Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167893.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_16, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 22157061
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 74000 characters in sequence are not A, C, G, or T
File 43 of 113
Found at i:11929269 original size:16 final size:16
Alignment explanation
Indices: 11929250--11929349 Score: 50
Period size: 16 Copynumber: 6.4 Consensus size: 16
11929240 TTCGTTTCTT
11929250 TTTATTATTTTTATTA
1 TTTATTATTTTTATTA
* *
11929266 TTTACTATTATTA-TA
1 TTTATTATTTTTATTA
** *
11929281 -TTAGGATTATTTAATA
1 TTTATTATT-TTTATTA
* *
11929297 TTT-TT-TTTCTATTT
1 TTTATTATTTTTATTA
*
11929311 TTTATTTATTTTCATT-
1 TTTA-TTATTTTTATTA
11929327 TTTATT-TATTTTATTTA
1 TTTATTAT-TTTTA-TTA
11929344 TTTATT
1 TTTATT
11929350 TTATTTTTTC
Statistics
Matches: 62, Mismatches: 13, Indels: 17
0.67 0.14 0.18
Matches are distributed among these distances:
14 14 0.23
15 13 0.21
16 21 0.34
17 14 0.23
ACGTcount: A:0.24, C:0.03, G:0.02, T:0.71
Consensus pattern (16 bp):
TTTATTATTTTTATTA
Found at i:11929309 original size:11 final size:11
Alignment explanation
Indices: 11929295--11929358 Score: 53
Period size: 11 Copynumber: 5.7 Consensus size: 11
11929285 GATTATTTAA
11929295 TATTTTTT-TT
1 TATTTTTTATT
11929305 CTATTTTTTATT
1 -TATTTTTTATT
*
11929317 TA-TTTTCATT
1 TATTTTTTATT
*
11929327 T-TTATTTATTT
1 TATTTTTTA-TT
11929338 TATTTATTTATTT
1 TATTT-TTTA-TT
11929351 TATTTTTT
1 TATTTTTT
11929359 CTAAATAAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
10 12 0.27
11 13 0.30
12 7 0.16
13 12 0.27
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (11 bp):
TATTTTTTATT
Found at i:11929320 original size:29 final size:28
Alignment explanation
Indices: 11929295--11929358 Score: 87
Period size: 28 Copynumber: 2.3 Consensus size: 28
11929285 GATTATTTAA
11929295 TATTTTTTTTCTA-TTT-TTTATTTATTT
1 TATTTTTTTT-TATTTTATTTATTTATTT
*
11929322 TCATTTTTATTTATTTTATTTATTTATTT
1 T-ATTTTTTTTTATTTTATTTATTTATTT
11929351 TATTTTTT
1 TATTTTTT
11929359 CTAAATAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
27 3 0.09
28 17 0.53
29 12 0.38
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (28 bp):
TATTTTTTTTTATTTTATTTATTTATTT
Found at i:11929345 original size:13 final size:13
Alignment explanation
Indices: 11929311--11929355 Score: 63
Period size: 13 Copynumber: 3.2 Consensus size: 13
11929301 TTTTCTATTT
11929311 TTTATTTATTTTCA
1 TTTATTTATTTT-A
11929325 TTTTTATTTATTTTA
1 --TTTATTTATTTTA
11929340 TTTATTTATTTTA
1 TTTATTTATTTTA
11929353 TTT
1 TTT
11929356 TTTCTAAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
13 16 0.55
15 1 0.03
16 12 0.41
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTATTTATTTTA
Found at i:11929514 original size:120 final size:120
Alignment explanation
Indices: 11929382--11929663 Score: 401
Period size: 122 Copynumber: 2.3 Consensus size: 120
11929372 AAAAAAACAA
11929382 AAAAAAATATTTTTGAGGAAAAGTTAAAAGTATCAATTTTCCTTAAGAATAAAATTTTCAAAAAA
1 AAAAAAATATTTTTGAGGAAAAGTTAAAAGTATCAATTTTCCTTAAGAAT-AAATTTTCAAAAAA
*
11929447 AG-GTTTTTTTG-AGAAAAAGTTGAAAGTATCCATTTTTCTCGAAATTAAAAATTCC
65 AGTGTTTTTTTGAAG-AAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAAATTCC
* * *
11929502 AAAAAAATATTTTT-AGGGAAAAATTGAAAGTATTAATTTTCCTTAAGAATAAATTTTCAAAAAA
1 AAAAAAATATTTTTGA-GGAAAAGTTAAAAGTATCAATTTTCCTTAAGAATAAATTTTCAAAAAA
* ** *
11929566 AGTTTTTTTTTTTGAAGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAGTTTTC
65 AG--TGTTTTTTTGAAGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAAATTCC
*
11929624 AAAAAAATATTTTTGGGGAAAAGTTGAAAA-TATCAATTTT
1 AAAAAAATATTTTTGAGGAAAAGTT-AAAAGTATCAATTTT
11929664 TCCTGCACAA
Statistics
Matches: 143, Mismatches: 12, Indels: 12
0.86 0.07 0.07
Matches are distributed among these distances:
119 17 0.12
120 45 0.31
122 76 0.53
123 5 0.03
ACGTcount: A:0.44, C:0.06, G:0.12, T:0.37
Consensus pattern (120 bp):
AAAAAAATATTTTTGAGGAAAAGTTAAAAGTATCAATTTTCCTTAAGAATAAATTTTCAAAAAAA
GTGTTTTTTTGAAGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAAATTCC
Found at i:11929541 original size:59 final size:59
Alignment explanation
Indices: 11929382--11929665 Score: 263
Period size: 59 Copynumber: 4.7 Consensus size: 59
11929372 AAAAAAACAA
* * *
11929382 AAAAAAATA-TTTTTGAGGAAAAGTTAAAAGTATCAATTTTCCTTAAGAATAAAATTTTC
1 AAAAAAATATTTTTTG-GGAAAAGTTGAAAGTATCAATTTTTCTGAAGAATAAAATTTTC
* * * * *
11929441 AAAAAAAGGT-TTTTTTGAGAAAAAGTTGAAAGTATCCATTTTTCTCGAA-ATTAAAAATTCC
1 AAAAAAA--TATTTTTTG-GGAAAAGTTGAAAGTATCAATTTTTCT-GAAGAATAAAATTTTC
* * * * *
11929502 AAAAAAATATTTTTAGGGAAAAATTGAAAGTATTAATTTTCCTTAAGAAT-AAATTTTC
1 AAAAAAATATTTTTTGGGAAAAGTTGAAAGTATCAATTTTTCTGAAGAATAAAATTTTC
* * * *
11929560 AAAAAAAGTTTTTTTTTTTGAAGAAAAGTTGAAAGTATCAATTTTTCTCGAA-ATTAAAGTTTTC
1 AAAAAAA----TATTTTTTG-GGAAAAGTTGAAAGTATCAATTTTTCT-GAAGAATAAAATTTTC
* *
11929624 AAAAAAATATTTTTGGGGAAAAGTTGAAAATATCAATTTTTC
1 AAAAAAATATTTTTTGGGAAAAGTTGAAAGTATCAATTTTTC
11929666 CTGCACAAAA
Statistics
Matches: 181, Mismatches: 31, Indels: 26
0.76 0.13 0.11
Matches are distributed among these distances:
58 15 0.08
59 56 0.31
60 13 0.07
61 47 0.26
62 9 0.05
63 25 0.14
64 16 0.09
ACGTcount: A:0.44, C:0.07, G:0.12, T:0.37
Consensus pattern (59 bp):
AAAAAAATATTTTTTGGGAAAAGTTGAAAGTATCAATTTTTCTGAAGAATAAAATTTTC
Found at i:11933450 original size:21 final size:21
Alignment explanation
Indices: 11933426--11933539 Score: 92
Period size: 20 Copynumber: 5.6 Consensus size: 21
11933416 TTTAATTTCA
11933426 ATAACTTTTAATAAAATTTTG
1 ATAACTTTTAATAAAATTTTG
* * *
11933447 ATAACCTCTAATACAATTTTG
1 ATAACTTTTAATAAAATTTTG
* * *
11933468 GTAAC-TATAATATAATTTTG
1 ATAACTTTTAATAAAATTTTG
* ** *
11933488 GTAACCATT-ATACAATTTTG
1 ATAACTTTTAATAAAATTTTG
*
11933508 ATAA-TCTTAAT-AAATTTTG
1 ATAACTTTTAATAAAATTTTG
11933527 ATAACCTTTTAAT
1 ATAA-CTTTTAAT
11933540 GTAATTTTAG
Statistics
Matches: 75, Mismatches: 14, Indels: 8
0.77 0.14 0.08
Matches are distributed among these distances:
19 13 0.17
20 33 0.44
21 29 0.39
ACGTcount: A:0.39, C:0.11, G:0.06, T:0.44
Consensus pattern (21 bp):
ATAACTTTTAATAAAATTTTG
Found at i:11933484 original size:20 final size:20
Alignment explanation
