Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 ID=Chr07-JGI_221_v2.0
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: 60982465
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 868082 characters in sequence are not A, C, G, or T
File 40 of 204
Found at i:13717438 original size:15 final size:16
Alignment explanation
Indices: 13717406--13717443 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
13717396 AATACTTTTC
13717406 TATTTTTAAAGTTCAT
1 TATTTTTAAAGTTCAT
* *
13717422 TATTTTTTAA-TTTAT
1 TATTTTTAAAGTTCAT
13717437 TATTTTT
1 TATTTTT
13717444 GATTTTTTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 11 0.55
16 9 0.45
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.68
Consensus pattern (16 bp):
TATTTTTAAAGTTCAT
Found at i:13720459 original size:3 final size:3
Alignment explanation
Indices: 13720451--13720521 Score: 142
Period size: 3 Copynumber: 23.7 Consensus size: 3
13720441 TCTATCCTTT
13720451 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
13720499 TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TT
13720522 TAACTAATTT
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 68 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:13726110 original size:34 final size:32
Alignment explanation
Indices: 13726071--13726144 Score: 82
Period size: 32 Copynumber: 2.3 Consensus size: 32
13726061 TTAATAATCT
13726071 CTCATTCACAATACAAAAGATCTACTTAACAGA
1 CTCATTCACAA-ACAAAAGATCTACTTAACAGA
* *
13726104 CTTCATTTC-C-AACACAAGATCTACTTAATAGA
1 C-TCA-TTCACAAACAAAAGATCTACTTAACAGA
13726136 CTCA-TCACA
1 CTCATTCACA
13726145 TGATAAAAGT
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
29 2 0.06
30 1 0.03
31 3 0.09
32 20 0.57
33 2 0.06
34 4 0.11
35 3 0.09
ACGTcount: A:0.41, C:0.27, G:0.05, T:0.27
Consensus pattern (32 bp):
CTCATTCACAAACAAAAGATCTACTTAACAGA
Found at i:13731381 original size:45 final size:45
Alignment explanation
Indices: 13731331--13731443 Score: 181
Period size: 45 Copynumber: 2.5 Consensus size: 45
13731321 AGTAAACAGT
**
13731331 AATCGGTAACGGTAACAGTAACTGTATTCGACACACAAAGTGCCG
1 AATCGGTAACGGTAACAGTAACAATATTCGACACACAAAGTGCCG
*
13731376 AATCGGTAACGGTAACAGTAACAATATTCGACACACGAAGTGCCG
1 AATCGGTAACGGTAACAGTAACAATATTCGACACACAAAGTGCCG
* *
13731421 AACCGGTAACAGTAACAGTAACA
1 AATCGGTAACGGTAACAGTAACA
13731444 GTAACAGTAT
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 63 1.00
ACGTcount: A:0.39, C:0.22, G:0.21, T:0.18
Consensus pattern (45 bp):
AATCGGTAACGGTAACAGTAACAATATTCGACACACAAAGTGCCG
Found at i:13731390 original size:51 final size:50
Alignment explanation
Indices: 13731329--13731479 Score: 161
Period size: 45 Copynumber: 3.1 Consensus size: 50
13731319 CCAGTAAACA
*
13731329 GTAATCGGTAACGGTAACAGTAACTGTATTCGACACACAAAGTGCCGAATCG
1 GTAA-CGGTAACAGTAACAGTAAC-GTATTCGACACACAAAGTGCCGAATCG
* *
13731381 GTAACGGTAACAGTAAC---AA--TATTCGACACACGAAGTGCCGAACCG
1 GTAACGGTAACAGTAACAGTAACGTATTCGACACACAAAGTGCCGAATCG
* * * * *
13731426 GTAACAGTAACAGTAACAGTAACAGTATTCGGCACA-TAAGTGCCTAATCA
1 GTAACGGTAACAGTAACAGTAAC-GTATTCGACACACAAAGTGCCGAATCG
13731476 GTAA
1 GTAA
13731480 GCCGGCAAAT
Statistics
Matches: 84, Mismatches: 9, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
45 40 0.48
48 4 0.05
50 14 0.17
51 22 0.26
52 4 0.05
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.20
Consensus pattern (50 bp):
GTAACGGTAACAGTAACAGTAACGTATTCGACACACAAAGTGCCGAATCG
Found at i:13731437 original size:6 final size:6
Alignment explanation
Indices: 13731426--13731452 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
13731416 TGCCGAACCG
13731426 GTAACA GTAACA GTAACA GTAACA GTA
1 GTAACA GTAACA GTAACA GTAACA GTA
13731453 TTCGGCACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.48, C:0.15, G:0.19, T:0.19
Consensus pattern (6 bp):
GTAACA
Found at i:13735636 original size:19 final size:19
Alignment explanation
Indices: 13735603--13735645 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
13735593 TTATTAACCT
*
13735603 TTAATTAAACTTAATT-AA
1 TTAATCAAACTTAATTAAA
13735621 TTAATCAAATCTTAATTAAA
1 TTAATCAAA-CTTAATTAAA
13735641 TTAAT
1 TTAAT
13735646 GTTAAGTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 8 0.36
19 7 0.32
20 7 0.32
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (19 bp):
TTAATCAAACTTAATTAAA
Found at i:13738498 original size:42 final size:41
Alignment explanation
Indices: 13738452--13738551 Score: 112
Period size: 42 Copynumber: 2.4 Consensus size: 41
13738442 AACTGAACGA
* *
13738452 AAACCCATAAGGGTTAATCTGAAGCTTAGAAGAGCTAAACTG
1 AAACCCATAAGGGTTAAT-TGAAGCTCAAAAGAGCTAAACTG
* * *
13738494 AAACCCATTAGGGTTAAATTGAATCTCAAAAGAGCTGAACTG
1 AAACCCATAAGGGTT-AATTGAAGCTCAAAAGAGCTAAACTG
* *
13738536 -AACCTAGAAGGGTTAA
1 AAACCCATAAGGGTTAA
13738552 ACTAAAACTC
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
40 2 0.04
41 11 0.22
42 33 0.67
43 3 0.06
ACGTcount: A:0.41, C:0.16, G:0.21, T:0.22
Consensus pattern (41 bp):
AAACCCATAAGGGTTAATTGAAGCTCAAAAGAGCTAAACTG
Found at i:13742149 original size:50 final size:48
Alignment explanation
Indices: 13742030--13742151 Score: 129
Period size: 50 Copynumber: 2.5 Consensus size: 48
13742020 CATGCCAAAA
* * *
13742030 CCATGTCCCAGACATGATCTTACATGGGATGTTTCTTGTACTGCCAATG
1 CCATGTCCCAGATATG-TCTTACATGGGATGTTTCATATACTGCCAATG
* * * *
13742079 TCATATCCCAGATATGGTCTTACATGGGA-GTTCTCATATCAGTGCCCATG
1 CCATGTCCCAGATAT-GTCTTACATGGGATGTT-TCATAT-ACTGCCAATG
13742129 CCATGTCCCAGATATAGTCTTAC
1 CCATGTCCCAGATAT-GTCTTAC
13742152 GGAGGACCTC
Statistics
Matches: 60, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
48 3 0.05
49 28 0.47
50 29 0.48
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.32
Consensus pattern (48 bp):
CCATGTCCCAGATATGTCTTACATGGGATGTTTCATATACTGCCAATG
Found at i:13756625 original size:31 final size:31
Alignment explanation
Indices: 13756566--13756625 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
13756556 AAAAGATTTT
* * *
13756566 AAAATAAAACTTTTTATCTTGAATGAATTAA
1 AAAATAAAACTTCTTATCTTCAAAGAATTAA
13756597 AAAATAAAACGTTCTTAT-TTCAAAGAATT
1 AAAATAAAAC-TTCTTATCTTCAAAGAATT
13756626 TAAACATCAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 19 0.76
32 6 0.24
ACGTcount: A:0.48, C:0.08, G:0.07, T:0.37
Consensus pattern (31 bp):
AAAATAAAACTTCTTATCTTCAAAGAATTAA
Found at i:13757210 original size:26 final size:26
Alignment explanation
Indices: 13757181--13757234 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 26
13757171 ATACATATAT
13757181 TATAGGAAA-TGT-ATGTATATATAAAA
1 TATA-GAAAGTGTAATGTAT-TATAAAA
13757207 TATAGAAAGTGTACATGTATTATAAAA
1 TATAGAAAGTGTA-ATGTATTATAAAA
13757234 T
1 T
13757235 GTATATGCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
25 4 0.16
26 7 0.28
27 8 0.32
28 6 0.24
ACGTcount: A:0.48, C:0.02, G:0.15, T:0.35
Consensus pattern (26 bp):
TATAGAAAGTGTAATGTATTATAAAA
Found at i:13757250 original size:2 final size:2
Alignment explanation
Indices: 13757243--13757284 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
13757233 ATGTATATGC
13757243 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13757285 CCATGTATAC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13764522 original size:11 final size:9
Alignment explanation
Indices: 13764494--13764518 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
13764484 GAATTAAGTA
13764494 TTTTTAATT
1 TTTTTAATT
13764503 TTTTTAATT
1 TTTTTAATT
13764512 TTTTTAA
1 TTTTTAA
13764519 AATTACAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (9 bp):
TTTTTAATT
Found at i:13770893 original size:6 final size:6
Alignment explanation
Indices: 13770882--13770906 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
13770872 GAAACTACTC
13770882 GAGGCA GAGGCA GAGGCA GAGGCA G
1 GAGGCA GAGGCA GAGGCA GAGGCA G
13770907 TGCGGGCCAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.16, G:0.52, T:0.00
Consensus pattern (6 bp):
GAGGCA
Found at i:13771677 original size:16 final size:17
Alignment explanation
Indices: 13771656--13771689 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
13771646 AAGGTCACAA
13771656 AAAAAAGA-CAAATTAC
1 AAAAAAGACCAAATTAC
13771672 AAAAAAGACCAAATTAC
1 AAAAAAGACCAAATTAC
13771689 A
1 A
13771690 CAATATGTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.68, C:0.15, G:0.06, T:0.12
Consensus pattern (17 bp):
AAAAAAGACCAAATTAC
Found at i:13771677 original size:17 final size:18
Alignment explanation
Indices: 13771655--13771689 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
13771645 AAAGGTCACA
13771655 AAAAAAAGA-CAAATTAC
1 AAAAAAAGACCAAATTAC
13771672 -AAAAAAGACCAAATTAC
1 AAAAAAAGACCAAATTAC
13771689 A
1 A
13771690 CAATATGTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 3
0.84 0.00 0.16
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.69, C:0.14, G:0.06, T:0.11
Consensus pattern (18 bp):
AAAAAAAGACCAAATTAC
Found at i:13775148 original size:31 final size:28
Alignment explanation
Indices: 13775092--13775164 Score: 101
Period size: 31 Copynumber: 2.5 Consensus size: 28
13775082 AATTAATTAA
13775092 ATTTTTAAAAATAAAAAATATAAAAATAT
1 ATTTTTAAAAATAAAAAATATAAAAAT-T
* *
13775121 ATTTTTTAAAAACTAAAGATTATAAAAATT
1 A-TTTTTAAAAA-TAAAAAATATAAAAATT
13775151 ATTTTTAAAAATAA
1 ATTTTTAAAAATAA
13775165 TTAATTGCTA
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
28 3 0.08
29 11 0.28
30 12 0.30
31 14 0.35
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.38
Consensus pattern (28 bp):
ATTTTTAAAAATAAAAAATATAAAAATT
Found at i:13775553 original size:17 final size:18
Alignment explanation
Indices: 13775525--13775560 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
13775515 GAGTATATTT
13775525 TAATATTTTAATAATTAA
1 TAATATTTTAATAATTAA
*
13775543 TAATA-TTTAATATTTAA
1 TAATATTTTAATAATTAA
13775560 T
1 T
13775561 TAAGCTAAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TAATATTTTAATAATTAA
Found at i:13777295 original size:19 final size:19
Alignment explanation
Indices: 13777271--13777341 Score: 65
Period size: 19 Copynumber: 3.7 Consensus size: 19
13777261 TTACGATAAT
13777271 TTTTATATTTTTTTACGAA
1 TTTTATATTTTTTTACGAA
* *
13777290 TTTTATATTTCTTTAC-ATT
1 TTTTATATTTTTTTACGA-A
* *
13777309 TTTTATAATTTTCTTATG-A
1 TTTTAT-ATTTTTTTACGAA
*
13777328 CTTTATATTTTTTT
1 TTTTATATTTTTTT
13777342 CTATATTTCT
Statistics
Matches: 41, Mismatches: 8, Indels: 7
0.73 0.14 0.12
Matches are distributed among these distances:
18 8 0.20
19 26 0.63
20 7 0.17
ACGTcount: A:0.23, C:0.07, G:0.03, T:0.68
Consensus pattern (19 bp):
TTTTATATTTTTTTACGAA
Found at i:13777361 original size:29 final size:28
Alignment explanation
Indices: 13777271--13777372 Score: 75
Period size: 29 Copynumber: 3.5 Consensus size: 28
13777261 TTACGATAAT
* *
13777271 TTTTATATTTTTTTACGAATTT-TATATT
1 TTTTATATTTTTTT-CTAATTTCTATATA
* *
13777299 TCTTTACA-TTTTTTATAATTTTCT-TATGA
