Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold382
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: 2572505
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
File 1 of 16
Found at i:591 original size:31 final size:30
Alignment explanation
Indices: 547--605 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 30
537 ACGGTAAATG
547 TATCGATCATAAGTGTTGTATCGATACATA
1 TATCGATCATAAGTGTTGTATCGATACATA
*
577 TATCGATACATAAGTTTTGTATCGATACA
1 TATCGAT-CATAAGTGTTGTATCGATACA
606 ATGTATCGCT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 7 0.26
31 20 0.74
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.37
Consensus pattern (30 bp):
TATCGATCATAAGTGTTGTATCGATACATA
Found at i:4267 original size:18 final size:18
Alignment explanation
Indices: 4226--4269 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
4216 TGATAAAATT
* * *
4226 TAAATAAATATATTAAAC
1 TAAAAAAATAAATTAAAA
*
4244 TCAAAAAATAAATTAAAA
1 TAAAAAAATAAATTAAAA
4262 TAAAAAAA
1 TAAAAAAA
4270 AGTGAAATCC
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (18 bp):
TAAAAAAATAAATTAAAA
Found at i:4552 original size:69 final size:69
Alignment explanation
Indices: 4475--4619 Score: 263
Period size: 69 Copynumber: 2.1 Consensus size: 69
4465 TTGATAACTT
* * *
4475 GGATGACTAATTACCGGCAAAACACGCTGTCAGGATGCAAACTTCACGAATCACCATGGCCCACC
1 GGATGACTAATCACCGACAAAACACGCTGTCAGGATGCAAACTTCACGAATCACCATGCCCCACC
4540 TTAC
66 TTAC
4544 GGATGACTAATCACCGACAAAACACGCTGTCAGGATGCAAACTTCACGAATCACCATGCCCCACC
1 GGATGACTAATCACCGACAAAACACGCTGTCAGGATGCAAACTTCACGAATCACCATGCCCCACC
4609 TTAC
66 TTAC
4613 GGATGAC
1 GGATGAC
4620 CTCAAACTTT
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
69 73 1.00
ACGTcount: A:0.32, C:0.31, G:0.19, T:0.18
Consensus pattern (69 bp):
GGATGACTAATCACCGACAAAACACGCTGTCAGGATGCAAACTTCACGAATCACCATGCCCCACC
TTAC
Found at i:5264 original size:2 final size:2
Alignment explanation
Indices: 5257--5307 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
5247 GACCTTAATA
5257 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
5299 TC TC TC TC T
1 TC TC TC TC T
5308 ATATATATAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:5312 original size:2 final size:2
Alignment explanation
Indices: 5307--5366 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
5297 TCTCTCTCTC
5307 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
5349 TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA
5367 CACACAAACT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6680 original size:52 final size:52
Alignment explanation
Indices: 6583--6710 Score: 150
Period size: 52 Copynumber: 2.5 Consensus size: 52
6573 CAAAAATTTA
* * * * * ** *
6583 CATTCTATCGATACATTTTG-GGTTTTGACTCAAATGTATTGATACATTATT
1 CATTATATCGATACATTCTGAGTTTTTGACCCAAATATATCAATACACTATT
* * *
6634 CCTTATATCAATACATTCTGAGTTTTTGACCCAAATATATCAATACACTCTT
1 CATTATATCGATACATTCTGAGTTTTTGACCCAAATATATCAATACACTATT
6686 CATTATATCGATACATTCTGAGTTT
1 CATTATATCGATACATTCTGAGTTT
6711 ATGCAAAAAA
Statistics
Matches: 63, Mismatches: 13, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
51 16 0.25
52 47 0.75
ACGTcount: A:0.30, C:0.18, G:0.10, T:0.42
Consensus pattern (52 bp):
CATTATATCGATACATTCTGAGTTTTTGACCCAAATATATCAATACACTATT
Found at i:8038 original size:17 final size:16
Alignment explanation
Indices: 8013--8056 Score: 58
Period size: 14 Copynumber: 2.9 Consensus size: 16
8003 AAATAACTTG
8013 TAAAT-AATAATATATA
1 TAAATAAATAATATA-A
8029 TAAATAAATAATA-AA
1 TAAATAAATAATATAA
8044 TAAA-AAATAATAT
1 TAAATAAATAATAT
8057 GATTCACATT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 8 0.31
15 5 0.19
16 6 0.23
17 7 0.27
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
TAAATAAATAATATAA
Found at i:11219 original size:14 final size:14
Alignment explanation
Indices: 11200--11263 Score: 51
Period size: 14 Copynumber: 4.5 Consensus size: 14
11190 ATTTATGTTG
*
11200 TATTTTAAATATTT
1 TATTTTAATTATTT
*
11214 TATTTTTATTATATT
1 TATTTTAATTAT-TT
*
11229 TA-TATAATTATTT
1 TATTTTAATTATTT
*
11242 GTA-TTTAAGTATTT
1 -TATTTTAATTATTT
11256 TATGTTTA
1 TAT-TTTA
11264 TATCGATTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
13 4 0.10
14 28 0.70
15 8 0.20
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (14 bp):
TATTTTAATTATTT
Found at i:11288 original size:125 final size:124
Alignment explanation
Indices: 11090--11342 Score: 348
Period size: 125 Copynumber: 2.0 Consensus size: 124
11080 TTCATCCGTA
11090 TATTTATATTATATTTATATATATTTTATGTTTAAAGTATTTATGTTTATATAAATTTTAATAAG
1 TATTTATATTATATTTATATATATTTTATGTTTAAAGTATTTATGTTTATATAAATTTTAATAAG
* * * * *
11155 TTAATAATTTATATTATATATATTTTAAGGTATATATTTATGTTGTATTTTAAATATTT
66 TTAATAATTTAAATTATATATATTTTAAAGTATATAATTATATTATATTTTAAATATTT
* * ** *
11214 TATTTTTATTATATTTATATA-ATTATT-TGTATTTAAGTATTTTATGTTTATATCGATTTTGAT
1 TATTTATATTATATTTATATATATT-TTATGT-TTAAAGTA-TTTATGTTTATATAAATTTTAAT
* * *
11277 ATGTTTATAATTTAAATTATATATATTTTAAAGTATATAATTATATTATATTTTAATTATTT
63 AAGTTAATAATTTAAATTATATATATTTTAAAGTATATAATTATATTATATTTTAAATATTT
11339 TATT
1 TATT
11343 CCTATCATAT
Statistics
Matches: 113, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
123 6 0.05
124 29 0.26
125 78 0.69
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.58
Consensus pattern (124 bp):
TATTTATATTATATTTATATATATTTTATGTTTAAAGTATTTATGTTTATATAAATTTTAATAAG
TTAATAATTTAAATTATATATATTTTAAAGTATATAATTATATTATATTTTAAATATTT
Found at i:11306 original size:16 final size:16
Alignment explanation
Indices: 11282--11315 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
11272 TTGATATGTT
*
11282 TATAATTTAAATTATA
1 TATAATTTAAAGTATA
*
11298 TATATTTTAAAGTATA
1 TATAATTTAAAGTATA
11314 TA
1 TA
11316 ATTATATTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (16 bp):
TATAATTTAAAGTATA
Found at i:14938 original size:15 final size:15
Alignment explanation
Indices: 14915--14954 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
14905 TTAAAATATG
* *
14915 TATTAAATATAAATT
1 TATTTAATATAAATA
14930 TATTTAATATAAATA
1 TATTTAATATAAATA
14945 TATTTAATAT
1 TATTTAATAT
14955 TTTTAAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TATTTAATATAAATA
Found at i:14977 original size:25 final size:27
Alignment explanation
Indices: 14922--14985 Score: 73
Period size: 25 Copynumber: 2.5 Consensus size: 27
14912 ATGTATTAAA
*
14922 TATAA-ATTTATTTAATATAAATATAT
1 TATAATATTTATTAAATATAAATATAT
*
14948 T-TAATATTT-TTAAATATTAAT-TAT
1 TATAATATTTATTAAATATAAATATAT
*
14972 TATAATATTCATTA
1 TATAATATTTATTA
14986 CTTTTATAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
24 4 0.12
25 20 0.62
26 8 0.25
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (27 bp):
TATAATATTTATTAAATATAAATATAT
Found at i:19544 original size:18 final size:18
Alignment explanation
Indices: 19521--19564 Score: 88
Period size: 18 Copynumber: 2.4 Consensus size: 18
19511 CTTTGGGAAT
19521 AGGATGGGATAAGAAAGG
1 AGGATGGGATAAGAAAGG
19539 AGGATGGGATAAGAAAGG
1 AGGATGGGATAAGAAAGG
19557 AGGATGGG
1 AGGATGGG
19565 CCAGAAGAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.41, C:0.00, G:0.48, T:0.11
Consensus pattern (18 bp):
AGGATGGGATAAGAAAGG
Found at i:22040 original size:12 final size:13
Alignment explanation
Indices: 22016--22046 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
22006 CTAAAAGCCT
22016 AAGAAAGGAAGGA
1 AAGAAAGGAAGGA
22029 AAGAAA-GAAGGA
1 AAGAAAGGAAGGA
22041 AAGAAA
1 AAGAAA
22047 TGTAATAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 12 0.67
13 6 0.33
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (13 bp):
AAGAAAGGAAGGA
Found at i:22104 original size:2 final size:2
Alignment explanation
Indices: 22097--22127 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
22087 AAATAAATAA
*
22097 AG AG AG AG AG AG AG AG AG AG AG AG AA AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
22128 ATTGTTTTTT
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:0.45, T:0.00
Consensus pattern (2 bp):
AG
Found at i:23036 original size:25 final size:29
Alignment explanation
Indices: 22997--23068 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 29
22987 TATTTTTAAG
22997 TAAATTTTTACATTTTA-TTATAT-TT-AAA
1 TAAATTTTT--ATTTTATTTATATATTCAAA
*
23025 TAAA-TTTTATTTTAATTTATATATTCATA
1 TAAATTTTTATTTT-ATTTATATATTCAAA
23054 TAAATTTTTATTTTA
1 TAAATTTTTATTTTA
23069 AATTTTATAT
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
25 5 0.13
26 1 0.03
27 10 0.26
28 6 0.16
29 7 0.18
30 9 0.24
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (29 bp):
TAAATTTTTATTTTATTTATATATTCAAA
Found at i:23057 original size:29 final size:31
Alignment explanation
Indices: 23010--23079 Score: 92
Period size: 30 Copynumber: 2.3 Consensus size: 31
23000 ATTTTTACAT
*
23010 TTTATTATATTTAAATAAA-TTTTATTTT-AA
1 TTTA-TATATTCAAATAAATTTTTATTTTAAA
*
23040 TTTATATATTCATATAAATTTTTATTTTAAA
1 TTTATATATTCAAATAAATTTTTATTTTAAA
23071 TTT-TATATT
1 TTTATATATT
23080 AAGATTTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
29 12 0.33
30 19 0.53
31 5 0.14
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.61
Consensus pattern (31 bp):
TTTATATATTCAAATAAATTTTTATTTTAAA
Found at i:25395 original size:31 final size:31
Alignment explanation
Indices: 25349--25418 Score: 97
