Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1495
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: 148766
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
File 1 of 2
Found at i:1328 original size:16 final size:15
Alignment explanation
Indices: 1303--1355 Score: 52
Period size: 17 Copynumber: 3.3 Consensus size: 15
1293 CTTTTCCCAA
1303 AAATAAAAAGAAAAT
1 AAATAAAAAGAAAAT
*
1318 AAATCAAAAAGAAAAAG
1 AAAT-AAAAAG-AAAAT
*
1335 ACAAAAATAAAGAAAAT
1 A-AATAA-AAAGAAAAT
1352 AAAT
1 AAAT
1356 TGGTGGTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
15 4 0.13
16 8 0.27
17 12 0.40
18 6 0.20
ACGTcount: A:0.77, C:0.04, G:0.08, T:0.11
Consensus pattern (15 bp):
AAATAAAAAGAAAAT
Found at i:6775 original size:18 final size:18
Alignment explanation
Indices: 6752--6786 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
6742 TTTTAAGATA
6752 TTCATTATTTATATTGTG
1 TTCATTATTTATATTGTG
*
6770 TTCATTTTTTATATTGT
1 TTCATTATTTATATTGT
6787 CTCTTATTTA
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:0.20, C:0.06, G:0.09, T:0.66
Consensus pattern (18 bp):
TTCATTATTTATATTGTG
Found at i:8774 original size:26 final size:25
Alignment explanation
Indices: 8723--8774 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
8713 TTTAACTTAT
* **
8723 TGATTTTTATTTTTTGATGGAAATA
1 TGATTTTTATTTATAAATGGAAATA
*
8748 TGATTTTTATTTATAAATTGAATATA
1 TGATTTTTATTTATAAATGGAA-ATA
8774 T
1 T
8775 CTTATTAATA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
25 18 0.82
26 4 0.18
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.56
Consensus pattern (25 bp):
TGATTTTTATTTATAAATGGAAATA
Found at i:11148 original size:36 final size:34
Alignment explanation
Indices: 11103--11174 Score: 83
Period size: 36 Copynumber: 2.1 Consensus size: 34
11093 AACCCAACCC
* * *
11103 AAATTATTTAT-TAATTAATAAAAATATTTTTATTT
1 AAATTATTTATAAAAATAA-AAAAATAATTTT-TTT
11138 AAATATATTTATAAAAATAAAAAAATAATTTTTTT
1 AAAT-TATTTATAAAAATAAAAAAATAATTTTTTT
11173 AA
1 AA
11175 CAATTAATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
35 9 0.28
36 18 0.56
37 5 0.16
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (34 bp):
AAATTATTTATAAAAATAAAAAAATAATTTTTTT
Found at i:12949 original size:25 final size:23
Alignment explanation
Indices: 12897--12949 Score: 54
Period size: 24 Copynumber: 2.3 Consensus size: 23
12887 AAAAAAATTA
*
12897 AAATA-TTATTATTTTTAAATAT
1 AAATATTTAATATTTTTAAATAT
**
12919 TCATATTTAATATATTTTAAAGTAT
1 AAATATTTAATAT-TTTTAAA-TAT
12944 AAATAT
1 AAATAT
12950 GAAGATATAA
Statistics
Matches: 23, Mismatches: 5, Indels: 3
0.74 0.16 0.10
Matches are distributed among these distances:
22 3 0.13
23 6 0.26
24 7 0.30
25 7 0.30
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (23 bp):
AAATATTTAATATTTTTAAATAT
Found at i:15484 original size:2 final size:2
Alignment explanation
Indices: 15472--15525 Score: 99
Period size: 2 Copynumber: 27.0 Consensus size: 2
15462 CCAACTTTGT
*
15472 TA TA AA 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
15514 TA TA TA TA TA TA
1 TA TA TA TA TA TA
15526 GTATTGAGAT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:16884 original size:25 final size:21
Alignment explanation
Indices: 16832--16873 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
16822 AAAAATCAAC
16832 ACCTTTAGTGATGCATGATAT
1 ACCTTTAGTGATGCATGATAT
16853 ACCTTTAGTGATGCATGATAT
1 ACCTTTAGTGATGCATGATAT
16874 GGATTCTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.14, G:0.19, T:0.38
Consensus pattern (21 bp):
ACCTTTAGTGATGCATGATAT
Found at i:17498 original size:13 final size:14
Alignment explanation
Indices: 17466--17502 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
17456 TAATATTAAT
17466 ATATTTTTATAATAA
1 ATATTTTTA-AATAA
17481 A-ATTTTTAAA-AA
1 ATATTTTTAAATAA
17493 ATATTTTTAA
1 ATATTTTTAA
17503 TTATTAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 3 0.14
13 10 0.48
14 7 0.33
15 1 0.05
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (14 bp):
ATATTTTTAAATAA
Found at i:20485 original size:18 final size:18
Alignment explanation
Indices: 20440--20487 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 18
20430 ATAACTTGTG
*
20440 AATATTTAT-GTTATTTA
1 AATATTTATATTTATTTA
* *
20457 AAT-TTTTTATTTTTTTA
1 AATATTTATATTTATTTA
20474 AATATTTATATTTA
1 AATATTTATATTTA
20488 AAATTTATTT
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
16 4 0.17
17 12 0.50
18 8 0.33
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (18 bp):
AATATTTATATTTATTTA
Found at i:20489 original size:14 final size:15
Alignment explanation
Indices: 20440--20509 Score: 54
Period size: 14 Copynumber: 4.5 Consensus size: 15
20430 ATAACTTGTG
20440 AATATTTATGTTATTTA
1 AATATTTA--TTATTTA
* *
20457 AATTTTTTATTTTTTTA
1 AA-TATTTA-TTATTTA
20474 AATATTTA-TATTTA
1 AATATTTATTATTTA
*
20488 AA-ATTTATTTTTTA
1 AATATTTATTATTTA
*
20502 TATATTTA
1 AATATTTA
20510 AATATAATTA
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
13 5 0.12
14 13 0.30
15 5 0.12
16 5 0.12
17 10 0.23
18 5 0.12
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.64
Consensus pattern (15 bp):
AATATTTATTATTTA
Found at i:20502 original size:36 final size:34
Alignment explanation
Indices: 20458--20545 Score: 97
Period size: 34 Copynumber: 2.5 Consensus size: 34
20448 TGTTATTTAA
* *
20458 ATTTTTTATTTTTTTAAATATTTATATT-TAAAATTT
1 ATTTTTTATATATTTAAATA--TA-ATTATAAAATTT
20494 ATTTTTTATATATTTAAATATAATTATAAAATTT
1 ATTTTTTATATATTTAAATATAATTATAAAATTT
* * *
20528 AATTTTTAAATATATAAA
1 ATTTTTTATATATTTAAA
20546 AAATAAAAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
33 3 0.07
34 25 0.54
36 18 0.39
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (34 bp):
ATTTTTTATATATTTAAATATAATTATAAAATTT
Found at i:21089 original size:2 final size:2
Alignment explanation
Indices: 21082--21107 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
21072 AATTTAAATT
21082 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
21108 GTTGTCCTGA
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:23371 original size:28 final size:27
Alignment explanation
Indices: 23306--23360 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
23296 TGGACATAAT
* *
23306 AAAAATATATAACATTAATATAATATA
1 AAAAATAAATAACATTAATATAAAATA
23333 AAAAATAAATAACATATAATATAAAATA
1 AAAAATAAATAACAT-TAATATAAAATA
23361 TTATATAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 14 0.56
28 11 0.44
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (27 bp):
AAAAATAAATAACATTAATATAAAATA
Found at i:23372 original size:23 final size:22
Alignment explanation
Indices: 23322--23373 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 22
23312 ATATAACATT
23322 AATATAATATAAAAAATAAATA
1 AATATAATATAAAAAATAAATA
* *
23344 ACATATAATATAAAATATTATATA
1 A-ATATAATATAAAA-AATAAATA
23368 AATATA
1 AATATA
23374 TAAATATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 1 0.04
23 18 0.69
24 7 0.27
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (22 bp):
AATATAATATAAAAAATAAATA
Found at i:23397 original size:19 final size:20
Alignment explanation
Indices: 23351--23399 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
23341 ATAACATATA
23351 ATATAAAATATTATATAAAT
1 ATATAAAATATTATATAAAT
23371 ATAT-AAATATT-T-TAATAT
1 ATATAAAATATTATATAA-AT
*
23389 ATCTAAAATAT
1 ATATAAAATAT
23400 GACTTATTAG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 3 0.12
18 6 0.23
19 13 0.50
20 4 0.15
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (20 bp):
ATATAAAATATTATATAAAT
Found at i:23938 original size:26 final size:26
Alignment explanation
Indices: 23883--23932 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
23873 ATATATATTT
*
23883 AAATATAATTAAATAAATTTTTTAAA
1 AAATATAATTAAATAAATTTTATAAA
*
23909 AAATA-AATTAAATATATATTTATA
1 AAATATAATTAAATAAAT-TTTATA
23933 TCAAATATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 11 0.52
26 10 0.48
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (26 bp):
AAATATAATTAAATAAATTTTATAAA
Found at i:23940 original size:17 final size:18
Alignment explanation
Indices: 23918--23957 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
23908 AAAATAAATT
23918 AAATATATATTTATA-TC
1 AAATATATATTTATACTC
* *
23935 AAATATTTATTTTTACTC
1 AAATATATATTTATACTC
23953 AAATA
1 AAATA
23958 ACATAAAATG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.47
Consensus pattern (18 bp):
AAATATATATTTATACTC
