Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006192.1 Hibiscus syriacus cultivar Beakdansim tig00014732_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 476961
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 3
Found at i:185 original size:80 final size:81
Alignment explanation
Indices: 3--286 Score: 341
Period size: 80 Copynumber: 3.5 Consensus size: 81
1 GC
* * *
3 ATTTATGACACGCATTATGACGTT-CTTTTGAGTGTCATTGAAGCCTCCGTCATAAATTAAGATG
1 ATTTATGACACGCATTATGAC-TTAC-ATTGCGCGTCATTGAAGCCTCCGTCATAAATT-AGATG
67 ACACATTTGTGCGTCATAA
63 ACACATTTGTGCGTCATAA
86 A-TTATGACACGCATGTATGACTTACATTGCGCGTCATTGAAG-CTCCGTC-TAAATTAGATGAC
1 ATTTATGACACGCAT-TATGACTTACATTGCGCGTCATTGAAGCCTCCGTCATAAATTAGATGAC
*
148 ACATTTATGCGTCATAA
65 ACATTTGTGCGTCATAA
* * * *
165 ATTTATGACACGCATGTATGACTTACATTGCTCGTCATTGAAGCCCCCTTCATAAATCT-GCTTG
1 ATTTATGACACGCAT-TATGACTTACATTGCGCGTCATTGAAGCCTCCGTCATAAAT-TAG-ATG
*
229 ACATACATTTGTGTGTCATAA
63 AC--ACATTTGTGCGTCATAA
*
250 ATTTATGACACGCA-TATGA-TTACATTGCGTG-CATTGA
1 ATTTATGACACGCATTATGACTTACATTGCGCGTCATTGA
287 TTCACACGTC
Statistics
Matches: 180, Mismatches: 12, Indels: 20
0.85 0.06 0.09
Matches are distributed among these distances:
79 24 0.13
80 46 0.26
81 18 0.10
82 45 0.25
83 18 0.10
85 29 0.16
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (81 bp):
ATTTATGACACGCATTATGACTTACATTGCGCGTCATTGAAGCCTCCGTCATAAATTAGATGACA
CATTTGTGCGTCATAA
Found at i:338 original size:2 final size:2
Alignment explanation
Indices: 331--401 Score: 121
Period size: 2 Copynumber: 37.0 Consensus size: 2
321 TGATGTTGTG
331 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
371 AT AT AT AT AT AT AT AT AT A- AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
402 CTAAATTATA
Statistics
Matches: 66, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
1 3 0.05
2 63 0.95
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6194 original size:15 final size:15
Alignment explanation
Indices: 6169--6224 Score: 76
Period size: 15 Copynumber: 3.7 Consensus size: 15
6159 CGATGCTTCT
*
6169 TTTTCCTTCTTTGACA
1 TTTT-CTTCTTTGACG
6185 TTTTCTTCTTTGACG
1 TTTTCTTCTTTGACG
*
6200 TTTTCTTCTTAGACG
1 TTTTCTTCTTTGACG
*
6215 TTGTCTTCTT
1 TTTTCTTCTT
6225 ACCCCATGAA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
15 33 0.89
16 4 0.11
ACGTcount: A:0.09, C:0.21, G:0.11, T:0.59
Consensus pattern (15 bp):
TTTTCTTCTTTGACG
Found at i:17262 original size:7 final size:7
Alignment explanation
Indices: 17250--17281 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
17240 ATTGGAGCCT
17250 AGGCGCA
1 AGGCGCA
17257 AGGCGCA
1 AGGCGCA
17264 AGGCGCA
1 AGGCGCA
17271 AGGCGC-
1 AGGCGCA
17277 AGGCG
1 AGGCG
17282 TATTCCTTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 5 0.20
7 20 0.80
ACGTcount: A:0.25, C:0.28, G:0.47, T:0.00
Consensus pattern (7 bp):
AGGCGCA
Found at i:17714 original size:17 final size:17
Alignment explanation
Indices: 17674--17715 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 17
17664 TAAATTAATT
17674 TTATTAT-TAATTTAAA
1 TTATTATATAATTTAAA
*
17690 ATATTTATATAATTTAAA
1 TTA-TTATATAATTTAAA
17708 TTATTATA
1 TTATTATA
17716 AAAAAAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 2 0.09
17 9 0.41
18 11 0.50
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TTATTATATAATTTAAA
Found at i:18270 original size:16 final size:16
Alignment explanation
Indices: 18249--18288 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
18239 TCTTCTTCTT
*
18249 CTCTCCTCGTGGATAA
1 CTCTCCTCGTAGATAA
18265 CTCTCCTCGTAGATAA
1 CTCTCCTCGTAGATAA
18281 CTCTCCTC
1 CTCTCCTC
18289 CATAACTCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.17, C:0.38, G:0.12, T:0.33
Consensus pattern (16 bp):
CTCTCCTCGTAGATAA
Found at i:19354 original size:56 final size:56
Alignment explanation
Indices: 19281--19489 Score: 296
Period size: 56 Copynumber: 3.7 Consensus size: 56
19271 TAAGTGTGCA
19281 AAAAGCTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGT
1 AAAA-CTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGT
* *
19338 AAAACTTAAGAAATTCATACTAAGTGGATGGATTTCTGTATGGGCACTATATGTGT
1 AAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGT
* ** * *
19394 AAAACTAAAGAAATTCATACTAAGTGGATGAATTTTTGTATGGGTACTATATGTGC
1 AAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGT
* * *
19450 AAAAC-T-AGAAAATTTATACTAAGTGTATAAATTTCCGTAT
1 AAAACTTAAG-AAATTCATACTAAGTGGATGAATTTCCGTAT
19490 TGGTAACAGG
Statistics
Matches: 138, Mismatches: 13, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
54 2 0.01
55 26 0.19
56 106 0.77
57 4 0.03
ACGTcount: A:0.37, C:0.11, G:0.19, T:0.33
Consensus pattern (56 bp):
AAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGT
Found at i:20102 original size:10 final size:11
Alignment explanation
Indices: 20080--20123 Score: 65
Period size: 11 Copynumber: 4.2 Consensus size: 11
20070 ACTTTTCACC
20080 TTCT-TTTTCT
1 TTCTATTTTCT
20090 TTCTATTTT-T
1 TTCTATTTTCT
20100 TTCTATTTTCT
1 TTCTATTTTCT
*
20111 TTCTATATTCT
1 TTCTATTTTCT
20122 TT
1 TT
20124 TCCCTAAGGC
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
10 14 0.45
11 17 0.55
ACGTcount: A:0.09, C:0.16, G:0.00, T:0.75
Consensus pattern (11 bp):
TTCTATTTTCT
Found at i:20108 original size:21 final size:22
Alignment explanation
Indices: 20080--20125 Score: 69
Period size: 21 Copynumber: 2.1 Consensus size: 22
20070 ACTTTTCACC
20080 TTCTTTTTCTTTCTAT-TT-TT
1 TTCTTTTTCTTTCTATATTCTT
20100 TTCTATTTTCTTTCTATATTCTT
1 TTCT-TTTTCTTTCTATATTCTT
20123 TTC
1 TTC
20126 CCTAAGGCAG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 4 0.17
21 12 0.52
22 2 0.09
23 5 0.22
ACGTcount: A:0.09, C:0.17, G:0.00, T:0.74
Consensus pattern (22 bp):
TTCTTTTTCTTTCTATATTCTT
Found at i:20731 original size:14 final size:14
Alignment explanation
Indices: 20712--20744 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
20702 TTTAGGATAT
20712 TATTTTTATATTT-
1 TATTTTTATATTTG
*
20725 TATTTTTATCTTTG
1 TATTTTTATATTTG
20739 TATTTT
1 TATTTT
20745 AGTTTAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.76
Consensus pattern (14 bp):
TATTTTTATATTTG
Found at i:20775 original size:19 final size:19
Alignment explanation
Indices: 20747--20809 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
20737 TGTATTTTAG
*
20747 TTTAAATAGGTTTTAGTAT
1 TTTAATTAGGTTTTAGTAT
* *
20766 TTTAATTAGGATTTAGAAT
1 TTTAATTAGGTTTTAGTAT
* **
20785 ATTATATTATTTTTTAGGTAT
1 TTTA-ATTAGGTTTTA-GTAT
20806 TTTA
1 TTTA
20810 GTTTAAATAG
Statistics
Matches: 33, Mismatches: 9, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
19 19 0.58
20 8 0.24
21 6 0.18
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.56
Consensus pattern (19 bp):
TTTAATTAGGTTTTAGTAT
Found at i:20781 original size:75 final size:77
Alignment explanation
Indices: 20625--20789 Score: 246
Period size: 76 Copynumber: 2.2 Consensus size: 77
20615 TTAAACTCAA
*
20625 ATTTAGGATAATA-TTTTAAACATTATATTTTATCTTTGTATTTTAGTTTAAATAGGTTTTTAGT
1 ATTTAGGATATTATTTTTAAACATTATATTTTATCTTTGTATTTTAGTTTAAATAGGTTTTTAGT
20689 ATTTTAATTAAG
66 ATTTTAATTAAG
* * **
20701 TTTTAGGATATTATTTTTATATTTTAT-TTTTATCTTTGTATTTTAGTTTAAATAGG-TTTTAGT
1 ATTTAGGATATTATTTTTAAACATTATATTTTATCTTTGTATTTTAGTTTAAATAGGTTTTTAGT
*
20764 ATTTTAATTAGG
66 ATTTTAATTAAG
*
20776 ATTTAGAATATTAT
1 ATTTAGGATATTAT
20790 ATTATTTTTT
Statistics
Matches: 80, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
75 30 0.38
76 40 0.50
77 10 0.12
ACGTcount: A:0.30, C:0.02, G:0.11, T:0.57
Consensus pattern (77 bp):
ATTTAGGATATTATTTTTAAACATTATATTTTATCTTTGTATTTTAGTTTAAATAGGTTTTTAGT
ATTTTAATTAAG
Found at i:21456 original size:16 final size:17
Alignment explanation
Indices: 21432--21477 Score: 58
Period size: 16 Copynumber: 2.7 Consensus size: 17
21422 AATCTCTTTA
*
21432 ATTTGTTTATTTAATT-
1 ATTTTTTTATTTAATTC
21448 ATTTTTTTATTTAATTC
1 ATTTTTTTATTTAATTC
*
21465 TTATTTTTTATTT
1 AT-TTTTTTATTT
21478 TAACCACAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
16 15 0.58
17 1 0.04
18 10 0.38
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.74
Consensus pattern (17 bp):
ATTTTTTTATTTAATTC
Found at i:23246 original size:15 final size:15
Alignment explanation
Indices: 23223--23256 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
23213 CCAGCATAAA
*
23223 AAGATGCACATCAGG
1 AAGACGCACATCAGG
23238 AAGACGCACATCAGG
1 AAGACGCACATCAGG
23253 AAGA
1 AAGA
23257 ACAAGAGGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.44, C:0.21, G:0.26, T:0.09
Consensus pattern (15 bp):
AAGACGCACATCAGG
Found at i:25363 original size:93 final size:93
Alignment explanation
Indices: 25204--25391 Score: 367
Period size: 93 Copynumber: 2.0 Consensus size: 93
25194 TAGCATGTAA
25204 TCTACTTCAAAAGGATCAAGACTTTAACTTTAATTCAAAATGCAAAGAGTCTTTCGATTCATTAA
1 TCTACTTCAAAAGGATCAAGACTTTAACTTTAATTCAAAATGCAAAGAGTCTTTCGATTCATTAA
25269 AGGAAAAGCTTATTTCAGCACCAATTGT
66 AGGAAAAGCTTATTTCAGCACCAATTGT
25297 TCTACTTCAAAAGGATCAAGACTTTAACTTTAATTCAAAATGCAAAGAGTCTTTCGATTCATTAA
1 TCTACTTCAAAAGGATCAAGACTTTAACTTTAATTCAAAATGCAAAGAGTCTTTCGATTCATTAA
*
25362 AGGAAAATCTTATTTCAGCACCAATTGT
66 AGGAAAAGCTTATTTCAGCACCAATTGT
25390 TC
1 TC
25392 AGCTGCCAGA
Statistics
Matches: 94, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 94 1.00
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.33
Consensus pattern (93 bp):
TCTACTTCAAAAGGATCAAGACTTTAACTTTAATTCAAAATGCAAAGAGTCTTTCGATTCATTAA
AGGAAAAGCTTATTTCAGCACCAATTGT
Found at i:27217 original size:20 final size:20
Alignment explanation
Indices: 27192--27238 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
27182 CATTTCGTTA
27192 TATTTTTGTTTT-TATTTTTT
1 TATTTTTGTTTTAT-TTTTTT
*
27212 TATTTTCGTTTTATTTTTTT
1 TATTTTTGTTTTATTTTTTT
27232 TATTTTT
1 TATTTTT
27239 TAGCGAACAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 23 0.96
21 1 0.04
ACGTcount: A:0.11, C:0.02, G:0.04, T:0.83
Consensus pattern (20 bp):
TATTTTTGTTTTATTTTTTT
Found at i:29103 original size:76 final size:75
Alignment explanation
Indices: 29022--29169 Score: 226
Period size: 76 Copynumber: 2.0 Consensus size: 75
29012 TAAACTCAAA
29022 TTTAGGATAATATTTTAAACATTATAT-TTTATCTTTGTATTTTAGTTTAAATAGGTTTTTAGTA
1 TTTAGGATAATATTTT-AACATTATATCTTTATCTTTGTATTTTAGTTTAAATAGG-TTTTAGTA
*
29086 TTTTTATTAAGT
64 TTTTAATTAAGT
* * * *
29098 TTTAGGATATTATTTTTATATTTTATCTTTATCTTTGTATTTTAGTTTAAATAGGTTTTAGTATT
1 TTTAGGATAATATTTTAACATTATATCTTTATCTTTGTATTTTAGTTTAAATAGGTTTTAGTATT
29163 TTAATTA
66 TTAATTA
29170 GAATTTAGAA
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
75 23 0.35
76 43 0.65
ACGTcount: A:0.28, C:0.03, G:0.10, T:0.59
Consensus pattern (75 bp):
TTTAGGATAATATTTTAACATTATATCTTTATCTTTGTATTTTAGTTTAAATAGGTTTTAGTATT
TTAATTAAGT
Found at i:30456 original size:2 final size:2
Alignment explanation
Indices: 30449--30474 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
30439 ATATTTATTT
30449 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
30475 GACGAAAATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:30496 original size:13 final size:13
Alignment explanation
Indices: 30478--30509 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
30468 ATATATAGAC
30478 GAAAATGATTTTT
1 GAAAATGATTTTT
*
30491 GAAAATGGTTTTT
1 GAAAATGATTTTT
30504 GAAAAT
1 GAAAAT
30510 ACATATAAAT
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:0.41, C:0.00, G:0.19, T:0.41
Consensus pattern (13 bp):
GAAAATGATTTTT
Found at i:30546 original size:38 final size:38
Alignment explanation
Indices: 30500--30821 Score: 232
Period size: 38 Copynumber: 8.7 Consensus size: 38
30490 TGAAAATGGT
30500 TTTTGAAAATACATATAAATATATAGTTTTT-AAAACA
