Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold391
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: 290649
ACGTcount: A:0.37, C:0.15, G:0.14, T:0.34
File 1 of 3
Found at i:1197 original size:15 final size:15
Alignment explanation
Indices: 1179--1227 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
1169 TGTTAAAATT
1179 TTAAAAATATAAAAA
1 TTAAAAATATAAAAA
* *
1194 TT-AAAATATTAAAT
1 TTAAAAATATAAAAA
1208 TTAAAAATATAAAAA
1 TTAAAAATATAAAAA
*
1223 CTAAA
1 TTAAA
1228 TTTTTTTACT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
14 12 0.43
15 16 0.57
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (15 bp):
TTAAAAATATAAAAA
Found at i:1201 original size:14 final size:14
Alignment explanation
Indices: 1182--1227 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
1172 TAAAATTTTA
1182 AAAATATAAAAATT
1 AAAATATAAAAATT
* *
1196 AAAATATTAAATTT
1 AAAATATAAAAATT
*
1210 AAAAATATAAAAACT
1 -AAAATATAAAAATT
1225 AAA
1 AAA
1228 TTTTTTTACT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
14 15 0.58
15 11 0.42
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (14 bp):
AAAATATAAAAATT
Found at i:1212 original size:21 final size:21
Alignment explanation
Indices: 1183--1230 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
1173 AAAATTTTAA
* *
1183 AAATATAAAAAT-TAAAATATT
1 AAATTTAAAAATATAAAA-ACT
1204 AAATTTAAAAATATAAAAACT
1 AAATTTAAAAATATAAAAACT
1225 AAATTT
1 AAATTT
1231 TTTTACTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 19 0.79
22 5 0.21
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (21 bp):
AAATTTAAAAATATAAAAACT
Found at i:1397 original size:8 final size:8
Alignment explanation
Indices: 1386--1477 Score: 63
Period size: 8 Copynumber: 12.0 Consensus size: 8
1376 AAATTAAATA
1386 ATTTATAT
1 ATTTATAT
1394 ATTTATAT
1 ATTTATAT
* *
1402 -TATATTT
1 ATTTATAT
*
1409 ATTAATAT
1 ATTTATAT
1417 ATTTAT-T
1 ATTTATAT
1424 AATTTATA-
1 -ATTTATAT
1432 A-TTATAT
1 ATTTATAT
* *
1439 -TTAAAAT
1 ATTTATAT
1446 A-TTATAT
1 ATTTATAT
1453 ATTTATA-
1 ATTTATAT
1460 ATTTTAATAT
1 A-TTT-ATAT
1470 ATTTATAT
1 ATTTATAT
1478 GTCTATATTA
Statistics
Matches: 64, Mismatches: 10, Indels: 20
0.68 0.11 0.21
Matches are distributed among these distances:
6 5 0.08
7 17 0.27
8 35 0.55
9 6 0.09
10 1 0.02
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (8 bp):
ATTTATAT
Found at i:1419 original size:12 final size:12
Alignment explanation
Indices: 1390--1426 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
1380 TAAATAATTT
1390 ATATATTTA-TA
1 ATATATTTATTA
*
1401 TTATATTTATTA
1 ATATATTTATTA
1413 ATATATTTATTA
1 ATATATTTATTA
1425 AT
1 AT
1427 TTATAATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 8 0.35
12 15 0.65
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
ATATATTTATTA
Found at i:1471 original size:17 final size:17
Alignment explanation
Indices: 1397--1476 Score: 83
Period size: 17 Copynumber: 4.6 Consensus size: 17
1387 TTTATATATT
*
1397 TATA-TTATATTTATTAA
1 TATATTTATAATT-TTAA
1414 TATATTTATTAATTTATAA
1 TATATTTA-TAATTT-TAA
* *
1433 TTATATTTAAAATATT-A
1 -TATATTTATAATTTTAA
1450 TATATTTATAATTTTAA
1 TATATTTATAATTTTAA
1467 TATATTTATA
1 TATATTTATA
1477 TGTCTATATT
Statistics
Matches: 53, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
16 13 0.25
17 16 0.30
18 5 0.09
19 11 0.21
20 8 0.15
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TATATTTATAATTTTAA
Found at i:3336 original size:14 final size:15
Alignment explanation
Indices: 3307--3340 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
3297 TAATGAACCA
3307 AAAAAAAAAGATAAG
1 AAAAAAAAAGATAAG
*
3322 AAAAGAAAAGA-AAG
1 AAAAAAAAAGATAAG
3336 AAAAA
1 AAAAA
3341 GATGAAATGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (15 bp):
AAAAAAAAAGATAAG
Found at i:5191 original size:18 final size:18
Alignment explanation
Indices: 5168--5203 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
5158 TAGAAATTTA
*
5168 TTTTATTTATTAATTAAT
1 TTTTATTTATTAAATAAT
*
5186 TTTTATTTTTTAAATAAT
1 TTTTATTTATTAAATAAT
5204 GTATTTAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTATTTATTAAATAAT
Found at i:9161 original size:13 final size:13
Alignment explanation
Indices: 9132--9173 Score: 57
Period size: 13 Copynumber: 3.1 Consensus size: 13
9122 TATATCATAT
9132 ATAAAAATATGTTAA
1 ATAAAAATA--TTAA
*
9147 ATATAAATATTAA
1 ATAAAAATATTAA
9160 ATAAAAATATTAA
1 ATAAAAATATTAA
9173 A
1 A
9174 CATATTTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 17 0.68
15 8 0.32
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (13 bp):
ATAAAAATATTAA
Found at i:21643 original size:16 final size:19
Alignment explanation
Indices: 21624--21660 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
21614 TTTTTAAAAA
21624 ATAAT-TAA-AATA-TAAT
1 ATAATATAATAATATTAAT
21640 ATAATATAATAATATTAAT
1 ATAATATAATAATATTAAT
21659 AT
1 AT
21661 TTATGAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 5 0.28
17 3 0.17
18 4 0.22
19 6 0.33
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
ATAATATAATAATATTAAT
Found at i:23088 original size:4 final size:4
Alignment explanation
Indices: 23079--23135 Score: 51
Period size: 4 Copynumber: 13.8 Consensus size: 4
23069 TTCAGCCGAA
* * * * *
23079 AAAG AAAG AAAG AAAG AAGG AAAG AAAAT AAAA AAAG AAAG AGAAA AAAA
1 AAAG AAAG AAAG AAAG AAAG AAAG -AAAG AAAG AAAG AAAG A-AAG AAAG
23129 AAAG AAA
1 AAAG AAA
23136 AAGAAAAAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
4 38 0.86
5 6 0.14
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (4 bp):
AAAG
Found at i:23120 original size:17 final size:16
Alignment explanation
Indices: 23077--23147 Score: 81
Period size: 17 Copynumber: 4.3 Consensus size: 16
23067 TGTTCAGCCG
*
23077 AAAAAGAAAGAAAGAA
1 AAAAAGAAAGAAAAAA
* *
23093 AGAAGGAAAGAAAATAA
1 AAAAAGAAAGAAAA-AA
23110 AAAAAGAAAGAGAAAAA
1 AAAAAGAAAGA-AAAAA
23127 AAAAAGAAA-AAGAAAA
1 AAAAAGAAAGAA-AAAA
23143 AAAAA
1 AAAAA
23148 TTGATGTATT
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
15 1 0.02
16 21 0.45
17 22 0.47
18 3 0.06
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.01
Consensus pattern (16 bp):
AAAAAGAAAGAAAAAA
Found at i:23125 original size:19 final size:18
Alignment explanation
Indices: 23076--23147 Score: 83
Period size: 18 Copynumber: 3.9 Consensus size: 18
23066 GTGTTCAGCC
* *
23076 GAAAAAGAAAGAAAGAAA
1 GAAAAAGAAAAAAAAAAA
23094 GAAGGAAAGAAAATAAAAAAA
1 GAA--AAAGAAAA-AAAAAAA
*
23115 GAAAGAG-AAAAAAAAAA
1 GAAAAAGAAAAAAAAAAA
23132 GAAAAAGAAAAAAAAA
1 GAAAAAGAAAAAAAAA
23148 TTGATGTATT
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
17 13 0.28
18 14 0.30
19 3 0.07
20 7 0.15
21 9 0.20
ACGTcount: A:0.81, C:0.00, G:0.18, T:0.01
Consensus pattern (18 bp):
GAAAAAGAAAAAAAAAAA
Found at i:23137 original size:12 final size:12
Alignment explanation
Indices: 23076--23147 Score: 56
Period size: 12 Copynumber: 5.8 Consensus size: 12
23066 GTGTTCAGCC
23076 GAAAAAGAAAGAAA
1 GAAAAA-AAA-AAA
* **
23090 GAAAGAAGGAAA
1 GAAAAAAAAAAA
23102 GAAAATAAAAAAA
1 GAAAA-AAAAAAA
* *
23115 GAAAGAGAAAAA
1 GAAAAAAAAAAA
*
23127 -AAAAAGAAAAA
1 GAAAAAAAAAAA
23138 GAAAAAAAAA
1 GAAAAAAAAA
23148 TTGATGTATT
Statistics
Matches: 46, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
11 10 0.22
12 21 0.46
13 10 0.22
14 5 0.11
ACGTcount: A:0.81, C:0.00, G:0.18, T:0.01
Consensus pattern (12 bp):
GAAAAAAAAAAA
Found at i:23202 original size:18 final size:18
Alignment explanation
Indices: 23165--23202 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
23155 ATTTGTATTT
*
23165 ATATTATTTTTATTTAAA
1 ATATTATATTTATTTAAA
23183 ATATTATATTT-TTTATAA
1 ATATTATATTTATTTA-AA
23201 AT
1 AT
23203 TTTTTACATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
ATATTATATTTATTTAAA
Found at i:23253 original size:18 final size:18
Alignment explanation
Indices: 23226--23273 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
23216 ATAATTTTTT
23226 TATATA-TATTTTTA-TA
1 TATATATTATTTTTATTA
* *
23242 TGTATATGTATTTATATTA
1 TATATAT-TATTTTTATTA
23261 TATATATTATTTT
1 TATATATTATTTT