Found at i:24284 original size:12 final size:12
Alignment explanation
Indices: 24263--24299 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
24253 GATCAAAAAT
*
24263 AAATAAAATATA
1 AAATATAATATA
24275 AAATATAATAT-
1 AAATATAATATA
24286 -AATATAATATA
1 AAATATAATATA
24297 AAA
1 AAA
24300 AATTTTAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
10 10 0.45
12 12 0.55
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (12 bp):
AAATATAATATA
Found at i:24294 original size:22 final size:20
Alignment explanation
Indices: 24257--24315 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 20
24247 AGAAATGATC
*
24257 AAAAATA-AATAAAATATAA
1 AAAAATATAATATAATATAA
24276 AATATAATATAATATAATATAA
1 AA-A-AATATAATATAATATAA
* *
24298 AAAATTTTAATATAATAT
1 AAAAATATAATATAATAT
24316 TAATTTAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
19 2 0.06
20 14 0.41
21 5 0.15
22 13 0.38
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (20 bp):
AAAAATATAATATAATATAA
Found at i:24296 original size:15 final size:15
Alignment explanation
Indices: 24276--24325 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
24266 TAAAATATAA
*
24276 AATATAATATAATAT
1 AATATAATATAATTT
*
24291 AATATAA-AAAATTTT
1 AATATAATATAA-TTT
24306 AATATAATATTAATTT
1 AATATAATA-TAATTT
24322 AATA
1 AATA
24326 GACGTGACCT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
14 3 0.10
15 16 0.55
16 8 0.28
17 2 0.07
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
AATATAATATAATTT
Found at i:24324 original size:11 final size:11
Alignment explanation
Indices: 24276--24325 Score: 52
Period size: 10 Copynumber: 4.8 Consensus size: 11
24266 TAAAATATAA
24276 AATATAATA-T
1 AATATAATATT
24286 AATATAATA-T
1 AATATAATATT
* *
24296 AA-AAAATTTT
1 AATATAATATT
24306 AATATAATATT
1 AATATAATATT
*
24317 AATTTAATA
1 AATATAATA
24326 GACGTGACCT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
9 4 0.12
10 15 0.45
11 14 0.42
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
AATATAATATT
Found at i:24489 original size:13 final size:13
Alignment explanation
Indices: 24473--24535 Score: 65
Period size: 14 Copynumber: 4.6 Consensus size: 13
24463 AATATTTACT
24473 TAAAATATAAATA
1 TAAAATATAAATA
24486 TAAAATATAACATA
1 TAAAATATAA-ATA
*
24500 AAAAATAATACAA-A
1 TAAAAT-ATA-AATA
*
24514 TATAATATAAATA
1 TAAAATATAAATA
24527 TATAAATAT
1 TA-AAATAT
24536 TTTAAAATTT
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
12 2 0.05
13 16 0.39
14 18 0.44
15 4 0.10
16 1 0.02
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (13 bp):
TAAAATATAAATA
Found at i:24518 original size:23 final size:21
Alignment explanation
Indices: 24481--24532 Score: 61
Period size: 23 Copynumber: 2.4 Consensus size: 21
24471 CTTAAAATAT
24481 AAATATAAAATATAACATAAA
1 AAATATAAAATATAACATAAA
*
24502 AAATAATACAAATATAATAT-AA
1 AAAT-ATA-AAATATAACATAAA
*
24524 ATATATAAA
1 AAATATAAA
24533 TATTTTAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
20 2 0.07
21 7 0.26
22 8 0.30
23 10 0.37
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (21 bp):
AAATATAAAATATAACATAAA
Found at i:24535 original size:6 final size:6
Alignment explanation
Indices: 24475--24528 Score: 51
Period size: 6 Copynumber: 9.2 Consensus size: 6
24465 TATTTACTTA
* *
24475 AAATAT AAATAT AAAATAT AACATA- AAAAAT -AATAC AAATAT -AATAT
1 AAATAT AAATAT -AAATAT AA-ATAT AAATAT AAATAT AAATAT AAATAT
24522 AAATAT A
1 AAATAT A
24529 TAAATATTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
5 10 0.26
6 20 0.51
7 9 0.23
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.28
Consensus pattern (6 bp):
AAATAT
Found at i:25051 original size:2 final size:2
Alignment explanation
Indices: 25044--25072 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
25034 GAGCATAAGC
25044 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 T
25073 TTAAGATTTA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:25519 original size:13 final size:13
Alignment explanation
Indices: 25503--25527 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25493 ATATAAAAAA
25503 TTAAATATATATG
1 TTAAATATATATG
25516 TTAAATATATAT
1 TTAAATATATAT
25528 TTGTATATAA
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:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (13 bp):
TTAAATATATATG
Found at i:25692 original size:15 final size:15
Alignment explanation
Indices: 25660--25690 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
25650 ACGATTTAAT
25660 AATTTAAATAATAAA
1 AATTTAAATAATAAA
25675 AATTTAAA-AATAAA
1 AATTTAAATAATAAA
25689 AA
1 AA
25691 ATAATAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (15 bp):
AATTTAAATAATAAA
Found at i:25844 original size:14 final size:14
Alignment explanation
Indices: 25825--25857 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
25815 TTGTAATAAA
25825 TATTATCAATTATC
1 TATTATCAATTATC
25839 TATTATCAATTATC
1 TATTATCAATTATC
25853 -ATTAT
1 TATTAT
25858 AATAAATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 5 0.26
14 14 0.74
ACGTcount: A:0.36, C:0.12, G:0.00, T:0.52
Consensus pattern (14 bp):
TATTATCAATTATC
Found at i:27107 original size:97 final size:97
Alignment explanation
Indices: 26998--27175 Score: 243
Period size: 97 Copynumber: 1.8 Consensus size: 97
26988 AAAACAGAGG
* * **
26998 AAAGGGATTTTCTTGTTATTTTCGAAGACAAAATCCTTAAAGAAATCAAAATG-AAGAAACCCCA
1 AAAGGGATTTTCTTCTTATTTTCAAAGACAAAATCCAGAAA-AAATCAAAATGCAAG-AACCCCA
27062 TGAAAG-TTTGAAGCAAACAGCTTAAGAAAAAAA
64 TGAAAGTTTTGAAGCAAACAGCTTAAGAAAAAAA
* * * * *
27095 AAAGGTATTTTCTTCTTGTTTTCAAAGACAAAATGCAGACAAAATCAAAATGCAAGAACTCCATG
1 AAAGGGATTTTCTTCTTATTTTCAAAGACAAAATCCAGAAAAAATCAAAATGCAAGAACCCCATG
27160 AAAGTTTTGAAGCAAA
66 AAAGTTTTGAAGCAAA
27176 GAGATTTTTT
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
96 23 0.33
97 47 0.67
ACGTcount: A:0.46, C:0.14, G:0.15, T:0.25
Consensus pattern (97 bp):
AAAGGGATTTTCTTCTTATTTTCAAAGACAAAATCCAGAAAAAATCAAAATGCAAGAACCCCATG
AAAGTTTTGAAGCAAACAGCTTAAGAAAAAAA
Found at i:27345 original size:3 final size:3
Alignment explanation
Indices: 27337--27362 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
27327 AGAGAAAAGG
27337 AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AA
27363 TGGAAGAGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:27927 original size:13 final size:13
Alignment explanation
Indices: 27869--27929 Score: 63
Period size: 13 Copynumber: 4.8 Consensus size: 13
27859 GGTTATAAAT
27869 ATAATAAATATT-
1 ATAATAAATATTA
* *
27881 ATTATAATTAATTA
1 ATAATAAAT-ATTA
27895 A-AATAAATATTA
1 ATAATAAATATTA
**
27907 ATTTTAAATATTA
1 ATAATAAATATTA
27920 ATAATAAATA
1 ATAATAAATA
27930 AATTAAAATT
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
12 12 0.32
13 25 0.66
14 1 0.03
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
ATAATAAATATTA
Found at i:28310 original size:33 final size:33
Alignment explanation
Indices: 28242--28316 Score: 82
Period size: 33 Copynumber: 2.3 Consensus size: 33
28232 GTACATATAT
* ** *
28242 ATTATTAT-AATATTAAATAAAAAATTATTATA
1 ATTATAATAAATATTAAATAAAAAATTAAAAAA
28274 ATTATAATAAATATT-AATAAAAAAATTAAAAAA
1 ATTATAATAAATATTAAAT-AAAAAATTAAAAAA
*
28307 ATTAAAATAA
1 ATTATAATAA
28317 TAATATTATT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
32 10 0.28
33 26 0.72
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (33 bp):
ATTATAATAAATATTAAATAAAAAATTAAAAAA
Found at i:28502 original size:9 final size:9
Alignment explanation
Indices: 28476--28512 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
28466 TATTTTATAA
28476 AATT-AATT
1 AATTAAATT
*
28484 -ATTTAATT
1 AATTAAATT
28492 AATTAAATT
1 AATTAAATT
28501 AATTAAATT
1 AATTAAATT
28510 AAT
1 AAT
28513 AATAAAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
7 3 0.12
8 4 0.15
9 19 0.73
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (9 bp):
AATTAAATT
Found at i:29188 original size:16 final size:17
Alignment explanation
Indices: 29169--29200 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
29159 CAAATTGAGA
29169 TAAA-TTTAAATTATTT
1 TAAATTTTAAATTATTT
29185 TAAATTTTAAATTATT
1 TAAATTTTAAATTATT
29201 AATGAGTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TAAATTTTAAATTATTT
Found at i:31909 original size:3 final size:3
Alignment explanation
Indices: 31901--31942 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
31891 ATAAATAGTT
31901 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