1 TTTTGAAAATACATATAAATATATAGTTTTTGAAAACA
* *
30537 TTTTCGAAAAT--ATAT-ATTATATAGTTTAT-AAAACA
1 TTTT-GAAAATACATATAAATATATAGTTTTTGAAAACA
* ** *
30572 TTTTTAAAATTTATAT-AATATATAGTTTTTTGAAAATA
1 TTTTGAAAATACATATAAATATATAG-TTTTTGAAAACA
*
30610 TTTTGAAAATATC-TATATA-ATATAGTTTTTTGAAAACA
1 TTTTGAAAATA-CATATAAATATATAG-TTTTTGAAAACA
* * *
30648 TTTTTTG-AAA-ACATAT-ATTATATA-ATTTTGAAAGCA
1 --TTTTGAAAATACATATAAATATATAGTTTTTGAAAACA
* * *
30684 TTTTTAAAATATATAT-AATATATAGTTTTTAAAAACA
1 TTTTGAAAATACATATAAATATATAGTTTTTGAAAACA
* * *
30721 TTTTTAAAATA-TTATATAATACA-AGTTTTTGAAAACA
1 TTTTGAAAATACATATA-AATATATAGTTTTTGAAAACA
* *
30758 TTTTTAAAA-ACTTATATATAATATATAG--TTTAAAAATCA
1 TTTTGAAAATAC--ATATA-AATATATAGTTTTTGAAAA-CA
* *
30797 TTTTG-AAATATATATATATATATAG
1 TTTTGAAAATACATATAAATATATAG
30822 CATAGTTTAC
Statistics
Matches: 233, Mismatches: 30, Indels: 45
0.76 0.10 0.15
Matches are distributed among these distances:
34 9 0.04
35 25 0.11
36 50 0.21
37 56 0.24
38 65 0.28
39 21 0.09
40 7 0.03
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (38 bp):
TTTTGAAAATACATATAAATATATAGTTTTTGAAAACA
Found at i:30628 original size:112 final size:111
Alignment explanation
Indices: 30486--30821 Score: 377
Period size: 112 Copynumber: 3.0 Consensus size: 111
30476 ACGAAAATGA
* *
30486 TTTTTGAAAATGGTTTTTGAAAATA-C-ATATAAATATATAGTTTTT-AAAACATTTTCGAAAAT
1 TTTTTGAAAAT--ATTTTGAAAATATCTATAT-AATATATAGTTTTTGAAAACATTTTTGAAAAT
*
30548 ATATATTATATAGTTTATAAAACATTTTTAAAATTTATATAATATATAG
63 ATATATTATATAGTTTATAAAACATTTTTAAAATATATATAATATATAG
*
30597 TTTTTTGAAAATATTTTGAAAATATCTATAT-A-ATATAGTTTTTTGAAAACATTTTTTGAAAAC
1 -TTTTTGAAAATATTTTGAAAATATCTATATAATATATAG-TTTTTGAAAACA-TTTTTGAAAAT
* *
30660 ATATATTATATAATTT-TGAAAGCATTTTTAAAATATATATAATATATAG
63 ATATATTATATAGTTTAT-AAAACATTTTTAAAATATATATAATATATAG
* * * * *
30709 TTTTTAAAAACATTTTTAAAATAT-TATATAATACA-AGTTTTTGAAAACATTTTTAAAAACTTA
1 TTTTTGAAAATATTTTGAAAATATCTATATAATATATAGTTTTTGAAAACATTTTTGAAAA--TA
*
30772 TATATAATATATAGTTTA-AAAATCA-TTTTGAAATATATATATATATATAG
64 TATAT--TATATAGTTTATAAAA-CATTTTTAAAATATATATA-ATATATAG
30822 CATAGTTTAC
Statistics
Matches: 194, Mismatches: 15, Indels: 29
0.82 0.06 0.12
Matches are distributed among these distances:
109 15 0.08
110 34 0.18
111 38 0.20
112 88 0.45
113 19 0.10
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (111 bp):
TTTTTGAAAATATTTTGAAAATATCTATATAATATATAGTTTTTGAAAACATTTTTGAAAATATA
TATTATATAGTTTATAAAACATTTTTAAAATATATATAATATATAG
Found at i:30653 original size:13 final size:13
Alignment explanation
Indices: 30635--30661 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
30625 TATAATATAG
30635 TTTTTTGAAAACA
1 TTTTTTGAAAACA
30648 TTTTTTGAAAACA
1 TTTTTTGAAAACA
30661 T
1 T
30662 ATATTATATA
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:0.37, C:0.07, G:0.07, T:0.48
Consensus pattern (13 bp):
TTTTTTGAAAACA
Found at i:30738 original size:74 final size:72
Alignment explanation
Indices: 30499--30820 Score: 271
Period size: 74 Copynumber: 4.3 Consensus size: 72
30489 TTGAAAATGG
* * * *
30499 TTTTTGAAAATACATATAAATATATAGTTTTTAAAACATTTTCGAAAATATATAT-TATATAGTT
1 TTTTT-AAAATATATAT-ATTATATAATTTTGAAAACATTTT-GAAAATATATATATATATAGTT
*
30563 TAT-AAAACA
63 TTTAAAAACA
* * * * *
30572 TTTTTAAAATTTATATAATATATAGTTTTTTGAAAATATTTTGAAAATATCTATATAATATAGTT
1 TTTTTAAAATATATATATTATATA--ATTTTGAAAACATTTTGAAAATATATATAT-ATATAG-T
*
30637 TTTTGAAAACA
62 TTTTAAAAACA
* * * *
30648 TTTTTTGAAA-ACATATATTATATAATTTTGAAAGCATTTTTAAAATATATATAATATATAGTTT
1 -TTTTTAAAATATATATATTATATAATTTTGAAAACATTTTGAAAATATATAT-ATATATAGTTT
30712 TTAAAAACA
64 TTAAAAACA
* * *
30721 TTTTTAAAATAT-TATATAATACAAGTTTTTGAAAACATTTTTAAAAACTTATATATAATATATA
1 TTTTTAAAATATATATATTATATAA--TTTTGAAAACA-TTTTGAAAA--TATATAT-ATATATA
30785 G--TTTAAAAATCA
60 GTTTTTAAAAA-CA
*
30797 -TTTTGAAATATATATATATATATA
1 TTTTTAAAATATATATAT-TATATA
30821 GCATAGTTTA
Statistics
Matches: 206, Mismatches: 26, Indels: 30
0.79 0.10 0.11
Matches are distributed among these distances:
71 8 0.04
72 38 0.18
73 31 0.15
74 45 0.22
75 32 0.16
76 24 0.12
77 28 0.14
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.45
Consensus pattern (72 bp):
TTTTTAAAATATATATATTATATAATTTTGAAAACATTTTGAAAATATATATATATATAGTTTTT
AAAAACA
Found at i:30834 original size:75 final size:69
Alignment explanation
Indices: 30533--30816 Score: 179
Period size: 72 Copynumber: 3.8 Consensus size: 69
30523 TAGTTTTTAA
* * *
30533 AACATTTTCGAAAATATATAT--TATATAG-TTTATAAAACATTTTTAAAAT-TTATATAATATA
1 AACATTTT-TAAAATATATATAATATATAGTTTTA-AAAACATTTTGAAAATATTATATAATACA
30594 TAGTTTTTT
64 -AG--TTTT
* * * *
30603 GAAAATATTTTGAAAATATCTATATAATATAGT-TTTTTGAAAACATTTTTTGAAAACA-TATAT
1 -AACAT-TTTT-AAAATA--TATATAATATA-TAGTTTTAAAAACA--TTTTGAAAATATTATAT
* *
30666 TATATAA-TTTT
58 AATACAAGTTTT
*
30677 GAAAGCATTTTTAAAATATATATAATATATAGTTTTTAAAAACATTTTTAAAATATTATATAATA
1 --AA-CATTTTTAAAATATATATAATATATAG-TTTTAAAAACATTTTGAAAATATTATATAATA
30742 CAAGTTTTT
62 CAAG-TTTT
30751 GAAAACATTTTTAAAAACTTATATATAATATATAG-TTTAAAAATCATTTTGAAATATATATATA
1 ---AACATTTTT-AAAA--TATATATAATATATAGTTTTAAAAA-CATTTTGAAA-ATAT-TATA
30815 TA
57 TA
30817 TATAGCATAG
Statistics
Matches: 171, Mismatches: 17, Indels: 43
0.74 0.07 0.19
Matches are distributed among these distances:
71 14 0.08
72 30 0.18
73 10 0.06
74 26 0.15
75 21 0.12
76 21 0.12
77 25 0.15
78 24 0.14
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.45
Consensus pattern (69 bp):
AACATTTTTAAAATATATATAATATATAGTTTTAAAAACATTTTGAAAATATTATATAATACAAG
TTTT
Found at i:32073 original size:19 final size:18
Alignment explanation
Indices: 32029--32075 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
32019 CTTATATATA
*
32029 TATTTTATTTCATCTTTT
1 TATTTTGTTTCATCTTTT
*
32047 TATTTTGTTTCATTTTTAT
1 TATTTTGTTTCATCTTT-T
*
32066 TGTTTTGTTT
1 TATTTTGTTT
32076 ATTCAATTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
18 15 0.60
19 10 0.40
ACGTcount: A:0.13, C:0.06, G:0.06, T:0.74
Consensus pattern (18 bp):
TATTTTGTTTCATCTTTT
Found at i:32099 original size:2 final size:2
Alignment explanation
Indices: 32092--32128 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
32082 TTTCACTTAT
32092 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
32129 TACATTAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:32234 original size:27 final size:26
Alignment explanation
Indices: 32151--32231 Score: 89
Period size: 27 Copynumber: 3.2 Consensus size: 26
32141 TTTTCCCTCA
*
32151 TTTTATTCTTTTTTATGTTTATTATTT
1 TTTTACTCTTTTTTAT-TTTATTATTT
*
32178 TTTTACTCTTTTTTCA-TTTA--ACTT
1 TTTTACTCTTTTTT-ATTTTATTATTT
32202 TTTTA-TCTTTTTTATTTCTATTATTT
1 TTTTACTCTTTTTTATTT-TATTATTT
32228 TTTT
1 TTTT
32232 TATAATTTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
22 1 0.02
23 10 0.22
24 10 0.22
26 11 0.24
27 13 0.28
28 1 0.02
ACGTcount: A:0.15, C:0.09, G:0.01, T:0.75
Consensus pattern (26 bp):
TTTTACTCTTTTTTATTTTATTATTT
Found at i:34622 original size:22 final size:22
Alignment explanation
Indices: 34596--34647 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
34586 CATAGAGGAC
34596 AAATCAAGGAAGATGGAGGAGA
1 AAATCAAGGAAGATGGAGGAGA
* * *
34618 AAATCAA-GCAGTTGGAGGAGC
1 AAATCAAGGAAGATGGAGGAGA
*
34639 AAATGAAGG
1 AAATCAAGG
34648 TGGTCAAAGG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 17 0.68
22 8 0.32
ACGTcount: A:0.46, C:0.08, G:0.35, T:0.12
Consensus pattern (22 bp):
AAATCAAGGAAGATGGAGGAGA
Found at i:36372 original size:95 final size:94
Alignment explanation
Indices: 36194--36437 Score: 269
Period size: 95 Copynumber: 2.7 Consensus size: 94
36184 TAATATTATA
* * *
36194 TATATATACAATATAGCTTGAGTTGCCCCTCTAGAGCAATTGGTTAAATGCCCCGGCTTTATGGA
1 TATATATACAATAAAGCTTGAGCTGCCCCTCTAGAGCAATTGGTTAAATGCCCCGACTTTATGGA
* ** *
36259 TAATATTCGGCTAGCCTGATAAAGGTGAT
66 TAAGATTCAACTAACCTGATAAAGGTGAT
* *
36288 TATACTATACAATAAAGCTTGAGCTGTCCCTTTA-AGGCAATTGGTTAAATGCCCCGACTTTATG
1 TATA-TATACAATAAAGCTTGAGCTGCCCCTCTAGA-GCAATTGGTTAAATGCCCCGACTTTATG
36352 GATAAGATTCAACTAACCTGATAAAGGTG--
64 GATAAGATTCAACTAACCTGATAAAGGTGAT
* * * *
36381 --T-TA-AC-AT--A--TTGAGCTGTCCTTCTAGAGCAATTGGTTAAACGTCCCGACTTTATGGA
1 TATATATACAATAAAGCTTGAGCTGCCCCTCTAGAGCAATTGGTTAAATGCCCCGACTTTATGGA
36437 T
66 T
36438 TCATCTAGCC
Statistics
Matches: 134, Mismatches: 13, Indels: 17
0.82 0.08 0.10
Matches are distributed among these distances:
83 43 0.32
84 1 0.01
85 1 0.01
87 2 0.01
88 2 0.01
89 2 0.01
91 1 0.01
94 5 0.04
95 77 0.57
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (94 bp):
TATATATACAATAAAGCTTGAGCTGCCCCTCTAGAGCAATTGGTTAAATGCCCCGACTTTATGGA
TAAGATTCAACTAACCTGATAAAGGTGAT
Found at i:37353 original size:110 final size:110
Alignment explanation
Indices: 37165--37641 Score: 613
Period size: 110 Copynumber: 4.5 Consensus size: 110
37155 TACAGCTTCT
* *
37165 AGAGTCAATTTCAACTTCACAGCGAAAGATATTGGACTCGAGACAACACAAGCTGAACTTCACAG
1 AGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGCTCAACTTCACAG
* **
37230 CGGAGGGAAGACTGACTGTCAACAAACAACTTTTTAGTTTCATTC
66 CGAAGGGGTGACTGACTGTCAACAAACAACTTTTTAGTTTCATTC
* * *
37275 ACAGTCAATTTCAACTTCATAACGAAGGATATTGGACTCGAGACAACACAAGCTCAACTTCACAG
1 AGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGCTCAACTTCACAG
* *
37340 CGAAGGGGTGACTGACTGTCAATAAATAACTTTTTAGTTTCATTC
66 CGAAGGGGTGACTGACTGTCAACAAACAACTTTTTAGTTTCATTC
* ** * *
37385 AGTGTTGATTTCAACTTCACAGCGAAGGATATTAGACTCGAGATAACACAAGCTCAACTTCACAG
1 AGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGCTCAACTTCACAG
37450 CGAAGGGGTGACTGACTGTCAACAAACAAC-----A---T--TTC
66 CGAAGGGGTGACTGACTGTCAACAAACAACTTTTTAGTTTCATTC
*
37485 AGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGCTCAACTTTACAG
1 AGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGCTCAACTTCACAG
* * * * * *
37550 TGAAGGGGCGACTGGCTGCCAACAAATAACTTTCTAGTTTCA-T-
66 CGAAGGGGTGACTGACTGTCAACAAACAACTTTTTAGTTTCATTC
* * * * *
37593 --AGTCAATTTCAACTTCACAGCAAAAGATATTGGCCTCGAAACAGCACAA
1 AGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAA
37642 ATGTTTGGAT
Statistics
Matches: 321, Mismatches: 36, Indels: 24
0.84 0.09 0.06
Matches are distributed among these distances:
100 87 0.27
102 1 0.00
105 2 0.01
106 44 0.14
108 1 0.00
109 1 0.00
110 185 0.58
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.24
Consensus pattern (110 bp):
AGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGCTCAACTTCACAG
CGAAGGGGTGACTGACTGTCAACAAACAACTTTTTAGTTTCATTC
Found at i:37581 original size:210 final size:213
Alignment explanation
Indices: 37172--37641 Score: 612
Period size: 210 Copynumber: 2.2 Consensus size: 213
37162 TCTAGAGTCA
* * *
37172 ATTTCAACTTCACAGCGAAAGATATTGGACTCGAGACAACACAAGCTGAACTTCACAGCGGAGGG
1 ATTTCAACTTCACAGCGAAAGATATTAGACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGG
*
37237 AAGACTGACTGTCAACAAACAACTTTTTAGTTTCATTCACAGTCAATTTCAACTTCATAACGAAG
66 AAGACTGACTGTCAACAAACAAC----TA--TT-ATTCACAGTCAATTTCAACTTCACAACGAAG
* * *
37302 GATATTGGACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGTGACTGACTGTCAATAAAT
124 GATATTGGACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGACTGACTGCCAACAAAT
*
37367 AACTTTTTAGTTTCATTCAGTGTTG
189 AACTTTCTAGTTTCATTCAGTGTTG
* *
37392 ATTTCAACTTCACAGCGAAGGATATTAGACTCGAGATAACACAAGCTCAACTTCACAGCGAAGGG
1 ATTTCAACTTCACAGCGAAAGATATTAGACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGG
** * *
37457 GTGACTGACTGTCAACAAACAAC-A-T-TTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTG
66 AAGACTGACTGTCAACAAACAACTATTATTCACAGTCAATTTCAACTTCACAACGAAGGATATTG
* * *
37519 GACTCGAGACAACACAAGCTCAACTTTACAGTGAAGGGGCGACTGGCTGCCAACAAATAACTTTC
131 GACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGACTGACTGCCAACAAATAACTTTC
**
37584 TAGTTTCA-T-A--GTCA
196 TAGTTTCATTCAGTGTTG
* * * * *
37598 ATTTCAACTTCACAGCAAAAGATATTGGCCTCGAAACAGCACAA
1 ATTTCAACTTCACAGCGAAAGATATTAGACTCGAGACAACACAA
37642 ATGTTTGGAT
Statistics
Matches: 224, Mismatches: 26, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
206 39 0.17
208 1 0.00
209 1 0.00
210 100 0.45
212 1 0.00
215 1 0.00
220 81 0.36
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.24
Consensus pattern (213 bp):
ATTTCAACTTCACAGCGAAAGATATTAGACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGG
AAGACTGACTGTCAACAAACAACTATTATTCACAGTCAATTTCAACTTCACAACGAAGGATATTG
GACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGACTGACTGCCAACAAATAACTTTC
TAGTTTCATTCAGTGTTG
Found at i:37899 original size:80 final size:80
Alignment explanation
Indices: 37749--38072 Score: 423
Period size: 80 Copynumber: 4.0 Consensus size: 80
37739 ATCGTGGCCA
* * * * *
37749 CCAAAGACCTTCGAGTTCAATTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTC
1 CCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAGCATAACTCAAGTC
* *
37814 GAGAAGGGCTATATG
66 TAGAAGGGCTATCTG
* * * *
37829 CCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCAAATTATTTACAGTATAACTCAAGCC
1 CCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAGCATAACTCAAGTC
*
37894 TAGAAGGGTTATCTG
66 TAGAAGGGCTATCTG
* * *
37909 CCACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTA
1 ---CC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAGCATAACTCA
*
37974 AGTCTAGAAGGGCTATCTT
62 AGTCTAGAAGGGCTATCTG
* * * *
37993 CCAAAGACCTTCGAGTTCGACTACGCTTAGCTCCAAGGCACATTATTTACAACATAACTCAAGGC
1 CCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAGCATAACTCAAGTC
*
38058 TAGAAGGGTTATCTG
66 TAGAAGGGCTATCTG
38073 TCAACAAAAT
Statistics
Matches: 210, Mismatches: 30, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
80 137 0.65
81 2 0.01
83 2 0.01
84 69 0.33
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.24
Consensus pattern (80 bp):
CCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAGCATAACTCAAGTC
TAGAAGGGCTATCTG
Found at i:38027 original size:164 final size:164
Alignment explanation
Indices: 37745--38081 Score: 559
Period size: 164 Copynumber: 2.1 Consensus size: 164
37735 GGGAATCGTG
*
37745 GCCACC-AAAGACCTTCGAGTTCAATTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTT
1 GCCACCAAAAGACCTTCGAGTTCAACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTT
37809 AAGTCGAGAAGGGCTATATGCCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCAAATTA
66 AAGTCGAGAAGGGCTATATGCCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCAAATTA
**
37874 TTTACAGTATAACTCAAGCCTAGAAGGGTTATCT
131 TTTACAACATAACTCAAGCCTAGAAGGGTTATCT
*
37908 GCCACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTT
1 GCCACCAAAAGACCTTCGAGTTCAACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTT
* * * * *
37973 AAGTCTAGAAGGGCTATCTTCCAAAGACCTTCGAGTTCGACTACGCTTAGCTCCAAGGCACATTA
66 AAGTCGAGAAGGGCTATATGCCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCAAATTA
*
38038 TTTACAACATAACTCAAGGCTAGAAGGGTTATCT
131 TTTACAACATAACTCAAGCCTAGAAGGGTTATCT
* *
38072 GTCAACAAAA
1 GCCACCAAAA
38082 TTGTCAAGTT
Statistics
Matches: 161, Mismatches: 12, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
163 6 0.04
164 155 0.96
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (164 bp):
GCCACCAAAAGACCTTCGAGTTCAACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTT
AAGTCGAGAAGGGCTATATGCCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCAAATTA
TTTACAACATAACTCAAGCCTAGAAGGGTTATCT
Found at i:38241 original size:27 final size:27
Alignment explanation
Indices: 38200--38254 Score: 85
Period size: 27 Copynumber: 2.0 Consensus size: 27
38190 TGATAAGAAT
38200 CATTTATATAATATA-AGTTTTTGAAAA
1 CATTTATATAATATATAGTTTTT-AAAA
*
38227 CATTTATATATTATATAGTTTTTAAAA
1 CATTTATATAATATATAGTTTTTAAAA
38254 C
1 C
38255 TTTTTAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 19 0.73
28 7 0.27
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.47
Consensus pattern (27 bp):
CATTTATATAATATATAGTTTTTAAAA
Found at i:38287 original size:36 final size:37
Alignment explanation
Indices: 38217--38290 Score: 96
Period size: 38 Copynumber: 2.0 Consensus size: 37
38207 ATAATATAAG
* *
38217 TTTTTGAAAACATTTATATATTATATAGTTTTTAAAAC
1 TTTTTAAAAACATTTATATAATATATAG-TTTTAAAAC
*
38255 TTTTTAAAAAC-TTATATATAATATATAGTTTAAAAA
1 TTTTTAAAAACATT-TATATAATATATAGTTTTAAAA
38291 TCATTTTGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
37 9 0.28
38 23 0.72
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (37 bp):
TTTTTAAAAACATTTATATAATATATAGTTTTAAAAC
Found at i:38376 original size:14 final size:11
Alignment explanation
Indices: 38345--38379 Score: 52
Period size: 11 Copynumber: 3.0 Consensus size: 11
38335 AATAATATTA
38345 TTATTTTTTAT
1 TTATTTTTTAT
38356 TTATTTTTTAT
1 TTATTTTTTAT
38367 TATAATTTTTTAT
1 T-T-ATTTTTTAT
38380 CACATATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 12 0.55
12 1 0.05
13 9 0.41
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (11 bp):
TTATTTTTTAT
Found at i:39512 original size:2 final size:2
Alignment explanation
Indices: 39505--39555 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
39495 CACTAATTGT
39505 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
39547 TA TA TA TA T
1 TA TA TA TA T
39556 TCATCTTTTT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:39590 original size:19 final size:19
Alignment explanation
Indices: 39555--39594 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
39545 TATATATATA
39555 TTCATCTTTTTTATTTTGT
1 TTCATCTTTTTTATTTTGT
*
39574 TTCAT-TTTTATTGTTTTGT
1 TTCATCTTTT-TTATTTTGT
39593 TT
1 TT
39595 ATTCAATTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.10, C:0.07, G:0.07, T:0.75
Consensus pattern (19 bp):
TTCATCTTTTTTATTTTGT
Found at i:39736 original size:18 final size:16
Alignment explanation
Indices: 39711--39756 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 16
39701 TTCATTTATC
39711 TTTTTTATTTTTATTA
1 TTTTTTATTTTTATTA
**
39727 TTTCTATTATTTCAATTA
1 TTT-T-TTATTTTTATTA
39745 TTTTTTATTTTT
1 TTTTTTATTTTT
39757 TTCCCTTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
16 9 0.38
17 2 0.08
18 13 0.54
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTTTATTTTTATTA
Found at i:41971 original size:22 final size:22
Alignment explanation
Indices: 41943--41991 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
41933 CTGGTTTACT
41943 GCTTTCGAATAGAAAAATAATA
1 GCTTTCGAATAGAAAAATAATA
*
41965 GCTTTCGAATAGGAAAATAATA
1 GCTTTCGAATAGAAAAATAATA
41987 GCTTT
1 GCTTT
41992 TGAAAACGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.43, C:0.10, G:0.16, T:0.31
Consensus pattern (22 bp):
GCTTTCGAATAGAAAAATAATA
Found at i:44081 original size:83 final size:83
Alignment explanation
Indices: 43958--44167 Score: 305
Period size: 83 Copynumber: 2.5 Consensus size: 83
43948 CAACACAAGG
* * *
43958 GTTGGATACTAGTGGCA-TTTTTTAGTAAACGCCGCGATAGAGTAGCACTATAGAGGCATTTTCG
1 GTTGGACAGTAGTGGCATTTTTTTAGTAAACACCGCGATAGAGTAGCACTATAGAGGCATTTTCG
44022 TACAAACGCCGCTATAGA
66 TACAAACGCCGCTATAGA
* * * * * *
44040 TTTGGACAGTTGTGGCATTTTTTTAGTAAGCACCGTGATAGAGTAGCACTATAGATGCATTTTTG
1 GTTGGACAGTAGTGGCATTTTTTTAGTAAACACCGCGATAGAGTAGCACTATAGAGGCATTTTCG
44105 TACAAACGCCGCTATAGA
66 TACAAACGCCGCTATAGA
* **
44123 GTTGGACAGTAGTGACATTTTTTTAGTAAATGCCGCGATAGAGTA
1 GTTGGACAGTAGTGGCATTTTTTTAGTAAACACCGCGATAGAGTA
44168 ACACGGAGGC
Statistics
Matches: 111, Mismatches: 16, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
82 13 0.12
83 98 0.88
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (83 bp):
GTTGGACAGTAGTGGCATTTTTTTAGTAAACACCGCGATAGAGTAGCACTATAGAGGCATTTTCG
TACAAACGCCGCTATAGA
Found at i:44164 original size:42 final size:41
Alignment explanation
Indices: 43958--44166 Score: 156
Period size: 41 Copynumber: 5.0 Consensus size: 41
43948 CAACACAAGG
*
43958 GTTGGATACTAGTGGCA-TTTTTTAGTAAACGCCGCGATAGA
1 GTTGGACA-TAGTGGCATTTTTTTAGTAAACGCCGCGATAGA
* * * ** * *
43999 GTAGCACTATAGAGGCATTTTCGTA-CAAACGCCGCTATAGA
1 GTTGGAC-ATAGTGGCATTTTTTTAGTAAACGCCGCGATAGA
* * * * *
44040 TTTGGACAGTTGTGGCATTTTTTTAGTAAGCACCGTGATAGA
1 GTTGGACA-TAGTGGCATTTTTTTAGTAAACGCCGCGATAGA
* * * * *
44082 GTAGCACTATAGAT-GCATTTTTGTA-CAAACGCCGCTATAGA
1 GTTGGAC-ATAG-TGGCATTTTTTTAGTAAACGCCGCGATAGA
* *
44123 GTTGGACAGTAGTGACATTTTTTTAGTAAATGCCGCGATAGA
1 GTTGGACA-TAGTGGCATTTTTTTAGTAAACGCCGCGATAGA
44165 GT
1 GT
44167 AACACGGAGG
Statistics
Matches: 122, Mismatches: 37, Indels: 17
0.69 0.21 0.10
Matches are distributed among these distances:
40 3 0.02
41 69 0.57
42 48 0.39
43 2 0.02
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (41 bp):
GTTGGACATAGTGGCATTTTTTTAGTAAACGCCGCGATAGA
Found at i:46506 original size:16 final size:16
Alignment explanation
Indices: 46475--46508 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
46465 CTTGCTCCCA
46475 TAAAATTTTATCAATT
1 TAAAATTTTATCAATT
46491 TAAAAGTTTTAT-AATT
1 TAAAA-TTTTATCAATT
46507 TA
1 TA
46509 GGAGTGATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (16 bp):
TAAAATTTTATCAATT
Found at i:52463 original size:42 final size:43
Alignment explanation
Indices: 52380--52464 Score: 118
Period size: 42 Copynumber: 2.0 Consensus size: 43
52370 AGATAACCTA
*** * *
52380 CGACGTTTGTATAAAACAAGGTCGTTATATACCATAACTGTTG
1 CGACGTTTGTATAAAACAACACCGCTATATACCAGAACTGTTG
52423 CGACGTTTGTATAAAA-AACACCGCTATATACCAGAACTGTTG
1 CGACGTTTGTATAAAACAACACCGCTATATACCAGAACTGTTG
52465 TGGCATTTGT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
42 21 0.57
43 16 0.43
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (43 bp):
CGACGTTTGTATAAAACAACACCGCTATATACCAGAACTGTTG
Found at i:55476 original size:31 final size:31
Alignment explanation
Indices: 55432--55844 Score: 367
Period size: 31 Copynumber: 13.3 Consensus size: 31
55422 TTTTATAAAA
* * *
55432 ATATTGTTCAGACAGTCACATTTCAAGAAAC
1 ATATTGTTCAGACAGTCATAGTTCAGGAAAC
** * * **
55463 ATATAATTCAGACAGTCACAGTTTAAAAAAC
1 ATATTGTTCAGACAGTCATAGTTCAGGAAAC
* * ** *
55494 ACATTGTTAAGACAACCATAGTTGAGGAAAC
1 ATATTGTTCAGACAGTCATAGTTCAGGAAAC
* * * * *
55525 ATATTGTCCAGACAATCACATTTCAAGAAAC
1 ATATTGTTCAGACAGTCATAGTTCAGGAAAC
* * *
55556 ATATTGTTTAGATAATCATAGTTCAGGAAAC
1 ATATTGTTCAGACAGTCATAGTTCAGGAAAC
55587 ATATTGTTCAGACAGTCATAGTTCAGGAAAC
1 ATATTGTTCAGACAGTCATAGTTCAGGAAAC
* * ** * *
55618 ATATTATTGAGACAAACAAAGTTCAGGAAAT
1 ATATTGTTCAGACAGTCATAGTTCAGGAAAC
* * * *
55649 ATATTGTTGAAACAGTCACAGTTCAAGAAAC
1 ATATTGTTCAGACAGTCATAGTTCAGGAAAC
* *
55680 ATATTGTTCAAACAGTCATAGTTCGGGAAAC
1 ATATTGTTCAGACAGTCATAGTTCAGGAAAC
* *
55711 ATATTGTTCAGACATTCATAGTTTAGGAAAC
1 ATATTGTTCAGACAGTCATAGTTCAGGAAAC
** ** * * ** *
55742 ATATTGTTCAGACAAACCCAATGCTTGTAAC
1 ATATTGTTCAGACAGTCATAGTTCAGGAAAC
* * * *
55773 ATACTGTTTAGACAATCATAGTTTAGGAAAC
1 ATATTGTTCAGACAGTCATAGTTCAGGAAAC
* *
55804 ATATTGTTCAGACAGTCACAGTTAAGGAAAC
1 ATATTGTTCAGACAGTCATAGTTCAGGAAAC
55835 ATATTGTTCA
1 ATATTGTTCA
55845 AGCAGACACA
Statistics
Matches: 303, Mismatches: 79, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
31 303 1.00
ACGTcount: A:0.40, C:0.16, G:0.15, T:0.29
Consensus pattern (31 bp):
ATATTGTTCAGACAGTCATAGTTCAGGAAAC
Found at i:57311 original size:36 final size:35
Alignment explanation
Indices: 57250--57496 Score: 152
Period size: 36 Copynumber: 7.0 Consensus size: 35
57240 ATTTAAAACA
57250 TAATATC-TTTTAAT-TTGAAATATTTAAAAAGATAT
1 TAATATCTTTTTAATATT-AAA-ATTTAAAAAGATAT
* * *
57285 TGATATCTTTTTAATATCCAAAATTTAAAAACATAAT
1 TAATATCTTTTTAATAT-TAAAATTTAAAAAGAT-AT
* * * *
57322 AAATAT-ATTTTAATTTTAAATATTTAAAAAGATTT