Indices: 11933434--11933531 Score: 101
Period size: 20 Copynumber: 4.9 Consensus size: 20
11933424 CAATAACTTT
* *
11933434 TAATAAAATTTTGATAACCTC
1 TAATACAATTTTGATAA-CTA
*
11933455 TAATACAATTTTGGTAACTA
1 TAATACAATTTTGATAACTA
* * *
11933475 TAATATAATTTTGGTAACCA
1 TAATACAATTTTGATAACTA
*
11933495 TTATACAATTTTGATAATCT-
1 TAATACAATTTTGATAA-CTA
11933515 TAATA-AATTTTGATAAC
1 TAATACAATTTTGATAAC
11933532 CTTTTAATGT
Statistics
Matches: 66, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
18 1 0.02
19 11 0.17
20 38 0.58
21 16 0.24
ACGTcount: A:0.41, C:0.10, G:0.07, T:0.42
Consensus pattern (20 bp):
TAATACAATTTTGATAACTA
Found at i:11933508 original size:61 final size:61
Alignment explanation
Indices: 11933440--11933554 Score: 153
Period size: 61 Copynumber: 1.9 Consensus size: 61
11933430 CTTTTAATAA
* *
11933440 AATTTTGATAACCTCTAATACAATTTTGGTAA-C-TATAATATAATTTTGGTAACCATTATAC
1 AATTTTGATAACCT-TAATA-AATTTTGATAACCTTATAATATAATTTTAGTAACCATTATAC
* * *
11933501 AATTTTGATAATCTTAATAAATTTTGATAACCTTTTAATGTAATTTTAGTAACC
1 AATTTTGATAACCTTAATAAATTTTGATAACCTTATAATATAATTTTAGTAACC
11933555 TTTTGACAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
59 10 0.21
60 6 0.13
61 31 0.66
ACGTcount: A:0.37, C:0.11, G:0.08, T:0.43
Consensus pattern (61 bp):
AATTTTGATAACCTTAATAAATTTTGATAACCTTATAATATAATTTTAGTAACCATTATAC
Found at i:11933519 original size:40 final size:39
Alignment explanation
Indices: 11933433--11933533 Score: 125
Period size: 40 Copynumber: 2.5 Consensus size: 39
11933423 TCAATAACTT
*
11933433 TTAATAAAATTTTGATAACCTCTAATACAATTTTGGTAAC
1 TTAAT-AAATTTTGATAACCTCTAATACAATTTTGATAAC
*
11933473 TATAATATAATTTTGGTAACCAT-T-ATACAATTTTGATAATC
1 T-TAATA-AATTTTGATAACC-TCTAATACAATTTTGATAA-C
11933514 TTAATAAATTTTGATAACCT
1 TTAATAAATTTTGATAACCT
11933534 TTTAATGTAA
Statistics
Matches: 54, Mismatches: 3, Indels: 10
0.81 0.04 0.15
Matches are distributed among these distances:
38 1 0.02
39 12 0.22
40 21 0.39
41 19 0.35
42 1 0.02
ACGTcount: A:0.40, C:0.11, G:0.07, T:0.43
Consensus pattern (39 bp):
TTAATAAATTTTGATAACCTCTAATACAATTTTGATAAC
Found at i:11933946 original size:11 final size:11
Alignment explanation
Indices: 11933922--11933979 Score: 53
Period size: 11 Copynumber: 5.3 Consensus size: 11
11933912 AGCAATGATA
* *
11933922 TATCGTTAAAT
1 TATCATTAATT
*
11933933 TATCAATAATT
1 TATCATTAATT
* *
11933944 TATTATTAAAT
1 TATCATTAATT
* *
11933955 TAACATTTATT
1 TATCATTAATT
11933966 TATCATTAATT
1 TATCATTAATT
11933977 TAT
1 TAT
11933980 GAATGATTTA
Statistics
Matches: 35, Mismatches: 12, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
11 35 1.00
ACGTcount: A:0.40, C:0.07, G:0.02, T:0.52
Consensus pattern (11 bp):
TATCATTAATT
Found at i:11933952 original size:22 final size:22
Alignment explanation
Indices: 11933927--11934097 Score: 105
Period size: 22 Copynumber: 7.8 Consensus size: 22
11933917 TGATATATCG
*
11933927 TTAAATTATCAATAATTTATTA
1 TTAAATTATCAATGATTTATTA
* * * *
11933949 TTAAATTAACATTTATTTATCA
1 TTAAATTATCAATGATTTATTA
* * *
11933971 TTAATTTATGAATGATTTACTA
1 TTAAATTATCAATGATTTATTA
*
11933993 CTAAATTAT-ACATGATTTATTA
1 TTAAATTATCA-ATGATTTATTA
* ** *
11934015 CTAAATTATTGATGATTTGTTA
1 TTAAATTATCAATGATTTATTA
* *
11934037 -TAAAGTTAT-AATTAATTTACTA
1 TTAAA-TTATCAA-TGATTTATTA
* * *
11934059 TTAATTTATCAATTATTTTTTA
1 TTAAATTATCAATGATTTATTA
** *
11934081 CAAAATCATCAATGATT
1 TTAAATTATCAATGATT
11934098 AACTAATTTA
Statistics
Matches: 114, Mismatches: 29, Indels: 12
0.74 0.19 0.08
Matches are distributed among these distances:
21 6 0.05
22 103 0.90
23 5 0.04
ACGTcount: A:0.40, C:0.07, G:0.05, T:0.49
Consensus pattern (22 bp):
TTAAATTATCAATGATTTATTA
Found at i:11934011 original size:44 final size:43
Alignment explanation
Indices: 11933916--11934023 Score: 108
Period size: 44 Copynumber: 2.5 Consensus size: 43
11933906 AAAACTAGCA
* * * *
11933916 ATGATATATCGTTAAATTATCAATAATTTATTATTAAATTAAC
1 ATGATTTATCATTAAATTATCAATAATTTACTACTAAATTAAC
* * * *
11933959 ATTTATTTATCATTAATTTATGAATGATTTACTACTAAATTATAC
1 A-TGATTTATCATTAAATTATCAATAATTTACTACTAAATTA-AC
* *
11934004 ATGATTTATTACTAAATTAT
1 ATGATTTATCATTAAATTAT
11934024 TGATGATTTG
Statistics
Matches: 51, Mismatches: 12, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
43 1 0.02
44 47 0.92
45 3 0.06
ACGTcount: A:0.41, C:0.07, G:0.05, T:0.47
Consensus pattern (43 bp):
ATGATTTATCATTAAATTATCAATAATTTACTACTAAATTAAC
Found at i:11934137 original size:21 final size:22
Alignment explanation
Indices: 11934102--11934142 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
11934092 ATGATTAACT
*
11934102 AATTTACTACCAA-TTATTACC
1 AATTTACAACCAATTTATTACC
*
11934123 AATTTACAACTAATTTATTA
1 AATTTACAACCAATTTATTA
11934143 ATGACTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.41, C:0.17, G:0.00, T:0.41
Consensus pattern (22 bp):
AATTTACAACCAATTTATTACC
Found at i:11934276 original size:22 final size:22
Alignment explanation
Indices: 11934246--11934411 Score: 85
Period size: 22 Copynumber: 7.6 Consensus size: 22
11934236 TTTATCACTT
11934246 ATTTA-TATTAAATTATTTATA
1 ATTTACTATTAAATTATTTATA
*
11934267 ATTTACTATTAAGTTA-TTATTA
1 ATTTACTATTAAATTATTTA-TA
* * *
11934289 ATTAACTACTAAGTTATATT-T-
1 ATTTACTATTAAATTAT-TTATA
* * * *
11934310 ATTTACTTTTAAGTT-TATCATG
1 ATTTACTATTAAATTAT-TTATA
* *
11934332 ATTAACTATTAAATTA-TCATTA
1 ATTTACTATTAAATTATTTA-TA
* ** *
11934354 ATTTACTACTAAGCTATTTATG
1 ATTTACTATTAAATTATTTATA
* *
11934376 ATTTACTACTAAATTTATTAATTA
1 ATTTACTATTAAA-TTATTTA-TA
11934400 A-TTACTATTAAA
1 ATTTACTATTAAA
11934412 CTAAAATTAA
Statistics
Matches: 112, Mismatches: 22, Indels: 20
0.73 0.14 0.13
Matches are distributed among these distances:
20 3 0.03
21 24 0.21
22 64 0.57
23 17 0.15
24 4 0.04
ACGTcount: A:0.39, C:0.08, G:0.04, T:0.50
Consensus pattern (22 bp):
ATTTACTATTAAATTATTTATA
Found at i:11934322 original size:43 final size:44
Alignment explanation
Indices: 11934265--11934410 Score: 122
Period size: 44 Copynumber: 3.3 Consensus size: 44
11934255 AAATTATTTA
* *
11934265 TAATTTACTATTAAG-TTATTATTAATTAACTACTAAGTTAT-AT
1 TAATTTACTATTAAGTTTATCA-TAATTAACTACTAAATTATCAT
* * * *
11934308 TTATTTACTTTTAAGTTTATCATGATTAACTATTAAATTATCAT