31943 CTATTATTGG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:33250 original size:21 final size:21
Alignment explanation
Indices: 33226--33266 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
33216 AAAACAAGAG
33226 ATTTTTAAAAATAAAATAAAC
1 ATTTTTAAAAATAAAATAAAC
*
33247 ATTTTTAAAGATAAAATAAA
1 ATTTTTAAAAATAAAATAAA
33267 AAATGATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.34
Consensus pattern (21 bp):
ATTTTTAAAAATAAAATAAAC
Found at i:34460 original size:22 final size:21
Alignment explanation
Indices: 34434--34474 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
34424 ATTAAAAATT
34434 TATTTTCAT-ATTAATATTTATA
1 TATTTT-ATAATTAAT-TTTATA
34456 TATTTTATAATTAATTTTA
1 TATTTTATAATTAATTTTA
34475 AATAAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (21 bp):
TATTTTATAATTAATTTTATA
Found at i:34485 original size:35 final size:35
Alignment explanation
Indices: 34446--34512 Score: 84
Period size: 35 Copynumber: 1.9 Consensus size: 35
34436 TTTTCATATT
*
34446 AATATTTATATATT-TTATA-ATTAATTTTAAATAAA
1 AATATTTATA-ATTATTAAATATTAA-TTTAAATAAA
*
34481 AATATTTTTAATTATTAAATATTAATTTAAAT
1 AATATTTATAATTATTAAATATTAATTTAAAT
34513 CAAATTAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
34 3 0.11
35 20 0.71
36 5 0.18
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (35 bp):
AATATTTATAATTATTAAATATTAATTTAAATAAA
Found at i:34858 original size:12 final size:12
Alignment explanation
Indices: 34836--34864 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
34826 ATTATTTTTA
34836 TAAAT-ATCATG
1 TAAATAATCATG
34847 TAAATAATCATG
1 TAAATAATCATG
34859 TAAATA
1 TAAATA
34865 CTAATATTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.52, C:0.07, G:0.07, T:0.34
Consensus pattern (12 bp):
TAAATAATCATG
Found at i:36590 original size:2 final size:2
Alignment explanation
Indices: 36578--36643 Score: 80
Period size: 2 Copynumber: 33.5 Consensus size: 2
36568 CATGCTTATC
* * * *
36578 TA TA AA TA TA TA TA TA TA TA TA TT TC TA -A TA TA TA TC TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
36619 TA CA 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
36644 TTTTTTTTTT
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
1 1 0.02
2 53 0.98
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:37055 original size:11 final size:11
Alignment explanation
Indices: 37041--37082 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
37031 ACATATTTTT
37041 ATATTTATATC
1 ATATTTATATC
* *
37052 ATATTTATTTT
1 ATATTTATATC
*
37063 ATTTTTATATC
1 ATATTTATATC
37074 ATA-TTATAT
1 ATATTTATAT
37083 TTTAATTATT
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
10 6 0.24
11 19 0.76
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (11 bp):
ATATTTATATC
Found at i:37062 original size:22 final size:23
Alignment explanation
Indices: 37037--37102 Score: 89
Period size: 22 Copynumber: 2.8 Consensus size: 23
37027 TTTGACATAT
37037 TTTTATATTTATATCATATT-TA
1 TTTTATATTTATATCATATTATA
*
37059 TTTTATTTTTATATCATATTATA
1 TTTTATATTTATATCATATTATA
*
37082 TTTTAATTATTTATATTATAT
1 TTTT-A-TATTTATATCATAT
37103 AATAGTGTCT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
22 19 0.50
23 6 0.16
24 1 0.03
25 12 0.32
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (23 bp):
TTTTATATTTATATCATATTATA
Found at i:37091 original size:27 final size:28
Alignment explanation
Indices: 37034--37093 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 28
37024 AATTTTGACA
* *
37034 TATTTTTATATTTATATCATATTTATTT
1 TATTTTTATATTCATATCATATTTATAT
*
37062 TATTTTTATA-TCATATTATATTT-TAAT
1 TATTTTTATATTCATATCATATTTAT-AT
37089 TATTT
1 TATTT
37094 ATATTATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 1 0.04
27 17 0.61
28 10 0.36
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (28 bp):
TATTTTTATATTCATATCATATTTATAT
Found at i:37380 original size:32 final size:33
Alignment explanation
Indices: 37338--37412 Score: 98
Period size: 33 Copynumber: 2.3 Consensus size: 33
37328 TATTATATAA
*
37338 AAATCTATTTTAATATG-TTAATAATTTGTATT
1 AAATATATTTTAATATGTTTAATAATTTGTATT
* *
37370 AAATATATTTTAATATGTTTATTTATTTGTATT
1 AAATATATTTTAATATGTTTAATAATTTGTATT
* *
37403 ATATTTATTT
1 AAATATATTT
37413 ATTTTTAAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
32 16 0.43
33 21 0.57
ACGTcount: A:0.35, C:0.01, G:0.05, T:0.59
Consensus pattern (33 bp):
AAATATATTTTAATATGTTTAATAATTTGTATT
Found at i:37502 original size:38 final size:38
Alignment explanation
Indices: 37459--37543 Score: 145
Period size: 38 Copynumber: 2.3 Consensus size: 38
37449 TTTATTTATA
*
37459 TTATATAATTTGATTATATATGAAATTATTGTTATAAT
1 TTATATAATTTGATTATATATGAAATTATTGTTACAAT
*
37497 TTATATAATTTGATTATGTATGAAATTATTGTTACAAT
1 TTATATAATTTGATTATATATGAAATTATTGTTACAAT
37535 TTA-ATAATT
1 TTATATAATT
37544 CTTATTCAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
37 6 0.13
38 39 0.87
ACGTcount: A:0.39, C:0.01, G:0.08, T:0.52
Consensus pattern (38 bp):
TTATATAATTTGATTATATATGAAATTATTGTTACAAT
Found at i:38013 original size:29 final size:29
Alignment explanation
Indices: 37979--38037 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 29
37969 AAAATAATTT
*
37979 AAATTTA-ATTAAA-TTAATTCGAATTATAA
1 AAATTTATATAAAATTTAATTC-AATT-TAA
38008 AAATTTATATAAAATTTAATTCAATTTAA
1 AAATTTATATAAAATTTAATTCAATTTAA
38037 A
1 A
38038 CTAAAAATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
29 11 0.41
30 9 0.33
31 7 0.26
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (29 bp):
AAATTTATATAAAATTTAATTCAATTTAA
Found at i:38348 original size:22 final size:22
Alignment explanation
Indices: 38323--38365 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
38313 AAAAAAATTA
38323 TTTTAT-ATTAATATTTAAATAT
1 TTTTATAATTAA-ATTTAAATAT
38345 TTTTATAATTAAATTTAAATA
1 TTTTATAATTAAATTTAAATA
38366 AAAATATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
TTTTATAATTAAATTTAAATAT
Found at i:38398 original size:18 final size:18
Alignment explanation
Indices: 38362--38398 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
38352 ATTAAATTTA
* *
38362 AATAAAAATATTTTTATT
1 AATAAAAATAATTTAATT
38380 AATAAAAATAATTTAATT
1 AATAAAAATAATTTAATT
38398 A
1 A
38399 GATTAGACTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
AATAAAAATAATTTAATT
Found at i:38889 original size:2 final size:2
Alignment explanation
Indices: 38882--38931 Score: 73
Period size: 2 Copynumber: 25.0 Consensus size: 2
38872 CCAAAACATG
* *
38882 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
38924 GT AT AT AT
1 AT AT AT AT
38932 TATTTACACA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (2 bp):
AT
Found at i:39084 original size:11 final size:12
Alignment explanation
Indices: 39059--39088 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
39049 CTCCAATTTT
39059 TAATTTTTTATA
1 TAATTTTTTATA
39071 TAATTTTTTA-A
1 TAATTTTTTATA
39082 TAATTTT
1 TAATTTT
39089 AAATTGCATC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 8 0.44
12 10 0.56
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
TAATTTTTTATA
Found at i:39277 original size:17 final size:14
Alignment explanation
Indices: 39223--39279 Score: 53
Period size: 14 Copynumber: 3.9 Consensus size: 14
39213 TATTAAATTA
* *
39223 ATAATTTTTTATTT
1 ATAATTTTTAATAT
39237 A-AATTTTTAATAT
1 ATAATTTTTAATAT
*
39250 ATAAATTTTAATAT
1 ATAATTTTTAATAT
39264 GAACTAATTTTTAATA
1 --A-TAATTTTTAATA
39280 ATTTAAATAC
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
13 11 0.31
14 12 0.34
16 1 0.03
17 11 0.31
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (14 bp):
ATAATTTTTAATAT
Found at i:39458 original size:21 final size:23
Alignment explanation
Indices: 39432--39473 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
39422 ACTATTTGAA
*
39432 TAATAA-AAA-ATTATTTAAATG
1 TAATAACAAATATTATATAAATG
39453 TAATAACAAATATTATATAAA
1 TAATAACAAATATTATATAAA
39474 ATTTTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 3 0.17
23 9 0.50
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (23 bp):
TAATAACAAATATTATATAAATG
Found at i:40105 original size:16 final size:15
Alignment explanation
Indices: 40084--40129 Score: 65
Period size: 16 Copynumber: 2.9 Consensus size: 15
40074 TTAATATAAT
40084 TATTTATAAAATTTAA
1 TATTTA-AAAATTTAA
40100 TATTTAATAAATTTAA
1 TATTTAA-AAATTTAA
*
40116 AATTTAAAAATTTA
1 TATTTAAAAATTTA
40130 CGATTATTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