Period size: 31 Copynumber: 2.3 Consensus size: 31
25339 GTCTATTTTT
* *
25349 TAATTATTATAATATATAAATTATATATATG
1 TAATTATTATAATATATAAAATAAATATATG
* *
25380 TAATTTTTATTATATATAAAATAAATATATG
1 TAATTATTATAATATATAAAATAAATATATG
25411 TAA-TATTA
1 TAATTATTA
25419 GAGTATAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 4 0.12
31 30 0.88
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (31 bp):
TAATTATTATAATATATAAAATAAATATATG
Found at i:25515 original size:16 final size:16
Alignment explanation
Indices: 25486--25534 Score: 52
Period size: 15 Copynumber: 3.2 Consensus size: 16
25476 ACCAAATTAT
25486 AAAAGATTAAATTTTAA
1 AAAAGATTAAA-TTTAA
*
25503 AAAAGA-TATATTTAA
1 AAAAGATTAAATTTAA
25518 AAAA-A-TAAA-TTAA
1 AAAAGATTAAATTTAA
25531 AAAA
1 AAAA
25535 ATATAATATA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
13 8 0.27
14 4 0.13
15 9 0.30
16 3 0.10
17 6 0.20
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (16 bp):
AAAAGATTAAATTTAA
Found at i:25546 original size:15 final size:14
Alignment explanation
Indices: 25499--25546 Score: 62
Period size: 13 Copynumber: 3.4 Consensus size: 14
25489 AGATTAAATT
*
25499 TTAAAAAAGATATAT
1 TTAAAAAA-ATATAA
25514 TTAAAAAAATA-AA
1 TTAAAAAAATATAA
25527 TTAAAAAAATATAA
1 TTAAAAAAATATAA
25541 TATAAA
1 T-TAAA
25547 CAAGTTAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
13 12 0.40
14 6 0.20
15 12 0.40
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (14 bp):
TTAAAAAAATATAA
Found at i:26415 original size:20 final size:20
Alignment explanation
Indices: 26385--26440 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
26375 GTCAAAACCC
*
26385 TGAATTGTATCGATACACAT
1 TGAAATGTATCGATACACAT
* *
26405 TTAAATGTATCGATACAGAT
1 TGAAATGTATCGATACACAT
* *
26425 TGCATTGTATCGATAC
1 TGAAATGTATCGATAC
26441 TTGAAAAAGA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (20 bp):
TGAAATGTATCGATACACAT
Found at i:29330 original size:22 final size:22
Alignment explanation
Indices: 29302--29345 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
29292 AAAATTTATA
29302 TTATTAAGTTAAATA-TATATTT
1 TTATTAAG-TAAATACTATATTT
*
29324 TTATTAAGTAATTACTATATTT
1 TTATTAAGTAAATACTATATTT
29346 AATGTTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.55
Consensus pattern (22 bp):
TTATTAAGTAAATACTATATTT
Found at i:29375 original size:31 final size:32
Alignment explanation
Indices: 29333--29394 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 32
29323 TTTATTAAGT
*
29333 AATTACTATATTTA-ATGTTTATTTAATTTTAA
1 AATTACTATATTTATAT-TTTATATAATTTTAA
*
29365 AATTA-TATATTTATATTTTATATATTTTTA
1 AATTACTATATTTATATTTTATATAATTTTA
29395 TTAAAATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
31 20 0.74
32 7 0.26
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (32 bp):
AATTACTATATTTATATTTTATATAATTTTAA
Found at i:29385 original size:15 final size:15
Alignment explanation
Indices: 29367--29396 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
29357 AATTTTAAAA
29367 TTATATATTTATATT
1 TTATATATTTATATT
*
29382 TTATATATTTTTATT
1 TTATATATTTATATT
29397 AAAATAATTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TTATATATTTATATT
Found at i:29639 original size:19 final size:19
Alignment explanation
Indices: 29585--29679 Score: 73
Period size: 19 Copynumber: 5.3 Consensus size: 19
29575 ATTAAATATG
29585 ATATAATT-AAATATATAA
1 ATATAATTAAAATATATAA
*
29603 A-A-AA-TATAAT-TA-AA
1 ATATAATTAAAATATATAA
*
29617 ATATAATATAAAA-GTATAA
1 ATATAAT-TAAAATATATAA
29636 ATATAATTAAAATATATAA
1 ATATAATTAAAATATATAA
*
29655 ATAT--TTAAAAATTTATATA
1 ATATAATT-AAAATATATA-A
29674 ATATAA
1 ATATAA
29680 ATTATTAACA
Statistics
Matches: 61, Mismatches: 4, Indels: 21
0.71 0.05 0.24
Matches are distributed among these distances:
14 3 0.05
15 4 0.07
16 7 0.11
17 3 0.05
18 21 0.34
19 23 0.38
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (19 bp):
ATATAATTAAAATATATAA
Found at i:29650 original size:11 final size:11
Alignment explanation
Indices: 29585--29651 Score: 65
Period size: 11 Copynumber: 6.5 Consensus size: 11
29575 ATTAAATATG
29585 ATATAATTAAA
1 ATATAATTAAA
29596 TATATAA--AAA
1 -ATATAATTAAA
29606 ATATAATTAAA
1 ATATAATTAAA
29617 ATATAATATAAA
1 ATATAAT-TAAA
*
29629 A-GT-A-T-AA
1 ATATAATTAAA
29636 ATATAATTAAA
1 ATATAATTAAA
29647 ATATA
1 ATATA
29652 TAAATATTTA
Statistics
Matches: 46, Mismatches: 2, Indels: 15
0.73 0.03 0.24
Matches are distributed among these distances:
7 3 0.07
8 2 0.04
9 7 0.15
10 5 0.11
11 18 0.39
12 11 0.24
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.34
Consensus pattern (11 bp):
ATATAATTAAA
Found at i:29680 original size:17 final size:17
Alignment explanation
Indices: 29617--29727 Score: 51
Period size: 19 Copynumber: 6.6 Consensus size: 17
29607 TATAATTAAA
**
29617 ATATAATATAAAAGTATAA
1 ATATAATATAAAA--ATTT
*
29636 ATATAAT-T-AAAATAT
1 ATATAATATAAAAATTT
29651 ATA-AATATTTAAAAATTT
1 ATATAATA--TAAAAATTT
29669 ATATAATAT--AAA-TT
1 ATATAATATAAAAATTT
* *
29683 AT-TAACATATCAAATTT
1 ATATAATATA-AAAATTT
29700 ATATAAATATAAAATATTT
1 ATAT-AATATAAAA-ATTT
29719 -TA-AATATAA
1 ATATAATATAA
29728 TAATAAAATA
Statistics
Matches: 75, Mismatches: 5, Indels: 27
0.70 0.05 0.25
Matches are distributed among these distances:
13 5 0.07
14 7 0.09
15 9 0.12
16 10 0.13
17 9 0.12
18 15 0.20
19 20 0.27
ACGTcount: A:0.58, C:0.02, G:0.01, T:0.40
Consensus pattern (17 bp):
ATATAATATAAAAATTT
Found at i:29743 original size:21 final size:21
Alignment explanation
Indices: 29719--29761 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
29709 TAAAATATTT
29719 TAAATATAATAATAAA-ATAAA
1 TAAATATAAT-ATAAATATAAA
29740 TAAATATAATATAAATATAAA
1 TAAATATAATATAAATATAAA
29761 T
1 T
29762 TAACTTGCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (21 bp):
TAAATATAATATAAATATAAA
Found at i:29748 original size:15 final size:17
Alignment explanation
Indices: 29719--29759 Score: 59
Period size: 15 Copynumber: 2.5 Consensus size: 17
29709 TAAAATATTT
29719 TAAATATAATAATAAAA
1 TAAATATAATAATAAAA
*
29736 TAAATA-AAT-ATAATA
1 TAAATATAATAATAAAA
29751 TAAATATAA
1 TAAATATAA
29760 ATTAACTTGC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 11 0.50
16 5 0.23
17 6 0.27
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
TAAATATAATAATAAAA
Found at i:30209 original size:35 final size:35
Alignment explanation
Indices: 30148--30215 Score: 86
Period size: 35 Copynumber: 1.9 Consensus size: 35
30138 TTTATAATTA
* *
30148 AATTTAAATAAATTAATTTGTTATTAATAAATAAT
1 AATTTAAATAAATTAATTTGTAATTAAAAAATAAT
30183 AATTTAAATAAGATCT-ATTTG-AATTAAAAAATA
1 AATTTAAATAA-AT-TAATTTGTAATTAAAAAATA
30216 TTTGTCTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
35 21 0.72
36 7 0.24
37 1 0.03
ACGTcount: A:0.53, C:0.01, G:0.04, T:0.41
Consensus pattern (35 bp):
AATTTAAATAAATTAATTTGTAATTAAAAAATAAT
Found at i:31090 original size:14 final size:16
Alignment explanation
Indices: 31073--31109 Score: 60
Period size: 14 Copynumber: 2.4 Consensus size: 16
31063 ATATTTTTAA
31073 TTAATTTTAT-ATT-T
1 TTAATTTTATAATTAT
31087 TTAATTTTATAATTAT
1 TTAATTTTATAATTAT
31103 TTAATTT
1 TTAATTT
31110 AAAAAATTGC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 10 0.48
15 3 0.14
16 8 0.38
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TTAATTTTATAATTAT
Found at i:31183 original size:21 final size:22
Alignment explanation
Indices: 31143--31183 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
31133 GTAACTTCTT
* *
31143 ATTTTTTTCACTTTTTTTATTA
1 ATTTTTTTCACTTGTATTATTA
31165 ATTTTTTT-ACTTGTATTAT
1 ATTTTTTTCACTTGTATTAT
31184 GAGTGTATCG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.20, C:0.07, G:0.02, T:0.71
Consensus pattern (22 bp):
ATTTTTTTCACTTGTATTATTA
Found at i:31643 original size:22 final size:22
Alignment explanation
Indices: 31618--31659 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
31608 TATTTTTATT
31618 TAAATT-TAATTATAAAAATATA
1 TAAATTATAA-TATAAAAATATA
*
31640 TAAATTATAATATTAAAATA
1 TAAATTATAATATAAAAATA
31660 ATATTTTGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
TAAATTATAATATAAAAATATA
Found at i:31696 original size:30 final size:29
Alignment explanation
Indices: 31639--31696 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
31629 ATAAAAATAT
*
31639 ATAAATTATAATATTAAAATAATATTTTG
1 ATAAATTATAATAGTAAAATAATATTTTG
31668 ATAATATTATAGATAGTAAAATAA-ATTTT
1 ATAA-ATTATA-ATAGTAAAATAATATTTT
31697 TAAACTAACA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 4 0.15
30 11 0.42
31 11 0.42
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (29 bp):
ATAAATTATAATAGTAAAATAATATTTTG
Found at i:32390 original size:18 final size:19
Alignment explanation
Indices: 32367--32404 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
32357 AAATAATTTT
*
32367 ATATAAAT-TTGATATAAA
1 ATATAAATATTAATATAAA
32385 ATATAAATATTAATATAAA
1 ATATAAATATTAATATAAA
32404 A
1 A
32405 CTAATTCTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (19 bp):
ATATAAATATTAATATAAA
Found at i:37623 original size:19 final size:19
Alignment explanation
Indices: 37573--37625 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 19
37563 TACTTATTAT
*
37573 TATCTTAAATAAATATATT
1 TATCTTAAATAAATATATA
37592 TA-CTTAAATTAAATATATA
1 TATCTTAAA-TAAATATATA
*
37611 TATCCTAAATAAATA
1 TATCTTAAATAAATA