23274 CATGTTATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
16 5 0.20
18 12 0.48
19 8 0.32
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.62
Consensus pattern (18 bp):
TATATATTATTTTTATTA
Found at i:23540 original size:22 final size:22
Alignment explanation
Indices: 23499--23554 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
23489 CGTGTCATAT
* *
23499 TTATTTTTATATTATGTTTTAA
1 TTATTTTTATATCATATTTTAA
* *
23521 TTATTTTTATGTCATATTTTTA
1 TTATTTTTATATCATATTTTAA
23543 TT-TTTTGTATAT
1 TTATTTT-TATAT
23555 TTAAAGTAGT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
21 4 0.14
22 24 0.86
ACGTcount: A:0.23, C:0.02, G:0.05, T:0.70
Consensus pattern (22 bp):
TTATTTTTATATCATATTTTAA
Found at i:23556 original size:17 final size:19
Alignment explanation
Indices: 23521--23556 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
23511 TATGTTTTAA
23521 TTATTTTTATGTCATATTT
1 TTATTTTTATGTCATATTT
23540 TTATTTTT-TGT-ATATTT
1 TTATTTTTATGTCATATTT
23557 AAAGTAGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.35
18 3 0.18
19 8 0.47
ACGTcount: A:0.19, C:0.03, G:0.06, T:0.72
Consensus pattern (19 bp):
TTATTTTTATGTCATATTT
Found at i:24033 original size:37 final size:36
Alignment explanation
Indices: 23983--24067 Score: 86
Period size: 37 Copynumber: 2.3 Consensus size: 36
23973 TTGTATTTGT
23983 ATTTTTT-TCATATTGAA-AATATTATATTT-TTATATAA
1 ATTTTTTAT-ATATT-AATAAT-TTAT-TTTATTATATAA
* *
24020 ATTTTTTATATATTAATAATTTATTTTATTTTATAT
1 ATTTTTTATATATTAATAATTTATTTTATTATATAA
24056 ATATTTTTATAT
1 AT-TTTTTATAT
24068 GTACGTATAT
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
35 3 0.07
36 14 0.33
37 24 0.57
38 1 0.02
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.62
Consensus pattern (36 bp):
ATTTTTTATATATTAATAATTTATTTTATTATATAA
Found at i:26742 original size:13 final size:13
Alignment explanation
Indices: 26726--26750 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
26716 TTTAGTAATG
26726 TCTTTTTTTTTTT
1 TCTTTTTTTTTTT
26739 TCTTTTTTTTTT
1 TCTTTTTTTTTT
26751 CAAGTTCAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (13 bp):
TCTTTTTTTTTTT
Found at i:27331 original size:2 final size:2
Alignment explanation
Indices: 27324--27371 Score: 80
Period size: 2 Copynumber: 24.5 Consensus size: 2
27314 TCAATTTCTT
27324 TA TA TA TA -A 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
*
27365 TG TA TA T
1 TA TA TA T
27372 GAATGGAAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:28047 original size:19 final size:20
Alignment explanation
Indices: 28025--28079 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 20
28015 ATGTTTTAAT
28025 ATTATAAATAAAAATT-ATA
1 ATTATAAATAAAAATTCATA
*
28044 ATTATATAATTAAAATTCATA
1 ATTATA-AATAAAAATTCATA
* *
28065 AATATTAA-AAAAATT
1 ATTATAAATAAAAATT
28080 TCAAAAATTC
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
19 12 0.40
20 11 0.37
21 7 0.23
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (20 bp):
ATTATAAATAAAAATTCATA
Found at i:29363 original size:22 final size:22
Alignment explanation
Indices: 29338--29385 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
29328 GTTTATTTCA
*
29338 TTTTATTTTGTTT-GTAATTTAT
1 TTTTATTTTATTTAGTAA-TTAT
*
29360 TTTTATTTTATTTAGTTATTAT
1 TTTTATTTTATTTAGTAATTAT
29382 TTTT
1 TTTT
29386 TAATAACATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 20 0.87
23 3 0.13
ACGTcount: A:0.19, C:0.00, G:0.06, T:0.75
Consensus pattern (22 bp):
TTTTATTTTATTTAGTAATTAT
Found at i:29673 original size:25 final size:25
Alignment explanation
Indices: 29644--29699 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
29634 TTTTAAAAAT
* * *
29644 TTATTTTGAGTTGATTATGTTATTA
1 TTATTTTGAATTGATTATATCATTA
* *
29669 TTATTTTTAATTTATTATATCATTA
1 TTATTTTGAATTGATTATATCATTA
29694 TTATTT
1 TTATTT
29700 ATATTTTTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.27, C:0.02, G:0.07, T:0.64
Consensus pattern (25 bp):
TTATTTTGAATTGATTATATCATTA
Found at i:30021 original size:29 final size:27
Alignment explanation
Indices: 29959--30027 Score: 77
Period size: 29 Copynumber: 2.5 Consensus size: 27
29949 AATTTTTTTA
* *
29959 TATATTT-TAATTTATAAATTCATGAT
1 TATATTTATAATTTAAAAATTCATAAT
*
29985 TATATTTATATATTTAAAAATTTTATAAT
1 TATATTTATA-ATTTAAAAA-TTCATAAT
*
30014 TATATTTAAAATTT
1 TATATTTATAATTT
30028 TATATATTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
26 7 0.19
27 2 0.06
28 12 0.33
29 15 0.42
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (27 bp):
TATATTTATAATTTAAAAATTCATAAT
Found at i:30026 original size:20 final size:21
Alignment explanation
Indices: 29984--30053 Score: 90
Period size: 20 Copynumber: 3.3 Consensus size: 21
29974 AAATTCATGA
*
29984 TTATATTTATATATTTAAAAATT
1 TTATATAT-TATATTT-AAAATT
30007 TTATA-ATTATATTTAAAATT
1 TTATATATTATATTTAAAATT
30027 TTATATATT-TATTTAAAATT
1 TTATATATTATATTTAAAATT
*
30047 TAATATA
1 TTATATA
30054 GTAATAATTT
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
20 28 0.64
21 10 0.23
22 1 0.02
23 5 0.11
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
TTATATATTATATTTAAAATT
Found at i:30187 original size:45 final size:45
Alignment explanation
Indices: 30118--30248 Score: 185
Period size: 44 Copynumber: 3.0 Consensus size: 45
30108 ACAACCTTCC
** *
30118 TACTTT-CTTCATCAACCAGAGCTTGAAAATTTCTTAGTGATTCT
1 TACTTTCCTTCATCAACCATTGCTTGAAAATTTCTTAGTAATTCT
* *
30162 TACTTTCCTTCATCAACCATTGCTTGAAAATTTCATAGTAATTGT
1 TACTTTCCTTCATCAACCATTGCTTGAAAATTTCTTAGTAATTCT
* *
30207 TA-ATTCCTTCATCAACCATTGCTTGAAAGTTTCTTAGTAATT
1 TACTTTCCTTCATCAACCATTGCTTGAAAATTTCTTAGTAATT
30249 ATTAAACCAA
Statistics
Matches: 78, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
44 43 0.55
45 35 0.45
ACGTcount: A:0.28, C:0.20, G:0.10, T:0.42
Consensus pattern (45 bp):
TACTTTCCTTCATCAACCATTGCTTGAAAATTTCTTAGTAATTCT
Found at i:33960 original size:12 final size:13
Alignment explanation
Indices: 33930--33963 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
33920 CATATTTAAA
33930 ATATTATATATTT
1 ATATTATATATTT
33943 AT-TTATA-ATTT
1 ATATTATATATTT
33954 ATATTATATA
1 ATATTATATA
33964 CAATTTTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 6 0.32
12 10 0.53
13 3 0.16
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
ATATTATATATTT
Found at i:36087 original size:35 final size:35
Alignment explanation
Indices: 36041--36110 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
36031 CATAATTAGT
36041 GTATAAGGCCAGAAACAAACAGTTTTAAAACGAAA
1 GTATAAGGCCAGAAACAAACAGTTTTAAAACGAAA
36076 GTATAAGGCCAGAAACAAACAGTTTTAAAACGAAA
1 GTATAAGGCCAGAAACAAACAGTTTTAAAACGAAA
36111 TACGGAAAGC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.51, C:0.14, G:0.17, T:0.17
Consensus pattern (35 bp):
GTATAAGGCCAGAAACAAACAGTTTTAAAACGAAA
Found at i:41831 original size:17 final size:18
Alignment explanation
Indices: 41806--41851 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 18
41796 AAATTATTTT
*
41806 TAATTAATTTAATA-AAA
1 TAATAAATTTAATATAAA
*
41823 TAATAAATTAAATATAAA
1 TAATAAATTTAATATAAA
41841 -AATAAATTTAA
1 TAATAAATTTAA
41852 AGTAATAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 22 0.88
18 3 0.12
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
TAATAAATTTAATATAAA
Found at i:41865 original size:17 final size:16
Alignment explanation
Indices: 41806--41866 Score: 50
Period size: 17 Copynumber: 3.6 Consensus size: 16
41796 AAATTATTTT
*
41806 TAATTAATTTAATAAAA
1 TAATTAATTTAA-ATAA
* *
41823 TAATAAATTAAATATAA
1 TAATTAATTTAA-ATAA
* *
41840 AAATAAATTTAAAGTAA
1 TAATTAATTTAAA-TAA
41857 TAATTAATTT
1 TAATTAATTT
41867 TTTAACCAAT
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
16 1 0.03
17 35 0.97
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (16 bp):
TAATTAATTTAAATAA
Found at i:42026 original size:17 final size:17
Alignment explanation
Indices: 42000--42032 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
41990 TTAATTTTTT
42000 ATAAAAAATAAAAAAAG
1 ATAAAAAATAAAAAAAG
*
42017 ATAAATAATAAAAAAA
1 ATAAAAAATAAAAAAA
42033 TCAATTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (17 bp):
