: 4.4 Consensus size: 23
14229927 TTTAATATTT
* *
14229937 TTTTATTTTTATCTTTATCTTT-A
1 TTTTATTTTTATTTTTGT-TTTAA
14229960 TTTTATTTTTATTTTTGTTTTAA
1 TTTTATTTTTATTTTTGTTTTAA
* *
14229983 TTTTCTTTATT-TTTTTATTTTTAA
1 TTTTATTT-TTATTTTT-GTTTTAA
*
14230007 TTTTCACTTTTA-TTTTGTTTTATTA
1 TTTT-ATTTTTATTTTTGTTTTA--A
14230032 TTTTATTTT
1 TTTTATTTT
14230041 CTTTAAATGA
Statistics
Matches: 66, Mismatches: 8, Indels: 13
0.76 0.09 0.15
Matches are distributed among these distances:
22 3 0.05
23 34 0.52
24 22 0.33
25 7 0.11
ACGTcount: A:0.16, C:0.05, G:0.02, T:0.77
Consensus pattern (23 bp):
TTTTATTTTTATTTTTGTTTTAA
Found at i:14230257 original size:57 final size:57
Alignment explanation
Indices: 14230054--14230552 Score: 553
Period size: 57 Copynumber: 8.7 Consensus size: 57
14230044 TAAATGAAAT
* * * * * **
14230054 AAAAAAAAATTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAACAAGCTTTC
1 AAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC
* * * *
14230111 AAAAAAAATATTTTTAGGAAAAAGTTGAAAATATCAA-TTTTCTTTAAAAATAAACTTTC
1 AAAAAAGAT-TTTTGAGG-AAAAGTTGAAAGTATCAATTTTTC-TTAAAAATAAATTTTC
*
14230170 TAAAAAATATTTTTTG-GGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC
1 -AAAAAAGA-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC
* *
14230228 AAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAACTTTC
1 AAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC
* * * *
14230285 TAAAAATATTTTTGGGGAAAAGTTGAAACTATCAATTTTTCTTAAAAATAAATTTT-
1 AAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC
* * * ** * * *
14230341 TAAAACGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAGGTTTCC
1 AAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAA-ATTTTC
* * *
14230399 AAAAAATATTTTTG-GGAAAAAGTTGAAATTATCAATTTTTCTTAAAAATAAATTTTT
1 AAAAAAGATTTTTGAGG-AAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC
* * * * *
14230456 AAAAAAGGTTTTTGAGAAAAAGTTGAAAGTATCAA-TTTTCATCAAAATTAAAGTTTC
1 AAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTC-TTAAAAATAAATTTTC
*
14230513 --AAAAGATATTTTGGGGAAAAGTTGAAAGTATCAATTTTTC
1 AAAAAAGAT-TTTTGAGGAAAAGTTGAAAGTATCAATTTTTC
14230553 CTGCACAAAA
Statistics
Matches: 376, Mismatches: 52, Indels: 28
0.82 0.11 0.06
Matches are distributed among these distances:
55 6 0.02
56 78 0.21
57 159 0.42
58 84 0.22
59 37 0.10
60 11 0.03
61 1 0.00
ACGTcount: A:0.43, C:0.07, G:0.13, T:0.37
Consensus pattern (57 bp):
AAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC
Found at i:14230328 original size:114 final size:114
Alignment explanation
Indices: 14230063--14230552 Score: 648
Period size: 114 Copynumber: 4.3 Consensus size: 114
14230053 TAAAAAAAAA
* * ** ** *
14230063 TTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAACAAGCTTTCAAAAAAAATATTTTTAG
1 TTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAGGT-TTTTGAG
* * *
14230128 GAAAAAGTTGAAAATATCAATTTTCTTTAAAAATAAACTTTCTAAAAAATAT
65 G-AAAAGTTGAAAGTATCAATTTTCATCAAAAATAAACTTTCT-AAAAATAT
*
14230180 TTTTTGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAGGTTTTTGAGG
1 TTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAGGTTTTTGAGG
*
14230245 AAAAGTTGAAAGTATCAATTTTTC-TTAAAAATAAACTTTCTAAAAATAT
66 AAAAGTTGAAAGTATCAA-TTTTCATCAAAAATAAACTTTCTAAAAATAT
* * *
14230294 TTTTGGGGAAAAGTTGAAACTATCAATTTTTCTTAAAAATAAATTTT-TAAAACGGTTTTTGAGG
1 TTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAGGTTTTTGAGG
* * ** *
14230358 AAAAGTTGAAAGTATCAATTTTTC-TCGAAATTAAGGTTTCCAAAAAATAT
66 AAAAGTTGAAAGTATCAA-TTTTCATCAAAAATAAACTTT-CTAAAAATAT
* * * *
14230408 TTTTGGGAAAAAGTTGAAATTATCAATTTTTCTTAAAAATAAATTTTTAAAAAAGGTTTTTGAGA
1 TTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAGGTTTTTGAGG
* *
14230473 AAAAGTTGAAAGTATCAATTTTCATCAAAATTAAAGTTTC-AAAAGATA-
66 AAAAGTTGAAAGTATCAATTTTCATCAAAAATAAACTTTCTAAAA-ATAT
14230521 TTTTGGGGAAAAGTTGAAAGTATCAATTTTTC
1 TTTTGGGGAAAAGTTGAAAGTATCAATTTTTC
14230553 CTGCACAAAA
Statistics
Matches: 340, Mismatches: 28, Indels: 14
0.89 0.07 0.04
Matches are distributed among these distances:
113 83 0.24
114 116 0.34
115 79 0.23
116 12 0.04
117 50 0.15
ACGTcount: A:0.42, C:0.07, G:0.13, T:0.38
Consensus pattern (114 bp):
TTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAGGTTTTTGAGG
AAAAGTTGAAAGTATCAATTTTCATCAAAAATAAACTTTCTAAAAATAT
Found at i:14240987 original size:7 final size:8
Alignment explanation
Indices: 14240958--14241029 Score: 110
Period size: 8 Copynumber: 8.9 Consensus size: 8
14240948 ATGCTTGAAG
14240958 AAAAAAAT
1 AAAAAAAT
14240966 GAAAAAAAT
1 -AAAAAAAT
14240975 GAAAAAAAT
1 -AAAAAAAT
14240984 AAAAAAAT
1 AAAAAAAT