1 T-TTTATATTTTTTTCTAA-TTTCTATAT-A
*
13777328 CTTTATATTTTTTTCTATATTTCTATATA
1 TTTTATATTTTTTTCTA-ATTTCTATATA
13777357 TTTTATAGATTTTTTT
1 TTTTAT--ATTTTTTT
13777373 TACGATGTTT
Statistics
Matches: 57, Mismatches: 8, Indels: 15
0.71 0.10 0.19
Matches are distributed among these distances:
27 2 0.04
28 18 0.32
29 25 0.44
30 4 0.07
31 8 0.14
ACGTcount: A:0.24, C:0.07, G:0.03, T:0.67
Consensus pattern (28 bp):
TTTTATATTTTTTTCTAATTTCTATATA
Found at i:13790863 original size:17 final size:17
Alignment explanation
Indices: 13790841--13790878 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
13790831 TGAGACGGTG
13790841 CAAAAAATAAAATAATT
1 CAAAAAATAAAATAATT
13790858 CAAAAAATAAAATAATT
1 CAAAAAATAAAATAATT
13790875 CAAA
1 CAAA
13790879 TGCAAAATAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.71, C:0.08, G:0.00, T:0.21
Consensus pattern (17 bp):
CAAAAAATAAAATAATT
Found at i:13800268 original size:30 final size:31
Alignment explanation
Indices: 13800234--13800298 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
13800224 AGCCTATATA
*
13800234 TTTATAATTTTTAA-AAAATTAAATTAAATT
1 TTTATAATTTTTAAGAAAATTAAATTAAAAT
* * *
13800264 TTTATCATTTTTAAGAAGATTAATTTAAAAT
1 TTTATAATTTTTAAGAAAATTAAATTAAAAT
13800295 TTTA
1 TTTA
13800299 AAAAACCTAG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 13 0.43
31 17 0.57
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.51
Consensus pattern (31 bp):
TTTATAATTTTTAAGAAAATTAAATTAAAAT
Found at i:13803255 original size:15 final size:16
Alignment explanation
Indices: 13803227--13803259 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
13803217 ATTACCAAAT
13803227 ATGAATATAAAATTAA
1 ATGAATATAAAATTAA
13803243 ATGAATA-AAAATTAA
1 ATGAATATAAAATTAA
13803258 AT
1 AT
13803260 CATGCTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (16 bp):
ATGAATATAAAATTAA
Found at i:13805377 original size:17 final size:17
Alignment explanation
Indices: 13805351--13805391 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
13805341 CCACTAGTCA
13805351 TTCCCAACAT-GATGTTG
1 TTCCCAACATAGA-GTTG
*
13805368 TTCCCGACATAGAGTTG
1 TTCCCAACATAGAGTTG
13805385 TTCCCAA
1 TTCCCAA
13805392 AATGCTCATG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 19 0.90
18 2 0.10
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.32
Consensus pattern (17 bp):
TTCCCAACATAGAGTTG
Found at i:13808528 original size:23 final size:23
Alignment explanation
Indices: 13808497--13808547 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 23
13808487 ACATATTTTC
*
13808497 TTACTGTAGTAATTTTC-GGAGTA
1 TTACAGTAGTAATTTTCGGGA-TA
13808520 TTACAGTAGTAATTTTCGGGATA
1 TTACAGTAGTAATTTTCGGGATA
13808543 TTACA
1 TTACA
13808548 AGCTAACTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 23 0.88
24 3 0.12
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.41
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGATA
Found at i:13808822 original size:24 final size:25
Alignment explanation
Indices: 13808795--13808842 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
13808785 AGAGGAAAGT
13808795 TTAAAGAACATAAAA-GAAAAAAAA
1 TTAAAGAACATAAAACGAAAAAAAA
** *
13808819 TTAAATTACTTAAAACGAAAAAAA
1 TTAAAGAACATAAAACGAAAAAAA
13808843 TATGGGGATC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.69, C:0.06, G:0.06, T:0.19
Consensus pattern (25 bp):
TTAAAGAACATAAAACGAAAAAAAA
Found at i:13812067 original size:19 final size:19
Alignment explanation
Indices: 13812032--13812086 Score: 51
Period size: 19 Copynumber: 2.9 Consensus size: 19
13812022 TAAAACAATT
*
13812032 CAAAATAATTT-TTAAAATA
1 CAAAAT-ATTTATAAAAATA
*
13812051 CAAAATATTTATAAAAATT
1 CAAAATATTTATAAAAATA
* *
13812070 TAAAAAATTTA-AAAAAT
1 CAAAATATTTATAAAAAT
13812087 TTTAAAAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
18 10 0.32
19 21 0.68
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.35
Consensus pattern (19 bp):
CAAAATATTTATAAAAATA
Found at i:13812076 original size:10 final size:10
Alignment explanation
Indices: 13812052--13812112 Score: 63
Period size: 10 Copynumber: 6.3 Consensus size: 10
13812042 TTTAAAATAC
*
13812052 AAAATATTTA
1 AAAAAATTTA
*
13812062 TAAAAATTT-
1 AAAAAATTTA
13812071 AAAAAATTT-
1 AAAAAATTTA
*
13812080 AAAAAATTTT
1 AAAAAATTTA
*
13812090 AAAAATTTTA
1 AAAAAATTTA
*
13812100 AAAAAAATTA
1 AAAAAATTTA
13812110 AAA
1 AAA
13812113 TAATAATTTC
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
9 17 0.40
10 26 0.60
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (10 bp):
AAAAAATTTA
Found at i:13812110 original size:19 final size:19
Alignment explanation
Indices: 13812052--13812112 Score: 77
Period size: 19 Copynumber: 3.2 Consensus size: 19
13812042 TTTAAAATAC
*
13812052 AAAATATTTATAAAAATTTA
1 AAAAT-TTTAAAAAAATTTA
* *
13812072 AAAAATTTAAAAAATTTTA
1 AAAATTTTAAAAAAATTTA
*
13812091 AAAATTTTAAAAAAAATTA
1 AAAATTTTAAAAAAATTTA
13812110 AAA
1 AAA
13812113 TAATAATTTC
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
19 31 0.89
20 4 0.11
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
AAAATTTTAAAAAAATTTA
Found at i:13812112 original size:9 final size:9
Alignment explanation
Indices: 13812052--13812104 Score: 70
Period size: 9 Copynumber: 5.7 Consensus size: 9
13812042 TTTAAAATAC
*
13812052 AAAATATTT
1 AAAAAATTT
13812061 ATAAAAATTT
1 A-AAAAATTT
13812071 AAAAAATTT
1 AAAAAATTT
13812080 AAAAAATTTT
1 AAAAAA-TTT
*
13812090 AAAAATTTT
1 AAAAAATTT
13812099 AAAAAA
1 AAAAAA
13812105 AATTAAAATA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
9 23 0.59
10 16 0.41
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (9 bp):
AAAAAATTT
Found at i:13823460 original size:23 final size:23
Alignment explanation
Indices: 13823414--13823476 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
13823404 TTCACCTAAT
* * *
13823414 CCCAATCCAAACCCAAGTATCCAA
1 CCCAA-CCCAACCCAATTACCCAA
13823438 CCCAACCCAACCCAATTACCCAA
1 CCCAACCCAACCCAATTACCCAA
*
13823461 CCCCACCCAACCCAAT
1 CCCAACCCAACCCAAT
13823477 CATAAAAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
23 30 0.86
24 5 0.14
ACGTcount: A:0.38, C:0.51, G:0.02, T:0.10
Consensus pattern (23 bp):
CCCAACCCAACCCAATTACCCAA
Found at i:13824372 original size:56 final size:56
Alignment explanation
Indices: 13824275--13824515 Score: 254
Period size: 57 Copynumber: 4.3 Consensus size: 56
13824265 TTACTGTTTG
* * * *
13824275 CATGCTGT-TATAAATTGAATTTAAGTTGTTGTTTGAGTGTTTCAAATTGAGCATTTT
1 CATGCTGTCT-TAAATTGAA-TAAAGCTGCTGTTTTAGTGTTTCAAATTGAGCATTTT
* * *
13824332 CATACTGTCTTAAATTGAATCAAGCTACTGTTTTAGTGTTTCAAATTGAGCATTTT
1 CATGCTGTCTTAAATTGAATAAAGCTGCTGTTTTAGTGTTTCAAATTGAGCATTTT
* * * *
13824388 CATGCTGTCATAAATTGAATTAAAGTTGGTGTTTTAGTGTATCAAATTGAGCATTTT
1 CATGCTGTCTTAAATTGAA-TAAAGCTGCTGTTTTAGTGTTTCAAATTGAGCATTTT
* * * * * *
13824445 CATGTTGTCTTAAATTAAATTAAGCTGTTG-TTTAATGTTTCAAATTGAGTATTATT
1 CATGCTGTCTTAAATTGAATAAAGCTGCTGTTTTAGTGTTTCAAATTGAGCATT-TT
* *
13824501 -ATGCTGCCCTAAATT
1 CATGCTGTCTTAAATT
13824516 AAATTACAGT
Statistics
Matches: 156, Mismatches: 25, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
55 32 0.21
56 59 0.38
57 64 0.41
58 1 0.01
ACGTcount: A:0.29, C:0.10, G:0.17, T:0.44
Consensus pattern (56 bp):
CATGCTGTCTTAAATTGAATAAAGCTGCTGTTTTAGTGTTTCAAATTGAGCATTTT
Found at i:13824446 original size:57 final size:57
Alignment explanation
Indices: 13824275--13824561 Score: 289
Period size: 56 Copynumber: 5.1 Consensus size: 57
13824265 TTACTGTTTG
* * * *
13824275 CATGCTGTTATAAATTGAATTTAAGTTGTTGTTTGAGTGTTTCAAATTGAGCATTTT
1 CATGCTGTCATAAATTGAATTAAAGCTGTTGTTTTAGTGTTTCAAATTGAGCATTTT
* * * **
13824332 CATACTGTCTTAAATTGAA-TCAAGCTACTGTTTTAGTGTTTCAAATTGAGCATTTT
1 CATGCTGTCATAAATTGAATTAAAGCTGTTGTTTTAGTGTTTCAAATTGAGCATTTT
* * *
13824388 CATGCTGTCATAAATTGAATTAAAGTTGGTGTTTTAGTGTATCAAATTGAGCATTTT
1 CATGCTGTCATAAATTGAATTAAAGCTGTTGTTTTAGTGTTTCAAATTGAGCATTTT
* * * * *
13824445 CATGTTGTCTTAAATTAAATT-AAGCTGTTG-TTTAATGTTTCAAATTGAGTATTATT
1 CATGCTGTCATAAATTGAATTAAAGCTGTTGTTTTAGTGTTTCAAATTGAGCATT-TT
* * * * * * * *
13824501 -ATGCTGCCCTAAATTAAATTACAG-TGTTGCTTTAGTGTCTCAAAGTAAGCATTATT
1 CATGCTGTCATAAATTGAATTAAAGCTGTTGTTTTAGTGTTTCAAATTGAGCATT-TT
13824557 -ATGCT
1 CATGCT
13824562 ATTGAAAAAT
Statistics
Matches: 194, Mismatches: 32, Indels: 9
0.83 0.14 0.04
Matches are distributed among these distances:
55 42 0.22
56 86 0.44
57 66 0.34
ACGTcount: A:0.29, C:0.11, G:0.17, T:0.44
Consensus pattern (57 bp):
CATGCTGTCATAAATTGAATTAAAGCTGTTGTTTTAGTGTTTCAAATTGAGCATTTT
Found at i:13824477 original size:113 final size:113
Alignment explanation
Indices: 13824275--13824553 Score: 339
Period size: 113 Copynumber: 2.5 Consensus size: 113
13824265 TTACTGTTTG
* * * *
13824275 CATGCTGTTATAAATTGAATTTAAGTTGTTGTTTGAGTGTTTCAAATTGAGCATTTTCATACTGT
1 CATGCTGTCATAAATTGAATTAAAGTTGTTGTTTTAGTGTATCAAATTGAGCATTTTCATACTGT
* *
13824340 CTTAAATTGAATCAAGCTACTGTTTTAGTGTTTCAAATTGAGCATT-TT
66 CTTAAATTAAATCAAGCTACTG-TTTAATGTTTCAAATTGAGCATTATT
* **
13824388 CATGCTGTCATAAATTGAATTAAAGTTGGTGTTTTAGTGTATCAAATTGAGCATTTTCATGTTGT
1 CATGCTGTCATAAATTGAATTAAAGTTGTTGTTTTAGTGTATCAAATTGAGCATTTTCATACTGT
* ** *
13824453 CTTAAATTAAATTAAGCTGTTGTTTAATGTTTCAAATTGAGTATTATT
66 CTTAAATTAAATCAAGCTACTGTTTAATGTTTCAAATTGAGCATTATT
* * * * * * * *
13824501 -ATGCTGCCCTAAATTAAATTACAG-TGTTGCTTTAGTGTCTCAAAGTAAGCATT
1 CATGCTGTCATAAATTGAATTAAAGTTGTTGTTTTAGTGTATCAAATTGAGCATT
13824554 ATTATGCTAT
Statistics
Matches: 143, Mismatches: 22, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
111 24 0.17
112 41 0.29
113 78 0.55
ACGTcount: A:0.29, C:0.11, G:0.17, T:0.43
Consensus pattern (113 bp):
CATGCTGTCATAAATTGAATTAAAGTTGTTGTTTTAGTGTATCAAATTGAGCATTTTCATACTGT
CTTAAATTAAATCAAGCTACTGTTTAATGTTTCAAATTGAGCATTATT
Found at i:13827151 original size:25 final size:27
Alignment explanation
Indices: 13827123--13827177 Score: 64
Period size: 26 Copynumber: 2.1 Consensus size: 27
13827113 CATTTCAATT
13827123 ATGTGTTAAT-TTC-AAGACTTATGTA
1 ATGTGTTAATATTCAAAGACTTATGTA
*
13827148 A--TGTTAGTGATTCAAAGACTTATGTA
1 ATGTGTTAAT-ATTCAAAGACTTATGTA
13827174 ATGT
1 ATGT
13827178 TTCTAATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 7
0.75 0.03 0.22
Matches are distributed among these distances:
23 6 0.25
25 4 0.17
26 13 0.54
28 1 0.04
ACGTcount: A:0.33, C:0.07, G:0.18, T:0.42
Consensus pattern (27 bp):
ATGTGTTAATATTCAAAGACTTATGTA
Found at i:13827212 original size:9 final size:9
Alignment explanation
Indices: 13827198--13827264 Score: 64
Period size: 9 Copynumber: 7.4 Consensus size: 9
13827188 GTAGTGATTC
13827198 AATTCGGTT
1 AATTCGGTT
*
13827207 AATTCGATT
1 AATTCGGTT
* *
13827216 AATTAGGGT
1 AATTCGGTT
* *
13827225 AATTTGGGT
1 AATTCGGTT
*
13827234 AATTCAGTT
1 AATTCGGTT
13827243 AATTCGAG-T
1 AATTCG-GTT
13827252 AATTCGGTT
1 AATTCGGTT
13827261 AATT
1 AATT
13827265 TTTAACCAAA
