Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 78 of 322
Found at i:24925458 original size:19 final size:19
Alignment explanation
Indices: 24925434--24925471 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
24925424 TTCAATTAAG
*
24925434 TCTTTCATT-AAGTGTTTTT
1 TCTTTC-TTCAAGTATTTTT
24925453 TCTTTCTTCAAGTATTTTT
1 TCTTTCTTCAAGTATTTTT
24925472 CATCTAGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 2 0.12
19 15 0.88
ACGTcount: A:0.16, C:0.13, G:0.08, T:0.63
Consensus pattern (19 bp):
TCTTTCTTCAAGTATTTTT
Found at i:24925521 original size:13 final size:13
Alignment explanation
Indices: 24925460--24925561 Score: 68
Period size: 13 Copynumber: 7.8 Consensus size: 13
24925450 TTTTCTTTCT
*
24925460 TCAAGTATTTTTCA
1 TCAAGT-TTTTTTA
* *
24925474 TCTAGTTATTTTA
1 TCAAGTTTTTTTA
24925487 TCAAGTTTTTAATTA
1 TCAAGTTTTT--TTA
*
24925502 CCAAGTTTTTTTA
1 TCAAGTTTTTTTA
*
24925515 TCAAG-TTTTGTA
1 TCAAGTTTTTTTA
*
24925527 GCAAGTTCTTTTTA
1 TCAAGTT-TTTTTA
*
24925541 --AAG-TTTTTCA
1 TCAAGTTTTTTTA
24925551 TCAAGTCTTTT
1 TCAAGT-TTTT
24925562 CATAAAATTT
Statistics
Matches: 69, Mismatches: 11, Indels: 16
0.72 0.11 0.17
Matches are distributed among these distances:
10 5 0.07
11 1 0.01
12 16 0.23
13 21 0.30
14 14 0.20
15 12 0.17
ACGTcount: A:0.25, C:0.12, G:0.10, T:0.53
Consensus pattern (13 bp):
TCAAGTTTTTTTA
Found at i:24925563 original size:13 final size:12
Alignment explanation
Indices: 24925467--24925590 Score: 54
Period size: 12 Copynumber: 9.8 Consensus size: 12
24925457 TCTTCAAGTA
*
24925467 TTTTTCATCTAG
1 TTTTTCATCAAG
*
24925479 TTATTTTATCAAG
1 TT-TTTCATCAAG
*
24925492 TTTTTAATTACCAAG
1 TTTTTCA-T--CAAG
*
24925507 TTTTTTTATCAAG
1 -TTTTTCATCAAG
*
24925520 TTTTGT-AGCAAG
1 TTTT-TCATCAAG
* *
24925532 TTCTTT-TTAAAG
1 TT-TTTCATCAAG
24925544 TTTTTCATCAAG
1 TTTTTCATCAAG
* *
24925556 TCTTTTCATAAAA
1 T-TTTTCATCAAG
* *
24925569 TTTTCCGTCAAG
1 TTTTTCATCAAG
*
24925581 TTTTTAATCA
1 TTTTTCATCA
24925591 TTTCGTTTTT
Statistics
Matches: 84, Mismatches: 19, Indels: 18
0.69 0.16 0.15
Matches are distributed among these distances:
11 3 0.04
12 42 0.50
13 28 0.33
15 5 0.06
16 6 0.07
ACGTcount: A:0.27, C:0.13, G:0.09, T:0.52
Consensus pattern (12 bp):
TTTTTCATCAAG
Found at i:24925567 original size:25 final size:24
Alignment explanation
Indices: 24925539--24925585 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
24925529 AAGTTCTTTT
* *
24925539 TAAAGTTTTTCATCAAGTCTTTTCA
1 TAAAATTTTCCATCAAGT-TTTTCA
*
24925564 TAAAATTTTCCGTCAAGTTTTT
1 TAAAATTTTCCATCAAGTTTTT
24925586 AATCATTTCG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 4 0.21
25 15 0.79
ACGTcount: A:0.28, C:0.15, G:0.09, T:0.49
Consensus pattern (24 bp):
TAAAATTTTCCATCAAGTTTTTCA
Found at i:24940602 original size:6 final size:6
Alignment explanation
Indices: 24940554--24940604 Score: 50
Period size: 6 Copynumber: 8.2 Consensus size: 6
24940544 TTAATTTTCC
* *
24940554 TATTAT TATTATT TATTTT TACTATTT TA-TTT TATTTT CATTTT TATTTT
1 TATTTT TATT-TT TATTTT TA-T-TTT TATTTT TATTTT TATTTT TATTTT
24940604 T
1 T
24940605 GCAGGAAAGA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
5 5 0.13
6 22 0.58
7 6 0.16
8 5 0.13
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.75
Consensus pattern (6 bp):
TATTTT
Found at i:24943047 original size:42 final size:42
Alignment explanation
Indices: 24942990--24943236 Score: 377
Period size: 42 Copynumber: 5.8 Consensus size: 42
24942980 GTTTACAAAC
*
24942990 AAAAACGCCGCTAAAGACCATGTTATTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
24943032 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
* * *
24943074 AAAAATGCCTCTAAAAACCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
* * *
24943116 AAAAGCGCCGCTAAAAACAATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
* **
24943158 AAAAACGCCGCTAAAGACCATGTACTTTAGCAACGCTTAGAAAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAG--AA
*
24943202 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCG
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCG
24943237 TTTATTCTTA
Statistics
Matches: 185, Mismatches: 18, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
42 152 0.82
44 33 0.18
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
Found at i:24943664 original size:21 final size:21
Alignment explanation
Indices: 24943638--24943686 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
24943628 TTTGGACTGC
24943638 TCTGCTTCTC-TCGCTGCAGCT
1 TCTGCTTC-CGTCGCTGCAGCT
*
24943659 TCTGCTTCCGTCGCTGCTGCT
1 TCTGCTTCCGTCGCTGCAGCT
*
24943680 TCAGCTT
1 TCTGCTT
24943687 TAAGTTGTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 1 0.04
21 24 0.96
ACGTcount: A:0.04, C:0.37, G:0.20, T:0.39
Consensus pattern (21 bp):
TCTGCTTCCGTCGCTGCAGCT
Found at i:24948314 original size:7 final size:7
Alignment explanation
Indices: 24948304--24948349 Score: 56
Period size: 7 Copynumber: 6.0 Consensus size: 7
24948294 TGATATATTT
24948304 TTATGTA
1 TTATGTA
24948311 TTATGTAA
1 TTATGT-A
24948319 GTTATGTAA
1 -TTATGT-A
24948328 GTTATGTA
1 -TTATGTA
24948336 TTATGTA
1 TTATGTA
24948343 TTATGTA
1 TTATGTA
24948350 AGTACTGTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
7 20 0.54
8 2 0.05
9 15 0.41
ACGTcount: A:0.30, C:0.00, G:0.17, T:0.52
Consensus pattern (7 bp):
TTATGTA
Found at i:24948325 original size:9 final size:9
Alignment explanation
Indices: 24948311--24949097 Score: 770
Period size: 9 Copynumber: 89.0 Consensus size: 9
24948301 TTTTTATGTA
24948311 TTATGTAAG
1 TTATGTAAG
24948320 TTATGTAAG
1 TTATGTAAG
24948329 TTATGT-A-
1 TTATGTAAG
24948336 TTATGT-A-
1 TTATGTAAG
24948343 TTATGTAAG
1 TTATGTAAG
24948352 -TACTGTAAG
1 TTA-TGTAAG
*
24948361 TAATGTAAG
1 TTATGTAAG
24948370 TTATGTAAG
1 TTATGTAAG
* * *
24948379 -AAAGTTA-
1 TTATGTAAG
24948386 TTATGTAAG
1 TTATGTAAG
24948395 TTATGTATA-
1 TTATGTA-AG
*
24948404 ATAT-TAA-
1 TTATGTAAG
*
24948411 TTATGTGAG
1 TTATGTAAG
**
24948420 TCGTGT-A-
1 TTATGTAAG
*
24948427 TAATGTAAG
1 TTATGTAAG
*
24948436 TTAAG-AAGG
1 TTATGTAA-G
24948445 TTATGT-A-
1 TTATGTAAG
*
24948452 TAATGTAAG
1 TTATGTAAG
24948461 TTATGTAAG
1 TTATGTAAG
* * *
24948470 TAATTTAAT
1 TTATGTAAG
24948479 TTATGTAAG
1 TTATGTAAG
24948488 TTATGTAAG
1 TTATGTAAG
* *
24948497 TTATTTAAT
1 TTATGTAAG
*
24948506 TTATGCAAG
1 TTATGTAAG
24948515 TTATGTAAG
1 TTATGTAAG
* *
24948524 TTATTTAAT
1 TTATGTAAG
* *
24948533 TTGTGTAGG
1 TTATGTAAG
*
24948542 TTATGTGAG
1 TTATGTAAG
24948551 TTATGTAAG
1 TTATGTAAG
*
24948560 TTATTTAAG
1 TTATGTAAG
* *
24948569 TTATTTAAT
1 TTATGTAAG
24948578 TTATGTAAG
1 TTATGTAAG
24948587 TTATGTAAG
1 TTATGTAAG
* *
24948596 TTATTTAAT
1 TTATGTAAG
*
24948605 TTATGTAGG
1 TTATGTAAG
*
24948614 TTATATAAG
1 TTATGTAAG
24948623 TTATGTAAG
1 TTATGTAAG
* *
24948632 TTATTTAAT
1 TTATGTAAG
* *
24948641 TTGTGTAGG
1 TTATGTAAG
24948650 TTATGTAAG
1 TTATGTAAG
24948659 TTATGTAAG
1 TTATGTAAG
*
24948668 TTATTTAAG
1 TTATGTAAG
* *
24948677 TTATTTAAT
1 TTATGTAAG
24948686 TTATGTAAG
1 TTATGTAAG
24948695 TTATGTAAG
1 TTATGTAAG
*
24948704 TTATTTAAG
1 TTATGTAAG
24948713 TTATGTAAG
1 TTATGTAAG
24948722 TTATGTAAG
1 TTATGTAAG
24948731 TTATGTAAG
1 TTATGTAAG
24948740 TTATGTAAG
1 TTATGTAAG
*
24948749 TTATTTAAG
1 TTATGTAAG
* *
24948758 TTATTTAAT
1 TTATGTAAG
24948767 TTATGTAAG
1 TTATGTAAG
*
24948776 TTACGTAAG
1 TTATGTAAG
* *
24948785 TTATTTAAT
1 TTATGTAAG
*
24948794 TTATGTAGG
1 TTATGTAAG
24948803 TTATGTAAG
1 TTATGTAAG
24948812 TTATGTAAG
1 TTATGTAAG
* *
24948821 TTATTTAAT
1 TTATGTAAG
*
24948830 TTATGTAGG
1 TTATGTAAG
24948839 TTATGTAAG
1 TTATGTAAG
* * * *
24948848 TCCACGGAAT
1 T-TATGTAAG
24948858 TTATGTAAG
1 TTATGTAAG
24948867 TTATGTAAG
1 TTATGTAAG
* *
24948876 TTATTTAAT
1 TTATGTAAG
24948885 TTATGTAAG
1 TTATGTAAG
* *
24948894 TTATTTAAT
1 TTATGTAAG
*
24948903 TTATGTTAG
1 TTATGTAAG
24948912 TTATGTAAG
1 TTATGTAAG
* *
24948921 TTATTTAAT
1 TTATGTAAG
*
24948930 TTATGTAGG
1 TTATGTAAG
24948939 TTATGTAAG
1 TTATGTAAG
24948948 TTATGTAAG
1 TTATGTAAG
* *
24948957 TTATTTAAT
1 TTATGTAAG
*
24948966 TTATGCAAG
1 TTATGTAAG
24948975 TTTATGTAAG
1 -TTATGTAAG
24948985 TTATGTAAG
1 TTATGTAAG
*
24948994 TTACT-TAAT
1 TTA-TGTAAG
24949003 TTATGTAAG
1 TTATGTAAG
24949012 TTATGTAAG
1 TTATGTAAG
* *
24949021 TTATTTAAT
1 TTATGTAAG
24949030 TTATGTAAG
1 TTATGTAAG
24949039 TTATGTAAG
1 TTATGTAAG
24949048 TTATGT-A-
1 TTATGTAAG
24949055 TTATGT-A-
1 TTATGTAAG
24949062 TTATGTAAG
1 TTATGTAAG
24949071 -TACTGTAAG
1 TTA-TGTAAG
*
24949080 TAATGTAAG
1 TTATGTAAG
24949089 TTATGTAAG
1 TTATGTAAG
24949098 AAAGCAGTTT
Statistics
Matches: 631, Mismatches: 124, Indels: 46
0.79 0.15 0.06
Matches are distributed among these distances:
7 39 0.06
8 26 0.04
9 549 0.87
10 17 0.03
ACGTcount: A:0.33, C:0.01, G:0.18, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:24949231 original size:8 final size:7
Alignment explanation
Indices: 24949213--24949250 Score: 53
Period size: 7 Copynumber: 5.6 Consensus size: 7
24949203 ATAATATAAG
24949213 TTATGTA
1 TTATGTA
24949220 TTATGTTA
1 TTATG-TA
24949228 TTATGTA
1 TTATGTA
24949235 TTATGTA
1 TTATGTA
24949242 --ATGTA
1 TTATGTA
24949247 TTAT
1 TTAT
24949251 CAGATTATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
5 5 0.18
7 16 0.57
8 7 0.25
ACGTcount: A:0.29, C:0.00, G:0.13, T:0.58
Consensus pattern (7 bp):
TTATGTA
Found at i:24949231 original size:27 final size:26
Alignment explanation
Indices: 24949198--24949270 Score: 74
Period size: 27 Copynumber: 2.7 Consensus size: 26
24949188 AAGTTATGCA
*
24949198 AGATTATAATATAAGTTATGTATTATG
1 AGATTAT-ATATAAGTTATGTATTATC
** * * *
24949225 TTATTATGTATTATGTAATGTATTATC
1 AGATTATATA-TAAGTTATGTATTATC
24949252 AGATTATATATAAGTTATG
1 AGATTATATATAAGTTATG
24949271 AAAGTTATTA
Statistics
Matches: 34, Mismatches: 11, Indels: 3
0.71 0.23 0.06
Matches are distributed among these distances:
26 9 0.26
27 25 0.74
ACGTcount: A:0.37, C:0.01, G:0.14, T:0.48
Consensus pattern (26 bp):
AGATTATATATAAGTTATGTATTATC
Found at i:24949263 original size:53 final size:52
Alignment explanation
Indices: 24949198--24949368 Score: 166
Period size: 53 Copynumber: 3.4 Consensus size: 52
24949188 AAGTTATGCA
24949198 AGATTATAATATAAGTTATGTATTATGTTATTATGTATTATGTAATGTATTATC
1 AGATTAT-ATATAAGTTATGTATTATGTTATTATGTATTATGTAAT-TATTATC
*
24949252 AGATTATATATAAGTTATG-A--AAGTTATTATGTA--A-G---TTA-TA-C
1 AGATTATATATAAGTTATGTATTATGTTATTATGTATTATGTAATTATTATC
* * *
24949293 AAGCTTATATATAAGTTATGTATTATGCTATTATGTATTATGTAATTTATTATG
1 -AGATTATATATAAGTTATGTATTATGTTATTATGTATTATGTAA-TTATTATC
** *
24949347 TTATTATATATACGTTATGTAT
1 AGATTATATATAAGTTATGTAT
24949369 GCTGTAAAAT
Statistics
Matches: 95, Mismatches: 9, Indels: 27
0.73 0.07 0.21
Matches are distributed among these distances:
41 1 0.01
42 20 0.21
43 3 0.03
44 1 0.01
45 11 0.12
47 2 0.02
48 2 0.02
50 12 0.13
52 4 0.04
53 32 0.34
54 7 0.07
ACGTcount: A:0.36, C:0.03, G:0.13, T:0.49
Consensus pattern (52 bp):
AGATTATATATAAGTTATGTATTATGTTATTATGTATTATGTAATTATTATC
Found at i:24949287 original size:21 final size:22
Alignment explanation
Indices: 24949255--24949312 Score: 77
Period size: 21 Copynumber: 2.7 Consensus size: 22
24949245 TATTATCAGA
24949255 TTATATATAAGTTATGA-AAG-
1 TTATATATAAGTTATGACAAGC
*
24949275 TTATTATGTAAGTTAT-ACAAGC
1 TTA-TATATAAGTTATGACAAGC
24949297 TTATATATAAGTTATG
1 TTATATATAAGTTATG
24949313 TATTATGCTA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 4 0.12
21 25 0.78
22 3 0.09
ACGTcount: A:0.40, C:0.03, G:0.14, T:0.43
Consensus pattern (22 bp):
TTATATATAAGTTATGACAAGC
Found at i:24949326 original size:8 final size:7
Alignment explanation
Indices: 24949308--24949353 Score: 51
Period size: 7 Copynumber: 6.6 Consensus size: 7
24949298 TATATATAAG
24949308 TTATGTA
1 TTATGTA
24949315 TTATGCTA
1 TTATG-TA
24949323 TTATGTA
1 TTATGTA
24949330 TTATGTA
1 TTATGTA
*
24949337 --ATTTA
1 TTATGTA
24949342 TTATGTTA
1 TTATG-TA
24949350 TTAT
1 TTAT