1 TAATTTACTATTAAGTTTATCATAATTAACTACTAAATTATCAT
* * * *
11934352 TAATTTACTACTAAGCTATT-T-ATGATTTACTACTAAATTTATTAAT
1 TAATTTACTATTAAG-T-TTATCATAATTAACTACTAAA-TTA-TCAT
11934398 TAA-TTACTATTAA
1 TAATTTACTATTAA
11934411 ACTAAAATTA
Statistics
Matches: 84, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
43 29 0.35
44 33 0.39
45 14 0.17
46 8 0.10
ACGTcount: A:0.38, C:0.09, G:0.04, T:0.49
Consensus pattern (44 bp):
TAATTTACTATTAAGTTTATCATAATTAACTACTAAATTATCAT
Found at i:11934444 original size:22 final size:22
Alignment explanation
Indices: 11934419--11934520 Score: 78
Period size: 22 Copynumber: 4.6 Consensus size: 22
11934409 AAACTAAAAT
**
11934419 TAATTTATTATTATGTTATCAC
1 TAATTTATTATTAAATTATCAC
* * *
11934441 TAATTTACTACTAAATTATCAT
1 TAATTTATTATTAAATTATCAC
* *
11934463 TGATTTATTATTAAATTATCAA
1 TAATTTATTATTAAATTATCAC
* * * * *
11934485 TTATTAATTACTAAGTTATTAC
1 TAATTTATTATTAAATTATCAC
* *
11934507 TTATTTTTTATTAA
1 TAATTTATTATTAA
11934521 TCTATCATTG
Statistics
Matches: 62, Mismatches: 18, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
22 62 1.00
ACGTcount: A:0.36, C:0.08, G:0.03, T:0.53
Consensus pattern (22 bp):
TAATTTATTATTAAATTATCAC
Found at i:11934482 original size:44 final size:44
Alignment explanation
Indices: 11934325--11934483 Score: 135
Period size: 44 Copynumber: 3.6 Consensus size: 44
11934315 CTTTTAAGTT
* *
11934325 TATCA-TGATTAACTATTAAATTATCATTAATTTACTACTAAGC
1 TATCATTGATTTACTATTAAATTATCATTAATTTACTACTAAAC
* * * *
11934368 TAT-TTATGATTTACTACTAAATTTATTAATTAA-TTACTATTAAAC
1 TATCAT-TGATTTACTATTAAA-TTA-TCATTAATTTACTACTAAAC
** * * ** * *
11934413 TAAAATTAATTTATTATTATGTTATCACTAATTTACTACTAAAT
1 TATCATTGATTTACTATTAAATTATCATTAATTTACTACTAAAC
*
11934457 TATCATTGATTTATTATTAAATTATCA
1 TATCATTGATTTACTATTAAATTATCA
11934484 ATTATTAATT
Statistics
Matches: 88, Mismatches: 22, Indels: 11
0.73 0.18 0.09
Matches are distributed among these distances:
43 8 0.09
44 48 0.55
45 25 0.28
46 7 0.08
ACGTcount: A:0.40, C:0.10, G:0.03, T:0.47
Consensus pattern (44 bp):
TATCATTGATTTACTATTAAATTATCATTAATTTACTACTAAAC
Found at i:11934487 original size:67 final size:68
Alignment explanation
Indices: 11934267--11934504 Score: 172
Period size: 67 Copynumber: 3.6 Consensus size: 68
11934257 ATTATTTATA
* * * * * ** *
11934267 ATTTACTATTAAGTTAT-TATTAATTAACTACTAAGTTA-T-ATTTATTTACTTTTAAGTTTATC
1 ATTTACTATTAAATTATCAATTAATTTACTACTAAGCTATTCA-TAATTTACTACTAAATTTATC
11934329 A-TG
65 ATTG
* * * *
11934332 ATTAACTATTAAATTATC-ATTAATTTACTACTAAGCTATTTATGATTTACTACTAAATTTATTA
1 ATTTACTATTAAATTATCAATTAATTTACTACTAAGCTATTCATAATTTACTACTAAATTTA-TC
11934396 ATT-
65 ATTG
* * * * * * *
11934399 AATTACTATTAAACTA-AAATTAATTTATTATTATGTTA-TCACTAATTTACTACTAAA-TTATC
1 ATTTACTATTAAATTATCAATTAATTTACTACTAAGCTATTCA-TAATTTACTACTAAATTTATC
11934461 ATTG
65 ATTG
* * * *
11934465 ATTTATTATTAAATTATCAATT-ATTAATTACTAAGTTATT
1 ATTTACTATTAAATTATCAATTAATTTACTACTAAGCTATT
11934505 ACTTATTTTT
Statistics
Matches: 136, Mismatches: 27, Indels: 18
0.75 0.15 0.10
Matches are distributed among these distances:
65 37 0.27
66 47 0.35
67 51 0.38
68 1 0.01
ACGTcount: A:0.38, C:0.09, G:0.04, T:0.49
Consensus pattern (68 bp):
ATTTACTATTAAATTATCAATTAATTTACTACTAAGCTATTCATAATTTACTACTAAATTTATCA
TTG
Found at i:11934497 original size:44 final size:44
Alignment explanation
Indices: 11934421--11934520 Score: 103
Period size: 44 Copynumber: 2.3 Consensus size: 44
11934411 ACTAAAATTA
** * *
11934421 ATTTATTATTATGTTATCACTAATTTACTACTAAATTATCA-TT
1 ATTTATTATTAAATTATCAATAATTAACTACTAAATTATCACTT
* * * *
11934464 GATTTATTATTAAATTATCAATTATTAATTACTAAGTTATTACTT
1 -ATTTATTATTAAATTATCAATAATTAACTACTAAATTATCACTT
*
11934509 ATTTTTTATTAA
1 ATTTATTATTAA
11934521 TCTATCATTG
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
44 44 0.96
45 2 0.04
ACGTcount: A:0.36, C:0.08, G:0.03, T:0.53
Consensus pattern (44 bp):
ATTTATTATTAAATTATCAATAATTAACTACTAAATTATCACTT
Found at i:11934833 original size:22 final size:22
Alignment explanation
Indices: 11934795--11935159 Score: 141
Period size: 22 Copynumber: 16.5 Consensus size: 22
11934785 TGATTAACAT
*
11934795 TAAATTA-TAAGTTATTTACTAC
1 TAAATTATTAA-TGATTTACTAC
* * *
11934817 TAAGTTATAAATGATTTATTAC
1 TAAATTATTAATGATTTACTAC
*
11934839 TAAATTATCAATGATTTACTAC
1 TAAATTATTAATGATTTACTAC
* * * * * *
11934861 TAATTTATAAATAATTTGCCAT
1 TAAATTATTAATGATTTACTAC
* *
11934883 TAAATTATGAATGATTTA-TCAT
1 TAAATTATTAATGATTTACT-AC
* ** * *
11934905 TAAATTGTTTGTGATTTACCAT
1 TAAATTATTAATGATTTACTAC
* *
11934927 TAAATTATTAATAATTTATTA-
1 TAAATTATTAATGATTTACTAC
*
11934948 TAAAGTTA-TAATTGATTTACTAA
1 TAAA-TTATTAA-TGATTTACTAC
* *** * * *
11934971 TAACTTACCGATTATTTACAAA
1 TAAATTATTAATGATTTACTAC
* * * *
11934993 AAAATTATCAATGATTAACTGATT
1 TAAATTATTAATGATTTACT-A-C
* * *
11935017 TAAATTATCACTGATTTACAAC
1 TAAATTATTAATGATTTACTAC
* * * *
11935039 TAAGTTATTAGTAATTTACTAT
1 TAAATTATTAATGATTTACTAC
** *
11935061 TACGTTATTAGTGATTTACTAC
1 TAAATTATTAATGATTTACTAC
* * *
11935083 TAAGTTATTATTGATTTACTAT
1 TAAATTATTAATGATTTACTAC
* *
11935105 TATATT-TTATAT-ATTTAATA-
1 TAAATTATTA-ATGATTTACTAC
* * *
11935125 TTATTTAATTATTGATTTACTAC
1 TAAATT-ATTAATGATTTACTAC
* *
11935148 TTAATTTTTAAT
1 TAAATTATTAAT
11935160 TATATATTAT
Statistics
Matches: 256, Mismatches: 73, Indels: 28
0.72 0.20 0.08
Matches are distributed among these distances:
20 3 0.01
21 18 0.07
22 206 0.80
23 13 0.05
24 16 0.06
ACGTcount: A:0.38, C:0.08, G:0.07, T:0.47
Consensus pattern (22 bp):
TAAATTATTAATGATTTACTAC
Found at i:11934964 original size:44 final size:44
Alignment explanation
Indices: 11934783--11935106 Score: 161
Period size: 44 Copynumber: 7.3 Consensus size: 44
11934773 AAAAGATATC
* *
11934783 AATGA-TTAACATTAAATTA-TAAGTTATTTACTACTAAGTTATA
1 AATGATTTACCATTAAATTATTAA-TGATTTACTACTAAGTTATA
** * * *
11934826 AATGATTTATTACTAAATTATCAATGATTTACTACTAATTTATA
1 AATGATTTACCATTAAATTATTAATGATTTACTACTAAGTTATA
* * * * * * *
11934870 AATAATTTGCCATTAAATTATGAATGATTTA-TCATTAAATTGTT
1 AATGATTTACCATTAAATTATTAATGATTTACT-ACTAAGTTATA
** * *
11934914 TGTGATTTACCATTAAATTATTAATAATTTATTA-TAAAGTTATA
1 AATGATTTACCATTAAATTATTAATGATTTACTACT-AAGTTATA
* * * * *** * * ** * *
11934958 ATTGATTTACTAATAACTTACCGATTATTTACAAAAAAATTATC