14240992 AAAAAAAT
1 AAAAAAAT
14241000 AAAAAAAT
1 AAAAAAAT
14241008 -AAAAAAT
1 AAAAAAAT
*
14241015 AAAAAAAG
1 AAAAAAAT
14241023 AAAAAAA
1 AAAAAAA
14241030 AGTGAATGAA
Statistics
Matches: 61, Mismatches: 1, Indels: 3
0.94 0.02 0.05
Matches are distributed among these distances:
7 7 0.11
8 37 0.61
9 17 0.28
ACGTcount: A:0.86, C:0.00, G:0.04, T:0.10
Consensus pattern (8 bp):
AAAAAAAT
Found at i:14240995 original size:23 final size:23
Alignment explanation
Indices: 14240960--14241028 Score: 79
Period size: 23 Copynumber: 2.9 Consensus size: 23
14240950 GCTTGAAGAA
14240960 AAAAATGAAAAAAATGAAAAAAATAA
1 AAAAATGAAAAAAAT--AAAAAAT-A
14240986 AAAAAT-AAAAAAATAAAAAAATA
1 AAAAATGAAAAAAAT-AAAAAATA
*
14241009 AAAAAT-AAAAAAAGAAAAAA
1 AAAAATGAAAAAAATAAAAAA
14241029 AAGTGAATGA
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
22 6 0.14
23 14 0.33
24 8 0.19
25 8 0.19
26 6 0.14
ACGTcount: A:0.86, C:0.00, G:0.04, T:0.10
Consensus pattern (23 bp):
AAAAATGAAAAAAATAAAAAATA
Found at i:14241030 original size:9 final size:9
Alignment explanation
Indices: 14240955--14241031 Score: 61
Period size: 9 Copynumber: 8.3 Consensus size: 9
14240945 ACTATGCTTG
14240955 AAGAAAAAA
1 AAGAAAAAA
*
14240964 ATGAAAAAA
1 AAGAAAAAA
*
14240973 ATGAAAAAA
1 AAGAAAAAA
14240982 ATA-AAAAAA
1 A-AGAAAAAA
14240991 TAA-AAAAATA
1 -AAGAAAAA-A
14241001 AA-AAAATAA
1 AAGAAAA-AA
*
14241010 AAAATAAAAA
1 AAGA-AAAAA
14241020 AAGAAAAAA
1 AAGAAAAAA
14241029 AAG
1 AAG
14241032 TGAATGAAAA
Statistics
Matches: 59, Mismatches: 3, Indels: 12
0.80 0.04 0.16
Matches are distributed among these distances:
9 47 0.80
10 9 0.15
11 3 0.05
ACGTcount: A:0.84, C:0.00, G:0.06, T:0.09
Consensus pattern (9 bp):
AAGAAAAAA
Found at i:14241042 original size:1 final size:1
Alignment explanation
Indices: 14240976--14241030 Score: 56
Period size: 1 Copynumber: 55.0 Consensus size: 1
14240966 GAAAAAAATG
* * * * * *
14240976 AAAAAAATAAAAAAATAAAAAAATAAAAAAATAAAAAATAAAAAAAGAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
14241031 GTGAATGAAA
Statistics
Matches: 42, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 42 1.00
ACGTcount: A:0.89, C:0.00, G:0.02, T:0.09
Consensus pattern (1 bp):
A
Found at i:14242216 original size:84 final size:84
Alignment explanation
Indices: 14242082--14242241 Score: 216
Period size: 84 Copynumber: 1.9 Consensus size: 84
14242072 CTGTTTAGAG
* * *
14242082 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGTAATTTAT-TTT-TCAAAGTA
1 GAGCAATTTACTTTTCAAAGTCGTGGAGCCTCTGATTAGAGGAGCAATTTATGTTTCTCAAAGTA
14242145 GTTGAGCCTCTAATTAAAT
66 GTTGAGCCTCTAATTAAAT
* * * *
14242164 GAGCCATTTATTTTTCTAAAAGTCGTTGAGCCTCTGATTAGAGGAGCCATTTATGTTTCTCAAAG
1 GAGCAATTTACTTTTC--AAAGTCGTGGAGCCTCTGATTAGAGGAGCAATTTATGTTTCTCAAAG
*
14242229 TCGTTGAGCCTCT
64 TAGTTGAGCCTCT
14242242 GCTTAGAGGA
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
82 14 0.21
84 31 0.47
85 3 0.05
86 18 0.27
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.38
Consensus pattern (84 bp):
GAGCAATTTACTTTTCAAAGTCGTGGAGCCTCTGATTAGAGGAGCAATTTATGTTTCTCAAAGTA
GTTGAGCCTCTAATTAAAT
Found at i:14242242 original size:43 final size:41
Alignment explanation
Indices: 14242039--14242253 Score: 241
Period size: 41 Copynumber: 5.1 Consensus size: 41
14242029 ATGATTGTCA
* * * * *
14242039 AGGAGCATTTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTATTTTTCAAAGTCGTTGAGCCTCTGATTAG
* * * *
14242080 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTATTTTTCAAAGTCGTTGAGCCTCTGATTAG
* * * *
14242121 AGGAGTAATTTATTTTTCAAAGTAGTTGAGCCTCTAATTAA
1 AGGAGCAATTTATTTTTCAAAGTCGTTGAGCCTCTGATTAG
* *
14242162 ATGAGCCATTTATTTTTCTAAAAGTCGTTGAGCCTCTGATTAG
1 AGGAGCAATTTATTTTTC--AAAGTCGTTGAGCCTCTGATTAG
* *
14242205 AGGAGCCATTTATGTTTCTCAAAGTCGTTGAGCCTCTGCTTAG
1 AGGAGCAATTTAT-TTT-TCAAAGTCGTTGAGCCTCTGATTAG
14242248 AGGAGC
1 AGGAGC
14242254 TTTGATCAAA
Statistics
Matches: 153, Mismatches: 17, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
41 88 0.58
43 60 0.39
44 3 0.02
45 2 0.01
ACGTcount: A:0.25, C:0.16, G:0.22, T:0.37
Consensus pattern (41 bp):
AGGAGCAATTTATTTTTCAAAGTCGTTGAGCCTCTGATTAG
Found at i:14242283 original size:12 final size:11
Alignment explanation
Indices: 14242266--14242312 Score: 51
Period size: 12 Copynumber: 4.1 Consensus size: 11
14242256 TGATCAAATT
*
14242266 AAAAAACAAAA
1 AAAAAATAAAA
14242277 AACAAAATAAAA
1 AA-AAAATAAAA
14242289 ATAAAAATAAAA
1 A-AAAAATAAAA
14242301 AAATAAA-AAAA
1 AAA-AAATAAAA
14242312 A
1 A
14242313 GTAAAAAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
11 9 0.28
12 22 0.69
13 1 0.03