24949354 ATATACGTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
5 4 0.12
7 16 0.48
8 13 0.39
ACGTcount: A:0.28, C:0.02, G:0.11, T:0.59
Consensus pattern (7 bp):
TTATGTA
Found at i:24949353 original size:95 final size:96
Alignment explanation
Indices: 24949166--24949365 Score: 303
Period size: 95 Copynumber: 2.1 Consensus size: 96
24949156 CGTGGTGTAT
* * * *
24949166 TAAGCTATGGAAGTTATTATGTAAGTTATGCAAGATTATAATATAAGTTATGTATTATGTTATTA
1 TAAGTTATGAAAGTTATTATGTAAGTTATACAAGATTATAATATAAGTTATGTATTATGCTATTA
24949231 TGTATTATGTAATGTATTATCAGATTATATA
66 TGTATTATGTAATGTATTATCAGATTATATA
*
24949262 TAAGTTATGAAAGTTATTATGTAAGTTATACAAGCTTAT-ATATAAGTTATGTATTATGCTATTA
1 TAAGTTATGAAAGTTATTATGTAAGTTATACAAGATTATAATATAAGTTATGTATTATGCTATTA
* ***
24949326 TGTATTATGTAATTTATTATGTTATTATATA
66 TGTATTATGTAATGTATTATCAGATTATATA
*
24949357 TACGTTATG
1 TAAGTTATG
24949366 TATGCTGTAA
Statistics
Matches: 94, Mismatches: 10, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
95 59 0.63
96 35 0.37
ACGTcount: A:0.35, C:0.04, G:0.14, T:0.47
Consensus pattern (96 bp):
TAAGTTATGAAAGTTATTATGTAAGTTATACAAGATTATAATATAAGTTATGTATTATGCTATTA
TGTATTATGTAATGTATTATCAGATTATATA
Found at i:24949495 original size:19 final size:20
Alignment explanation
Indices: 24949459--24949500 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 20
24949449 TTATATAAAT
*
24949459 AAAATATTTAAATTTTTA-A
1 AAAATATATAAATTTTTACA
24949478 AAAATATAT-AATTATTTACA
1 AAAATATATAAATT-TTTACA
24949498 AAA
1 AAA
24949501 CGTGTAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 4 0.20
19 12 0.60
20 4 0.20
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (20 bp):
AAAATATATAAATTTTTACA
Found at i:24949578 original size:61 final size:61
Alignment explanation
Indices: 24949487--24949634 Score: 174
Period size: 61 Copynumber: 2.4 Consensus size: 61
24949477 AAAAATATAT
* * * *
24949487 AATTATTTACAAAACGTGTAAAATTGATACTTA-TAAA-TTTTATTAATAATAAATCTAGAAC
1 AATTATTTACAAAACTTATAAATTTAATAC-TACTAAATTTTTA-TAATAATAAATCTAGAAC
* * * * * *
24949548 ACTTTTTTAGAAAACTTATAAATTTAATACTACTAAATTTTTATACTAATAAATTTAGAAT
1 AATTATTTACAAAACTTATAAATTTAATACTACTAAATTTTTATAATAATAAATCTAGAAC
24949609 AATTATTTACAAAACTTATAAATTTA
1 AATTATTTACAAAACTTATAAATTTA
24949635 GAAAACTTAT
Statistics
Matches: 72, Mismatches: 13, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
60 2 0.03
61 65 0.90
62 5 0.07
ACGTcount: A:0.47, C:0.08, G:0.04, T:0.41
Consensus pattern (61 bp):
AATTATTTACAAAACTTATAAATTTAATACTACTAAATTTTTATAATAATAAATCTAGAAC
Found at i:24949586 original size:15 final size:15
Alignment explanation
Indices: 24949565--24949604 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
24949555 TAGAAAACTT
24949565 ATAAATTTAATACTA
1 ATAAATTTAATACTA
* *
24949580 CTAAATTTTTATACTA
1 ATAAA-TTTAATACTA
24949596 ATAAATTTA
1 ATAAATTTA
24949605 GAATAATTAT
Statistics
Matches: 20, Mismatches: 4, Indels: 2
0.77 0.15 0.08
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.45
Consensus pattern (15 bp):
ATAAATTTAATACTA
Found at i:24949639 original size:17 final size:17
Alignment explanation
Indices: 24949613--24949645 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
24949603 TAGAATAATT
24949613 ATTTACAAAACTTATAA
1 ATTTACAAAACTTATAA
*
24949630 ATTTAGAAAACTTATA
1 ATTTACAAAACTTATA
24949646 TAGAAAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.09, G:0.03, T:0.36
Consensus pattern (17 bp):
ATTTACAAAACTTATAA
Found at i:24950951 original size:50 final size:50
Alignment explanation
Indices: 24950897--24950996 Score: 164
Period size: 50 Copynumber: 2.0 Consensus size: 50
24950887 TCTGTACCTT
24950897 CAGCAAGATGAAGAAAAGTGAAAACGTTGAAGACCGATGAAACCAATGAA
1 CAGCAAGATGAAGAAAAGTGAAAACGTTGAAGACCGATGAAACCAATGAA
* ** *
24950947 CAGCAGGATGAAGAAATTTGAAACCGTTGAAGACCGATGAAACCAATGAA
1 CAGCAAGATGAAGAAAAGTGAAAACGTTGAAGACCGATGAAACCAATGAA
24950997 ACGTTTCACA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.47, C:0.15, G:0.24, T:0.14
Consensus pattern (50 bp):
CAGCAAGATGAAGAAAAGTGAAAACGTTGAAGACCGATGAAACCAATGAA
Found at i:24951363 original size:20 final size:20
Alignment explanation
Indices: 24951338--24951377 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
24951328 AAAGAGATGA
24951338 AGAAAGGATGAGGGGAAATC
1 AGAAAGGATGAGGGGAAATC
*
24951358 AGAAAGGATGGGGGGAAATC
1 AGAAAGGATGAGGGGAAATC
24951378 GAAGAAAGAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.42, C:0.05, G:0.42, T:0.10
Consensus pattern (20 bp):
AGAAAGGATGAGGGGAAATC
Found at i:24951412 original size:39 final size:39
Alignment explanation
Indices: 24951361--24951438 Score: 129
Period size: 39 Copynumber: 2.0 Consensus size: 39
24951351 GGAAATCAGA
*
24951361 AAGGATGGGGGGAAATCGAAGAAAGACTTAGGGATTTGG
1 AAGGATGAGGGGAAATCGAAGAAAGACTTAGGGATTTGG
* *
24951400 AAGGATGAGGGGAAATCGCATAAAGACTTAGGGATTTGG
1 AAGGATGAGGGGAAATCGAAGAAAGACTTAGGGATTTGG
24951439 CTGAAAAGGG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.38, T:0.19
Consensus pattern (39 bp):
AAGGATGAGGGGAAATCGAAGAAAGACTTAGGGATTTGG
Found at i:24961183 original size:47 final size:47
Alignment explanation
Indices: 24961065--24961365 Score: 467
Period size: 47 Copynumber: 6.3 Consensus size: 47
24961055 NNNNNNNGTA
*
24961065 TATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
24961112 TATATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTG
1 --TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
24961161 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
24961208 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
24961255 TATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 --TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * * * * * *
24961304 TATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
24961351 TATAAATGTGATAAG
1 TATATATGTGATAAG
24961366 TCCCGAAGGG
Statistics
Matches: 239, Mismatches: 11, Indels: 6
0.93 0.04 0.02
Matches are distributed among these distances:
47 146 0.61
49 93 0.39
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:24961261 original size:96 final size:96
Alignment explanation
Indices: 24961062--24961365 Score: 472
Period size: 96 Copynumber: 3.2 Consensus size: 96
24961052 NNNNNNNNNN
*
24961062 GTATATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATA
1 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATA
*
24961127 AGGCTTAATGGCCGATGTGATGAATGTGAAAGT
64 AGGCCTAATGGCCGATGTGATGAATGTGAAAGT
24961160 G--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
1 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
24961223 GCCTAATGGCCGATGTGATGAATGTGAAAGT
66 GCCTAATGGCCGATGTGATGAATGTGAAAGT
* * *
24961254 GTATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGG
1 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
* * * * *
24961319 GCCGAGTGGCCAACGTGATGGATGTGAAAGT
66 GCCTAATGGCCGATGTGATGAATGTGAAAGT
24961350 GTATA-A-ATGTGATAAG
1 GTATATATATGTGATAAG
24961366 TCCCGAAGGG
Statistics
Matches: 193, Mismatches: 11, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
94 55 0.28
95 1 0.01
96 136 0.70
98 1 0.01
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (96 bp):
GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
GCCTAATGGCCGATGTGATGAATGTGAAAGT
Found at i:24961329 original size:143 final size:143
Alignment explanation
Indices: 24961065--24961365 Score: 503
Period size: 143 Copynumber: 2.1 Consensus size: 143
24961055 NNNNNNNGTA
*
24961065 TATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGG
* * * * *
24961130 CTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
66 CCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTGAT
24961195 GAATGTGAAAGTG
131 GAATGTGAAAGTG
*
24961208 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGG
* *
24961273 CCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGAT
66 CCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTGAT
*
24961338 GGATGTGAAAGTG
131 GAATGTGAAAGTG
*
24961351 TATAAATGTGATAAG
1 TATATATGTGATAAG
24961366 TCCCGAAGGG
Statistics
Matches: 147, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
143 147 1.00
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (143 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGG
CCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTGAT
GAATGTGAAAGTG
Found at i:24961540 original size:37 final size:37
Alignment explanation
Indices: 24961484--24961562 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
24961474 TCGAGCTCTA
* * * *
24961484 AAGACCCGATGACTACGTGTGGGGATTTTGTCTGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
24961521 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
24961558 AAGAC
1 AAGAC
24961563 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:24977036 original size:11 final size:11
Alignment explanation
Indices: 24977020--24977046 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
24977010 AAAAATAAAA
24977020 AAATATTTTAC
1 AAATATTTTAC
24977031 AAATATTTTAC
1 AAATATTTTAC
24977042 AAATA
1 AAATA
24977047 AATCGGGCCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (11 bp):
AAATATTTTAC
Found at i:24991040 original size:135 final size:138
Alignment explanation
Indices: 24990703--24991207 Score: 782
Period size: 138 Copynumber: 3.7 Consensus size: 138
24990693 AGAGAACATA
* * * *
24990703 AATAAAATTAATATAAGAATTTTATTCATACAAAATATTAATCGTATATATTTTACCAAATTTAT
1 AATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCAAATTTAT
* *
24990768 TAATGTAAACAGTTAAATTAATTAATTTCGGTTAAAATATAAAAGACATGGAAATTAATATTCTT
66 TAATATAAACAGTTATATTAATTAATTTCGGTTAAAATATAAAAGACATGGAAATTAATATTCTT
24990833 TTGGAAAG
131 TTGGAAAG
* * * *
24990841 AATATAATTAATATATGACTTTGATTCGTACAAAATATTAACTGTATATATATTACCAAATTTAT
1 AATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCAAATTTAT
* *
24990906 TAATATAAACAATTATATTAATTAATTTCGGTTAAAATATAAAAGACGTGGAAATT-A-ATT-TT
66 TAATATAAACAGTTATATTAATTAATTTCGGTTAAAATATAAAAGACATGGAAATTAATATTCTT
24990968 TTGGAAAG
131 TTGGAAAG
**
24990976 AATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACTGAATTTAT
1 AATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCAAATTTAT
* ** * *
24991041 TAATATAAACAGTTATATTAATTAATTTCAGACAAAATATAAAAGATATGAAAATTAATATTCTT
66 TAATATAAACAGTTATATTAATTAATTTCGGTTAAAATATAAAAGACATGGAAATTAATATTCTT
*
24991106 TTGGAATG
131 TTGGAAAG
* * *
24991114 AATATAATTAATATATGAATTTAATTAATACAAAATATTAATAGTATATATTTTACCAAATTTAT
1 AATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCAAATTTAT
24991179 TAATATAAACAGTTATATTAATTAATTTC
66 TAATATAAACAGTTATATTAATTAATTTC
24991208 ACTTCTCCAT
Statistics
Matches: 333, Mismatches: 31, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
135 118 0.35
136 4 0.01
137 4 0.01
138 207 0.62
ACGTcount: A:0.46, C:0.06, G:0.08, T:0.40
Consensus pattern (138 bp):
AATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCAAATTTAT
TAATATAAACAGTTATATTAATTAATTTCGGTTAAAATATAAAAGACATGGAAATTAATATTCTT
TTGGAAAG
Found at i:24991131 original size:17 final size:17
Alignment explanation
Indices: 24991111--24991143 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
24991101 TTCTTTTGGA
24991111 ATGAATATAATTAATAT
1 ATGAATATAATTAATAT
*
24991128 ATGAATTTAATTAATA
1 ATGAATATAATTAATA
24991144 CAAAATATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (17 bp):
ATGAATATAATTAATAT
Found at i:24991197 original size:273 final size:273
Alignment explanation
Indices: 24990703--24991207 Score: 814
Period size: 273 Copynumber: 1.8 Consensus size: 273
24990693 AGAGAACATA
*
24990703 AATAAAATTAATATAAGAATTTTATTCATACAAAATATTAATCGTATATATTTTACCAAATTTAT
1 AATAAAATTAATATAAGAATTTGATTCATACAAAATATTAATCGTATATATTTTACCAAATTTAT
* * ** *
24990768 TAATGTAAACAGTTAAATTAATTAATTTCGGTTAAAATATAAAAGACATGGAAATTAATATTCTT
66 TAATATAAACAGTTAAATTAATTAATTTCAGACAAAATATAAAAGACATGAAAATTAATATTCTT
* * **
24990833 TTGGAAAGAATATAATTAATATATGACTTTGATTCGTACAAAATATTAACTGTATATATATTACC