37626 AAATAAAAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 6 0.20
19 19 0.63
20 5 0.17
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.42
Consensus pattern (19 bp):
TATCTTAAATAAATATATA
Found at i:39716 original size:32 final size:34
Alignment explanation
Indices: 39669--39734 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 34
39659 AAATATTATA
39669 ATTTTTTATAAA-TTTTTATACGTTAATA-ATTC
1 ATTTTTTATAAATTTTTTATACGTTAATATATTC
** *
39701 ATTTTTTATGTATTTTTTATACGTTCATATATTC
1 ATTTTTTATAAATTTTTTATACGTTAATATATTC
39735 GTGTCATATT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 10 0.34
33 15 0.52
34 4 0.14
ACGTcount: A:0.29, C:0.08, G:0.05, T:0.59
Consensus pattern (34 bp):
ATTTTTTATAAATTTTTTATACGTTAATATATTC
Found at i:39907 original size:11 final size:12
Alignment explanation
Indices: 39893--39944 Score: 58
Period size: 11 Copynumber: 4.7 Consensus size: 12
39883 TTATATCATG
39893 TTTATGTTAT-T
1 TTTATGTTATAT
39904 TTTATGTTATAT
1 TTTATGTTATAT
39916 TTTAT-TTATA-
1 TTTATGTTATAT
* *
39926 TATAT-ATATAT
1 TTTATGTTATAT
39937 TTTATGTT
1 TTTATGTT
39945 CGTATCATAT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
10 8 0.24
11 19 0.56
12 7 0.21
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (12 bp):
TTTATGTTATAT
Found at i:40238 original size:32 final size:32
Alignment explanation
Indices: 40202--40263 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 32
40192 GTATTATAAA
40202 TTTATATAAAATTTT-ACATATTAATAATTTAT
1 TTTATAT-AAATTTTGACATATTAATAATTTAT
* *
40234 TTTATATAAATTTTGACATGTTCATAATTT
1 TTTATATAAATTTTGACATATTAATAATTT
40264 TATGTTATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 7 0.26
32 20 0.74
ACGTcount: A:0.39, C:0.05, G:0.03, T:0.53
Consensus pattern (32 bp):
TTTATATAAATTTTGACATATTAATAATTTAT
Found at i:42316 original size:56 final size:56
Alignment explanation
Indices: 42251--42366 Score: 205
Period size: 56 Copynumber: 2.1 Consensus size: 56
42241 TTTTATCTAC
42251 ATCAAATCCTTTCATAATTCCTTCAAATTCAAGTTCAAATCAAATATCTACATCCA
1 ATCAAATCCTTTCATAATTCCTTCAAATTCAAGTTCAAATCAAATATCTACATCCA
* * *
42307 ATCAAATCCTTTCATAATTCCTTCAAATTCAAGTTCAAATCAATTATGTACCTCCA
1 ATCAAATCCTTTCATAATTCCTTCAAATTCAAGTTCAAATCAAATATCTACATCCA
42363 ATCA
1 ATCA
42367 CAATTTGTAT
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.38, C:0.25, G:0.03, T:0.34
Consensus pattern (56 bp):
ATCAAATCCTTTCATAATTCCTTCAAATTCAAGTTCAAATCAAATATCTACATCCA
Found at i:42562 original size:16 final size:17
Alignment explanation
Indices: 42536--42567 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
42526 ATATATACAT
42536 GCATGGCATACATGCAA
1 GCATGGCATACATGCAA
42553 GCAT-GCATACATGCA
1 GCATGGCATACATGCA
42568 TGCGCGTGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.34, C:0.25, G:0.22, T:0.19
Consensus pattern (17 bp):
GCATGGCATACATGCAA
Found at i:47270 original size:16 final size:16
Alignment explanation
Indices: 47206--47270 Score: 55
Period size: 16 Copynumber: 4.1 Consensus size: 16
47196 ATCTTTAAAA
*
47206 TTAATA-ATTTTAATT
1 TTAATATATTTTTATT
* *
47221 AT-ATAAATTTTATATT
1 TTAATATATTTT-TATT
*
47237 TATATTAT-TTTTTATT
1 T-TAATATATTTTTATT
47253 TTAATATATTTTTATT
1 TTAATATATTTTTATT
47269 TT
1 TT
47271 TCTATTATAT
Statistics
Matches: 39, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
14 3 0.08
15 11 0.28
16 18 0.46
17 5 0.13
18 2 0.05
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TTAATATATTTTTATT
Found at i:47277 original size:34 final size:32
Alignment explanation
Indices: 47214--47299 Score: 93
Period size: 34 Copynumber: 2.6 Consensus size: 32
47204 AATTAATAAT
*
47214 TTTA-ATTATATAAATTTTATATTTATATTATTT
1 TTTATATTATAT-AATTTTATATTTATATTA-TA
* * * *
47247 TTTATTTTAATATATTTTTATTTTTCTATTATA
1 TTTATATT-ATATAATTTTATATTTATATTATA
47280 TTTATATTATATAATTTTAT
1 TTTATATTATATAATTTTAT
47300 CATATTTAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
32 11 0.25
33 12 0.27
34 17 0.39
35 4 0.09
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (32 bp):
TTTATATTATATAATTTTATATTTATATTATA
Found at i:47446 original size:10 final size:11
Alignment explanation
Indices: 47433--47475 Score: 51
Period size: 10 Copynumber: 4.4 Consensus size: 11
47423 TTTAAAATAT
47433 TATAA-ATTTA
1 TATAATATTTA
47443 TATAATATTTA
1 TATAATATTTA
47454 TA-AATATTT-
1 TATAATATTTA
47463 T-T-ATATTTA
1 TATAATATTTA
47472 TATA
1 TATA
47476 TTAATATCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
8 6 0.21
9 2 0.07
10 13 0.46
11 7 0.25
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
TATAATATTTA
Found at i:47451 original size:27 final size:29
Alignment explanation
Indices: 47404--47475 Score: 80
Period size: 27 Copynumber: 2.6 Consensus size: 29
47394 AAAATTTAAG
* *
47404 TATTTAT--ATTTTTATATTATTTA-AAA
1 TATTTATAAATTTATATAATATTTATAAA
47430 TA-TTATAAATTTATATAATATTTATAAA
1 TATTTATAAATTTATATAATATTTATAAA
* *
47458 TATTTTTATATTTATATA
1 TATTTATAAATTTATATA
47476 TTAATATCAT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
25 4 0.11
26 2 0.05
27 14 0.37
28 5 0.13
29 13 0.34
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (29 bp):
TATTTATAAATTTATATAATATTTATAAA
Found at i:47456 original size:19 final size:19
Alignment explanation
Indices: 47428--47491 Score: 62
Period size: 19 Copynumber: 3.5 Consensus size: 19
47418 TATTATTTAA
47428 AATA-TTATAAATTTATAT
1 AATATTTATAAATTTATAT
47446 AATATTTATAAATATT-T-T
1 AATATTTATAAAT-TTATAT
* * *
47464 TATATTTATATATTAATAT
1 AATATTTATAAATTTATAT
*
47483 CATATTTAT
1 AATATTTAT
47492 TTTTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
17 1 0.03
18 17 0.45
19 18 0.47
20 2 0.05
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (19 bp):
AATATTTATAAATTTATAT
Found at i:49165 original size:16 final size:16
Alignment explanation
Indices: 49146--49219 Score: 69
Period size: 16 Copynumber: 4.7 Consensus size: 16
49136 CCTGAATTCG
*
49146 AAATAATTTAAATTTA
1 AAATAATTTAAACTTA
49162 AAATAATTTAAACTTA
1 AAATAATTTAAACTTA
** * *
49178 AAATAACCTAATC-CA
1 AAATAATTTAAACTTA
* * *
49193 AAATGATCTAAACTCA
1 AAATAATTTAAACTTA
49209 AAATAATTTAA
1 AAATAATTTAA
49220 CCTGATTGAT
Statistics
Matches: 47, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
15 11 0.23
16 36 0.77
ACGTcount: A:0.55, C:0.11, G:0.01, T:0.32
Consensus pattern (16 bp):
AAATAATTTAAACTTA
Found at i:49292 original size:22 final size:19
Alignment explanation
Indices: 49260--49303 Score: 61
Period size: 22 Copynumber: 2.2 Consensus size: 19
49250 TATTAAACTC
49260 AATTAATCTAAATTTGATTA
1 AATTAATCTAAATTTGA-TA
49280 AATTAAATACTAAATTTGATA
1 AATT-AAT-CTAAATTTGATA
49301 AAT
1 AAT
49304 CCAAAATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 4 0.18
21 8 0.36
22 10 0.45
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.41
Consensus pattern (19 bp):
AATTAATCTAAATTTGATA
Found at i:49977 original size:25 final size:26
Alignment explanation
Indices: 49919--49977 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
49909 ATATTAATTT
49919 AATTAAAATTTATACATAAAAATCAA
1 AATTAAAATTTATACATAAAAATCAA
* *
49945 AATCAAAA-TTATACTATCAAAAT-AA
1 AATTAAAATTTATAC-ATAAAAATCAA
*
49970 ATTTAAAA
1 AATTAAAA
49978 ATATTTTAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
25 14 0.50
26 14 0.50
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.31
Consensus pattern (26 bp):
AATTAAAATTTATACATAAAAATCAA
Found at i:50357 original size:2 final size:2
Alignment explanation
Indices: 50350--50377 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
50340 TGAATGTCTA
50350 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
50378 GAATCGAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:50417 original size:45 final size:46
Alignment explanation
Indices: 50368--50468 Score: 168
Period size: 46 Copynumber: 2.2 Consensus size: 46
50358 ATATATATAT
* *
50368 ATATATATATGAATCG-AAAAATTATTGTATTAAATTGAATGTCTA
1 ATATATATATGAATCGAAAAAATTATTGCATTAAATTGAATGTCCA
*
50413 ATATATATATGAATTGAAAAAATTATTGCATTAAATTGAATGTCCA
1 ATATATATATGAATCGAAAAAATTATTGCATTAAATTGAATGTCCA
50459 ATATATATAT
1 ATATATATAT
50469 ATATATATAT
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
45 15 0.29
46 37 0.71
ACGTcount: A:0.46, C:0.05, G:0.10, T:0.40
Consensus pattern (46 bp):
ATATATATATGAATCGAAAAAATTATTGCATTAAATTGAATGTCCA
Found at i:50466 original size:2 final size:2
Alignment explanation
Indices: 50459--50492 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
50449 TGAATGTCCA
50459 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
50493 CATAATAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:52016 original size:23 final size:24
Alignment explanation
Indices: 51990--52037 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
51980 CTAAATTTTT
* *
51990 AAATAATAATAA-TTGATTAATTC
1 AAATAAAAATAATTTGATAAATTC
52013 AAATAAAAATAATTTGATAAATTC
1 AAATAAAAATAATTTGATAAATTC
52037 A
1 A
52038 TTTCAAAGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 11 0.50
24 11 0.50
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.35
Consensus pattern (24 bp):
AAATAAAAATAATTTGATAAATTC
Found at i:52202 original size:15 final size:17
Alignment explanation
Indices: 52171--52203 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
52161 AAATTCTTAT
52171 TATTTTGTAATTAAAAA
1 TATTTTGTAATTAAAAA
52188 TATTTTG-AA-TAAAAA