1 AATGATTTACCATTAAATTATTAATGATTTACTACTAAGTTATA
* * * * * *
11935002 AATGATTAACTGATTTAAATTATCACTGATTTACAACTAAGTTATT
1 AATGATTTAC-CA-TTAAATTATTAATGATTTACTACTAAGTTATA
* * * ** * *
11935048 AGTAATTTACTATTACGTTATTAGTGATTTACTACTAAGTTATT
1 AATGATTTACCATTAAATTATTAATGATTTACTACTAAGTTATA
* *
11935092 ATTGATTTACTATTA
1 AATGATTTACCATTA
11935107 TATTTTATAT
Statistics
Matches: 210, Mismatches: 63, Indels: 15
0.73 0.22 0.05
Matches are distributed among these distances:
43 7 0.03
44 169 0.80
45 5 0.02
46 29 0.14
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.44
Consensus pattern (44 bp):
AATGATTTACCATTAAATTATTAATGATTTACTACTAAGTTATA
Found at i:11935363 original size:21 final size:21
Alignment explanation
Indices: 11935334--11935397 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
11935324 GTTTTCGACG
*
11935334 ATTTTTAATTATTTACTACTA
1 ATTTATAATTATTTACTACTA
*
11935355 ATTTATAATTGA-TTACTAGTA
1 ATTTATAATT-ATTTACTACTA
* * *
11935376 AATTATTTATGATTTACTACTA
1 ATTTA-TAATTATTTACTACTA
11935398 TCAATTAATT
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
21 22 0.65
22 12 0.35
ACGTcount: A:0.36, C:0.08, G:0.05, T:0.52
Consensus pattern (21 bp):
ATTTATAATTATTTACTACTA
Found at i:11935434 original size:22 final size:22
Alignment explanation
Indices: 11935400--11935508 Score: 96
Period size: 22 Copynumber: 5.0 Consensus size: 22
11935390 TACTACTATC
*
11935400 AATTAA-TTACTATTAAATTAA
1 AATTAATTTACTATTAAATTAT
11935421 AATTAATTTACTATTAAATTAT
1 AATTAATTTACTATTAAATTAT
* * * *
11935443 TATTAATGTATTATTAAGTTAT
1 AATTAATTTACTATTAAATTAT
* * *
11935465 TATTAATTTATTACTAAATTATT
1 AATTAATTTACTATTAAATTA-T
* * *
11935488 AA-TAATTAACTAATAAGTTAT
1 AATTAATTTACTATTAAATTAT
11935509 TCTTAATTAA
Statistics
Matches: 73, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
21 7 0.10
22 64 0.88
23 2 0.03
ACGTcount: A:0.45, C:0.04, G:0.03, T:0.49
Consensus pattern (22 bp):
AATTAATTTACTATTAAATTAT
Found at i:11935446 original size:11 final size:11
Alignment explanation
Indices: 11935404--11935488 Score: 82
Period size: 11 Copynumber: 7.7 Consensus size: 11
11935394 ACTATCAATT
*
11935404 AATTACTATTA
1 AATTATTATTA
**
11935415 AATTAAAATTA
1 AATTATTATTA
* *
11935426 ATTTACTATTA
1 AATTATTATTA
11935437 AATTATTATT-
1 AATTATTATTA
11935447 AATGTATTATTA
1 AAT-TATTATTA
*
11935459 AGTTATTATTA
1 AATTATTATTA
* *
11935470 ATTTATTACTA
1 AATTATTATTA
11935481 AATTATTA
1 AATTATTA
11935489 ATAATTAACT
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
10 3 0.05
11 56 0.92
12 2 0.03
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.51
Consensus pattern (11 bp):
AATTATTATTA
Found at i:11935499 original size:19 final size:19
Alignment explanation
Indices: 11935463--11935500 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
11935453 TTATTAAGTT
*
11935463 ATTATTAATTTATTACTAA
1 ATTATTAATTAATTACTAA
11935482 ATTATTAA-TAATTAACTAA
1 ATTATTAATTAATT-ACTAA
11935501 TAAGTTATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (19 bp):
ATTATTAATTAATTACTAA
Found at i:11935505 original size:44 final size:44
Alignment explanation
Indices: 11935422--11935516 Score: 120
Period size: 44 Copynumber: 2.2 Consensus size: 44
11935412 TTAAATTAAA
* * * *
11935422 ATTAATTTACTATTAAATTATTATTAATGTATTATTAAGTTATT
1 ATTAATTTACTACTAAATTATTAATAATGTACTAATAAGTTATT
*
11935466 ATTAATTTATTACTAAATTATTAATAAT-TAACTAATAAGTTATT
1 ATTAATTTACTACTAAATTATTAATAATGT-ACTAATAAGTTATT
*
11935510 CTTAATT
1 ATTAATT
11935517 AAGTAGTATA
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
43 1 0.02
44 43 0.98
ACGTcount: A:0.41, C:0.04, G:0.03, T:0.52
Consensus pattern (44 bp):
ATTAATTTACTACTAAATTATTAATAATGTACTAATAAGTTATT
Found at i:11935509 original size:22 final size:22
Alignment explanation
Indices: 11935422--11935518 Score: 79
Period size: 22 Copynumber: 4.4 Consensus size: 22
11935412 TTAAATTAAA
* * *
11935422 ATTAATTTACTATTAAATTATT
1 ATTAATTAACTAATAAGTTATT
* *
11935444 ATTAATGT-ATTATTAAGTTATT
1 ATTAAT-TAACTAATAAGTTATT
* * * *
11935466 ATTAATTTATTACTAAATTATT
1 ATTAATTAACTAATAAGTTATT
*
11935488 AATAATTAACTAATAAGTTATT
1 ATTAATTAACTAATAAGTTATT
*
11935510 CTTAATTAA
1 ATTAATTAA
11935519 GTAGTATATT
Statistics
Matches: 62, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
21 1 0.02
22 60 0.97
23 1 0.02
ACGTcount: A:0.42, C:0.04, G:0.03, T:0.51
Consensus pattern (22 bp):
ATTAATTAACTAATAAGTTATT
Found at i:11938687 original size:19 final size:20
Alignment explanation
Indices: 11938665--11938705 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
11938655 AGTTTTTTGA
11938665 CCAAATTCCAG-TGAGTTTT
1 CCAAATTCCAGATGAGTTTT
* *
11938684 CC-AATTTCTGATGAGTTTT
1 CCAAATTCCAGATGAGTTTT
11938703 CCA
1 CCA
11938706 GCTTTTGGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 3
0.78 0.09 0.13
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.24, C:0.22, G:0.15, T:0.39
Consensus pattern (20 bp):
CCAAATTCCAGATGAGTTTT
Found at i:11938765 original size:19 final size:20
Alignment explanation
Indices: 11938726--11938766 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
11938716 ACATCCTTAG
*
11938726 ATTTTCAACAAAAATTTTCA
1 ATTTTCAACAAAAAGTTTCA
*
11938746 ATTTTCAAC-GAAAGTTTCA
1 ATTTTCAACAAAAAGTTTCA
11938765 AT
1 AT
11938767 AAGAAACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.41, C:0.15, G:0.05, T:0.39
Consensus pattern (20 bp):
ATTTTCAACAAAAAGTTTCA
Found at i:11938873 original size:16 final size:16
Alignment explanation
Indices: 11938852--11938890 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
11938842 CTTCTCTAGA
11938852 AAGAGAGACAAAAAAG
1 AAGAGAGACAAAAAAG
* *
11938868 AAGAGAAAGAAAAAAG
1 AAGAGAGACAAAAAAG
*
11938884 AAAAGAG
1 AAGAGAG
11938891 TGAAAAAAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.72, C:0.03, G:0.26, T:0.00
Consensus pattern (16 bp):
AAGAGAGACAAAAAAG
Found at i:11938889 original size:21 final size:22
Alignment explanation
Indices: 11938863--11938918 Score: 64
Period size: 20 Copynumber: 2.6 Consensus size: 22
11938853 AGAGAGACAA
*
11938863 AAAAGAAGAGAAAGAAAAAA-G
1 AAAAGAAGAGAAAAAAAAAATG
*
11938884 AAAAG-AGTGAAAAAAAAAATTG
1 AAAAGAAGAGAAAAAAAAAA-TG
11938906 -AAAGAAGAGAAAA
1 AAAAGAAGAGAAAA