ATAAAAAATAAAAAAAG
Found at i:46821 original size:35 final size:35
Alignment explanation
Indices: 46779--46850 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
46769 AAATATTAAA
46779 TATGAGAAATAATTAATAAAAATATTTATTTGGTT
1 TATGAGAAATAATTAATAAAAATATTTATTTGGTT
46814 TATGAGAAATAATTAATAAAAATATTTATTTGGTT
1 TATGAGAAATAATTAATAAAAATATTTATTTGGTT
46849 TA
1 TA
46851 ATGGTATGAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.46, C:0.00, G:0.11, T:0.43
Consensus pattern (35 bp):
TATGAGAAATAATTAATAAAAATATTTATTTGGTT
Found at i:47976 original size:21 final size:21
Alignment explanation
Indices: 47950--47990 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
47940 TATTTAAAAA
47950 TTTT-AAATATTAAATATGTAG
1 TTTTAAAAT-TTAAATATGTAG
*
47971 TTTTAAAATTTAAATTTGTA
1 TTTTAAAATTTAAATATGTA
47991 TATAAATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.51
Consensus pattern (21 bp):
TTTTAAAATTTAAATATGTAG
Found at i:48040 original size:2 final size:2
Alignment explanation
Indices: 48033--48065 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
48023 GTGTACATGT
48033 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 T
48066 CTTATTAAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:48848 original size:24 final size:24
Alignment explanation
Indices: 48821--48866 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
48811 TTTATATAAA
*
48821 ATATGAATATAT-TAATATTAATCG
1 ATATAAATATATATAA-ATTAATCG
*
48845 ATATAAATTTATATAAATTAAT
1 ATATAAATATATATAAATTAAT
48867 ATATTTTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 16 0.84
25 3 0.16
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.43
Consensus pattern (24 bp):
ATATAAATATATATAAATTAATCG
Found at i:52390 original size:26 final size:26
Alignment explanation
Indices: 52361--52416 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
52351 ATTTGTATTG
52361 ATGATAGCAATTTATATTAATTAATA
1 ATGATAGCAATTTATATTAATTAATA
52387 ATGATAGCAATTTATATTAATTAATA
1 ATGATAGCAATTTATATTAATTAATA
52413 ATGA
1 ATGA
52417 ATTATATTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.46, C:0.04, G:0.09, T:0.41
Consensus pattern (26 bp):
ATGATAGCAATTTATATTAATTAATA
Found at i:52502 original size:23 final size:22
Alignment explanation
Indices: 52455--52512 Score: 55
Period size: 22 Copynumber: 2.6 Consensus size: 22
52445 AAATTTTGAT
* * *
52455 TTTTA-TTTTTTAAAAACTCAC
1 TTTTATTTTTTTAAAAAATAAA
52476 TTTTATTTTTTTAAAAAATAAAA
1 TTTTATTTTTTTAAAAAAT-AAA
*
52499 TTTTAATATTTTTA
1 TTTT-ATTTTTTTA
52513 TCTATTTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
21 5 0.17
22 12 0.40
23 5 0.17
24 8 0.27
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (22 bp):
TTTTATTTTTTTAAAAAATAAA
Found at i:52764 original size:19 final size:20
Alignment explanation
Indices: 52731--52769 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
52721 TAAAAAATAT
52731 TTAAAAAATATTAA-TAAAC
1 TTAAAAAATATTAATTAAAC
52750 TTAAAACAATA-TAATTAAAC
1 TTAAAA-AATATTAATTAAAC
52770 ACATACTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (20 bp):
TTAAAAAATATTAATTAAAC
Found at i:54224 original size:2 final size:2
Alignment explanation
Indices: 54217--54253 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
54207 ACAATATTAC
54217 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
54254 AAGCTATATT
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:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:55149 original size:37 final size:37
Alignment explanation
Indices: 55095--55170 Score: 143
Period size: 37 Copynumber: 2.1 Consensus size: 37
55085 AACTCAAATT
*
55095 TTTTCGTGAGTCTATAATTAATCATATGCATGGATCC
1 TTTTCGTGAGTCCATAATTAATCATATGCATGGATCC
55132 TTTTCGTGAGTCCATAATTAATCATATGCATGGATCC
1 TTTTCGTGAGTCCATAATTAATCATATGCATGGATCC
55169 TT
1 TT
55171 AGGATTGGTG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.26, C:0.17, G:0.16, T:0.41
Consensus pattern (37 bp):
TTTTCGTGAGTCCATAATTAATCATATGCATGGATCC
Found at i:56002 original size:6 final size:6
Alignment explanation
Indices: 55991--56457 Score: 265
Period size: 6 Copynumber: 77.8 Consensus size: 6
55981 TGATGATAAG
* ** * * * *
55991 GGCAAT GGCAAT GGCGAT GGCGGT GGAAAT GGAAAT GGAAAT GGGAAT
1 GGCAAT GGCAAT GGCAAT GGCAAT GGCAAT GGCAAT GGCAAT GGCAAT
* * * * * * * * *
56039 GGGAAT GGGAAT GGGAAT GGAAAC GGAAAT GGAAAT GGGAAT GGAAAT
1 GGCAAT GGCAAT GGCAAT GGCAAT GGCAAT GGCAAT GGCAAT GGCAAT
* * * * * * *
56087 GGAAAT GGCAAT GGGAAT GGGAAC GGAAAA GGCAAT GGCAAT GGCAAC
1 GGCAAT GGCAAT GGCAAT GGCAAT GGCAAT GGCAAT GGCAAT GGCAAT
* * * * * * * *
56135 GGCAAT GGAAAT GGCAAT GGGAAT GGAAAC GGAAAC GGGAAT GGCAAC
1 GGCAAT GGCAAT GGCAAT GGCAAT GGCAAT GGCAAT GGCAAT GGCAAT
* * * * * * *
56183 GGAAAC GGCAAT GGCAAT GGAAAC GGCAAC GGCAAT GGCAAT GGAAAC
1 GGCAAT GGCAAT GGCAAT GGCAAT GGCAAT GGCAAT GGCAAT GGCAAT
* * * *
56231 GGCAAC GGCAAT GGCAAT GGCAAT GGAAAC GGCAAC GGCAAT GGCAAT
1 GGCAAT GGCAAT GGCAAT GGCAAT GGCAAT GGCAAT GGCAAT GGCAAT
* * * * * * *
56279 GGCAAT GGCAAC GGCAAT GG-AGAC GGAAAC GGAAAC GGTAAT GGCAAT
1 GGCAAT GGCAAT GGCAAT GGCA-AT GGCAAT GGCAAT GGCAAT GGCAAT
* * * * * * * * * *
56327 GGAAAC GGAAAC GGCAAT GGCAAC GGAAAC GGAAAT GTCAAC GGCAAT
1 GGCAAT GGCAAT GGCAAT GGCAAT GGCAAT GGCAAT GGCAAT GGCAAT
* * * * * * * *
56375 GGCAAT -GCAAAT GGCAAC AGAAAT GGAAAT GGAAAT GGAAAC GGAAACT
1 GGCAAT GGC-AAT GGCAAT GGCAAT GGCAAT GGCAAT GGCAAT GGCAA-T
* *
56424 GG-AAA GGCAAT GGCAAT GGCAAT GGCAAA GGCAA
1 GGCAAT GGCAAT GGCAAT GGCAAT GGCAAT GGCAA
56458 AGATGATGAA
Statistics
Matches: 383, Mismatches: 72, Indels: 12
0.82 0.15 0.03
Matches are distributed among these distances:
5 5 0.01
6 373 0.97
7 5 0.01
ACGTcount: A:0.40, C:0.14, G:0.36, T:0.11
Consensus pattern (6 bp):
GGCAAT
Found at i:56114 original size:24 final size:24
Alignment explanation
Indices: 56015--56448 Score: 332
Period size: 24 Copynumber: 17.8 Consensus size: 24
56005 CGATGGCGGT
* * * *
56015 GGAAATGGAAATGGAAATGGGAAT
1 GGAAATGGCAATGGCAATGGAAAC
* * *
56039 GGGAATGGGAATGGGAATGGAAAC
1 GGAAATGGCAATGGCAATGGAAAC
* * *
56063 GGAAATGGAAATGGGAATGGAAAT
1 GGAAATGGCAATGGCAATGGAAAC
* *
56087 GGAAATGGCAATGGGAATGGGAAC
1 GGAAATGGCAATGGCAATGGAAAC
* *
56111 GGAAAAGGCAATGGCAATGGCAAC
1 GGAAATGGCAATGGCAATGGAAAC
* * * *
56135 GGCAATGGAAATGGCAATGGGAAT
1 GGAAATGGCAATGGCAATGGAAAC
* * * * *
56159 GGAAACGGAAACGGGAATGGCAAC
1 GGAAATGGCAATGGCAATGGAAAC
*
56183 GGAAACGGCAATGGCAATGGAAAC
1 GGAAATGGCAATGGCAATGGAAAC
* *
56207 GGCAACGGCAATGGCAATGGAAAC
1 GGAAATGGCAATGGCAATGGAAAC
56231 GGCAACGGCAATGGCAATGGCAATGGAAAC
1 GG--A----AATGGCAATGGCAATGGAAAC
* * * *
56261 GGCAACGGCAATGGCAATGGCAAT
1 GGAAATGGCAATGGCAATGGAAAC
* * *
56285 GGCAACGGCAATGG-AGACGGAAAC
1 GGAAATGGCAATGGCA-ATGGAAAC
* *
56309 GGAAACGGTAATGGCAATGGAAAC
1 GGAAATGGCAATGGCAATGGAAAC
* *
56333 GGAAACGGCAATGGCAACGGAAAC
1 GGAAATGGCAATGGCAATGGAAAC
* * * *
56357 GGAAATGTCAACGGCAATGGCAAT
1 GGAAATGGCAATGGCAATGGAAAC
* ** * *
56381 GCAAATGGCAACAGAAATGGAAAT
1 GGAAATGGCAATGGCAATGGAAAC
* * *
56405 GGAAATGGAAACGGAAACTGGAAA-
1 GGAAATGGCAATGGCAA-TGGAAAC
*
56429 GGCAATGGCAATGGCAATGG
1 GGAAATGGCAATGGCAATGG
56449 CAAAGGCAAA
Statistics
Matches: 339, Mismatches: 62, Indels: 19
0.81 0.15 0.05
Matches are distributed among these distances:
23 4 0.01
24 306 0.90
25 7 0.02
30 22 0.06
ACGTcount: A:0.40, C:0.13, G:0.35, T:0.11
Consensus pattern (24 bp):
GGAAATGGCAATGGCAATGGAAAC
Found at i:56955 original size:23 final size:21
Alignment explanation
Indices: 56913--56959 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 21
56903 AACGTCCAAT
56913 AATTATTTTTAAAAAGTTAACA
1 AATTATTTTTAAAAAGTTAA-A
*
56935 AATTATTTTTAAAAATTTTAAA
1 AATTATTTTTAAAAA-GTTAAA
56957 AAT
1 AAT
56960 AAAAAAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 19 0.83
23 4 0.17
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (21 bp):
AATTATTTTTAAAAAGTTAAA
Found at i:56970 original size:30 final size:31
Alignment explanation
Indices: 56919--56981 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 31
56909 CAATAATTAT
* * *
56919 TTTTAAAAAGTTAACAAATTATTTTTAAAAA