ACGTcount: A:0.87, C:0.04, G:0.00, T:0.09
Consensus pattern (11 bp):
AAAAAATAAAA
Found at i:14242295 original size:24 final size:24
Alignment explanation
Indices: 14242267--14242319 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
14242257 GATCAAATTA
14242267 AAAAACAAAAAACA-AAATAAAAA-T
1 AAAAACAAAAAA-ATAAA-AAAAAGT
*
14242291 AAAAATAAAAAAATAAAAAAAAGT
1 AAAAACAAAAAAATAAAAAAAAGT
14242315 AAAAA
1 AAAAA
14242320 AAATTGCCTC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
23 6 0.23
24 20 0.77
ACGTcount: A:0.85, C:0.04, G:0.02, T:0.09
Consensus pattern (24 bp):
AAAAACAAAAAAATAAAAAAAAGT
Found at i:14242312 original size:18 final size:18
Alignment explanation
Indices: 14242265--14242321 Score: 62
Period size: 18 Copynumber: 3.0 Consensus size: 18
14242255 TTGATCAAAT
14242265 TAAAAAACAAA-AAACAAAA
1 TAAAAAA-AAATAAA-AAAA
14242284 TAAAAATAAAAATAAAAAAA
1 T-AAAA-AAAAATAAAAAAA
*
14242304 TAAAAAAAAGTAAAAAAA
1 TAAAAAAAAATAAAAAAA
14242322 ATTGCCTCTG
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
18 12 0.35
19 5 0.15
20 12 0.35
21 5 0.15
ACGTcount: A:0.84, C:0.04, G:0.02, T:0.11
Consensus pattern (18 bp):
TAAAAAAAAATAAAAAAA
Found at i:14242386 original size:43 final size:43
Alignment explanation
Indices: 14242325--14242514 Score: 247
Period size: 43 Copynumber: 4.4 Consensus size: 43
14242315 AAAAAAAATT
* *
14242325 GCCTCTGTTTAGAGGAGCTTTGTTTATTTTTCAAAGTCGTTGA
1 GCCTCTGATTAGAGGAGCTTTATTTATTTTTCAAAGTCGTTGA
* *
14242368 GCCTCTGACTAGATGAGCTTTATTTATTTTTCAAAGTCGTTGA
1 GCCTCTGATTAGAGGAGCTTTATTTATTTTTCAAAGTCGTTGA
* * *
14242411 GCCTCTGAATAGGGGAGCTTTATTCA-TTTTCAAAGTCGTTGA
1 GCCTCTGATTAGAGGAGCTTTATTTATTTTTCAAAGTCGTTGA
* * * *
14242453 GCCTCTGATTAGAAGAGCTTTGTTTATATTTTTCGAAGTAGTTGA
1 GCCTCTGATTAGAGGAGCTTT-ATT-TATTTTTCAAAGTCGTTGA
*
14242498 GCCTCTGCTTAGAGGAG
1 GCCTCTGATTAGAGGAG
14242515 TTTTGATCAA
Statistics
Matches: 127, Mismatches: 17, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
42 34 0.27
43 63 0.50
44 1 0.01
45 29 0.23
ACGTcount: A:0.22, C:0.15, G:0.23, T:0.39
Consensus pattern (43 bp):
GCCTCTGATTAGAGGAGCTTTATTTATTTTTCAAAGTCGTTGA
Found at i:14242471 original size:85 final size:88
Alignment explanation
Indices: 14242338--14242504 Score: 250
Period size: 85 Copynumber: 1.9 Consensus size: 88
14242328 TCTGTTTAGA
* * *
14242338 GGAGCTTTGTTTATTTTTCAAAGTCGTTGAGCCTCTGACTAGATGAGCTTT-ATT-TATTTTTCA
1 GGAGCTTTATTCATTTTTCAAAGTCGTTGAGCCTCTGACTAGAAGAGCTTTGATTATATTTTTCA
*
14242401 AAGTCGTTGAGCCTCTGAATAGG
66 AAGTAGTTGAGCCTCTGAATAGG
* * *
14242424 GGAGCTTTATTCA-TTTTCAAAGTCGTTGAGCCTCTGATTAGAAGAGCTTTGTTTATATTTTTCG
1 GGAGCTTTATTCATTTTTCAAAGTCGTTGAGCCTCTGACTAGAAGAGCTTTGATTATATTTTTCA
14242488 AAGTAGTTGAGCCTCTG
66 AAGTAGTTGAGCCTCTG
14242505 CTTAGAGGAG
Statistics
Matches: 72, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
85 35 0.49
86 13 0.18
87 24 0.33
ACGTcount: A:0.22, C:0.15, G:0.22, T:0.41
Consensus pattern (88 bp):
GGAGCTTTATTCATTTTTCAAAGTCGTTGAGCCTCTGACTAGAAGAGCTTTGATTATATTTTTCA
AAGTAGTTGAGCCTCTGAATAGG
Found at i:14242717 original size:7 final size:7
Alignment explanation
Indices: 14242695--14242757 Score: 74
Period size: 7 Copynumber: 8.9 Consensus size: 7
14242685 ATTTTACTTT
*
14242695 TATTTTG
1 TATTTTA
*
14242702 TACTTTA
1 TATTTTA
14242709 TATTTTA
1 TATTTTA
14242716 TATTTTA
1 TATTTTA
14242723 TATTTTA
1 TATTTTA
*
14242730 TATTATTTT
1 TA-T-TTTA
14242739 TATTTT-
1 TATTTTA
14242745 TATTTTA
1 TATTTTA
14242752 TATTTT
1 TATTTT
14242758 TTCTTTTGTA
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
6 6 0.12
7 36 0.73
8 2 0.04
9 5 0.10
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.73
Consensus pattern (7 bp):
TATTTTA
Found at i:14242747 original size:12 final size:12
Alignment explanation
Indices: 14242686--14242758 Score: 60
Period size: 12 Copynumber: 5.8 Consensus size: 12
14242676 GTAAGCCTAA
*
14242686 TTTTACTTTTAT
1 TTTTATTTTTAT
*
14242698 TTTGTA-CTTTAT
1 TTT-TATTTTTAT
14242710 ATTTTATATTTTAT
1 -TTTTAT-TTTTAT
*
14242724 ATTTTA-TATTAT
1 -TTTTATTTTTAT
14242736 TTTTATTTTTAT
1 TTTTATTTTTAT
14242748 TTTATATTTTT
1 TTT-TATTTTT
14242759 TCTTTTGTAT
Statistics
Matches: 51, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
11 5 0.10
12 23 0.45
13 12 0.24
14 11 0.22
ACGTcount: A:0.22, C:0.03, G:0.01, T:0.74
Consensus pattern (12 bp):
TTTTATTTTTAT
Found at i:14242764 original size:14 final size:14
Alignment explanation
Indices: 14242686--14242764 Score: 65
Period size: 14 Copynumber: 5.6 Consensus size: 14
14242676 GTAAGCCTAA
*
14242686 TTTTACTTT-TATT
1 TTTTATTTTATATT
* *
14242699 TTGTACTTTATATT