11938919 TTTTTTAGCT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
20 12 0.41
21 9 0.31
22 8 0.28
ACGTcount: A:0.73, C:0.00, G:0.21, T:0.05
Consensus pattern (22 bp):
AAAAGAAGAGAAAAAAAAAATG
Found at i:11938895 original size:16 final size:16
Alignment explanation
Indices: 11938861--11938902 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
11938851 AAAGAGAGAC
*
11938861 AAAAAAGAAGAGAAAG
1 AAAAAAGAAAAGAAAG
**
11938877 AAAAAAGAAAAGAGTG
1 AAAAAAGAAAAGAAAG
11938893 AAAAAA-AAAA
1 AAAAAAGAAAA
11938903 TTGAAAGAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
15 4 0.17
16 19 0.83
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (16 bp):
AAAAAAGAAAAGAAAG
Found at i:11939578 original size:35 final size:35
Alignment explanation
Indices: 11939539--11939623 Score: 91
Period size: 37 Copynumber: 2.4 Consensus size: 35
11939529 TCAAAAAAAA
11939539 ATAATTTTAAAAAAATCCT-ACCAATATATTGGAAG
1 ATAATTTTAAAAAAAT-CTGACCAATATATTGGAAG
* * *
11939574 ATAATTTTGACAAAAAGTCTGACTAATATATTGGAAT
1 ATAATTTT-A-AAAAAATCTGACCAATATATTGGAAG
* *
11939611 ATATTTTTGAAAA
1 ATAATTTTAAAAA
11939624 TGAATTATTT
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
35 12 0.29
36 3 0.07
37 27 0.64
ACGTcount: A:0.46, C:0.08, G:0.11, T:0.35
Consensus pattern (35 bp):
ATAATTTTAAAAAAATCTGACCAATATATTGGAAG
Found at i:11939639 original size:16 final size:18
Alignment explanation
Indices: 11939607--11939640 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
11939597 TAATATATTG
11939607 GAATATATTTTTGAAAAT
1 GAATATATTTTTGAAAAT
11939625 GAAT-TATTTTT-AAAAT
1 GAATATATTTTTGAAAAT
11939641 TAGATTTCGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 7 0.44
18 4 0.25
ACGTcount: A:0.44, C:0.00, G:0.09, T:0.47
Consensus pattern (18 bp):
GAATATATTTTTGAAAAT
Found at i:11941103 original size:12 final size:12
Alignment explanation
Indices: 11941084--11941123 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 12
11941074 ATATTTATTA
11941084 ATTTT-AAAATT
1 ATTTTAAAAATT
11941095 ATTTATAAAAATAT
1 ATTT-TAAAAAT-T
11941109 ATTTTAAAAATT
1 ATTTTAAAAATT
11941121 ATT
1 ATT
11941124 AATTATGTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
11 4 0.15
12 5 0.19
13 12 0.46
14 5 0.19
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
ATTTTAAAAATT
Found at i:11948577 original size:42 final size:42
Alignment explanation
Indices: 11948530--11948637 Score: 121
Period size: 42 Copynumber: 2.6 Consensus size: 42
11948520 GTGAAAGATG
*
11948530 TAGCTAAGGTAGTAGAGAATGAAATAGT-ATAAAATCAACATT
1 TAGCTAAGGTAGTAGAGAATGAAATAGTGA-AAAATCAACATA
* * * *
11948572 TAGCTAATGCAGTA-AGGAATAAAATGGTGAAAAATCAACATA
1 TAGCTAAGGTAGTAGA-GAATGAAATAGTGAAAAATCAACATA
* *
11948614 TAGATAAGGTAGTAGGGAATGAAA
1 TAGCTAAGGTAGTAGAGAATGAAA
11948638 GGATAGAAAA
Statistics
Matches: 53, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
41 1 0.02
42 51 0.96
43 1 0.02
ACGTcount: A:0.48, C:0.06, G:0.22, T:0.23
Consensus pattern (42 bp):
TAGCTAAGGTAGTAGAGAATGAAATAGTGAAAAATCAACATA
Found at i:11951224 original size:27 final size:25
Alignment explanation
Indices: 11951194--11951262 Score: 70
Period size: 27 Copynumber: 2.7 Consensus size: 25
11951184 CAAACCTTAT
11951194 ATCCAGTTTCAAATCCAACTTCAAC
1 ATCCAGTTTCAAATCCAACTTCAAC
* *
11951219 AAATCCAGTTTTC-ATTCCAATTTCAAC
1 --ATCCAG-TTTCAAATCCAACTTCAAC
*
11951246 -TCCAATTTCAAATCCAA
1 ATCCAGTTTCAAATCCAA
11951263 TCAATGTTGT
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
23 4 0.11
24 10 0.28
27 18 0.50
28 4 0.11
ACGTcount: A:0.36, C:0.29, G:0.03, T:0.32
Consensus pattern (25 bp):
ATCCAGTTTCAAATCCAACTTCAAC
Found at i:11951249 original size:12 final size:12
Alignment explanation
Indices: 11951234--11951263 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
11951224 CAGTTTTCAT
*
11951234 TCCAATTTCAAC
1 TCCAATTTCAAA
11951246 TCCAATTTCAAA
1 TCCAATTTCAAA
11951258 TCCAAT
1 TCCAAT
11951264 CAATGTTGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.37, C:0.30, G:0.00, T:0.33
Consensus pattern (12 bp):
TCCAATTTCAAA
Found at i:11952563 original size:37 final size:37
Alignment explanation
Indices: 11952522--11952611 Score: 114
Period size: 37 Copynumber: 2.4 Consensus size: 37
11952512 TGAAATTTAC
*
11952522 AAACAATTTCCTA-CAATCACACCAA-AGAAATATC-AG
1 AAACAAATT-CTAGCAATCACACCAAGA-AAATATCAAG
11952558 TAAACAAATTCTAGCAATCACACCAAGAAAATATCAAG
1 -AAACAAATTCTAGCAATCACACCAAGAAAATATCAAG
*
11952596 AAACAAATACTAGCAA
1 AAACAAATTCTAGCAA
11952612 AAACATTAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
36 3 0.06
37 42 0.88
38 3 0.06
ACGTcount: A:0.53, C:0.22, G:0.07, T:0.18
Consensus pattern (37 bp):
AAACAAATTCTAGCAATCACACCAAGAAAATATCAAG
Found at i:11952626 original size:37 final size:37
Alignment explanation
Indices: 11952540--11952635 Score: 104
Period size: 37 Copynumber: 2.6 Consensus size: 37
11952530 TCCTACAATC
* * **
11952540 ACACCAAAGAAATATCAGTAAACAAATTCTAGCAATC
1 ACACCAAAAAAATATCAGTAAACAAATACTAGCAAAA
*
11952577 ACACCAAGAAAATATCAAG-AAACAAATACTAGCAAAA
1 ACACCAAAAAAATATC-AGTAAACAAATACTAGCAAAA
** *
11952614 ACATTAAAAAAATACCAGTAAA
1 ACACCAAAAAAATATCAGTAAA
11952636 TTTACTAGAT
Statistics
Matches: 48, Mismatches: 9, Indels: 4
0.79 0.15 0.07
Matches are distributed among these distances:
36 2 0.04
37 44 0.92
38 2 0.04
ACGTcount: A:0.58, C:0.19, G:0.07, T:0.16
Consensus pattern (37 bp):
ACACCAAAAAAATATCAGTAAACAAATACTAGCAAAA
Found at i:11955739 original size:14 final size:14
Alignment explanation
Indices: 11955720--11955753 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
11955710 TTAATTCACA
*
11955720 TATTAAATGAGTAT
1 TATTAAATGACTAT
11955734 TATTAAATGACTAT
1 TATTAAATGACTAT
11955748 TATTAA
1 TATTAA
11955754 TTTTATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.44, C:0.03, G:0.09, T:0.44
Consensus pattern (14 bp):
TATTAAATGACTAT
Found at i:11955860 original size:20 final size:21
Alignment explanation
Indices: 11955832--11955871 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
11955822 TCTAATTATT
11955832 TTTGATGATCCAAAATTACTC
1 TTTGATGATCCAAAATTACTC
*
11955853 TTTG-TGATCTAAAATTACT
1 TTTGATGATCCAAAATTACT
11955872 GTTACATAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.42