1 TTTTAAAAAGTAAAAAAATTATCTTTAAAAA
*
56950 TTTTAAAAA-TAAAAAAATTATCTTTAATAA
1 TTTTAAAAAGTAAAAAAATTATCTTTAAAAA
56980 TT
1 TT
56982 ACTTTTTTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 19 0.68
31 9 0.32
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.43
Consensus pattern (31 bp):
TTTTAAAAAGTAAAAAAATTATCTTTAAAAA
Found at i:66433 original size:1 final size:1
Alignment explanation
Indices: 66414--66452 Score: 51
Period size: 1 Copynumber: 39.0 Consensus size: 1
66404 CAAAGAACAA
* * *
66414 CCCCACCCCCCGCCGCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
66453 AAAAAAAAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:0.03, C:0.92, G:0.05, T:0.00
Consensus pattern (1 bp):
C
Found at i:66655 original size:2 final size:2
Alignment explanation
Indices: 66648--66678 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
66638 CAACAAACAA
*
66648 AT AT AT AT AT AT AT AT AT AT AT AA AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
66679 CACACATTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:68455 original size:20 final size:20
Alignment explanation
Indices: 68407--68467 Score: 59
Period size: 23 Copynumber: 2.8 Consensus size: 20
68397 AATTAAAATA
68407 TAATATAATATAAATATTTATAT
1 TAATA-AAT-TAAA-ATTTATAT
*
68430 TATTAATACTTTAAAATTTATAT
1 TAATAA-A--TTAAAATTTATAT
68453 TAATAAATTAAAATT
1 TAATAAATTAAAATT
68468 AAATGAGTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
20 8 0.24
22 2 0.06
23 18 0.55
24 4 0.12
25 1 0.03
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.48
Consensus pattern (20 bp):
TAATAAATTAAAATTTATAT
Found at i:68495 original size:22 final size:24
Alignment explanation
Indices: 68470--68516 Score: 62
Period size: 22 Copynumber: 2.0 Consensus size: 24
68460 TTAAAATTAA
68470 ATGAGTATAAAATTAT-T-TAAAT
1 ATGAGTATAAAATTATATATAAAT
* *
68492 ATGATTATAATATTATATATAAAT
1 ATGAGTATAAAATTATATATAAAT
68516 A
1 A
68517 AAAAATTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 14 0.67
23 1 0.05
24 6 0.29
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (24 bp):
ATGAGTATAAAATTATATATAAAT
Found at i:68990 original size:19 final size:17
Alignment explanation
Indices: 68966--69018 Score: 72
Period size: 19 Copynumber: 3.1 Consensus size: 17
68956 TTTACAAATC
*
68966 ATATGAAAATATAATATCA
1 ATATGAAAAAATAATA--A
68985 ATATGAAAAAATAATAA
1 ATATGAAAAAATAATAA
69002 ATAT-AAAAAATAATAA
1 ATATGAAAAAATAATAA
69018 A
1 A
69019 ATAATATAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
16 13 0.39
17 5 0.15
19 15 0.45
ACGTcount: A:0.68, C:0.02, G:0.04, T:0.26
Consensus pattern (17 bp):
ATATGAAAAAATAATAA
Found at i:69021 original size:8 final size:8
Alignment explanation
Indices: 68992--69029 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
68982 TCAATATGAA
68992 AAAATAAT
1 AAAATAAT
69000 AAATATAA-
1 AAA-ATAAT
69008 AAAATAAT
1 AAAATAAT
69016 AAAATAAT
1 AAAATAAT
*
69024 ATAATA
1 AAAATA
69030 TATTTAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
7 4 0.15
8 19 0.70
9 4 0.15
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (8 bp):
AAAATAAT
Found at i:69029 original size:16 final size:16
Alignment explanation
Indices: 68984--69022 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 16
68974 ATATAATATC
68984 AATATGAAAAAATAATA
1 AATAT-AAAAAATAATA
69001 AATATAAAAAATAATA
1 AATATAAAAAATAATA
69017 AA-ATAA
1 AATATAA
69023 TATAATATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 4 0.18
16 13 0.59
17 5 0.23
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (16 bp):
AATATAAAAAATAATA
Found at i:69947 original size:17 final size:18
Alignment explanation
Indices: 69925--69962 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
69915 TTAGTATTAA
*
69925 AAATTTAATTTTAA-TTT
1 AAATTTAAGTTTAAGTTT
69942 AAATTTAAGTTTAAGTTT
1 AAATTTAAGTTTAAGTTT
69960 AAA
1 AAA
69963 CATAAATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (18 bp):
AAATTTAAGTTTAAGTTT
Found at i:70477 original size:28 final size:28
Alignment explanation
Indices: 70455--70535 Score: 77
Period size: 27 Copynumber: 3.1 Consensus size: 28
70445 TTAATTACAT
70455 TTTATATAA-AATATAAATATAATATAA
1 TTTATATAATAATATAAATATAATATAA
* *
70482 TTTATATAATAATTTAAA-AT-TTAT-A
1 TTTATATAATAATATAAATATAATATAA
* *
70507 -TTACATAAT-ATATTAATATAATAT-A
1 TTTATATAATAATATAAATATAATATAA
70532 TTTA
1 TTTA
70536 GTAATTTAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
23 5 0.11
24 10 0.23
25 5 0.11
26 6 0.14
27 11 0.25
28 7 0.16
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (28 bp):
TTTATATAATAATATAAATATAATATAA
Found at i:70506 original size:46 final size:46
Alignment explanation
Indices: 70455--70563 Score: 112
Period size: 46 Copynumber: 2.3 Consensus size: 46
70445 TTAATTACAT
*
70455 TTTATATAAAATATAAATA-TAATATAATTTATATAATAATTTAAAA
1 TTTATATAAAATA-AAATATTAATATAATATATATAATAATTTAAAA
* * * * * *
70501 TTTATATTACATAATATATTAATATAATATATTTAGTAATTTAAAG
1 TTTATATAAAATAAAATATTAATATAATATATATAATAATTTAAAA
*
70547 TTATAAATAATAATAAA
1 TT-TATATAA-AATAAA
70564 TCGTTTATTT
Statistics
Matches: 49, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
45 4 0.08
46 36 0.73
47 5 0.10
48 4 0.08
ACGTcount: A:0.53, C:0.01, G:0.02, T:0.44
Consensus pattern (46 bp):
TTTATATAAAATAAAATATTAATATAATATATATAATAATTTAAAA
Found at i:71007 original size:27 final size:26
Alignment explanation
Indices: 70965--71034 Score: 70
Period size: 27 Copynumber: 2.7 Consensus size: 26
70955 AATTTTACTA
* * *
70965 TTAATTTATTTTTATTTTAATT-TTT
1 TTAAATTATTATTATTTTAATTATAT
* *
70990 TTATAATTTTTATATATTATAATTATAT
1 TTA-AATTATTAT-TATTTTAATTATAT
71018 TTAAATTATTATTATTT
1 TTAAATTATTATTATTT
71035 ATATAAAATT
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
25 3 0.09
26 10 0.29
27 17 0.49
28 5 0.14
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (26 bp):
TTAAATTATTATTATTTTAATTATAT
Found at i:71054 original size:27 final size:28
Alignment explanation
Indices: 71016--71069 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 28
71006 TTATAATTAT
*
71016 ATTTAAATTA-TT-ATTATTTATATAAA
1 ATTTAAATTATTTAAATATTTATATAAA
*
71042 ATTTTAATATATTTAAATATTTATATAA
1 ATTTAAAT-TATTTAAATATTTATATAA
71070 TTTTTTATCA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 7 0.30
27 2 0.09
28 2 0.09
29 12 0.52
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (28 bp):
ATTTAAATTATTTAAATATTTATATAAA
Found at i:71064 original size:17 final size:18
Alignment explanation
Indices: 70990--71062 Score: 62
Period size: 17 Copynumber: 4.1 Consensus size: 18
70980 TTTAATTTTT
*
70990 TTATAAT-T-TTTATATA
1 TTATAATATATTTAAATA
71006 TTATAATTATATTTAAATTA
1 TTATAA-TATATTTAAA-TA
* * *
71026 TTATTATTTATATAAA-A
1 TTATAATATATTTAAATA
*
71043 TTTTAATATATTTAAATA
1 TTATAATATATTTAAATA
71061 TT
1 TT
71063 TATATAATTT
Statistics
Matches: 44, Mismatches: 8, Indels: 8
0.73 0.13 0.13
Matches are distributed among these distances:
16 6 0.14
17 14 0.32
18 4 0.09
19 13 0.30
20 7 0.16
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
TTATAATATATTTAAATA
Found at i:71599 original size:29 final size:29
Alignment explanation
Indices: 71567--71628 Score: 72
Period size: 28 Copynumber: 2.1 Consensus size: 29
71557 ATTCAAAATA
*
71567 AAATTAAGAATTAAATAATATTTA-TAATT
1 AAATTAA-AATAAAATAATATTTATTAATT
* * *
71596 AAATTTAAATAAAATAATTTTTATTATTT
1 AAATTAAAATAAAATAATATTTATTAATT
71625 AAAT
1 AAAT
71629 ATTAATTTCA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 14 0.50
29 14 0.50
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (29 bp):
AAATTAAAATAAAATAATATTTATTAATT
Found at i:71858 original size:17 final size:18
Alignment explanation
Indices: 71814--71860 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
71804 TAATAAAATA
*
71814 AAAATTTAA-ATTTATTT
1 AAAATTTAATTTTTATTT
71831 AAAATTATAATTTTTATTT
1 AAAATT-TAATTTTTATTT
71850 -AAATTTAATTT
1 AAAATTTAATTT
71861 GAAAATACGT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
17 12 0.44
18 8 0.30
19 7 0.26
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
AAAATTTAATTTTTATTT
Found at i:72127 original size:6 final size:6