1 TATTTTGTAATTAAAAA
52203 T
1 T
52204 GATAAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 2 0.12
17 7 0.44
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.45
Consensus pattern (17 bp):
TATTTTGTAATTAAAAA
Found at i:53526 original size:16 final size:15
Alignment explanation
Indices: 53503--53557 Score: 56
Period size: 16 Copynumber: 3.5 Consensus size: 15
53493 AAATCTATAT
53503 AATATAAAATATTTA
1 AATATAAAATATTTA
* *
53518 AATATTAAAATTAATAA
1 AATA-TAAAA-TATTTA
*
53535 AAAATAAAATATTTAA
1 AATATAAAATATTT-A
53551 AATATAA
1 AATATAA
53558 TTAAAATTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
15 7 0.23
16 17 0.55
17 7 0.23
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
AATATAAAATATTTA
Found at i:53575 original size:18 final size:20
Alignment explanation
Indices: 53536--53580 Score: 67
Period size: 18 Copynumber: 2.4 Consensus size: 20
53526 AATTAATAAA
53536 AAATAAAATATTTAAAATAT
1 AAATAAAATATTTAAAATAT
*
53556 AATTAAAAT-TTTAAAA-AT
1 AAATAAAATATTTAAAATAT
53574 AAATAAA
1 AAATAAA
53581 TATAATATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 8 0.35
19 7 0.30
20 8 0.35
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
AAATAAAATATTTAAAATAT
Found at i:53771 original size:29 final size:25
Alignment explanation
Indices: 53739--53808 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 25
53729 CTTGAACATG
53739 ATATTGATAAATAATATAAAATATAATTA
1 ATATT-AT-AATAATATAAAA-A-AATTA
53768 ATATTAT-ATAATAT-AAAAAATTA
1 ATATTATAATAATATAAAAAAATTA
53791 ATATTA-ATATAATATAAA
1 ATATTATA-ATAATATAAA
53809 TATTTAAATA
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
23 11 0.29
24 8 0.21
25 5 0.13
26 7 0.18
28 2 0.05
29 5 0.13
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (25 bp):
ATATTATAATAATATAAAAAAATTA
Found at i:53776 original size:5 final size:5
Alignment explanation
Indices: 53745--53857 Score: 55
Period size: 5 Copynumber: 23.4 Consensus size: 5
53735 CATGATATTG
* *
53745 ATAA- ATAAT ATAAAAT ATAAT -TAAT ATTAT ATAAT ATAA- AAAAT -TAAT
1 ATAAT ATAAT AT--AAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
* * * *
53793 ATTAAT ATAAT ATAA- AT-AT TTAAAT ATATT AAAAT -TTAT ATAAAT
1 A-TAAT ATAAT ATAAT ATAAT AT-AAT ATAAT ATAAT ATAAT AT-AAT
*
53838 ATAA- ATTAT -TAAT ATAAT AT
1 ATAAT ATAAT ATAAT ATAAT AT
53858 TTAAAATATA
Statistics
Matches: 81, Mismatches: 14, Indels: 27
0.66 0.11 0.22
Matches are distributed among these distances:
3 1 0.01
4 25 0.31
5 38 0.47
6 12 0.15
7 5 0.06
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
ATAAT
Found at i:53785 original size:26 final size:26
Alignment explanation
Indices: 53749--53871 Score: 91
Period size: 26 Copynumber: 4.7 Consensus size: 26
53739 ATATTGATAA
53749 ATAATATAAAATATAATTAATATTAT
1 ATAATATAAAATATAATTAATATTAT
53775 ATAATAT-AAA-A-AATTAATATTAAT
1 ATAATATAAAATATAATTAATATT-AT
* *
53799 ATAATATAAATATTTAAAT-ATATTA-
1 ATAATATAAA-ATATAATTAATATTAT
*
53824 A-AATTTATATAAATATAAATT-AT-TAAT
1 ATAA--TATA-AAATAT-AATTAATATTAT
53851 ATAATATTTAAAATATAATTA
1 ATAATA--TAAAATATAATTA
53872 TCATATATAA
Statistics
Matches: 78, Mismatches: 5, Indels: 27
0.71 0.05 0.25
Matches are distributed among these distances:
23 10 0.13
24 12 0.15
25 6 0.08
26 24 0.31
27 19 0.24
28 7 0.09
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (26 bp):
ATAATATAAAATATAATTAATATTAT
Found at i:53798 original size:6 final size:6
Alignment explanation
Indices: 53764--53858 Score: 51
Period size: 6 Copynumber: 16.5 Consensus size: 6
53754 ATAAAATATA
* * *
53764 ATTAAT ATT-AT A-TAAT ATAAAAA ATTAAT ATTAAT A-TAAT ATAAAT
1 ATTAAT ATTAAT ATTAAT AT-TAAT ATTAAT ATTAAT ATTAAT ATTAAT
* * * *
53810 ATTTAA- A-T-AT ATTAAA ATTTAT ATAAAT ATAAATT ATTAAT A-TAAT
1 A-TTAAT ATTAAT ATTAAT ATTAAT ATTAAT ATTAA-T ATTAAT ATTAAT
53856 ATT
1 ATT
53859 TAAAATATAA
Statistics
Matches: 67, Mismatches: 12, Indels: 20
0.68 0.12 0.20
Matches are distributed among these distances:
3 1 0.01
4 3 0.04
5 17 0.25
6 34 0.51
7 12 0.18
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (6 bp):
ATTAAT
Found at i:53815 original size:24 final size:24
Alignment explanation
Indices: 53749--53857 Score: 87
Period size: 24 Copynumber: 4.3 Consensus size: 24
53739 ATATTGATAA
53749 ATAATATAAAATATAATTAATATT-AT
1 ATAATAT-AAATAT--TTAATATTAAT
* *
53775 ATAATATAAAAAATTAATATTAAT
1 ATAATATAAATATTTAATATTAAT
*
53799 ATAATATAAATATTTAAATATATTAAA
1 ATAATATAAATATTT--A-ATATTAAT
* *
53826 ATTTATATAAATA-TAAATTATTAAT
1 A-TAATATAAATATTTAA-TATTAAT
53851 ATAATAT
1 ATAATAT
53858 TTAAAATATA
Statistics
Matches: 68, Mismatches: 9, Indels: 14
0.75 0.10 0.15
Matches are distributed among these distances:
23 8 0.12
24 21 0.31
25 12 0.18
26 8 0.12
27 9 0.13
28 10 0.15
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (24 bp):
ATAATATAAATATTTAATATTAAT
Found at i:53851 original size:58 final size:56
Alignment explanation
Indices: 53747--53896 Score: 144
Period size: 58 Copynumber: 2.6 Consensus size: 56
53737 TGATATTGAT
* *
53747 AAATAATATAAAATATAATTAATA-TTATAT-AATATAAAAAATTAATATTAATATAATA
1 AAAT-ATATTAAATAT-ATTAAAATTTATATAAATATAAAAAATTAATA-TAATAT-ATA
** *
53805 TAAATAT-TTAAATATATTAAAATTTATATAAATATAAATTATTAATATAATATTTA
1 -AAATATATTAAATATATTAAAATTTATATAAATATAAAAAATTAATATAATATATA
* * *
53861 AAATATAATTATCATATATAAAAATATATATAAATA
1 AAATAT-ATTA-AATATATTAAAATTTATATAAATA
53897 CAGTTCCAAC
Statistics
Matches: 78, Mismatches: 8, Indels: 11
0.80 0.08 0.11
Matches are distributed among these distances:
55 6 0.08
56 8 0.10
57 22 0.28
58 38 0.49
59 4 0.05
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.41
Consensus pattern (56 bp):
AAATATATTAAATATATTAAAATTTATATAAATATAAAAAATTAATATAATATATA
Found at i:53852 original size:33 final size:33
Alignment explanation
Indices: 53763--53878 Score: 89
Period size: 33 Copynumber: 3.5 Consensus size: 33
53753 TATAAAATAT
* *
53763 AATTAATATTATAT-AATA--TAAA-AAATTAA
1 AATTAATATAATATAAATATTTAAATATATTAA
*
53792 TATTAATATAATATAAATATTTAAATATATTAA
1 AATTAATATAATATAAATATTTAAATATATTAA
*
53825 AATTTATATAAATATAAAT-TATTAATATAATATTTAA
1 AATTAATAT-AATATAAATAT-TTAA-AT-ATA-TTAA
*
53862 AATATAATTATCATATA
1 AAT-TAA-TATAATATA
53879 TAAAAATATA
Statistics
Matches: 69, Mismatches: 7, Indels: 13
0.78 0.08 0.15
Matches are distributed among these distances:
29 12 0.17
30 4 0.06
32 4 0.06
33 14 0.20
34 13 0.19
35 2 0.03
36 3 0.04
37 7 0.10
38 7 0.10
39 3 0.04
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (33 bp):
AATTAATATAATATAAATATTTAAATATATTAA
Found at i:53869 original size:19 final size:19
Alignment explanation
Indices: 53755--53893 Score: 63
Period size: 19 Copynumber: 7.8 Consensus size: 19
53745 ATAAATAATA
53755 TAAAATATAAT-TAATATT
1 TAAAATATAATATAATATT
*
53773 ATATAATATAA-A-AA-A-T
1 -TAAAATATAATATAATATT
*
53789 TAATAT-TAATATAATA--
1 TAAAATATAATATAATATT
*
53805 T-AAATAT-TTA-AATATAT
1 TAAAATATAATATAATAT-T
* *
53822 TAAAAT-TTATATAA-ATA
1 TAAAATATAATATAATATT
*
53839 TAAATTATTAATATAATATT
1 TAAAATA-TAATATAATATT
* *
53859 TAAAATATAATTATCATATA
1 TAAAATATAA-TATAATATT
53879 TAAAA-ATATATATAA
1 TAAAATATA-ATATAA
53894 ATACAGTTCC
Statistics
Matches: 90, Mismatches: 14, Indels: 32
0.66 0.10 0.24
Matches are distributed among these distances:
14 7 0.08
15 10 0.11
16 5 0.06
17 9 0.10
18 10 0.11
19 28 0.31
20 21 0.23
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.42
Consensus pattern (19 bp):
TAAAATATAATATAATATT
Found at i:54211 original size:20 final size:21
Alignment explanation
Indices: 54179--54217 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
54169 TTAAATTCGT
54179 AAATTATTTAAATTCAATTAA
1 AAATTATTTAAATTCAATTAA
*
54200 AAATTA-TTAAATTTAATT
1 AAATTATTTAAATTCAATT
54218 TATTTTTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (21 bp):
AAATTATTTAAATTCAATTAA
Found at i:55739 original size:13 final size:13
Alignment explanation
Indices: 55721--55754 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
55711 ATATATAACT
55721 AAATTATTTTAAA
1 AAATTATTTTAAA
*
55734 AAATTATTTTTAA
1 AAATTATTTTAAA
55747 AAATTATT
1 AAATTATT
55755 AGTTTATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
AAATTATTTTAAA
Found at i:59509 original size:12 final size:13
Alignment explanation
Indices: 59484--59512 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
59474 ACTTTCTCCT
59484 TGCATGCAAGACA
1 TGCATGCAAGACA
59497 TGCATGC-AGACA
1 TGCATGCAAGACA
59509 TGCA
1 TGCA
59513 CGTGCGTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.34, C:0.24, G:0.24, T:0.17
Consensus pattern (13 bp):
TGCATGCAAGACA
Found at i:64896 original size:2 final size:2
Alignment explanation
Indices: 64889--64918 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
64879 ACATAAAATT
64889 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
64919 AAACTCAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:66239 original size:16 final size:16
Alignment explanation
Indices: 66220--66267 Score: 69
Period size: 16 Copynumber: 3.0 Consensus size: 16
66210 TTTGTCTATC
*
66220 TTTTTTTTCTCTTTCT
1 TTTTTTTTCTCTCTCT
*
66236 TTTTTTCTCTCTCTCT
1 TTTTTTTTCTCTCTCT
*
66252 TTTTTTTTCTTTCTCT
1 TTTTTTTTCTCTCTCT
66268 CCCTTCACGA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTTTTTTCTCTCTCT
Found at i:66240 original size:14 final size:14