1 TTTTATTTTATATT
*
14242713 TTATATTTTATATTT
1 TTTTATTTTATA-TT
14242728 TATATTATTTT-TA-T
1 T-T-TTATTTTATATT
14242742 TTTTATTTTATATT
1 TTTTATTTTATATT
*
14242756 TTTTCTTTT
1 TTTTATTTT
14242765 GTATCTTATG
Statistics
Matches: 55, Mismatches: 5, Indels: 11
0.77 0.07 0.15
Matches are distributed among these distances:
12 7 0.13
13 11 0.20
14 25 0.45
15 3 0.05
16 3 0.05
17 6 0.11
ACGTcount: A:0.20, C:0.04, G:0.01, T:0.75
Consensus pattern (14 bp):
TTTTATTTTATATT
Found at i:14242785 original size:43 final size:44
Alignment explanation
Indices: 14242692--14242786 Score: 113
Period size: 43 Copynumber: 2.2 Consensus size: 44
14242682 CTAATTTTAC
* *
14242692 TTTTATTTTGTACTTTATATTTTATATTTTATATTTTATATTAT
1 TTTTATTTTGTACTTTATATTTTATATTTTATATCTTATAGTAT
* * * *
14242736 TTTTATTTT-TATTTTATATTTTTTCTTTTGTATCTTAT-GTAT
1 TTTTATTTTGTACTTTATATTTTATATTTTATATCTTATAGTAT
14242778 TTATTATTT
1 TT-TTATTT
14242787 ATTTATTTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
42 5 0.11
43 30 0.68
44 9 0.20
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.73
Consensus pattern (44 bp):
TTTTATTTTGTACTTTATATTTTATATTTTATATCTTATAGTAT
Found at i:14242793 original size:15 final size:14
Alignment explanation
Indices: 14242716--14242800 Score: 59
Period size: 15 Copynumber: 5.7 Consensus size: 14
14242706 TTATATTTTA
14242716 TATTTTATATTTTATAT
1 TATTTT-TA-TTTAT-T
14242733 TATTTTTA-TT-TT
1 TATTTTTATTTATT
14242745 TATTTTATATTT-TT
1 TATTTT-TATTTATT
* *
14242759 TCTTTTGTATCTTATG
1 TATTTT-TAT-TTATT
14242775 TATTTATTATTTATT
1 TATTT-TTATTTATT
14242790 TATTTATTATT
1 TATTT-TTATT
14242801 ACTATGTATT
Statistics
Matches: 58, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
12 7 0.12
13 3 0.05
14 14 0.24
15 17 0.29
16 10 0.17
17 7 0.12
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.73
Consensus pattern (14 bp):
TATTTTTATTTATT
Found at i:14242858 original size:15 final size:15
Alignment explanation
Indices: 14242838--14242875 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
14242828 ATTATTATTA
14242838 TTTTTTCTTTTTCTT
1 TTTTTTCTTTTTCTT
14242853 TTTTTTCTTTTTCTT
1 TTTTTTCTTTTTCTT
*
14242868 TCTTTTCT
1 TTTTTTCT
14242876 GTTAATATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (15 bp):
TTTTTTCTTTTTCTT
Found at i:14242929 original size:10 final size:10
Alignment explanation
Indices: 14242914--14242973 Score: 50
Period size: 10 Copynumber: 5.8 Consensus size: 10
14242904 TCTAGCTATA
14242914 TATTTATTAT
1 TATTTATTAT
14242924 TATTTATTCATT
1 TATTTATT-A-T
*
14242936 TATATATTAT
1 TATTTATTAT
* *
14242946 AATTTATCTGT
1 TATTTAT-TAT
14242957 TA-TTATTAT
1 TATTTATTAT
*
14242966 TTTTTATT
1 TATTTATT
14242974 TATCTTGTAA
Statistics
Matches: 39, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
9 3 0.08
10 23 0.59
11 5 0.13
12 8 0.21
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.67
Consensus pattern (10 bp):
TATTTATTAT
Found at i:14242939 original size:26 final size:25
Alignment explanation
Indices: 14242881--14242999 Score: 78
Period size: 21 Copynumber: 5.0 Consensus size: 25
14242871 TTTCTGTTAA
*
14242881 TATTTATATATGTATTTTATTTATC
1 TATTTATATATTTATTTTATTTATC
**
14242906 TAGCTATATATTTATTATTATTTAT-
1 TATTTATATATTTATT-TTATTTATC
*
14242931 TCATTTATATA-TTA--TAATTTATC
1 T-ATTTATATATTTATTTTATTTATC
* *
14242954 T-GTTAT-TATTATTTTTTATTTATC
1 TATTTATATATT-TATTTTATTTATC
*
14242978 T-TGTA-ATA-TT-TTTTATTTATC
1 TATTTATATATTTATTTTATTTATC
14242999 T
1 T
14243000 TATTATTTTT
Statistics
Matches: 75, Mismatches: 11, Indels: 20
0.71 0.10 0.19
Matches are distributed among these distances:
20 2 0.03
21 17 0.23
22 9 0.12
23 2 0.03
24 13 0.17
25 17 0.23
26 15 0.20
ACGTcount: A:0.28, C:0.05, G:0.03, T:0.64
Consensus pattern (25 bp):
TATTTATATATTTATTTTATTTATC
Found at i:14243010 original size:21 final size:21
Alignment explanation
Indices: 14242947--14243021 Score: 78
Period size: 21 Copynumber: 3.4 Consensus size: 21
14242937 ATATATTATA
14242947 ATTTATCTGTTATTATTATTTTTT
1 ATTTATC--TTATTATT-TTTTTT
* * *
14242971 ATTTATCTTGTAATATTTTTT
1 ATTTATCTTATTATTTTTTTT
14242992 ATTTATCTTATTATTTTTTTCT
1 ATTTATCTTATTATTTTTTT-T
*
14243014 AATTATCT
1 ATTTATCT
14243022 GATTTTCTTT
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
21 23 0.53
22 13 0.30
24 7 0.16
ACGTcount: A:0.23, C:0.07, G:0.03, T:0.68
Consensus pattern (21 bp):
ATTTATCTTATTATTTTTTTT
Found at i:14243041 original size:22 final size:22
Alignment explanation
Indices: 14242947--14243041 Score: 72
Period size: 22 Copynumber: 4.3 Consensus size: 22
14242937 ATATATTATA
14242947 ATTTATCTGTTATTATTATTTTT-T