Alignment explanation
Indices: 72116--72154 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
72106 AATATAAAAA
* *
72116 TATATT TATATT TATATT TATATTT TATAAT TAAATT TA
1 TATATT TATATT TATATT TATA-TT TATATT TATATT TA
72155 AATAAAAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
6 23 0.79
7 6 0.21
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (6 bp):
TATATT
Found at i:72144 original size:19 final size:20
Alignment explanation
Indices: 72115--72154 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
72105 AAATATAAAA
* *
72115 ATATATTTATATTTATATTT
1 ATATATTTATAATTAAATTT
72135 ATAT-TTTATAATTAAATTT
1 ATATATTTATAATTAAATTT
72154 A
1 A
72155 AATAAAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
ATATATTTATAATTAAATTT
Found at i:72175 original size:22 final size:23
Alignment explanation
Indices: 72149--72234 Score: 97
Period size: 22 Copynumber: 3.7 Consensus size: 23
72139 TTTATAATTA
72149 AATTTAAATAAAAATATTT-TTT
1 AATTTAAATAAAAATATTTATTT
* *
72171 AATTTAAATAATAAT-TTTAATT
1 AATTTAAATAAAAATATTTATTT
72193 AATTTAAAAATATAAAA-ATTTATTT
1 AATTT--AAATA-AAAATATTTATTT
*
72218 AATTTGAATAAAAATAT
1 AATTTAAATAAAAATAT
72235 ATACACATAT
Statistics
Matches: 53, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
21 3 0.06
22 25 0.47
23 6 0.11
24 5 0.09
25 14 0.26
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.45
Consensus pattern (23 bp):
AATTTAAATAAAAATATTTATTT
Found at i:72220 original size:25 final size:23
Alignment explanation
Indices: 72105--72231 Score: 75
Period size: 25 Copynumber: 5.4 Consensus size: 23
72095 GAATATATTA
*
72105 AAATATAAAAATATATTTATATTT
1 AAATATAAAAATTTATTTA-ATTT
* * * *
72129 ATAT-TTATATTTTATAATTAAATTT
1 AAATATAAAAATTTAT--TT-AATTT
72154 AAATA-AAAATATTT-TTTAATTT
1 AAATATAAAA-ATTTATTTAATTT
* * *
72176 AAATA-ATAATTTTAATTAATTT
1 AAATATAAAAATTTATTTAATTT
72198 AAAAATATAAAAATTTATTTAATTT
1 --AAATATAAAAATTTATTTAATTT
*
72223 GAATA-AAAA
1 AAATATAAAA
72232 TATATACACA
Statistics
Matches: 78, Mismatches: 16, Indels: 20
0.68 0.14 0.18
Matches are distributed among these distances:
21 3 0.04
22 24 0.31
23 13 0.17
24 8 0.10
25 26 0.33
26 4 0.05
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (23 bp):
AAATATAAAAATTTATTTAATTT
Found at i:72384 original size:5 final size:5
Alignment explanation
Indices: 72374--72467 Score: 59
Period size: 5 Copynumber: 18.6 Consensus size: 5
72364 TATATTTCTT
* * * *
72374 TATTA TATTA TAATTA TATTT TATTA TGTTA TAATTA TATT- TATAA TATTT
1 TATTA TATTA T-ATTA TATTA TATTA TATTA T-ATTA TATTA TATTA TATTA
* * * *
72425 TATAAA TATATA AATTA TAATA TATTA -ATAA T-TTA TATTA TAT
1 TAT-TA TAT-TA TATTA TATTA TATTA TATTA TATTA TATTA TAT
72468 AAATATTAAA
Statistics
Matches: 67, Mismatches: 16, Indels: 12
0.71 0.17 0.13
Matches are distributed among these distances:
4 9 0.13
5 42 0.63
6 16 0.24
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (5 bp):
TATTA
Found at i:72391 original size:11 final size:11
Alignment explanation
Indices: 72375--72466 Score: 73
Period size: 11 Copynumber: 8.0 Consensus size: 11
72365 ATATTTCTTT
72375 ATTATATTATA
1 ATTATATTATA
*
72386 ATTATATT-TT
1 ATTATATTATA
*
72396 ATTATGTTATA
1 ATTATATTATA
72407 ATTATATTTATA
1 ATTATA-TTATA
*
72419 A-TATTTTATAA
1 ATTATATTAT-A
72430 ATATATAAATTATA
1 AT-TAT--ATTATA
72444 A-TATATTAATA
1 ATTATATT-ATA
72455 ATTTATATTATA
1 A-TTATATTATA
72467 TAAATATTAA
Statistics
Matches: 65, Mismatches: 6, Indels: 19
0.72 0.07 0.21
Matches are distributed among these distances:
10 15 0.23
11 23 0.35
12 12 0.18
13 9 0.14
14 2 0.03
15 4 0.06
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (11 bp):
ATTATATTATA
Found at i:72398 original size:21 final size:21
Alignment explanation
Indices: 72372--72435 Score: 83
Period size: 21 Copynumber: 3.0 Consensus size: 21
72362 CATATATTTC
72372 TTTATTATATTATAATTATAT
1 TTTATTATATTATAATTATAT
*
72393 TTTATTATGTTATAATTATAT
1 TTTATTATATTATAATTATAT
* * *
72414 TTATAATATTTTATAAATATAT
1 TT-TATTATATTATAATTATAT
72436 AAATTATAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
21 22 0.58
22 16 0.42
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (21 bp):
TTTATTATATTATAATTATAT
Found at i:72414 original size:16 final size:16
Alignment explanation
Indices: 72374--72467 Score: 66
Period size: 16 Copynumber: 5.5 Consensus size: 16
72364 TATATTTCTT
72374 TATTATATTATAATTA
1 TATTATATTATAATTA
* *
72390 TATTTTATTAT-GTTA
1 TATTATATTATAATTA
72405 TAATTATATTTATAA-TA
1 T-ATTATA-TTATAATTA
*
72422 TTTTATAAATATATAAATTA
1 TATTAT--AT-TAT-AATTA
*
72442 TAATATATTAATAATTTA
1 TATTATATT-ATAA-TTA
72460 TATTATAT
1 TATTATAT
72468 AAATATTAAA
Statistics
Matches: 60, Mismatches: 8, Indels: 18
0.70 0.09 0.21
Matches are distributed among these distances:
15 4 0.07
16 19 0.32
17 11 0.18
18 18 0.30
19 2 0.03
20 6 0.10
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (16 bp):
TATTATATTATAATTA
Found at i:72427 original size:27 final size:26
Alignment explanation
Indices: 72376--72427 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
72366 TATTTCTTTA
*
72376 TTATATTATAATTATATTTTATTATG
1 TTATATTATAATTATATATTATTATG
*
72402 TTATAATTATATTTATAATATT-TTAT
1 TTAT-ATTATAATTAT-ATATTATTAT
72428 AAATATATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
26 4 0.18
27 14 0.64
28 4 0.18
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (26 bp):
TTATATTATAATTATATATTATTATG
Found at i:72497 original size:16 final size:17
Alignment explanation
Indices: 72477--72514 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
72467 TAAATATTAA
72477 ATATTTAAATT-ATTTT
1 ATATTTAAATTAATTTT
* *
72493 TTATTTTAATTAATTTT
1 ATATTTAAATTAATTTT
72510 ATATT
1 ATATT
72515 ATATATATAG
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
ATATTTAAATTAATTTT
Found at i:73413 original size:72 final size:73
Alignment explanation
Indices: 73337--73472 Score: 184
Period size: 72 Copynumber: 1.9 Consensus size: 73
73327 CGATTTAGTA
* * * *
73337 AAGTTGAGCTTGTCAAATTAAATCGATTATCTAACACATGAAAAT-ATATAATTTAATTTAATTA
1 AAGTTGAACTTATCAAATTAAATCAATTATCTAACACATAAAAATAATATAATTTAATTTAATTA
73401 ATTCATAC
66 ATTCATAC
** * * *
73409 AAGTTGAACTTATCAAATTAGGTTAATTGTCTGACACATAAAAATAATATAATTTAATTTAATT
1 AAGTTGAACTTATCAAATTAAATCAATTATCTAACACATAAAAATAATATAATTTAATTTAATT
73473 CATTTATATA
Statistics
Matches: 54, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
72 36 0.67
73 18 0.33
ACGTcount: A:0.43, C:0.10, G:0.09, T:0.38
Consensus pattern (73 bp):
AAGTTGAACTTATCAAATTAAATCAATTATCTAACACATAAAAATAATATAATTTAATTTAATTA
ATTCATAC
Found at i:76457 original size:16 final size:15
Alignment explanation
Indices: 76436--76477 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
76426 CTATATGTAA
76436 TTAATAATTATAAGTT
1 TTAATAATTATAA-TT
*
76452 TTAATATTTATAATT
1 TTAATAATTATAATT
*
76467 TTAATGATTAT
1 TTAATAATTAT
76478 CATGGAACAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
15 11 0.48
16 12 0.52
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (15 bp):
TTAATAATTATAATT
Found at i:76477 original size:15 final size:15
Alignment explanation
Indices: 76436--76477 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
76426 CTATATGTAA
76436 TTAATAATTATAAGTT
1 TTAAT-ATTATAAGTT
76452 TTAATATTTATAA-TT
1 TTAATA-TTATAAGTT
76467 TTAATGATTAT
1 TTAAT-ATTAT
76478 CATGGAACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 12 0.50
16 12 0.50
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (15 bp):
TTAATATTATAAGTT
Found at i:78552 original size:3 final size:3
Alignment explanation
Indices: 78544--78575 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
78534 TTAATTTTTC
*
78544 AAT AAT AAT AAT AAT AAT AAT AAT AAT TAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
78576 GTATCATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:79635 original size:2 final size:2
Alignment explanation
Indices: 79628--79656 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
79618 ATTATTTTAA
79628 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