Alignment explanation
Indices: 66221--66265 Score: 63
Period size: 14 Copynumber: 3.1 Consensus size: 14
66211 TTGTCTATCT
66221 TTTTTTTCTCTTTC
1 TTTTTTTCTCTTTC
66235 TTTTTTTCTCTCTCTC
1 TTTTTTTCTCT-T-TC
*
66251 TTTTTTTTTCTTTC
1 TTTTTTTCTCTTTC
66265 T
1 T
66266 CTCCCTTCAC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 14 0.50
15 2 0.07
16 12 0.43
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (14 bp):
TTTTTTTCTCTTTC
Found at i:66241 original size:18 final size:18
Alignment explanation
Indices: 66220--66268 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
66210 TTTGTCTATC
66220 TTTTT-TTTCTCT-TTCTT
1 TTTTTCTTTCTCTCTT-TT
*
66237 TTTTTCTCTCTCTCTTTT
1 TTTTTCTTTCTCTCTTTT
66255 TTTTTCTTTCTCTC
1 TTTTTCTTTCTCTC
66269 CCTTCACGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 5 0.18
18 21 0.75
19 2 0.07
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTTTCTTTCTCTCTTTT
Found at i:66836 original size:21 final size:22
Alignment explanation
Indices: 66812--66863 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
66802 AATTATTGAT
*
66812 ATATAACATATT-TATAT-AAAA
1 ATATAA-ATATTATAAATAAAAA
66833 ATAT-AATATTATAAATAAAAA
1 ATATAAATATTATAAATAAAAA
66854 ATATAAATAT
1 ATATAAATAT
66864 AAAAATATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 5 0.19
20 5 0.19
21 12 0.44
22 5 0.19
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (22 bp):
ATATAAATATTATAAATAAAAA
Found at i:66864 original size:50 final size:49
Alignment explanation
Indices: 66775--66873 Score: 110
Period size: 50 Copynumber: 2.0 Consensus size: 49
66765 ATATAAATAC
* * ** *
66775 ATATAAAAATATACATAAAATAAAATAAATTATTGATATATAACATATTT
1 ATATAAAAATATACATAAAATAAAAAAAAATATAAATATA-AAAATATTT
**
66825 ATATAAAAATATA-ATATTATAAATAAAAAATATAAATATAAAAATATTT
1 ATATAAAAATATACATAAAATAAA-AAAAAATATAAATATAAAAATATTT
66874 TTTTTCCTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
49 16 0.39
50 25 0.61
ACGTcount: A:0.62, C:0.02, G:0.01, T:0.35
Consensus pattern (49 bp):
ATATAAAAATATACATAAAATAAAAAAAAATATAAATATAAAAATATTT
Found at i:66867 original size:14 final size:14
Alignment explanation
Indices: 66831--66871 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
66821 ATTTATATAA
* *
66831 AAATATAATATTAT
1 AAATATAAAAATAT
66845 AAATA-AAAAATAT
1 AAATATAAAAATAT
66858 AAATATAAAAATAT
1 AAATATAAAAATAT
66872 TTTTTTTCCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
AAATATAAAAATAT
Found at i:66869 original size:21 final size:21
Alignment explanation
Indices: 66829--66870 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
66819 ATATTTATAT
*
66829 AAAAATATAATATTATAAATA
1 AAAAATATAATATTAAAAATA
66850 AAAAATATAA-ATATAAAAATA
1 AAAAATATAATAT-TAAAAATA
66871 TTTTTTTTCC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (21 bp):
AAAAATATAATATTAAAAATA
Found at i:67044 original size:18 final size:18
Alignment explanation
Indices: 67021--67088 Score: 70
Period size: 18 Copynumber: 3.8 Consensus size: 18
67011 GGTATTGATT
67021 ATAACATAAATTTGTGTC
1 ATAACATAAATTTGTGTC
67039 ATAACATAAA-TT-TGTC
1 ATAACATAAATTTGTGTC
** *
67055 ATATA-ATATGTCATGTGTC
1 ATA-ACATAAAT-TTGTGTC
67074 ATAACATAAATTTGT
1 ATAACATAAATTTGT
67089 ATTGATTATA
Statistics
Matches: 39, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
16 10 0.26
17 3 0.08
18 15 0.38
19 11 0.28
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (18 bp):
ATAACATAAATTTGTGTC
Found at i:67401 original size:22 final size:22
Alignment explanation
Indices: 67371--67431 Score: 58
Period size: 21 Copynumber: 2.8 Consensus size: 22
67361 ATATTTTTGA
67371 AATT-ATAGTTAATAAAAAAAT
1 AATTAATAGTTAATAAAAAAAT
67392 AATTAATAGTGT--TAAAAAAAT
1 AATTAATAGT-TAATAAAAAAAT
*
67413 ATTTTAAATA-TTAATAAAA
1 A-ATT-AATAGTTAATAAAA
67432 TTTTAACGTG
Statistics
Matches: 33, Mismatches: 1, Indels: 10
0.75 0.02 0.23
Matches are distributed among these distances:
21 15 0.45
22 8 0.24
23 10 0.30
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (22 bp):
AATTAATAGTTAATAAAAAAAT
Found at i:69524 original size:86 final size:87
Alignment explanation
Indices: 69413--69588 Score: 255
Period size: 86 Copynumber: 2.0 Consensus size: 87
69403 AAAGAAAAAG
* * * * *
69413 AAAAGTTGATTAATTGTAAATGTCAAATTGTAAAGATTAGACTAATGTATGAATTATATCTGAGA
1 AAAAGTTGATTAACTGTAAATGTCAAACTGCAAAGATTAGACTAATGCATAAATTATATCTGAGA
* *
69478 ATTGAATTCTTTTTTAT-GAAA
66 AATAAATTCTTTTTTATAGAAA
* * *
69499 AAAAGTTGATTGACTGTAAATGTCAAACTGCAAGGATTAGACTAATGCATAAATTATATCTGATA
1 AAAAGTTGATTAACTGTAAATGTCAAACTGCAAAGATTAGACTAATGCATAAATTATATCTGAGA
69564 AATAAATTCTTTTTTATAGAAA
66 AATAAATTCTTTTTTATAGAAA
69586 AAA
1 AAA
69589 GAAAGATTGC
Statistics
Matches: 79, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
86 72 0.91
87 7 0.09
ACGTcount: A:0.43, C:0.07, G:0.14, T:0.36
Consensus pattern (87 bp):
AAAAGTTGATTAACTGTAAATGTCAAACTGCAAAGATTAGACTAATGCATAAATTATATCTGAGA
AATAAATTCTTTTTTATAGAAA
Found at i:69653 original size:69 final size:69
Alignment explanation
Indices: 69527--69657 Score: 156
Period size: 69 Copynumber: 1.9 Consensus size: 69
69517 AATGTCAAAC
* * *
69527 TGCAAGGATTAGACTAATGCATAAATTATATCTGATAAATAAATTCTTTTTTATAGAAAAAAGAA
1 TGCAAGGATTAGACTAATGCATAAATTATATCTGAGAAATAAATTCATTTTGATAGAAAAAAGAA
69592 AGAT
66 AGAT
* * * * ** *
69596 TGCAAGGATTAGATTAATGCATGAATTGTA-CATGAGAATTGGATTCATTTTGGTAGAAAAAA
1 TGCAAGGATTAGACTAATGCATAAATTATATC-TGAGAAATAAATTCATTTTGATAGAAAAAA
69658 AGTTGATTAA
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
68 1 0.02
69 50 0.98
ACGTcount: A:0.43, C:0.07, G:0.18, T:0.33
Consensus pattern (69 bp):
TGCAAGGATTAGACTAATGCATAAATTATATCTGAGAAATAAATTCATTTTGATAGAAAAAAGAA
AGAT
Found at i:75010 original size:46 final size:46
Alignment explanation
Indices: 74959--75089 Score: 110
Period size: 42 Copynumber: 2.9 Consensus size: 46
74949 CAATTATAAA
**
74959 AATAATACATGTACAATATTAATTAATTTTAATAAAAATAAATTTG-
1 AATAATACATGTACAATATTAATTAATTTTAATAAAAATAAA-AAGC
* * * * *** *
75005 --T-ATA-ATTTATAAAATAAATTAAAAATAATTTATAAATAAAAAGC
1 AATAATACATGTACAATATTAATTAATTTTAA--TAAAAATAAAAAGC
75049 AATAATACATGTACAATATTAATTAATTTTAATAAAAATAA
1 AATAATACATGTACAATATTAATTAATTTTAATAAAAATAA
75090 TATATGTACA
Statistics
Matches: 60, Mismatches: 18, Indels: 14
0.65 0.20 0.15
Matches are distributed among these distances:
42 17 0.28
43 4 0.07
44 10 0.17
46 9 0.15
47 3 0.05
48 17 0.28
ACGTcount: A:0.56, C:0.04, G:0.03, T:0.37
Consensus pattern (46 bp):
AATAATACATGTACAATATTAATTAATTTTAATAAAAATAAAAAGC
Found at i:75505 original size:296 final size:297
Alignment explanation
Indices: 74509--76042 Score: 2510
Period size: 296 Copynumber: 5.2 Consensus size: 297
74499 AAGTTGAGGA
* *
74509 AAATTTTTTCTTAGTCATTTTACAGATAAAGGAAAGCTCGTATTTAAGTCATTACTGAAAAGTGA
1 AAATTTTTTCTTGGTCATTTTACAGATAAAGGAAAGCTCGTATTTAAGTCATTAC-GAAAAATGA
* * *
74574 AATGTGT--GTCTATAAATCCAAAATAAGTCGTTATTGAAAAAAGTAATTTATTGTTAGCTAACA
65 AATGTGTGCGTCTATAAATCCGAAATAAGTCGTTATCGAAAAAAGTAATTTATTGTTAGTTAACA
74637 TAAATTTAAGTTCTATCAATTATAAAAATAATACATGTATAATATTAATTAATTTTAATAAAAAT
130 TAAATTTAAGTTCTATCAATTATAAAAATAATACATGTATAATATTAATTAATTTTAATAAAAAT
*
74702 AAATTTGTATAATTTATAAATAAATTAAAAATAATTTATAAATAAAAAGTAATAATACATGTATA
195 AAATTTGTATAATTTATAAATAAATTAAAAATAATTTATAAATAAAAAGTAATAATACATGTACA
*
74767 ATATTAATTAATTTTAATAAAAATAATACATGTACAAT
260 ATATTAATTAATTTTAATAAAAATAATATATGTACAAT
* * *
74805 ACA-TTTTT-TTGGTCATTTTACAAATAAAGGAAAGCTCGTATTTAAGTCGTTATCGAAAAATGA
1 AAATTTTTTCTTGGTCATTTTACAGATAAAGGAAAGCTCGTATTTAAGTCATTA-CGAAAAATGA
* ** * *
74868 AATGTGTGCGTCTGTAAATCCGAAATAAGTTATTATCAAAAAAAGTAATTTATTGTTGGTTAACA
65 AATGTGTGCGTCTATAAATCCGAAATAAGTCGTTATCGAAAAAAGTAATTTATTGTTAGTTAACA
*
74933 TAAATTTAAGTTCTATCAATTATAAAAATAATACATGTACAATATTAATTAATTTTAATAAAAAT
130 TAAATTTAAGTTCTATCAATTATAAAAATAATACATGTATAATATTAATTAATTTTAATAAAAAT
*
74998 AAATTTGTATAATTTATAAAATAAATTAAAAATAATTTATAAATAAAAAGCAATAATACATGTAC
195 AAATTTGTATAATTTAT-AAATAAATTAAAAATAATTTATAAATAAAAAGTAATAATACATGTAC
75063 AATATTAATTAATTTTAATAAAAATAATATATGTACAAT
259 AATATTAATTAATTTTAATAAAAATAATATATGTACAAT
*
75102 AAATTTTTTCTTGGTCATTTTACAGATAAAGGAAAGCTCGTATTTAAGTCATTACTGAAAAGTGA
1 AAATTTTTTCTTGGTCATTTTACAGATAAAGGAAAGCTCGTATTTAAGTCATTAC-GAAAAATGA
* * *
75167 AATGTGT--GTCTATAAATCCAAAATAAGTCGTTATTGAAAAAAGTAATTTATTGTTAGCTAACA
65 AATGTGTGCGTCTATAAATCCGAAATAAGTCGTTATCGAAAAAAGTAATTTATTGTTAGTTAACA
75230 TAAATTTAAGTTCTATCAATTATAAAAATAATACATGTATAATATTAATTAATTTTAATAAAAAT
130 TAAATTTAAGTTCTATCAATTATAAAAATAATACATGTATAATATTAATTAATTTTAATAAAAAT
*
75295 AAATTTGTATAATTTATAAATAAATTAAAAATAATTTATAAATAAAAAGTAATAATACATGTATA
195 AAATTTGTATAATTTATAAATAAATTAAAAATAATTTATAAATAAAAAGTAATAATACATGTACA
*
75360 ATATTAATTAATTTTAATAAAAATAATACATGTACAAT
260 ATATTAATTAATTTTAATAAAAATAATATATGTACAAT
* * *
75398 ACA-TTTTT-TTGGTCATTTTACAAATAAAGGAAAGCTCGTATTTAAGTCGTTATCGAAAAATGA
1 AAATTTTTTCTTGGTCATTTTACAGATAAAGGAAAGCTCGTATTTAAGTCATTA-CGAAAAATGA
* ** * *
75461 AATGTGTGCGTCTGTAAATCCGAAATAAGTTATTATCAAAAAAAGTAATTTATTGTTGGTTAACA
65 AATGTGTGCGTCTATAAATCCGAAATAAGTCGTTATCGAAAAAAGTAATTTATTGTTAGTTAACA
*
75526 TAAATTTAAGTTCTATCAATTATAAAAATAATACATGTACAATATTAATTAATTTTAATAAAAAT
130 TAAATTTAAGTTCTATCAATTATAAAAATAATACATGTATAATATTAATTAATTTTAATAAAAAT
*
75591 AAATTTGTATAATTTATAAAATAAATTAAAAATAATTTATAAATAAAAAGCAATAATACATGTAC