131 TTGGAAAGAATATAATTAATATATGAATTTAATTAATACAAAATATTAACTGTATATATATTACC
24990898 AAATTTATTAATATAAACAATTATATTAATTAATTTCGGTTAAAATATAAAAGACGTGGAAATTA
196 AAATTTATTAATATAAACAATTATATTAATTAATTTCGGTTAAAATATAAAAGACGTGGAAATTA
24990963 ATTTTTTGGAAAG
261 ATTTTTTGGAAAG
* * * **
24990976 AATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACTGAATTTAT
1 AATAAAATTAATATAAGAATTTGATTCATACAAAATATTAATCGTATATATTTTACCAAATTTAT
* *
24991041 TAATATAAACAGTTATATTAATTAATTTCAGACAAAATATAAAAGATATGAAAATTAATATTCTT
66 TAATATAAACAGTTAAATTAATTAATTTCAGACAAAATATAAAAGACATGAAAATTAATATTCTT
* *
24991106 TTGGAATGAATATAATTAATATATGAATTTAATTAATACAAAATATTAA-TAGTATATATTTTAC
131 TTGGAAAGAATATAATTAATATATGAATTTAATTAATACAAAATATTAACT-GTATATATATTAC
*
24991170 CAAATTTATTAATATAAACAGTTATATTAATTAATTTC
195 CAAATTTATTAATATAAACAATTATATTAATTAATTTC
24991208 ACTTCTCCAT
Statistics
Matches: 211, Mismatches: 20, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
272 1 0.00
273 210 1.00
ACGTcount: A:0.46, C:0.06, G:0.08, T:0.40
Consensus pattern (273 bp):
AATAAAATTAATATAAGAATTTGATTCATACAAAATATTAATCGTATATATTTTACCAAATTTAT
TAATATAAACAGTTAAATTAATTAATTTCAGACAAAATATAAAAGACATGAAAATTAATATTCTT
TTGGAAAGAATATAATTAATATATGAATTTAATTAATACAAAATATTAACTGTATATATATTACC
AAATTTATTAATATAAACAATTATATTAATTAATTTCGGTTAAAATATAAAAGACGTGGAAATTA
ATTTTTTGGAAAG
Found at i:24993854 original size:34 final size:34
Alignment explanation
Indices: 24993801--24993868 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 34
24993791 GCACAGTTGA
* *
24993801 ACAGTCTTGGGCCTAAGCCCTTTTCAGTATCAGTG
1 ACAGTCTTGGGCCTAAGCCCATCTCAGTA-CAGTG
* *
24993836 ACAGT-TTGTGCCTTAGCCCATCTCAGTACAGTG
1 ACAGTCTTGGGCCTAAGCCCATCTCAGTACAGTG
24993869 TCAAAAATGC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 5 0.17
34 19 0.66
35 5 0.17
ACGTcount: A:0.21, C:0.26, G:0.22, T:0.31
Consensus pattern (34 bp):
ACAGTCTTGGGCCTAAGCCCATCTCAGTACAGTG
Found at i:24996572 original size:30 final size:31
Alignment explanation
Indices: 24996533--24996591 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
24996523 ATATTAAATT
24996533 TATTATTATATATT-TTTTAAAATATTTATG
1 TATTATTATATATTATTTTAAAATATTTATG
* * *
24996563 TATTTTTATATATTATTTTGAAATTTTTA
1 TATTATTATATATTATTTTAAAATATTTA
24996592 GAATTAGGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 13 0.52
31 12 0.48
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (31 bp):
TATTATTATATATTATTTTAAAATATTTATG
Found at i:25003941 original size:13 final size:13
Alignment explanation
Indices: 25003923--25003947 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25003913 TAATGGTATA
25003923 TTGAATCCATGAC
1 TTGAATCCATGAC
25003936 TTGAATCCATGA
1 TTGAATCCATGA
25003948 AAATTTAGTA
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:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TTGAATCCATGAC
Found at i:25004526 original size:27 final size:27
Alignment explanation
Indices: 25004495--25004672 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
25004485 TAAATTGTAC
25004495 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
25004522 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
25004548 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
25004576 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
25004604 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
25004631 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
25004658 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
25004673 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:25004609 original size:82 final size:81
Alignment explanation
Indices: 25004496--25004651 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
25004486 AAATTGTACA
* *
25004496 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
25004560 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
25004577 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
25004642 TGCGAGTTGA
65 TGCGAATTGA
25004652 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:25004663 original size:82 final size:81
Alignment explanation
Indices: 25004492--25004672 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
25004482 GATTAAATTG
* *
25004492 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
25004557 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
25004573 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
25004637 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
25004655 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
25004673 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:25012587 original size:27 final size:27
Alignment explanation
Indices: 25012556--25012733 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
25012546 TAAATTGTAC
25012556 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
25012583 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
25012609 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
25012637 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
25012665 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
25012692 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
25012719 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
25012734 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:25012670 original size:82 final size:81
Alignment explanation
Indices: 25012557--25012712 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
25012547 AAATTGTACA
* *
25012557 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
25012621 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
25012638 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
25012703 TGCGAGTTGA
65 TGCGAATTGA
25012713 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:25012724 original size:82 final size:81
Alignment explanation
Indices: 25012553--25012733 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
25012543 GATTAAATTG
* *
25012553 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
25012618 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
25012634 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
25012698 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
25012716 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
25012734 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:25014808 original size:16 final size:16
Alignment explanation
Indices: 25014787--25014823 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
25014777 TTGGTTCGCT
25014787 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
25014803 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
25014819 GTAAT
1 GTAAT
25014824 AGCAATTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.38, C:0.05, G:0.35, T:0.22
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:25014867 original size:45 final size:44
Alignment explanation
Indices: 25014803--25014899 Score: 142
Period size: 44 Copynumber: 2.2 Consensus size: 44
25014793 GAATAGAGGC
25014803 GTAATGGAATAGAGGCGTAATAGCAATTCAAT-TGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAG-AATTC-ATGTGTTTGGTTGAAT
* *
25014848 GTAATGGAATAGAGGCGTAATAGTATTCTTGTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGAATTCATGTGTTTGGTTGAAT
*
25014892 GGAATGGA
1 GTAATGGA
25014900 GGTGTAATAG
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
43 1 0.02
44 24 0.50
45 23 0.48
ACGTcount: A:0.31, C:0.05, G:0.30, T:0.34
Consensus pattern (44 bp):
GTAATGGAATAGAGGCGTAATAGAATTCATGTGTTTGGTTGAAT
Found at i:25015148 original size:58 final size:56
Alignment explanation
Indices: 25015039--25015148 Score: 125
Period size: 58 Copynumber: 1.9 Consensus size: 56
25015029 TTATCATATT
25015039 TTAACATAATTATTATTAAATATAATTTAATAAAAATATATATAATTTAATAAAATTC
1 TTAACATAATTATTATT-AATATAATTTAATAAAAATATATATAA-TTAATAAAATTC
* * *
25015097 TTAATATAATTATTCTT-ATATGAATTTACTAAAATCATGATATATAA-TAATA
1 TTAACATAATTATTATTAATAT-AATTTAATAAAA--AT-ATATATAATTAATA
25015149 TCAAGAAATA
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
56 4 0.09
57 11 0.24
58 20 0.44
59 2 0.04
60 8 0.18
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.44
Consensus pattern (56 bp):
TTAACATAATTATTATTAATATAATTTAATAAAAATATATATAATTAATAAAATTC
Found at i:25018219 original size:14 final size:14
Alignment explanation
Indices: 25018200--25018227 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
25018190 AGCAGAAATC
25018200 TGGAGAAAAGAAAA
1 TGGAGAAAAGAAAA
25018214 TGGAGAAAAGAAAA
1 TGGAGAAAAGAAAA
25018228 GAAATGTGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.29, T:0.07
Consensus pattern (14 bp):
TGGAGAAAAGAAAA
Found at i:25018227 original size:19 final size:18
Alignment explanation
Indices: 25018203--25018247 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
25018193 AGAAATCTGG
25018203 AGAAAAGAAAATG-GAGAAA
1 AGAAAAGAAAATGTGAG--A
25018222 AGAAAAG-AAATGTGAGA
1 AGAAAAGAAAATGTGAGA
25018239 AGAAAAGAA
1 AGAAAAGAA
25018248 GCGTACCGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 8 0.33
18 6 0.25
19 10 0.42
ACGTcount: A:0.67, C:0.00, G:0.27, T:0.07
Consensus pattern (18 bp):
AGAAAAGAAAATGTGAGA
Found at i:25021167 original size:18 final size:20
Alignment explanation
Indices: 25021130--25021170 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
25021120 GGATATCATT
25021130 ATATTTGTAAAAATATATAA
1 ATATTTGTAAAAATATATAA
25021150 ATATTT-TAAATAATATA-AA
1 ATATTTGTAAA-AATATATAA
25021169 AT
1 AT
25021171 TCAAAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.41
Consensus pattern (20 bp):
ATATTTGTAAAAATATATAA
Found at i:25021183 original size:18 final size:19
Alignment explanation
Indices: 25021138--25021184 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 19
25021128 TTATATTTGT
**
25021138 AAAAATATATAAATATTTT
1 AAAAATATATAAATATTCA
*
25021157 AAATA-ATATAAA-ATTCA
1 AAAAATATATAAATATTCA
25021174 AAAAATATATA
1 AAAAATATATA
25021185 TTGGAATTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
17 7 0.30
18 12 0.52
19 4 0.17
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (19 bp):
AAAAATATATAAATATTCA
Found at i:25021962 original size:93 final size:88
Alignment explanation
Indices: 25021736--25021962 Score: 213
Period size: 93 Copynumber: 2.5 Consensus size: 88
25021726 TAAGTCGTTA
* * * * * * *
25021736 TTTTTTATTCAATTGGGTACTTTAACTTTAAAAATGCATCAAAAGGCTCTCAAACTATTTCCAAA
1 TTTTTTACTCAATTGAGTACTTGAACTTT-AAAATGCATAAAAAGACCCTCAAACTATTTCAAAA
* * *
25021801 AAAGTAATTAAGCCATTACTTTTT
65 AAAGCAATTAAACCACTACTTTTT
** * * * *
25021825 TTTTGCACTCAATTAAGTACTTGAACTTTTAAAATGAACGAAAAAGACCCTCAAAACTTTTTCAA
1 TTTTTTACTCAATTGAGTACTTGAAC-TTTAAAATGCA-TAAAAAGACCCTC-AAACTATTTCAA
*
25021890 AAAAAGCAATTAAACTC-CTGCTTTATTT
63 AAAAAGCAATTAAAC-CACTAC-TT-TTT
25021918 TTTTTTACTCAATTGAGTACTTGAACTGTTAAAATGCATTAAAAA
1 TTTTTTACTCAATTGAGTACTTGAACT-TTAAAATGCA-TAAAAA
25021963 AGTCATTTGC
Statistics
Matches: 108, Mismatches: 23, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
89 27 0.25
90 12 0.11
91 25 0.23
92 4 0.04
93 40 0.37
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.37
Consensus pattern (88 bp):
TTTTTTACTCAATTGAGTACTTGAACTTTAAAATGCATAAAAAGACCCTCAAACTATTTCAAAAA
AAGCAATTAAACCACTACTTTTT
Found at i:25022080 original size:10 final size:10
Alignment explanation
Indices: 25022067--25022142 Score: 57
Period size: 10 Copynumber: 7.5 Consensus size: 10
25022057 GACATGTTGC
25022067 AAAAAATTAT
1 AAAAAATTAT
*
25022077 AAAAAAATAT
1 AAAAAATTAT
25022087 AAAAAA-TAT
1 AAAAAATTAT
* **
25022096 TAAATTTTAAT
1 AAAAAATT-AT
25022107 AAAAAA-TAT
1 AAAAAATTAT
* *
25022116 TAAAAATTAGA
1 AAAAAATTA-T
25022127 AAAAAAGTTAT
1 AAAAAA-TTAT
25022138 AAAAA
1 AAAAA
25022143 TCATTTAAAA
Statistics
Matches: 50, Mismatches: 11, Indels: 9
0.71 0.16 0.13
Matches are distributed among these distances:
9 13 0.26
10 19 0.38
11 15 0.30
12 3 0.06
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.28
Consensus pattern (10 bp):