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
8 1 0.02
9 45 0.96
10 1 0.02
ACGTcount: A:0.30, C:0.07, G:0.21, T:0.42
Consensus pattern (9 bp):
AATTCGGTT
Found at i:13827236 original size:27 final size:27
Alignment explanation
Indices: 13827198--13827264 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 27
13827188 GTAGTGATTC
* *
13827198 AATTCGGTTAATTC-GATTAATTAGGGT
1 AATTCGGGTAATTCAG-TTAATTAGAGT
* *
13827225 AATTTGGGTAATTCAGTTAATTCGAGT
1 AATTCGGGTAATTCAGTTAATTAGAGT
*
13827252 AATTCGGTTAATT
1 AATTCGGGTAATT
13827265 TTTAACCAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
27 32 0.97
28 1 0.03
ACGTcount: A:0.30, C:0.07, G:0.21, T:0.42
Consensus pattern (27 bp):
AATTCGGGTAATTCAGTTAATTAGAGT
Found at i:13830038 original size:94 final size:94
Alignment explanation
Indices: 13829900--13830170 Score: 368
Period size: 94 Copynumber: 2.9 Consensus size: 94
13829890 AAACCTTAAA
* * *
13829900 TCTTATCTTCCTGAAGTTGCAGTGGAG-TAGATGAAGCTACAAATCTTATACCCCTGAAGTTGCA
1 TCTTATCTTCCTGAAGTAGCAGTGGAGCAAGATGAAGCTACAAATCCTATACCCCTGAAGTTGCA
** * *
13829964 AAGGGTCAGATTGAATTTACCATAGAAAG
66 GTGGGTCGGATTGAAGTTACCATAGAAAG
* *
13829993 TCTTATC-TCCTTAAAGTAGCAGTGGAGCAAGATGAAGCTACAAATCCTATATCCCTGAAGTTGC
1 TCTTATCTTCC-TGAAGTAGCAGTGGAGCAAGATGAAGCTACAAATCCTATACCCCTGAAGTTGC
**
13830057 AGTGGGTCGGATTGAAGTTACCATAGCGAG
65 AGTGGGTCGGATTGAAGTTACCATAGAAAG
* * * *
13830087 CCTTATCTTCCTGAAGTTA-CAGTGGAGCAAGATAAAGTTACAAATCCTATACCCCTAAAGTTGC
1 TCTTATCTTCCTGAAG-TAGCAGTGGAGCAAGATGAAGCTACAAATCCTATACCCCTGAAGTTGC
13830151 AGTGGGTCGGATTGAAGTTA
65 AGTGGGTCGGATTGAAGTTA
13830171 GGCATAATTT
Statistics
Matches: 157, Mismatches: 17, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
92 3 0.02
93 21 0.13
94 128 0.82
95 5 0.03
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (94 bp):
TCTTATCTTCCTGAAGTAGCAGTGGAGCAAGATGAAGCTACAAATCCTATACCCCTGAAGTTGCA
GTGGGTCGGATTGAAGTTACCATAGAAAG
Found at i:13830169 original size:44 final size:44
Alignment explanation
Indices: 13830025--13830170 Score: 118
Period size: 44 Copynumber: 3.2 Consensus size: 44
13830015 TGGAGCAAGA
* *
13830025 TGAAGCTACAAATCCTATATCCCTGAAGTTGCAGTGGGTCGGAT
1 TGAAGTTACAAATCCTATACCCCTGAAGTTGCAGTGGGTCGGAT
* * * *
13830069 TGAAGTTACCATAGCGAGCCT-TATCTTCCTGAAGTTACAGTGGAG-CAAGA-
1 TGAAGTTA-CA-A---ATCCTATA-C-CCCTGAAGTTGCAGTGG-GTC-GGAT
* *
13830119 TAAAGTTACAAATCCTATACCCCTAAAGTTGCAGTGGGTCGGAT
1 TGAAGTTACAAATCCTATACCCCTGAAGTTGCAGTGGGTCGGAT
13830163 TGAAGTTA
1 TGAAGTTA
13830171 GGCATAATTT
Statistics
Matches: 77, Mismatches: 13, Indels: 24
0.68 0.11 0.21
Matches are distributed among these distances:
43 3 0.04
44 29 0.38
45 7 0.09
46 3 0.04
48 3 0.04
49 6 0.08
50 23 0.30
51 3 0.04
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.27
Consensus pattern (44 bp):
TGAAGTTACAAATCCTATACCCCTGAAGTTGCAGTGGGTCGGAT
Found at i:13830619 original size:64 final size:64
Alignment explanation
Indices: 13830540--13830680 Score: 228
Period size: 64 Copynumber: 2.2 Consensus size: 64
13830530 AATATTCTTA
* *
13830540 AAATCCCTAAAAATTTTACAAATCAAATCGTTGAATCCCTAAAACTATTAAAAATGAAATCGTG
1 AAATCCCTAAAAATTTTACAAATCAAATCATTGAATCCCTAAAACTATTAAAAATAAAATCGTG
* * *
13830604 AAATCCCTAACAATTTTACGAATCAAATCATTGAATCCCTAAAACTATTAAGAATAAAATCGTG
1 AAATCCCTAAAAATTTTACAAATCAAATCATTGAATCCCTAAAACTATTAAAAATAAAATCGTG
*
13830668 AAATCCCTTAAAA
1 AAATCCCTAAAAA
13830681 CCAAATCGTG
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 70 1.00
ACGTcount: A:0.47, C:0.18, G:0.07, T:0.28
Consensus pattern (64 bp):
AAATCCCTAAAAATTTTACAAATCAAATCATTGAATCCCTAAAACTATTAAAAATAAAATCGTG
Found at i:13830664 original size:32 final size:32
Alignment explanation
Indices: 13830540--13830681 Score: 139
Period size: 32 Copynumber: 4.4 Consensus size: 32
13830530 AATATTCTTA
* *
13830540 AAATCCCTAAAAATTTTACA-AATCAAATCGTTG
1 AAATCCCTAAAACTATTA-AGAATCAAATCG-TG
* *
13830573 -AATCCCTAAAACTATTAAAAATGAAATCGTG
1 AAATCCCTAAAACTATTAAGAATCAAATCGTG
* * *
13830604 AAATCCCTAACAA-TTTTACGAATCAAATCATTG
1 AAATCCCTAA-AACTATTAAGAATCAAATC-GTG
*
13830637 -AATCCCTAAAACTATTAAGAATAAAATCGTG
1 AAATCCCTAAAACTATTAAGAATCAAATCGTG
13830668 AAATCCCTTAAAAC
1 AAATCCC-TAAAAC
13830682 CAAATCGTGA
Statistics
Matches: 90, Mismatches: 12, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
31 7 0.08
32 73 0.81
33 10 0.11
ACGTcount: A:0.46, C:0.19, G:0.07, T:0.27
Consensus pattern (32 bp):
AAATCCCTAAAACTATTAAGAATCAAATCGTG
Found at i:13832330 original size:50 final size:50
Alignment explanation
Indices: 13832215--13832463 Score: 291
Period size: 50 Copynumber: 4.8 Consensus size: 50
13832205 GATAATAACA
* * ** * *
13832215 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCATCTCGG
* *
13832266 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
13832316 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
13832366 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTTATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTC---TCATC-T-CGG
* *
13832421 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
13832464 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 22, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
50 92 0.54
51 33 0.19
53 4 0.02
54 1 0.01
55 2 0.01
56 38 0.22
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:13832401 original size:100 final size:104
Alignment explanation
Indices: 13832214--13832463 Score: 346
Period size: 100 Copynumber: 2.4 Consensus size: 104
13832204 TGATAATAAC
** * *
13832214 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTTGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGGTGCCCATGCCATG
* *
13832279 TCCCAGACATGGTCTTATAGGGGACCTC-TCATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTTCATCTTAAGG
* *
13832316 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCATGCCATGT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCCATGCCATGT
*
13832380 CCCAGACATGGTCTTACAGGGGACCTCTTATGATCTTAAGG
66 CCCAGACATGGTCTTACAGGGGACCTC-T-TCATCTTAAGG
* *
13832421 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
13832464 TTACCCAAAT
Statistics
Matches: 131, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
100 48 0.37
101 36 0.27
103 4 0.03
104 1 0.01
105 2 0.02
106 40 0.31
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.27
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTTCATCTTAAGG
Found at i:13832579 original size:13 final size:13
Alignment explanation
Indices: 13832558--13832589 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
13832548 GCTTGGATCA
*
13832558 TCATCAAATAAAT
1 TCATAAAATAAAT
13832571 TCATAAAATAAAT
1 TCATAAAATAAAT
13832584 TCATAA
1 TCATAA
13832590 TTGCTGTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:13832836 original size:30 final size:30
Alignment explanation
Indices: 13832801--13832858 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
13832791 CCTCGACTCT
*
13832801 AACTTTTTCAAAATTACGA-TTTTGCCCCTA
1 AACTTTTACAAAATTAC-ATTTTTGCCCCTA
*
13832831 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACATTTTTGCCCC
13832859 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 24 0.96
ACGTcount: A:0.29, C:0.24, G:0.05, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACATTTTTGCCCCTA
Found at i:13840467 original size:18 final size:18
Alignment explanation
Indices: 13840423--13840475 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
13840413 ATTCACCTAA
13840423 ACCCAATCCAAACCCAAGT
1 ACCCAA-CCAAACCCAAGT
* * * *
13840442 ATCAAACCTAACCCAATT
1 ACCCAACCAAACCCAAGT
*
13840460 ACCCAACCCAACCCAA
1 ACCCAACCAAACCCAA
13840476 CCCAACCCAA
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
18 23 0.85
19 4 0.15
ACGTcount: A:0.43, C:0.43, G:0.02, T:0.11
Consensus pattern (18 bp):
ACCCAACCAAACCCAAGT
Found at i:13840468 original size:5 final size:5
Alignment explanation
Indices: 13840460--13840485 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
13840450 TAACCCAATT
13840460 ACCCA ACCCA ACCCA ACCCA ACCCA A
1 ACCCA ACCCA ACCCA ACCCA ACCCA A
13840486 TCATAAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.58, G:0.00, T:0.00
Consensus pattern (5 bp):
ACCCA
Found at i:13840577 original size:9 final size:9
Alignment explanation
Indices: 13840563--13840631 Score: 88
Period size: 9 Copynumber: 7.7 Consensus size: 9
13840553 ATGTAGTGAT
13840563 TTAATTCGG
1 TTAATTCGG
13840572 TTAATTCGG
1 TTAATTCGG
*
13840581 GTAATTCAGG
1 TTAATTC-GG
13840591 -TAATTCGAG
1 TTAATTCG-G
13840600 -TAATTCGG
1 TTAATTCGG
*
13840608 TTAATTCAG
1 TTAATTCGG
13840617 TTAATTCGG
1 TTAATTCGG
13840626 TTAATT
1 TTAATT
13840632 TTTAACCAAA
Statistics
Matches: 54, Mismatches: 3, Indels: 6
0.86 0.05 0.10
Matches are distributed among these distances:
8 2 0.04
9 50 0.93
10 2 0.04
ACGTcount: A:0.28, C:0.10, G:0.20, T:0.42
Consensus pattern (9 bp):
TTAATTCGG
Found at i:13840596 original size:27 final size:27
Alignment explanation
Indices: 13840564--13840631 Score: 102
Period size: 27 Copynumber: 2.5 Consensus size: 27
13840554 TGTAGTGATT
13840564 TAATTCGGTTAATTCGGGTAATTCAGG
1 TAATTCGGTTAATTCGGGTAATTCAGG
* *
13840591 TAATTCGAG-TAATTCGGTTAATTCAGT
1 TAATTCG-GTTAATTCGGGTAATTCAGG
13840618 TAATTCGGTTAATT
1 TAATTCGGTTAATT
13840632 TTTAACCAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.03
27 35 0.95
28 1 0.03
ACGTcount: A:0.28, C:0.10, G:0.21, T:0.41
Consensus pattern (27 bp):
TAATTCGGTTAATTCGGGTAATTCAGG
Found at i:13841002 original size:51 final size:51
Alignment explanation
Indices: 13840929--13841035 Score: 196
Period size: 51 Copynumber: 2.1 Consensus size: 51
13840919 CGTGCAGCAA
*
13840929 CAACATTATCCAGTCCATCTGATGTTGCAAAATCACCAACATATTCATCAG
1 CAACATTATCCACTCCATCTGATGTTGCAAAATCACCAACATATTCATCAG
*
13840980 CAACATTATCCACTCCATCTGATGTTGCAAAATCACCAGCATATTCATCAG
1 CAACATTATCCACTCCATCTGATGTTGCAAAATCACCAACATATTCATCAG
13841031 CAACA
1 CAACA
13841036 ACTTCACTAT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.36, C:0.29, G:0.09, T:0.26
Consensus pattern (51 bp):
CAACATTATCCACTCCATCTGATGTTGCAAAATCACCAACATATTCATCAG
Found at i:13841237 original size:33 final size:32
Alignment explanation
Indices: 13841200--13841271 Score: 83
Period size: 33 Copynumber: 2.2 Consensus size: 32
13841190 CCTTTTCCAG
* * *
13841200 ATCACCTTCACTATCAGA-TTCTACCCCTTCATC
1 ATCACCTTC-CCATCA-ACTTCCACCCCTTCAGC
13841233 ATCACCCTTCCCATCAACTTCCACCCCTTCAGC
1 ATCA-CCTTCCCATCAACTTCCACCCCTTCAGC
13841266 ATCACC
1 ATCACC
13841272 CTCCTTAGTA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
32 3 0.09
33 26 0.76
34 5 0.15
ACGTcount: A:0.24, C:0.46, G:0.03, T:0.28
Consensus pattern (32 bp):
ATCACCTTCCCATCAACTTCCACCCCTTCAGC
Found at i:13842774 original size:44 final size:44
Alignment explanation
Indices: 13842724--13843101 Score: 150
Period size: 44 Copynumber: 8.3 Consensus size: 44
13842714 CTTATCTTAC
13842724 TGAAGTTGCAGTGGAGCAAGATGAAACTACAAATTCTATATCCT