15 8 0.29
16 20 0.71
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
TATTTAAAAATTTAA
Found at i:42191 original size:14 final size:14
Alignment explanation
Indices: 42172--42221 Score: 64
Period size: 14 Copynumber: 3.5 Consensus size: 14
42162 TTAATATATT
*
42172 TTAAATTAAAAAAA
1 TTAAATTAAATAAA
* *
42186 TTAAATTTAATGAA
1 TTAAATTAAATAAA
42200 TTAAATTTAAATAAA
1 TTAAA-TTAAATAAA
42215 TTAAATT
1 TTAAATT
42222 TTTTATTATT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
14 18 0.60
15 12 0.40
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (14 bp):
TTAAATTAAATAAA
Found at i:42806 original size:18 final size:19
Alignment explanation
Indices: 42783--42820 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
42773 TTTTACTAAA
42783 ATATTAAAAATTAT-TTTT
1 ATATTAAAAATTATATTTT
*
42801 ATATTAATAATTATATTTT
1 ATATTAAAAATTATATTTT
42820 A
1 A
42821 AAAATATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
ATATTAAAAATTATATTTT
Found at i:42849 original size:18 final size:20
Alignment explanation
Indices: 42818--42855 Score: 62
Period size: 18 Copynumber: 2.0 Consensus size: 20
42808 TAATTATATT
42818 TTAAAAATATATTATTTTAA
1 TTAAAAATATATTATTTTAA
42838 TTAAAAA-A-ATTATTTTAA
1 TTAAAAATATATTATTTTAA
42856 ACCAAATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 10 0.56
19 1 0.06
20 7 0.39
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
TTAAAAATATATTATTTTAA
Found at i:42924 original size:20 final size:23
Alignment explanation
Indices: 42883--42927 Score: 69
Period size: 20 Copynumber: 2.1 Consensus size: 23
42873 CAAAATATGG
42883 AAATTAAAATATAAATCTTATCA
1 AAATTAAAATATAAATCTTATCA
42906 AAATT-AAAT-TAAA-CTTATCA
1 AAATTAAAATATAAATCTTATCA
42926 AA
1 AA
42928 TGTAATTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 9 0.41
21 4 0.18
22 4 0.18
23 5 0.23
ACGTcount: A:0.58, C:0.09, G:0.00, T:0.33
Consensus pattern (23 bp):
AAATTAAAATATAAATCTTATCA
Found at i:43193 original size:2 final size:2
Alignment explanation
Indices: 43155--43215 Score: 64
Period size: 2 Copynumber: 34.0 Consensus size: 2
43145 AACTATATTA
*
43155 AT AT AT AA AT AT A- AT AT A- AT AT A- AT AT A- AT A- 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
43192 AT AT AT AT AT AT AT AT -T A- AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
43216 TTAGTTTAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
1 7 0.14
2 43 0.86
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:43215 original size:10 final size:10
Alignment explanation
Indices: 43148--43215 Score: 53
Period size: 10 Copynumber: 7.3 Consensus size: 10
43138 CATAGTTAAC
43148 TATATTAATA
1 TATATTAATA
43158 TATA--AATA
1 TATATTAATA
43166 TA-ATATAATA
1 TATAT-TAATA
43176 TA-ATATAATA
1 TATAT-TAATA
43186 -ATA-T-ATA
1 TATATTAATA
43193 TATA-TATATA
1 TATATTA-ATA
43203 TATATTAATA
1 TATATTAATA
43213 TAT
1 TAT
43216 TTAGTTTAAA
Statistics
Matches: 50, Mismatches: 0, Indels: 16
0.76 0.00 0.24
Matches are distributed among these distances:
7 4 0.08
8 11 0.22
9 1 0.02
10 32 0.64
11 2 0.04
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (10 bp):
TATATTAATA
Found at i:43216 original size:8 final size:8
Alignment explanation
Indices: 43143--43216 Score: 59
Period size: 8 Copynumber: 9.2 Consensus size: 8
43133 AACAACATAG
43143 TTAACTATA
1 TTAA-TATA
43152 TTAATATA
1 TTAATATA
43160 -TAA-ATA
1 TTAATATA
43166 -TAATATAA
1 TTAATAT-A
43174 TATAATATA
1 T-TAATATA
*
43183 ATAATATA
1 TTAATATA
43191 -T-ATATA
1 TTAATATA
43197 TATATATATA
1 T-TA-ATATA
43207 TTAATATA
1 TTAATATA
43215 TT
1 TT
43217 TAGTTTAAAT
Statistics
Matches: 56, Mismatches: 1, Indels: 17
0.76 0.01 0.23
Matches are distributed among these distances:
6 11 0.20
7 6 0.11
8 20 0.36
9 7 0.12
10 12 0.21
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (8 bp):
TTAATATA
Found at i:43439 original size:36 final size:36
Alignment explanation
Indices: 43361--43439 Score: 90
Period size: 36 Copynumber: 2.2 Consensus size: 36
43351 TTTGAATTAT
** *
43361 TATTTAT-AAAATAAAATATTATTTTTATTTAAATT
1 TATTTATAAAAATAAAATATTATTAATATTTAAATA
* *
43396 TAATTATAAAAATATAAATATT-TTAATATTTTAATA
1 TATTTATAAAAATA-AAATATTATTAATATTTAAATA
43432 TATTTATA
1 TATTTATA
43440 CAATAAATTT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
35 6 0.17
36 23 0.64
37 7 0.19
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (36 bp):
TATTTATAAAAATAAAATATTATTAATATTTAAATA
Found at i:43736 original size:26 final size:26
Alignment explanation
Indices: 43691--43742 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
43681 TAGTGTACGA
* *
43691 TTATGATATATTTAATAATTTATATT
1 TTATGATATATTTAACAATTAATATT
43717 TTAT-ATATATTTATACAATTAATATT
1 TTATGATATATTTA-ACAATTAATATT
43743 AAAAAAATGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 9 0.39
26 14 0.61
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (26 bp):
TTATGATATATTTAACAATTAATATT
Found at i:43967 original size:35 final size:38
Alignment explanation
Indices: 43926--44010 Score: 90
Period size: 36 Copynumber: 2.3 Consensus size: 38
43916 TTATTGTTTA
43926 AAATAATATTAAA-AAT-TAAAAATATTTTT-TAATAT
1 AAATAATATTAAATAATATAAAAATATTTTTATAATAT
* * *
43961 TAAT-A-ATTAAATTTATATAAAAATATTTTTATTATAT
1 AAATAATATTAAA-TAATATAAAAATATTTTTATAATAT
43998 AAATAATAATTAA
1 AAATAAT-ATTAA
44011 TAAAATTTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
33 6 0.15
34 1 0.03
35 5 0.13
36 13 0.33
37 8 0.21
38 1 0.03
40 5 0.13
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (38 bp):
AAATAATATTAAATAATATAAAAATATTTTTATAATAT
Found at i:44285 original size:18 final size:19
Alignment explanation
Indices: 44262--44297 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
44252 TATAAATATG
44262 ATATATAA-AAAATATAAA
1 ATATATAACAAAATATAAA
*
44280 ATATATAACACAATATAA
1 ATATATAACAAAATATAA
44298 CATGAATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.28
Consensus pattern (19 bp):
ATATATAACAAAATATAAA
Found at i:44752 original size:18 final size:17
Alignment explanation
Indices: 44733--44777 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
44723 TAAATTGCTA
*
44733 AAATTTAATATTAAATT
1 AAATTTAATAATAAATT
44750 AAATTATAATAATAAATTT
1 AAATT-TAATAATAAA-TT
*
44769 ATATTTAAT
1 AAATTTAAT
44778 CTAAAAAGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 5 0.21
18 13 0.54
19 6 0.25
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
AAATTTAATAATAAATT
Found at i:45179 original size:22 final size:23
Alignment explanation
Indices: 45136--45179 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
45126 TAACTATTAA
*
45136 TTTAATATATATTTATATTATAT
1 TTTAATATATATTTATAATATAT
45159 TTTAAT-TAT-TTTAATAATATA
1 TTTAATATATATTT-ATAATATA
45180 ATATTATGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 3 0.16
22 10 0.53
23 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (23 bp):
TTTAATATATATTTATAATATAT
Found at i:45216 original size:55 final size:55
Alignment explanation
Indices: 45156--45267 Score: 206
Period size: 55 Copynumber: 2.0 Consensus size: 55
45146 ATTTATATTA
*
45156 TATTTTAATTATTTTAATAATATAATATTATGTAATCCTATATAAAATTATCAAG
1 TATTTTAATTATTTTAATAATATAATATTATGTAATCCTATACAAAATTATCAAG
*
45211 TATTTTAATTATTTTAATAATATAATATTATGTAATCCTATACAAAATTATCGAG
1 TATTTTAATTATTTTAATAATATAATATTATGTAATCCTATACAAAATTATCAAG
45266 TA
1 TA
45268 CTATCTCTTC
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.46
Consensus pattern (55 bp):
TATTTTAATTATTTTAATAATATAATATTATGTAATCCTATACAAAATTATCAAG
Found at i:51968 original size:21 final size:22
Alignment explanation
Indices: 51938--51979 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
51928 TTTCATTGAC
51938 AAAAAGAGAAAAAATTAAAAAT
1 AAAAAGAGAAAAAATTAAAAAT
*
51960 AAAAA-AGAAAAAGTTAAAAA
1 AAAAAGAGAAAAAATTAAAAA
51980 CATGTGGGCC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.79, C:0.00, G:0.10, T:0.12
Consensus pattern (22 bp):
AAAAAGAGAAAAAATTAAAAAT
Found at i:52264 original size:20 final size:20
Alignment explanation
Indices: 52220--52289 Score: 65
Period size: 20 Copynumber: 3.4 Consensus size: 20
52210 AGATTTAAAC
52220 ATATTTAATA-ATT-TATTTT
1 ATATTTAATATATTAT-TTTT
52239 ATTATTTAATATATTATTTTT
1 A-TATTTAATATATTATTTTT
52260 ATA-TTAATATTTATATATTTTT
1 ATATTTAATA--TAT-TATTTTT
*
52282 ATAATTAA
1 ATATTTAA
52290 AATTAAAAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
19 7 0.16
20 11 0.25
21 11 0.25
22 11 0.25
23 4 0.09