1 TAATATCTTTTTAATATTAAA-ATTTAAAAAGATAT
* * *
57357 TAATATCTTTTTGATATTTAAATTTAAAAGGATAAT
1 TAATATCTTTTTAATATTAAAATTTAAAAAGAT-AT
* * *
57393 AAATATC-TTTTAAT-TTGAGATATCTAAAAAGATAT
1 TAATATCTTTTTAATATT-A-AAATTTAAAAAGATAT
* * * * * *
57428 AAATATCCTATTAACATTGAAATTTAAAGAGATGA-
1 TAATATCTTTTTAATATTAAAATTTAAAAAGAT-AT
*
57463 GAATATC-TTTTAA-ATTAGAATATTTAAAAA-ATAT
1 TAATATCTTTTTAATATTA-AA-ATTTAAAAAGATAT
57497 AGGAATTTAA
Statistics
Matches: 164, Mismatches: 33, Indels: 31
0.72 0.14 0.14
Matches are distributed among these distances:
33 4 0.02
34 11 0.07
35 66 0.40
36 71 0.43
37 12 0.07
ACGTcount: A:0.47, C:0.05, G:0.06, T:0.42
Consensus pattern (35 bp):
TAATATCTTTTTAATATTAAAATTTAAAAAGATAT
Found at i:57451 original size:71 final size:71
Alignment explanation
Indices: 57251--57497 Score: 259
Period size: 71 Copynumber: 3.5 Consensus size: 71
57241 TTTAAAACAT
** * *
57251 AATATCTTTTAATTTGAAATATTTAAAAAGATATTGATATCTTTTTAATATCCAAAATTTAAAAA
1 AATATCTTTTAATTTGAAATATTTAAAAAGATATAAATATCTTTTTAATAT-TAAAATTTAAAAG
*
57316 CATAATA
65 GATAATA
* * * * * *
57323 AATATATTTTAATTTTAAATATTTAAAAAGATTTTAATATCTTTTTGATATTTAAATTTAAAAGG
1 AATATCTTTTAATTTGAAATATTTAAAAAGATATAAATATCTTTTTAATATTAAAATTTAAAAGG
57388 ATAATA
66 ATAATA
* * * * * *
57394 AATATCTTTTAATTTGAGATATCTAAAAAGATATAAATATCCTATTAACATTGAAATTT-AAAGA
1 AATATCTTTTAATTTGAAATATTTAAAAAGATATAAATATCTTTTTAATATTAAAATTTAAAAG-
* *
57458 GATGA-G
65 GATAATA
*
57464 AATATCTTTTAAATT-AGAATATTTAAAAA-ATATA
1 AATATCTTTTAATTTGA-AATATTTAAAAAGATATA
57498 GGAATTTAAT
Statistics
Matches: 148, Mismatches: 25, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
69 6 0.04
70 28 0.19
71 68 0.46
72 46 0.31
ACGTcount: A:0.47, C:0.05, G:0.06, T:0.42
Consensus pattern (71 bp):
AATATCTTTTAATTTGAAATATTTAAAAAGATATAAATATCTTTTTAATATTAAAATTTAAAAGG
ATAATA
Found at i:62154 original size:24 final size:24
Alignment explanation
Indices: 62127--62199 Score: 67
Period size: 24 Copynumber: 3.0 Consensus size: 24
62117 CGTTCATTTA
62127 CGTTC-GTGAACGTTCGGTTATGTT
1 CGTTCGGT-AACGTTCGGTTATGTT
* * *
62151 CGTTCGGTTATGTTCGTTTATGTT
1 CGTTCGGTAACGTTCGGTTATGTT
* * * *
62175 CGTTCGATTATGTTCGTTTATGTT
1 CGTTCGGTAACGTTCGGTTATGTT
62199 C
1 C
62200 ATTCATTTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
24 42 0.95
25 2 0.05
ACGTcount: A:0.11, C:0.15, G:0.25, T:0.49
Consensus pattern (24 bp):
CGTTCGGTAACGTTCGGTTATGTT
Found at i:62156 original size:14 final size:14
Alignment explanation
Indices: 62137--62192 Score: 75
Period size: 14 Copynumber: 4.3 Consensus size: 14
62127 CGTTCGTGAA
62137 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
62151 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
62165 CG-T---TTATGTT
1 CGTTCGGTTATGTT
*
62175 CGTTCGATTATGTT
1 CGTTCGGTTATGTT
62189 CGTT
1 CGTT
62193 TATGTTCATT
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
10 9 0.24
11 1 0.03
13 1 0.03
14 27 0.71
ACGTcount: A:0.09, C:0.14, G:0.25, T:0.52
Consensus pattern (14 bp):
CGTTCGGTTATGTT
Found at i:62209 original size:24 final size:23
Alignment explanation
Indices: 62138--62212 Score: 96
Period size: 24 Copynumber: 3.1 Consensus size: 23
62128 GTTCGTGAAC
* *
62138 GTTCGGTTATGTTCGTTCGGTTAT
1 GTTCGTTTATGTTCGTTC-ATTAT
62162 GTTCGTTTATGTTCGTTCGATTAT
1 GTTCGTTTATGTTCGTTC-ATTAT
*
62186 GTTCGTTTATGTTCATTCATTTAT
1 GTTCGTTTATGTTCGTTCA-TTAT
62210 GTT
1 GTT
62213 TAACCCAATC
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
23 1 0.02
24 46 0.98
ACGTcount: A:0.12, C:0.12, G:0.21, T:0.55
Consensus pattern (23 bp):
GTTCGTTTATGTTCGTTCATTAT
Found at i:62955 original size:10 final size:10
Alignment explanation
Indices: 62940--63014 Score: 61
Period size: 10 Copynumber: 7.7 Consensus size: 10
62930 GGGTCTCCAA
62940 CGTTTATGTT
1 CGTTTATGTT
62950 CGTTTATGTT
1 CGTTTATGTT
62960 CGTGTTCAT-TT
1 CGT-TT-ATGTT
* **
62971 ATGTTCGTGTT
1 -CGTTTATGTT
62982 CGTTTATGTT
1 CGTTTATGTT
62992 CG----TGTT
1 CGTTTATGTT
62998 CGTTTATGTT
1 CGTTTATGTT
63008 CGTTTAT
1 CGTTTAT
63015 TTATTAAATG
Statistics
Matches: 51, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
6 6 0.12
10 34 0.67
11 7 0.14
12 4 0.08
ACGTcount: A:0.09, C:0.12, G:0.21, T:0.57
Consensus pattern (10 bp):
CGTTTATGTT
Found at i:62971 original size:16 final size:16
Alignment explanation
Indices: 62946--63010 Score: 121
Period size: 16 Copynumber: 4.1 Consensus size: 16
62936 CCAACGTTTA
62946 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
*
62962 TGTTCATTTATGTTCG
1 TGTTCGTTTATGTTCG
62978 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
62994 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
63010 T
1 T
63011 TTATTTATTA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.08, C:0.12, G:0.23, T:0.57
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:63101 original size:16 final size:16
Alignment explanation
Indices: 63080--63112 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
63070 AAAAAAAATT
63080 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
63096 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
63112 T
1 T
63113 CTATTTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.06, C:0.12, G:0.24, T:0.58
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:66421 original size:1 final size:1
Alignment explanation
Indices: 66415--66439 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
66405 CAAGCCAACC
66415 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
66440 CCTTGGGCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:67486 original size:3 final size:3
Alignment explanation
Indices: 67467--67686 Score: 257
Period size: 3 Copynumber: 74.3 Consensus size: 3
67457 AATAAAAATT
* * * *
67467 TAA T-A TAA -AA T-A TAA TAA TAA TAA TAA TAA TAA CAA CAA CAA CAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * * * * * * *
67512 CAA CAA CAA TAA TAA TAA TAA TAA CAA CAA CAA CAA CAA CAA CAA CAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
67560 CAA CAA CAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
67608 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
67656 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
67687 GGGTATCGGG
Statistics
Matches: 210, Mismatches: 4, Indels: 6
0.95 0.02 0.03
Matches are distributed among these distances:
2 6 0.03
3 204 0.97
ACGTcount: A:0.66, C:0.08, G:0.00, T:0.25
Consensus pattern (3 bp):
TAA
Found at i:68172 original size:41 final size:42
Alignment explanation
Indices: 68127--68269 Score: 130
Period size: 41 Copynumber: 3.4 Consensus size: 42
68117 GGTTCATATA
*
68127 TAGTGGCGTATTTTCAAAAAATGCCGCAATAGAG-AGTACTT
1 TAGTGGCGTTTTTTCAAAAAATGCCGCAATAGAGAAGTACTT
*** * *
68168 TAGTGTTTTTTTTATATAAAAAATGCCACAATAGAGAAGTACTT
1 TAGTGGCGTTTTT-T-CAAAAAATGCCGCAATAGAGAAGTACTT
* * * * * *
68212 TAGCGGCG-TTTGT-ATACAAACGCCGCAATATAGTAGTACTT
1 TAGTGGCGTTTTTTCA-AAAAATGCCGCAATAGAGAAGTACTT
68253 TAGTGGCGTTTTTTCAA
1 TAGTGGCGTTTTTTCAA
68270 CAAACGCCTA
Statistics
Matches: 78, Mismatches: 18, Indels: 11
0.73 0.17 0.10
Matches are distributed among these distances:
40 1 0.01
41 37 0.47
42 7 0.09
43 22 0.28
44 11 0.14
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.34
Consensus pattern (42 bp):
TAGTGGCGTTTTTTCAAAAAATGCCGCAATAGAGAAGTACTT
Found at i:68470 original size:41 final size:40
Alignment explanation
Indices: 68424--68523 Score: 119
Period size: 42 Copynumber: 2.4 Consensus size: 40
68414 TAGACTTGTC
* *
68424 ATTTAGTGGTTTTTTTATTCAAACGACGCAATAGTCATGTA
1 ATTTAGTGGTTTTTTTAAT-AAACGACGCAATAATCATGTA
* * *
68465 CTTTAGTGGCGTTTTTGTAATAAACGCCGCAATAATCATGTA
1 ATTTAGT-G-GTTTTTTTAATAAACGACGCAATAATCATGTA
68507 ATTTAGTGGTGTTTTTT
1 ATTTAGTGGT-TTTTTT
68524 GGTAATAAAT
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
40 2 0.04
41 12 0.24
42 26 0.53
43 9 0.18
ACGTcount: A:0.26, C:0.12, G:0.19, T:0.43
Consensus pattern (40 bp):
ATTTAGTGGTTTTTTTAATAAACGACGCAATAATCATGTA
Found at i:68496 original size:42 final size:43
Alignment explanation
Indices: 68444--68566 Score: 149
Period size: 44 Copynumber: 2.9 Consensus size: 43
68434 TTTTTTATTC
*
68444 AAACGACGCAATAGTCATGTACTTTAGTGGCGTTTTT-GTAAT
1 AAACGCCGCAATAGTCATGTACTTTAGTGGCGTTTTTGGTAAT
* * *
68486 AAACGCCGCAATAATCATGTAATTTAGTGGTGTTTTTTGGTAAT
1 AAACGCCGCAATAGTCATGTACTTTAGTGGCG-TTTTTGGTAAT
* * * * *
68530 AAATGCTGCAGTTGTGATGTACTTTAGTGGCGTTTTT
1 AAACGCCGCAATAGTCATGTACTTTAGTGGCGTTTTT
68567 ATTATTATTA
Statistics
Matches: 67, Mismatches: 12, Indels: 3
0.82 0.15 0.04
Matches are distributed among these distances:
42 28 0.42
43 10 0.15
44 29 0.43
ACGTcount: A:0.26, C:0.12, G:0.23, T:0.39
Consensus pattern (43 bp):
AAACGCCGCAATAGTCATGTACTTTAGTGGCGTTTTTGGTAAT
Found at i:72870 original size:2 final size:2
Alignment explanation
Indices: 72858--72906 Score: 89
Period size: 2 Copynumber: 24.5 Consensus size: 2
72848 TACTAAAAAC
*
72858 AT AT GT 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
72900 AT AT AT A
1 AT AT AT A
72907 CAAAGGATTC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:73180 original size:18 final size:18
Alignment explanation
Indices: 73157--73191 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
73147 ACTGAATATT
*
73157 TGTCCCGAATGACCACTA
1 TGTCCCGAAGGACCACTA
73175 TGTCCCGAAGGACCACT
1 TGTCCCGAAGGACCACT
73192 GAAAATCCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.34, G:0.20, T:0.20
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:79667 original size:2 final size:2
Alignment explanation
Indices: 79655--79691 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
79645 TACTATAAAC
* *
79655 AT AT GT AT AT AT AT GT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
79692 ACAATGGATT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (2 bp):
AT
Found at i:79966 original size:18 final size:18
Alignment explanation
Indices: 79943--79995 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
79933 ACGGAATATT
*
79943 TGTCCCAAATGACCACTA
1 TGTCCCAAAGGACCACTA
*
79961 TGTCCCGAAGGACCACTA
1 TGTCCCAAAGGACCACTA
* * *
79979 TATTCCGAAGGACCACT
1 TGTCCCAAAGGACCACT
79996 GAAAATCGCT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.30, C:0.32, G:0.17, T:0.21
Consensus pattern (18 bp):
TGTCCCAAAGGACCACTA
Found at i:83309 original size:2 final size:2
Alignment explanation
Indices: 83302--83329 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
83292 TTTTCGTAGA
83302 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
83330 TAATAATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:102073 original size:20 final size:20
Alignment explanation
Indices: 102044--102090 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
102034 ATTTCACCAC
*
102044 ATGCAACTATATGCTCCTAA
1 ATGCATCTATATGCTCCTAA
*
102064 ATGCATCTATATGGTCCTAA
1 ATGCATCTATATGCTCCTAA
102084 ATG-ATCT
1 ATGCATCT
102091 CTTGGACATT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 4 0.16
20 21 0.84
ACGTcount: A:0.32, C:0.21, G:0.13, T:0.34
Consensus pattern (20 bp):
ATGCATCTATATGCTCCTAA
Found at i:106693 original size:51 final size:51
Alignment explanation
Indices: 106638--106774 Score: 143
Period size: 51 Copynumber: 2.6 Consensus size: 51
106628 TTCGTACTAC
*
106638 AAAAATATGTAGT-ACTTA-CACATACTTACACCAGTGTAAATGAATAAAAT
1 AAAAAAATGTA-TCACTTAGCACATACTTACACCAGTGTAAATGAATAAAAT
* * * *
106688 AAAAAAGTGTATCACTTAGCACATACTTACATCGGTGTAAGTGAATAAAAT
1 AAAAAAATGTATCACTTAGCACATACTTACACCAGTGTAAATGAATAAAAT
* * *
106739 AAAATAAAAAGTATAGCACTTAACACATACCTACAC
1 -AAA-AAAATGTAT--CACTTAGCACATACTTACAC
106775 TAGAAGTATG
Statistics
Matches: 71, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
49 1 0.01
50 14 0.20
51 29 0.41