Consensus pattern (21 bp):
TTTGATGATCCAAAATTACTC
Found at i:11964449 original size:17 final size:17
Alignment explanation
Indices: 11964422--11964455 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
11964412 TCGAAATCTA
11964422 ATTTTAAAAATA-ATTC
1 ATTTTAAAAATATATTC
11964438 ATTTTCAAAAATATATTC
1 ATTTT-AAAAATATATTC
11964456 CAATATATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 7 0.44
18 4 0.25
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (17 bp):
ATTTTAAAAATATATTC
Found at i:11964514 original size:37 final size:35
Alignment explanation
Indices: 11964454--11964524 Score: 90
Period size: 37 Copynumber: 2.0 Consensus size: 35
11964444 AAAAATATAT
11964454 TCCAATATATTAGTCAGACTTTTTGTCAAAATTATTG
1 TCCAATATATTAGTCAGACTTTTTG--AAAATTATTG
* *
11964491 TCCAATATATTGGT-AGGATTTTTTGAAAATTATT
1 TCCAATATATTAGTCA-GACTTTTTGAAAATTATT
11964525 TCTTTTTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
35 9 0.29
36 1 0.03
37 21 0.68
ACGTcount: A:0.32, C:0.10, G:0.13, T:0.45
Consensus pattern (35 bp):
TCCAATATATTAGTCAGACTTTTTGAAAATTATTG
Found at i:11964654 original size:55 final size:56
Alignment explanation
Indices: 11964540--11964649 Score: 140
Period size: 53 Copynumber: 2.0 Consensus size: 56
11964530 TTGAAAATTT
* * * *
11964540 AATTTTTGTAAAAAATTAATAAGATTTTTCAATATGTTAGTAAAACTTTATTTTTA
1 AATTTTTGTAAAAAATTAACAAGATCTTCCAATATGTTAGTAAAACTTTATTTTAA
11964596 AATTTTTG-AAAAAATT-ACAA-ATCTTCCAATATGTTAGTAAGAA-TTT-TTTTAA
1 AATTTTTGTAAAAAATTAACAAGATCTTCCAATATGTTAGTAA-AACTTTATTTTAA
11964648 AA
1 AA
11964650 AAATTCTTAG
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
52 7 0.14
53 21 0.43
54 5 0.10
55 8 0.16
56 8 0.16
ACGTcount: A:0.43, C:0.05, G:0.07, T:0.45
Consensus pattern (56 bp):
AATTTTTGTAAAAAATTAACAAGATCTTCCAATATGTTAGTAAAACTTTATTTTAA
Found at i:11965192 original size:17 final size:16
Alignment explanation
Indices: 11965170--11965220 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 16
11965160 TTCAAATTTT
11965170 TTTTTTCACTCTCTTTC
1 TTTTTTC-CTCTCTTTC
*
11965187 TTTTTTCTTTCTCTTTTC
1 TTTTTTC-CTCTC-TTTC
*
11965205 TTTTGT-CTCTCTTTC
1 TTTTTTCCTCTCTTTC
11965220 T
1 T
11965221 AGAAAAGTGC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
15 5 0.17
16 4 0.14
17 11 0.38
18 9 0.31
ACGTcount: A:0.02, C:0.25, G:0.02, T:0.71
Consensus pattern (16 bp):
TTTTTTCCTCTCTTTC
Found at i:11965204 original size:18 final size:18
Alignment explanation
Indices: 11965166--11965208 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
11965156 TTCTTTCAAA
11965166 TTTT-TTTTTTCACTCTC
1 TTTTCTTTTTTCACTCTC
**
11965183 -TTTCTTTTTTCTTTCTC
1 TTTTCTTTTTTCACTCTC
11965200 TTTTCTTTT
1 TTTTCTTTT
11965209 GTCTCTCTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 3 0.14
17 11 0.50
18 8 0.36
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.77
Consensus pattern (18 bp):
TTTTCTTTTTTCACTCTC
Found at i:11966407 original size:21 final size:21
Alignment explanation
Indices: 11966378--11966423 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
11966368 TGGAGGTAAC
* *
11966378 ATTAGTTACTGTAGTAGTGAG
1 ATTAGTTACTGTAGCAGAGAG
*
11966399 ATTATTTACTGTAGCAGAGAG
1 ATTAGTTACTGTAGCAGAGAG
11966420 ATTA
1 ATTA
11966424 AAATAAATGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.37
Consensus pattern (21 bp):
ATTAGTTACTGTAGCAGAGAG
Found at i:11966567 original size:27 final size:27
Alignment explanation
Indices: 11966538--11966599 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
11966528 GTATTTAACA
* * *
11966538 AAAATT-TTAAATTATTTAACATTTAT
1 AAAATTATTAAATAATTGAAAATTTAT
11966564 AAAATTATTAAATAATTGAAAATTTAT
1 AAAATTATTAAATAATTGAAAATTTAT
*
11966591 TAAATTATT
1 AAAATTATT
11966600 TTTATGTTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
26 6 0.19
27 25 0.81
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (27 bp):
AAAATTATTAAATAATTGAAAATTTAT
Found at i:11968568 original size:22 final size:21
Alignment explanation
Indices: 11968541--11968637 Score: 79
Period size: 22 Copynumber: 4.4 Consensus size: 21
11968531 TTGTAAATAT
*
11968541 ATAATAATATAGTACTTAATTA
1 ATAATAAT-TAGTAATTAATTA
* * *
11968563 AGAATAACTTATTAGTTAATTA
1 ATAATAA-TTAGTAATTAATTA
* *
11968585 TTAATAATTTAGTAATAAATTA
1 ATAATAA-TTAGTAATTAATTA
*
11968607 ATAATAACTTAATAA-TACATTA
1 ATAATAA-TTAGTAATTA-ATTA
11968629 ATAATAATT
1 ATAATAATT
11968638 TAATAGTAAA
Statistics
Matches: 60, Mismatches: 13, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
21 3 0.05
22 56 0.93
23 1 0.02
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.41
Consensus pattern (21 bp):
ATAATAATTAGTAATTAATTA
Found at i:11968598 original size:44 final size:44
Alignment explanation
Indices: 11968541--11968651 Score: 125
Period size: 44 Copynumber: 2.5 Consensus size: 44
11968531 TTGTAAATAT
* * * * *
11968541 ATAATAATATAGTACTTAATTAAGAATAACTTATTAGTTA-ATTA
1 ATAATAATTTAGTAATAAATTAAGAATAACTTAATA-ATACATTA
* *
11968585 TTAATAATTTAGTAATAAATTAATAATAACTTAATAATACATTA
1 ATAATAATTTAGTAATAAATTAAGAATAACTTAATAATACATTA
* *
11968629 ATAATAATTTAATAGTAAATTAA
1 ATAATAATTTAGTAATAAATTAA
11968652 TTTTAATTTG
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
43 2 0.04
44 54 0.96
ACGTcount: A:0.51, C:0.04, G:0.05, T:0.41
Consensus pattern (44 bp):
ATAATAATTTAGTAATAAATTAAGAATAACTTAATAATACATTA
Found at i:11968600 original size:11 final size:11
Alignment explanation
Indices: 11968586--11968652 Score: 73
Period size: 11 Copynumber: 6.1 Consensus size: 11
11968576 AGTTAATTAT
*
11968586 TAATAATTTAG
1 TAATAATTTAA
*
11968597 TAATAAATTAA
1 TAATAATTTAA
*
11968608 TAATAACTTAA
1 TAATAATTTAA
11968619 TAATACA-TTAA
1 TAATA-ATTTAA
11968630 TAATAATTTAA
1 TAATAATTTAA
* *
11968641 TAGTAAATTAA
1 TAATAATTTAA
11968652 T
1 T
11968653 TTTAATTTGA
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
10 1 0.02
11 47 0.96
12 1 0.02
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (11 bp):
TAATAATTTAA
Found at i:11968623 original size:33 final size:33
Alignment explanation
Indices: 11968580--11968652 Score: 85
Period size: 33 Copynumber: 2.2 Consensus size: 33
11968570 CTTATTAGTT
* *
11968580 AATTATTAATA-ATTTAGTAATAAATTAATAATA
1 AATTAATAATACA-TTAATAATAAATTAATAATA
* * *