AAAAAATTAT
Found at i:25022132 original size:20 final size:20
Alignment explanation
Indices: 25022067--25022124 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
25022057 GACATGTTGC
* *
25022067 AAAAAATTATAAAAAAAT-AT
1 AAAAAA-TATTAAAAATTAAT
**
25022087 AAAAAATATTAAATTTTAAT
1 AAAAAATATTAAAAATTAAT
25022107 AAAAAATATTAAAAATTA
1 AAAAAATATTAAAAATTA
25022125 GAAAAAAAGT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
19 7 0.23
20 24 0.77
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (20 bp):
AAAAAATATTAAAAATTAAT
Found at i:25022173 original size:21 final size:21
Alignment explanation
Indices: 25022134--25022173 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
25022124 AGAAAAAAAG
*
25022134 TTATAAAAATCATTTAAAATT
1 TTATAAAAATCATTCAAAATT
25022155 TTATAAAAATACA-TCAAAA
1 TTATAAAAAT-CATTCAAAA
25022174 GGCCCTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.35
Consensus pattern (21 bp):
TTATAAAAATCATTCAAAATT
Found at i:25025473 original size:20 final size:20
Alignment explanation
Indices: 25025448--25025487 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
25025438 AATATTTTCC
*
25025448 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
25025468 AGTAAAACATTTTTCAGAAA
1 AGTAAAACATTTTACAGAAA
25025488 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.30
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:25025489 original size:34 final size:35
Alignment explanation
Indices: 25025436--25025502 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
25025426 CAAACACCGG
*
25025436 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
25025471 AAAACATTTTTCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
25025503 CATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:25025494 original size:14 final size:14
Alignment explanation
Indices: 25025471--25025510 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
25025461 ACAGAAAAGT
*
25025471 AAAACATTTTTCAG
1 AAAACATTTTACAG
* *
25025485 AAATCATTTTACGG
1 AAAACATTTTACAG
25025499 AAAACATTTTAC
1 AAAACATTTTAC
25025511 TGGCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.15, G:0.07, T:0.35
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:25028699 original size:23 final size:22
Alignment explanation
Indices: 25028656--25028699 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
25028646 TTTCAACTCA
25028656 ATATTCAATTCAATTCCACACAT
1 ATATTCAATTCAATT-CACACAT
25028679 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
25028700 TTAATCGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.39, C:0.23, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACAT
Found at i:25028949 original size:51 final size:51
Alignment explanation
Indices: 25028873--25029059 Score: 220
Period size: 51 Copynumber: 3.7 Consensus size: 51
25028863 CCAGTTCACA
*
25028873 TAGTAGCCTACACATAGTACTACACATGTGACCATCA-CTATTCGGTACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCAT-AGCTATTCGGTACACG
* * * * *
25028924 TAGTAGCCTGCACATAGTACTACACACGTGATCGA-AGCTA-TCTGATACGCA
1 TAGTAGCCTGCACATAGTACTACACATGTGA-CCATAGCTATTC-GGTACACG
* * * * *
25028975 TAGTAGCCTGCACATAGTACTACACATGCGATC-TATCTTTTCGGTAAACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATAGCTATTCGGTACACG
25029025 TAGTAGCCTGCACATAGTACTACACATGTGACCAT
1 TAGTAGCCTGCACATAGTACTACACATGTGACCAT
25029060 CACTTTCACT
Statistics
Matches: 112, Mismatches: 18, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
50 41 0.37
51 69 0.62
52 2 0.02
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACATGTGACCATAGCTATTCGGTACACG
Found at i:25029037 original size:101 final size:101
Alignment explanation
Indices: 25028871--25029055 Score: 291
Period size: 101 Copynumber: 1.8 Consensus size: 101
25028861 TACCAGTTCA
* *
25028871 CATAGTAGCCTACACATAGTACTACACATGTGACCATCACTATTCGGTACACGTAGTAGCCTGCA
1 CATAGTAGCCTACACATAGTACTACACATGCGACCAT-ACTATTCGGTAAACGTAGTAGCCTGCA
25028936 CATAGTACTACACACGTGATCGAAGCTATCTGATACG
65 CATAGTACTACACACGTGATCGAAGCTATCTGATACG
* * *
25028973 CATAGTAGCCTGCACATAGTACTACACATGCGATC-TATCTTTTCGGTAAACGTAGTAGCCTGCA
1 CATAGTAGCCTACACATAGTACTACACATGCGACCATA-CTATTCGGTAAACGTAGTAGCCTGCA
*
25029037 CATAGTACTACACATGTGA
65 CATAGTACTACACACGTGA
25029056 CCATCACTTT
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
100 1 0.01
101 43 0.57
102 32 0.42
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (101 bp):
CATAGTAGCCTACACATAGTACTACACATGCGACCATACTATTCGGTAAACGTAGTAGCCTGCAC
ATAGTACTACACACGTGATCGAAGCTATCTGATACG
Found at i:25031870 original size:30 final size:30
Alignment explanation
Indices: 25031834--25031893 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
25031824 TATTACAACG
*
25031834 CCATCTTCGCCAAATCCCGCCACAGGCCTA
1 CCATCTTCGCCAAAGCCCGCCACAGGCCTA
** *
25031864 CCATCTTTTCCAAAGCCCGCCACGGGCCTA
1 CCATCTTCGCCAAAGCCCGCCACAGGCCTA
25031894 TCTTGAATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.22, C:0.45, G:0.15, T:0.18
Consensus pattern (30 bp):
CCATCTTCGCCAAAGCCCGCCACAGGCCTA
Found at i:25041483 original size:46 final size:46
Alignment explanation
Indices: 25041415--25041547 Score: 176
Period size: 46 Copynumber: 2.9 Consensus size: 46
25041405 AGTTTTGCCC
* * *
25041415 AGGTTCCGAGCTCCTGCTTATGTTGCAGACTCGAGAATACAAGAAT
1 AGGTTCCAAGCTCCTGCATATGTTGCAGACTTGAGAATACAAGAAT
* * * *
25041461 AGGTTCCAAGCTCCTACATATGTTGCAAACTTGAGAATATAGGAAT
1 AGGTTCCAAGCTCCTGCATATGTTGCAGACTTGAGAATACAAGAAT
* * *
25041507 AGGTTCCAAGCTCATGCATGTATTGCAGACTTGAGAATACA
1 AGGTTCCAAGCTCCTGCATATGTTGCAGACTTGAGAATACA
25041548 GGTTTAGGTT
Statistics
Matches: 74, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
46 74 1.00
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.27
Consensus pattern (46 bp):
AGGTTCCAAGCTCCTGCATATGTTGCAGACTTGAGAATACAAGAAT
Found at i:25041556 original size:46 final size:46
Alignment explanation
Indices: 25041437--25041577 Score: 156
Period size: 46 Copynumber: 3.1 Consensus size: 46
25041427 CCTGCTTATG
* * * * * *
25041437 TTGCAGACTCGAGAATACAAGAATAGGTTCCAAGCTCCTACATATG
1 TTGCAGACTTGAGAATACAGGAATAGGTTCCAAGCTCATGCATGTA
* *
25041483 TTGCAAACTTGAGAATATAGGAATAGGTTCCAAGCTCATGCATGTA
1 TTGCAGACTTGAGAATACAGGAATAGGTTCCAAGCTCATGCATGTA
** *** *
25041529 TTGCAGACTTGAGAATACAGGTTTAGGTTTTGAGCTCTTGCATGTA
1 TTGCAGACTTGAGAATACAGGAATAGGTTCCAAGCTCATGCATGTA
25041575 TTG
1 TTG
25041578 TGAACTCAAG
Statistics
Matches: 79, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
46 79 1.00
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.30
Consensus pattern (46 bp):
TTGCAGACTTGAGAATACAGGAATAGGTTCCAAGCTCATGCATGTA
Found at i:25047454 original size:21 final size:21
Alignment explanation
Indices: 25047428--25047482 Score: 85
Period size: 21 Copynumber: 2.6 Consensus size: 21
25047418 TCGATGTTTG
*
25047428 CATGTCTTAAGACAAGAGGCT
1 CATGTCTCAAGACAAGAGGCT
25047449 CATGTCTCAAGACAAGAGGCT
1 CATGTCTCAAGACAAGAGGCT
25047470 -ATTGTCTCAAGAC
1 CA-TGTCTCAAGAC
25047483 CTGGAGCAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 1 0.03
21 31 0.97
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.24
Consensus pattern (21 bp):
CATGTCTCAAGACAAGAGGCT
Found at i:25057371 original size:18 final size:18
Alignment explanation
Indices: 25057348--25057395 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
25057338 ACAATGGACA
*
25057348 TTTATTTATTTTTTATTT
1 TTTATTTATTTTTTATAT
**
25057366 TTTATTTGGTTTTTATAT
1 TTTATTTATTTTTTATAT
*
25057384 TTGATTTATTTT
1 TTTATTTATTTT
25057396 ATTTGTTTTT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.06, T:0.77
Consensus pattern (18 bp):
TTTATTTATTTTTTATAT
Found at i:25057893 original size:13 final size:15
Alignment explanation
Indices: 25057870--25057901 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
25057860 CTCCCATGAT
25057870 AAAAATCTATAAA-A
1 AAAAATCTATAAAGA
25057884 AAAAAT-TATAAAGA
1 AAAAATCTATAAAGA
25057898 AAAA
1 AAAA
25057902 GGGTTTGGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 6 0.35
14 11 0.65
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.19
Consensus pattern (15 bp):
AAAAATCTATAAAGA
Found at i:25064288 original size:12 final size:12
Alignment explanation
Indices: 25064271--25064296 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
25064261 CAAAATAGGC
25064271 TTTTAGCGGCGT
1 TTTTAGCGGCGT
25064283 TTTTAGCGGCGT
1 TTTTAGCGGCGT
25064295 TT
1 TT
25064297 GGATAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTTAGCGGCGT
Found at i:25064527 original size:114 final size:114
Alignment explanation
Indices: 25064381--25065050 Score: 916
Period size: 114 Copynumber: 5.9 Consensus size: 114
25064371 GTGTTTTCCA
* *
25064381 GAAAGCACCGC-AAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGATTTCGGTGATTTAGCGGC
1 GAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGATTTCGGGGATTTAGCGGC
* * * *
25064445 GTTTTTAAAAAAGCGCCACTACTGCTCAGGGCTTTAGCGGCGTTTTTGA
66 GTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGG
* * *
25064494 GAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGTCGTTTTCTGA-ACTTTTGGAGATTTAGCGG
1 GAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGA-TTTCGGGGATTTAGCGG
* * * * * *
25064558 TGTTTTTAAGAAAGCGCCGGTAATGCTCAAGTCTTTAGTGGGGTTTTTTGG
65 CGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCG-TTTTTGG
* * * *
25064609 GAAAGCGCCGCAAAAAAACCTAAGGCCAACGACGTCGTTTTCTGAGCTTTCGGGGATTTAGCGAC
1 GAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGATTTCGGGGATTTAGCGGC
* * *
25064674 GTTTTTAAGAAAGCGCCGCTAATGCCCAGGTCTTTAGCGGCATTTTTGG
66 GTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGG
* * * *
25064723 GAAAGCACCACAAAAAAACCTAAGGCCAACAACGCCGTTTTCTGA-ACTTTCGGGGATTTAGCGG
1 GAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGA-TTTCGGGGATTTAGCGG
* ** * *
25064787 CGTTTTTAAGAAAGTGCCGCTAATATTCAGGTCCTTAGCGGCGTTTTTGG
65 CGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGG
* * *
25064837 GAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCC-TTTTTTGAGCTTTCGGGGATTTAGCAGC
1 GAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGATTTCGGGGATTTAGCGGC
* *
25064901 GTTTTTAAGAAAGCACCGCTAATGCTCAGGGCTTTAGCGGCATTTTTGG
66 GTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGG
* * * *
25064950 GAAAGCGCTGCAAAAAAACCTAAGCCCAACAATGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGC
1 GAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGATTTCGGGGATTTAGCGGC
*
25065015 GTTTTTAAGAAAGCGCCGCTAATGCTCAGGGATTTA
66 GTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTA
25065051 AAATAAATTA
Statistics
Matches: 491, Mismatches: 59, Indels: 13
0.87 0.10 0.02
Matches are distributed among these distances:
113 110 0.22
114 281 0.57
115 100 0.20
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.26
Consensus pattern (114 bp):
GAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGATTTCGGGGATTTAGCGGC
GTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGG
Found at i:25064794 original size:229 final size:227
Alignment explanation
Indices: 25064381--25065042 Score: 968
Period size: 229 Copynumber: 2.9 Consensus size: 227
25064371 GTGTTTTCCA
* * * *
25064381 GAAAGCACCGC-AAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGATTTCGGTGATTTAGCGGC
1 GAAAGCGCCGCAAAAAAACCTAAGCCCAACGACG-CGTTTTCTGAGCTTTCGGGGATTTAGCGAC
* * * * *
25064445 GTTTTTAAAAAAGCGCCACTACTGCTCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAA
65 GTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCATTTTTGGGAAAGCGCCGCAAAAA
* * * * *
25064510 AACCTAAGCCCAACGACGTCGTTTTCTGAACTTTTGGAGATTTAGCGGTGTTTTTAAGAAAGCGC
130 AACCTAAGCCCAACAACGCCGTTTTCTGAACTTTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGC
* * * *
25064575 CGGTAATGCTCAAGTCTTTAGTGGGGTTTTTTGG
195 CGCTAATGCTCAAGTCCTTAGCGGCG-TTTTTGG
*
25064609 GAAAGCGCCGCAAAAAAACCTAAGGCCAACGACGTCGTTTTCTGAGCTTTCGGGGATTTAGCGAC
1 GAAAGCGCCGCAAAAAAACCTAAGCCCAACGACG-CGTTTTCTGAGCTTTCGGGGATTTAGCGAC