1 ATTTATCTG--ATTATT-TTTTTCT
* *
14242971 ATTTATCTTG-TAATATTTTT-T
1 ATTTATC-TGATTATTTTTTTCT
*
14242992 ATTTATCTTATTATTTTTTTCT
1 ATTTATCTGATTATTTTTTTCT
*
14243014 AATTATCTGATT-TTCTTTTTCT
1 ATTTATCTGATTATT-TTTTTCT
*
14243036 TTTTAT
1 ATTTAT
14243042 TTTTTGGGCT
Statistics
Matches: 58, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
20 1 0.02
21 23 0.40
22 25 0.43
24 7 0.12
25 2 0.03
ACGTcount: A:0.20, C:0.07, G:0.03, T:0.69
Consensus pattern (22 bp):
ATTTATCTGATTATTTTTTTCT
Found at i:14243599 original size:21 final size:22
Alignment explanation
Indices: 14243570--14243610 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
14243560 ATTCTAGAGA
*
14243570 GAAGGGAGAGAAGA-AAGAAGG
1 GAAGAGAGAGAAGAGAAGAAGG
14243591 GAAGAGAGAGAAGAGAAGAA
1 GAAGAGAGAGAAGAGAAGAA
14243611 TGGTTCTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.56, C:0.00, G:0.44, T:0.00
Consensus pattern (22 bp):
GAAGAGAGAGAAGAGAAGAAGG
Found at i:14243885 original size:17 final size:16
Alignment explanation
Indices: 14243860--14244038 Score: 92
Period size: 17 Copynumber: 10.6 Consensus size: 16
14243850 TTTCAGGTTT
*
14243860 TTTTGTTTTTTTTTTA
1 TTTTATTTTTTTTTTA
* *
14243876 TTTTCATTTTTTATATA
1 TTTT-ATTTTTTTTTTA
14243893 TTTTATTTTTTTTATTA
1 TTTTATTTTTTTT-TTA
** * *
14243910 TTAGATTAGGTTTATTTAA
1 TT---TTATTTTTTTTTTA
* * *
14243929 TATTCTTTTATTTTTA
1 TTTTATTTTTTTTTTA
* *
14243945 TCTTTATCTTTATTTTA
1 T-TTTATTTTTTTTTTA
*
14243962 TTTTTATTTTTGTTTTA
1 -TTTTATTTTTTTTTTA
* *
14243979 CTTT-TTTTTATTTT-
1 TTTTATTTTTTTTTTA
14243993 TTTTATTTTTTATTTTCA
1 TTTTATTTTTT-TTTT-A
*
14244011 CTTTTAGTTTGTTTTATTA
1 -TTTTA-TTT-TTTTTTTA
14244030 TTTTATTTT
1 TTTTATTTT
14244039 CTTTAAATGA
Statistics
Matches: 121, Mismatches: 28, Indels: 28
0.68 0.16 0.16
Matches are distributed among these distances:
14 3 0.02
15 14 0.12
16 29 0.24
17 43 0.36
18 6 0.05
19 9 0.07
20 14 0.12
21 3 0.02
ACGTcount: A:0.17, C:0.04, G:0.04, T:0.75
Consensus pattern (16 bp):
TTTTATTTTTTTTTTA
Found at i:14243902 original size:6 final size:6
Alignment explanation
Indices: 14243859--14244038 Score: 63
Period size: 6 Copynumber: 29.7 Consensus size: 6
14243849 GTTTCAGGTT
* * * *
14243859 TTTTTG TTTTT- TTTTTA TTTTCA TTTTT- TATATA -TTTTA TTTTT-
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
* ** * *
14243903 TTTATTA TTAGATTA GGTTTA TTTAATA TTCTTTTA TTTTTA TCTTTA
1 TTT-TTA TT--TTTA TTTTTA TTT-TTA TT-TT-TA TTTTTA TTTTTA
* * *
14243951 TCTTTA -TTTTA TTTTTA TTTTT- GTTTTA CTTTTT- TTTATTT TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA -TTTTTA TTT-TTA TTTTTA
* * *
14243998 TTTTTTA TTTTCA CTTTTA GTTTGTT- TTATTA -TTTTA TTTT
1 -TTTTTA TTTTTA TTTTTA -TTT-TTA TTTTTA TTTTTA TTTT
14244039 CTTTAAATGA
Statistics
Matches: 129, Mismatches: 25, Indels: 40
0.66 0.13 0.21
Matches are distributed among these distances:
5 31 0.24
6 65 0.50
7 23 0.18
8 10 0.08
ACGTcount: A:0.17, C:0.04, G:0.04, T:0.76
Consensus pattern (6 bp):
TTTTTA
Found at i:14243960 original size:23 final size:20
Alignment explanation
Indices: 14243934--14244001 Score: 75
Period size: 23 Copynumber: 3.2 Consensus size: 20
14243924 TTTAATATTC
14243934 TTTTATTTTTATCTTTATCTTTA
1 TTTTATTTTTAT-TTT-T-TTTA
14243957 TTTTATTTTTATTTTTGTTTTA
1 TTTTATTTTTA-TTTT-TTTTA
*
14243979 CTTT-TTTTTATTTTTTTTA
1 TTTTATTTTTATTTTTTTTA
14243998 TTTT
1 TTTT
14244002 TTATTTTCAC
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
19 8 0.20
20 4 0.10
21 6 0.15
22 7 0.17
23 15 0.37
24 1 0.02
ACGTcount: A:0.13, C:0.04, G:0.01, T:0.81
Consensus pattern (20 bp):
TTTTATTTTTATTTTTTTTA
Found at i:14244015 original size:29 final size:30
Alignment explanation
Indices: 14243984--14244039 Score: 89
Period size: 29 Copynumber: 1.9 Consensus size: 30
14243974 TTTTACTTTT
*
14243984 TTTTA-TTTTTTTTATT-TTTTATTTTCAC
1 TTTTAGTTTGTTTTATTATTTTATTTTCAC
14244012 TTTTAGTTTGTTTTATTATTTTATTTTC
1 TTTTAGTTTGTTTTATTATTTTATTTTC
14244040 TTTAAATGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 5 0.20
29 10 0.40
30 10 0.40
ACGTcount: A:0.14, C:0.05, G:0.04, T:0.77
Consensus pattern (30 bp):
TTTTAGTTTGTTTTATTATTTTATTTTCAC
Found at i:14244034 original size:37 final size:37
Alignment explanation
Indices: 14243953--14244038 Score: 104
Period size: 37 Copynumber: 2.4 Consensus size: 37
14243943 TATCTTTATC
** *
14243953 TTTATTTTA-TTTTTATTTTTGTTTTACTTTTTTTTA
1 TTTATTTTATTTTTTATTTTACTTTTACTTTGTTTTA
* *
14243989 TTTTTTTTATTTTTTATTTTCACTTTTAGTTTGTTTTA
1 TTTATTTTATTTTTTATTTT-ACTTTTACTTTGTTTTA
14244027 -TTATTTTATTTT
1 TTTATTTTATTTT
14244039 CTTTAAATGA
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