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
ATATTTAATATATTATTTTT
Found at i:52302 original size:23 final size:22
Alignment explanation
Indices: 52254--52303 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
52244 TTAATATATT
* * * *
52254 ATTTTTATATTAATATTTATAT
1 ATTTTTATATTAAAATTAAAAA
52276 ATTTTTATAATTAAAATTAAAAA
1 ATTTTTAT-ATTAAAATTAAAAA
52299 ATTTT
1 ATTTT
52304 ATTTTTATTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
22 8 0.35
23 15 0.65
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
ATTTTTATATTAAAATTAAAAA
Found at i:53634 original size:22 final size:22
Alignment explanation
Indices: 53604--53659 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
53594 TTTTATTATT
53604 TAAAA-TATATTAAAATATTAAA
1 TAAAATTATATTAAAAT-TTAAA
53626 -AAAATTATAATT-AAATTTAAA
1 TAAAATTAT-ATTAAAATTTAAA
*
53647 TAAAATTTTATTA
1 TAAAATTATATTA
53660 TTTAAATAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
21 12 0.41
22 14 0.48
23 3 0.10
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
TAAAATTATATTAAAATTTAAA
Found at i:56006 original size:2 final size:2
Alignment explanation
Indices: 55999--56048 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
55989 TTGCATATTT
55999 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
56041 TA TA TA TA
1 TA TA TA TA
56049 AAGAAAGACC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:56316 original size:32 final size:33
Alignment explanation
Indices: 56279--56340 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 33
56269 ATATTTAATA
* *
56279 TAAATTTCATTATATTAATA-ATTTATATTATG
1 TAAATTTCAATATAATAATATATTTATATTATG
* *
56311 TAAATTTTAATATAATCATATATTTATATT
1 TAAATTTCAATATAATAATATATTTATATT
56341 GTATTTATGT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
32 16 0.64
33 9 0.36
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.53
Consensus pattern (33 bp):
TAAATTTCAATATAATAATATATTTATATTATG
Found at i:56359 original size:22 final size:22
Alignment explanation
Indices: 56333--56397 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 22
56323 TAATCATATA
*
56333 TTTATATTGTATTTATGTTATT
1 TTTATATTATATTTATGTTATT
* *
56355 TTTATTTTATAATTT-TTTTATT
1 TTTATATTAT-ATTTATGTTATT
56377 TTTATGA-TATATTTATGTTAT
1 TTTAT-ATTATATTTATGTTAT
56398 ATAATTATAT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
21 4 0.11
22 27 0.77
23 4 0.11
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (22 bp):
TTTATATTATATTTATGTTATT
Found at i:56398 original size:11 final size:11
Alignment explanation
Indices: 56329--56399 Score: 63
Period size: 11 Copynumber: 6.5 Consensus size: 11
56319 AATATAATCA
*
56329 TATATTTATAT
1 TATATTTATGT
*
56340 TGTATTTATGT
1 TATATTTATGT
* *
56351 TATTTTTATTT
1 TATATTTATGT
*
56362 TATAATTT-TTT
1 TAT-ATTTATGT
* *
56373 TATTTTTATGA
1 TATATTTATGT
56384 TATATTTATGT
1 TATATTTATGT
56395 TATAT
1 TATAT
56400 AATTATATTT
Statistics
Matches: 47, Mismatches: 11, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
10 3 0.06
11 41 0.87
12 3 0.06
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.68
Consensus pattern (11 bp):
TATATTTATGT
Found at i:56743 original size:26 final size:26
Alignment explanation
Indices: 56692--56744 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 26
56682 GTTATATTTA
*
56692 ATATATTTTTAAATATAAGTATAAAT
1 ATATATTTTTAAATATAAGTAAAAAT
56718 ATATAATTTTATAAATAT-A-TAAAAAT
1 ATAT-ATTTT-TAAATATAAGTAAAAAT
56744 A
1 A
56745 AAAAAATTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 11 0.46
27 6 0.25
28 7 0.29
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (26 bp):
ATATATTTTTAAATATAAGTAAAAAT
Found at i:58251 original size:36 final size:37
Alignment explanation
Indices: 58193--58263 Score: 90
Period size: 36 Copynumber: 1.9 Consensus size: 37
58183 ATAGTGATAC
* *
58193 TAATTAAAATGTTGATTTTAAAAGATAAAAATATTTT
1 TAATTAAAATGTTAATTATAAAAGATAAAAATATTTT
* * *
58230 TAATTTAAAT-TTAATTATAAAATATATAAATATT
1 TAATTAAAATGTTAATTATAAAAGATAAAAATATT
58264 AATATACAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
36 20 0.69
37 9 0.31
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (37 bp):
TAATTAAAATGTTAATTATAAAAGATAAAAATATTTT
Found at i:58266 original size:22 final size:21
Alignment explanation
Indices: 58235--58276 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
58225 ATTTTTAATT
58235 TAAATTTAATTATA-AAATATA
1 TAAATTTAA-TATACAAATATA
58256 TAAATATTAATATACAAATAT
1 TAAAT-TTAATATACAAATAT
58277 TTTTTAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (21 bp):
TAAATTTAATATACAAATATA
Found at i:58929 original size:22 final size:23
Alignment explanation
Indices: 58900--58944 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
58890 TAAGATATAT
58900 ATTTATTAATAA-A-ATTAAAAA
1 ATTTATTAATAATATATTAAAAA
*
58921 ATTTCATTATTAATATATTAAAAA
1 ATTT-ATTAATAATATATTAAAAA
58945 TCAACTCTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 4 0.20
22 7 0.35
23 1 0.05
24 8 0.40
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (23 bp):
ATTTATTAATAATATATTAAAAA
Found at i:59165 original size:13 final size:13
Alignment explanation
Indices: 59147--59175 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
59137 AGATAACTTT
59147 TTTTTTAATTTTA
1 TTTTTTAATTTTA
59160 TTTTTTAATTTTA
1 TTTTTTAATTTTA
59173 TTT
1 TTT
59176 GTCAAAAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTTTTAATTTTA
Found at i:59550 original size:23 final size:21
Alignment explanation
Indices: 59519--59565 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 21
59509 TGAAAAATAA
59519 TTTTTAAAAAATTAAATTTATT
1 TTTTTAAAAAATTAAATTT-TT
* *
59541 TTTTTGAAAAATTTATATTTTT
1 TTTTT-AAAAAATTAAATTTTT
59563 TTT
1 TTT
59566 GTTATTTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 10 0.45
23 12 0.55
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (21 bp):
TTTTTAAAAAATTAAATTTTT
Found at i:60858 original size:21 final size:21
Alignment explanation
Indices: 60832--60878 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
60822 TTTTTATTTT
*
60832 TTATATATTATGTAAT-TTATA
1 TTATATA-TATATAATATTATA
60853 TTATATATATATAATATTATA
1 TTATATATATATAATATTATA
*
60874 GTATA
1 TTATA
60879 AACATAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 7 0.30
21 16 0.70
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (21 bp):
TTATATATATATAATATTATA
Found at i:60940 original size:16 final size:17
Alignment explanation
Indices: 60913--60948 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
60903 ATTTATGTTT
60913 TAAAATTTATTAAAAAA
1 TAAAATTTATTAAAAAA
60930 TAAAA-TTATTAAAAAA
1 TAAAATTTATTAAAAAA
60946 TAA
1 TAA
60949 TATATATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
TAAAATTTATTAAAAAA
Found at i:60958 original size:19 final size:18
Alignment explanation
Indices: 60919--60970 Score: 63
Period size: 16 Copynumber: 2.9 Consensus size: 18
60909 GTTTTAAAAT
60919 TTATTAAAAAATAA-A-A
1 TTATTAAAAAATAATATA
60935 TTATTAAAAAATAATATA
1 TTATTAAAAAATAATATA
**
60953 TATATTTTAAAATAATAT
1 T-TATTAAAAAATAATAT
60971 GAACATATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
16 14 0.45
17 1 0.03
18 2 0.06
19 14 0.45
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
TTATTAAAAAATAATATA
Found at i:60978 original size:21 final size:19
Alignment explanation
Indices: 60942--60980 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
60932 AAATTATTAA
*
60942 AAAATAATATATATATTTT
1 AAAATAATATACATATTTT
60961 AAAATAATATGAACATATTT
1 AAAATAATAT--ACATATTT
60981 AAACTATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 10 0.59
21 7 0.41
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (19 bp):
AAAATAATATACATATTTT
Found at i:63111 original size:22 final size:20
Alignment explanation
Indices: 63078--63133 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 20
63068 TTTATTGATA
63078 ATAAAAATTTAATAATATAAT
1 ATAAAAA-TTAATAATATAAT
* * *
63099 TTGATAAAATTAATGATATTAT
1 AT-A-AAAATTAATAATATAAT
63121 ATAAAAATTAATA
1 ATAAAAATTAATA
63134 TTAAAGTTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
20 9 0.32
21 2 0.07
22 13 0.46
23 4 0.14
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (20 bp):
ATAAAAATTAATAATATAAT
Found at i:63682 original size:19 final size:19
Alignment explanation
Indices: 63596--63682 Score: 51
Period size: 19 Copynumber: 4.8 Consensus size: 19
63586 GTTCGAGTTG
*
63596 AATTAATA-TGTAATAATAA
1 AATTAATATTTTAAT-ATAA
* * *
63615 AAATAATATTTTTATTTAA