195 AAATTTGTATAATTTAT-AAATAAATTAAAAATAATTTATAAATAAAAAGTAATAATACATGTAC
75656 AATATTAATTAATTTTAATAAAAATAATATATGTACAAT
259 AATATTAATTAATTTTAATAAAAATAATATATGTACAAT
* * *
75695 AAATTTTTTCTTGGTCATTTTACAGATAAAGGAATGCTCGTATTTAAGTCATTACCAAAAAATAA
1 AAATTTTTTCTTGGTCATTTTACAGATAAAGGAAAGCTCGTATTTAAGTCATTA-CGAAAAATGA
* * * *
75760 AATTTGTGCATCTATAAATCCGAAATAAGTCGTTATCGAAAAAAGTAATTTATTATT-GATTACC
65 AATGTGTGCGTCTATAAATCCGAAATAAGTCGTTATCGAAAAAAGTAATTTATTGTTAG-TTAAC
75824 ATAAATTTAAGTTCTATCAATTATAAAAATAATACATGTATAATATTAATTAATTTTAATAAAAA
129 ATAAATTTAAGTTCTATCAATTATAAAAATAATACATGTATAATATTAATTAATTTTAATAAAAA
* * * *
75889 TAGATTTGTATATTTTATAAATAAATTAAAAATAATTTATAAATAAAAAGTAATAATATATATAC
194 TAAATTTGTATAATTTATAAATAAATTAAAAATAATTTATAAATAAAAAGTAATAATACATGTAC
75954 AATATTAATTAATTTTAATAAAAATAATATATGTACAAT
259 AATATTAATTAATTTTAATAAAAATAATATATGTACAAT
* * *
75993 AAATTTTTTCTTGGTTATTTTACATATAAAGAAAAGCTCGTATTTAAGTC
1 AAATTTTTTCTTGGTCATTTTACAGATAAAGGAAAGCTCGTATTTAAGTC
76043 GTTTTAAATT
Statistics
Matches: 1150, Mismatches: 74, Indels: 26
0.92 0.06 0.02
Matches are distributed among these distances:
294 113 0.10
295 12 0.01
296 345 0.30
297 299 0.26
298 141 0.12
299 240 0.21
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.38
Consensus pattern (297 bp):
AAATTTTTTCTTGGTCATTTTACAGATAAAGGAAAGCTCGTATTTAAGTCATTACGAAAAATGAA
ATGTGTGCGTCTATAAATCCGAAATAAGTCGTTATCGAAAAAAGTAATTTATTGTTAGTTAACAT
AAATTTAAGTTCTATCAATTATAAAAATAATACATGTATAATATTAATTAATTTTAATAAAAATA
AATTTGTATAATTTATAAATAAATTAAAAATAATTTATAAATAAAAAGTAATAATACATGTACAA
TATTAATTAATTTTAATAAAAATAATATATGTACAAT
Found at i:75603 original size:46 final size:46
Alignment explanation
Indices: 75552--75682 Score: 110
Period size: 42 Copynumber: 2.9 Consensus size: 46
75542 CAATTATAAA
**
75552 AATAATACATGTACAATATTAATTAATTTTAATAAAAATAAATTTG-
1 AATAATACATGTACAATATTAATTAATTTTAATAAAAATAAA-AAGC
* * * * *** *
75598 --T-ATA-ATTTATAAAATAAATTAAAAATAATTTATAAATAAAAAGC
1 AATAATACATGTACAATATTAATTAATTTTAA--TAAAAATAAAAAGC
75642 AATAATACATGTACAATATTAATTAATTTTAATAAAAATAA
1 AATAATACATGTACAATATTAATTAATTTTAATAAAAATAA
75683 TATATGTACA
Statistics
Matches: 60, Mismatches: 18, Indels: 14
0.65 0.20 0.15
Matches are distributed among these distances:
42 17 0.28
43 4 0.07
44 10 0.17
46 9 0.15
47 3 0.05
48 17 0.28
ACGTcount: A:0.56, C:0.04, G:0.03, T:0.37
Consensus pattern (46 bp):
AATAATACATGTACAATATTAATTAATTTTAATAAAAATAAAAAGC
Found at i:75636 original size:593 final size:593
Alignment explanation
Indices: 74509--76045 Score: 2824
Period size: 593 Copynumber: 2.6 Consensus size: 593
74499 AAGTTGAGGA
*
74509 AAATTTTTTCTTAGTCATTTTACAGATAAAGGAAAGCTCGTATTTAAGTCATTACTGAAAAGTGA
1 AAATTTTTTCTTGGTCATTTTACAGATAAAGGAAAGCTCGTATTTAAGTCATTACTGAAAAGTGA
74574 AATGTGTGTCTATAAATCCAAAATAAGTCGTTATTGAAAAAAGTAATTTATTGTTAGCTAACATA
66 AATGTGTGTCTATAAATCCAAAATAAGTCGTTATTGAAAAAAGTAATTTATTGTTAGCTAACATA
74639 AATTTAAGTTCTATCAATTATAAAAATAATACATGTATAATATTAATTAATTTTAATAAAAATAA
131 AATTTAAGTTCTATCAATTATAAAAATAATACATGTATAATATTAATTAATTTTAATAAAAATAA
74704 ATTTGTATAATTTATAAATAAATTAAAAATAATTTATAAATAAAAAGTAATAATACATGTATAAT
196 ATTTGTATAATTTATAAATAAATTAAAAATAATTTATAAATAAAAAGTAATAATACATGTATAAT
74769 ATTAATTAATTTTAATAAAAATAATACATGTACAATACATTTTTTTGGTCATTTTACAAATAAAG
261 ATTAATTAATTTTAATAAAAATAATACATGTACAATACATTTTTTTGGTCATTTTACAAATAAAG
74834 GAAAGCTCGTATTTAAGTCGTTATCGAAAAATGAAATGTGTGCGTCTGTAAATCCGAAATAAGTT
326 GAAAGCTCGTATTTAAGTCGTTATCGAAAAATGAAATGTGTGCGTCTGTAAATCCGAAATAAGTT
74899 ATTATCAAAAAAAGTAATTTATTGTTGGTTAACATAAATTTAAGTTCTATCAATTATAAAAATAA
391 ATTATCAAAAAAAGTAATTTATTGTTGGTTAACATAAATTTAAGTTCTATCAATTATAAAAATAA
74964 TACATGTACAATATTAATTAATTTTAATAAAAATAAATTTGTATAATTTATAAAATAAATTAAAA
456 TACATGTACAATATTAATTAATTTTAATAAAAATAAATTTGTATAATTTATAAAATAAATTAAAA
75029 ATAATTTATAAATAAAAAGCAATAATACATGTACAATATTAATTAATTTTAATAAAAATAATATA
521 ATAATTTATAAATAAAAAGCAATAATACATGTACAATATTAATTAATTTTAATAAAAATAATATA
75094 TGTACAAT
586 TGTACAAT
75102 AAATTTTTTCTTGGTCATTTTACAGATAAAGGAAAGCTCGTATTTAAGTCATTACTGAAAAGTGA
1 AAATTTTTTCTTGGTCATTTTACAGATAAAGGAAAGCTCGTATTTAAGTCATTACTGAAAAGTGA
75167 AATGTGTGTCTATAAATCCAAAATAAGTCGTTATTGAAAAAAGTAATTTATTGTTAGCTAACATA
66 AATGTGTGTCTATAAATCCAAAATAAGTCGTTATTGAAAAAAGTAATTTATTGTTAGCTAACATA
75232 AATTTAAGTTCTATCAATTATAAAAATAATACATGTATAATATTAATTAATTTTAATAAAAATAA
131 AATTTAAGTTCTATCAATTATAAAAATAATACATGTATAATATTAATTAATTTTAATAAAAATAA
75297 ATTTGTATAATTTATAAATAAATTAAAAATAATTTATAAATAAAAAGTAATAATACATGTATAAT
196 ATTTGTATAATTTATAAATAAATTAAAAATAATTTATAAATAAAAAGTAATAATACATGTATAAT
75362 ATTAATTAATTTTAATAAAAATAATACATGTACAATACATTTTTTTGGTCATTTTACAAATAAAG
261 ATTAATTAATTTTAATAAAAATAATACATGTACAATACATTTTTTTGGTCATTTTACAAATAAAG
75427 GAAAGCTCGTATTTAAGTCGTTATCGAAAAATGAAATGTGTGCGTCTGTAAATCCGAAATAAGTT
326 GAAAGCTCGTATTTAAGTCGTTATCGAAAAATGAAATGTGTGCGTCTGTAAATCCGAAATAAGTT
75492 ATTATCAAAAAAAGTAATTTATTGTTGGTTAACATAAATTTAAGTTCTATCAATTATAAAAATAA
391 ATTATCAAAAAAAGTAATTTATTGTTGGTTAACATAAATTTAAGTTCTATCAATTATAAAAATAA
75557 TACATGTACAATATTAATTAATTTTAATAAAAATAAATTTGTATAATTTATAAAATAAATTAAAA
456 TACATGTACAATATTAATTAATTTTAATAAAAATAAATTTGTATAATTTATAAAATAAATTAAAA
75622 ATAATTTATAAATAAAAAGCAATAATACATGTACAATATTAATTAATTTTAATAAAAATAATATA
521 ATAATTTATAAATAAAAAGCAATAATACATGTACAATATTAATTAATTTTAATAAAAATAATATA
75687 TGTACAAT
586 TGTACAAT
* ** * *
75695 AAATTTTTTCTTGGTCATTTTACAGATAAAGGAATGCTCGTATTTAAGTCATTACCAAAAAATAA
1 AAATTTTTTCTTGGTCATTTTACAGATAAAGGAAAGCTCGTATTTAAGTCATTACTGAAAAGTGA
* * * * * *
75760 AATTTGTGCATCTATAAATCCGAAATAAGTCGTTATCGAAAAAAGTAATTTATTATT-GATTACC
66 AATGTGTG--TCTATAAATCCAAAATAAGTCGTTATTGAAAAAAGTAATTTATTGTTAG-CTAAC
75824 ATAAATTTAAGTTCTATCAATTATAAAAATAATACATGTATAATATTAATTAATTTTAATAAAAA
128 ATAAATTTAAGTTCTATCAATTATAAAAATAATACATGTATAATATTAATTAATTTTAATAAAAA
* * * * *
75889 TAGATTTGTATATTTTATAAATAAATTAAAAATAATTTATAAATAAAAAGTAATAATATATATAC
193 TAAATTTGTATAATTTATAAATAAATTAAAAATAATTTATAAATAAAAAGTAATAATACATGTAT
* * * *
75954 AATATTAATTAATTTTAATAAAAATAATATATGTACAATAAATTTTTTCTTGGTTATTTTACATA
258 AATATTAATTAATTTTAATAAAAATAATACATGTACAATACA-TTTTT-TTGGTCATTTTACAAA
*
76019 TAAAGAAAAGCTCGTATTTAAGTCGTT
321 TAAAGGAAAGCTCGTATTTAAGTCGTT
76046 TTAAATTATT
Statistics
Matches: 917, Mismatches: 22, Indels: 6
0.97 0.02 0.01
Matches are distributed among these distances:
593 659 0.72
594 1 0.00
595 212 0.23
596 5 0.01
597 40 0.04
ACGTcount: A:0.46, C:0.07, G:0.09, T:0.38
Consensus pattern (593 bp):
AAATTTTTTCTTGGTCATTTTACAGATAAAGGAAAGCTCGTATTTAAGTCATTACTGAAAAGTGA
AATGTGTGTCTATAAATCCAAAATAAGTCGTTATTGAAAAAAGTAATTTATTGTTAGCTAACATA
AATTTAAGTTCTATCAATTATAAAAATAATACATGTATAATATTAATTAATTTTAATAAAAATAA
ATTTGTATAATTTATAAATAAATTAAAAATAATTTATAAATAAAAAGTAATAATACATGTATAAT
ATTAATTAATTTTAATAAAAATAATACATGTACAATACATTTTTTTGGTCATTTTACAAATAAAG
GAAAGCTCGTATTTAAGTCGTTATCGAAAAATGAAATGTGTGCGTCTGTAAATCCGAAATAAGTT
ATTATCAAAAAAAGTAATTTATTGTTGGTTAACATAAATTTAAGTTCTATCAATTATAAAAATAA
TACATGTACAATATTAATTAATTTTAATAAAAATAAATTTGTATAATTTATAAAATAAATTAAAA
ATAATTTATAAATAAAAAGCAATAATACATGTACAATATTAATTAATTTTAATAAAAATAATATA
TGTACAAT
Found at i:82938 original size:15 final size:15
Alignment explanation
Indices: 82914--82943 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
82904 GTGTGACAAT
82914 TAAATCAAATTAAAA
1 TAAATCAAATTAAAA
*
82929 TAAATTAAATTAAAA
1 TAAATCAAATTAAAA
82944 ATATGATAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (15 bp):
TAAATCAAATTAAAA
Found at i:83695 original size:21 final size:18
Alignment explanation
Indices: 83658--83697 Score: 53
Period size: 21 Copynumber: 2.1 Consensus size: 18
83648 ATGTTATTTA
83658 TAATTATTACATTAGAAT
1 TAATTATTACATTAGAAT
83676 TAATTAATTACAAGTTAGAAT
1 TAATT-ATTAC-A-TTAGAAT
83697 T
1 T
83698 TTAAAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.26
19 5 0.26
20 1 0.05
21 8 0.42
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.42
Consensus pattern (18 bp):
TAATTATTACATTAGAAT
Found at i:84727 original size:22 final size:23
Alignment explanation
Indices: 84695--84751 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 23
84685 CTAAAAGCTC
* * *
84695 TAATTACTATTTATGTATTTTTA
1 TAATTAATATTTATATATTTATA
84718 T-ATTAATATTTATATATTTATA
1 TAATTAATATTTATATATTTATA
84740 TAATT-ATATTTA
1 TAATTAATATTTA
84752 AATAAAATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
22 26 0.87
23 4 0.13
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (23 bp):
TAATTAATATTTATATATTTATA
Found at i:84734 original size:8 final size:8
Alignment explanation
Indices: 84702--84748 Score: 53
Period size: 8 Copynumber: 6.1 Consensus size: 8
84692 CTCTAATTAC
*
84702 TATTTATG
1 TATTTATA
*
84710 TATTTTTA
1 TATTTATA
84718 TA-TTA-A
1 TATTTATA
84724 TATTTATA
1 TATTTATA
84732 TATTTATA
1 TATTTATA
*
84740 TAATTATA
1 TATTTATA
84748 T
1 T
84749 TTAAATAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
6 3 0.09
7 5 0.15
8 25 0.76
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (8 bp):
TATTTATA
Found at i:85263 original size:9 final size:9
Alignment explanation
Indices: 85244--85289 Score: 56
Period size: 9 Copynumber: 5.0 Consensus size: 9
85234 TGGTTCAGCT
85244 GAAAAAGAAA
1 GAAAAA-AAA
85254 GAAAAAAAA
1 GAAAAAAAA
*
85263 GGAAAAAAA
1 GAAAAAAAA
* *
85272 GGAAAAAGA
1 GAAAAAAAA
85281 GAAAAAAAA
1 GAAAAAAAA
85290 ATTATATATT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
9 26 0.81