1 TGAAGTTGCAGTGGAGCAAGATGAAACTACAAATTCTATATCCT
* * * *
13842768 TGAAGTTGCAGTGGATCGAA-TTGAAGA-TAC-AATTCTTATACCCC
1 TGAAGTTGCAGTGGAGC-AAGATGAA-ACTACAAATTC-TATATCCT
* *
13842812 TGAAGTTGCAGTGG-GTC-GGAATGAAATTACAATGACAAA-TCTTATTTCCT
1 TGAAGTTGCAGTGGAG-CAAG-ATG-AA--AC--T-ACAAATTC-TATATCCT
** * * *
13842862 TGAAGTTGCAGTGGAATAAGATGAAGCTACAAATCCTATATCCC
1 TGAAGTTGCAGTGGAGCAAGATGAAACTACAAATTCTATATCCT
* * * * *
13842906 TGAAGTTGCAGTAGATC-AGATTAAAGATAC-AATTCCTATACCCT
1 TGAAGTTGCAGTGGAGCAAGATGAAA-CTACAAATT-CTATATCCT
* *** * * *
13842950 TGAAGTTGCAATGG-GTTGGAATGAAATTAC-AATGGTGAATCCTATCTCT
1 TGAAGTTGCAGTGGAGCAAG-ATGAAACTACAAAT--T--CT-ATATC-CT
* * * *
13842999 CGAAAGTTGCAGTGGAGCAATATGAAGCTACAAATCCTATATCCT
1 TG-AAGTTGCAGTGGAGCAAGATGAAACTACAAATTCTATATCCT
* * * * * * *
13843044 TAAAGTTGCAGTGGATC-GGATTAAA-TATACAATTCCTATACCCC
1 TGAAGTTGCAGTGGAGCAAGATGAAACTACA-AATT-CTATATCCT
13843088 TGAAGTTGCAGTGG
1 TGAAGTTGCAGTGG
13843102 GTCAGAATGA
Statistics
Matches: 243, Mismatches: 61, Indels: 60
0.67 0.17 0.16
Matches are distributed among these distances:
42 3 0.01
43 21 0.09
44 134 0.55
45 14 0.06
46 6 0.02
47 3 0.01
48 3 0.01
49 6 0.02
50 46 0.19
51 7 0.03
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.29
Consensus pattern (44 bp):
TGAAGTTGCAGTGGAGCAAGATGAAACTACAAATTCTATATCCT
Found at i:13842937 original size:94 final size:93
Alignment explanation
Indices: 13842764--13842938 Score: 210
Period size: 94 Copynumber: 1.9 Consensus size: 93
13842754 AAATTCTATA
* * * * *
13842764 TCCTTGAAGTTGCAGTGGATCGAATTGAAGATACAATTCTTATACCCCTGAAGTTGCAGTGGGTC
1 TCCTTGAAGTTGCAGTGGATC-AAATGAAGATACAAATCCTATACCCCTGAAGTTGCAGTAGATC
* *
13842829 GGAATGAAATTACAATGACAAATCTTATT
65 AGAATGAAAATACAATGACAAATCTTATT
* *
13842858 TCCTTGAAGTTGCAGTGGAAT-AAGATGAAGCTACAAATCCTATATCCCTGAAGTTGCAGTAGAT
1 TCCTTGAAGTTGCAGTGG-ATCAA-ATGAAGATACAAATCCTATACCCCTGAAGTTGCAGTAGAT
*
13842922 CAG-ATTAAAGATACAAT
64 CAGAATGAAA-ATACAAT
13842939 TCCTATACCC
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
93 7 0.10
94 59 0.87
95 2 0.03
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (93 bp):
TCCTTGAAGTTGCAGTGGATCAAATGAAGATACAAATCCTATACCCCTGAAGTTGCAGTAGATCA
GAATGAAAATACAATGACAAATCTTATT
Found at i:13842959 original size:138 final size:137
Alignment explanation
Indices: 13842710--13843173 Score: 637
Period size: 138 Copynumber: 3.4 Consensus size: 137
13842700 TTACTATAAC
* * * *
13842710 GAATCTTATCTTACTGAAGTTGCAGTGGAGCAAGATGAAACTACAAATTCTATATCCTTGAAGTT
1 GAATCTTATCTTCCTGAAGTTGCAGTGGAACAAGATGAAGCTACAAATCCTATATCCTTGAAGTT
* *
13842775 GCAGTGGATCGAATTGAAGATACAATTCTTATACCCCTGAAGTTGCAGTGGGTCGGAATGAAATT
66 GCAGTGGATCG-ATTAAAGATACAATTCCTATACCCCTGAAGTTGCAGTGGGTCGGAATGAAATT
**
13842840 ACAATGAC
130 ACAATGGT
* * *
13842848 AAATCTTAT-TTCCTTGAAGTTGCAGTGGAATAAGATGAAGCTACAAATCCTATATCCCTGAAGT
1 GAATCTTATCTTCC-TGAAGTTGCAGTGGAACAAGATGAAGCTACAAATCCTATATCCTTGAAGT
* * * *
13842912 TGCAGTAGATCAGATTAAAGATACAATTCCTATACCCTTGAAGTTGCAATGGGTTGGAATGAAAT
65 TGCAGTGGATC-GATTAAAGATACAATTCCTATACCCCTGAAGTTGCAGTGGGTCGGAATGAAAT
13842977 TACAATGGT
129 TACAATGGT
* * * *
13842986 GAATCCTATC-T-CTCGAAAGTTGCAGTGGAGCAATATGAAGCTACAAATCCTATATCCTTAAAG
1 GAATCTTATCTTCCT-G-AAGTTGCAGTGGAACAAGATGAAGCTACAAATCCTATATCCTTGAAG
* *
13843049 TTGCAGTGGATCGGATTAAATATACAATTCCTATACCCCTGAAGTTGCAGTGGGTCAGAATGAAA
64 TTGCAGTGGATC-GATTAAAGATACAATTCCTATACCCCTGAAGTTGCAGTGGGTCGGAATGAAA
*
13843114 TTATAATGGT
128 TTACAATGGT
* *
13843124 GAATCTTATCTTCCTGAAGTTGCAGTGGAACAAGATAAAGATACAAATCC
1 GAATCTTATCTTCCTGAAGTTGCAGTGGAACAAGATGAAGCTACAAATCC
13843174 AATACCCATA
Statistics
Matches: 284, Mismatches: 35, Indels: 14
0.85 0.11 0.04
Matches are distributed among these distances:
136 1 0.00
137 5 0.02
138 273 0.96
139 3 0.01
140 2 0.01
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.29
Consensus pattern (137 bp):
GAATCTTATCTTCCTGAAGTTGCAGTGGAACAAGATGAAGCTACAAATCCTATATCCTTGAAGTT
GCAGTGGATCGATTAAAGATACAATTCCTATACCCCTGAAGTTGCAGTGGGTCGGAATGAAATTA
CAATGGT
Found at i:13843168 original size:94 final size:94
Alignment explanation
Indices: 13843046--13843228 Score: 224
Period size: 94 Copynumber: 1.9 Consensus size: 94
13843036 TATATCCTTA
* * * * * * * *
13843046 AAGTTGCAGTGGATCGGATTAAATATACAATTCCTATACCCCTGAAGTTGCAGTGGGTCAGAATG
1 AAGTTGCAGTGGAACAGATTAAAGATACAAATCCAATACCCATAAAGTTACAGTGGGTCAGAATG
* *
13843111 AAATTATAATGGTGAATCTTATCTTCCTG
66 AAATTACAATGGCGAATCTTATCTTCCTG
* *
13843140 AAGTTGCAGTGGAACAAGA-TAAAGATACAAATCCAATACCCATAAAGTTACAGTGGGTTAGATT
1 AAGTTGCAGTGGAAC-AGATTAAAGATACAAATCCAATACCCATAAAGTTACAGTGGGTCAGAAT
* *
13843204 GAAGTTACCATGGCGAATCTTATCT
65 GAAATTACAATGGCGAATCTTATCT
13843229 CTTTAAGGAT
Statistics
Matches: 74, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
94 72 0.97
95 2 0.03
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (94 bp):
AAGTTGCAGTGGAACAGATTAAAGATACAAATCCAATACCCATAAAGTTACAGTGGGTCAGAATG
AAATTACAATGGCGAATCTTATCTTCCTG
Found at i:13843242 original size:94 final size:94
Alignment explanation
Indices: 13843065--13843265 Score: 215
Period size: 94 Copynumber: 2.1 Consensus size: 94
13843055 TGGATCGGAT
* * * * * * * *
13843065 TAAATATACAATTCCTATACCCCTGAAGTTGCAGTGGGTCAGAATGAAATTATAATGGTGAATCT
1 TAAAGATACAAATCCAATACCCATAAAGTTACAGTGGGTCAGAATGAAATTACAATGGCGAATCT
* *
13843130 TATCTTCCTGAAGTTGCAGTGGAACAAGA
66 TATCTTCCTGAAGATGCAGTGGAACAAAA
* * * *
13843159 TAAAGATACAAATCCAATACCCATAAAGTTACAGTGGGTTAGATTGAAGTTACCATGGCGAATCT
1 TAAAGATACAAATCCAATACCCATAAAGTTACAGTGGGTCAGAATGAAATTACAATGGCGAATCT
* * *
13843224 TATC-TCTTTAAGGATGCAGTGGAGCAAAA
66 TATCTTCCTGAA-GATGCAGTGGAACAAAA
* *
13843253 TGAAGCTACAAAT
1 TAAAGATACAAAT
13843266 ATTACATCCC
Statistics
Matches: 87, Mismatches: 19, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
93 5 0.06
94 82 0.94
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.28
Consensus pattern (94 bp):
TAAAGATACAAATCCAATACCCATAAAGTTACAGTGGGTCAGAATGAAATTACAATGGCGAATCT
TATCTTCCTGAAGATGCAGTGGAACAAAA
Found at i:13843298 original size:94 final size:94
Alignment explanation
Indices: 13843223--13843418 Score: 293
Period size: 94 Copynumber: 2.1 Consensus size: 94
13843213 ATGGCGAATC
** * * *
13843223 TTATCTCTTTAAGGATGCAGTGGAGCAAAATGAAGCTACAAATATTACATCCCTAAAATTGCAGT
1 TTATCTCCCTAAGGATGCAGTGAAGCAAAATGAAACTAAAAATATTACATCCCTAAAATTGCAGT
*
13843288 AGAATGGATTGAAACTACAATAACAAATA
66 ACAATGGATTGAAACTACAATAACAAATA
* *
13843317 TTATCTCCCTAAGGATGCAGTGAAGCAAAATGAAACTAAAAATATTATATCCCTGAAATTGCAGT
1 TTATCTCCCTAAGGATGCAGTGAAGCAAAATGAAACTAAAAATATTACATCCCTAAAATTGCAGT
* * *
13843382 ACAATGGATTGAAACTATAACAACAAATC
66 ACAATGGATTGAAACTACAATAACAAATA
13843411 TTATCTCC
1 TTATCTCC
13843419 TTGATGTTGA
Statistics
Matches: 91, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
94 91 1.00
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.27
Consensus pattern (94 bp):
TTATCTCCCTAAGGATGCAGTGAAGCAAAATGAAACTAAAAATATTACATCCCTAAAATTGCAGT
ACAATGGATTGAAACTACAATAACAAATA
Found at i:13843307 original size:44 final size:44
Alignment explanation
Indices: 13843253--13843398 Score: 102
Period size: 44 Copynumber: 3.2 Consensus size: 44
13843243 TGGAGCAAAA
*
13843253 TGAAGCTACAAATATTACATCCCTAAAATTGCAGTAGAATGGAT
1 TGAAACTACAAATATTACATCCCTAAAATTGCAGTAGAATGGAT
* * *
13843297 TGAAACTACAATAACAAATATTATC-TCCCTAAGGA-TGCAGT-GAA-GCAAAA
1 TG-AA--AC--T-ACAAATATTA-CATCCCTAA-AATTGCAGTAGAATG--GAT
* * * *
13843347 TGAAACTAAAAATATTATATCCCTGAAATTGCAGTACAATGGAT
1 TGAAACTACAAATATTACATCCCTAAAATTGCAGTAGAATGGAT
13843391 TGAAACTA
1 TGAAACTA
13843399 TAACAACAAA
Statistics
Matches: 77, Mismatches: 11, Indels: 28
0.66 0.09 0.24
Matches are distributed among these distances:
43 1 0.01
44 32 0.42
45 5 0.06
46 1 0.01
47 3 0.04
48 1 0.01
49 6 0.08
50 26 0.34
51 2 0.03
ACGTcount: A:0.44, C:0.16, G:0.14, T:0.26
Consensus pattern (44 bp):
TGAAACTACAAATATTACATCCCTAAAATTGCAGTAGAATGGAT
Found at i:13843336 original size:50 final size:48
Alignment explanation
Indices: 13843260--13843418 Score: 129
Period size: 50 Copynumber: 3.3 Consensus size: 48
13843250 AAATGAAGCT
13843260 ACAAATATTA-CATCCCTAAAATTGCAGTAGAATGGATTGAAACTACAATA
1 ACAAATATTATC-TCCCT-AAATTGCAGTAGAATGGATTGAAACTA-AATA
*
13843310 ACAAATATTATCTCCCTAAGGA-TGCAGT-GAA-GCA---AAA-TGAAACTA
1 ACAAATATTATCTCCCTAA--ATTGCAGTAGAATGGATTGAAACT-AAA-TA
* * *
13843355 A-AAATATTATATCCCTGAAATTGCAGTACAATGGATTGAAACTATAACA
1 ACAAATATTATCTCCCT-AAATTGCAGTAGAATGGATTGAAACTA-AATA
*
13843404 ACAAATCTTATCTCC
1 ACAAATATTATCTCC
13843419 TTGATGTTGA
Statistics
Matches: 87, Mismatches: 7, Indels: 30
0.70 0.06 0.24
Matches are distributed among these distances:
43 1 0.01
44 23 0.26
45 11 0.13
46 2 0.02
48 2 0.02
49 11 0.13
50 35 0.40
51 2 0.02
ACGTcount: A:0.44, C:0.18, G:0.12, T:0.26
Consensus pattern (48 bp):
ACAAATATTATCTCCCTAAATTGCAGTAGAATGGATTGAAACTAAATA
Found at i:13843438 original size:94 final size:94
Alignment explanation
Indices: 13843223--13843447 Score: 261
Period size: 94 Copynumber: 2.4 Consensus size: 94
13843213 ATGGCGAATC
** * * * *
13843223 TTATCTCTTTAAGGATGCAGTGGAGCAAAATGAAGCTACAAATATTACATCCCTAAAATTGCAGT
1 TTATCTCCCTAAGGATGAAATGGAGCAAAATGAAACTAAAAATATTACATCCCTAAAATTGCAGT
* *
13843288 AGAATGGATTGAAACTACAATAACAAATA
66 ACAATGGATTGAAACTACAACAACAAATA
* * * * *
13843317 TTATCTCCCTAAGGATGCAGTGAAGCAAAATGAAACTAAAAATATTATATCCCTGAAATTGCAGT
1 TTATCTCCCTAAGGATGAAATGGAGCAAAATGAAACTAAAAATATTACATCCCTAAAATTGCAGT
* *
13843382 ACAATGGATTGAAACTATAACAACAAATC
66 ACAATGGATTGAAACTACAACAACAAATA
* * * * **
13843411 TTATCTCCTTGATGTTGAAATGGAGCAAGTTGAAACT
1 TTATCTCCCTAAGGATGAAATGGAGCAAAATGAAACT
13843448 GTAACACTAA
Statistics
Matches: 111, Mismatches: 20, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
94 111 1.00
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.28
Consensus pattern (94 bp):
TTATCTCCCTAAGGATGAAATGGAGCAAAATGAAACTAAAAATATTACATCCCTAAAATTGCAGT
ACAATGGATTGAAACTACAACAACAAATA
Found at i:13846434 original size:30 final size:31
Alignment explanation
Indices: 13846381--13846447 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 31
13846371 AATCTAAATT
13846381 TTAAAAAATATAAAGATTAAAATT-AACCAAA
1 TTAAAAAATATAAAGATTAAAATTGAA-CAAA
* * * *
13846412 TTAAAAAGTA-AATGATTGAAATTGAAGAAA
1 TTAAAAAATATAAAGATTAAAATTGAACAAA
13846442 TTAAAA
1 TTAAAA
13846448 TAAGATACCA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
30 20 0.65
31 11 0.35
ACGTcount: A:0.61, C:0.03, G:0.09, T:0.27
Consensus pattern (31 bp):
TTAAAAAATATAAAGATTAAAATTGAACAAA
Found at i:13847211 original size:15 final size:17
Alignment explanation
Indices: 13847173--13847220 Score: 55
Period size: 15 Copynumber: 2.8 Consensus size: 17
13847163 ATCTACTTAA
13847173 ATAATTACATAATATATT
1 ATAATTA-ATAATATATT
13847191 ATTAATTAATAA-AT-TT
1 A-TAATTAATAATATATT
*
13847207 ATAATTTATAATAT
1 ATAATTAATAATAT