* * * *
25064674 GTTTTTAAGAAAGCGCCGCTAATGCCCAGGTCTTTAGCGGCATTTTTGGGAAAGCACCACAAAAA
65 GTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCATTTTTGGGAAAGCGCCGCAAAAA
* *
25064739 AACCTAAGGCCAACAACGCCGTTTTCTGAACTTTCGGGGATTTAGCGGCGTTTTTAAGAAAGTGC
130 AACCTAAGCCCAACAACGCCGTTTTCTGAACTTTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGC
** *
25064804 CGCTAATATTCAGGTCCTTAGCGGCGTTTTTGG
195 CGCTAATGCTCAAGTCCTTAGCGGCGTTTTTGG
* *
25064837 GAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCTTTTTTGAGCTTTCGGGGATTTAGC-AGC
1 GAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCGTTTTCTGAGCTTTCGGGGATTTAGCGA-C
* *
25064901 GTTTTTAAGAAAGCACCGCTAATGCTCAGGGCTTTAGCGGCATTTTTGGGAAAGCGCTGCAAAAA
65 GTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCATTTTTGGGAAAGCGCCGCAAAAA
* *
25064966 AACCTAAGCCCAACAATGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGC
130 AACCTAAGCCCAACAACGCCGTTTTCTGAACTTTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGC
25065031 CGCTAATGCTCA
195 CGCTAATGCTCA
25065043 GGGATTTAAA
Statistics
Matches: 388, Mismatches: 44, Indels: 5
0.89 0.10 0.01
Matches are distributed among these distances:
226 1 0.00
227 156 0.40
228 50 0.13
229 181 0.47
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.26
Consensus pattern (227 bp):
GAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCGTTTTCTGAGCTTTCGGGGATTTAGCGACG
TTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCATTTTTGGGAAAGCGCCGCAAAAAA
ACCTAAGCCCAACAACGCCGTTTTCTGAACTTTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCC
GCTAATGCTCAAGTCCTTAGCGGCGTTTTTGG
Found at i:25065307 original size:6 final size:7
Alignment explanation
Indices: 25065270--25065323 Score: 63
Period size: 7 Copynumber: 7.6 Consensus size: 7
25065260 GTGTTACCAT
*
25065270 TTTAAGG
1 TTTATGG
25065277 TTTATGG
1 TTTATGG
*
25065284 ATTATAGG
1 TTTAT-GG
*
25065292 TTTAGGG
1 TTTATGG
*
25065299 GTTATGG
1 TTTATGG
25065306 TTTATGG
1 TTTATGG
25065313 TTTATGG
1 TTTATGG
25065320 TTTA
1 TTTA
25065324 AAGGCTAGGG
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
7 34 0.87
8 5 0.13
ACGTcount: A:0.20, C:0.00, G:0.30, T:0.50
Consensus pattern (7 bp):
TTTATGG
Found at i:25065350 original size:8 final size:7
Alignment explanation
Indices: 25065270--25065409 Score: 56
Period size: 7 Copynumber: 19.6 Consensus size: 7
25065260 GTGTTACCAT
25065270 TTTAAGG
1 TTTAAGG
*
25065277 TTTATGG
1 TTTAAGG
*
25065284 ATTATAGG
1 TTTA-AGG
*
25065292 TTTAGGG
1 TTTAAGG
* *
25065299 GTTATGG
1 TTTAAGG
*
25065306 TTTATGG
1 TTTAAGG
*
25065313 TTTATGG
1 TTTAAGG
25065320 TTTAAAGG
1 TTT-AAGG
* *
25065328 -CTAGGG
1 TTTAAGG
25065334 TTTAAGG
1 TTTAAGG
25065341 TTTAAAGG
1 TTT-AAGG
*
25065349 -TT-ATG
1 TTTAAGG
25065354 TGTTAAGGG
1 T-TTAA-GG
*
25065363 TTTATGGG
1 TTTA-AGG
25065371 TTT-AGG
1 TTTAAGG
*
25065377 ATTTTAGGG
1 --TTTAAGG
25065386 TTTAA-G
1 TTTAAGG
*
25065392 TTTATGG
1 TTTAAGG
25065399 TTTAAGG
1 TTTAAGG
25065406 TTTA
1 TTTA
25065410 GATTAACTAG
Statistics
Matches: 99, Mismatches: 21, Indels: 26
0.68 0.14 0.18
Matches are distributed among these distances:
5 2 0.02
6 10 0.10
7 59 0.60
8 24 0.24
9 4 0.04
ACGTcount: A:0.23, C:0.01, G:0.31, T:0.46
Consensus pattern (7 bp):
TTTAAGG
Found at i:25065400 original size:13 final size:14
Alignment explanation
Indices: 25065270--25065410 Score: 67
Period size: 14 Copynumber: 9.9 Consensus size: 14
25065260 GTGTTACCAT
*
25065270 TTTAAGGTTTATGG
1 TTTAAGGTTTAGGG
*
25065284 ATTATAGGTTTAGGG
1 TTTA-AGGTTTAGGG
* * *
25065299 GTTATGGTTTATGG
1 TTTAAGGTTTAGGG
* *
25065313 TTTATGGTTTAAAGG
1 TTTAAGGTTT-AGGG
* * *
25065328 -CTAGGGTTTAAGG
1 TTTAAGGTTTAGGG
*
25065341 TTTAAAGG-TTA-TG
1 TTT-AAGGTTTAGGG
25065354 TGTTAAGGGTTTATGGG
1 T-TTAA-GGTTTA-GGG
25065371 TTT-AGGATTTTAGGG
1 TTTAAGG--TTTAGGG
*
25065386 TTTAA-GTTTATGG
1 TTTAAGGTTTAGGG
25065399 TTTAAGGTTTAG
1 TTTAAGGTTTAG
25065411 ATTAACTAGT
Statistics
Matches: 99, Mismatches: 15, Indels: 26
0.71 0.11 0.19
Matches are distributed among these distances:
13 19 0.19
14 42 0.42
15 29 0.29
16 7 0.07
17 2 0.02
ACGTcount: A:0.23, C:0.01, G:0.31, T:0.45
Consensus pattern (14 bp):
TTTAAGGTTTAGGG
Found at i:25068079 original size:251 final size:251
Alignment explanation
Indices: 25067636--25068138 Score: 943
Period size: 251 Copynumber: 2.0 Consensus size: 251
25067626 TCAAATGGAA
*
25067636 CTCAAACTTCATGTACAATCACATAAACTGTTTAAGGCACGAATATAAATTGAAAACAAATTTGG
1 CTCAAACTTCATGTACAACCACATAAACTGTTTAAGGCACGAATATAAATTGAAAACAAATTTGG
25067701 CAAATTTCGTTACCTTATTAACCAAAACAGATTTGCACCAATTCGAGAATTTTACACAAGGCCAA
66 CAAATTTCGTTACCTTATTAACCAAAACAGATTTGCACCAATTCGAGAATTTTACACAAGGCCAA
25067766 TCAAGAGAATAACAACTCACGCTTCCTTTCGTAATGACTTTATCAACCACAATCGAAGAGTAACA
131 TCAAGAGAATAACAACTCACGCTTCCTTTCGTAATGACTTTATCAACCACAATCGAAGAGTAACA
* * * *
25067831 ATTAATCGGATCAAAATGAGGGGATCTTTTAAGAACTAAGTCACCAAAAGTTTTAT
196 ATTAATCAGAACAAAATGAAGGGATCTTTTAAGAACTAAGACACCAAAAGTTTTAT
*
25067887 CTCAAACTTCATGTACAACCACATAAACTGTTTAAGGCATGAATATAAATTGAAAACAAATTTGG
1 CTCAAACTTCATGTACAACCACATAAACTGTTTAAGGCACGAATATAAATTGAAAACAAATTTGG
25067952 CAAATTTCGTTACCTTATTAACCAAAACAGATTTGCACCAATTCGAGAATTTTACACAAGGCCAA
66 CAAATTTCGTTACCTTATTAACCAAAACAGATTTGCACCAATTCGAGAATTTTACACAAGGCCAA
25068017 TCAAGAGAATAACAACTCACGCTTCCTTTCGTAATGACTTTATCAACCACAATCGAAGAGTAACA
131 TCAAGAGAATAACAACTCACGCTTCCTTTCGTAATGACTTTATCAACCACAATCGAAGAGTAACA
*
25068082 ATTAATCAGAACAAAATGAAGGGATCTTTTAATAACTAAGACACCAAAAGTTTTAT
196 ATTAATCAGAACAAAATGAAGGGATCTTTTAAGAACTAAGACACCAAAAGTTTTAT
25068138 C
1 C
25068139 AATAATTTTC
Statistics
Matches: 245, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
251 245 1.00
ACGTcount: A:0.41, C:0.20, G:0.13, T:0.27
Consensus pattern (251 bp):
CTCAAACTTCATGTACAACCACATAAACTGTTTAAGGCACGAATATAAATTGAAAACAAATTTGG
CAAATTTCGTTACCTTATTAACCAAAACAGATTTGCACCAATTCGAGAATTTTACACAAGGCCAA
TCAAGAGAATAACAACTCACGCTTCCTTTCGTAATGACTTTATCAACCACAATCGAAGAGTAACA
ATTAATCAGAACAAAATGAAGGGATCTTTTAAGAACTAAGACACCAAAAGTTTTAT
Found at i:25069046 original size:19 final size:18
Alignment explanation
Indices: 25069022--25069061 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
25069012 CGTATGTAGT
*
25069022 GCCTCCGCGCCAAAGCCAC
1 GCCTCCGAGCC-AAGCCAC
*
25069041 GCCTCCGAGCCGAGCCAC
1 GCCTCCGAGCCAAGCCAC
25069059 GCC
1 GCC
25069062 ACTGCCAGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.17, C:0.53, G:0.25, T:0.05
Consensus pattern (18 bp):
GCCTCCGAGCCAAGCCAC
Found at i:25075179 original size:7 final size:7
Alignment explanation
Indices: 25075162--25075199 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
25075152 GATGTAAAAA
25075162 AAAAGATG
1 AAAA-ATG
25075170 AAAAATG
1 AAAAATG
*
25075177 AAAAGTG
1 AAAAATG
25075184 -AAAATG
1 AAAAATG
25075190 AAAAATG
1 AAAAATG
25075197 AAA
1 AAA
25075200 GAGTAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
6 5 0.19
7 18 0.67
8 4 0.15
ACGTcount: A:0.68, C:0.00, G:0.18, T:0.13
Consensus pattern (7 bp):
AAAAATG
Found at i:25075190 original size:20 final size:21
Alignment explanation
Indices: 25075162--25075210 Score: 73
Period size: 20 Copynumber: 2.3 Consensus size: 21
25075152 GATGTAAAAA
25075162 AAAAGATGAAAAATGAAA-AGT
1 AAAA-ATGAAAAATGAAAGAGT
*
25075183 GAAAATGAAAAATGAAAGAGT
1 AAAAATGAAAAATGAAAGAGT
25075204 AAAAATG
1 AAAAATG
25075211 GAGAGGCTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 13 0.52
21 12 0.48
ACGTcount: A:0.65, C:0.00, G:0.20, T:0.14
Consensus pattern (21 bp):
AAAAATGAAAAATGAAAGAGT
Found at i:25076823 original size:87 final size:86
Alignment explanation
Indices: 25076422--25076807 Score: 510
Period size: 84 Copynumber: 4.5 Consensus size: 86
25076412 ATCAATGAAA
* * **
25076422 ATCGAAAACAAAGCCTTGCCTCCATCGGTTGTAATGGAGCTGGTTGAAGATAGCAGATCTTGCCT
1 ATCGAAAA-AAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTCAAAGATAGCAGATCTTGCCT
* * * *
25076487 TCCTGCGTTAACAGCAAAGGAA
65 TCCTGCATTAACAGCGAAGCAG
* * * *
25076509 ATCCAAAATAAAGCATTGCCTCTATCGGTTGCAGTGGAGCTGGTCAAAGATAGCAGATTTTGCCT
1 ATCGAAAA-AAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTCAAAGATAGCAGATCTTGCCT
25076574 TCCTGCATTAACAGCGAAGCAG
65 TCCTGCATTAACAGCGAAGCAG
* *
25076596 ATCG--AAAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTCAAAGATAGCAGATTTTTCCTT
1 ATCGAAAAAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTCAAAGATAGCAGATCTTGCCTT
* * *
25076659 CTTGTATTAACAGCGAAGTAG
66 CCTGCATTAACAGCGAAGCAG
*
25076680 ATC--AAAAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTTGTCAAAGATAGCAGATCTTGCCTT
1 ATCGAAAAAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTCAAAGATAGCAGATCTTGCCTT
*
25076743 CCTGCGTTAACAGCGAAGCAG
66 CCTGCATTAACAGCGAAGCAG
* ** *
25076764 ATCGAAAACAAAACCTTGCCTCCATCAATTGCAGTAGAGCTGGT
1 ATCGAAAA-AAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGT
25076808 TAAAAATTAC
Statistics
Matches: 263, Mismatches: 32, Indels: 8
0.87 0.11 0.03
Matches are distributed among these distances:
84 151 0.57
85 2 0.01
86 3 0.01
87 107 0.41
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (86 bp):
ATCGAAAAAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTCAAAGATAGCAGATCTTGCCTT
CCTGCATTAACAGCGAAGCAG
Found at i:25077119 original size:131 final size:131
Alignment explanation
Indices: 25076805--25077102 Score: 481
Period size: 131 Copynumber: 2.3 Consensus size: 131
25076795 CAGTAGAGCT
* ** * *
25076805 GGTTAAAAATTACAGATCTGGTCTCCCTAAGCAGTAGCGAAGCAGATCGAGGATGGCGAATCTTA
1 GGTTAGAAATTACAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCGAAGATGGCGAATCTTA
* *
25076870 TCTTCCCCAGGAGTAGGGAAACAGATTTAAGCCACAAGTCCTATGTCCCTGACCAGCAGTGGAAT
66 TCTTCCCCAGGAGTAGGGAAACAGATTTAAGCCACAAGTCCTATCTCCCTAACCAGCAGTGGAAT
25076935 A
131 A
25076936 GGTTAGAAATTACAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCGAAGATGGCGAATCTTA
1 GGTTAGAAATTACAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCGAAGATGGCGAATCTTA
* * *
25077001 TCTTCCCTAGGAGTAGGGAAACGGATTTAAGCCACAAGTCCTATCTCCCTAACTAGCAGTGGAAT
66 TCTTCCCCAGGAGTAGGGAAACAGATTTAAGCCACAAGTCCTATCTCCCTAACCAGCAGTGGAAT
25077066 A
131 A
*
25077067 GGTTGGAAATTACA-AGTCTTATCTCCCTAAGCAGTA
1 GGTTAGAAATTACAGA-TCTTATCTCCCTAAGCAGTA
25077103 CTGGAGCTGA
Statistics
Matches: 155, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
130 1 0.01
131 154 0.99
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.24
Consensus pattern (131 bp):
GGTTAGAAATTACAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCGAAGATGGCGAATCTTA
TCTTCCCCAGGAGTAGGGAAACAGATTTAAGCCACAAGTCCTATCTCCCTAACCAGCAGTGGAAT
A
Found at i:25077158 original size:131 final size:131
Alignment explanation
Indices: 25076805--25077137 Score: 388
Period size: 131 Copynumber: 2.6 Consensus size: 131
25076795 CAGTAGAGCT
* ** * * ** * *
25076805 GGTTAAAAATTACAGATCTGGTCTCCCTAAGCAGTAGCGAAGCAGATCGAGGATGGCGAATCTTA
1 GGTTAGAAATTACAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCGAAGATAACCAATCCTA
* * * * * *
25076870 TCTTCCCCAGGAGTAGGGAAACAGATTTAAGCCACAAGTCCTATGTCCCTGACCAGCAGTGGAAT
66 TCTTCCCTAGAAGCAGGGAAACGGATTTAAGCCACAAGTCCTATCTCCCTAACCAGCAGTGGAAT
25076935 A
131 A
** * *
25076936 GGTTAGAAATTACAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCGAAGATGGCGAATCTTA
1 GGTTAGAAATTACAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCGAAGATAACCAATCCTA
* * *
25077001 TCTTCCCTAGGAGTAGGGAAACGGATTTAAGCCACAAGTCCTATCTCCCTAACTAGCAGTGGAAT
66 TCTTCCCTAGAAGCAGGGAAACGGATTTAAGCCACAAGTCCTATCTCCCTAACCAGCAGTGGAAT
25077066 A
131 A
* *
25077067 GGTTGGAAATTACA-AGTCTTATCTCCCTAAGCAGTA-CTGGAGCTGA-CAGAAGA-AACCAATC
1 GGTTAGAAATTACAGA-TCTTATCTCCCTAAGCAGTAGC-GGAGCAGATC-GAAGATAACCAATC
25077128 CTATC-TCCCT
63 CTATCTTCCCT
25077138 GAAATTGCAG
Statistics
Matches: 183, Mismatches: 16, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
129 5 0.03
130 12 0.07
131 166 0.91
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.24