79657 AACTAATCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:80913 original size:23 final size:22
Alignment explanation
Indices: 80861--80913 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
80851 TATACATTTT
*
80861 AATA-AAAAATATATTATTAAA
1 AATACAAAAATATATTATAAAA
80882 AATGACAAAAATATATTTGATAAAA
1 AAT-ACAAAAATATA-TT-ATAAAA
80907 AAT-CAAA
1 AATACAAA
80914 CATTATGTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
21 3 0.11
22 1 0.04
23 13 0.48
24 2 0.07
25 8 0.30
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.28
Consensus pattern (22 bp):
AATACAAAAATATATTATAAAA
Found at i:81469 original size:16 final size:17
Alignment explanation
Indices: 81439--81471 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
81429 AAAAATTTTC
81439 TTATTTTATGATTTATA
1 TTATTTTATGATTTATA
81456 TTATTTTAT-ATTTATA
1 TTATTTTATGATTTATA
81472 CGATTAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (17 bp):
TTATTTTATGATTTATA
Found at i:90020 original size:16 final size:15
Alignment explanation
Indices: 89992--90043 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 15
89982 ATTATATATT
89992 TATA-TAAAATTTAA
1 TATATTAAAATTTAA
90006 TATATTAATAATTT-A
1 TATATTAA-AATTTAA
*
90021 TATTATATAAATTTTAA
1 TA-TAT-TAAAATTTAA
90038 TATATT
1 TATATT
90044 TATATTTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
14 4 0.12
15 7 0.22
16 15 0.47
17 6 0.19
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATATTAAAATTTAA
Found at i:90023 original size:27 final size:28
Alignment explanation
Indices: 89956--90050 Score: 90
Period size: 27 Copynumber: 3.4 Consensus size: 28
89946 TTTTTAATTT
*
89956 TTATATA-TTATAAAAATATTTAAAATA
1 TTATATATTTATATAAATATTTAAAATA
*
89983 TTATATATTTATATAAA-ATTTAATATA
1 TTATATATTTATATAAATATTTAAAATA
*
90010 TTAATAATTTATATTATATAAAT-TTTAATATA
1 TT-AT-A--TAT-TTATATAAATATTTAAAATA
90042 TT-TATATTT
1 TTATATATTT
90051 TTTATCATAT
Statistics
Matches: 59, Mismatches: 2, Indels: 15
0.78 0.03 0.20
Matches are distributed among these distances:
26 2 0.03
27 21 0.36
28 10 0.17
29 2 0.03
30 1 0.02
31 3 0.05
32 20 0.34
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (28 bp):
TTATATATTTATATAAATATTTAAAATA
Found at i:90037 original size:32 final size:28
Alignment explanation
Indices: 89957--90048 Score: 98
Period size: 32 Copynumber: 3.2 Consensus size: 28
89947 TTTTAATTTT
* *
89957 TATATATTATAAAAATATTTAAAATATTA
1 TATATATTATATAAAT-TTTAATATATTA
*
89986 TATAT-TTATATAAAATTTAATATATTAA
1 TATATATTATATAAATTTTAATATATT-A
90014 TAATTTATATTATATAAATTTTAATATATT-
1 T-A--TATATTATATAAATTTTAATATATTA
90044 TATAT
1 TATAT
90049 TTTTTATCAT
Statistics
Matches: 54, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
27 13 0.24
28 10 0.19
29 7 0.13
30 1 0.02
31 3 0.06
32 20 0.37
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (28 bp):
TATATATTATATAAATTTTAATATATTA
Found at i:90046 original size:20 final size:18
Alignment explanation
Indices: 89985--90085 Score: 61
Period size: 20 Copynumber: 5.6 Consensus size: 18
89975 TTAAAATATT
89985 ATATATTTATATAAAATTTA
1 ATATA-TTATAT-AAATTTA
90005 ATATATTA-AT-AA-TT-
1 ATATATTATATAAATTTA
90019 -TATATTATATAAATTTTA
1 ATATATTATATAAA-TTTA
** *
90037 ATATATT-TATATTTTTT
1 ATATATTATATAAATTTA
*
90054 ATCATATTATATTTAAATTTT
1 AT-ATATTATA--TAAATTTA
*
90075 TTATATTATAT
1 ATATATTATAT
90086 TAATATTATA
Statistics
Matches: 65, Mismatches: 6, Indels: 22
0.70 0.06 0.24
Matches are distributed among these distances:
13 7 0.11
14 2 0.03
15 4 0.06
16 2 0.03
17 7 0.11
18 12 0.18
19 11 0.17
20 13 0.20
21 7 0.11
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (18 bp):
ATATATTATATAAATTTA
Found at i:90069 original size:32 final size:31
Alignment explanation
Indices: 90017--90113 Score: 97
Period size: 31 Copynumber: 3.0 Consensus size: 31
90007 ATATTAATAA
* *
90017 TTTATATTATATAAATTTTAATATATTTATATTT
1 TTTATA-TAT-TATATTTAAAT-TATTTATATTT
*
90051 TTTATCATATTATATTTAAATTTTTTATATTAT
1 TTTAT-ATATTATATTTAAATTATTTATATT-T
* *
90084 ATTA-ATATTATATTTAAATTAATTATATTT
1 TTTATATATTATATTTAAATTATTTATATTT
90114 AAAACTTAAA
Statistics
Matches: 55, Mismatches: 6, Indels: 8
0.80 0.09 0.12
Matches are distributed among these distances:
30 1 0.02
31 23 0.42
32 9 0.16
33 13 0.24
34 8 0.15
35 1 0.02
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (31 bp):
TTTATATATTATATTTAAATTATTTATATTT
Found at i:90080 original size:15 final size:15
Alignment explanation
Indices: 90058--90116 Score: 66
Period size: 15 Copynumber: 3.9 Consensus size: 15
90048 TTTTTTATCA
90058 TATTATATTTAAATT
1 TATTATATTTAAATT
* *
90073 TTTTATA-TTATATT
1 TATTATATTTAAATT
90087 AATATTATATTTAAATT
1 --TATTATATTTAAATT
*
90104 AATTATATTTAAA
1 TATTATATTTAAA
90117 ACTTAAATTA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
14 6 0.17
15 18 0.50
16 6 0.17
17 6 0.17
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TATTATATTTAAATT
Found at i:90086 original size:20 final size:23
Alignment explanation
Indices: 90038--90086 Score: 68
Period size: 20 Copynumber: 2.3 Consensus size: 23
90028 TAAATTTTAA
*
90038 TATATTTATATTTTTTATCATAT
1 TATATTTATAATTTTTATCATAT
90061 TATATTTA-AATTTTT-T-ATAT
1 TATATTTATAATTTTTATCATAT
90081 TATATT
1 TATATT
90087 AATATTATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 10 0.40
21 1 0.04
22 6 0.24
23 8 0.32
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (23 bp):
TATATTTATAATTTTTATCATAT
Found at i:90098 original size:25 final size:24
Alignment explanation
Indices: 90038--90098 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 24
90028 TAAATTTTAA
90038 TATATTTATA-TTTTTTATCATAT
1 TATATTTATATTTTTTTATCATAT
* *
90061 TATATTTAAATTTTTTATATTATAT
1 TATATTTATATTTTTT-TATCATAT
90086 TA-ATATTATATTT
1 TATAT-TTATATTT
90099 AAATTAATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
23 9 0.28
24 7 0.22
25 16 0.50
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (24 bp):
TATATTTATATTTTTTTATCATAT
Found at i:90104 original size:11 final size:11
Alignment explanation
Indices: 90059--90104 Score: 53
Period size: 11 Copynumber: 4.4 Consensus size: 11
90049 TTTTTATCAT
90059 ATTATATTTAA
1 ATTATATTTAA
*
90070 ATT-T-TTTAT
1 ATTATATTTAA
90079 ATTATA-TTAA
1 ATTATATTTAA
90089 TATTATATTTAA
1 -ATTATATTTAA
90101 ATTA
1 ATTA
90105 ATTATATTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
9 7 0.24
10 5 0.17
11 13 0.45
12 4 0.14
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (11 bp):
ATTATATTTAA
Found at i:90217 original size:17 final size:18
Alignment explanation
Indices: 90197--90240 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
90187 TAATTTAATT
90197 AATTAAATAA-ATATTTA
1 AATTAAATAATATATTTA
*
90214 AATTAAAATAATTTATTTA
1 AATT-AAATAATATATTTA
90233 AA-TAAATA
1 AATTAAATA
90241 TGATATGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 9 0.38
18 7 0.29
19 8 0.33
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
AATTAAATAATATATTTA
Found at i:90367 original size:20 final size:21
Alignment explanation
Indices: 90352--90411 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 21
90342 ATATTTAAAT
*
90352 AAAAATAATTAAATTTTAAA-
1 AAAAATAATTAAATATTAAAT
* * *
90372 ATAAATAATTTAATACTAAAT
1 AAAAATAATTAAATATTAAAT
*
90393 AAATATAA-TAAATATTAAA
1 AAAAATAATTAAATATTAAA
90412 ATTAATATAC
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
20 25 0.81
21 6 0.19
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (21 bp):
AAAAATAATTAAATATTAAAT
Found at i:90383 original size:14 final size:14
Alignment explanation
Indices: 90328--90418 Score: 62
Period size: 14 Copynumber: 6.5 Consensus size: 14
90318 TTTTTTAATC
90328 ATAAATAAATTAAA
1 ATAAATAAATTAAA
** *
90342 ATATTTAAATAAAA
1 ATAAATAAATTAAA
*
90356 ATAATTAAATTTTAAA
1 ATAAATAAA--TTAAA
*
90372 ATAAATAATTTAATA
1 ATAAATAAATTAA-A
* *
90387 CTAAATAAA-TATA
1 ATAAATAAATTAAA
90400 ATAAAT--ATTAAA
1 ATAAATAAATTAAA
*
90412 ATTAATA
1 ATAAATA
90419 TACCCATTTC
Statistics
Matches: 59, Mismatches: 13, Indels: 11
0.71 0.16 0.13
Matches are distributed among these distances:
11 1 0.02
12 8 0.14
13 6 0.10
14 25 0.42
15 8 0.14
16 11 0.19