1 AATTAATATTTTAATATAA
* *
63634 AATT-A-ATTATAAAAT-A
1 AATTAATATTTTAATATAA
* *
63650 TA-TAA-ATATTAATATAA
1 AATTAATATTTTAATATAA
63667 AATTAATATTTTAATA
1 AATTAATATTTTAATA
63683 ATATAATGGG
Statistics
Matches: 48, Mismatches: 15, Indels: 10
0.66 0.21 0.14
Matches are distributed among these distances:
15 1 0.02
16 10 0.21
17 8 0.17
18 4 0.08
19 21 0.44
20 4 0.08
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (19 bp):
AATTAATATTTTAATATAA
Found at i:63827 original size:36 final size:36
Alignment explanation
Indices: 63780--63887 Score: 189
Period size: 36 Copynumber: 3.0 Consensus size: 36
63770 AATCCAACTC
63780 AAGTTATGGATAAATTTAGACGTGAATATATTTAAA
1 AAGTTATGGATAAATTTAGACGTGAATATATTTAAA
*
63816 AAGTTATGGATAAATTTAGGCGTGAATATATTTAAA
1 AAGTTATGGATAAATTTAGACGTGAATATATTTAAA
* *
63852 AAGTTATGGATAAATTTAAATGTGAATATATTTAAA
1 AAGTTATGGATAAATTTAGACGTGAATATATTTAAA
63888 TTTTTAAAAT
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 68 1.00
ACGTcount: A:0.44, C:0.02, G:0.17, T:0.37
Consensus pattern (36 bp):
AAGTTATGGATAAATTTAGACGTGAATATATTTAAA
Found at i:64333 original size:22 final size:23
Alignment explanation
Indices: 64304--64364 Score: 65
Period size: 22 Copynumber: 2.7 Consensus size: 23
64294 AATTATTAAT
64304 AATTATTTTTAT-ATT-AATATTA
1 AATTATTTTTATAATTAAAT-TTA
*
64326 ACTTA-TTTTATAATTAAATTTA
1 AATTATTTTTATAATTAAATTTA
*
64348 AATAATTTTTATTAATT
1 AATTATTTTTA-TAATT
64365 TAATAATGAT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
21 6 0.19
22 13 0.41
23 8 0.25
24 5 0.16
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (23 bp):
AATTATTTTTATAATTAAATTTA
Found at i:64523 original size:22 final size:21
Alignment explanation
Indices: 64467--64530 Score: 58
Period size: 22 Copynumber: 3.0 Consensus size: 21
64457 TATTTTTAAA
**
64467 AAAATTAAATTTTTTTATATT
1 AAAATTAAATAATTTTATATT
* *
64488 AATATT-TATAAATTTTATAATT
1 AAAATTAAAT-AATTTTAT-ATT
*
64510 AAAATTAAATAATTTTTTATT
1 AAAATTAAATAATTTTATATT
64531 GATTAATTAA
Statistics
Matches: 33, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
20 2 0.06
21 14 0.42
22 15 0.45
23 2 0.06
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
AAAATTAAATAATTTTATATT
Found at i:67976 original size:21 final size:22
Alignment explanation
Indices: 67944--67984 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
67934 CTTTTTTAAT
67944 TTAATTACTTATA-TAATTTGA
1 TTAATTACTTATATTAATTTGA
67965 TTAATATA-TTATATTAATTT
1 TTAAT-TACTTATATTAATTT
67985 TTATAATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.56
Consensus pattern (22 bp):
TTAATTACTTATATTAATTTGA
Found at i:69048 original size:28 final size:26
Alignment explanation
Indices: 68997--69048 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 26
68987 TTAATACTAA
*
68997 TTAATTAAAAAATATTTTATTTAAAT
1 TTAATTAAAAAATATTTAATTTAAAT
*
69023 TTAATTATAAAATATATTAATATTAA
1 TTAATTAAAAAATAT-TTAAT-TTAA
69049 TACCAATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 14 0.64
27 4 0.18
28 4 0.18
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (26 bp):
TTAATTAAAAAATATTTAATTTAAAT
Found at i:70357 original size:2 final size:2
Alignment explanation
Indices: 70350--70380 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
70340 GGCATACTTA
70350 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
70381 TATATATATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:70605 original size:2 final size:2
Alignment explanation
Indices: 70593--70627 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
70583 ACATAAAAGG
*
70593 TA TA CA 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 T
70628 GAAAATCAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:75844 original size:14 final size:14
Alignment explanation
Indices: 75815--75873 Score: 50
Period size: 14 Copynumber: 4.1 Consensus size: 14
75805 GAGTTTATTT
75815 AAATATAAAATAAA
1 AAATATAAAATAAA
75829 AAATA-AAAATATAA
1 AAATATAAAATA-AA
*
75843 AAATTATTTAAAT-AA
1 AAA-TA-TAAAATAAA
*
75858 AATTATAAAATTAAA
1 AAATATAAAA-TAAA
75873 A
1 A
75874 TTTTTTATTA
Statistics
Matches: 36, Mismatches: 3, Indels: 11
0.72 0.06 0.22
Matches are distributed among these distances:
13 10 0.28
14 13 0.36
15 9 0.25
17 4 0.11
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
AAATATAAAATAAA
Found at i:95916 original size:17 final size:15
Alignment explanation
Indices: 95896--95945 Score: 61
Period size: 14 Copynumber: 3.4 Consensus size: 15
95886 TTAGGTAAAA
95896 AAGAAAGAAAGAAGATG
1 AAGAAAGAAAGAA-A-G
95913 AAG-AAGAAAGAAAG
1 AAGAAAGAAAGAAAG
95927 AA-AAAGAAAGAAA-
1 AAGAAAGAAAGAAAG
95940 AAGAAA
1 AAGAAA
95946 AAATATGAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
13 2 0.06
14 16 0.52
15 1 0.03
16 9 0.29
17 3 0.10
ACGTcount: A:0.74, C:0.00, G:0.24, T:0.02
Consensus pattern (15 bp):
AAGAAAGAAAGAAAG
Found at i:95934 original size:10 final size:10
Alignment explanation
Indices: 95893--95945 Score: 70
Period size: 10 Copynumber: 4.9 Consensus size: 10
95883 AAGTTAGGTA
95893 AAAAAGAAAG
1 AAAAAGAAAG
95903 AAAGAAGATGAAG
1 AAA-AAGA--AAG
95916 AAGAAAGAAAG
1 AA-AAAGAAAG
95927 AAAAAGAAAG
1 AAAAAGAAAG
95937 AAAAAGAAA
1 AAAAAGAAA
95946 AAATATGAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
10 20 0.51
11 9 0.23
13 9 0.23
14 1 0.03
ACGTcount: A:0.75, C:0.00, G:0.23, T:0.02
Consensus pattern (10 bp):
AAAAAGAAAG
Found at i:95942 original size:20 final size:22
Alignment explanation
Indices: 95893--95945 Score: 74
Period size: 24 Copynumber: 2.4 Consensus size: 22
95883 AAGTTAGGTA
95893 AAAAAGAAAGAAAGAAGATGAAG
1 AAAAAGAAAGAAAGAAGA-GAAG
95916 AAGAAAGAAAGAAA-AAGA-AAG
1 AA-AAAGAAAGAAAGAAGAGAAG
95937 AAAAAGAAA
1 AAAAAGAAA
95946 AAATATGAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
20 7 0.24
21 5 0.17
23 6 0.21
24 11 0.38
ACGTcount: A:0.75, C:0.00, G:0.23, T:0.02
Consensus pattern (22 bp):
AAAAAGAAAGAAAGAAGAGAAG
Found at i:95955 original size:16 final size:16
Alignment explanation
Indices: 95893--95947 Score: 60
Period size: 16 Copynumber: 3.3 Consensus size: 16
95883 AAGTTAGGTA
95893 AAAAAGAAAGAAAGAAG
1 AAAAAGAAAGAAA-AAG
95910 ATGAAGAAGAAAG--AAAG
1 A--AA-AAGAAAGAAAAAG
95927 AAAAAGAAAGAAAAAG
1 AAAAAGAAAGAAAAAG
95943 AAAAA
1 AAAAA
95948 ATATGAAATG
Statistics
Matches: 33, Mismatches: 0, Indels: 11
0.75 0.00 0.25
Matches are distributed among these distances:
14 7 0.21
15 2 0.06
16 9 0.27
17 5 0.15
18 1 0.03
19 2 0.06
20 7 0.21
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (16 bp):
AAAAAGAAAGAAAAAG
Found at i:95955 original size:20 final size:20
Alignment explanation
Indices: 95896--95955 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
95886 TTAGGTAAAA
*
95896 AAGAAAGAAAGAAGATG-AAG
1 AAGAAAGAAA-AAAATGAAAG
*
95916 AAGAAAGAAAGAAAAAGAAAG
1 AAGAAAGAAA-AAAATGAAAG
95937 AA-AAAGAAAAAATATGAAA
1 AAGAAAGAAAAAA-ATGAAA
95956 TGGAGTGGCC
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
19 3 0.09
20 27 0.77
21 5 0.14
ACGTcount: A:0.73, C:0.00, G:0.22, T:0.05
Consensus pattern (20 bp):
AAGAAAGAAAAAAATGAAAG
Found at i:102405 original size:23 final size:23
Alignment explanation
Indices: 102362--102404 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
102352 CTTCAAAATG
*
102362 ACAAAAAAGTCAAAAGCAAAAGC
1 ACAAAAAAGTCAAAAGAAAAAGC
*
102385 ACAAAAAA-TGAAAAGAAAAA
1 ACAAAAAAGTCAAAAGAAAAA
102405 AAAAGTGCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.72, C:0.12, G:0.12, T:0.05
Consensus pattern (23 bp):
ACAAAAAAGTCAAAAGAAAAAGC
Found at i:102444 original size:40 final size:39
Alignment explanation
Indices: 102364--102449 Score: 95
Period size: 40 Copynumber: 2.2 Consensus size: 39
102354 TCAAAATGAC
* *
102364 AAAAAAGTCAAAAGCAAAAGCACAAAAAATGAAAAGAAA
1 AAAAAAGTCAAAAGCAAAAGCACAAAAAAGGAAAACAAA
*
102403 AAAAAAGTGCAAAAGCAAAA-TA-AAAAAAGGGAACAACAAA
1 AAAAAAGT-CAAAAGCAAAAGCACAAAAAA-GGAA-AACAAA
102443 AATAAAA
1 AA-AAAA
102450 AACGAGGACA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
38 6 0.15
39 12 0.30
40 18 0.45
41 4 0.10
ACGTcount: A:0.72, C:0.09, G:0.13, T:0.06
Consensus pattern (39 bp):
AAAAAAGTCAAAAGCAAAAGCACAAAAAAGGAAAACAAA
Found at i:102722 original size:12 final size:11
Alignment explanation
Indices: 102702--102733 Score: 55
Period size: 12 Copynumber: 2.8 Consensus size: 11
102692 CAATCCTAAA
102702 AAAAAAAAAAC
1 AAAAAAAAAAC
102713 AAAAACAAAAAC
1 AAAAA-AAAAAC
102725 AAAAAAAAA
1 AAAAAAAAA
102734 CCCTTTTCAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.45