36 8 0.19
37 21 0.50
38 13 0.31
ACGTcount: A:0.14, C:0.03, G:0.03, T:0.79
Consensus pattern (37 bp):
TTTATTTTATTTTTTATTTTACTTTTACTTTGTTTTA
Found at i:14244208 original size:57 final size:57
Alignment explanation
Indices: 14244057--14244500 Score: 538
Period size: 57 Copynumber: 7.7 Consensus size: 57
14244047 GAAATCCAAA
* * * * **
14244057 AAAAAAAATATTTTTAGAGAAAAGTTGAAAGTATCAATTTTCCTTGAAAACAAGCTTTC
1 AAAAAAAGT-TTTTGAG-GAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
* * *
14244116 AAAAAAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC
1 --AAAAAAAGT-TTTTGAGG-AAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
* *
14244177 AAAAAAAGGTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAGTTTC
1 AAAAAAAGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
* * *
14244234 TAAAAAATA-TTTTTG-GAGAAAAGTTGAAAGTATCAGTTTTTCTTAAAAATAAATTTTT
1 -AAAAAA-AGTTTTTGAG-GAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
** *
14244292 AAAAAAAGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTTTTAAAAATAAACTTTC
1 AAAAAAAGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
* *
14244349 TAAAAATA-TTTTT-AGGAAAAAGTTAAAAGTATCAATTTTCCTTAAAAATAAATTTT-
1 -AAAAAAAGTTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
* ** *
14244405 TAAAACGGTTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
1 AAAAAAAGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
*
14244462 AAAAAAATTTTTTGAGGAAAAGTTGAAAGTATCAATTTT
1 AAAAAAAGTTTTTGAGGAAAAGTTGAAAGTATCAATTTT
14244501 TCCTACACAA
Statistics
Matches: 338, Mismatches: 34, Indels: 26
0.85 0.09 0.07
Matches are distributed among these distances:
55 4 0.01
56 47 0.14
57 164 0.49
58 62 0.18
59 8 0.02
60 1 0.00
61 52 0.15
ACGTcount: A:0.46, C:0.06, G:0.12, T:0.36
Consensus pattern (57 bp):
AAAAAAAGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
Found at i:14244278 original size:115 final size:114
Alignment explanation
Indices: 14244075--14244502 Score: 598
Period size: 115 Copynumber: 3.7 Consensus size: 114
14244065 TATTTTTAGA
* * *
14244075 GAAAAGTTGAAAGTATCAATTTTCCTTGAAAA-CAAGCTTTCAAAAAAAAAATATTTTTAGGAAA
1 GAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAG-TTTC---TAAAAAATATTTTTAGGAAA
14244139 AAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAAGGTTTTGAG
62 AAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTT-AAAAAAAGGTTTTGAG
14244193 GAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAGTTTCTAAAAAATATTTTT-GGAGAAAAG
1 GAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAGTTTCTAAAAAATATTTTTAGGA-AAAAG
* *
14244257 TTGAAAGTATCAGTTTTTCTTAAAAATAAATTTTTAAAAAAAGTTTTTGAG
65 TTGAAAGTATCAATTTTTCTTAAAAATAAA-TTTTAAAAAAAGGTTTTGAG
** *
14244308 GAAAAGTTGAAAGTATCAATTTTTTTTAAAAATAAACTTTCT-AAAAATATTTTTAGGAAAAAGT
1 GAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAGTTTCTAAAAAATATTTTTAGGAAAAAGT
* * * *
14244372 TAAAAGTATCAATTTTCCTTAAAAATAAATTTT-TAAAACGGTTTTTGAG
66 TGAAAGTATCAATTTTTCTTAAAAATAAATTTTAAAAAAAGG-TTTTGAG
* * *
14244421 AAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAT-TTTTTGAGG-AAAAG
1 GAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAGTTTCTAAAAAATATTTTT-AGGAAAAAG
14244484 TTGAAAGTATCAATTTTTC
65 TTGAAAGTATCAATTTTTC
14244503 CTACACAAAA
Statistics
Matches: 282, Mismatches: 21, Indels: 19
0.88 0.07 0.06
Matches are distributed among these distances:
112 5 0.02
113 75 0.27
114 56 0.20
115 104 0.37
116 4 0.01
118 35 0.12
119 3 0.01
ACGTcount: A:0.45, C:0.07, G:0.12, T:0.36
Consensus pattern (114 bp):
GAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAGTTTCTAAAAAATATTTTTAGGAAAAAGT
TGAAAGTATCAATTTTTCTTAAAAATAAATTTTAAAAAAAGGTTTTGAG
Found at i:14246462 original size:24 final size:24
Alignment explanation
Indices: 14246434--14246484 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
14246424 AACTTTGGTG
14246434 CATAAAGTTTAAAGATAGCTCTAC
1 CATAAAGTTTAAAGATAGCTCTAC
14246458 CATAAAGTTTAAAGATAGCTCTAC
1 CATAAAGTTTAAAGATAGCTCTAC
14246482 CAT
1 CAT
14246485 CTAAGAACCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.41, C:0.18, G:0.12, T:0.29
Consensus pattern (24 bp):
CATAAAGTTTAAAGATAGCTCTAC
Found at i:14256392 original size:15 final size:16
Alignment explanation
Indices: 14256354--14256383 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
14256344 AGGGCAAAAC
14256354 AAAAAAATGAAAAATA
1 AAAAAAATGAAAAATA
14256370 AAAAAAAT-AAAAAT
1 AAAAAAATGAAAAAT
14256384 GGAAAAAATC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.83, C:0.00, G:0.03, T:0.13
Consensus pattern (16 bp):
AAAAAAATGAAAAATA