13847221 CATTGAATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
15 9 0.33
16 5 0.19
17 2 0.07
18 5 0.19
19 6 0.22
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (17 bp):
ATAATTAATAATATATT
Found at i:13848995 original size:30 final size:30
Alignment explanation
Indices: 13848959--13849021 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
13848949 ACTTAACAAG
13848959 CAAATGTCTCTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
* *
13848989 CAAATGTCTTTAAAATAATAATAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
13849019 CAA
1 CAA
13849022 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.57, C:0.11, G:0.03, T:0.29
Consensus pattern (30 bp):
CAAATGTCTCTAAAATAATAACAAAATTAA
Found at i:13849493 original size:20 final size:20
Alignment explanation
Indices: 13849470--13849521 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
13849460 ATTAATTATT
*
13849470 TATAAAATTTAATTTAAATA
1 TATAAAATATAATTTAAATA
* *
13849490 TATAAACTATATTTTAAATA
1 TATAAAATATAATTTAAATA
13849510 T-TAAAATATAAT
1 TATAAAATATAAT
13849522 AAATAAATAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 9 0.33
20 18 0.67
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (20 bp):
TATAAAATATAATTTAAATA
Found at i:13860969 original size:13 final size:13
Alignment explanation
Indices: 13860953--13860979 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
13860943 TTTAAACCAA
13860953 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
13860966 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
13860979 A
1 A
13860980 TTGCCAAACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.22, G:0.07, T:0.30
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:13863133 original size:12 final size:12
Alignment explanation
Indices: 13863116--13863153 Score: 53
Period size: 11 Copynumber: 3.3 Consensus size: 12
13863106 CAGCCCGCCC
13863116 ATATTAATTTTT
1 ATATTAATTTTT
13863128 ATATT-ATTTTT
1 ATATTAATTTTT
*
13863139 ATA-TAATTTTA
1 ATATTAATTTTT
13863150 ATAT
1 ATAT
13863154 ATGTAATACA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
10 1 0.04
11 17 0.74
12 5 0.22
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:13864414 original size:31 final size:31
Alignment explanation
Indices: 13864360--13864435 Score: 98
Period size: 31 Copynumber: 2.5 Consensus size: 31
13864350 AGAATATAAT
* * * **
13864360 TTTTGGCCCCTAAACTTGGCAACTAGGTCCA
1 TTTTGGTCCCTAAAATTGACAACTAAATCCA
*
13864391 TTTTGGTCCTTAAAATTGACAACTAAATCCA
1 TTTTGGTCCCTAAAATTGACAACTAAATCCA
13864422 TTTTGGTCCCTAAA
1 TTTTGGTCCCTAAA
13864436 CTTGGATTAT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (31 bp):
TTTTGGTCCCTAAAATTGACAACTAAATCCA
Found at i:13864933 original size:30 final size:30
Alignment explanation
Indices: 13864899--13864955 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
13864889 AAATTCATGT
*
13864899 CAAAGT-AGACATAATTATCAAGTTTAATAC
1 CAAAGTCA-ACATAATTATCAAATTTAATAC
*
13864929 CAAAGTCAACTTAATTATCAAATTTAA
1 CAAAGTCAACATAATTATCAAATTTAA
13864956 AAACAAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 23 0.96
31 1 0.04
ACGTcount: A:0.47, C:0.14, G:0.07, T:0.32
Consensus pattern (30 bp):
CAAAGTCAACATAATTATCAAATTTAATAC
Found at i:13866296 original size:16 final size:16
Alignment explanation
Indices: 13866256--13866302 Score: 53
Period size: 15 Copynumber: 3.0 Consensus size: 16
13866246 CATTTAATAT
*
13866256 ATTATAT-TTAAAAAA
1 ATTATATCTAAAAAAA
*
13866271 ATTATTTCTAAATAAAA
1 ATTATATCTAAA-AAAA
13866288 ATTA-ATCTAAAAAAA
1 ATTATATCTAAAAAAA
13866303 TCAATTATGA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 10 0.37
16 9 0.33
17 8 0.30
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (16 bp):
ATTATATCTAAAAAAA
Found at i:13867044 original size:34 final size:35
Alignment explanation
Indices: 13866989--13867055 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
13866979 CAAACACCAG
*
13866989 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
13867024 AAAACATTTTCCTG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
13867056 TATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.45, C:0.13, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:13885680 original size:17 final size:16
Alignment explanation
Indices: 13885664--13885721 Score: 50
Period size: 16 Copynumber: 3.6 Consensus size: 16
13885654 AAAACAAAAT
13885664 TAAA-AATAAATATAAA
1 TAAATAATAAA-ATAAA
13885680 TAAATAATAAAAT-AA
1 TAAATAATAAAATAAA
* *
13885695 -AAATAAAACGAAAAAAA
1 TAAATAATA--AAATAAA
13885712 TAAATAATAA
1 TAAATAATAA
13885722 TAAACTTAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 10
0.72 0.06 0.21
Matches are distributed among these distances:
14 7 0.21
15 2 0.06
16 10 0.29
17 8 0.24
18 7 0.21
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.21
Consensus pattern (16 bp):
TAAATAATAAAATAAA
Found at i:13885712 original size:28 final size:29
Alignment explanation
Indices: 13885659--13885725 Score: 75
Period size: 28 Copynumber: 2.3 Consensus size: 29
13885649 AAACTAAAAC
* *
13885659 AAAATTAAAAATAAATATAAATAAAT-AAT
1 AAAA-TAAAAATAAATAGAAAAAAATAAAT
13885688 AAAATAAAAATAAA-ACGAAAAAAATAAAT
1 AAAATAAAAATAAATA-GAAAAAAATAAAT
13885717 AATAATAAA
1 AA-AATAAA
13885726 CTTAATGATA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
27 1 0.03
28 17 0.52
29 9 0.27
30 6 0.18
ACGTcount: A:0.76, C:0.01, G:0.01, T:0.21
Consensus pattern (29 bp):
AAAATAAAAATAAATAGAAAAAAATAAAT
Found at i:13885848 original size:5 final size:5
Alignment explanation
Indices: 13885838--13885909 Score: 51
Period size: 5 Copynumber: 13.6 Consensus size: 5
13885828 GTATAAGAAT
*
13885838 AATAA AATAA AA-AA ATTAGTAA AATAA AA-ATA AATAA TATAACA AATAA
1 AATAA AATAA AATAA A--A-TAA AATAA AATA-A AATAA AAT-A-A AATAA
13885887 TAA-AA AATAA AATAA AATAA AAT
1 -AATAA AATAA AATAA AATAA AAT
13885910 GGGTGGCTTG
Statistics
Matches: 55, Mismatches: 2, Indels: 20
0.71 0.03 0.26
Matches are distributed among these distances:
4 6 0.11
5 36 0.65
6 7 0.13
7 3 0.05
8 3 0.05
ACGTcount: A:0.75, C:0.01, G:0.01, T:0.22
Consensus pattern (5 bp):
AATAA
Found at i:13896420 original size:49 final size:49
Alignment explanation
Indices: 13896338--13896449 Score: 120
Period size: 49 Copynumber: 2.3 Consensus size: 49
13896328 GGTTATACAA
* *
13896338 TCACGAGTTTAAGTATAACTAGGGCTCCCAGTTGACGGTAGTTATGC-G
1 TCACGGGTTCAAGTATAACTAGGGCTCCCAGTTGACGGTAGTTATGCGG
* * ** *
13896386 TCCACGGGTTCAAGTATAACTTGGGC-CCTTAGTTGGTGGTGGTTATGCGG
1 T-CACGGGTTCAAGTATAACTAGGGCTCC-CAGTTGACGGTAGTTATGCGG
*
13896436 TCATGGGTTCAAGT
1 TCACGGGTTCAAGT
13896450 TTCATGCTCC
Statistics
Matches: 53, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
48 3 0.06
49 48 0.91
50 2 0.04
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.31
Consensus pattern (49 bp):
TCACGGGTTCAAGTATAACTAGGGCTCCCAGTTGACGGTAGTTATGCGG
Found at i:13900572 original size:36 final size:37
Alignment explanation
Indices: 13900504--13900664 Score: 227
Period size: 37 Copynumber: 4.3 Consensus size: 37
13900494 TCTAGCTTCA
* *
13900504 GCCGATTTGCTCCCTTGTTTCTTTTCTTTTC-TTTTCT
1 GCCGATTTGCTCCC-AGTTTATTTTCTTTTCTTTTTCT
13900541 GCCGATTTGCTCCCAGTTTATTTTCTTTTCTTTTTCT
1 GCCGATTTGCTCCCAGTTTATTTTCTTTTCTTTTTCT
*
13900578 GCTGATTTGCTCCCAGTTTATTTTCTTTTC-TTTTCT
1 GCCGATTTGCTCCCAGTTTATTTTCTTTTCTTTTTCT
* * *
13900614 GCCGATTTGCTCCCTCTGTTTCTTTTCTTTTCTTTTTCG
1 GCCGATTTGCT-CC-CAGTTTATTTTCTTTTCTTTTTCT
13900653 GCCGATTTGCTC
1 GCCGATTTGCTC
13900665 AGTTTCTACC
Statistics
Matches: 113, Mismatches: 7, Indels: 7
0.89 0.06 0.06
Matches are distributed among these distances:
36 30 0.27
37 51 0.45
38 16 0.14
39 16 0.14
ACGTcount: A:0.06, C:0.26, G:0.12, T:0.56
Consensus pattern (37 bp):
GCCGATTTGCTCCCAGTTTATTTTCTTTTCTTTTTCT
Found at i:13900608 original size:73 final size:76
Alignment explanation
Indices: 13900504--13900664 Score: 247
Period size: 75 Copynumber: 2.2 Consensus size: 76
13900494 TCTAGCTTCA
* *
13900504 GCCGATTTGCTCCCTTGTTTCTTTTCTTTTCTTTTCTGCCGATTTGCT-CC-CAGTTTATTTTCT
1 GCCGATTTGCTCCCTAGTTTATTTTCTTTTCTTTTCTGCCGATTTGCTCCCTCAGTTTATTTTCT
*
13900567 TTTCTTTTTCT
66 TTTCTTTTTCG
* * *
13900578 GCTGATTTGCTCCC-AGTTTATTTTCTTTTCTTTTCTGCCGATTTGCTCCCTCTGTTTCTTTTCT
1 GCCGATTTGCTCCCTAGTTTATTTTCTTTTCTTTTCTGCCGATTTGCTCCCTCAGTTTATTTTCT
13900642 TTTCTTTTTCG
66 TTTCTTTTTCG
13900653 GCCGATTTGCTC
1 GCCGATTTGCTC
13900665 AGTTTCTACC
Statistics
Matches: 78, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
73 31 0.40
74 15 0.19
75 32 0.41
ACGTcount: A:0.06, C:0.26, G:0.12, T:0.56
Consensus pattern (76 bp):
GCCGATTTGCTCCCTAGTTTATTTTCTTTTCTTTTCTGCCGATTTGCTCCCTCAGTTTATTTTCT
TTTCTTTTTCG
Found at i:13900668 original size:73 final size:72
Alignment explanation
Indices: 13900504--13900669 Score: 226
Period size: 73 Copynumber: 2.2 Consensus size: 72
13900494 TCTAGCTTCA
* *
13900504 GCCGATTTGCTCCCTTGTTTCTTTTCTTTTCTTTTCTGCCGATTTGCTCCCAGTTTATTTTCTTT
1 GCCGATTTGCT-CC-AGTTTATTTTCTTTTCTTTTCTGCCGATTTGCTCCCAGTTTATTTTCTTT
*
13900569 TCTTTTTCT
64 TCTTTTTCG
* * *
13900578 GCTGATTTGCTCCCAGTTTATTTTCTTTTCTTTTCTGCCGATTTGCTCCCTCTGTTTCTTTTCTT
1 GCCGATTTGCT-CCAGTTTATTTTCTTTTCTTTTCTGCCGATTTGCT-CC-CAGTTTATTTTCTT
13900643 TTCTTTTTCG
63 TTCTTTTTCG
13900653 GCCGATTTGCT-CAGTTT
1 GCCGATTTGCTCCAGTTT
13900670 CTACCGATTT
Statistics
Matches: 83, Mismatches: 7, Indels: 5
0.87 0.07 0.05
Matches are distributed among these distances:
73 37 0.45
74 15 0.18
75 31 0.37
ACGTcount: A:0.06, C:0.25, G:0.13, T:0.56
Consensus pattern (72 bp):
GCCGATTTGCTCCAGTTTATTTTCTTTTCTTTTCTGCCGATTTGCTCCCAGTTTATTTTCTTTTC
TTTTTCG
Found at i:13902714 original size:26 final size:26
Alignment explanation
Indices: 13902668--13902734 Score: 91
Period size: 26 Copynumber: 2.6 Consensus size: 26
13902658 TTGTATTAAT
13902668 ATCAAAAAATG-TGAGTACTACATGC
1 ATCAAAAAATGATGAGTACTACATGC
* * *
13902693 ATCAAAAAATGATTAGTGCTACATGG
1 ATCAAAAAATGATGAGTACTACATGC
*
13902719 ATAAAAAAATGATGAG
1 ATCAAAAAATGATGAG
13902735 ATCGTTATAA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
25 11 0.31
26 25 0.69
ACGTcount: A:0.48, C:0.10, G:0.18, T:0.24
Consensus pattern (26 bp):
ATCAAAAAATGATGAGTACTACATGC
Found at i:13902990 original size:23 final size:23
Alignment explanation
Indices: 13902921--13902993 Score: 71
Period size: 23 Copynumber: 3.3 Consensus size: 23
13902911 GTATATTAAA
13902921 ATATAATTAAAATCATTTTGATT
1 ATATAATTAAAATCATTTTGATT
*** * * *
13902944 ATATAA-TATTTTTA-ATTGA-A
1 ATATAATTAAAATCATTTTGATT
13902964 ATATAATTAAAATCATTTTGATT
1 ATATAATTAAAATCATTTTGATT
13902987 ATATAAT
1 ATATAAT
13902994 ATTAATATAA
Statistics
Matches: 35, Mismatches: 12, Indels: 6
0.66 0.23 0.11
Matches are distributed among these distances:
20 6 0.17
21 8 0.23
22 8 0.23
23 13 0.37
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.48
Consensus pattern (23 bp):
ATATAATTAAAATCATTTTGATT