12 11 0.55
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAC
Found at i:103822 original size:27 final size:27
Alignment explanation
Indices: 103784--104411 Score: 907
Period size: 27 Copynumber: 23.0 Consensus size: 27
103774 TGGCATTTCT
* * *
103784 TTTTGAAGTCCACAACTTCGTGGCATCT
1 TTTT-AAGTCCACAACTCCGTGGCACCC
103812 TTTTAAGTCCACAACTCCGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
** * *
103839 TTCAAAGTCCACAACTCTGTGGCACTC
1 TTTTAAGTCCACAACTCCGTGGCACCC
** * *
103866 TTCCACAG-CCACAACTCTGTGGCACTC
1 TTTTA-AGTCCACAACTCCGTGGCACCC
103893 TTTTAAGTCCACAACTCCGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
* **
103920 TTTTAAGTCCATAACTCCGTGGCATATC
1 TTTTAAGTCCACAACTCCGTGGCA-CCC
* **
103948 TTTTAAGTCCATAACTATGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
103975 TTTTAAAGTCCACAACTCCGTGGCACCC
1 TTTT-AAGTCCACAACTCCGTGGCACCC
104003 TTTTAAAGTCCACAACTCCGTGGCACCC
1 TTTT-AAGTCCACAACTCCGTGGCACCC
* *
104031 TTTTAAGTCCACAACTTCGTGGCATCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
*
104058 TTTTAAGTCCACAACTCCGTGGCATCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
104085 TTTTAAGTCCACAACTCCGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
104112 TTTTAAGTCCACAACTCCGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
*
104139 TTTTAAGTTCACAACTCCGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
104166 TTTTAAGTCCACAACTCCGTGGCATCCC
1 TTTTAAGTCCACAACTCCGTGGCA-CCC
*
104194 TTTTAAGTCCATAACTCCGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
104221 TTTTAAAGTCCACAACTCCGTGGCACCC
1 TTTT-AAGTCCACAACTCCGTGGCACCC
*
104249 TTTTTAGTCCACAACTCCGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
104276 TTTTAAGTCCACAACTCCGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
104303 TTTTAAGTCCACAACTCCGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
* * *
104330 TTTTAAGACCACAACTCCATGGCACTC
1 TTTTAAGTCCACAACTCCGTGGCACCC
*
104357 TTTTAAGTCCACAACTCTGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
* * *
104384 TTTTAAAGTTCACAACTCTGTGACACCC
1 TTTT-AAGTCCACAACTCCGTGGCACCC
104412 ATTTCAAAGC
Statistics
Matches: 552, Mismatches: 41, Indels: 14
0.91 0.07 0.02
Matches are distributed among these distances:
26 2 0.00
27 396 0.72
28 154 0.28
ACGTcount: A:0.23, C:0.34, G:0.14, T:0.28
Consensus pattern (27 bp):
TTTTAAGTCCACAACTCCGTGGCACCC
Found at i:104452 original size:32 final size:31
Alignment explanation
Indices: 104408--104995 Score: 861
Period size: 32 Copynumber: 18.4 Consensus size: 31
104398 ACTCTGTGAC
*
104408 ACCCATTTCAAAGCCCACACAAGTTGGTGGCA
1 ACCC-TTTCAAAGCCCACACAAGTCGGTGGCA
*
104440 ACCCTTTCCAAAGCCCACACAAATCGGTGGCA
1 ACCCTTT-CAAAGCCCACACAAGTCGGTGGCA
* *
104472 ACCCACTTCAAAGCCCACACAAGTTGGTGGCA
1 ACCC-TTTCAAAGCCCACACAAGTCGGTGGCA
104504 ACCCTTTTCAAAGCCCACACAAGTCGGTGGCA
1 ACCC-TTTCAAAGCCCACACAAGTCGGTGGCA
104536 ACCCATTTCAAAGCCCACACAAGTCGGTGGCA
1 ACCC-TTTCAAAGCCCACACAAGTCGGTGGCA
*
104568 ACCCATTCCAAAGCCCACACAAGTCGGTGGCA
1 ACCC-TTTCAAAGCCCACACAAGTCGGTGGCA
*
104600 ACCCATTCCAAAGCCCACACAAGTCGGTGGCA
1 ACCC-TTTCAAAGCCCACACAAGTCGGTGGCA
*
104632 ACCCATTCCAAAGCCCACACAAGTCGGTGGCA
1 ACCC-TTTCAAAGCCCACACAAGTCGGTGGCA
104664 ACCCTTTCCAAAGCCCACACAAGTCGGTGGCA
1 ACCCTTT-CAAAGCCCACACAAGTCGGTGGCA
* *
104696 ACCCACTTCAAAGCCCACACAAGTTGGTGGCA
1 ACCC-TTTCAAAGCCCACACAAGTCGGTGGCA
104728 ACCCTTTTCAAAGCCCACACAAGTCGGTGGCA
1 ACCC-TTTCAAAGCCCACACAAGTCGGTGGCA
104760 ACCCATTTCAAAGCCCACACAAGTCGGTGGCA
1 ACCC-TTTCAAAGCCCACACAAGTCGGTGGCA
*
104792 ACCCTTTTCAAAGCCCACACAAGTCGGTGGTA
1 ACCC-TTTCAAAGCCCACACAAGTCGGTGGCA
104824 ACCCATTTCAAAGCCCACACAAGTCGGTGGCA
1 ACCC-TTTCAAAGCCCACACAAGTCGGTGGCA
* *
104856 ACCTATTTCAAAGCCCACACAAGTCGGTGGTA
1 ACC-CTTTCAAAGCCCACACAAGTCGGTGGCA
104888 ACCCATTTCAAAGCCCACACAAGTCGGTGGCA
1 ACCC-TTTCAAAGCCCACACAAGTCGGTGGCA
104920 ACCCTTTTCAAAGCCCACACAAGTCGGTGGCA
1 ACCC-TTTCAAAGCCCACACAAGTCGGTGGCA
* ** *
104952 ACCCATTTAAAAGCCCATGCAAGTCAGTGGCA
1 ACCC-TTTCAAAGCCCACACAAGTCGGTGGCA
104984 ACCCTTTTCAAA
1 ACCC-TTTCAAA
104996 TCACCATTTT
Statistics
Matches: 517, Mismatches: 33, Indels: 12
0.92 0.06 0.02
Matches are distributed among these distances:
31 5 0.01
32 508 0.98
33 4 0.01
ACGTcount: A:0.31, C:0.34, G:0.18, T:0.17
Consensus pattern (31 bp):
ACCCTTTCAAAGCCCACACAAGTCGGTGGCA
Found at i:104483 original size:64 final size:64
Alignment explanation
Indices: 104408--104995 Score: 955
Period size: 64 Copynumber: 9.2 Consensus size: 64
104398 ACTCTGTGAC
* *
104408 ACCCATTTCAAAGCCCACACAAGTTGGTGGCAACCC-TTTCCAAAGCCCACACAAATCGGTGGCA
1 ACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTT-CAAAGCCCACACAAGTCGGTGGCA
* * *
104472 ACCCACTTCAAAGCCCACACAAGTTGGTGGCAACCCTTTTCAAAGCCCACACAAGTCGGTGGCA
1 ACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCA
*
104536 ACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCA
1 ACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCA
* *
104600 ACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCA
1 ACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCA
* *
104664 ACCC-TTTCCAAAGCCCACACAAGTCGGTGGCAACCCACTTCAAAGCCCACACAAGTTGGTGGCA
1 ACCCATTT-CAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCA
*
104728 ACCCTTTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCA
1 ACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCA
* *
104792 ACCCTTTTCAAAGCCCACACAAGTCGGTGGTAACCCATTTCAAAGCCCACACAAGTCGGTGGCA
1 ACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCA
* *
104856 ACCTATTTCAAAGCCCACACAAGTCGGTGGTAACCCATTTCAAAGCCCACACAAGTCGGTGGCA
1 ACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCA
* * ** *
104920 ACCCTTTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTAAAAGCCCATGCAAGTCAGTGGCA
1 ACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCA
*
104984 ACCCTTTTCAAA
1 ACCCATTTCAAA
104996 TCACCATTTT
Statistics
Matches: 498, Mismatches: 23, Indels: 6
0.94 0.04 0.01
Matches are distributed among these distances:
63 2 0.00
64 490 0.98
65 6 0.01
ACGTcount: A:0.31, C:0.34, G:0.18, T:0.17
Consensus pattern (64 bp):
ACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCA
Found at i:106267 original size:4 final size:4
Alignment explanation
Indices: 106260--106305 Score: 53
Period size: 4 Copynumber: 11.8 Consensus size: 4
106250 GTTAGGTAAA
106260 AAAG AAAG AAAG AAGATG AAA- AAAG AAAG AAAG -AA- AAAG AAAG AAA
1 AAAG AAAG AAAG AA-A-G AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
106306 AAGAAAAAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
3 7 0.19
4 25 0.68
5 2 0.05
6 3 0.08
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (4 bp):
AAAG
Found at i:106271 original size:21 final size:21
Alignment explanation
Indices: 106257--106321 Score: 78
Period size: 21 Copynumber: 3.1 Consensus size: 21
106247 AAAGTTAGGT
106257 AAAAAAGAAAGAAAGAAGATG
1 AAAAAAGAAAGAAAGAAGATG
* *
106278 AAAAAAGAAAGAAAGAAAAAG
1 AAAAAAGAAAGAAAGAAGATG
* * *
106299 AAAGAA-AAAGAAAAAATATG
1 AAAAAAGAAAGAAAGAAGATG
106319 AAA
1 AAA
106322 TGGAGTGGCC
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
20 14 0.37
21 24 0.63
ACGTcount: A:0.77, C:0.00, G:0.18, T:0.05
Consensus pattern (21 bp):
AAAAAAGAAAGAAAGAAGATG
Found at i:106298 original size:10 final size:10
Alignment explanation
Indices: 106264--106311 Score: 60
Period size: 10 Copynumber: 4.7 Consensus size: 10
106254 GGTAAAAAAG
106264 AAAGAAAGAA
1 AAAGAAAGAA
* * *
106274 GATGAAAAAA
1 AAAGAAAGAA
106284 GAAAGAAAGAA
1 -AAAGAAAGAA
106295 AAAGAAAGAA
1 AAAGAAAGAA
106305 AAAGAAA
1 AAAGAAA
106312 AAATATGAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
10 24 0.77
11 7 0.23
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (10 bp):
AAAGAAAGAA
Found at i:106300 original size:14 final size:16
Alignment explanation
Indices: 106264--106305 Score: 61
Period size: 14 Copynumber: 2.7 Consensus size: 16
106254 GGTAAAAAAG
106264 AAAGAAAGAAGATGAAA
1 AAAGAAAGAA-ATGAAA
106281 AAAGAAAGAAA-G-AA
1 AAAGAAAGAAATGAAA
106295 AAAGAAAGAAA
1 AAAGAAAGAAA
106306 AAGAAAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 13 0.52
15 1 0.04
16 1 0.04
17 10 0.40
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.02
Consensus pattern (16 bp):
AAAGAAAGAAATGAAA
Found at i:106321 original size:16 final size:16
Alignment explanation
Indices: 106258--106313 Score: 60
Period size: 18 Copynumber: 3.3 Consensus size: 16
106248 AAGTTAGGTA
106258 AAAAAGAAAGAAAGAAG