Found at i:14256795 original size:9 final size:9
Alignment explanation
Indices: 14256781--14256830 Score: 57
Period size: 9 Copynumber: 5.3 Consensus size: 9
14256771 GAAGCAAAAA
14256781 AAAAAAATG
1 AAAAAAATG
14256790 -AAAAAATG
1 AAAAAAATG
*
14256798 AAAAAAATA
1 AAAAAAATG
14256807 AAAAAAATGTG
1 AAAAAAA--TG
14256818 AAAAAAAATG
1 -AAAAAAATG
14256828 AAA
1 AAA
14256831 GATGAAAATA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
8 8 0.23
9 17 0.49
10 2 0.06
11 1 0.03
12 7 0.20
ACGTcount: A:0.78, C:0.00, G:0.10, T:0.12
Consensus pattern (9 bp):
AAAAAAATG
Found at i:14256803 original size:17 final size:17
Alignment explanation
Indices: 14256781--14256848 Score: 57
Period size: 17 Copynumber: 3.8 Consensus size: 17
14256771 GAAGCAAAAA
14256781 AAAAAAATGAAAAAATG
1 AAAAAAATGAAAAAATG
*
14256798 AAAAAAATAAAAAAAATGTG
1 AAAAAAAT-GAAAAAA--TG
*
14256818 AAAAAAAATG-AAAGATG
1 -AAAAAAATGAAAAAATG
*
14256835 AAAATAAAGGAAAA
1 AAAA-AAATGAAAA
14256849 GGAAAACTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
16 4 0.10
17 14 0.34
18 9 0.22
19 4 0.10
20 2 0.05
21 8 0.20
ACGTcount: A:0.75, C:0.00, G:0.13, T:0.12
Consensus pattern (17 bp):
AAAAAAATGAAAAAATG
Found at i:14256803 original size:20 final size:20
Alignment explanation
Indices: 14256778--14256830 Score: 65
Period size: 18 Copynumber: 2.8 Consensus size: 20
14256768 AATGAAGCAA
14256778 AAAAAAAAAATGAAAAAATG
1 AAAAAAAAAATGAAAAAATG
*
14256798 AAAAAAATAA--AAAAAATG
1 AAAAAAAAAATGAAAAAATG
**
14256816 TGAAAAAAAATGAAA
1 AAAAAAAAAATGAAA
14256831 GATGAAAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
18 15 0.56
20 12 0.44
ACGTcount: A:0.79, C:0.00, G:0.09, T:0.11
Consensus pattern (20 bp):
AAAAAAAAAATGAAAAAATG
Found at i:14257955 original size:33 final size:33
Alignment explanation
Indices: 14257908--14258000 Score: 127
Period size: 33 Copynumber: 2.8 Consensus size: 33
14257898 GCTTAGTCCC
*
14257908 ATCACCTTTATTTTTT-ACCTTGGCTCAATCCA
1 ATCACTTTTATTTTTTGACCTTGGCTCAATCCA
* * *
14257940 ATTA-TATTTATTTTTTGACTTTAGCTCAATCCA
1 ATCACT-TTTATTTTTTGACCTTGGCTCAATCCA
14257973 ATCACTTTTATTTTTTGACCTTGGCTCA
1 ATCACTTTTATTTTTTGACCTTGGCTCA
14258001 GTTTGGTCAC
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
32 13 0.25
33 37 0.73
34 1 0.02
ACGTcount: A:0.23, C:0.22, G:0.08, T:0.48
Consensus pattern (33 bp):
ATCACTTTTATTTTTTGACCTTGGCTCAATCCA
Found at i:14258021 original size:16 final size:17
Alignment explanation
Indices: 14258002--14258034 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
14257992 CTTGGCTCAG
*
14258002 TTTGGTCACTTT-ATTT
1 TTTGATCACTTTCATTT
14258018 TTTGATCACTTTCATTT
1 TTTGATCACTTTCATTT
14258035 GTTAAACTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.15, C:0.15, G:0.09, T:0.61
Consensus pattern (17 bp):
TTTGATCACTTTCATTT
Found at i:14258108 original size:114 final size:116
Alignment explanation
Indices: 14257926--14258136 Score: 250
Period size: 114 Copynumber: 1.8 Consensus size: 116
14257916 TATTTTTTAC
* * * * * *
14257926 CTTGGCTCAATCCAATTATATTTATTTTTTGACTTTAGCTCAATCCAATCACTTTTATTTTTTGA
1 CTTGGCTCAATCCAATCACATTTATTTTTTCACCTTAGCTCAATCCAATCACTTTTATTTCTTAA
* *
14257991 CCTTGGC-TCAGTTTGGTCACTT-TATTTTTTGATCACTTTCATTTGTTAAA
66 CCTT-GCTTCAGTCTGGTCACTTCCATTTTTTGATCACTTTCATTTGTTAAA
* * * * *
14258041 CTTGGCTCAGTCCAATCACCTTTA-TTTTTCACCTTAGCTTAATCTAGTCA-TCTTTATTTCTTA
1 CTTGGCTCAATCCAATCACATTTATTTTTTCACCTTAGCTCAATCCAATCACT-TTTATTTCTTA
*
14258104 ACCTTGCTTCTGTCTGGTCACTTCCATTTTTTG
65 ACCTTGCTTCAGTCTGGTCACTTCCATTTTTTG
14258137 CCTTGGTTCA
Statistics
Matches: 79, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
113 3 0.04
114 48 0.61
115 28 0.35
ACGTcount: A:0.19, C:0.22, G:0.10, T:0.48
Consensus pattern (116 bp):
CTTGGCTCAATCCAATCACATTTATTTTTTCACCTTAGCTCAATCCAATCACTTTTATTTCTTAA
CCTTGCTTCAGTCTGGTCACTTCCATTTTTTGATCACTTTCATTTGTTAAA
Found at i:14258164 original size:32 final size:32
Alignment explanation
Indices: 14258105--14258166 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
14258095 TATTTCTTAA
*
14258105 CCTTGCTTCTGTCTGGTCACTTCCATTTTTTG
1 CCTTGCTTCAGTCTGGTCACTTCCATTTTTTG
* * * *
14258137 CCTTGGTTCAGTCTTGTTACTTTCATTTTT
1 CCTTGCTTCAGTCTGGTCACTTCCATTTTT
14258167 CAACCTTGGC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.08, C:0.24, G:0.15, T:0.53
Consensus pattern (32 bp):
CCTTGCTTCAGTCTGGTCACTTCCATTTTTTG
Found at i:14258364 original size:34 final size:34
Alignment explanation
Indices: 14258292--14258496 Score: 193
Period size: 34 Copynumber: 6.1 Consensus size: 34
14258282 TCACCTTTAT
* * **
14258292 TTTTTTTCAACTTCGGCTAAAATTAAGTCATTT-A