10 6 0.19
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (9 bp):
GAAAAAAAA
Found at i:85328 original size:37 final size:35
Alignment explanation
Indices: 85294--85391 Score: 92
Period size: 37 Copynumber: 2.7 Consensus size: 35
85284 AAAAAAATTA
85294 TATATTTGTATTAATATTATTTT-TATATTTAAAATAT
1 TATATTTGTA-T-ATATT-TTTTATATATTTAAAATAT
* *
85331 TATATTTTTATATATTTTTTATATATTAATAATATAT
1 TATATTTGTATATATTTTTTATATATT--TAAAATAT
* *
85368 TTTATTT-TATGTATATTTTTATAT
1 TATATTTGTATATAT-TTTTTATAT
85392 GTATTTATAT
Statistics
Matches: 53, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
34 4 0.08
35 11 0.21
36 7 0.13
37 31 0.58
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (35 bp):
TATATTTGTATATATTTTTTATATATTTAAAATAT
Found at i:85354 original size:24 final size:24
Alignment explanation
Indices: 85327--85408 Score: 62
Period size: 24 Copynumber: 3.4 Consensus size: 24
85317 TATATTTAAA
85327 ATATTATATTTTTATATATTTTTT
1 ATATTATATTTTTATATATTTTTT
** *
85351 ATA-TAT-TAATAATATATTTTATT
1 ATATTATATTTTTATATATTTT-TT
* * *
85374 TTATGTATATTTTTATAT-GTATTT
1 ATAT-TATATTTTTATATATTTTTT
85398 ATATTCATATT
1 ATATT-ATATT
85409 ATGTGTATAT
Statistics
Matches: 43, Mismatches: 10, Indels: 10
0.68 0.16 0.16
Matches are distributed among these distances:
22 11 0.26
23 8 0.19
24 13 0.30
25 5 0.12
26 6 0.14
ACGTcount: A:0.33, C:0.01, G:0.02, T:0.63
Consensus pattern (24 bp):
ATATTATATTTTTATATATTTTTT
Found at i:85426 original size:22 final size:21
Alignment explanation
Indices: 85386--85434 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 21
85376 ATGTATATTT
*
85386 TTATATGTATTTATATTCATA
1 TTATGTGTATTTATATTCATA
* *
85407 TTATGTGTATATTATTTTCATG
1 TTATGTGTAT-TTATATTCATA
85429 TTATGT
1 TTATGT
85435 TTTAAATATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 9 0.38
22 15 0.62
ACGTcount: A:0.27, C:0.04, G:0.10, T:0.59
Consensus pattern (21 bp):
TTATGTGTATTTATATTCATA
Found at i:85771 original size:8 final size:8
Alignment explanation
Indices: 85738--85785 Score: 53
Period size: 8 Copynumber: 5.8 Consensus size: 8
85728 AGGTAAGGTT
85738 GAAAAAAA
1 GAAAAAAA
85746 GAAAGAAATGA
1 GAAA-AAA--A
85757 GAAAAAAA
1 GAAAAAAA
85765 -AAAAAAA
1 GAAAAAAA
*
85772 GAAAGAAA
1 GAAAAAAA
85780 GAAAAA
1 GAAAAA
85786 GGGAAAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
7 7 0.21
8 16 0.47
9 3 0.09
10 3 0.09
11 5 0.15
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (8 bp):
GAAAAAAA
Found at i:85784 original size:22 final size:22
Alignment explanation
Indices: 85739--85785 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
85729 GGTAAGGTTG
* *
85739 AAAAAAAGAAAGAAATGAGAAA
1 AAAAAAAAAAAGAAATGAAAAA
*
85761 AAAAAAAAAAAGAAA-GAAAGA
1 AAAAAAAAAAAGAAATGAAAAA
85782 AAAA
1 AAAA
85786 GGGAAAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (22 bp):
AAAAAAAAAAAGAAATGAAAAA
Found at i:85968 original size:13 final size:14
Alignment explanation
Indices: 85922--85968 Score: 53
Period size: 13 Copynumber: 3.4 Consensus size: 14
85912 TTTCATGTTA
*
85922 TATTTTAAATATTT
1 TATTATAAATATTT
85936 T-TTATAAATATTT
1 TATTATAAATATTT
*
85949 TAGTTAT-ATTATTT
1 TA-TTATAAATATTT
85963 TATTAT
1 TATTAT
85969 GTTTAAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
13 16 0.55
14 9 0.31
15 4 0.14
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (14 bp):
TATTATAAATATTT
Found at i:86700 original size:18 final size:19
Alignment explanation
Indices: 86665--86700 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
86655 TGTTATTTTT
*
86665 ATTTGTATAAAGTATTTAA
1 ATTTATATAAAGTATTTAA
86684 ATTTATATAAA-TATTTA
1 ATTTATATAAAGTATTTA
86701 TACATTAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (19 bp):
ATTTATATAAAGTATTTAA
Found at i:86740 original size:18 final size:18
Alignment explanation
Indices: 86670--86742 Score: 55
Period size: 18 Copynumber: 4.2 Consensus size: 18
86660 TTTTTATTTG
* *
86670 TATAAAGTATTTAAATTTA
1 TATAAA-TATTTATATATA
*
86689 TATAAATATTTATACAT-
1 TATAAATATTTATATATA
* * *
86706 TA-ATA-ATTCAT-TTTA
1 TATAAATATTTATATATA
86721 TATAAATATTTATATATA
1 TATAAATATTTATATATA
86739 TATA
1 TATA
86743 TATTATTTTT
Statistics
Matches: 40, Mismatches: 10, Indels: 9
0.68 0.17 0.15
Matches are distributed among these distances:
14 1 0.03
15 7 0.17
16 4 0.10
17 7 0.17
18 15 0.38
19 6 0.15
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.49
Consensus pattern (18 bp):
TATAAATATTTATATATA
Found at i:86884 original size:27 final size:29
Alignment explanation
Indices: 86854--86913 Score: 79
Period size: 27 Copynumber: 2.1 Consensus size: 29
86844 ATTTTAACTT
*
86854 TAAATTTATTTATTA-AATATT-TTTAAA
1 TAAATTTATTAATTACAATATTATTTAAA
* *
86881 TAAATTTATTAATTACAATTTTATTTAAT
1 TAAATTTATTAATTACAATATTATTTAAA
86910 TAAA
1 TAAA
86914 AATTTTATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 14 0.50
28 5 0.18
29 9 0.32
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (29 bp):
TAAATTTATTAATTACAATATTATTTAAA
Found at i:89641 original size:43 final size:41
Alignment explanation
Indices: 89576--89668 Score: 114
Period size: 43 Copynumber: 2.2 Consensus size: 41
89566 CATTCCTTGC
* * *
89576 CATTCCCCTGTCAATGATACCTAGCAAGGACAAAGTCTATG
1 CATTCCCCTATCAATGATACCTAACAACGACAAAGTCTATG
* * *
89617 CATTCACCCTATCATATGGTACCTAACAACTACAAAGTTTATG
1 CATTC-CCCTATCA-ATGATACCTAACAACGACAAAGTCTATG
89660 CATTCCCCT
1 CATTCCCCT
89669 TATCTAAGGT
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
41 5 0.11
42 11 0.25
43 28 0.64
ACGTcount: A:0.31, C:0.29, G:0.12, T:0.28
Consensus pattern (41 bp):
CATTCCCCTATCAATGATACCTAACAACGACAAAGTCTATG
Found at i:94691 original size:15 final size:15
Alignment explanation
Indices: 94653--94758 Score: 54
Period size: 15 Copynumber: 7.1 Consensus size: 15
94643 TTTATTATAT
*
94653 TTATGAATATAATAA
1 TTATGATTATAATAA
* * *
94668 ATATTATTATAATTA
1 TTATGATTATAATAA
*
94683 TTATGATTATTATAA
1 TTATGATTATAATAA
* **
94698 TTAT-ATTTTTTTAA
1 TTATGATTATAATAA
* * * *
94712 TTTTAATAATTATAA
1 TTATGATTATAATAA
* *
94727 TTATAATTATAAAAAA
1 TTATGATTAT-AATAA
*
94743 TTA-GATTTTAATAA
1 TTATGATTATAATAA
94757 TT
1 TT
94759 TTTAAAATAT
Statistics
Matches: 68, Mismatches: 21, Indels: 5
0.72 0.22 0.05
Matches are distributed among these distances:
14 17 0.25
15 45 0.66
16 6 0.09
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (15 bp):
TTATGATTATAATAA
Found at i:94727 original size:9 final size:9
Alignment explanation
Indices: 94670--94701 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
94660 TATAATAAAT
94670 ATTATTATA
1 ATTATTATA
*
94679 ATTATTATG
1 ATTATTATA
94688 ATTATTATA
1 ATTATTATA
94697 ATTAT
1 ATTAT
94702 ATTTTTTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (9 bp):
ATTATTATA
Found at i:95468 original size:14 final size:13
Alignment explanation
Indices: 95407--95486 Score: 56
Period size: 14 Copynumber: 5.9 Consensus size: 13
95397 AAACCAAAAA
95407 TAAAAA-TATTTT
1 TAAAAATTATTTT
* *
95419 TATAAAATTAATGT
1 TA-AAAATTATTTT
*
95433 AAATAAATATATTTT
1 TAA-AAAT-TATTTT
*
95448 TAGAAATTATTTGT
1 TAAAAATTATTT-T
*
95462 TAAAAATTA-ATT
1 TAAAAATTATTTT
95474 TAAAATATTATTT
1 TAAAA-ATTATTT
95487 ATTTTTTGTA
Statistics
Matches: 51, Mismatches: 10, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
12 8 0.16
13 15 0.29
14 23 0.45
15 5 0.10
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (13 bp):
TAAAAATTATTTT
Found at i:96420 original size:18 final size:17
Alignment explanation
Indices: 96397--96431 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
96387 TCAATTGATT
96397 TATTTTAATAAAAAAAGA
1 TATTTTAA-AAAAAAAGA
*
96415 TATTTTCAAAAAAAAGA
1 TATTTTAAAAAAAAAGA
96432 AAAAGTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.60, C:0.03, G:0.06, T:0.31
Consensus pattern (17 bp):
TATTTTAAAAAAAAAGA
Found at i:104346 original size:25 final size:24
Alignment explanation
Indices: 104318--104397 Score: 72
Period size: 25 Copynumber: 3.2 Consensus size: 24
104308 AATTTTTATT
104318 TAAATTTAATTATAAAATATAAATA
1 TAAATTTAATTAT-AAATATAAATA
* * *
104343 TAAATATAAATATAAATATAATATT
1 TAAATTTAATTATAAATATAA-ATA
* *
104368 TAAATTT-TTTATTAATTATAAATAA
1 TAAATTTAATTA-TAAATATAAAT-A
104393 TAAAT
1 TAAAT
104398 ATGATAATAT
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
24 12 0.27
25 32 0.73
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (24 bp):
TAAATTTAATTATAAATATAAATA
Found at i:104374 original size:6 final size:6
Alignment explanation
Indices: 104318--104363 Score: 65
Period size: 6 Copynumber: 7.5 Consensus size: 6
104308 AATTTTTATT
* *
104318 TAAATT TAATTA TAAAATA TAAATA TAAATA TAAATA TAAATA TAA
1 TAAATA TAAATA T-AAATA TAAATA TAAATA TAAATA TAAATA TAA
104364 TATTTAAATT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
6 31 0.86
7 5 0.14
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (6 bp):
TAAATA
Found at i:105054 original size:2 final size:2
Alignment explanation
Indices: 105047--105072 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
105037 CCCATAGACA
105047 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
105073 CTAACTATGG
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:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:105268 original size:17 final size:15
Alignment explanation