52 3 0.04
53 7 0.10
55 17 0.24
ACGTcount: A:0.47, C:0.16, G:0.11, T:0.26
Consensus pattern (51 bp):
AAAAAAATGTATCACTTAGCACATACTTACACCAGTGTAAATGAATAAAAT
Found at i:109051 original size:95 final size:95
Alignment explanation
Indices: 108937--109127 Score: 355
Period size: 95 Copynumber: 2.0 Consensus size: 95
108927 GTTTTAAGTG
*
108937 AGACTAAGATTACCCTAATTTTGTGCCCCAACGCATTCAAGGCATCATCAAAGTTCATCTTCCAA
1 AGACTAAGATTACCCTAATTTTGTGCCCCAACGCATTCAAGGCAACATCAAAGTTCATCTTCCAA
109002 TACTCAAAAGTAGAAGTGACAACTTCTTCT
66 TACTCAAAAGTAGAAGTGACAACTTCTTCT
*
109032 AGACTAAGATTACCCTAATTTTGTGCCCCAACGCATTCAAGGCAACATCAAAGTTCATCTTCCAG
1 AGACTAAGATTACCCTAATTTTGTGCCCCAACGCATTCAAGGCAACATCAAAGTTCATCTTCCAA
*
109097 TACTCAAAAGTAGAAGTGCCAACTTCTTCT
66 TACTCAAAAGTAGAAGTGACAACTTCTTCT
109127 A
1 A
109128 CTGATATGAC
Statistics
Matches: 93, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
95 93 1.00
ACGTcount: A:0.34, C:0.26, G:0.13, T:0.28
Consensus pattern (95 bp):
AGACTAAGATTACCCTAATTTTGTGCCCCAACGCATTCAAGGCAACATCAAAGTTCATCTTCCAA
TACTCAAAAGTAGAAGTGACAACTTCTTCT
Found at i:120880 original size:3 final size:3
Alignment explanation
Indices: 120844--120872 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
120834 ATACCTAAAA
120844 AAT AA- AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
120873 GTAATAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:121135 original size:2 final size:2
Alignment explanation
Indices: 121128--121152 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
121118 CAGTTAATTT
121128 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
121153 TAAAAACCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:121228 original size:43 final size:41
Alignment explanation
Indices: 121133--121221 Score: 124
Period size: 41 Copynumber: 2.1 Consensus size: 41
121123 AATTTTATAT
* *
121133 ATATATATATATATATATATTAAAAACCTATACATTTTCAAA
1 ATATA-ATGTATATATATATTAAAAAACTATACATTTTCAAA
* * *
121175 ATATAATGTATATATATATTAAAAAATTATATATTTTTAAA
1 ATATAATGTATATATATATTAAAAAACTATACATTTTCAAA
121216 ATATAA
1 ATATAA
121222 AATGTATTAA
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
41 37 0.88
42 5 0.12
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (41 bp):
ATATAATGTATATATATATTAAAAAACTATACATTTTCAAA
Found at i:121767 original size:41 final size:41
Alignment explanation
Indices: 121705--121787 Score: 107
Period size: 43 Copynumber: 2.0 Consensus size: 41
121695 GCTCGTTTAG
*
121705 AAAACGGTTTGAAAAACATATA-A-TGTATACTTTTTTAAA
1 AAAACGGTTTGAAAAACATATATATTATATACTTTTTTAAA
* *
121744 AAAATCGGTTTTGAAAAATATATATATTATATAGTTTTTTAAA
1 AAAA-CGG-TTTGAAAAACATATATATTATATACTTTTTTAAA
121787 A
1 A
121788 TATTTTGAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
39 4 0.11
40 3 0.08
41 14 0.38
42 1 0.03
43 15 0.41
ACGTcount: A:0.46, C:0.05, G:0.10, T:0.40
Consensus pattern (41 bp):
AAAACGGTTTGAAAAACATATATATTATATACTTTTTTAAA
Found at i:121821 original size:38 final size:38
Alignment explanation
Indices: 121752--122057 Score: 386
Period size: 38 Copynumber: 7.9 Consensus size: 38
121742 AAAAAATCGG
* *
121752 TTTTGAAAA-ATATATATATTATATAGTTTTTTAAAATA
1 TTTTGAAAACATATATATAATATATAG-TTTTTAAAACA
*
121790 TTTTGAAAATATATATATAATATATAGTTTTTAAAACA
1 TTTTGAAAACATATATATAATATATAGTTTTTAAAACA
* *
121828 TTTTGAAAACATATAAATATTATATAGTTTTTAAAACA
1 TTTTGAAAACATATATATAATATATAGTTTTTAAAACA
* *
121866 TTTTGAAAACATATAAATATTATATAGTTTTTAAAACA
1 TTTTGAAAACATATATATAATATATAGTTTTTAAAACA
*
121904 TTTTGAATATATATATATATATATATATATAGTTTTTAAAACA
1 TTTTG-A-A-A-ACATATATATA-ATATATAGTTTTTAAAACA
*
121947 TTTTGGAAACATATATATATAGTATATAGTTTTTAAAACA
1 TTTTGAAAACATATATATA-A-TATATAGTTTTTAAAACA
*
121987 TTTTGAAAAC--ATATAT-ATATATAGTTTTTGAAAATA
1 TTTTGAAAACATATATATAATATATAGTTTTT-AAAACA
*
122023 TTTTGAGAAAACATATATAAAATATATAGTTTTTA
1 TTTT--GAAAACATATATATAATATATAGTTTTTA
122058 TAAAAAAAAC
Statistics
Matches: 242, Mismatches: 13, Indels: 24
0.87 0.05 0.09
Matches are distributed among these distances:
35 12 0.05
36 10 0.04
38 109 0.45
39 29 0.12
40 35 0.14
41 15 0.06
42 9 0.04
43 23 0.10
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.45
Consensus pattern (38 bp):
TTTTGAAAACATATATATAATATATAGTTTTTAAAACA
Found at i:121917 original size:2 final size:2
Alignment explanation
Indices: 121910--121934 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
121900 AACATTTTGA
121910 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
121935 GTTTTTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:121990 original size:159 final size:156
Alignment explanation
Indices: 121761--122136 Score: 462
Period size: 159 Copynumber: 2.4 Consensus size: 156
121751 GTTTTGAAAA
*
121761 ATATATATATTATATAGTTTTTTAAAATATTTTGAAAATATATATATAATATATAGTTTTTAAAA
1 ATATATATATTATATAGTTTTTTAAAACATTTTGAAAATATATATATAATATATAGTTTTTAAAA
*
121826 CATTTTGAAAACATATAAATATTATATAGTTTTT-AAAACATTTT-GAAAACATATA-AATATTA
66 CATTTTGAAAACATAT--ATA-TATATAGTTTTTGAAAACATTTTAGAAAACATATATAA-AATA
121888 TATAGTTTTTAAAACATTTTGAATATATAT
127 TATAGTTTTTAAAACATTTTGAATATATAT
*
121918 ATATATATATATATATAG-TTTTTAAAACATTTTGGAAACATATATATATAGTATATAGTTTTTA
1 ATATATATAT-TATATAGTTTTTTAAAACATTTT-GAAA-ATATATATATAATATATAGTTTTTA
*
121982 AAACATTTTGAAAACATATATATATATAGTTTTTGAAAATATTTTGAGAAAACATATATAAAATA
63 AAACATTTTGAAAACATATATATATATAGTTTTTGAAAACATTTT-AGAAAACATATATAAAATA
*
122047 TATAGTTTTTATAAAAAAAACATTTTTTAATATATAT
127 TATAG-TTTT-T----AAAACA-TTTTGAATATATAT
** * *
122084 A-ATATATAGTT-T-TGAAATTTTGAAAACATTTT-AGAATATATATATAATATATA
1 ATATATATA-TTATAT-AGTTTTTTAAAACATTTTGAAAATATATATATAATATATA
122137 TTTGTTTTTT
Statistics
Matches: 193, Mismatches: 9, Indels: 29
0.84 0.04 0.13
Matches are distributed among these distances:
156 12 0.06
157 36 0.19
158 11 0.06
159 62 0.32
160 6 0.03
161 1 0.01
162 17 0.09
163 3 0.02
164 2 0.01
165 28 0.15
166 15 0.08
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.44
Consensus pattern (156 bp):
ATATATATATTATATAGTTTTTTAAAACATTTTGAAAATATATATATAATATATAGTTTTTAAAA
CATTTTGAAAACATATATATATATAGTTTTTGAAAACATTTTAGAAAACATATATAAAATATATA
GTTTTTAAAACATTTTGAATATATAT
Found at i:122163 original size:4 final size:4
Alignment explanation
Indices: 122135--122220 Score: 90
Period size: 4 Copynumber: 21.2 Consensus size: 4
122125 ATATAATATA
*
122135 TATT TGTT T-TT TATAT TACTT TATT TA-T TATT TACTT T-TCGT T-TT
1 TATT TATT TATT TAT-T TA-TT TATT TATT TATT TA-TT TAT--T TATT
122180 TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT T
122221 GGCACTTTCT
Statistics
Matches: 73, Mismatches: 1, Indels: 16
0.81 0.01 0.18
Matches are distributed among these distances:
3 9 0.12
4 51 0.70
5 12 0.16
6 1 0.01
ACGTcount: A:0.21, C:0.03, G:0.02, T:0.73
Consensus pattern (4 bp):
TATT
Found at i:122844 original size:25 final size:25
Alignment explanation
Indices: 122816--122864 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
122806 CCCACTTTCT
*
122816 TTTATTTAATATTT-TTTAATTTTTA
1 TTTAATTAAT-TTTATTTAATTTTTA
*
122841 TTTAATTAATTTTATTTTATTTTT
1 TTTAATTAATTTTATTTAATTTTT
122865 CCTTTGATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 3 0.14
25 18 0.86
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (25 bp):
TTTAATTAATTTTATTTAATTTTTA
Found at i:122846 original size:11 final size:11
Alignment explanation
Indices: 122815--122847 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
122805 TCCCACTTTC
122815 TTTTATTTAAT
1 TTTTATTTAAT
*
122826 ATTT-TTTAAT
1 TTTTATTTAAT
122836 TTTTATTTAAT
1 TTTTATTTAAT
122847 T
1 T
122848 AATTTTATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (11 bp):
TTTTATTTAAT
Found at i:122853 original size:21 final size:19
Alignment explanation
Indices: 122815--122862 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 19
122805 TCCCACTTTC
*
122815 TTTTATTTAATATTTTTTAA
1 TTTTATTTAATATATTTT-A
122835 TTTTTATTTAAT-TAATTTTA
1 -TTTTATTTAATAT-ATTTTA
122855 TTTTATTT
1 TTTTATTT
122863 TTCCTTTGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 8 0.32
20 2 0.08
21 15 0.60
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (19 bp):
TTTTATTTAATATATTTTA
Found at i:122884 original size:20 final size:20
Alignment explanation
Indices: 122855--122894 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
122845 ATTAATTTTA
* *
122855 TTTTATTTTTCCTTTGATTT
1 TTTTAATTTTCCTTTAATTT
122875 TTTTAATTTTCCTTTAATTT
1 TTTTAATTTTCCTTTAATTT
122895 ATCTAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.15, C:0.10, G:0.03, T:0.72
Consensus pattern (20 bp):
TTTTAATTTTCCTTTAATTT
Found at i:122901 original size:20 final size:20
Alignment explanation
Indices: 122861--122901 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
122851 TTTATTTTAT
* * *
122861 TTTTCCTTTGATTTTTTTAA
1 TTTTCCTTTAATTTATCTAA
122881 TTTTCCTTTAATTTATCTAA
1 TTTTCCTTTAATTTATCTAA
122901 T
1 T
122902 ATTTATTTCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.20, C:0.12, G:0.02, T:0.66
Consensus pattern (20 bp):
TTTTCCTTTAATTTATCTAA
Found at i:122996 original size:6 final size:6
Alignment explanation
Indices: 122985--123011 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
122975 GAATCAAATT
122985 TTTAAA TTTAAA TTTAAA TTTAAA TTT
1 TTTAAA TTTAAA TTTAAA TTTAAA TTT
123012 TTGCAATTAA
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (6 bp):
TTTAAA
Found at i:123835 original size:14 final size:14
Alignment explanation
Indices: 123798--123838 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
123788 TTTCCTTTAA
123798 TTTATCTAATATTT
1 TTTATCTAATATTT
*
123812 ATT-TCT--TATTT
1 TTTATCTAATATTT
123823 TTTATCTAATATTT
1 TTTATCTAATATTT
123837 TT
1 TT
123839 GTCTTTTTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 6
0.73 0.07 0.20
Matches are distributed among these distances:
11 7 0.32
12 3 0.14
13 3 0.14
14 9 0.41
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.68
Consensus pattern (14 bp):
TTTATCTAATATTT
Found at i:124638 original size:22 final size:23
Alignment explanation
Indices: 124613--124661 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
124603 ATTTTTACTT
124613 ATTTTA-TTTTATTTTTCCTTTG
1 ATTTTATTTTTATTTTTCCTTTG
* *
124635 A-TTTATTTTTGTTTTTCCTTTT
1 ATTTTATTTTTATTTTTCCTTTG
124657 ATTTT
1 ATTTT
124662 TTATTTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 4 0.17
22 16 0.70
23 3 0.13
ACGTcount: A:0.12, C:0.08, G:0.04, T:0.76
Consensus pattern (23 bp):
ATTTTATTTTTATTTTTCCTTTG
Found at i:124677 original size:25 final size:25
Alignment explanation
Indices: 124636--124685 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
124626 TTTCCTTTGA
* *
124636 TTTATTTTTGTTTTTCCTTTTATTT
1 TTTATTTTTGTTATTCCTTTAATTT
124661 TTTATTTTT-TATATTCCTTTAATTT
1 TTTATTTTTGT-TATTCCTTTAATTT
124686 ATCTAATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 1 0.05
25 21 0.95
ACGTcount: A:0.14, C:0.08, G:0.02, T:0.76
Consensus pattern (25 bp):
TTTATTTTTGTTATTCCTTTAATTT
Found at i:124791 original size:12 final size:13
Alignment explanation
Indices: 124769--124797 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
124759 TGAATCAAAT
124769 TTTTAAATTTTAA
1 TTTTAAATTTTAA
124782 TTTT-AATTTTAA
1 TTTTAAATTTTAA
124794 TTTT
1 TTTT
124798 CAAAATTAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTTAAATTTTAA
Found at i:124992 original size:890 final size:890
Alignment explanation
Indices: 122911--125303 Score: 3181
Period size: 890 Copynumber: 2.7 Consensus size: 890
122901 TATTTATTTC
* *
122911 TTATTTCTTATCTAATATTTTTGTCCTTTTTTA---ATACTTTTAATCGATCAAAGGTAAATAGT
1 TTATTTCTTATCTAATATTTTTG-AC-TTTTTAGGGATACTTTTAATCGATCAAAGGTAATTAGT
* * ** * * *
122973 TTGAATCAAATTTTTAAATTTAAATTTAAATTTAAATTTTTGCAATTAAGATAGCCAACAAACTA