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.36
Consensus pattern (14 bp):
ATAAATAAATTAAA
Found at i:90413 original size:21 final size:21
Alignment explanation
Indices: 90340--90420 Score: 76
Period size: 22 Copynumber: 3.9 Consensus size: 21
90330 AAATAAATTA
* *
90340 AAATATTTAAATAAAAATAATT
1 AAATATTAAAATAAATATAA-T
* *
90362 AAATTTTAAAATAAATA-ATT
1 AAATATTAAAATAAATATAAT
* *
90382 TAATACT-AAATAAATATAAT
1 AAATATTAAAATAAATATAAT
*
90402 AAATATTAAAATTAATATA
1 AAATATTAAAATAAATATA
90421 CCCATTTCTC
Statistics
Matches: 46, Mismatches: 11, Indels: 5
0.74 0.18 0.08
Matches are distributed among these distances:
19 9 0.20
20 12 0.26
21 11 0.24
22 14 0.30
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (21 bp):
AAATATTAAAATAAATATAAT
Found at i:90880 original size:29 final size:28
Alignment explanation
Indices: 90821--90880 Score: 95
Period size: 28 Copynumber: 2.1 Consensus size: 28
90811 CCACCGCTCC
*
90821 TTTTTTCTTTACTTTTAACTTTTTACCT
1 TTTTTTCTTTACTTTTAACTTTTTAACT
90849 TTTTTTCTTTACTTTTTAACTTTTTAA-T
1 TTTTTTCTTTAC-TTTTAACTTTTTAACT
90877 TTTT
1 TTTT
90881 CCGTACTACA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 17 0.57
29 13 0.43
ACGTcount: A:0.15, C:0.13, G:0.00, T:0.72
Consensus pattern (28 bp):
TTTTTTCTTTACTTTTAACTTTTTAACT
Found at i:92038 original size:17 final size:17
Alignment explanation
Indices: 92018--92116 Score: 62
Period size: 17 Copynumber: 5.9 Consensus size: 17
92008 ATATTATTAT
92018 AATATAAAAATAATATA
1 AATATAAAAATAATATA
* * *
92035 AATATATAAAT-TTTTA
1 AATATAAAAATAATATA
* *
92051 AATTTACAAAATAATTTA
1 AATATA-AAAATAATATA
* * *
92069 ATTGAT-AAAATTATTTA
1 AAT-ATAAAAATAATATA
92086 AATAT-AAAATAATA-A
1 AATATAAAAATAATATA
*
92101 TAATATATAAATAATA
1 -AATATAAAAATAATA
92117 CATCTAATTT
Statistics
Matches: 64, Mismatches: 13, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
15 1 0.02
16 22 0.34
17 34 0.53
18 6 0.09
19 1 0.02
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.38
Consensus pattern (17 bp):
AATATAAAAATAATATA
Found at i:92063 original size:34 final size:33
Alignment explanation
Indices: 92010--92112 Score: 97
Period size: 33 Copynumber: 3.1 Consensus size: 33
92000 TAATGTTTAT
92010 ATTATTATAATATA-AAAATAATATAAATATATAA
1 ATTATT-TAA-ATACAAAATAATATAAATATATAA
* *
92044 ATT-TTTAAATTTACAAAATAATTTAATTGATA-AA
1 ATTATTTAAA--TACAAAATAATATAAAT-ATATAA
*
92078 ATTATTTAAATATAAAATAATA-ATAATATATAA
1 ATTATTTAAATACAAAATAATATA-AATATATAA
92111 AT
1 AT
92113 AATACATCTA
Statistics
Matches: 57, Mismatches: 5, Indels: 15
0.74 0.06 0.19
Matches are distributed among these distances:
31 1 0.02
32 7 0.12
33 20 0.35
34 20 0.35
35 9 0.16
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (33 bp):
ATTATTTAAATACAAAATAATATAAATATATAA
Found at i:92337 original size:13 final size:13
Alignment explanation
Indices: 92321--92352 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
92311 AAAGTTTAAG
*
92321 TTAATTGTTTCAT
1 TTAATTGCTTCAT
92334 TTAATTGCTTCAT
1 TTAATTGCTTCAT
92347 TTAATT
1 TTAATT
92353 ATTTTTAGAT
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:0.25, C:0.09, G:0.06, T:0.59
Consensus pattern (13 bp):
TTAATTGCTTCAT
Found at i:93434 original size:32 final size:33
Alignment explanation
Indices: 93390--93453 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
93380 TAACGTGAAT
* *
93390 ATATTTTAAAATTTATAT-AATATAAATTATTA
1 ATATATTAAAATTTATATAAATATAAAATATTA
93422 ATATATTAAAATTTATATAAATATAAAATATT
1 ATATATTAAAATTTATATAAATATAAAATATT
93454 TTAAATACGA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (33 bp):
ATATATTAAAATTTATATAAATATAAAATATTA
Found at i:93448 original size:17 final size:17
Alignment explanation
Indices: 93396--93450 Score: 64
Period size: 17 Copynumber: 3.4 Consensus size: 17
93386 GAATATATTT
93396 TAAAATTTATAT-AATA
1 TAAAATTTATATAAATA
93412 T-AAA-TTAT-TAATATA
1 TAAAATTTATATAA-ATA
93427 TTAAAATTTATATAAATA
1 -TAAAATTTATATAAATA
93445 TAAAAT
1 TAAAAT
93451 ATTTTAAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 11
0.75 0.00 0.25
Matches are distributed among these distances:
13 1 0.03
14 5 0.15
15 6 0.18
16 2 0.06
17 9 0.27
18 7 0.21
19 3 0.09
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TAAAATTTATATAAATA
Found at i:95515 original size:5 final size:5
Alignment explanation
Indices: 95499--95543 Score: 51
Period size: 5 Copynumber: 9.2 Consensus size: 5
95489 AAAATTGATA
95499 TATAT ATATAT TATATT TATAT TAT-T T-T-T TATAT TATAT TATAT T
1 TATAT -TATAT TATA-T TATAT TATAT TATAT TATAT TATAT TATAT T
95544 TTAATTTTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
3 3 0.08
4 3 0.08
5 20 0.56
6 10 0.28
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (5 bp):
TATAT
Found at i:95531 original size:23 final size:25
Alignment explanation
Indices: 95505--95553 Score: 75
Period size: 23 Copynumber: 2.0 Consensus size: 25
95495 GATATATATA
95505 TATATTATATT-TATATT-ATTTTT
1 TATATTATATTATATATTAATTTTT
*
95528 TATATTATATTATATTTTAATTTTT
1 TATATTATATTATATATTAATTTTT
95553 T
1 T
95554 TTGTGCGTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 11 0.48
24 5 0.22
25 7 0.30
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (25 bp):
TATATTATATTATATATTAATTTTT
Found at i:95535 original size:17 final size:18
Alignment explanation
Indices: 95497--95550 Score: 67
Period size: 17 Copynumber: 3.1 Consensus size: 18
95487 AAAAAATTGA
*
95497 TATATATATATATTATATT
1 TATAT-TATATTTTATATT
*
95516 TATATTATTTTTTATA-T
1 TATATTATATTTTATATT
95533 TATATTATATTTTA-ATT
1 TATATTATATTTTATATT
95550 T
1 T
95551 TTTTTGTGCG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
16 1 0.03
17 16 0.52
18 9 0.29
19 5 0.16
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
TATATTATATTTTATATT
Found at i:95701 original size:21 final size:20
Alignment explanation
Indices: 95677--95732 Score: 62
Period size: 18 Copynumber: 2.9 Consensus size: 20
95667 TAAATACAAG
*
95677 AAATTTAATTATAAATATGAT
1 AAATTTAAATA-AAATATGAT
*
95698 AAATTTAAATAAAATATGTT
1 AAATTTAAATAAAATATGAT
*
95718 TAA--TAAATAAAATAT
1 AAATTTAAATAAAATAT
95733 ATTTAAATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
18 12 0.38
20 10 0.31
21 10 0.31
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (20 bp):
AAATTTAAATAAAATATGAT
Found at i:95726 original size:18 final size:18
Alignment explanation
Indices: 95703--95738 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
95693 ATGATAAATT
*
95703 TAAATAAAATATGTTTAA
1 TAAATAAAATATATTTAA
95721 TAAATAAAATATATTTAA
1 TAAATAAAATATATTTAA
95739 ATATAATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (18 bp):
TAAATAAAATATATTTAA
Found at i:96253 original size:35 final size:36
Alignment explanation
Indices: 96198--96269 Score: 94
Period size: 35 Copynumber: 2.0 Consensus size: 36
96188 TAATCATATT
* *
96198 TAAAATATTATATATTTATATATAATTTAT-ATTATA
1 TAAAATATTATATATATATATAT-ATATATGATTATA
*
96234 TAAAATTTTA-ATATATATATATATATATGATTATA
1 TAAAATATTATATATATATATATATATATGATTATA
96269 T
1 T
96270 TCAAAAGTAG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
34 5 0.16
35 18 0.56
36 9 0.28
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (36 bp):
TAAAATATTATATATATATATATATATATGATTATA
Found at i:96606 original size:16 final size:16
Alignment explanation
Indices: 96585--96633 Score: 50
Period size: 15 Copynumber: 3.1 Consensus size: 16
96575 AAATATTTTA
96585 TATTTATATAAAATTT
1 TATTTATATAAAATTT
96601 TATTTAT-TAATAA-TT
1 TATTTATATAA-AATTT
*
96616 TATATA-ATATAAATTT
1 TATTTATATA-AAATTT
96632 TA
1 TA
96634 AAATATTTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
15 14 0.50
16 14 0.50
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TATTTATATAAAATTT
Found at i:96625 original size:45 final size:46
Alignment explanation
Indices: 96532--96622 Score: 112
Period size: 47 Copynumber: 1.9 Consensus size: 46
96522 TATAGGATTA
* * *
96532 ATTTTATATTTTTATATATTTTATTATATTATAATCGTATGTAAAAT
1 ATTTTATATTTATATAAATTTTATTATATTATAATC-TATATAAAAT
*
96579 ATTTTATATTTATATAAAATTTTATT-TATTAATAATTTATATAA
1 ATTTTATATTTATAT-AAATTTTATTATATT-ATAATCTATATAA