Consensus pattern (131 bp):
GGTTAGAAATTACAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCGAAGATAACCAATCCTA
TCTTCCCTAGAAGCAGGGAAACGGATTTAAGCCACAAGTCCTATCTCCCTAACCAGCAGTGGAAT
A
Found at i:25078818 original size:3 final size:3
Alignment explanation
Indices: 25078803--25078850 Score: 53
Period size: 3 Copynumber: 16.0 Consensus size: 3
25078793 ATTGACCGGT
* * *
25078803 TTA TTA TCT- TTA TTA TTA TTA TTA TTA TTT TTA CTA CTA TTA TTA
1 TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
25078848 TTA
1 TTA
25078851 GTAGTATTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
2 1 0.03
3 37 0.95
4 1 0.03
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:25084966 original size:14 final size:14
Alignment explanation
Indices: 25084907--25084968 Score: 63
Period size: 14 Copynumber: 4.4 Consensus size: 14
25084897 GGATTTAAGG
*
25084907 TTTAGGGGTTAGTA
1 TTTAGGGGTTAGGA
*
25084921 GTTAGGGGTTAGG-
1 TTTAGGGGTTAGGA
* * *
25084934 GTTAAGAGTTAGTGA
1 TTTAGGGGTTAG-GA
25084949 TTTAGGGGTTAGGA
1 TTTAGGGGTTAGGA
25084963 TTTAGG
1 TTTAGG
25084969 TATTCAAAGG
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
13 10 0.26
14 20 0.51
15 9 0.23
ACGTcount: A:0.23, C:0.00, G:0.40, T:0.37
Consensus pattern (14 bp):
TTTAGGGGTTAGGA
Found at i:25085672 original size:116 final size:118
Alignment explanation
Indices: 25085455--25085673 Score: 320
Period size: 116 Copynumber: 1.9 Consensus size: 118
25085445 ATAATTTTTT
* *
25085455 GCGGCGTTTTTATAAAAAACGCCACAAAAAAATAATTTTACTTTAAAAAATAGCGAGATTTTTAG
1 GCGGCGTTTTTATAAAAAACGACACAAAAAAATAATTTTACTTTAAAAAATAGCGACATTTTTAG
*
25085520 CATAGCAAAACAGTGTCGTTTTATTCCAAATGAAATAATTTTTTGCGGCGTTA
66 CATAGCAAAACAGTGTCGTTTTATTCCAAATAAAATAATTTTTTGCGGCGTTA
* *
25085573 GCGGCGTTTTTATAAAAAACGACAC-CAAAAATAATTTTAGTTTAAAAAATTAGC-ACCA-TTTT
1 GCGGCGTTTTTATAAAAAACGACACAAAAAAATAATTTTACTTTAAAAAA-TAGCGA-CATTTTT
* * *
25085635 A-TATGGCAAAATAGTGTCGTTTTATTCCAAATAAAATAA
64 AGCATAGCAAAACAGTGTCGTTTTATTCCAAATAAAATAA
25085674 AAACGTCGTA
Statistics
Matches: 91, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
116 34 0.37
117 28 0.31
118 29 0.32
ACGTcount: A:0.40, C:0.13, G:0.14, T:0.33
Consensus pattern (118 bp):
GCGGCGTTTTTATAAAAAACGACACAAAAAAATAATTTTACTTTAAAAAATAGCGACATTTTTAG
CATAGCAAAACAGTGTCGTTTTATTCCAAATAAAATAATTTTTTGCGGCGTTA
Found at i:25086064 original size:43 final size:43
Alignment explanation
Indices: 25085836--25086040 Score: 304
Period size: 43 Copynumber: 4.8 Consensus size: 43
25085826 TTATGATAAA
*
25085836 AAACGCCGCTAAAGAACATGATCTTTAGCGACGCTTTACCCAC
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTACCCAC
*
25085879 AAATGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTACCCAC
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTACCCAC
*
25085922 AAACGCTGCTAAAGAACATGATCTTTAGCGGCGCTTTACCCAC
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTACCCAC
* * * * *
25085965 AAACGCCGCTAAAAAACATAATCTTTAGCGACACTTT-CTCTAC
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTAC-CCAC
* *
25086008 AAACGCCACTAAAGAACATGACCTTTAGCGGCG
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCG
25086041 TTTTTGGTAA
Statistics
Matches: 145, Mismatches: 16, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
42 1 0.01
43 144 0.99
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.22
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTACCCAC
Found at i:25087371 original size:3 final size:3
Alignment explanation
Indices: 25087365--25087394 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
25087355 CAACAGAATC
25087365 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
25087395 CTAGTGTACC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:25090134 original size:21 final size:21
Alignment explanation
Indices: 25090108--25090147 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
25090098 TTTGCTAGAT
25090108 ATAATTAAATTTAAATAGAAA
1 ATAATTAAATTTAAATAGAAA
* *
25090129 ATAATTAATTTTTAATAGA
1 ATAATTAAATTTAAATAGA
25090148 GTTAATTACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (21 bp):
ATAATTAAATTTAAATAGAAA
Found at i:25090439 original size:8 final size:8
Alignment explanation
Indices: 25090426--25090474 Score: 57
Period size: 8 Copynumber: 6.2 Consensus size: 8
25090416 ATTAAAACGT
25090426 AAACCCTA
1 AAACCCTA
25090434 AAACCCTTA
1 AAACCC-TA
25090443 AAACCCT-
1 AAACCCTA
*
25090450 AAACTCT-
1 AAACCCTA
25090457 AAACCCTA
1 AAACCCTA
*
25090465 AAATCCTA
1 AAACCCTA
25090473 AA
1 AA
25090475 CTCTTAACTC
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
7 12 0.33
8 16 0.44
9 8 0.22
ACGTcount: A:0.49, C:0.33, G:0.00, T:0.18
Consensus pattern (8 bp):
AAACCCTA
Found at i:25090502 original size:21 final size:21
Alignment explanation
Indices: 25090487--25090527 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
25090477 CTTAACTCAT
*
25090487 AACCTTTAAACCTTAAACCCC
1 AACCTTTAAACCTTAAACCAC
*
25090508 AACCTTTAAACCATAAACCA
1 AACCTTTAAACCTTAAACCA
25090528 TAAATCATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.44, C:0.34, G:0.00, T:0.22
Consensus pattern (21 bp):
AACCTTTAAACCTTAAACCAC
Found at i:25091157 original size:115 final size:114
Alignment explanation
Indices: 25090833--25091331 Score: 764
Period size: 114 Copynumber: 4.4 Consensus size: 114
25090823 CCCCGAAAGC
* *
25090833 GCTTAGGTTTTTTTGCGGCGCTTTCTTAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGTGCTTC
1 GCTTAGG-TTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTC
* * *
25090898 CTTAAAAATGCCGCTAAATCCCCGAAAGCTCACAAAACAATGTCATTTTG
65 CTTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGACGTCATTTTG
* * *
25090948 GCTTAGGTTTTTTGCGGTGCTTTCTCAAAAATGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTGC
1 GCTTAGGTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTCC
**
25091013 TTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGTGTCATTTTG
66 TTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGACGTCATTTTG
*
25091062 GCTTAGGTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAAGCCTTGAGCATTAGCGGCGCTTC
1 GCTTAGGTTTTTTGCGGCGCTTTCTCAAAAACGCCGCT-AAAGCCCTGAGCATTAGCGGCGCTTC
* * * *
25091127 CTTAAAAACGCCACTAAATCCCCGAAAGCTCACAAATCGGCATCATTTTG
65 CTTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGACGTCATTTTG
* ** *
25091177 GCTTAGGTTTTTTGCGGCGCTTTCTCAAAAACGCCGTTAAAGCCCTGAGCATTAGTAGCACTTCC
1 GCTTAGGTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTCC
* * * *
25091242 TTAAAAATGCTGCTAAATCCTCGAAAGCTCACAAAACGACGTCGTTTTG
66 TTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGACGTCATTTTG
*
25091291 GCTTAGGTTTTTTGCGGCCCTTTCTCAAAAACGCCGCTAAA
1 GCTTAGGTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAA
25091332 TCCCCAAAAG
Statistics
Matches: 352, Mismatches: 31, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
114 238 0.68
115 114 0.32
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (114 bp):
GCTTAGGTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTCC
TTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGACGTCATTTTG
Found at i:25091247 original size:229 final size:229
Alignment explanation
Indices: 25090833--25091331 Score: 766
Period size: 229 Copynumber: 2.2 Consensus size: 229
25090823 CCCCGAAAGC
* *
25090833 GCTTAGGTTTTTTTGCGGCGCTTTCTTAAAAACGCCGCT-AAAGCCCTGAGCATTAGCGGTGCTT
1 GCTTAGG-TTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAAGCCCTGAGCATTAGCGGCGCTT
* * **
25090897 CCTTAAAAATGCCGCTAAATCCCCGAAAGCTCACAAAACAATGTCATTTTGGCTTAGGTTTTTTG
65 CCTTAAAAACGCCACTAAATCCCCGAAAGCTCACAAAACAACATCATTTTGGCTTAGGTTTTTTG
* * * * *
25090962 CGGTGCTTTCTCAAAAATGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTGCTTAAAAACGCCGCT
130 CGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCAGCACTTCCTTAAAAACGCCGCT
**
25091027 AAATCCCCGAAAGCTCACAAAACGGTGTCATTTTG
195 AAATCCCCGAAAGCTCACAAAACGACGTCATTTTG
*
25091062 GCTTAGGTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAAGCCTTGAGCATTAGCGGCGCTTC
1 GCTTAGGTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAAGCCCTGAGCATTAGCGGCGCTTC
* **
25091127 CTTAAAAACGCCACTAAATCCCCGAAAGCTCACAAATCGGCATCATTTTGGCTTAGGTTTTTTGC
66 CTTAAAAACGCCACTAAATCCCCGAAAGCTCACAAAACAACATCATTTTGGCTTAGGTTTTTTGC
* * * *
25091192 GGCGCTTTCTCAAAAACGCCGTTAAAGCCCTGAGCATTAGTAGCACTTCCTTAAAAATGCTGCTA
131 GGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCAGCACTTCCTTAAAAACGCCGCTA
* *
25091257 AATCCTCGAAAGCTCACAAAACGACGTCGTTTTG
196 AATCCCCGAAAGCTCACAAAACGACGTCATTTTG
*
25091291 GCTTAGGTTTTTTGCGGCCCTTTCTCAAAAACGCCGCTAAA
1 GCTTAGGTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAA
25091332 TCCCCAAAAG
Statistics
Matches: 245, Mismatches: 24, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
228 30 0.12
229 215 0.88
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (229 bp):
GCTTAGGTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAAGCCCTGAGCATTAGCGGCGCTTC
CTTAAAAACGCCACTAAATCCCCGAAAGCTCACAAAACAACATCATTTTGGCTTAGGTTTTTTGC
GGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCAGCACTTCCTTAAAAACGCCGCTA
AATCCCCGAAAGCTCACAAAACGACGTCATTTTG
Found at i:25091334 original size:73 final size:72
Alignment explanation
Indices: 25091244--25091400 Score: 206
Period size: 72 Copynumber: 2.2 Consensus size: 72
25091234 GCACTTCCTT
* * * * * *
25091244 AAAAATGCTGCTAAATCCTCGAAAGCTCACAAAACGACGTCGTTTTGGCTTAGGTTTTTTGCGGC
1 AAAAACGCCGCTAAATCCCCAAAAGCTCACAAAACGACGTCG-TTGGGCTTAGGTTTTTTACGGC
*
25091309 CCTTTCTC
65 CCTTTCTA
* * *
25091317 AAAAACGCCGCTAAATCCCCAAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTACGGCG
1 AAAAACGCCGCTAAATCCCCAAAAGCTCACAAAACGACGTCGTTGGGCTTAGGTTTTTTACGGCC
*
25091382 CTTTTTA
66 CTTTCTA
25091389 AAAAACGCCGCT
1 AAAAACGCCGCT
25091401 TATGCTTATT
Statistics
Matches: 73, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
72 37 0.51
73 36 0.49
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.27
Consensus pattern (72 bp):
AAAAACGCCGCTAAATCCCCAAAAGCTCACAAAACGACGTCGTTGGGCTTAGGTTTTTTACGGCC
CTTTCTA
Found at i:25092503 original size:17 final size:16
Alignment explanation
Indices: 25092467--25092496 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
25092457 GTTTTCTGGG
25092467 TTTTATAATTTGCTTC
1 TTTTATAATTTGCTTC
25092483 TTTTATAA-TTGCTT
1 TTTTATAATTTGCTT
25092497 TTCTTTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.20, C:0.10, G:0.07, T:0.63
Consensus pattern (16 bp):
TTTTATAATTTGCTTC
Found at i:25093935 original size:27 final size:27
Alignment explanation
Indices: 25093897--25093952 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
25093887 GGATTAATTT
25093897 CATGTAAATATAAATTATATATATACC
1 CATGTAAATATAAATTATATATATACC
*
25093924 CATGTACATATAAATTATATATATACC
1 CATGTAAATATAAATTATATATATACC
25093951 CA
1 CA
25093953 GGTTATTAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.46, C:0.14, G:0.04, T:0.36
Consensus pattern (27 bp):
CATGTAAATATAAATTATATATATACC
Found at i:25095414 original size:43 final size:43
Alignment explanation
Indices: 25095353--25095609 Score: 381
Period size: 43 Copynumber: 6.0 Consensus size: 43
25095343 CATCATTATA
*
25095353 GTTTGTGGTATAAGCGCCGCTAAAGGTCATGATCTTTAGCGGC
1 GTTTGTGGTAGAAGCGCCGCTAAAGGTCATGATCTTTAGCGGC
* *
25095396 GTTTGTGGTAGAAGCGCCGCTAAAAGTCATGTTCTTTAGCGGC
1 GTTTGTGGTAGAAGCGCCGCTAAAGGTCATGATCTTTAGCGGC
* * * * *
25095439 GTTTGTGGTAGAATCGCCGCTAAAGATCATGTTCTTTCGTGGC
1 GTTTGTGGTAGAAGCGCCGCTAAAGGTCATGATCTTTAGCGGC
* * *
25095482 GTTTGTGGTAGAAGCGCAGCTAAACGTCATGTTCTTTAGCGGC
1 GTTTGTGGTAGAAGCGCCGCTAAAGGTCATGATCTTTAGCGGC
* *
25095525 GTTTGTGG-GGAAGCACCGCTAAAGGTCATGATCTTTAGCGGC
1 GTTTGTGGTAGAAGCGCCGCTAAAGGTCATGATCTTTAGCGGC
*
25095567 GTTTGTGGTAGAAGCGCCGCTAAAAGTCATGATCTTTAGCGGC
1 GTTTGTGGTAGAAGCGCCGCTAAAGGTCATGATCTTTAGCGGC
25095610 ATTTATAAAA
Statistics
Matches: 191, Mismatches: 22, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
42 37 0.19
43 154 0.81