11968613 ACTTAATAATACATTAATAATAATTTAATAGTA
1 AATTAATAATACATTAATAATAAATTAATAATA
11968646 AATTAAT
1 AATTAAT
11968653 TTTAATTTGA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
33 32 0.97
34 1 0.03
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (33 bp):
AATTAATAATACATTAATAATAAATTAATAATA
Found at i:11968660 original size:22 final size:22
Alignment explanation
Indices: 11968580--11968652 Score: 101
Period size: 22 Copynumber: 3.3 Consensus size: 22
11968570 CTTATTAGTT
* *
11968580 AATTATTAATAATTTAGTAATA
1 AATTAATAATAATTTAATAATA
*
11968602 AATTAATAATAACTTAATAATA
1 AATTAATAATAATTTAATAATA
* *
11968624 CATTAATAATAATTTAATAGTA
1 AATTAATAATAATTTAATAATA
11968646 AATTAAT
1 AATTAAT
11968653 TTTAATTTGA
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 44 1.00
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (22 bp):
AATTAATAATAATTTAATAATA
Found at i:11968665 original size:22 final size:21
Alignment explanation
Indices: 11968615--11968674 Score: 66
Period size: 22 Copynumber: 2.8 Consensus size: 21
11968605 TAATAATAAC
* **
11968615 TTAATAATACATTAATAATAAT
1 TTAATAGTA-ATTAATTTTAAT
11968637 TTAATAGTAAATTAATTTTAAT
1 TTAATAGT-AATTAATTTTAAT
*
11968659 TTGATAGTAATTAATT
1 TTAATAGTAATTAATT
11968675 GATAGTAGTA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
21 8 0.24
22 24 0.73
23 1 0.03
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.47
Consensus pattern (21 bp):
TTAATAGTAATTAATTTTAAT
Found at i:11968734 original size:21 final size:21
Alignment explanation
Indices: 11968677--11968740 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
11968667 AATTAATTGA
* * *
11968677 TAGTAGTAAATCATAAATAATT
1 TAGTAGTAAATAAT-TATAAAT
*
11968699 TACTAGT-AATCAATTATAAAT
1 TAGTAGTAAAT-AATTATAAAT
*
11968720 TAGTAGTAAATAATTAAAAAT
1 TAGTAGTAAATAATTATAAAT
11968741 CATCGAAAAC
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
21 23 0.68
22 11 0.32
ACGTcount: A:0.52, C:0.05, G:0.08, T:0.36
Consensus pattern (21 bp):
TAGTAGTAAATAATTATAAAT
Found at i:11968963 original size:22 final size:23
Alignment explanation
Indices: 11968897--11968979 Score: 57
Period size: 22 Copynumber: 3.5 Consensus size: 23
11968887 TAAATCGATG
*
11968897 ATAATTTTATAATATATAATTGAAA
1 ATAATATTA-AATATATAATT-AAA
*
11968922 ATTAAGTAGTAAATCA-ATAATT-AA
1 A-TAA-TATTAAAT-ATATAATTAAA
11968946 ATAATATTAAATATATAA--AAA
1 ATAATATTAAATATATAATTAAA
*
11968967 TATAATAGTAAAT
1 -ATAATATTAAAT
11968980 CAATAATAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 15
0.72 0.06 0.22
Matches are distributed among these distances:
21 3 0.06
22 22 0.46
23 3 0.06
24 3 0.06
25 1 0.02
26 12 0.25
27 4 0.08
ACGTcount: A:0.57, C:0.01, G:0.05, T:0.37
Consensus pattern (23 bp):
ATAATATTAAATATATAATTAAA
Found at i:11968985 original size:22 final size:22
Alignment explanation
Indices: 11968928--11969067 Score: 106
Period size: 22 Copynumber: 6.4 Consensus size: 22
11968918 GAAAATTAAG
11968928 TAGTAAATCAATAATTAA-ATAA
1 TAGTAAATCAATAA-TAATATAA
* *
11968950 TATTAAAT-ATATAAAAATATAA
1 TAGTAAATCA-ATAATAATATAA
* *
11968972 TAGTAAATCAATAATAATTTAG
1 TAGTAAATCAATAATAATATAA
* **
11968994 TAGTAAATCACTAATAACGTAA
1 TAGTAAATCAATAATAATATAA
* * *
11969016 TAGTAAATTACTAATAACT-TAG
1 TAGTAAATCAATAATAA-TATAA
* * * *
11969038 TTGTAAATCAGTAATAATTTAG
1 TAGTAAATCAATAATAATATAA
11969060 TAGTAAAT
1 TAGTAAAT
11969068 TAATTAATCA
Statistics
Matches: 96, Mismatches: 17, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
21 4 0.04
22 91 0.95
23 1 0.01
ACGTcount: A:0.51, C:0.06, G:0.08, T:0.35
Consensus pattern (22 bp):
TAGTAAATCAATAATAATATAA
Found at i:11969017 original size:66 final size:66
Alignment explanation
Indices: 11968921--11969067 Score: 174
Period size: 66 Copynumber: 2.2 Consensus size: 66
11968911 TATAATTGAA
* *
11968921 AATTAAGTAGTAAATCAATAATTAAATAATATTAAATATA-TAA-AAATATAATAGTAAATCAAT
1 AATTTAGTAGTAAATCAATAATTAAATAATAGTAAAT-TACTAATAAAT-TAATAGTAAATCAAT
11968984 AAT
64 AAT
* * * * * *
11968987 AATTTAGTAGTAAATCACTAA-TAACGTAATAGTAAATTACTAATAACTTAGTTGTAAATCAGTA
1 AATTTAGTAGTAAATCAATAATTAA-ATAATAGTAAATTACTAATAAATTAATAGTAAATCAATA
11969051 AT
65 AT
11969053 AATTTAGTAGTAAAT
1 AATTTAGTAGTAAAT
11969068 TAATTAATCA
Statistics
Matches: 70, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
65 5 0.07
66 62 0.89
67 3 0.04
ACGTcount: A:0.52, C:0.05, G:0.08, T:0.35
Consensus pattern (66 bp):
AATTTAGTAGTAAATCAATAATTAAATAATAGTAAATTACTAATAAATTAATAGTAAATCAATAA
T
Found at i:11969068 original size:44 final size:44
Alignment explanation
Indices: 11968969--11969071 Score: 134
Period size: 44 Copynumber: 2.3 Consensus size: 44
11968959 TATAAAAATA
* *
11968969 TAATAGTAAATCAATAATAATTTAGTAGTAAATCACTAATAACG
1 TAATAGTAAATTAATAATAACTTAGTAGTAAATCACTAATAACG
* * * **
11969013 TAATAGTAAATTACTAATAACTTAGTTGTAAATCAGTAATAATT
1 TAATAGTAAATTAATAATAACTTAGTAGTAAATCACTAATAACG
*
11969057 TAGTAGTAAATTAAT
1 TAATAGTAAATTAAT
11969072 TAATCATTGA
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 50 1.00
ACGTcount: A:0.48, C:0.07, G:0.10, T:0.36
Consensus pattern (44 bp):
TAATAGTAAATTAATAATAACTTAGTAGTAAATCACTAATAACG
Found at i:11969162 original size:22 final size:21
Alignment explanation
Indices: 11969137--11969242 Score: 59
Period size: 22 Copynumber: 4.8 Consensus size: 21
11969127 AACTTTATAA
11969137 TAAACTATTAATAATTTAATGG
1 TAAA-TATTAATAATTTAATGG
* ** * *
11969159 TAAACCACAAACAATTTAATGA
1 TAAA-TATTAATAATTTAATGG
*
11969181 TAAATCATTCATAATTTAATGG
1 TAAAT-ATTAATAATTTAATGG
* * * * *
11969203 CAAATTATTTATAAATTAGTAG
1 TAAA-TATTAATAATTTAATGG
*
11969225 TAAATCATTGATAATTTA
1 TAAAT-ATTAATAATTTA
11969243 GTATTAAATC
Statistics
Matches: 62, Mismatches: 19, Indels: 6
0.71 0.22 0.07
Matches are distributed among these distances:
21 1 0.02
22 60 0.97
23 1 0.02
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (21 bp):
TAAATATTAATAATTTAATGG
Found at i:11969229 original size:44 final size:43
Alignment explanation
Indices: 11969181--11969298 Score: 130
Period size: 44 Copynumber: 2.7 Consensus size: 43
11969171 AATTTAATGA
*
11969181 TAAATCATTCATAATTTAATGGCAAATTATTTATAAATTAGTAG
1 TAAATCATT-ATAATTTAATGGCAAATCATTTATAAATTAGTAG
* *** *
11969225 TAAATCATTGATAATTTAGTATTAAATCATTTATAACTTAGTAG