1 TTTTTTT-GACTTCGGCTAAGACCAAGTCATTTCA
* *
14258326 -TTTTTTGACTTTGGCTAAGA-CAAATCATTTCA
1 TTTTTTTGACTTCGGCTAAGACCAAGTCATTTCA
* * * *
14258358 TTTTTTTAACTTAGGCTAAGACTAAGTCATTTTA
1 TTTTTTTGACTTCGGCTAAGACCAAGTCATTTCA
* *
14258392 -TTTTTTGACTTCGACCAAGACCAAGTCATTTCA
1 TTTTTTTGACTTCGGCTAAGACCAAGTCATTTCA
* * * *
14258425 TTTTTTTGACTTTGACTAAGACCGAGTCATTTTA
1 TTTTTTTGACTTCGGCTAAGACCAAGTCATTTCA
* * * *
14258459 TTTTTTTTACTTCGGCTAAGATCATGTCATCTCA
1 TTTTTTTGACTTCGGCTAAGACCAAGTCATTTCA
14258493 TTTT
1 TTTT
14258497 CTAACTATGG
Statistics
Matches: 139, Mismatches: 28, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
31 8 0.06
32 12 0.09
33 51 0.37
34 68 0.49
ACGTcount: A:0.26, C:0.17, G:0.12, T:0.46
Consensus pattern (34 bp):
TTTTTTTGACTTCGGCTAAGACCAAGTCATTTCA
Found at i:14258426 original size:67 final size:66
Alignment explanation
Indices: 14258292--14258496 Score: 232
Period size: 67 Copynumber: 3.1 Consensus size: 66
14258282 TCACCTTTAT
* * * * *
14258292 TTTTTTTCAACTTCGGCTAAAATTAAGTCA-TTTATTTTTTGACTTTGGCTAAGACAAATCATTT
1 TTTTTTT-AACTTAGGCTAAGACTAAGTCATTTTATTTTTTGACTTCGGCTAAGACAAGTCATTT
14258356 CA
65 CA
* *
14258358 TTTTTTTAACTTAGGCTAAGACTAAGTCATTTTATTTTTTGACTTCGACCAAGACCAAGTCATTT
1 TTTTTTTAACTTAGGCTAAGACTAAGTCATTTTATTTTTTGACTTCGGCTAAGA-CAAGTCATTT
14258423 CA
65 CA
* * * ** * * *
14258425 TTTTTTTGACTTTGACTAAGACCGAGTCATTTTATTTTTTTTACTTCGGCTAAGATCATGTCATC
1 TTTTTTTAACTTAGGCTAAGACTAAGTCATTTTA-TTTTTTGACTTCGGCTAAGA-CAAGTCATT
14258490 TCA
64 TCA
14258493 TTTT
1 TTTT
14258497 CTAACTATGG
Statistics
Matches: 118, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
65 19 0.16
66 28 0.24
67 40 0.34
68 31 0.26
ACGTcount: A:0.26, C:0.17, G:0.12, T:0.46
Consensus pattern (66 bp):
TTTTTTTAACTTAGGCTAAGACTAAGTCATTTTATTTTTTGACTTCGGCTAAGACAAGTCATTTC
A
Found at i:14260005 original size:18 final size:19
Alignment explanation
Indices: 14259970--14260016 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
14259960 TGAATCATGG
*
14259970 TTTTTTTAATTTTGTTTTAA
1 TTTTTTT-ATTATGTTTTAA
*
14259990 TTTTTTTATTAT-TTTTTA
1 TTTTTTTATTATGTTTTAA
*
14260008 TTTATTTAT
1 TTTTTTTAT
14260017 GTGGTGATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 13 0.54
19 4 0.17
20 7 0.29
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (19 bp):
TTTTTTTATTATGTTTTAA
Found at i:14260013 original size:4 final size:4
Alignment explanation
Indices: 14259989--14260104 Score: 73
Period size: 4 Copynumber: 30.0 Consensus size: 4
14259979 TTTTGTTTTA
* * ** * *
14259989 ATTT TTTT A-TT ATTT -TTT ATTT ATTT ATGT GGTG ATTT TTTT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
* * *
14260035 -GTT -TTT AGTTT ATTT ATTT GTTT GTTT ATTT ATTT ATTT -TATT ATTT
1 ATTT ATTT A-TTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT AT-TT ATTT
* *
14260082 ATTT ATTT -GTT ATTT ATTC ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT
14260105 GTAAATATTT
Statistics
Matches: 85, Mismatches: 20, Indels: 14
0.71 0.17 0.12
Matches are distributed among these distances:
3 13 0.15
4 67 0.79
5 5 0.06
ACGTcount: A:0.18, C:0.01, G:0.08, T:0.73
Consensus pattern (4 bp):
ATTT
Found at i:14260063 original size:16 final size:16
Alignment explanation
Indices: 14260023--14260106 Score: 93
Period size: 16 Copynumber: 5.4 Consensus size: 16
14260013 TTATGTGGTG
* *
14260023 ATTTTTTTATTTGTTT
1 ATTTGTTTATTTATTT
*
14260039 -TTAGTTTATTTATTT
1 ATTTGTTTATTTATTT
*
14260054 GTTTGTTTATTTATTT
1 ATTTGTTTATTTATTT
14260070 ATTT-TATTATTTATTT
1 ATTTGT-TTATTTATTT
*
14260086 ATTTG-TTATTTATTC
1 ATTTGTTTATTTATTT
14260101 ATTTGT
1 ATTTGT
14260107 AAATATTTTT
Statistics
Matches: 58, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
15 27 0.47
16 31 0.53
ACGTcount: A:0.18, C:0.01, G:0.07, T:0.74
Consensus pattern (16 bp):
ATTTGTTTATTTATTT
Found at i:14260098 original size:35 final size:34
Alignment explanation
Indices: 14259989--14260104 Score: 119
Period size: 35 Copynumber: 3.4 Consensus size: 34
14259979 TTTTGTTTTA
* * *
14259989 ATTTTTTTA-TTATTTTTTATTTATTTATGTGGTG
1 ATTTATTTATTTATTTTTTATTTATTTAT-TTGTT
* *
14260023 ATTTTTTTATTT-GTTTTTAGTTTATTTATTTGTTT
1 ATTTATTTATTTATTTTTTA-TTTATTTATTTG-TT
*
14260058 GTTTATTTATTTATTTTATTATTTATTTATTTGTT
1 ATTTATTTATTTATTTT-TTATTTATTTATTTGTT
*
14260093 ATTTATTCATTT
1 ATTTATTTATTT
14260105 GTAAATATTT
Statistics
Matches: 69, Mismatches: 8, Indels: 9
0.80 0.09 0.10
Matches are distributed among these distances:
34 17 0.25
35 34 0.49
36 15 0.22
37 3 0.04
ACGTcount: A:0.18, C:0.01, G:0.08, T:0.73
Consensus pattern (34 bp):
ATTTATTTATTTATTTTTTATTTATTTATTTGTT
Done.