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (43 bp):
GTTTGTGGTAGAAGCGCCGCTAAAGGTCATGATCTTTAGCGGC
Found at i:25095635 original size:128 final size:129
Alignment explanation
Indices: 25095372--25095636 Score: 329
Period size: 128 Copynumber: 2.1 Consensus size: 129
25095362 ATAAGCGCCG
* * *
25095372 CTAAAGGTCATGATCTTTAGCGGCGTTTGTGGTAGAAGCGCCGCTAAAAGTCATGTTCTTTAGCG
1 CTAAACGTCATGATCTTTAGCGGCGTTTGTGGTAGAAGCACCGCTAAAAGTCATGATCTTTAGCG
* * * * * * *** * *
25095437 GCGTTTGTGGTAGAATCGCCGCTAAAGATCATGTTCTTTCGTGGCGTTTGTGGTAGAAGCGCAG
66 GCGTTTGTGGTAGAAGCGCCGCTAAAGATCATGATCTTTAGCGGCATTTATAAAAGAAACGCAA
* * *
25095501 CTAAACGTCATGTTCTTTAGCGGCGTTTGTGG-GGAAGCACCGCTAAAGGTCATGATCTTTAGCG
1 CTAAACGTCATGATCTTTAGCGGCGTTTGTGGTAGAAGCACCGCTAAAAGTCATGATCTTTAGCG
*
25095565 GCGTTTGTGGTAGAAGCGCCGCTAAA-AGTCATGATCTTTAGCGGCATTTATAAAAATAAACGCA
66 GCGTTTGTGGTAGAAGCGCCGCTAAAGA-TCATGATCTTTAGCGGCATTTAT-AAAAGAAACGCA
25095629 A
129 A
25095630 C-AAACGT
1 CTAAACGT
25095637 TAGTGGCGTT
Statistics
Matches: 116, Mismatches: 18, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
127 1 0.01
128 77 0.66
129 38 0.33
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (129 bp):
CTAAACGTCATGATCTTTAGCGGCGTTTGTGGTAGAAGCACCGCTAAAAGTCATGATCTTTAGCG
GCGTTTGTGGTAGAAGCGCCGCTAAAGATCATGATCTTTAGCGGCATTTATAAAAGAAACGCAA
Found at i:25097214 original size:15 final size:15
Alignment explanation
Indices: 25097162--25097206 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
25097152 TTAAAACAAA
*
25097162 TATTTTTTATTATATT
1 TATTTATTATT-TATT
*
25097178 TATATATGTATTTATT
1 TATTTAT-TATTTATT
25097194 TATTTATTATTTA
1 TATTTATTATTTA
25097207 ATTTTTTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
15 6 0.24
16 15 0.60
17 4 0.16
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (15 bp):
TATTTATTATTTATT
Found at i:25097587 original size:15 final size:15
Alignment explanation
Indices: 25097564--25097596 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
25097554 TTTTTATGTC
25097564 ATTGATGTATTTATT
1 ATTGATGTATTTATT
*
25097579 ATTGTTGTATTTATT
1 ATTGATGTATTTATT
25097594 ATT
1 ATT
25097597 ATAGCATTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (15 bp):
ATTGATGTATTTATT
Found at i:25099089 original size:19 final size:20
Alignment explanation
Indices: 25099044--25099091 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
25099034 TGGTGCTACA
*
25099044 TCAACAATAAAATATTAAAAG
1 TCAA-AATAAAATAATAAAAG
*
25099065 TCAAAATAAAATAATAAAGG
1 TCAAAATAAAATAATAAAAG
25099085 T-AAAATA
1 TCAAAATA
25099092 TAAAAATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 6 0.24
20 15 0.60
21 4 0.16
ACGTcount: A:0.65, C:0.06, G:0.06, T:0.23
Consensus pattern (20 bp):
TCAAAATAAAATAATAAAAG
Found at i:25109471 original size:6 final size:6
Alignment explanation
Indices: 25109460--25109489 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
25109450 CAAGATTGTA
25109460 TTATGT TTATGT TTATGT TTATGT TTATGT
1 TTATGT TTATGT TTATGT TTATGT TTATGT
25109490 GAGGAAAAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.17, T:0.67
Consensus pattern (6 bp):
TTATGT
Found at i:25114412 original size:17 final size:18
Alignment explanation
Indices: 25114385--25114419 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
25114375 TCTTCTCTTT
25114385 CTTTTTCTTCTTCAGCAA
1 CTTTTTCTTCTTCAGCAA
25114403 CTTTTT-TTCTTCAGCAA
1 CTTTTTCTTCTTCAGCAA
25114420 TAATTTTCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.17, C:0.26, G:0.06, T:0.51
Consensus pattern (18 bp):
CTTTTTCTTCTTCAGCAA
Found at i:25118282 original size:12 final size:12
Alignment explanation
Indices: 25118265--25118291 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
25118255 TTTAAGTATA
25118265 AATAATAAACAT
1 AATAATAAACAT
25118277 AATAATAAACAT
1 AATAATAAACAT
25118289 AAT
1 AAT
25118292 GGAAAGAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.26
Consensus pattern (12 bp):
AATAATAAACAT
Found at i:25124272 original size:30 final size:30
Alignment explanation
Indices: 25124238--25124334 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
25124228 AGCTCACTCC
25124238 TAGCTCATA-TTTAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTTAGCTCACGAGCTAAACCT
* * * * * *
25124268 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
* *
25124298 CAGCTCAACTTTAGCTCACGAGCTAAAACT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
25124328 TAGCTCA
1 TAGCTCA
25124335 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAACCT
Found at i:25135116 original size:27 final size:27
Alignment explanation
Indices: 25135086--25135263 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
25135076 ATATTGAGTC
* * * *
25135086 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
25135113 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
25135140 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
25135168 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
25135195 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
25135222 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
25135249 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
25135264 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:25135225 original size:82 final size:81
Alignment explanation
Indices: 25135107--25135262 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
25135097 TGCTATATAA
* *
25135107 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
25135172 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
25135189 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
25135253 CACTTAGTGC
65 CACTTAGTGC
25135263 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:25144206 original size:27 final size:27
Alignment explanation
Indices: 25144176--25144325 Score: 140
Period size: 27 Copynumber: 5.5 Consensus size: 27
25144166 ATATTGAGTC
* *
25144176 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
25144203 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
25144230 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
25144258 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
25144285 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
25144312 CGCACACTTAGTGC
1 CGCACACTTAGTGC
25144326 AACAAAGTAG
Statistics
Matches: 102, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
27 79 0.77
28 23 0.23
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:25144269 original size:55 final size:54
Alignment explanation
Indices: 25144176--25144353 Score: 173
Period size: 54 Copynumber: 3.3 Consensus size: 54
25144166 ATATTGAGTC
* * * *
25144176 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACATAATCAAAT
* * ** *
25144230 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACTCGCACACTTAGTGCCACATAATCAAAT
* ** *
25144285 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACTCGCACACTTAGTGCCACATAA-TCA-AAT
*
25144339 TGCACACTTAGTGCT
1 CGCACACTTAGTGCT
25144354 GTACAATTTA
Statistics
Matches: 101, Mismatches: 18, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
53 1 0.01
54 55 0.54
55 45 0.45
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACATAATCAAAT
Found at i:25144326 original size:27 final size:27
Alignment explanation
Indices: 25144176--25144352 Score: 137
Period size: 27 Copynumber: 6.5 Consensus size: 27
25144166 ATATTGAGTC
* * *
25144176 CGCACACTCAGTGCTAT-ATAATCAACT
1 CGCACACTTAGTGC-ATCATAGTCAATT
* * * *
25144203 CGCACATTTAGTGCCA-CGTAATCAAAT
1 CGCACACTTAGTG-CATCATAGTCAATT
*
25144230 CGCACACTTAGTGC-TACATAGTCAAACT
1 CGCACACTTAGTGCAT-CATAGTC-AATT
** *
25144258 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCATCATAGTCAATT
* *
25144285 CGCACACTTAGTGCATCATATTCATTT
1 CGCACACTTAGTGCATCATAGTCAATT
* * *
25144312 CGCACACTTAGTGCAACAAAGTAGAATT
1 CGCACACTTAGTGCATCATAGT-CAATT
25144340 -GCACACTTAGTGC
1 CGCACACTTAGTGC
25144353 TGTACAATTT
Statistics
Matches: 122, Mismatches: 21, Indels: 14
0.78 0.13 0.09
Matches are distributed among these distances:
26 1 0.01
27 94 0.77
28 27 0.22
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCATCATAGTCAATT
Found at i:25148391 original size:42 final size:42
Alignment explanation
Indices: 25148344--25148428 Score: 127
Period size: 42 Copynumber: 2.0 Consensus size: 42
25148334 TATGGGTCTA
25148344 TACTTTAGTTTAGTCGATGATGCAATTATGTGTCAA-TATATT
1 TACTTTAGTTTAGTCGATGATGCAATTATGTG-CAAGTATATT
* * *
25148386 TACTTTGGTTTGGTCGATGATGCACTTATGTGCAAGTATATT
1 TACTTTAGTTTAGTCGATGATGCAATTATGTGCAAGTATATT
25148428 T
1 T
25148429 GGTTCGGTTC
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
41 3 0.08
42 36 0.92
ACGTcount: A:0.25, C:0.11, G:0.20, T:0.45
Consensus pattern (42 bp):
TACTTTAGTTTAGTCGATGATGCAATTATGTGCAAGTATATT
Found at i:25148486 original size:42 final size:42
Alignment explanation
Indices: 25148400--25148537 Score: 147
Period size: 42 Copynumber: 3.3 Consensus size: 42
25148390 TTGGTTTGGT
* **
25148400 CGATGATGCACTTATGTG-CAAGTATATTTGGTTC-GGTTCATC
1 CGATGATGCACTTATGTGCCAA-TATATTTGCTTCAACTT-ATC
* *
25148442 CGATGATGCACTTATGTGCCAATATAATTGCTTCAACTTGTC
1 CGATGATGCACTTATGTGCCAATATATTTGCTTCAACTTATC
* * * *
25148484 CGATGATGCACCTAAT-TGCCAGTATATTTCCTTCAATTTATC
1 CGATGATGCA-CTTATGTGCCAATATATTTGCTTCAACTTATC
25148526 CGATGATGCACT
1 CGATGATGCACT
25148538 ACAATGCCAG
Statistics
Matches: 82, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
41 2 0.02
42 71 0.87
43 9 0.11
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (42 bp):
CGATGATGCACTTATGTGCCAATATATTTGCTTCAACTTATC
Found at i:25151848 original size:31 final size:31
Alignment explanation
Indices: 25151775--25151841 Score: 107
Period size: 31 Copynumber: 2.2 Consensus size: 31
25151765 GGTTTTGAAG
* *
25151775 TATCAAGTACTATGTAACGGTGACTATATTA
1 TATCAAGTACTATGTAACAGTGACCATATTA
*
25151806 TATCAAGTACTATGTACCAGTGACCATATTA
1 TATCAAGTACTATGTAACAGTGACCATATTA
25151837 TATCA
1 TATCA
25151842 GTTACTACGT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.34
Consensus pattern (31 bp):
TATCAAGTACTATGTAACAGTGACCATATTA
Found at i:25159688 original size:21 final size:21
Alignment explanation
Indices: 25159646--25159692 Score: 53
Period size: 20 Copynumber: 2.2 Consensus size: 21
25159636 CAATAATATT
*
25159646 ATAAATTATAAGTTATTTAAAA
1 ATAAATTATAAG-TATTAAAAA
25159668 ATAATATTATAA-TATT-AAAA
1 ATAA-ATTATAAGTATTAAAAA
25159688 ATAAA
1 ATAAA
25159693 AATTTTATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 1 0.04
20 8 0.33
21 4 0.17
22 4 0.17
23 7 0.29
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (21 bp):
ATAAATTATAAGTATTAAAAA
Found at i:25170405 original size:8 final size:8
Alignment explanation
Indices: 25170385--25170434 Score: 59
Period size: 8 Copynumber: 6.5 Consensus size: 8
25170375 GTTCAGATAT
25170385 AAAAAAA-
1 AAAAAAAC
*
25170392 ACAAAAAC
1 AAAAAAAC
25170400 AAAAAAAC
1 AAAAAAAC
25170408 AAAAAAAC
1 AAAAAAAC
*
25170416 -AAAAAAG
1 AAAAAAAC
*
25170423 TAAAAAAC
1 AAAAAAAC
25170431 AAAA
1 AAAA
25170435 TGAAAGTGAT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
7 12 0.33
8 24 0.67
ACGTcount: A:0.86, C:0.10, G:0.02, T:0.02
Consensus pattern (8 bp):
AAAAAAAC
Found at i:25170405 original size:15 final size:14
Alignment explanation
Indices: 25170385--25170421 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
25170375 GTTCAGATAT
25170385 AAAAAAAACAAAAA
1 AAAAAAAACAAAAA
*
25170399 CAAAAAAACAAAAA
1 AAAAAAAACAAAAA
25170413 AACAAAAAA
1 AA-AAAAAA
25170422 GTAAAAAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
14 14 0.70
15 6 0.30
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (14 bp):
AAAAAAAACAAAAA
Found at i:25170420 original size:23 final size:22
Alignment explanation
Indices: 25170386--25170434 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 22
25170376 TTCAGATATA
25170386 AAAAAAACAAAAACAAAAAAAC
1 AAAAAAACAAAAACAAAAAAAC
25170408 AAAAAAACAAAAA-AGTAAAAAAC