64 TTGAATCAAATTTTTAAATTTTAATTT-AATTTTAATTTTCACAATTAAGATAACCGACAAATTA
*
123038 ATTGGTATCGAAAGGGCAGTACAAGGGTGTTAATCCTTCCTTGACTGTAACCGACTCCCGAACCC
128 ATTGGTATCGAAAGGGCAGTACAAGGGTGTTAATCATTCCTTGACTGTAACCGACTCCCGAACCC
* * ** *
123103 AACACATTTCT-GTAAAACGCATATCA-AGTAAGATGGTGTCCGATCCATTTTAATG-TTTTAAA
193 GACACATTTCTGGTAAAACGCATATCAGA-TAAGATGGTGTCTGATCCACCTAAATGTTTTTAAA
*
123165 ATGATCGGTGGCGACTCTAACATTTTATTCAAGT-TGAAACCCAA-TTC-ATGACCCACCCGAAA
257 ATGATCGGTGGCGACTCTAACATTTTATTCAAGTCT-AAGCCCAATTTCGA-G-CCCACCCGAAA
* * *
123227 GACGGCCGCGACAACTTGGGCCCTATATGTTTTTTTTGAGTGAATGGTTA-AAATGATAATTTTT
319 GACGGTCGCGACAACTTGGACCCTA-AT-TTTTTTTTGAGTGAATGATTACAAATGATAATTTTT
* *
123291 TTTGTTTTAAGGGGTATTTAT-GGGGAACCACTGTGTAATTAGTAAATATTTAAATTATTTCCAC
382 TTAGTTTTAAGGGGTATTTATAGGGG-ACCACTGTGTAATTAGTAAATATTTAAATTATTT-CTC
* *** * * * *
123355 ATTTTTTGTAGTTTTGATGCGTAATTCATTTTGGTCATATGTTGTAAATTTACCCTCAAATTTTG
445 AGTCCCTGCAGTTTTGATGCGTAATTCATTTTGGTCACATGTTGTGAATTTACCCTCGAATTTTG
*
123420 AATTGTTTTGATTTAATCCCTATTTATATTCTTTATATTTATGCAATTAAGCTCCCTAACTTTTT
510 AATTGTTTCGATTTAATCCCTATTTATATTCTTTATATTTATGCAATTAAGC-CCCTAACTTTTT
*
123485 GTTTTTCTATTGCAGCTCATTTTTAGTGCCCATTTAATCCATCAATTTCAATTTATTTCAATTTG
574 GTTTTTCTCTTGCAGCTCATTTTTAGTGCCCATTTAATCCATCAATTTCAATTTATTTCAATTTG
* * * *
123550 GTCCTTTAAATTTTTTTCGTTATTCATTTTTTTCTTTCCTTTTTAATTTTATCATTTTTTATTTT
639 GTCCTTTAAATTGTTTTAGTTATTCATTTTTTTCTTTCCTTTTTAATTTTAGCATTTTTTATTGT
* * * **
123615 AGTTATTCATTTGTCCTATTAATTTTAGTATTTTTTATTTTTATTTTTTTTACTTCCTATTATTT
704 AGTTATTCATTTGTCCTATTAATTTTAGTATTTTTTAATGTAACATTTTTTAC-T-CTATTATTT
* * * * * *
123680 TTTAATGTAACATTTTTTTATTTTATTTTTCCCCTTTGATTTATTTAATATTTTTTTTTATTTTA
767 TTCAATGTAACATTTTTTAATTTTAATATT---CTTTGACTTATTT-ATATTTTTTTTTATTTGA
* *
123745 TTTTAGTTTTCCTTTGATTTATTTTTATTTTTTATTTTGTTATTTTCCTTTAATTTATCTAATAT
828 TTTTAGTTTT-CTTT-ATTTACTTTTATTTTTTATTTTGTTATATTCCTTTAATTTATCTAATAT
* * *
123810 TTATTTCTTATTTTTTATCTAATATTTTTGTCTTTTTAGGGTTACTTTTAATCAATCAAAGGTAA
1 TTATTTC-------TTATCTAATATTTTTGACTTTTTAGGGATACTTTTAATCGATCAAAGGTAA
* *
123875 TTAGTTTGAATCGAA----T---TTTT-A---AATTTTAATTTTCACAATTAAGATAACTGACAA
59 TTAGTTTGAATCAAATTTTTAAATTTTAATTTAATTTTAATTTTCACAATTAAGATAACCGACAA
* *
123929 ATTAATTGGTATCAAAAAGGCAGTACAAGGGTGTTAATCATTCCTTGACTGTAACCGACTCCCGA
124 ATTAATTGGTATCGAAAGGGCAGTACAAGGGTGTTAATCATTCCTTGACTGTAACCGACTCCCGA
* * * * *
123994 ACCAGACATATTTATGGTAAAACGCATATCAGGTAAGATGGTGTCTGATCCACCTAAATATTTTT
189 ACCCGACACATTTCTGGTAAAACGCATATCAGATAAGATGGTGTCTGATCCACCTAAATGTTTTT
124059 AAAATGATCGGTGGCGACTCTAACATTTTATTCAAGTCTAAGCCCAATTTCGAGCCCACCCGAAA
254 AAAATGATCGGTGGCGACTCTAACATTTTATTCAAGTCTAAGCCCAATTTCGAGCCCACCCGAAA
* * * *
124124 GACGGTTGTGACAACTTAGACCCTAATTTTTTTTTGAGTGAATAATTACAAATGATAATTTTTTT
319 GACGGTCGCGACAACTTGGACCCTAATTTTTTTTTGAGTGAATGATTACAAATGATAATTTTTTT
* * *
124189 GGGCTTTAAGGGGTATTTATAGGGGGCCACTGTGTAATTAGTAAATATTTAAATTATTTCTGCAG
384 -AGTTTTAAGGGGTATTTATAGGGGACCACTGTGTAATTAGTAAATATTTAAATTATTTCT-CAG
* * * * * *
124254 TCCCTACAGTTTTGATGTGTAATTCATTTTGGTTACCTGTTGTGAATTTACACTCGAATTTTAAA
447 TCCCTGCAGTTTTGATGCGTAATTCATTTTGGTCACATGTTGTGAATTTACCCTCGAATTTTGAA
* *
124319 TTGTTTCGATTTAATCTCTGTTTATATTCTTTATATTTATGCAATTAAGCCCCTAACTTTTTGTT
512 TTGTTTCGATTTAATCCCTATTTATATTCTTTATATTTATGCAATTAAGCCCCTAACTTTTTGTT
*
124384 TTTCTCTTGCAGCTCATTTTTAGTGCCCATTTAATCCATCAATTTCAATTTATTTCAATTTGTTC
577 TTTCTCTTGCAGCTCATTTTTAGTGCCCATTTAATCCATCAATTTCAATTTATTTCAATTTGGTC
*
124449 CTTTTAATTGTTTTAGTTATTCATTTTTTTCTTTCCTTTTTAATTTTAGCATTTTTTATTGTAGT
642 CTTTAAATTGTTTTAGTTATTCATTTTTTTCTTTCCTTTTTAATTTTAGCATTTTTTATTGTAGT
* * *
124514 TATTCATTTTTTTCTTGTTAATTTTAGTATGTTTTTTAATGTAACATTTTTTA-T-T-TTATTTT
707 TATTCA--TTTGTCCTATTAATTTTAGTA--TTTTTTAATGTAACATTTTTTACTCTATTATTTT
** ** *
124576 TCCCCT-T-TGATTTATTTAATATTTAATATT-TTT-ACTTATTT-TATTTTATTTTTCCTTTGA
768 T-CAATGTAACATTT-TTTAAT-TTTAATATTCTTTGACTTATTTATATTTT-TTTTT-ATTTGA
*
124636 -TTTA-TTTT-TGTT-TTTCCTTTTATTTTTTATTTT-TTATATTCCTTTAATTTATCTAATAT
828 TTTTAGTTTTCT-TTATTTACTTTTATTTTTTATTTTGTTATATTCCTTTAATTTATCTAATAT
*
124695 TTATTTCTTATCTAATATTTTTGACTTTTTAGGGATATTTTTAATCGATCAAAGGTAATTAGTTT
1 TTATTTCTTATCTAATATTTTTGACTTTTTAGGGATACTTTTAATCGATCAAAGGTAATTAGTTT
*
124760 GAATCAAATTTTTAAATTTTAATTTTAATTTTAATTTTCAAAATTAAGATAACCGACAAATTAAT
66 GAATCAAATTTTTAAATTTTAA-TTTAATTTTAATTTTCACAATTAAGATAACCGACAAATTAAT
* * * *
124825 TGGTACCGAAAGGGCAGTACAATGGTGCTAATCATTCCTTGACTGTAACCGACTCCTGAACCCGA
130 TGGTATCGAAAGGGCAGTACAAGGGTGTTAATCATTCCTTGACTGTAACCGACTCCCGAACCCGA
124890 CACATTTCTGGTAAAACGCATATCAGATAAGATGGTG-CTTGATCCACCTAAATGTTTTTAAAAT
195 CACATTTCTGGTAAAACGCATATCAGATAAGATGGTGTC-TGATCCACCTAAATGTTTTTAAAAT
* * * *
124954 GATCGGTGGCGACTCTAACATTTTATTTAAGTCTAAGCCCAATTTTGGGCCCACCCGAAAGACGA
259 GATCGGTGGCGACTCTAACATTTTATTCAAGTCTAAGCCCAATTTCGAGCCCACCCGAAAGACGG
* *
125019 TCGCGACAGCTTGGACCCTAATTGTTTTTTTGAGTGAATGATTACAAATGATAATATTTTTAGTT
324 TCGCGACAACTTGGACCCTAATT-TTTTTTTGAGTGAATGATTACAAATGATAATTTTTTTAGTT
* *
125084 TTATGGGGTATTTATATGGGGACCACTGTATAATTAGTAAATATTTAAATTATTAT-TCAGTCCC
388 TTAAGGGGTATTTATA-GGGGACCACTGTGTAATTAGTAAATATTTAAATTATT-TCTCAGTCCC
* *
125148 TGCAGTTTTGATGCATAATTCATTTTGGTCACATGTTGTGAATTTACCCTCGAATTTTGAATTAT
451 TGCAGTTTTGATGCGTAATTCATTTTGGTCACATGTTGTGAATTTACCCTCGAATTTTGAATTGT
*
125213 TTCGATTTAATCCCTATTCATATTCTTTATATTTATGCAATTAAGCCCCTAAC-TTTT-TTTTTC
516 TTCGATTTAATCCCTATTTATATTCTTTATATTTATGCAATTAAGCCCCTAACTTTTTGTTTTTC
*
125276 TCTTGCATCTCATTTTTAGTGCCCATTT
581 TCTTGCAGCTCATTTTTAGTGCCCATTT
125304 GATTTATTTA
Statistics
Matches: 1319, Mismatches: 129, Indels: 103
0.85 0.08 0.07
Matches are distributed among these distances:
878 61 0.05
882 1 0.00
885 36 0.03
886 20 0.02
887 1 0.00
888 35 0.03
889 15 0.01
890 373 0.28
891 82 0.06
892 4 0.00
894 4 0.00
895 132 0.10
896 209 0.16
897 230 0.17
898 28 0.02
899 9 0.01
900 20 0.02
903 1 0.00
904 6 0.00
905 1 0.00
906 16 0.01
907 35 0.03
ACGTcount: A:0.27, C:0.14, G:0.12, T:0.46
Consensus pattern (890 bp):
TTATTTCTTATCTAATATTTTTGACTTTTTAGGGATACTTTTAATCGATCAAAGGTAATTAGTTT
GAATCAAATTTTTAAATTTTAATTTAATTTTAATTTTCACAATTAAGATAACCGACAAATTAATT
GGTATCGAAAGGGCAGTACAAGGGTGTTAATCATTCCTTGACTGTAACCGACTCCCGAACCCGAC
ACATTTCTGGTAAAACGCATATCAGATAAGATGGTGTCTGATCCACCTAAATGTTTTTAAAATGA
TCGGTGGCGACTCTAACATTTTATTCAAGTCTAAGCCCAATTTCGAGCCCACCCGAAAGACGGTC
GCGACAACTTGGACCCTAATTTTTTTTTGAGTGAATGATTACAAATGATAATTTTTTTAGTTTTA
AGGGGTATTTATAGGGGACCACTGTGTAATTAGTAAATATTTAAATTATTTCTCAGTCCCTGCAG
TTTTGATGCGTAATTCATTTTGGTCACATGTTGTGAATTTACCCTCGAATTTTGAATTGTTTCGA
TTTAATCCCTATTTATATTCTTTATATTTATGCAATTAAGCCCCTAACTTTTTGTTTTTCTCTTG
CAGCTCATTTTTAGTGCCCATTTAATCCATCAATTTCAATTTATTTCAATTTGGTCCTTTAAATT
GTTTTAGTTATTCATTTTTTTCTTTCCTTTTTAATTTTAGCATTTTTTATTGTAGTTATTCATTT
GTCCTATTAATTTTAGTATTTTTTAATGTAACATTTTTTACTCTATTATTTTTCAATGTAACATT
TTTTAATTTTAATATTCTTTGACTTATTTATATTTTTTTTTATTTGATTTTAGTTTTCTTTATTT
ACTTTTATTTTTTATTTTGTTATATTCCTTTAATTTATCTAATAT
Found at i:125451 original size:5 final size:4
Alignment explanation
Indices: 125388--125490 Score: 54
Period size: 4 Copynumber: 25.0 Consensus size: 4
125378 TTAATGTAAC
*
125388 ATTT ATTT ATTT A-TT -TTT ATTT AATT -TTT ACCCTTT GATTT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT A---TTT -ATTT ATTT
* * *
125433 ATTT AATTT ATTT ATTTT ATTTT ATTT -TTC CTTT GATTT ATTT TTTT
1 ATTT -ATTT ATTT A-TTT A-TTT ATTT ATTT ATTT -ATTT ATTT ATTT
*
125480 AATT -TTT ATTT
1 ATTT ATTT ATTT
125491 TCCTTTAATT
Statistics
Matches: 78, Mismatches: 9, Indels: 24
0.70 0.08 0.22
Matches are distributed among these distances:
3 10 0.13
4 45 0.58
5 19 0.24
7 3 0.04
8 1 0.01
ACGTcount: A:0.21, C:0.05, G:0.02, T:0.72
Consensus pattern (4 bp):
ATTT
Found at i:125474 original size:30 final size:30
Alignment explanation
Indices: 125434--125503 Score: 99
Period size: 30 Copynumber: 2.3 Consensus size: 30
125424 GATTTATTTA
125434 TTTAATTTATTTATTTT-A-TTTTATTTTTCC
1 TTTAATTTATTT-TTTTAATTTTTA-TTTTCC
*
125464 TTTGATTTATTTTTTTAATTTTTATTTTCC
1 TTTAATTTATTTTTTTAATTTTTATTTTCC
125494 TTTAATTTAT
1 TTTAATTTAT
125504 CTAATATTGA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
29 4 0.11
30 27 0.75
31 5 0.14
ACGTcount: A:0.20, C:0.06, G:0.01, T:0.73
Consensus pattern (30 bp):
TTTAATTTATTTTTTTAATTTTTATTTTCC
Found at i:125481 original size:43 final size:44
Alignment explanation
Indices: 125388--125501 Score: 146
Period size: 43 Copynumber: 2.6 Consensus size: 44
125378 TTAATGTAAC
125388 ATTT-ATTTATTTATTTTTATTTAATTTTTACCCTTTGATTTATTT
1 ATTTAATTTATTTA-TTTTATTTAATTTTTA-CCTTTGATTTATTT
*
125433 ATTTAATTTATTTATTTTATTTTATTTTT-CCTTTGATTTATTT
1 ATTTAATTTATTTATTTTATTTAATTTTTACCTTTGATTTATTT
* *
125476 TTTTAA-TT-TTTATTTTCCTTTAATTT
1 ATTTAATTTATTTATTTT-ATTTAATTT
125502 ATCTAATATT
Statistics
Matches: 63, Mismatches: 4, Indels: 7
0.85 0.05 0.09
Matches are distributed among these distances:
41 8 0.13
42 9 0.14
43 19 0.30
45 18 0.29
46 9 0.14
ACGTcount: A:0.21, C:0.06, G:0.02, T:0.71
Consensus pattern (44 bp):
ATTTAATTTATTTATTTTATTTAATTTTTACCTTTGATTTATTT
Found at i:125487 original size:15 final size:16
Alignment explanation
Indices: 125469--125501 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
125459 TTTCCTTTGA
125469 TTTATTTT-TTTAATT
1 TTTATTTTCTTTAATT
125484 TTTATTTTCCTTTAATT
1 TTTATTTT-CTTTAATT
125501 T
1 T
125502 ATCTAATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTATTTTCTTTAATT
Found at i:126590 original size:15 final size:16
Alignment explanation
Indices: 126565--126595 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
126555 ATGTCACTGA
126565 CTTTTTCCTTTCATTT
1 CTTTTTCCTTTCATTT
126581 CTTTTT-CTTTCATTT
1 CTTTTTCCTTTCATTT
126596 TATTTTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.06, C:0.23, G:0.00, T:0.71
Consensus pattern (16 bp):
CTTTTTCCTTTCATTT
Found at i:131175 original size:84 final size:84
Alignment explanation
Indices: 130834--131422 Score: 637
Period size: 85 Copynumber: 6.9 Consensus size: 84
130824 GAACTATTCG
* * * *
130834 CAGCATAGCTCAAGGCAAGAAGGGCTATCTGTCAGAAAAAAAACCTTTGAGTTCGATTATATTCA
1 CAGCATAGCTCAAGGCGAGAAGGGCTATCTGTC---AACAAAACCTTCGAGTTCGATTACATTCA
*
130899 ACTCAAGGACATATCAAATTTA
63 GCTCAAGGACATATCAAATTTA
* * * * *
130921 CAACATAGCTCAAGGCGACAAGGGATATCTGTCAGGAAAAAACCTTGGAGTTCGATTACATTCAG
1 CAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCA--ACAAAACCTTCGAGTTCGATTACATTCAG
*
130986 CTCAAGGATATATCAAATTTA
64 CTCAAGGACATATCAAATTTA
* * * * *
131007 TATCATAGCTCAAGGCGAGAAGGGGTATATATCAACCAAAACCTTCGAGTTCGATTACATTCAGC
1 CAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAA-CAAAACCTTCGAGTTCGATTACATTCAGC
*
131072 TCATGGACATATCAAATTTA
65 TCAAGGACATATCAAATTTA
* * * * *
131092 CAGTATATCTCAAGGCGAGAAGGGCTATCTGTCAACCAAACATTCGAGTTTGATTACATTCAGCT
1 CAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAACCTTCGAGTTCGATTACATTCAGCT
*
131157 CAAGGGCATATCAAATTTA
66 CAAGGACATATCAAATTTA
* * * *
131176 CAGCATAGCTCAAGGAGAGAAGGGCTATCTGTCAAC-AAACCTTCAAGTTTGATTACATTTAGCT
1 CAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAACCTTCGAGTTCGATTACATTCAGCT
* *
131240 CAAGGGCATATCAAATTTG
66 CAAGGACATATCAAATTTA
* * * * *
131259 CAACATAGCTCAAAGTGAGAAGGGTTATCTATCAACAAAAACCTTCGAGTTCGATTTA-ATTCAG
1 CAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAAC-AAAACCTTCGAGTTCGA-TTACATTCAG
**
131323 CTCAAAGG-TGTATCAAATTTA
64 CTC-AAGGACATATCAAATTTA
* * * * * * * *
131344 CAGCATAGCTCAAGGTGAGAAGAGTTATTTGCCAA-AAAAACTGTCGAGTTCAATTCCATTCAGC
1 CAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAACCT-TCGAGTTCGATTACATTCAGC
** *
131408 TTGATGACATATCAA
65 TCAAGGACATATCAA
131423 CTGCATAATA
Statistics
Matches: 430, Mismatches: 62, Indels: 23