Indices: 105237--105283 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 15
105227 AAAATGATAG
105237 TAATTAAAAATAATTT
1 TAATTAAAAA-AATTT
105253 TATATTTAAAAAAATTT
1 TA-A-TTAAAAAAATTT
*
105270 TAAGTAAAAAAATT
1 TAATTAAAAAAATT
105284 AAAATTAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
15 10 0.36
16 3 0.11
17 8 0.29
18 7 0.25
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (15 bp):
TAATTAAAAAAATTT
Found at i:105392 original size:28 final size:26
Alignment explanation
Indices: 105361--105416 Score: 71
Period size: 25 Copynumber: 2.1 Consensus size: 26
105351 GTATTCCATA
105361 TTAAAATTTAAAAATAA-ATAAATATTTT
1 TTAAAA-TTAAAAA-AATA-AAATATTTT
105389 TT-AAATTAAAAAAATAAAATATTTT
1 TTAAAATTAAAAAAATAAAATATTTT
105414 TTA
1 TTA
105417 TCACATCTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
25 13 0.50
26 8 0.31
27 3 0.12
28 2 0.08
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (26 bp):
TTAAAATTAAAAAAATAAAATATTTT
Found at i:106114 original size:29 final size:29
Alignment explanation
Indices: 106048--106115 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
106038 TTAACATATA
* **
106048 TAATTAAAAATACCATCATAATTTATTTT
1 TAATTAAAAATACCAGCATAATTTAACTT
*
106077 TATTATAAAAAT-CCAGCATAATTTAAACTT
1 TAAT-TAAAAATACCAGCATAATTT-AACTT
106107 TAATTAAAA
1 TAATTAAAA
106116 TTAAAAATTA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
29 19 0.59
30 13 0.41
ACGTcount: A:0.49, C:0.10, G:0.01, T:0.40
Consensus pattern (29 bp):
TAATTAAAAATACCAGCATAATTTAACTT
Found at i:106483 original size:23 final size:23
Alignment explanation
Indices: 106454--106502 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
106444 ATAATATAAA
106454 ATAATATAA-AAAATTATTAAAAT
1 ATAATATAATAAAA-TATTAAAAT
* *
106477 ATAATATAATATAATATTAATAT
1 ATAATATAATAAAATATTAAAAT
106500 ATA
1 ATA
106503 TTTTTAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 20 0.87
24 3 0.13
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (23 bp):
ATAATATAATAAAATATTAAAAT
Found at i:106484 original size:5 final size:5
Alignment explanation
Indices: 106444--106500 Score: 55
Period size: 5 Copynumber: 11.6 Consensus size: 5
106434 ATTAATCATA
* * * *
106444 ATAAT ATAAA ATAAT ATAA- AAAAT -TATT AAAAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
106492 ATTAAT ATA
1 A-TAAT ATA
106501 TATTTTTAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
4 5 0.12
5 31 0.76
6 5 0.12
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (5 bp):
ATAAT
Found at i:106562 original size:20 final size:21
Alignment explanation
Indices: 106516--106567 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
106506 TTAAATTTAT
*
106516 ATAAATT-TAAAATATATTAA
1 ATAAATTATAAAATATATAAA
106536 ATAAAATTATAAAATA-ATAAA
1 AT-AAATTATAAAATATATAAA
106557 ATAAATATATA
1 ATAAAT-TATA
106568 TTATATGAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 6 0.21
21 15 0.54
22 7 0.25
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (21 bp):
ATAAATTATAAAATATATAAA
Found at i:107241 original size:126 final size:127
Alignment explanation
Indices: 107068--107604 Score: 730
Period size: 126 Copynumber: 4.3 Consensus size: 127
107058 ATTTTTTTGC
* * * *
107068 GCATGAACAAGTTAAGGTTGGAG-AGAATGAAATGGGTATTTCATGGTTTTGAAGAAAAAGGGAA
1 GCATGAACAAGTCAAGGATGGAGAAAAATGAAATGGGTATTTCCTGGTTTTGAAGAAAAAGGGAA
* * * *
107132 AATTTTTGGTTTAAAGGCAATGATTTTTGTGTAATTTTGGTT-A-AGAGGAGCTTGGTTTTAT
66 AATTTTTGGTTAAAAAGC-CTGATTTTTGTGTAATTTTGGTTCATACAGGAGCTTGGTTTTAT
* * *
107193 GCATGAACAAGTCAAGGATGGAGAAAAATGAATTGGGTATTTGCTGGTTTTGAAGGAAAAGGGAA
1 GCATGAACAAGTCAAGGATGGAGAAAAATGAAATGGGTATTTCCTGGTTTTGAAGAAAAAGGGAA
* * *
107258 AATTTTTGGTTAAAAAGACTGATTTTTGTTTAATTTTGATT-A-ACAGGAGCTT-GTTTTAT
66 AATTTTTGGTTAAAAAGCCTGATTTTTGTGTAATTTTGGTTCATACAGGAGCTTGGTTTTAT
*
107317 GCATGAACAAGTCAAGGATGGAGAAAAATGAAATGGCTATTTCCTGGTTTTGAAGAAAAAAGGGG
1 GCATGAACAAGTCAAGGATGGAGAAAAATGAAATGGGTATTTCCTGGTTTTGAAG-AAAAA-GGG
* * *
107382 GAAATTTTTGGTTAAAAGGCCTGATTTTTGTGTAATTTTGGTTCATACAGGAGCTTTGGTTTTGT
64 AAAATTTTTGGTTAAAAAGCCTGATTTTTGTGTAATTTTGGTTCATACAGGAGC-TTGGTTTTAT
* * * *
107447 GCATGAACAAGTCTAGGATGGTGAAAAATGAAATGGGTATTTCCTGATTTTGAAGAAAAAGGGAG
1 GCATGAACAAGTCAAGGATGGAGAAAAATGAAATGGGTATTTCCTGGTTTTGAAGAAAAAGGGAA
*
107512 AATTTTT-GTTAAAAAGCCTGATTTTTGTGTAATTTTGGTTCATACAGGAGCTTGGTTTTGT
66 AATTTTTGGTTAAAAAGCCTGATTTTTGTGTAATTTTGGTTCATACAGGAGCTTGGTTTTAT
* * * *
107573 GCATAAACTAGTTC-AGGATAGAGAAAAGTGAA
1 GCATGAACAAG-TCAAGGATGGAGAAAAATGAA
107605 TTGATTTGAA
Statistics
Matches: 368, Mismatches: 36, Indels: 15
0.88 0.09 0.04
Matches are distributed among these distances:
124 59 0.16
125 55 0.15
126 126 0.34
127 46 0.12
128 18 0.05
129 7 0.02
130 57 0.15
ACGTcount: A:0.33, C:0.07, G:0.26, T:0.34
Consensus pattern (127 bp):
GCATGAACAAGTCAAGGATGGAGAAAAATGAAATGGGTATTTCCTGGTTTTGAAGAAAAAGGGAA
AATTTTTGGTTAAAAAGCCTGATTTTTGTGTAATTTTGGTTCATACAGGAGCTTGGTTTTAT
Found at i:110512 original size:6 final size:6
Alignment explanation
Indices: 110501--110531 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
110491 TTTTATGCAT
110501 TTCACA TTCACA TTCACA TTCACA TTCACA T
1 TTCACA TTCACA TTCACA TTCACA TTCACA T
110532 CAAAAAGGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.35
Consensus pattern (6 bp):
TTCACA
Found at i:111384 original size:25 final size:26
Alignment explanation
Indices: 111356--111420 Score: 80
Period size: 26 Copynumber: 2.5 Consensus size: 26
111346 ATACAGTGTA
*
111356 TTTATATTGTATTTATTTTTATT-TT
1 TTTATATTGTATTTATTTTAATTATT
*
111381 TTTATGTTGTATTATATTTTAATTATT
1 TTTATATTGTATT-TATTTTAATTATT
*
111408 TTT-TAATGTATTT
1 TTTATATTGTATTT
111421 GTGTCATGTA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
25 13 0.38
26 16 0.47
27 5 0.15
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (26 bp):
TTTATATTGTATTTATTTTAATTATT
Found at i:111937 original size:18 final size:19
Alignment explanation
Indices: 111911--111948 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
111901 AAATTTTTGT
*
111911 TATTTAAAAATATT-TAAA
1 TATTGAAAAATATTGTAAA
*
111929 TATTGAAAATTATTGTAAA
1 TATTGAAAAATATTGTAAA
111948 T
1 T
111949 CCCTTTCTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (19 bp):
TATTGAAAAATATTGTAAA
Found at i:112151 original size:20 final size:21
Alignment explanation
Indices: 112110--112153 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
112100 ATTTTTATTT
112110 AAAAATAAACATTGATCTTTA
1 AAAAATAAACATTGATCTTTA
*
112131 AAAAATTAAA-ATTTATC-TTA
1 AAAAA-TAAACATTGATCTTTA
112151 AAA
1 AAA
112154 TTTTTTATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 6 0.29
21 11 0.52
22 4 0.19
ACGTcount: A:0.57, C:0.07, G:0.02, T:0.34
Consensus pattern (21 bp):
AAAAATAAACATTGATCTTTA
Found at i:112754 original size:141 final size:137
Alignment explanation
Indices: 112527--112820 Score: 331
Period size: 141 Copynumber: 2.1 Consensus size: 137
112517 TAAGTGTGAT
* * *
112527 TATATAAATATAATATTATAAAGTAATTAAAATATAAAATGATATAAATATTTTAAAATTAATAT
1 TATATAAATATAATATTATAAAGTAATTAAAATATAAAATGATAAAAATATTTCAAAATCAATAT
* * * * * *
112592 AATTTTAATTATTATTGTATTAAATTTTATATAAATATAAAATATTTGAAACATGATTATAATAT
66 AATATGAATAATTAATATATTAAAATTTATATAAATATAAAATATTTGAAACATGATTATAATAT
112657 GATAAAA
131 GATAAAA
* * * **
112664 TATATAAATATGATATATGTAAAGTAATTAAAATATTATGTGATGTGAAAAATATTTCAAAATCA
1 TATATAAATATAATAT-TATAAAGTAATTAAAATATAAAATGA--T-AAAAATATTTCAAAATCA
* * ** *
112729 ATATAATATGAATAATTAATATATTAAAATTTATATAAGTATAAAGTATTTTG--ATTTCGGTTA
62 ATATAATATGAATAATTAATATATTAAAATTTATATAAATATAAAATA-TTTGAAACAT-GATTA
*
112792 TAATATAATAAAA
125 TAATATGATAAAA
*
112805 TATATGAATATAATAT
1 TATATAAATATAATAT
112821 AAATATATAA
Statistics
Matches: 129, Mismatches: 22, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
137 15 0.12
138 22 0.17
140 3 0.02
141 85 0.66
142 4 0.03
ACGTcount: A:0.51, C:0.01, G:0.07, T:0.41
Consensus pattern (137 bp):
TATATAAATATAATATTATAAAGTAATTAAAATATAAAATGATAAAAATATTTCAAAATCAATAT
AATATGAATAATTAATATATTAAAATTTATATAAATATAAAATATTTGAAACATGATTATAATAT
GATAAAA
Found at i:112816 original size:18 final size:19
Alignment explanation
Indices: 112793--112828 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
112783 TTTCGGTTAT
112793 AATATAATA-AAATATATG
1 AATATAATATAAATATATG
112811 AATATAATATAAATATAT
1 AATATAATATAAATATAT
112829 AAATTATTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (19 bp):
AATATAATATAAATATATG
Found at i:112963 original size:21 final size:19
Alignment explanation
Indices: 112939--112993 Score: 67
Period size: 18 Copynumber: 2.8 Consensus size: 19
112929 ATAGAAAAAC
112939 ATAGAATAAAAAATACTAATA
1 ATAGAATAAAAAATACT--TA
*
112960 ATAGAATATAAAAT-CTTA
1 ATAGAATAAAAAATACTTA
*
112978 ATATAATAAAAAATAC
1 ATAGAATAAAAAATAC
112994 CGGTCTTGCT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 14 0.47
19 1 0.03
20 2 0.07
21 13 0.43
ACGTcount: A:0.64, C:0.05, G:0.04, T:0.27
Consensus pattern (19 bp):
ATAGAATAAAAAATACTTA
Found at i:113041 original size:21 final size:22
Alignment explanation
Indices: 113017--113058 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
113007 CTTTGATAAT
113017 TATTTAAATATTTA-TATTTAA
1 TATTTAAATATTTATTATTTAA
*
113038 TATTTAAATTTTTATTATTTA
1 TATTTAAATATTTATTATTTA
113059 TTTACTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
TATTTAAATATTTATTATTTAA
Done.