Found at i:13903020 original size:43 final size:41
Alignment explanation
Indices: 13902915--13903020 Score: 142
Period size: 43 Copynumber: 2.5 Consensus size: 41
13902905 TTTAAGGTAT
13902915 ATTAAAATATAATTAAAATCATTTTGATTATATAATATTTTTA
1 ATTAAAATATAATTAAAATCATTTTGATTATATAATA--TTTA
*
13902958 ATTGAAATATAATTAAAATCATTTTGATTATATAATA-TTA
1 ATTAAAATATAATTAAAATCATTTTGATTATATAATATTTA
*
13902998 ATATAAAACTATACATTTAAATC
1 AT-TAAAA-TATA-ATTAAAATC
13903021 CAAAATATAA
Statistics
Matches: 57, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
40 5 0.09
41 4 0.07
42 4 0.07
43 44 0.77
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (41 bp):
ATTAAAATATAATTAAAATCATTTTGATTATATAATATTTA
Found at i:13905281 original size:11 final size:11
Alignment explanation
Indices: 13905265--13905291 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
13905255 TAGAAATTAG
13905265 TTTGTGAAACT
1 TTTGTGAAACT
13905276 TTTGTGAAACT
1 TTTGTGAAACT
13905287 TTTGT
1 TTTGT
13905292 ATTGATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.22, C:0.07, G:0.19, T:0.52
Consensus pattern (11 bp):
TTTGTGAAACT
Found at i:13906846 original size:91 final size:91
Alignment explanation
Indices: 13906699--13906906 Score: 317
Period size: 91 Copynumber: 2.3 Consensus size: 91
13906689 TTGATTTTAG
* * *
13906699 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCATTATTAATTTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTAT
* * *
13906764 ATTTAATATTAATTATTTTAAATTGTA
65 ATGTAATAATAATTATTTTAAATTATA
*
13906791 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
*
13906856 TGTAATAATAATTATTTTATATTATA
66 TGTAATAATAATTATTTTAAATTATA
* *
13906882 AAAATTAATATAAGAAAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
13906907 GTTATAATTA
Statistics
Matches: 106, Mismatches: 10, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
91 90 0.85
92 16 0.15
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.47
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
TGTAATAATAATTATTTTAAATTATA
Found at i:13906857 original size:28 final size:26
Alignment explanation
Indices: 13906821--13906881 Score: 68
Period size: 28 Copynumber: 2.3 Consensus size: 26
13906811 TATTATCAAG
* *
13906821 AATTTTATGAAATTATATATTATTATTA
1 AATTATATGAAATAATA-ATTATT-TTA
*
13906849 AATTATATGTAATAATAATTATTTTA
1 AATTATATGAAATAATAATTATTTTA
*
13906875 TATTATA
1 AATTATA
13906882 AAAATTAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 9 0.31
27 6 0.21
28 14 0.48
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.52
Consensus pattern (26 bp):
AATTATATGAAATAATAATTATTTTA
Found at i:13907323 original size:16 final size:16
Alignment explanation
Indices: 13907302--13907343 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
13907292 TTATTAAATT
*
13907302 ATATATTTTAATTATA
1 ATATATTTTAATAATA
13907318 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
13907333 AT-TATGTTTAA
1 ATATAT-TTTAA
13907344 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:13907328 original size:15 final size:15
Alignment explanation
Indices: 13907293--13907334 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
13907283 TAAGTAATTT
*
13907293 TATTAAATTAT-ATA
1 TATTTAATTATAATA
13907307 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
13907321 TATTTAATAATAAT
1 TATTTAATTATAAT
13907335 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:13907582 original size:16 final size:16
Alignment explanation
Indices: 13907557--13907594 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
13907547 TTGATTTGTT
13907557 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
*
13907573 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
*
13907589 AATACA
1 ATTACA
13907595 GCGAACCAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.29, C:0.34, G:0.03, T:0.34
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:13910376 original size:3 final size:3
Alignment explanation
Indices: 13910368--13910394 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
13910358 TAATCAAAAT
13910368 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
13910395 ATACTATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:13912755 original size:16 final size:16
Alignment explanation
Indices: 13912734--13912764 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13912724 ATATTTTATA
13912734 AATAAAAATTAAGAAT
1 AATAAAAATTAAGAAT
*
13912750 AATAAAAATTTAGAA
1 AATAAAAATTAAGAA
13912765 CTATACTATA
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:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (16 bp):
AATAAAAATTAAGAAT
Found at i:13915559 original size:44 final size:44
Alignment explanation
Indices: 13915496--13915582 Score: 147
Period size: 44 Copynumber: 2.0 Consensus size: 44
13915486 CGCTTGGTAC
* *
13915496 GCTTCATTTTGGTCATAAAAATGGAATCATAAAGCTTATGTTTT
1 GCTTCATTTTGGTCATAAAAATGGAACCATAAAGCTTAGGTTTT
*
13915540 GCTTCATTTTGGTCATAAAATTGGAACCATAAAGCTTAGGTTT
1 GCTTCATTTTGGTCATAAAAATGGAACCATAAAGCTTAGGTTT
13915583 GGCGGTAATT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.31, C:0.13, G:0.17, T:0.39
Consensus pattern (44 bp):
GCTTCATTTTGGTCATAAAAATGGAACCATAAAGCTTAGGTTTT
Found at i:13919230 original size:25 final size:24
Alignment explanation
Indices: 13919198--13919388 Score: 84
Period size: 25 Copynumber: 7.6 Consensus size: 24
13919188 TATTATTCGG
13919198 AAAA-CCTTAGTGGCAAATTATCT
1 AAAAGCCTTAGTGGCAAATTATCT
* ** *
13919221 AAAAGGCCTTTGTGGCGTATCAT-T
1 AAAA-GCCTTAGTGGCAAATTATCT
*
13919245 CAGAAAGCCTTAGTGGAAAAGTTATCT
1 -A-AAAGCCTTAGTGGCAAA-TTATCT
* * *
13919272 AAGAAACTTTTA-TAGCAAATTATCT
1 AA-AAGC-CTTAGTGGCAAATTATCT
* * * *
13919297 AAAAAGCTTTTGTGGCATATTATTCG
1 -AAAAGCCTTAGTGGCAAATTA-TCT
*
13919323 AAAAGCCTTAGTGGCGAAGTTATCT
1 AAAAGCCTTAGTGGC-AAATTATCT
** *
13919348 GGGAAGCTCTT-GTGGCGAATTATCT
1 -AAAAGC-CTTAGTGGCAAATTATCT
* *
13919373 GAAATGCCTTTGTGGC
1 -AAAAGCCTTAGTGGC
13919389 GAGATCTGGG
Statistics
Matches: 123, Mismatches: 30, Indels: 28
0.68 0.17 0.15
Matches are distributed among these distances:
23 4 0.03
24 7 0.06
25 73 0.59
26 32 0.26
27 7 0.06
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.32
Consensus pattern (24 bp):
AAAAGCCTTAGTGGCAAATTATCT
Found at i:13919260 original size:50 final size:46
Alignment explanation
Indices: 13919162--13919273 Score: 125
Period size: 50 Copynumber: 2.3 Consensus size: 46
13919152 TATGCCTTTT
* * *
13919162 TGGCAAATTATCTGAAAGGCGTAGCGTATTATTCGGAAAACCTTAG
1 TGGCAAATTATCTAAAAGGCGTAGCGTATCATTCAGAAAACCTTAG
* *
13919208 TGGCAAATTATCTAAAAGGCCTTTGTGGCGTATCATTCAGAAAGCCTTAG
1 TGGCAAATTATCTAAAAGG-C---GTAGCGTATCATTCAGAAAACCTTAG
*
13919258 TGGAAAAGTTATCTAA
1 TGGCAAA-TTATCTAA
13919274 GAAACTTTTA
Statistics
Matches: 55, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
46 18 0.33
47 1 0.02
50 28 0.51
51 8 0.15
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.29
Consensus pattern (46 bp):
TGGCAAATTATCTAAAAGGCGTAGCGTATCATTCAGAAAACCTTAG
Found at i:13919369 original size:76 final size:76
Alignment explanation
Indices: 13919199--13919388 Score: 213
Period size: 76 Copynumber: 2.5 Consensus size: 76
13919189 ATTATTCGGA
* *
13919199 AAAC-CTTAGTGGCAAATTATCTAAAAGGCCTTTGTGGCGTATCATTCAGAAAGCCTTAGTGGAA
1 AAACTCTT-GTGGCAAATTATCTAAAAAGCCTTTGTGGCATATCATTCAGAAAGCCTTAGTGGAA
13919263 AAGTTATCTAAG
65 AAGTTATCTAAG
* * * * * **
13919275 AAACTTTTATAGCAAATTATCTAAAAAGCTTTTGTGGCATATTATTC-GAAAAGCCTTAGTGGCG
1 AAACTCTTGTGGCAAATTATCTAAAAAGCCTTTGTGGCATATCATTCAG-AAAGCCTTAGTGGAA
**
13919339 AAGTTATCTGGG
65 AAGTTATCTAAG
* * * *
13919351 AAGCTCTTGTGGCGAATTATCTGAAATGCCTTTGTGGC
1 AAACTCTTGTGGCAAATTATCTAAAAAGCCTTTGTGGC
13919389 GAGATCTGGG
Statistics
Matches: 93, Mismatches: 19, Indels: 4
0.80 0.16 0.03
Matches are distributed among these distances:
75 1 0.01
76 90 0.97
77 2 0.02
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.32
Consensus pattern (76 bp):
AAACTCTTGTGGCAAATTATCTAAAAAGCCTTTGTGGCATATCATTCAGAAAGCCTTAGTGGAAA
AGTTATCTAAG
Found at i:13924867 original size:13 final size:13
Alignment explanation
Indices: 13924849--13924873 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13924839 TTCTAATTAT
13924849 ATATATTTTTAAA
1 ATATATTTTTAAA
13924862 ATATATTTTTAA
1 ATATATTTTTAA
13924874 TATTTTACCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
ATATATTTTTAAA
Found at i:13930029 original size:32 final size:32
Alignment explanation
Indices: 13929988--13930051 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
13929978 ATTAGTATGT
13929988 AGATAAACAAAGTTACATGACAATGATTGATC
1 AGATAAACAAAGTTACATGACAATGATTGATC
13930020 AGATAAACAAAGTTACATGACAATGATTGATC
1 AGATAAACAAAGTTACATGACAATGATTGATC
13930052 TTGAGTACTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.47, C:0.12, G:0.16, T:0.25
Consensus pattern (32 bp):
AGATAAACAAAGTTACATGACAATGATTGATC
Found at i:13934896 original size:11 final size:11
Alignment explanation
Indices: 13934880--13934963 Score: 66
Period size: 11 Copynumber: 7.6 Consensus size: 11
13934870 AGCAATTATC
*
13934880 CAACATTCAGA
1 CAACATTTAGA
13934891 CAACATTTA-A
1 CAACATTTAGA
* *
13934901 TTAACATTTGGA
1 -CAACATTTAGA
13934913 CAACATTTA-A
1 CAACATTTAGA
*
13934923 TCAACAATTAGA
1 -CAACATTTAGA
*
13934935 CAACATTCA-A
1 CAACATTTAGA
*
13934945 TCAACATTTGGA
1 -CAACATTTAGA
13934957 CAACATT
1 CAACATT
13934964 CAATCAACAA
Statistics
Matches: 57, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
10 3 0.05
11 51 0.89
12 3 0.05
ACGTcount: A:0.44, C:0.20, G:0.07, T:0.29
Consensus pattern (11 bp):
CAACATTTAGA
Found at i:13934914 original size:22 final size:22
Alignment explanation
Indices: 13934880--13935060 Score: 209
Period size: 22 Copynumber: 8.2 Consensus size: 22
13934870 AGCAATTATC
**
13934880 CAACATTCAGACAACATTTAAT
1 CAACATTTGGACAACATTTAAT
*
13934902 TAACATTTGGACAACATTTAAT
1 CAACATTTGGACAACATTTAAT
* * *
13934924 CAACAATTAGACAACATTCAAT
1 CAACATTTGGACAACATTTAAT
*
13934946 CAACATTTGGACAACATTCAAT
1 CAACATTTGGACAACATTTAAT
* * * *
13934968 CAACAATTGGATAGCATTAAAT
1 CAACATTTGGACAACATTTAAT
* *
13934990 CAACATTTGAACAGCATTTAAT
1 CAACATTTGGACAACATTTAAT
* *
13935012 CAACAATTGGACAACATTCAAT
1 CAACATTTGGACAACATTTAAT
* *
13935034 CAATATTTGGACAGCATTTAAT
1 CAACATTTGGACAACATTTAAT
13935056 CAACA
1 CAACA
13935061 ATTTTTACTT
Statistics
Matches: 133, Mismatches: 26, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 133 1.00
ACGTcount: A:0.44, C:0.19, G:0.09, T:0.28
Consensus pattern (22 bp):
CAACATTTGGACAACATTTAAT
Found at i:13934936 original size:44 final size:44
Alignment explanation
Indices: 13934880--13935063 Score: 244
Period size: 44 Copynumber: 4.2 Consensus size: 44
13934870 AGCAATTATC
* *
13934880 CAAC-ATTCAGACAACATTTAATTAACATTTGGACAACATTTAAT
1 CAACAATT-AGACAACATTCAATCAACATTTGGACAACATTTAAT
*
13934924 CAACAATTAGACAACATTCAATCAACATTTGGACAACATTCAAT