96623 TATAAATTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
47 24 0.63
48 14 0.37
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.57
Consensus pattern (46 bp):
ATTTTATATTTATATAAATTTTATTATATTATAATCTATATAAAAT
Found at i:101242 original size:19 final size:19
Alignment explanation
Indices: 101210--101246 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
101200 AACTCAGGCA
*
101210 TGAGCATAAGACATGAGTG
1 TGAGCATAAAACATGAGTG
*
101229 TGAGCGTAAAACATGAGT
1 TGAGCATAAAACATGAGT
101247 ATGTTCAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.38, C:0.11, G:0.30, T:0.22
Consensus pattern (19 bp):
TGAGCATAAAACATGAGTG
Found at i:102282 original size:25 final size:25
Alignment explanation
Indices: 102237--102287 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
102227 TTTAATCTAT
102237 TTTTTAATATTTATATAATATAATA
1 TTTTTAATATTTATATAATATAATA
* *
102262 TTTTT-ATTTTTATTATGATATAATA
1 TTTTTAATATTTA-TATAATATAATA
102287 T
1 T
102288 AATATATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 6 0.26
25 17 0.74
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (25 bp):
TTTTTAATATTTATATAATATAATA
Found at i:102308 original size:19 final size:20
Alignment explanation
Indices: 102279--102319 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
102269 TTTTATTATG
102279 ATATAATATAA-T-ATATAT
1 ATATAATATAACTCATATAT
102297 ATATATATATAACTCATATAT
1 ATATA-ATATAACTCATATAT
102318 AT
1 AT
102320 TATTCAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 5 0.25
19 6 0.30
20 1 0.05
21 8 0.40
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (20 bp):
ATATAATATAACTCATATAT
Found at i:103498 original size:14 final size:14
Alignment explanation
Indices: 103479--103541 Score: 60
Period size: 14 Copynumber: 4.6 Consensus size: 14
103469 TTAATAATAT
103479 TAAATATAATTACA
1 TAAATATAATTACA
* *
103493 TAAATATAATAATA
1 TAAATATAATTACA
*
103507 TAAATATTATT--A
1 TAAATATAATTACA
103519 -AAATATAATATAACA
1 TAAATATAAT-T-ACA
103534 TAAATATA
1 TAAATATA
103542 TTCTTAAATC
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
11 8 0.21
12 2 0.05
14 21 0.54
15 1 0.03
16 7 0.18
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (14 bp):
TAAATATAATTACA
Found at i:103707 original size:2 final size:2
Alignment explanation
Indices: 103700--103734 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
103690 ATTTAAGTCC
103700 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
103735 GAACTTAAGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:105873 original size:21 final size:21
Alignment explanation
Indices: 105843--105884 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
105833 TTATAATAAA
*
105843 TTATATTAAAATATTATATAT
1 TTATAATAAAATATTATATAT
* *
105864 TTATAATAAATTTTTATATAT
1 TTATAATAAAATATTATATAT
105885 AATAATTTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
TTATAATAAAATATTATATAT
Found at i:106045 original size:18 final size:19
Alignment explanation
Indices: 106022--106059 Score: 69
Period size: 18 Copynumber: 2.1 Consensus size: 19
106012 CAATGTCACC
106022 TTATTAAAAAAT-ATTATT
1 TTATTAAAAAATAATTATT
106040 TTATTAAAAAATAATTATT
1 TTATTAAAAAATAATTATT
106059 T
1 T
106060 AAAATAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
TTATTAAAAAATAATTATT
Found at i:106518 original size:37 final size:38
Alignment explanation
Indices: 106477--106568 Score: 118
Period size: 37 Copynumber: 2.4 Consensus size: 38
106467 ATTCCAACAC
* *
106477 TATTTTACTT-TAATAAAATAATTATTTTATTA-AATTT
1 TATTTTA-TTATAATAAAATAACTATTTTATTATAACTT
*
106514 TATTTTATTATTATAAAATAACTATTTTATTATAACTT
1 TATTTTATTATAATAAAATAACTATTTTATTATAACTT
106552 TATTTTATTCA-AATAAA
1 TATTTTATT-ATAATAAA
106569 CTAAAGATAT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
36 2 0.04
37 27 0.56
38 18 0.38
39 1 0.02
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.54
Consensus pattern (38 bp):
TATTTTATTATAATAAAATAACTATTTTATTATAACTT
Found at i:106883 original size:16 final size:15
Alignment explanation
Indices: 106862--106891 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
106852 CAAAAAATAT
106862 ATAAATATAAATTATC
1 ATAAATAT-AATTATC
106878 ATAAATATAATTAT
1 ATAAATATAATTAT
106892 TATATAGTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (15 bp):
ATAAATATAATTATC
Found at i:107085 original size:32 final size:33
Alignment explanation
Indices: 107034--107105 Score: 101
Period size: 32 Copynumber: 2.2 Consensus size: 33
107024 CAGTATCTCT
* * *
107034 AAAATAATATTTATATTTAATATTATTAAATTA
1 AAAATAATACTTATATTTAATATAATTAAAATA
*
107067 AAAATTATACTTAT-TTTAATATAATTAAAATA
1 AAAATAATACTTATATTTAATATAATTAAAATA
107099 AAAATAA
1 AAAATAA
107106 AAATATTTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 22 0.65
33 12 0.35
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (33 bp):
AAAATAATACTTATATTTAATATAATTAAAATA
Found at i:107535 original size:13 final size:14
Alignment explanation
Indices: 107517--107547 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
107507 TAAAAATTAT
107517 TTTTTAATAATA-A
1 TTTTTAATAATATA
107530 TTTTTAATAATATA
1 TTTTTAATAATATA
107544 TTTT
1 TTTT
107548 AAAAATTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
TTTTTAATAATATA
Found at i:107611 original size:32 final size:32
Alignment explanation
Indices: 107560--107651 Score: 95
Period size: 32 Copynumber: 3.0 Consensus size: 32
107550 AAATTTAAAT
**
107560 ATATTATTAAATTAAAAATAATATTTATTTTA
1 ATATTATTAAATTTTAAATAATATTTATTTTA
*
107592 ATATTATTAAATTTTAAATAA-AATTA-TTTA
1 ATATTATTAAATTTTAAATAATATTTATTTTA
* *
107622 TTATT-TT-ATTTTTAAA-AATATTTTATTTTA
1 ATATTATTAAATTTTAAATAATA-TTTATTTTA
107652 TAATGTTGAT
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
27 2 0.04
28 9 0.18
29 5 0.10
30 12 0.24
31 4 0.08
32 19 0.37
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (32 bp):
ATATTATTAAATTTTAAATAATATTTATTTTA
Found at i:107887 original size:32 final size:31
Alignment explanation
Indices: 107817--107938 Score: 85
Period size: 30 Copynumber: 3.9 Consensus size: 31
107807 TATTTTTTGT
*
107817 TTAATTCAT-TTTAAATTAAATATTAATAAA
1 TTAATTTATATTTAAATTAAATATTAATAAA
* *
107847 TTATTTTATCATTTAAATT-AAT-TTAATTTAA
1 TTAATTTAT-ATTTAAATTAAATATTAA-TAAA
*
107878 TTAAATTTATATTTATATAATAAA-A-TAAT-AA
1 TT-AATTTATATTTA-A-ATTAAATATTAATAAA
* * *
107909 TTTATTTAAATTTAATTATAAATATTAATA
1 TTAATTTATATTTAAAT-TAAATATTAATA
107939 TAAAATATTT
Statistics
Matches: 71, Mismatches: 9, Indels: 22
0.70 0.09 0.22
Matches are distributed among these distances:
29 5 0.07
30 22 0.31
31 21 0.30
32 16 0.23
33 5 0.07
34 2 0.03
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.51
Consensus pattern (31 bp):
TTAATTTATATTTAAATTAAATATTAATAAA
Found at i:108860 original size:22 final size:23
Alignment explanation
Indices: 108832--108878 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
108822 ATTGATACTA
108832 TAATATATAAT-TATAATTATGT
1 TAATATATAATATATAATTATGT
* *
108854 TAATATATAATATGTTATTATGT
1 TAATATATAATATATAATTATGT
108877 TA
1 TA
108879 TGATATTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (23 bp):
TAATATATAATATATAATTATGT
Found at i:110485 original size:20 final size:20
Alignment explanation
Indices: 110449--110487 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
110439 TTGTTCATAT
*
110449 TATTTTTAATATTTTTTAAA
1 TATTTTTAATATATTTTAAA
110469 TATTTTTAAGTA-ATTTTAA
1 TATTTTTAA-TATATTTTAA
110488 TTAATGACAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (20 bp):
TATTTTTAATATATTTTAAA
Found at i:110597 original size:23 final size:23
Alignment explanation
Indices: 110542--110617 Score: 73
Period size: 23 Copynumber: 3.3 Consensus size: 23
110532 ATGTTTACAT
* *
110542 ATAAATATAAACTTTAAATATTTA
1 ATAAATA-AAAATTTAAATATTAA
** *
110566 ATATTTAAAATTTTAAATATTAA
1 ATAAATAAAAATTTAAATATTAA
**
110589 ATAAATAAAAATAAAAATATTAA
1 ATAAATAAAAATTTAAATATTAA
110612 A-AAATA
1 ATAAATA
110618 TAATAAATTA
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
22 5 0.12
23 33 0.77
24 5 0.12
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (23 bp):
ATAAATAAAAATTTAAATATTAA
Done.