0.83 0.12 0.04
Matches are distributed among these distances:
83 84 0.20
84 102 0.24
85 134 0.31
86 81 0.19
87 29 0.07
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (84 bp):
CAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAACCTTCGAGTTCGATTACATTCAGCT
CAAGGACATATCAAATTTA
Found at i:131294 original size:252 final size:254
Alignment explanation
Indices: 130834--131405 Score: 679
Period size: 252 Copynumber: 2.2 Consensus size: 254
130824 GAACTATTCG
* * * *
130834 CAGCATAGCTCAAGGCAAGAAGGGCTATCTGTCAGAAAAAAAACCTTTGAGTTCGATTATATTCA
1 CAGCATAGCTCAAGGCGAGAAGGGCTATCTGTC--AAAAAAAACATTCGAGTTCGATTACATTCA
*
130899 ACTCAAGGACATATCAAATTTACAACATAGCTCAAGGCGACAAGGGATATCTGTCAGGAAAAAAC
64 ACTCAAGGACATATCAAATTTACAACATAGCTCAAGGAGACAAGGGATATCTGTC--GAAAAAAC
** * * * *
130964 CTTGGAGTTCGATTACATTCAGCTCAAGGATATATCAAATTTATATCATAGCTCAAGGCGAGAAG
127 CTTCAAGTTCGATTACATTCAGCTCAAGGACATATCAAATTTACAACATAGCTCAAAGCGAGAAG
* *
131029 GGGTATATATCAACCAAAACCTTCGAGTTCGA-TTACATTCAGCTC-ATGGACATATCAAATTTA
192 GGGTATATATCAACAAAAACCTTCGAGTTCGATTTA-ATTCAGCTCAAAGG-CATATCAAATTTA
* * ** * *
131092 CAGTATATCTCAAGGCGAGAAGGGCTATCTGTC-AACCAAACATTCGAGTTTGATTACATTCAGC
1 CAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAAAAAAAACATTCGAGTTCGATTACATTCAAC
* * * * *
131156 TCAAGGGCATATCAAATTTACAGCATAGCTCAAGGAGAGAAGGGCTATCTGTC-AACAAACCTTC
66 TCAAGGACATATCAAATTTACAACATAGCTCAAGGAGACAAGGGATATCTGTCGAAAAAACCTTC
* * * * * *
131220 AAGTTTGATTACATTTAGCTCAAGGGCATATCAAATTTGCAACATAGCTCAAAGTGAGAAGGGTT
131 AAGTTCGATTACATTCAGCTCAAGGACATATCAAATTTACAACATAGCTCAAAGCGAGAAGGGGT
* **
131285 ATCTATCAACAAAAACCTTCGAGTTCGATTTAATTCAGCTCAAAGGTGTATCAAATTTA
196 ATATATCAACAAAAACCTTCGAGTTCGATTTAATTCAGCTCAAAGGCATATCAAATTTA
* * * * * * *
131344 CAGCATAGCTCAAGGTGAGAAGAGTTATTTG-CCAAAAAAAC-TGTCGAGTTCAATTCCATTCA
1 CAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAAAAAAAACAT-TCGAGTTCGATTACATTCA
131406 GCTTGATGAC
Statistics
Matches: 266, Mismatches: 44, Indels: 14
0.82 0.14 0.04
Matches are distributed among these distances:
251 2 0.01
252 156 0.59
253 6 0.02
255 72 0.27
258 30 0.11
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (254 bp):
CAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAAAAAAAACATTCGAGTTCGATTACATTCAAC
TCAAGGACATATCAAATTTACAACATAGCTCAAGGAGACAAGGGATATCTGTCGAAAAAACCTTC
AAGTTCGATTACATTCAGCTCAAGGACATATCAAATTTACAACATAGCTCAAAGCGAGAAGGGGT
ATATATCAACAAAAACCTTCGAGTTCGATTTAATTCAGCTCAAAGGCATATCAAATTTA
Found at i:131640 original size:176 final size:174
Alignment explanation
Indices: 131342--131658 Score: 442
Period size: 176 Copynumber: 1.8 Consensus size: 174
131332 GTATCAAATT
* *
131342 TACAGCATAGCTCAAGGTGAGAAGAGTTATTTGCCAAAAAAACTGTCGAGTTCAATTCCATTCAG
1 TACAGCATAACTCAAGGCGAGAAGAGTTATTTGCCAAAAAAACTGTCGAGTTCAATTCCATTCAG
* **
131407 CTTGATGACATATCAACTGCATAATAGCAGTGAGGAACTACTTTCCAGTTGAAGTTTAAACCGAG
66 CTTGATGACATATCAACTGCATAATAGCAGTGAAGAACTACTTTCCAGTCAAAGTTTAAACCGAG
131472 GTCTTTAAGTCGAGAGGAAGATCTGGGGCAGTCTCTCAACTTAG
131 GTCTTTAAGTCGAGAGGAAGATCTGGGGCAGTCTCTCAACTTAG
* * * * *
131516 TACAGCATAACTCAAGGCGAGAAGGGTTATTTGTCAATGAAAAACTTTCGAGTTCGATTCCATTT
1 TACAGCATAACTCAAGGCGAGAAGAGTTATTTGCCAA--AAAAACTGTCGAGTTCAATTCCATTC
* ** *
131581 AGCTTGA-GAGTC-TGTCAACTGCATTGTATCAGTGAAGAACTACTTT-CAGGTCAAAGTTTAAA
64 AGCTTGATGA--CATATCAACTGCATAATAGCAGTGAAGAACTACTTTCCA-GTCAAAGTTTAAA
131643 CCGAGGTCTTTAAGTC
126 CCGAGGTCTTTAAGTC
131659 CTGAAGAAGA
Statistics
Matches: 124, Mismatches: 14, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
174 33 0.27
175 4 0.03
176 86 0.69
177 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.29
Consensus pattern (174 bp):
TACAGCATAACTCAAGGCGAGAAGAGTTATTTGCCAAAAAAACTGTCGAGTTCAATTCCATTCAG
CTTGATGACATATCAACTGCATAATAGCAGTGAAGAACTACTTTCCAGTCAAAGTTTAAACCGAG
GTCTTTAAGTCGAGAGGAAGATCTGGGGCAGTCTCTCAACTTAG
Found at i:132422 original size:37 final size:38
Alignment explanation
Indices: 132363--132619 Score: 317
Period size: 37 Copynumber: 6.7 Consensus size: 38
132353 GAATATATAT
132363 ATATATATAATAATAATAGTTTTTAAAACATTTTGAAAAC
1 ATATATATAAT-AT-ATAGTTTTTAAAACATTTTGAAAAC
132403 ATATATATAATA-ATAGTTTTTAAAACATTTTGAAAAC
1 ATATATATAATATATAGTTTTTAAAACATTTTGAAAAC
*
132440 ATATATATATATATTATATAGATTTTAAAACATTTTGAAAA-
1 --ATATATATA-A-TATATAGTTTTTAAAACATTTTGAAAAC
* * *
132481 A-ATATATATTATATAGCTTTTAAAACATTTTGGAAAC
1 ATATATATAATATATAGTTTTTAAAACATTTTGAAAAC
*
132518 ATATATATAATATATAGTTTTTAAAATATTTTTGAAAAC
1 ATATATATAATATATAGTTTTTAAAACA-TTTTGAAAAC
* ***
132557 ATATATATATTATATAGTTTTTAAAAACATTTT-TTTA-
1 ATATATATAATATATAGTTTTT-AAAACATTTTGAAAAC
*
132594 ATATATATAATATATAGTTTTGAAAA
1 ATATATATAATATATAGTTTTTAAAA
132620 TGTTTTTGAC
Statistics
Matches: 193, Mismatches: 15, Indels: 22
0.84 0.07 0.10
Matches are distributed among these distances:
36 29 0.15
37 46 0.24
38 31 0.16
39 45 0.23
40 17 0.09
41 2 0.01
42 23 0.12
ACGTcount: A:0.47, C:0.04, G:0.05, T:0.44
Consensus pattern (38 bp):
ATATATATAATATATAGTTTTTAAAACATTTTGAAAAC
Found at i:132486 original size:79 final size:78
Alignment explanation
Indices: 132311--132589 Score: 341
Period size: 78 Copynumber: 3.5 Consensus size: 78
132301 AAAAATTGGT
* * * * * *
132311 TTTTGAAAATATTTATATTATATAGTTTTTTTAAAACATTTTGAATATATATATATATATAATAA
1 TTTTGAAAACATATATATAATATAG--TTTTTAAAACATTTTGAAAACATATATATATAT-ATTA
132376 TAATAGTTTTTAAAACA
63 T-ATAGTTTTTAAAACA
132393 TTTTGAAAACATATATATAATAATAGTTTTTAAAACATTTTGAAAACATATATATATATATTATA
1 TTTTGAAAACATATATATAAT-ATAGTTTTTAAAACATTTTGAAAACATATATATATATATTATA
*
132458 TAGATTTTAAAACA
65 TAGTTTTTAAAACA
* * * *
132472 TTTTGAAAAAATATATATTATATAGCTTTTAAAACATTTTGGAAAC--ATATATATA-A-TATAT
1 TTTTGAAAACATATATATAATATAGTTTTTAAAACATTTTGAAAACATATATATATATATTATAT
*
132533 AGTTTTTAAAATA
66 AGTTTTTAAAACA
132546 TTTTTGAAAACATATATATATTATATAGTTTTTAAAAACATTTT
1 -TTTTGAAAACATATATATA--ATATAGTTTTT-AAAACATTTT
132590 TTTAATATAT
Statistics
Matches: 176, Mismatches: 16, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
74 16 0.09
75 18 0.10
76 9 0.05
77 10 0.06
78 33 0.19
79 33 0.19
80 4 0.02
81 31 0.18
82 18 0.10
83 4 0.02
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.46
Consensus pattern (78 bp):
TTTTGAAAACATATATATAATATAGTTTTTAAAACATTTTGAAAACATATATATATATATTATAT
AGTTTTTAAAACA
Found at i:132620 original size:76 final size:74
Alignment explanation
Indices: 132363--132628 Score: 279
Period size: 79 Copynumber: 3.5 Consensus size: 74
132353 GAATATATAT
* * * *
132363 ATATATATAATAATAATAGTTTTTAAAACA-TTTTGAAAACATATATATAATAATAGTTTTTAAA
1 ATATATATAAT-AT-ATAG-TTTTAAAATATTTTTGAAAAAATATATATTAT-ATAGCTTTTAAA
*
132427 ACATTTTGAAAAC
62 ACATTTTGGAAAC
*
132440 ATATATATATATATTATATAGATTTTAAAACA-TTTTGAAAAAATATATATTATATAGCTTTTAA
1 --ATATATATA-A-TATATAG-TTTTAAAATATTTTTGAAAAAATATATATTATATAGCTTTTAA
132504 AACATTTTGGAAAC
61 AACATTTTGGAAAC
*
132518 ATATATATAATATATAGTTTTTAAAATATTTTTGAAAACATATATATATTATATAGTTTTTAAAA
1 ATATATATAATATATAG-TTTTAAAATATTTTTGAAAA-A-ATATATATTATATAGCTTTT-AAA
***
132583 ACATTTT-TTTA-
62 ACATTTTGGAAAC
*
132594 ATATATATAATATATAGTTTTGAAAATGTTTTTGA
1 ATATATATAATATATAGTTTT-AAAATATTTTTGA
132629 CATTTCGAAA
Statistics
Matches: 168, Mismatches: 12, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
74 16 0.10
75 14 0.08
76 39 0.23
77 20 0.12
78 33 0.20
79 42 0.25
80 3 0.02
81 1 0.01
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (74 bp):
ATATATATAATATATAGTTTTAAAATATTTTTGAAAAAATATATATTATATAGCTTTTAAAACAT
TTTGGAAAC
Found at i:132703 original size:17 final size:17
Alignment explanation
Indices: 132676--132719 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
132666 ATATTTGTTT
132676 ATTTTATTTTATTT-TTC
1 ATTTTA-TTTATTTATTC
*
132693 ATTTTTATTTATTTATTT
1 A-TTTTATTTATTTATTC
132711 ATTTTATTT
1 ATTTTATTT
132720 CTTTCTTTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 16 0.67
18 8 0.33
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.77
Consensus pattern (17 bp):
ATTTTATTTATTTATTC
Found at i:132779 original size:17 final size:17
Alignment explanation
Indices: 132754--132800 Score: 67
Period size: 17 Copynumber: 2.8 Consensus size: 17
132744 CAGTTCCAAC
*
132754 TCCAAGTCTAGCAATGG
1 TCCAAGTCTAGCAAGGG
*
132771 TCTAAGTCTAGCAAGGG
1 TCCAAGTCTAGCAAGGG
*
132788 TCCAAGTCCAGCA
1 TCCAAGTCTAGCA
132801 GGCCAAGGCC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.30, C:0.26, G:0.23, T:0.21
Consensus pattern (17 bp):
TCCAAGTCTAGCAAGGG
Found at i:142452 original size:29 final size:30
Alignment explanation
Indices: 142419--142484 Score: 82
Period size: 32 Copynumber: 2.2 Consensus size: 30
142409 TGATAATGAA
142419 ATCAATG-AGGGCATCTTT-GAAGATTCAAC
1 ATCAATGTAGGGCATCTTTAG-AGATTCAAC
*
142448 ATCAAATGTTGGGGCATCTTTAGAGATTCAAC
1 ATC-AATG-TAGGGCATCTTTAGAGATTCAAC
142480 ATCAA
1 ATCAA
142485 ATATTGGGGT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
29 3 0.09
30 4 0.12
31 2 0.06
32 22 0.69
33 1 0.03
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.29
Consensus pattern (30 bp):
ATCAATGTAGGGCATCTTTAGAGATTCAAC
Found at i:142510 original size:31 final size:31
Alignment explanation
Indices: 142427--142513 Score: 129
Period size: 32 Copynumber: 2.7 Consensus size: 31
142417 AAATCAATGA
*
142427 GGGCATCTTTGAAGATTCAACATCAAATGTTG
1 GGGCATCTTTG-AGATTCAACATCAAATATTG
142459 GGGCATCTTTAGAGATTCAACATCAAATATTG
1 GGGCATCTTT-GAGATTCAACATCAAATATTG
* *
142491 GGGTATCTTTGGGATTCAACATC
1 GGGCATCTTTGAGATTCAACATC
142514 CTGATGCGAA
Statistics
Matches: 51, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
31 12 0.24
32 38 0.75
33 1 0.02
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (31 bp):
GGGCATCTTTGAGATTCAACATCAAATATTG
Found at i:142654 original size:34 final size:34
Alignment explanation
Indices: 142611--142717 Score: 160
Period size: 34 Copynumber: 3.1 Consensus size: 34
142601 TAGAAAACCC
*
142611 AATTTTGTCTCCCTTGAGACAATTTCTCAAAATA
1 AATTTTGTCTCCCTTGAGACAATTTCTCAAAACA
* *
142645 AATTTTGTCTCCCTTAAGACAATTTCTTAAAACA
1 AATTTTGTCTCCCTTGAGACAATTTCTCAAAACA
* * *
142679 AATTTTGTCTCACTTGAGACCATTTCTCAAAGCA
1 AATTTTGTCTCCCTTGAGACAATTTCTCAAAACA
142713 AATTT
1 AATTT
142718 CGCTTGAGAC
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 65 1.00
ACGTcount: A:0.33, C:0.21, G:0.08, T:0.38
Consensus pattern (34 bp):
AATTTTGTCTCCCTTGAGACAATTTCTCAAAACA
Found at i:143530 original size:86 final size:84
Alignment explanation
Indices: 143362--143568 Score: 236
Period size: 86 Copynumber: 2.4 Consensus size: 84
143352 AAACCATTAT
*
143362 CCCTTATATGGCCAAGACTCATCGCATATGAACAGTGTCAACCCTTGATAACCAGCCAACCCCAT
1 CCCTTATATGGCCAAGACTCAT-GCATATGAGCAGTGTCAACCCTTGATAACCAGCCAACCCCAT
* *
143427 CAGAGTCGAATCATGTTATCA
65 CAGAG-CGAACCATGTTACCA
* * * ** *
143448 CCCTTATATGGCCAAGACTCATATCATATGAGCATTTTCAACCCTTGATAACCAGCCGTCCTCAT
1 CCCTTATATGGCCAAGACTCAT-GCATATGAGCAGTGTCAACCCTTGATAACCAGCCAACCCCAT
*
143513 CACGTAG-GAACCGTGTTACCA
65 CA-G-AGCGAACCATGTTACCA
* * **
143534 CCTTTATACGGTAAAGACTCATGCATATGAGCAGT
1 CCCTTATATGGCCAAGACTCATGCATATGAGCAGT
143569 ACCATCCCCT
Statistics
Matches: 102, Mismatches: 17, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
85 11 0.11
86 88 0.86
87 1 0.01
88 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.26
Consensus pattern (84 bp):
CCCTTATATGGCCAAGACTCATGCATATGAGCAGTGTCAACCCTTGATAACCAGCCAACCCCATC
AGAGCGAACCATGTTACCA
Found at i:143672 original size:121 final size:123
Alignment explanation
Indices: 143456--143748 Score: 351
Period size: 121 Copynumber: 2.4 Consensus size: 123
143446 CACCCTTATA
* * *
143456 TGGCCAAGACTCATATCATATGAGCATTTTCAACCCTTGATAACCAGCCGTCCTCATCACGTAGG
1 TGGCCAAGACTCATATCATATGAGCAGTGTCAACCCTTGATAACCAGCCATCCTCATCACGTAGG
* *