1 CAACAATTAGACAACATTCAATCAACATTTGGACAACATTTAAT
* * * * * *
13934968 CAACAATTGGATAGCATTAAATCAACATTTGAACAGCATTTAAT
1 CAACAATTAGACAACATTCAATCAACATTTGGACAACATTTAAT
* * *
13935012 CAACAATTGGACAACATTCAATCAATATTTGGACAGCATTTAAT
1 CAACAATTAGACAACATTCAATCAACATTTGGACAACATTTAAT
13935056 CAACAATT
1 CAACAATT
13935064 TTTACTTCAA
Statistics
Matches: 124, Mismatches: 15, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
44 121 0.98
45 3 0.02
ACGTcount: A:0.43, C:0.19, G:0.09, T:0.29
Consensus pattern (44 bp):
CAACAATTAGACAACATTCAATCAACATTTGGACAACATTTAAT
Found at i:13934959 original size:66 final size:67
Alignment explanation
Indices: 13934880--13935063 Score: 237
Period size: 66 Copynumber: 2.8 Consensus size: 67
13934870 AGCAATTATC
** * * *
13934880 CAACATTCAGACAACATTTAATTAACATTTGGACAACATTTAATCAACAATTAG-ACAACATTCA
1 CAACATTTGGACAACATTCAATCAACATTTGGACAGCATTTAATCAACAATTAGAACAACATTCA
13934944 AT
66 AT
* * * * * *
13934946 CAACATTTGGACAACATTCAATCAACAATTGGATAGCATTAAATCAAC-ATTTGAACAGCATTTA
1 CAACATTTGGACAACATTCAATCAACATTTGGACAGCATTTAATCAACAATTAGAACAACATTCA
13935010 AT
66 AT
* *
13935012 CAACAATTGGACAACATTCAATCAATATTTGGACAGCATTTAATCAACAATT
1 CAACATTTGGACAACATTCAATCAACATTTGGACAGCATTTAATCAACAATT
13935064 TTTACTTCAA
Statistics
Matches: 100, Mismatches: 16, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
65 4 0.04
66 93 0.93
67 3 0.03
ACGTcount: A:0.43, C:0.19, G:0.09, T:0.29
Consensus pattern (67 bp):
CAACATTTGGACAACATTCAATCAACATTTGGACAGCATTTAATCAACAATTAGAACAACATTCA
AT
Found at i:13937898 original size:20 final size:20
Alignment explanation
Indices: 13937873--13937910 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
13937863 TATATTTAAA
13937873 ATGTTA-TGTTTTAGTTACTT
1 ATGTTATTGTTTTA-TTACTT
13937893 ATGTTATTGTTTTATTAC
1 ATGTTATTGTTTTATTAC
13937911 GAAGTGGTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.21, C:0.05, G:0.13, T:0.61
Consensus pattern (20 bp):
ATGTTATTGTTTTATTACTT
Found at i:13944011 original size:44 final size:45
Alignment explanation
Indices: 13943948--13944158 Score: 228
Period size: 51 Copynumber: 4.5 Consensus size: 45
13943938 AGTACTTCTA
13943948 ATCAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATC-TG
1 ATCAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCATG
* *
13943992 ATCAGTGACAAGTGATAAGTGGTAGCTTTAGGTACACTTATCTAATC
1 ATCAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATC--ATG
*
13944039 AGTGACAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTAATCA
1 A-T--C-AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATC--AT-G
*
13944091 ATGACAAGTAACAAGTGATAAGTGGTAGCTTTAGCTACACTTATC-TG
1 AT--C-AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCATG
* * * *
13944138 ATCGGGGATAAGTGACAAGTG
1 ATCAGTGACAAGTGATAAGTG
13944159 ATAAATGTGA
Statistics
Matches: 148, Mismatches: 11, Indels: 16
0.85 0.06 0.09
Matches are distributed among these distances:
44 54 0.36
45 1 0.01
47 4 0.03
48 2 0.01
50 1 0.01
51 85 0.57
52 1 0.01
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (45 bp):
ATCAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCATG
Found at i:13944050 original size:51 final size:51
Alignment explanation
Indices: 13943995--13944162 Score: 273
Period size: 51 Copynumber: 3.3 Consensus size: 51
13943985 TTATCTGATC
*
13943995 AGTGACAAGTGATAAGTGGTAGCTTTAGGTACACTTATCTAATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTAATCAGTGACA
*
13944046 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTAATCAATGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTAATCAGTGACA
* * * * *
13944097 AGTAACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCGGGGATA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTAATCAGTGACA
13944148 AGTGACAAGTGATAA
1 AGTGACAAGTGATAA
13944163 ATGTGATCTG
Statistics
Matches: 108, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 108 1.00
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.29
Consensus pattern (51 bp):
AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTAATCAGTGACA
Found at i:13944107 original size:95 final size:96
Alignment explanation
Indices: 13943951--13944162 Score: 282
Period size: 95 Copynumber: 2.2 Consensus size: 96
13943941 ACTTCTAATC
* * * *
13943951 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGA-TAAGTGGT
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTAATCAATGACAAGTAACAAAGTGGT
* *
13944015 AGCTTTAGGTACACTTATCTAATCAGTGACA
66 AGCTTTAGCTACACTTATCTAATCAGGGACA
13944046 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTAATCAATGACAAGTAACAAGTGATA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTAATCAATGACAAGTAAC-----A-A
* * *
13944111 AGTGGTAGCTTTAGCTACACTTATCTGATCGGGGATA
60 AGTGGTAGCTTTAGCTACACTTATCTAATCAGGGACA
13944148 AGTGACAAGTGATAA
1 AGTGACAAGTGATAA
13944163 ATGTGATCTG
Statistics
Matches: 101, Mismatches: 9, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
95 53 0.52
102 48 0.48
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.29
Consensus pattern (96 bp):
AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTAATCAATGACAAGTAACAAAGTGGT
AGCTTTAGCTACACTTATCTAATCAGGGACA
Found at i:13945481 original size:90 final size:90
Alignment explanation
Indices: 13945327--13945503 Score: 309
Period size: 90 Copynumber: 2.0 Consensus size: 90
13945317 AGTTAGTGAA
13945327 CACTGCACCAATGGATACATCATTTTTTACTGATGGTGCTAACACCATACACCCAAACCAAATTT
1 CACTGCACCAATGGATACATCATTTTTTACTGATGGTGCTAACACCATACACCCAAACCAAATTT
* *
13945392 GGCCTAAACTCGATCTATGAACACT
66 GGCCTAAACCCAATCTATGAACACT
* * *
13945417 CACTGCACCAGTGGATACATCATTTTTTACTGGTGGTGCTAACACCATACACCCAAACCCAATTT
1 CACTGCACCAATGGATACATCATTTTTTACTGATGGTGCTAACACCATACACCCAAACCAAATTT
13945482 GGCCTAAACCCAATCTATGAAC
66 GGCCTAAACCCAATCTATGAAC
13945504 GCTGACGCAC
Statistics
Matches: 82, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
90 82 1.00
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.26
Consensus pattern (90 bp):
CACTGCACCAATGGATACATCATTTTTTACTGATGGTGCTAACACCATACACCCAAACCAAATTT
GGCCTAAACCCAATCTATGAACACT
Found at i:13955020 original size:98 final size:98
Alignment explanation
Indices: 13954847--13955041 Score: 363
Period size: 98 Copynumber: 2.0 Consensus size: 98
13954837 TACAATAAAA
*
13954847 CTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATTC
1 CTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTC
*
13954912 CTCTAGAATCCCAAACTCGGAATATTTCCTTTT
66 CTCTAAAATCCCAAACTCGGAATATTTCCTTTT
13954945 CTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTC
1 CTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTC
*
13955010 CTTTAAAATCCCAAACTCGGAATATTTCCTTT
66 CTCTAAAATCCCAAACTCGGAATATTTCCTTT
13955042 ATTTTTTTAA
Statistics
Matches: 94, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
98 94 1.00
ACGTcount: A:0.36, C:0.25, G:0.10, T:0.29
Consensus pattern (98 bp):
CTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTC
CTCTAAAATCCCAAACTCGGAATATTTCCTTTT
Found at i:13956375 original size:23 final size:22
Alignment explanation
Indices: 13956332--13956389 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
13956322 AAAGGGTATC
* *
13956332 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
13956353 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
13956376 TACATATCATATCT
1 TACAAATCATATCT
13956390 AAGATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 18 0.56
23 11 0.34
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:13956392 original size:19 final size:19
Alignment explanation
Indices: 13956345--13956442 Score: 106
Period size: 19 Copynumber: 4.8 Consensus size: 19
13956335 AAATTAAATC
*
13956345 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
13956365 TCTTCTAAGATTACATATCATA
1 ---TCTAAGATTACATATCATA
*
13956387 TCTAAGATTGCATATATCATA
1 TCTAAGATT--ACATATCATA
*
13956408 TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATA
*
13956427 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
13956443 CTCAAAAATT
Statistics
Matches: 69, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
19 33 0.48
21 18 0.26
22 7 0.10
23 11 0.16
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.37
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:13956405 original size:21 final size:21
Alignment explanation
Indices: 13956379--13956441 Score: 112
Period size: 21 Copynumber: 3.1 Consensus size: 21
13956369 CTAAGATTAC
13956379 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
13956400 ATATCATATCTAAGATTGC--
1 ATATCATATCTAAGATTGCAT
13956419 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
13956440 AT
1 AT
13956442 CCTCAAAAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
19 19 0.47
21 21 0.52
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (21 bp):
ATATCATATCTAAGATTGCAT
Found at i:13956807 original size:44 final size:44
Alignment explanation
Indices: 13956758--13957467 Score: 137
Period size: 44 Copynumber: 16.2 Consensus size: 44
13956748 ACTGTAACCA
*
13956758 CAGGGAGGTAAAATCCACCATCTTCGATCTACTCCACTACTGCT
1 CAGGGAGGTAAAATCCACCATCTTCAATCTACTCCACTACTGCT
* * * * * * ** *
13956802 TAGGGAGATAAGATCTGA-AATCTTCAATCTATTCCACTGTTGCC
1 CAGGGAGGTAAAATC-CACCATCTTCAATCTACTCCACTACTGCT
* * * *** * * *
13956846 CAGGGAAGTAGAAT-TACTGGCTTCAATGTACTCCACTA-TAACCA
1 CAGGGAGGTAAAATCCACCATCTTCAATCTACTCCACTACT--GCT
* * * *
13956890 CAAGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCT
1 CAGGGAGGTAAAATCCACCATCTTCAATCTACTCCACTACTGCT
* * * * * * **
13956934 TAGGGAGATAAGATCTGA-AATCTTCAATCTATTCCACTGTTG-T
1 CAGGGAGGTAAAATC-CACCATCTTCAATCTACTCCACTACTGCT
* * * *** * * *
13956977 CCAGGGAAGTAGAAT-TACTGGCTTCAATGTACTCCACTA-TAACCA
1 -CAGGGAGGTAAAATCCACCATCTTCAATCTACTCCACTACT--GCT
** * * *
13957022 CAGGGAGGTAAAATCTGCCATCTCCGATCTGCTCCACTACTGCT
1 CAGGGAGGTAAAATCCACCATCTTCAATCTACTCCACTACTGCT
* * * * * * **
13957066 TAGGGAGATAAGATCTGA-AATCTTCAATCTATTCCACTGTTG-T
1 CAGGGAGGTAAAATC-CACCATCTTCAATCTACTCCACTACTGCT
* * * * *** * *
13957109 CCAAGGAAGTAGAAT-TACTGGCTTCAATGTACTCCACTGTAAC--CA
1 -CAGGGAGGTAAAATCCACCATCTTCAATCTACTCCAC--T-ACTGCT
* * * *
13957154 CAGGGAGGTAAAATCCGCCATCTTCGATCTGCCCCACTACTGCT
1 CAGGGAGGTAAAATCCACCATCTTCAATCTACTCCACTACTGCT
* * * * * * **
13957198 TAGGGAGATAATATCTGA-AATCTTCAATCTATTCCACTGTTG-T
1 CAGGGAGGTAAAATC-CACCATCTTCAATCTACTCCACTACTGCT
* * * *** * * *
13957241 CCAGGGAAGTAGAAT-TACTGGCTTCAATGTACTCCACTA-TAACCA
1 -CAGGGAGGTAAAATCCACCATCTTCAATCTACTCCACTACT--GCT
* * *
13957286 CAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCT
1 CAGGGAGGTAAAATCCACCATCTTCAATCTACTCCACTACTGCT
* * * ** * * * *
13957330 TAGGGAGATAAGATCTGCAATATTCAATCTATTCCACT-GTGC-
1 CAGGGAGGTAAAATCCACCATCTTCAATCTACTCCACTACTGCT
* * * *** * * *
13957372 CTAGGGAAGTAGAAT-TACTGGCTTCAATGTACTCCACTA-TAACCA
1 C-AGGGAGGTAAAATCCACCATCTTCAATCTACTCCACTACT--GCT
* * *
13957417 CAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCT
1 CAGGGAGGTAAAATCCACCATCTTCAATCTACTCCACTACTGCT
*
13957461 TAGGGAG
1 CAGGGAG
13957468 ATAAGATCTG
Statistics
Matches: 438, Mismatches: 189, Indels: 78
0.62 0.27 0.11
Matches are distributed among these distances:
42 26 0.06
43 75 0.17
44 253 0.58
45 80 0.18
46 4 0.01
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (44 bp):
CAGGGAGGTAAAATCCACCATCTTCAATCTACTCCACTACTGCT
Found at i:13956911 original size:132 final size:132
Alignment explanation
Indices: 13956671--13957583 Score: 1532
Period size: 132 Copynumber: 6.9 Consensus size: 132
13956661 CTGCAACTAC
* * * * * *
13956671 AGGGAGATAAGA-CTTACAATCTTCAATCTATTCCACTGCTGACTAGGG-AGATAGGATTACTGA
1 AGGGAGATAAGATCTGA-AATCTTCAATCTATTCCACTGTTGCCCAGGGAAG-TAGAATTACTGG
* * *
13956734 CTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCACCATCTTCGATCTACTCCACTACT
64 CTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACT
13956799 GCTT
129 GCTT
13956803 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCT
*
13956868 TCAATGTACTCCACTATAACCACAAGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
13956933 TT
131 TT
*
13956935 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCT
* *
13957000 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCTGCCATCTCCGATCTGCTCCACTACTGC
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
13957065 TT
131 TT
* *
13957067 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAAGGAAGTAGAATTACTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCT
* *
13957132 TCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCCCCACTACTGC
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
13957197 TT
131 TT
* *
13957199 AGGGAGATAATATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCT
13957264 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
13957329 TT
131 TT
* * *
13957331 AGGGAGATAAGATCTGCAATATTCAATCTATTCCACTG-TGCCTAGGGAAGTAGAATTACTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCT
13957395 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
13957460 TT
131 TT
* * *
13957462 AGGGAGATAAGATCTGAAATCTTCAATATATTCCATTGTTGCCTAGGGAAGTAGAATTACTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCT
*
13957527 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATTCG-C--CTTCGATCTGCTCCACT
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACT
13957584 GTCAATGCAG
Statistics
Matches: 745, Mismatches: 33, Indels: 9
0.95 0.04 0.01
Matches are distributed among these distances:
129 17 0.02
131 126 0.17
132 597 0.80
133 5 0.01
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (132 bp):
AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCT
TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
TT
Found at i:13961677 original size:98 final size:98
Alignment explanation
Indices: 13961504--13961698 Score: 354
Period size: 98 Copynumber: 2.0 Consensus size: 98
13961494 TACAATAAAA
*
13961504 CTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATTC
1 CTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTC
*
13961569 CTCTAGAATCCCAAACTCGGAATATTTCCTTTT
66 CTCTAAAATCCCAAACTCGGAATATTTCCTTTT
*
13961602 CTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACTCAATACGTTAGGGCACAATTC
1 CTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTC
*
13961667 CTTTAAAATCCCAAACTCGGAATATTTCCTTT
66 CTCTAAAATCCCAAACTCGGAATATTTCCTTT
13961699 ATTATTTTAA
Statistics
Matches: 93, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 93 1.00
ACGTcount: A:0.36, C:0.25, G:0.10, T:0.29
Consensus pattern (98 bp):
CTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTC
CTCTAAAATCCCAAACTCGGAATATTTCCTTTT
Found at i:13963025 original size:23 final size:22
Alignment explanation
Indices: 13962982--13963039 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
13962972 AAAGGGTATC
* *
13962982 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
13963003 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
13963026 TACATATCATATCT
1 TACAAATCATATCT
13963040 AAGATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 18 0.56
23 11 0.34
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:13963042 original size:19 final size:19
Alignment explanation
Indices: 13962995--13963111 Score: 126
Period size: 19 Copynumber: 5.8 Consensus size: 19
13962985 AAATTAAATC
*
13962995 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
13963015 TCTTCTAAGATTACATATCATA
1 ---TCTAAGATTACATATCATA
*
13963037 TCTAAGATTGCATATATCATA
1 TCTAAGATT--ACATATCATA
*
13963058 TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATA
* *
13963077 TCTAGGATTGCATATCATA
1 TCTAAGATTACATATCATA
*
13963096 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
13963112 CTCAAAAATT
Statistics
Matches: 86, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
19 50 0.58
21 18 0.21
22 7 0.08
23 11 0.13
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.37
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:13963055 original size:21 final size:19
Alignment explanation
Indices: 13963018--13963111 Score: 152
Period size: 19 Copynumber: 4.8 Consensus size: 19
13963008 AATCATATCT
*
13963018 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
13963037 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
13963058 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
13963077 TCTAGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
13963096 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
13963112 CTCAAAAATT
Statistics
Matches: 70, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
19 51 0.73
21 19 0.27
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:13987148 original size:2 final size:2
Alignment explanation
Indices: 13987141--13987182 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
13987131 AAACATACAG
*
13987141 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13987183 CTCACAACCT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13987645 original size:2 final size:2
Alignment explanation
Indices: 13987638--13987686 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
13987628 ATGATTTTGA
13987638 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13987680 AT AT AT A
1 AT AT AT A
13987687 ACAAATATTA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:13993941 original size:20 final size:20
Alignment explanation
Indices: 13993918--13993956 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
13993908 TTTAAAATTG
13993918 AGATGCAATGCCTAAATTTT
1 AGATGCAATGCCTAAATTTT
** *
13993938 AGATGTGATTCCTAAATTT
1 AGATGCAATGCCTAAATTT
13993957 ATCCATTTTG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.38
Consensus pattern (20 bp):
AGATGCAATGCCTAAATTTT
Found at i:14001660 original size:42 final size:41
Alignment explanation
Indices: 14001574--14001822 Score: 306
Period size: 42 Copynumber: 6.0 Consensus size: 41
14001564 TGCTTACAGA
* * *
14001574 AAAAAACGCCGCTAAAAATCATGTTCTTTAGCGGTGCTTAG
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTGG
*
14001615 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCACTTGGG
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT-GG
14001657 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTGG
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTGG
* *
14001698 AAGAAAACGCCGGTAAAGATCATGTTCTTTAGCAGCGCTTAGG
1 AA-AAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT-GG
* * **
14001741 AAGAAAACGCCGCTAAA-AGTAATGTTCTATAGCAACGCTTGG
1 AA-AAAACGCCGCTAAAGA-TCATGTTCTTTAGCGGCGCTTGG
*
14001783 TCAAAAACGCCGCTAAA-AGT-AGTGTTCTTTAGCGGCGCTT
1 -AAAAAACGCCGCTAAAGA-TCA-TGTTCTTTAGCGGCGCTT
14001823 ATTTCACAAA
Statistics
Matches: 187, Mismatches: 15, Indels: 11
0.88 0.07 0.05
Matches are distributed among these distances:
41 41 0.22
42 109 0.58
43 37 0.20
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.24
Consensus pattern (41 bp):
AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTGG
Found at i:14001789 original size:127 final size:125
Alignment explanation
Indices: 14001576--14001822 Score: 329
Period size: 127 Copynumber: 2.0 Consensus size: 125
14001566 CTTACAGAAA
* * *
14001576 AAAACGCCGCTAAAAATCATGTTCTTTAGCGGTGCTTAGAAAAAACGCCGCTAAAGATCATGTTC
1 AAAACGCCGCTAAAAATCATGTTCTTTAGCAGCGCTTAGAAAAAACGCCGCTAAAGATAATGTTC
* **
14001641 TTTAGCGGCACTTGGGAAAAAACGCCGCT-AAAGATCA-TGTTCTTTAGCGGCGCTTGGAAG
66 TATAGCAACACTTGGGAAAAAACGCCGCTAAAAG-T-AGTGTTCTTTAGCGGCGCTTGGAAG
* *
14001701 AAAACGCCGGTAAAGATCATGTTCTTTAGCAGCGCTTAGGAAGAAAACGCCGCTAAA-AGTAATG
1 AAAACGCCGCTAAAAATCATGTTCTTTAGCAGCGCTTA-GAA-AAAACGCCGCTAAAGA-TAATG
* **
14001765 TTCTATAGCAACGCTTGGTCAAAAACGCCGCTAAAAGTAGTGTTCTTTAGCGGCGCTT
63 TTCTATAGCAACACTTGGGAAAAAACGCCGCTAAAAGTAGTGTTCTTTAGCGGCGCTT
14001823 ATTTCACAAA
Statistics
Matches: 106, Mismatches: 11, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
125 34 0.32
126 5 0.05
127 63 0.59
128 4 0.04
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.25
Consensus pattern (125 bp):
AAAACGCCGCTAAAAATCATGTTCTTTAGCAGCGCTTAGAAAAAACGCCGCTAAAGATAATGTTC
TATAGCAACACTTGGGAAAAAACGCCGCTAAAAGTAGTGTTCTTTAGCGGCGCTTGGAAG
Found at i:14001790 original size:85 final size:83
Alignment explanation
Indices: 14001574--14001823 Score: 317
Period size: 85 Copynumber: 3.0 Consensus size: 83
14001564 TGCTTACAGA
* * *
14001574 AAAAAACGCCGCTAAAAATCATGTTCTTTAGCGGTGCTTAGAAAAAACGCCGCTAAAGATCATGT
1 AAAAAACGCCGCTAAAAGTCATGTTCTTTAGCGGCGCTTGGAAAAAACGCCGCTAAAGATCATGT
* *
14001639 TCTTTAGCGGCACTTGGG
66 TCTTTAGCGGCGCTTAGG
*
14001657 AAAAAACGCCGCT-AAAGATCATGTTCTTTAGCGGCGCTTGGAAGAAAACGCCGGTAAAGATCAT
1 AAAAAACGCCGCTAAAAG-TCATGTTCTTTAGCGGCGCTTGGAA-AAAACGCCGCTAAAGATCAT
*
14001721 GTTCTTTAGCAGCGCTTAGG
64 GTTCTTTAGCGGCGCTTAGG
* * ** *
14001741 AAGAAAACGCCGCTAAAAGTAATGTTCTATAGCAACGCTTGGTCAAAAACGCCGCTAAA-AGT-A
1 AA-AAAACGCCGCTAAAAGTCATGTTCTTTAGCGGCGCTTGG-AAAAAACGCCGCTAAAGA-TCA
14001804 GTGTTCTTTAGCGGCGCTTA
63 -TGTTCTTTAGCGGCGCTTA
14001824 TTTCACAAAC
Statistics
Matches: 146, Mismatches: 14, Indels: 12
0.85 0.08 0.07
Matches are distributed among these distances:
82 3 0.02
83 36 0.25
84 40 0.27
85 62 0.42
86 5 0.03
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.24
Consensus pattern (83 bp):
AAAAAACGCCGCTAAAAGTCATGTTCTTTAGCGGCGCTTGGAAAAAACGCCGCTAAAGATCATGT
TCTTTAGCGGCGCTTAGG
Found at i:14002307 original size:21 final size:21
Alignment explanation
Indices: 14002281--14002349 Score: 75
Period size: 21 Copynumber: 3.3 Consensus size: 21
14002271 GCTTTTCTTG
* *
14002281 CTGCTTTTCTCTCTGTAGCCT
1 CTGCTTCTCTCGCTGTAGCCT
14002302 CTGCTTCTCTCGCTGTAGCCT
1 CTGCTTCTCTCGCTGTAGCCT
* * * **
14002323 TTGCTTCCCTCGCAGCCGCCT
1 CTGCTTCTCTCGCTGTAGCCT
14002344 CTGCTT
1 CTGCTT
14002350 TAAGTTGTTG
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.04, C:0.39, G:0.17, T:0.39
Consensus pattern (21 bp):
CTGCTTCTCTCGCTGTAGCCT
Done.