1 AAAAAAACAAAAACA--AAAAAAC
25170431 AAAA
1 AAAA
25170435 TGAAAGTGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 1 0.04
22 13 0.52
23 11 0.44
ACGTcount: A:0.86, C:0.10, G:0.02, T:0.02
Consensus pattern (22 bp):
AAAAAAACAAAAACAAAAAAAC
Found at i:25171801 original size:44 final size:43
Alignment explanation
Indices: 25171744--25172502 Score: 478
Period size: 44 Copynumber: 17.6 Consensus size: 43
25171734 GAAGATGGCA
*
25171744 AGTCTTATCTCCCTGAAGTAGCAGTGGAGCAGATTAAAGTCGAT
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTC-AT
* * * *
25171788 AGTCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAA-ACCT
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCAT
* * * ***
25171830 CAGATCTTATCTCTCTGAAGTTGCAG-AGAGCATATCGCA-TC-T
1 -AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCAT
* *
25171872 AGTCTTTTCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGTAAGCA-
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGT---CAT
* * *
25171916 AGTCTTATC-CTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCA-
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGAGCAGA-TTAA-A-GTCAT
* *
25171961 AGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCGAT
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTC-AT
* * * * *
25172005 AATCCTATCTCACTGAAGTTGCAGTGGAGCGGATTAAAACCTCA-
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAA-GTCAT
* * * * * ***
25172049 AATCTTATCTCTCTAAAGTTGTAG-AGAGCAGATCGCA-TC-T
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCAT
25172089 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGAT
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTC-AT
* * * * * *
25172133 AATCCTATC-CTCCTGAAGTTACAGTGGAGCGGATTAAA-ACCT
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGAGCAGATTAAAGTCAT
* * ***
25172175 CAGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGATCGCA-TC-T
1 -AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCAT
25172217 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGAT
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTC-AT
* * * * * *
25172261 AATCCTATC-CTCCTGAAGTTACAGTGGAGCGGATTAAA-ACCT
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGAGCAGATTAAAGTCAT
* * ***
25172303 CAGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGATCGCA-TC-T
1 -AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCAT
*
25172345 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGTAAGCA-
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGT---CAT
* * * * *
25172389 AGTCTTATC-CTCCTGAAGTTGCAATGGGGTAGACTGAAATTGGCA-
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGAGCAGA-TTAAA--GTCAT
* *
25172434 AGTCTTATCTCCCTGAAATTGCAGTGGAGCAGACTAAA-TAAGCA-
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGT---CAT
25172478 AGTCTTATC-CTCCTGAAGTTGCAGT
1 AGTCTTATCTC-CCTGAAGTTGCAGT
25172503 AAGGCAGACT
Statistics
Matches: 554, Mismatches: 110, Indels: 102
0.72 0.14 0.13
Matches are distributed among these distances:
40 86 0.16
41 39 0.07
42 13 0.02
43 47 0.08
44 294 0.53
45 66 0.12
46 6 0.01
47 1 0.00
48 2 0.00
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (43 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCAT
Found at i:25172120 original size:128 final size:128
Alignment explanation
Indices: 25171961--25172377 Score: 764
Period size: 128 Copynumber: 3.3 Consensus size: 128
25171951 GAAGATGGCA
* *
25171961 AGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCGATAATCCTAT-CTCACTGAAGTT
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGATAATCCTATCCTC-CTGAAGTT
* * * *
25172025 GCAGTGGAGCGGATTAAAACCTCAAATCTTATCTCTCTAAAGTTGTAGAGAGCAGATCGCATCT
65 ACAGTGGAGCGGATTAAAACCTCAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCT
25172089 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGATAATCCTATCCTCCTGAAGTTA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGATAATCCTATCCTCCTGAAGTTA
25172154 CAGTGGAGCGGATTAAAACCTCAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCT
66 CAGTGGAGCGGATTAAAACCTCAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCT
25172217 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGATAATCCTATCCTCCTGAAGTTA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGATAATCCTATCCTCCTGAAGTTA
25172282 CAGTGGAGCGGATTAAAACCTCAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCT
66 CAGTGGAGCGGATTAAAACCTCAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCT
25172345 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
25172378 CTAAGTAAGC
Statistics
Matches: 282, Mismatches: 6, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
128 279 0.99
129 3 0.01
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.28
Consensus pattern (128 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGATAATCCTATCCTCCTGAAGTTA
CAGTGGAGCGGATTAAAACCTCAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCT
Found at i:25172144 original size:217 final size:217
Alignment explanation
Indices: 25171734--25172159 Score: 685
Period size: 217 Copynumber: 2.0 Consensus size: 217
25171724 GGAGCAGATC
* *
25171734 GAAGATGGCAAGTCTTATCTCCCTGAAGTAGCAGTGGAGCAGATTAAAGTCGATAGTCCTATCTC
1 GAAGATGGCAAGTCTTATCTCCCTGAAGTAGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTC
* * * *
25171799 CCTGAAGTTGCAGTGGAGCGGATTAAAACCTCAGATCTTATCTCTCTGAAGTTGCAGAGAGCATA
66 ACTGAAGTTGCAGTGGAGCGGATTAAAACCTCAAATCTTATCTCTCTAAAGTTGCAGAGAGCAGA
* * *
25171864 TCGCATCTAGTCTTTTCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCC
131 TCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAATCCTATCCTCC
*
25171929 TGAAGTTGCAGTGGGGCAGACT
196 TGAAGTTACAGTGGGGCAGACT
* *
25171951 GAAGATGGCAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCGATAATCCTATCTC
1 GAAGATGGCAAGTCTTATCTCCCTGAAGTAGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTC
*
25172016 ACTGAAGTTGCAGTGGAGCGGATTAAAACCTCAAATCTTATCTCTCTAAAGTTGTAGAGAGCAGA
66 ACTGAAGTTGCAGTGGAGCGGATTAAAACCTCAAATCTTATCTCTCTAAAGTTGCAGAGAGCAGA
* *
25172081 TCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGT-CG-ATAATCCTATCCT
131 TCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGTAAGCA-AATCCTATCCT
25172144 CCTGAAGTTACAGTGG
194 CCTGAAGTTACAGTGG
25172160 AGCGGATTAA
Statistics
Matches: 192, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
216 1 0.01
217 187 0.97
218 4 0.02
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.28
Consensus pattern (217 bp):
GAAGATGGCAAGTCTTATCTCCCTGAAGTAGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTC
ACTGAAGTTGCAGTGGAGCGGATTAAAACCTCAAATCTTATCTCTCTAAAGTTGCAGAGAGCAGA
TCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAATCCTATCCTCC
TGAAGTTACAGTGGGGCAGACT
Found at i:25172512 original size:89 final size:89
Alignment explanation
Indices: 25172345--25172515 Score: 288
Period size: 89 Copynumber: 1.9 Consensus size: 89
25172335 GATCGCATCT
* *
25172345 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTG
1 AGTCTTATCTCCCTGAAATTGCAGTGGAGCAGACTAAATAAGCAAGTCTTATCCTCCTGAAGTTG
** *
25172410 CAATGGGGTAGACTGAAATTGGCA
66 CAATAAGGCAGACTGAAATTGGCA
25172434 AGTCTTATCTCCCTGAAATTGCAGTGGAGCAGACTAAATAAGCAAGTCTTATCCTCCTGAAGTTG
1 AGTCTTATCTCCCTGAAATTGCAGTGGAGCAGACTAAATAAGCAAGTCTTATCCTCCTGAAGTTG
*
25172499 CAGTAAGGCAGACTGAA
66 CAATAAGGCAGACTGAA
25172516 GATGACACTA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
89 76 1.00
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (89 bp):
AGTCTTATCTCCCTGAAATTGCAGTGGAGCAGACTAAATAAGCAAGTCTTATCCTCCTGAAGTTG
CAATAAGGCAGACTGAAATTGGCA
Found at i:25173925 original size:22 final size:20
Alignment explanation
Indices: 25173878--25173926 Score: 53
Period size: 22 Copynumber: 2.3 Consensus size: 20
25173868 CTGTAATTAG
*
25173878 TTTTTATTTATATATTTTGT
1 TTTTTATTTATATATTTTAT
*
25173898 TGTTTTCATTTATTTATTTATAT
1 T-TTTT-ATTTATATATTT-TAT
25173921 TTTTTA
1 TTTTTA
25173927 AAAAACAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
20 1 0.04
21 5 0.21
22 15 0.62
23 3 0.12
ACGTcount: A:0.20, C:0.02, G:0.04, T:0.73
Consensus pattern (20 bp):
TTTTTATTTATATATTTTAT
Found at i:25179924 original size:16 final size:16
Alignment explanation
Indices: 25179903--25179970 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
25179893 GATTTGCTAT
25179903 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
25179919 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
25179935 TACAACTCTAATCCAA
1 TACACCTCTAATCCAA
25179951 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
25179967 TACA
1 TACA
25179971 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.40, C:0.35, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:25189012 original size:50 final size:50
Alignment explanation
Indices: 25188890--25189124 Score: 204
Period size: 50 Copynumber: 4.6 Consensus size: 50
25188880 ACATGCTAAA
* * *
25188890 GCCATGTCCCAGACATGGTCTTACATGGGATGTT-TCTTGT-ACTGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGA-GTTCTCATATCAGTGCCAAT
* * * * *
25188939 GACATATCCCAGATATGGTCTTACATAGGAGTTCTCATATCAGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCAGTGCCAAT
* ** ** * *
25188989 GCCATGTCCCAGACATGGCCTTACGGGGGACCTCTCATCTCAGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCAGTGCCAAT
* * **
25189039 GCCATGTCCTAGACATGGTATTACATGGGACCTCTCATAATCTCAATGATGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCAT-A--TC-A-G-TGCCAAT
* *
25189095 GCCATGTTCCAAACATGGTCTTACATGGGA
1 GCCATGTCCCAGACATGGTCTTACATGGGA
25189125 TCTCATCACC
Statistics
Matches: 147, Mismatches: 31, Indels: 9
0.79 0.17 0.05
Matches are distributed among these distances:
48 3 0.02
49 30 0.20
50 78 0.53
53 2 0.01
54 1 0.01
55 1 0.01
56 32 0.22
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.28
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCAGTGCCAAT
Found at i:25193114 original size:36 final size:36
Alignment explanation
Indices: 25193067--25193147 Score: 135
Period size: 36 Copynumber: 2.2 Consensus size: 36
25193057 GTGTGCCTAG
25193067 CACTAGTCGAACGAATCAACAAATTATTGCGCCCAA
1 CACTAGTCGAACGAATCAACAAATTATTGCGCCCAA
* * *
25193103 CACTAGTCGAACGAATCAACAAATTATTGTGCTCAG
1 CACTAGTCGAACGAATCAACAAATTATTGCGCCCAA
25193139 CACTAGTCG
1 CACTAGTCG
25193148 GATAACTGAT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 42 1.00
ACGTcount: A:0.36, C:0.26, G:0.16, T:0.22
Consensus pattern (36 bp):
CACTAGTCGAACGAATCAACAAATTATTGCGCCCAA
Found at i:25223742 original size:17 final size:17
Alignment explanation
Indices: 25223720--25223753 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
25223710 CACTGACATG
25223720 AAAATGTAATGACAATA
1 AAAATGTAATGACAATA
25223737 AAAATGTAATGACAATA
1 AAAATGTAATGACAATA
25223754 TATATTTATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.06, G:0.12, T:0.24
Consensus pattern (17 bp):
AAAATGTAATGACAATA
Found at i:25224235 original size:21 final size:21
Alignment explanation
Indices: 25224205--25224261 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
25224195 TTCTCATTTT
*
25224205 CAGCAACTTCTTCTTCTTCAG
1 CAGCAACTTCTTCTTCTACAG
*
25224226 CAAG-AACTTCCTCTTCTACAG
1 C-AGCAACTTCTTCTTCTACAG
25224247 CAGCAACTTCCTTCT
1 CAGCAACTT-CTTCT
25224262 CAACAACAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 2 0.07
21 22 0.73
22 6 0.20
ACGTcount: A:0.23, C:0.35, G:0.09, T:0.33
Consensus pattern (21 bp):
CAGCAACTTCTTCTTCTACAG
Found at i:25230567 original size:21 final size:20
Alignment explanation
Indices: 25230520--25230570 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
25230510 CTGCAATCAA
*
25230520 AAAGATTGATCACAAAATCT
1 AAAGATTGATAACAAAATCT
* *
25230540 ATCAGATTGATAACAAAGTCT
1 A-AAGATTGATAACAAAATCT
25230561 CAAAGATTGA
1 -AAAGATTGA
25230571 GAAAACGACA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
20 1 0.04
21 23 0.92
22 1 0.04
ACGTcount: A:0.47, C:0.14, G:0.14, T:0.25
Consensus pattern (20 bp):
AAAGATTGATAACAAAATCT
Done.