143521 AACCGTGTTACCACCTTTATACGGTAAAGACTCAT-GCATATGAGCAGTACCATCCCC
66 AACAGTGTTACCACCTTTATACGGTAAAGACTCATCACATATGAGCAGTACCATCCCC
143578 TGGCCAAGACTCATCAT-ATATGAGCAGTGTC-ACCCTTGATAACCAGCCATCCTCATCACGTAG
1 TGGCCAAGACTCAT-ATCATATGAGCAGTGTCAACCCTTGATAACCAGCCATCCTCATCACGTAG
* * * * * * *
143641 GAACATTGTTATCACCTTTATATGGTCAAGACTCGTCACATATGCGTAGTACCATCCCC
65 GAACAGTGTTACCACCTTTATACGGTAAAGACTCATCACATATGAGCAGTACCATCCCC
* * * * * *
143700 CGACC-AGATCTCCTCATCACTTAGGAGCTGTGTCAACCCTAGATAACCA
1 TGGCCAAGA-CTCAT-ATCA--TATGAGCAGTGTCAACCCTTGATAACCA
143749 AGACTTATCA
Statistics
Matches: 146, Mismatches: 18, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
121 64 0.44
122 55 0.38
123 3 0.02
125 11 0.08
126 13 0.09
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.26
Consensus pattern (123 bp):
TGGCCAAGACTCATATCATATGAGCAGTGTCAACCCTTGATAACCAGCCATCCTCATCACGTAGG
AACAGTGTTACCACCTTTATACGGTAAAGACTCATCACATATGAGCAGTACCATCCCC
Found at i:143853 original size:48 final size:47
Alignment explanation
Indices: 143737--143925 Score: 342
Period size: 47 Copynumber: 4.0 Consensus size: 47
143727 CTGTGTCAAC
*
143737 CCTAGATAACCAAGACTTATCATAGTATGAGCAGTGTTGTCACCCTT
1 CCTAGATAACCAAGACTTATCATAGTATGAGCAGTGTTATCACCCTT
143784 CCTAGATAACCAAGACTTATCATAGTATGAGCAGTGTTATCACCCTTT
1 CCTAGATAACCAAGACTTATCATAGTATGAGCAGTGTTATCACCC-TT
143832 CCTAGATAACCAAGACTTATCATAGTATGAGCAGTGTTATCACCCTT
1 CCTAGATAACCAAGACTTATCATAGTATGAGCAGTGTTATCACCCTT
**
143879 CCTAGATGGCCAAGACTTATCATAGTATGAGCAGTGTTATCACCCTT
1 CCTAGATAACCAAGACTTATCATAGTATGAGCAGTGTTATCACCCTT
143926 AGACGACCAA
Statistics
Matches: 138, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
47 91 0.66
48 47 0.34
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.30
Consensus pattern (47 bp):
CCTAGATAACCAAGACTTATCATAGTATGAGCAGTGTTATCACCCTT
Found at i:143900 original size:95 final size:95
Alignment explanation
Indices: 143737--143925 Score: 351
Period size: 95 Copynumber: 2.0 Consensus size: 95
143727 CTGTGTCAAC
*
143737 CCTAGATAACCAAGACTTATCATAGTATGAGCAGTGTTGTCACCCTTCCTAGATAACCAAGACTT
1 CCTAGATAACCAAGACTTATCATAGTATGAGCAGTGTTATCACCCTTCCTAGATAACCAAGACTT
143802 ATCATAGTATGAGCAGTGTTATCACCCTTT
66 ATCATAGTATGAGCAGTGTTATCACCCTTT
**
143832 CCTAGATAACCAAGACTTATCATAGTATGAGCAGTGTTATCACCCTTCCTAGATGGCCAAGACTT
1 CCTAGATAACCAAGACTTATCATAGTATGAGCAGTGTTATCACCCTTCCTAGATAACCAAGACTT
143897 ATCATAGTATGAGCAGTGTTATCACCCTT
66 ATCATAGTATGAGCAGTGTTATCACCCTT
143926 AGACGACCAA
Statistics
Matches: 91, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
95 91 1.00
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.30
Consensus pattern (95 bp):
CCTAGATAACCAAGACTTATCATAGTATGAGCAGTGTTATCACCCTTCCTAGATAACCAAGACTT
ATCATAGTATGAGCAGTGTTATCACCCTTT
Found at i:144944 original size:6 final size:5
Alignment explanation
Indices: 144895--144923 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
144885 TATTTAATAT
144895 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
144924 TGCTTTGATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTA
Found at i:145515 original size:13 final size:13
Alignment explanation
Indices: 145497--145524 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
145487 TGTATAAATC
145497 AATCAATTGTATA
1 AATCAATTGTATA
145510 AATCAATTGTATA
1 AATCAATTGTATA
145523 AA
1 AA
145525 AGGATGAAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.36
Consensus pattern (13 bp):
AATCAATTGTATA
Found at i:154935 original size:12 final size:12
Alignment explanation
Indices: 154896--154927 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
154886 AGATCAAGTC
*
154896 AAAGCAAAGAGA
1 AAAGCAAAGAAA
154908 AAAGCAAAGAAA
1 AAAGCAAAGAAA
154920 AAAGCAAA
1 AAAGCAAA
154928 AAACAAAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.72, C:0.09, G:0.19, T:0.00
Consensus pattern (12 bp):
AAAGCAAAGAAA
Found at i:154949 original size:19 final size:20
Alignment explanation
Indices: 154897--154949 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 20
154887 GATCAAGTCA
*
154897 AAGCAAAGAGAAAAGCAAAG
1 AAGCAAGGAGAAAAGCAAAG
** * *
154917 AAAAAAGCA-AAAAACAAAG
1 AAGCAAGGAGAAAAGCAAAG
154936 AAGCAAGGAGAAAA
1 AAGCAAGGAGAAAA
154950 TAAACAAATA
Statistics
Matches: 24, Mismatches: 8, Indels: 2
0.71 0.24 0.06
Matches are distributed among these distances:
19 15 0.62
20 9 0.38
ACGTcount: A:0.70, C:0.09, G:0.21, T:0.00
Consensus pattern (20 bp):
AAGCAAGGAGAAAAGCAAAG
Found at i:156054 original size:31 final size:32
Alignment explanation
Indices: 155971--156057 Score: 131
Period size: 32 Copynumber: 2.8 Consensus size: 32
155961 CAATCAATGA
* *
155971 GGGCATCTTTGAAGATTCAACATCAAATGTTG
1 GGGCATCTTTAAAGATTCAACATCAAATATTG
156003 GGGCATCTTTAAAGATTCAACATCAAATATTG
1 GGGCATCTTTAAAGATTCAACATCAAATATTG
* *
156035 GGGTATCTTT-AGGATTCAACATC
1 GGGCATCTTTAAAGATTCAACATC
156058 CTGATACGAA
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
31 12 0.24
32 39 0.76
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (32 bp):
GGGCATCTTTAAAGATTCAACATCAAATATTG
Found at i:156193 original size:34 final size:34
Alignment explanation
Indices: 156148--156260 Score: 165
Period size: 34 Copynumber: 3.3 Consensus size: 34
156138 TTTCTCTTAA
*
156148 AAAACCAATTTTGTCTCCATTGAGACAATTTCTC
1 AAAACAAATTTTGTCTCCATTGAGACAATTTCTC
* * *
156182 AAAATAAATTTTGTCTCCCTTGAGACAATTTCTT
1 AAAACAAATTTTGTCTCCATTGAGACAATTTCTC
*
156216 AAAACAAATTTTGTCT-CACTTGAGACCATTTCTC
1 AAAACAAATTTTGTCTCCA-TTGAGACAATTTCTC
156250 AAAACAAATTT
1 AAAACAAATTT
156261 CACTTGAGAC
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
33 1 0.01
34 69 0.99
ACGTcount: A:0.35, C:0.20, G:0.08, T:0.36
Consensus pattern (34 bp):
AAAACAAATTTTGTCTCCATTGAGACAATTTCTC
Found at i:157054 original size:86 final size:86
Alignment explanation
Indices: 156915--157109 Score: 268
Period size: 86 Copynumber: 2.3 Consensus size: 86
156905 TTACATGACT
* * * *
156915 AAGACTCATCGCATATGAACAGTGTCAACCATTGATAACCATCCGTCCCCATCAGAGT-GGAATC
1 AAGACTCATCGCATATGAGCAGTGTCAACCATTGATAACCATCCATCCCCATCACA-TAGGAACC
* *
156979 GTGTTATCACCCTTATATGGCC
65 GTGTTATCACCCTTATACGGCA
* * *
157001 AAGACTCATCGCATATGAGCATTGTCAACCCTTGATAACCAGT-CATCCTCATCACATAGGAACC
1 AAGACTCATCGCATATGAGCAGTGTCAACCATTGATAACCA-TCCATCCCCATCACATAGGAACC
*
157065 GTGTTATCACCCTTATACGGTA
65 GTGTTATCACCCTTATACGGCA
157087 AAGACTCATCGCATATGAGCAGT
1 AAGACTCATCGCATATGAGCAGT
157110 ATCATCCCCT
Statistics
Matches: 96, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
85 1 0.01
86 94 0.98
87 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (86 bp):
AAGACTCATCGCATATGAGCAGTGTCAACCATTGATAACCATCCATCCCCATCACATAGGAACCG
TGTTATCACCCTTATACGGCA
Found at i:157214 original size:122 final size:123
Alignment explanation
Indices: 156996--157240 Score: 393
Period size: 122 Copynumber: 2.0 Consensus size: 123
156986 CACCCTTATA
* * *
156996 TGGCCAAGACTCATCGCATATGAGCATTGTCAACCCTTGATAACCAGTCATCCTCATCACATAGG
1 TGGCCAAGACTCATCACATATGAGCAGTGTCAACCCTTGATAACCAGCCATCCTCATCACATAGG
* *
157061 AACCGTGTTATCACCCTTATACGGTAAAGACTCATCGCATATGAGCAGTATCATCCCC
66 AACCGTGTTATCACCCTTATACGGTAAAGACTCATCACATATGAGCAGTACCATCCCC
*
157119 TGGCCAAGACTCATCACATATGAGCAGTGTC-ACCCTTGATAACCAGCCATCCTCATCACGTAGG
1 TGGCCAAGACTCATCACATATGAGCAGTGTCAACCCTTGATAACCAGCCATCCTCATCACATAGG
* * * *
157183 AACTGTGTTATCACCTTTATATGGTCAAGACTCATCACATATGAGCAGTACCATCCCC
66 AACCGTGTTATCACCCTTATACGGTAAAGACTCATCACATATGAGCAGTACCATCCCC
157241 CACCCAGATC
Statistics
Matches: 112, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
122 83 0.74
123 29 0.26
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.25
Consensus pattern (123 bp):
TGGCCAAGACTCATCACATATGAGCAGTGTCAACCCTTGATAACCAGCCATCCTCATCACATAGG
AACCGTGTTATCACCCTTATACGGTAAAGACTCATCACATATGAGCAGTACCATCCCC
Found at i:157391 original size:48 final size:47
Alignment explanation
Indices: 157280--157466 Score: 320
Period size: 47 Copynumber: 4.0 Consensus size: 47
157270 TTGTCAACCC
* *
157280 TAGATAACCAAGACTTATCATAGTATAAGCAGTGTTATCACCCTTCC
1 TAGATAACCAAGACTTATCATAGTATGAGCAGTGTTATCACCCTTCT
*
157327 TAGATAACCAAGACTTATCATAGTATGAGCAGTGCTATCACCCCTTCT
1 TAGATAACCAAGACTTATCATAGTATGAGCAGTGTTATCA-CCCTTCT
157375 TAGATAACCAAGACTTATCATAGTATGAGCAGTGTTATCACCCTTCT
1 TAGATAACCAAGACTTATCATAGTATGAGCAGTGTTATCACCCTTCT
**
157422 TAGATGGCCAAGACTTATCATAGTATGAGCAGTGTTATCACCCTT
1 TAGATAACCAAGACTTATCATAGTATGAGCAGTGTTATCACCCTT
157467 AGACGACCAA
Statistics
Matches: 133, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
47 88 0.66
48 45 0.34
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (47 bp):
TAGATAACCAAGACTTATCATAGTATGAGCAGTGTTATCACCCTTCT
Found at i:157443 original size:95 final size:95
Alignment explanation
Indices: 157280--157464 Score: 325
Period size: 95 Copynumber: 1.9 Consensus size: 95
157270 TTGTCAACCC
157280 TAGATAACCAAGACTTATCATAGTATAAGCAGTGTTATCACCCTTCCTAGATAACCAAGACTTAT
1 TAGATAACCAAGACTTATCATAGTATAAGCAGTGTTATCACCCTTCCTAGATAACCAAGACTTAT
157345 CATAGTATGAGCAGTGCTATCACCCCTTCT
66 CATAGTATGAGCAGTGCTATCACCCCTTCT
* * **
157375 TAGATAACCAAGACTTATCATAGTATGAGCAGTGTTATCACCCTTCTTAGATGGCCAAGACTTAT
1 TAGATAACCAAGACTTATCATAGTATAAGCAGTGTTATCACCCTTCCTAGATAACCAAGACTTAT
*
157440 CATAGTATGAGCAGTGTTATCACCC
66 CATAGTATGAGCAGTGCTATCACCC
157465 TTAGACGACC
Statistics
Matches: 85, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
95 85 1.00
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.30
Consensus pattern (95 bp):
TAGATAACCAAGACTTATCATAGTATAAGCAGTGTTATCACCCTTCCTAGATAACCAAGACTTAT
CATAGTATGAGCAGTGCTATCACCCCTTCT
Found at i:157669 original size:3 final size:3
Alignment explanation
Indices: 157661--157688 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
157651 ATTTTAAAAA
157661 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
157689 ATGTTTTTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:159145 original size:21 final size:21
Alignment explanation
Indices: 159115--159167 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
159105 TATTTAATAT
* *
159115 TTTTTCTTTTTCTTTTCTTTTA
1 TTTTTATTTTTC-TTTCATTTA
*
159137 -TTTTATTTTTCTTTGATTTA
1 TTTTTATTTTTCTTTCATTTA
159157 TTTTTATTTTT
1 TTTTTATTTTT
159168 TATTTTAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 7 0.26
21 20 0.74
ACGTcount: A:0.09, C:0.08, G:0.02, T:0.81
Consensus pattern (21 bp):
TTTTTATTTTTCTTTCATTTA
Found at i:159189 original size:50 final size:49
Alignment explanation
Indices: 159097--159193 Score: 115
Period size: 49 Copynumber: 2.0 Consensus size: 49
159087 TATTTTTTCC
* ** **
159097 CTTTGATTTATTTAATATTTTTTCTTTTTCTTTTCTTTTATTTTATTTTT
1 CTTTGATTTATTTAATATTTTTTATTTTAATTTTCTAATA-TTTATTTTT
*
159147 CTTTGATTTATTT-TTATTTTTTATTTTAATTTATCTAATATTTATTT
1 CTTTGATTTATTTAATATTTTTTATTTTAATTT-TCTAATATTTATTT
159194 CTTATTTCCT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
49 22 0.55
50 18 0.45
ACGTcount: A:0.19, C:0.06, G:0.02, T:0.73
Consensus pattern (49 bp):
CTTTGATTTATTTAATATTTTTTATTTTAATTTTCTAATATTTATTTTT
Found at i:159307 original size:20 final size:19
Alignment explanation
Indices: 159270--159308 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
159260 TTAATCGAAT
*
159270 TTTTAAATTTTAATTTAAG
1 TTTTAAATTTTAAATTAAG
*
159289 TTTTAATTTTTGAAATTAAG
1 TTTTAAATTTT-AAATTAAG
159309 ATAACCGGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (19 bp):
TTTTAAATTTTAAATTAAG
Found at i:160785 original size:3 final size:3
Alignment explanation
Indices: 160777--160821 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
160767 AATTTAAATG
160777 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
160822 ATTTTTTTTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Done.