1 AAAAAGAAAGAAA-AAG
*
106275 ATGAAA-AAAGAAAGAAAG
1 A-AAAAGAAAG-AA-AAAG
106293 AAAAAGAAAGAAAAAG
1 AAAAAGAAAGAAAAAG
106309 AAAAA
1 AAAAA
106314 ATATGAAATG
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
16 9 0.27
17 10 0.30
18 13 0.39
19 1 0.03
ACGTcount: A:0.79, C:0.00, G:0.20, T:0.02
Consensus pattern (16 bp):
AAAAAGAAAGAAAAAG
Found at i:110790 original size:25 final size:25
Alignment explanation
Indices: 110739--110791 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
110729 TAATTATATG
* *
110739 AATATAATATGAATAAATTAATTAA
1 AATATAATAAGAATAAATTAATAAA
*
110764 AATATAATAAGAATAGATGT-ATAAA
1 AATATAATAAGAATAAAT-TAATAAA
110789 AAT
1 AAT
110792 TTATGAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 23 0.96
26 1 0.04
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (25 bp):
AATATAATAAGAATAAATTAATAAA
Found at i:112172 original size:17 final size:17
Alignment explanation
Indices: 112120--112173 Score: 53
Period size: 17 Copynumber: 3.3 Consensus size: 17
112110 TATATATTTC
112120 AAAATTTATAT-AATA-
1 AAAATTTATATAAATAT
*
112135 GAAA-TTAT-TAATATAT
1 AAAATTTATATAA-ATAT
112151 CAAAATTTATATAAATAT
1 -AAAATTTATATAAATAT
112169 AAAAT
1 AAAAT
112174 ATTTTAAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 10
0.72 0.05 0.23
Matches are distributed among these distances:
13 1 0.03
14 5 0.16
15 6 0.19
17 8 0.26
18 8 0.26
19 3 0.10
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (17 bp):
AAAATTTATATAAATAT
Found at i:112434 original size:89 final size:89
Alignment explanation
Indices: 112283--112462 Score: 360
Period size: 89 Copynumber: 2.0 Consensus size: 89
112273 TTAGTTTAAT
112283 TACTATCTTTTATCTTTGGAATAATACTTTCTTAAACTATGAATTTTGCTTTGGGATTTCTTGTT
1 TACTATCTTTTATCTTTGGAATAATACTTTCTTAAACTATGAATTTTGCTTTGGGATTTCTTGTT
112348 TGGAAAGTAAAAGTAAACTCAATC
66 TGGAAAGTAAAAGTAAACTCAATC
112372 TACTATCTTTTATCTTTGGAATAATACTTTCTTAAACTATGAATTTTGCTTTGGGATTTCTTGTT
1 TACTATCTTTTATCTTTGGAATAATACTTTCTTAAACTATGAATTTTGCTTTGGGATTTCTTGTT
112437 TGGAAAGTAAAAGTAAACTCAATC
66 TGGAAAGTAAAAGTAAACTCAATC
112461 TA
1 TA
112463 AAGCATTTTA
Statistics
Matches: 91, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
89 91 1.00
ACGTcount: A:0.31, C:0.12, G:0.13, T:0.44
Consensus pattern (89 bp):
TACTATCTTTTATCTTTGGAATAATACTTTCTTAAACTATGAATTTTGCTTTGGGATTTCTTGTT
TGGAAAGTAAAAGTAAACTCAATC
Found at i:113108 original size:9 final size:9
Alignment explanation
Indices: 113094--113122 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
113084 AAAAAAAAAG
113094 AGGTTTTAA
1 AGGTTTTAA
113103 AGGTTTTAA
1 AGGTTTTAA
113112 AGGTTTTAA
1 AGGTTTTAA
113121 AG
1 AG
113123 TAAAATGTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.34, C:0.00, G:0.24, T:0.41
Consensus pattern (9 bp):
AGGTTTTAA
Found at i:113319 original size:19 final size:19
Alignment explanation
Indices: 113297--113334 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
113287 AAATAACAGA
113297 TAATTTAAATGCATGAATT
1 TAATTTAAATGCATGAATT
113316 TAATTTAAATGCATGAATT
1 TAATTTAAATGCATGAATT
113335 CATTAAAGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.05, G:0.11, T:0.42
Consensus pattern (19 bp):
TAATTTAAATGCATGAATT
Found at i:114618 original size:18 final size:18
Alignment explanation
Indices: 114591--114626 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
114581 TCAAATAGAG
114591 AAAATGAAGAAAAAATAA
1 AAAATGAAGAAAAAATAA
* *
114609 AAAATTAAGAAAAGATAA
1 AAAATGAAGAAAAAATAA
114627 GCTATATTTC
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:0.75, C:0.00, G:0.11, T:0.14
Consensus pattern (18 bp):
AAAATGAAGAAAAAATAA
Found at i:115389 original size:159 final size:158
Alignment explanation
Indices: 115135--115468 Score: 420
Period size: 159 Copynumber: 2.1 Consensus size: 158
115125 TGTAAAGCAC
* **
115135 TTTAATTTATTCTCTCTTTATCATTGTTATAAAGAATTCCCTACAAACAAGCAATGGATCATGAA
1 TTTAATTTATTCTCT-TTTACCATTGCCATAAAGAATTCCCTACAAACAAGCAATGGATCATGAA
* * * * *
115200 AATGATATCAAATAAAAGTATTTTTTCATTCAAATGTTATTAATCTTTCTTTTCT-TTTTCTTTT
65 AATGATATCAAATAAAAGCATATTTCCATTCAAATGTTATCAATC-TTCTTTT-TATTTTATTTT
**
115264 TT-TTTTTAATTTTAGAGGACATAAATAACTT
128 TTCCCTTT-ATTTTAGAGGACATAAATAACTT
* * * *
115295 TTTACTTTATTCTCTTTTACCATTGCCCTAAAGCATTCCCTACTAACAAGCAATGGATCATGAAA
1 TTTAATTTATTCTCTTTTACCATTGCCATAAAGAATTCCCTACAAACAAGCAATGGATCATGAAA
* ** *
115360 ATGTTATCAAATGGAAGCATATTTCCATTCAAATGTTGTCAATCTTCTTTTTATTTTATTTTTTC
66 ATGATATCAAATAAAAGCATATTTCCATTCAAATGTTATCAATCTTCTTTTTATTTTATTTTTTC
* *
115425 CCTTTATTTTAGAGGATATAAATTACTT
131 CCTTTATTTTAGAGGACATAAATAACTT
* *
115453 TGTATTTTATTCTCTT
1 TTTAATTTATTCTCTT
115469 CTATCATTTA
Statistics
Matches: 150, Mismatches: 22, Indels: 6
0.84 0.12 0.03
Matches are distributed among these distances:
157 1 0.01
158 52 0.35
159 83 0.55
160 14 0.09
ACGTcount: A:0.30, C:0.15, G:0.08, T:0.46
Consensus pattern (158 bp):
TTTAATTTATTCTCTTTTACCATTGCCATAAAGAATTCCCTACAAACAAGCAATGGATCATGAAA
ATGATATCAAATAAAAGCATATTTCCATTCAAATGTTATCAATCTTCTTTTTATTTTATTTTTTC
CCTTTATTTTAGAGGACATAAATAACTT
Found at i:117157 original size:254 final size:256
Alignment explanation
Indices: 116868--117365 Score: 842
Period size: 254 Copynumber: 1.9 Consensus size: 256
116858 GAATTTCTTT
116868 TTTTTTTTTTGAAAATAAAAGCAAAACTTAATCTAAAGCATTTTAATTTATTCTCTTTTATTATT
1 TTTTTTTTTT-AAAATAAAAGCAAAACTTAATCTAAAGCATTTTAATTTATTCTCTTTTATTATT
* *
116933 GTTATAAAGAATTCCTTACCAACAAGCAATGGATCATAAAAATGGTATCAAATAGAAGCATATTT
65 GTTATAAAGAATTCCCTACCAACAAG-AATGG-TCATAAAAATGATATCAAATAGAAGCATATTT
*
116998 TTCATTCAAATGTTATCAATCTTTC-TTT-TTCTATTTTTTTTT-AAATTTTAGAGGACATAAAT
128 TTCATTCAAATGTTATCAATATTTCTTTTCTTCTATTTTTTTTTAAAATTTTAGAGGACATAAAT
* *
117060 AACTTTTTACTTTATTCTCTTTTACTATTGCTTTAAAGCATTCCCTACTAATTTTGGTTTTGGC
193 AACTTTTTACTTTATTCTCTTTTACCATTGCTCTAAAGCATTCCCTACTAATTTTGGTTTTGGC
* *
117124 TTTTTTTTTT-AAGTAAAAGTAAAACTTAATCTAAAGCATTTTAATTTATTCTCTTTTATTATTG
1 TTTTTTTTTTAAAATAAAAGCAAAACTTAATCTAAAGCATTTTAATTTATTCTCTTTTATTATTG
* *
117188 TTATAAAGAATTCCCTACCAACAAGAATGGTCATGAAAATGATATCAAATATAAGCATATTTTTC
66 TTATAAAGAATTCCCTACCAACAAGAATGGTCATAAAAATGATATCAAATAGAAGCATATTTTTC
* *
117253 ATTCAAATGTTATCAATATTTCTTTTCTTTTCTTTTTTTTTAAAATTTTAGAGGACATAAATAAC
131 ATTCAAATGTTATCAATATTTCTTTTCTTCTATTTTTTTTTAAAATTTTAGAGGACATAAATAAC
117318 TTTTTACTTTATTCTCTTTTACCATTGCTCTAAAGCATTCCCTACTAA
196 TTTTTACTTTATTCTCTTTTACCATTGCTCTAAAGCATTCCCTACTAA
117366 CAAGCAACTG
Statistics
Matches: 228, Mismatches: 11, Indels: 7
0.93 0.04 0.03
Matches are distributed among these distances:
252 53 0.23
253 8 0.04
254 88 0.39
255 69 0.30
256 10 0.04
ACGTcount: A:0.33, C:0.14, G:0.08, T:0.46
Consensus pattern (256 bp):
TTTTTTTTTTAAAATAAAAGCAAAACTTAATCTAAAGCATTTTAATTTATTCTCTTTTATTATTG
TTATAAAGAATTCCCTACCAACAAGAATGGTCATAAAAATGATATCAAATAGAAGCATATTTTTC
ATTCAAATGTTATCAATATTTCTTTTCTTCTATTTTTTTTTAAAATTTTAGAGGACATAAATAAC
TTTTTACTTTATTCTCTTTTACCATTGCTCTAAAGCATTCCCTACTAATTTTGGTTTTGGC
Found at i:117329 original size:157 final size:161
Alignment explanation
Indices: 117162--117504 Score: 410
Period size: 161 Copynumber: 2.2 Consensus size: 161
117152 ATCTAAAGCA
* * * *
117162 TTTTAATTTATTCTCTTTTATTATTGTTATAAAGAATTCCCTACCAACAAG-AA-TG-GTCATGA
1 TTTTACTTTATTCTCTTTTATCATTGCTATAAAGAATTCCCTACCAACAAGCAACTGAATCATGA
* * * * * *
117224 AAATGATATCAAATATAAGCATATTTTTC-ATTCAAATGTTATCAATATT-TCTTTTCTTTTCTT
66 AAATGATATCAAATAGAAGCATATGTTACTATTCAAATGTTATCAATCTTCT-TTTTATTTTATT
* *
117287 TTTTT-TTAAAATTTTAGAGGACATAAATAACT
130 TTTTTCTT-AAAGTTTAGAAGACATAAATAACT
* * * *
117319 TTTTACTTTATTCTCTTTTACCATTGCTCTAAAGCATTCCCTACTAACAAGCAACTGAATCATGA
1 TTTTACTTTATTCTCTTTTATCATTGCTATAAAGAATTCCCTACCAACAAGCAACTGAATCATGA
* *
117384 AAATGTTATCAAATAGAAGCATATGTTACTATTTAAATGTTATCAATCTTCTTTTTATTTTATTT
66 AAATGATATCAAATAGAAGCATATGTTACTATTCAAATGTTATCAATCTTCTTTTTATTTTATTT
** *
117449 TTTTCTTTTAGTTTAGAAGACATAAATCACT
131 TTTTCTTAAAGTTTAGAAGACATAAATAACT
** *
117480 TTGCACTTTATTTTCTTTTATCATT
1 TTTTACTTTATTCTCTTTTATCATT
117505 TACCCATTGA
Statistics
Matches: 155, Mismatches: 25, Indels: 8
0.82 0.13 0.04
Matches are distributed among these distances:
157 44 0.28
158 2 0.01
159 2 0.01
160 31 0.20
161 73 0.47
162 3 0.02
ACGTcount: A:0.32, C:0.14, G:0.08, T:0.46
Consensus pattern (161 bp):
TTTTACTTTATTCTCTTTTATCATTGCTATAAAGAATTCCCTACCAACAAGCAACTGAATCATGA
AAATGATATCAAATAGAAGCATATGTTACTATTCAAATGTTATCAATCTTCTTTTTATTTTATTT
TTTTCTTAAAGTTTAGAAGACATAAATAACT
Done.