1 TAAATCATT-ATAATTTAATGGCAAATCATTTATAAATTAGTAG
* *
11969269 TAAATAACTTATAATTTAAT-GCTAATCATT
1 TAAATCA-TTATAATTTAATGGCAAATCATT
11969299 GATATCTTTT
Statistics
Matches: 61, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
43 7 0.11
44 52 0.85
45 2 0.03
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (43 bp):
TAAATCATTATAATTTAATGGCAAATCATTTATAAATTAGTAG
Found at i:11969243 original size:22 final size:22
Alignment explanation
Indices: 11969181--11969302 Score: 97
Period size: 22 Copynumber: 5.6 Consensus size: 22
11969171 AATTTAATGA
* * *
11969181 TAAATCATTCATAATTTAATGG
1 TAAATCATTGATAATTTAGTAG
* * * *
11969203 CAAATTATTTATAAATTAGTAG
1 TAAATCATTGATAATTTAGTAG
*
11969225 TAAATCATTGATAATTTAGTAT
1 TAAATCATTGATAATTTAGTAG
* *
11969247 TAAATCATTTATAACTTAGTAG
1 TAAATCATTGATAATTTAGTAG
* *
11969269 TAAATAACTT-ATAATTTAAT-G
1 TAAATCA-TTGATAATTTAGTAG
11969290 CT-AATCATTGATA
1 -TAAATCATTGATA
11969303 TCTTTTTTTA
Statistics
Matches: 79, Mismatches: 18, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
20 2 0.03
21 8 0.10
22 67 0.85
23 2 0.03
ACGTcount: A:0.43, C:0.07, G:0.08, T:0.42
Consensus pattern (22 bp):
TAAATCATTGATAATTTAGTAG
Found at i:11969603 original size:22 final size:22
Alignment explanation
Indices: 11969578--11969647 Score: 70
Period size: 22 Copynumber: 3.2 Consensus size: 22
11969568 AAAATAAGTA
* *
11969578 ATAACTTAGTAATTAAT-AATTG
1 ATAATTTAGTAATAAATCAA-TG
*
11969600 ATAATTTAATAATAAATCAATG
1 ATAATTTAGTAATAAATCAATG
* * *
11969622 ATAATTTAGTAGTAAATTAGTG
1 ATAATTTAGTAATAAATCAATG
11969644 ATAA
1 ATAA
11969648 CATAATAATA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
22 38 0.95
23 2 0.05
ACGTcount: A:0.49, C:0.03, G:0.10, T:0.39
Consensus pattern (22 bp):
ATAATTTAGTAATAAATCAATG
Found at i:11969631 original size:44 final size:44
Alignment explanation
Indices: 11969561--11969660 Score: 103
Period size: 44 Copynumber: 2.3 Consensus size: 44
11969551 CAATGATAGA
* * * *
11969561 TTAATAAAAAATAAGTAATAACTTAGTAATTAATAATTGATAAT
1 TTAATAATAAATAAGTAATAACTTAGTAATAAATAAGTGATAAC
* * * *
11969605 TTAATAATAAATCAA-TGATAATTTAGTAGTAAATTAGTGATAAC
1 TTAATAATAAAT-AAGTAATAACTTAGTAATAAATAAGTGATAAC
*
11969649 ATAATAATAAAT
1 TTAATAATAAAT
11969661 TAATTTTAGT
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
44 44 0.96
45 2 0.04
ACGTcount: A:0.53, C:0.03, G:0.08, T:0.36
Consensus pattern (44 bp):
TTAATAATAAATAAGTAATAACTTAGTAATAAATAAGTGATAAC
Found at i:11969659 original size:22 final size:22
Alignment explanation
Indices: 11969606--11969664 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
11969596 ATTGATAATT
* **
11969606 TAATAATAAATCAATGATAATT
1 TAATAATAAATTAATGATAACA
* * *
11969628 TAGTAGTAAATTAGTGATAACA
1 TAATAATAAATTAATGATAACA
11969650 TAATAATAAATTAAT
1 TAATAATAAATTAAT
11969665 TTTAGTTTAA
Statistics
Matches: 28, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.53, C:0.03, G:0.08, T:0.36
Consensus pattern (22 bp):
TAATAATAAATTAATGATAACA
Found at i:11969971 original size:21 final size:22
Alignment explanation
Indices: 11969940--11969980 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
11969930 AAAAAGTCAT
*
11969940 TAATAAATTAGTTGTAAATTGG
1 TAATAAATTAGTAGTAAATTGG
11969962 TAAT-AATTAGTAGTAAATT
1 TAATAAATTAGTAGTAAATT
11969981 AGTTAATCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.44, C:0.00, G:0.15, T:0.41
Consensus pattern (22 bp):
TAATAAATTAGTAGTAAATTGG
Found at i:11970031 original size:22 final size:22
Alignment explanation
Indices: 11970006--11970155 Score: 90
Period size: 22 Copynumber: 6.8 Consensus size: 22
11969996 ATTTTGTAAA
* *
11970006 AAATAATTGATAAATTAATAGT
1 AAATAATTGATAATTTAATAAT
*
11970028 AAATTAATT-ATAACTTT-ATAAC
1 AAA-TAATTGATAA-TTTAATAAT
* ** *
11970050 AAATCATCAATAATTTAGTAAT
1 AAATAATTGATAATTTAATAAT
* * *
11970072 AAATCA-TGTATAATTTAGTAGT
1 AAATAATTG-ATAATTTAATAAT
* * * *
11970094 AAATCATTCATAAATTAATGAT
1 AAATAATTGATAATTTAATAAT
* * *
11970116 AAATAAATGTTAATTTAGTAAT
1 AAATAATTGATAATTTAATAAT
*
11970138 AAATTATTGATAATTTAA
1 AAATAATTGATAATTTAA
11970156 CGATATATCA
Statistics
Matches: 96, Mismatches: 26, Indels: 12
0.72 0.19 0.09
Matches are distributed among these distances:
21 6 0.06
22 82 0.85
23 8 0.08
ACGTcount: A:0.49, C:0.05, G:0.07, T:0.39
Consensus pattern (22 bp):
AAATAATTGATAATTTAATAAT
Found at i:11970098 original size:44 final size:44
Alignment explanation
Indices: 11969996--11970155 Score: 121
Period size: 44 Copynumber: 3.6 Consensus size: 44
11969986 ATCATTGATG
* * * * * *
11969996 ATTTTGTAAAAAATAATTGATAAATTAATAGTAAATTAAT-TATA
1 ATTTAGTAATAAATCATTCATAAATTAATAATAAATAAATGT-TA
* * * *
11970040 ACTTTA-TAACAAATCA-TCAATAATTTAGTAATAAAT-CATGTATA
1 A-TTTAGTAATAAATCATTC-ATAAATTAATAATAAATAAATGT-TA
* *
11970084 ATTTAGTAGTAAATCATTCATAAATTAATGATAAATAAATGTTA
1 ATTTAGTAATAAATCATTCATAAATTAATAATAAATAAATGTTA
* * *
11970128 ATTTAGTAATAAATTATTGATAATTTAA
1 ATTTAGTAATAAATCATTCATAAATTAA
11970156 CGATATATCA
Statistics
Matches: 92, Mismatches: 18, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
43 7 0.08
44 76 0.83
45 9 0.10
ACGTcount: A:0.49, C:0.04, G:0.07, T:0.40
Consensus pattern (44 bp):
ATTTAGTAATAAATCATTCATAAATTAATAATAAATAAATGTTA
Found at i:11970577 original size:21 final size:20
Alignment explanation
Indices: 11970547--11970651 Score: 97
Period size: 21 Copynumber: 5.1 Consensus size: 20
11970537 ATTACATTAA
*
11970547 AAGGTTATCAAAATTTTATT
1 AAGGTTATCAAAATTGTATT
*
11970567 GAAGATTATCAAAATTGTA-T
1 -AAGGTTATCAAAATTGTATT
*
11970587 AATGGTTA-CTAAAATTATATT
1 AA-GGTTATC-AAAATTGTATT
* *
11970608 ATAAGTTACCAAAATTGTATT
1 A-AGGTTATCAAAATTGTATT
*
11970629 AGAGGTTATCAAAATTTTATT
1 A-AGGTTATCAAAATTGTATT
11970650 AA
1 AA
11970652 AAGTTATTGA
Statistics
Matches: 69, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
19 3 0.04
20 14 0.20
21 50 0.72
22 2 0.03
ACGTcount: A:0.43, C:0.06, G:0.11, T:0.40
Consensus pattern (20 bp):
AAGGTTATCAAAATTGTATT
Found at i:11970601 original size:41 final size:42
Alignment explanation
Indices: 11970548--11970657 Score: 129
Period size: 41 Copynumber: 2.6 Consensus size: 42
11970538 TTACATTAAA
*
11970548 AGGTTATCAAAATTTTATT-GAAGATTATCAAAATTGTA-TA-
1 AGGTTATCAAAATTTTATTAGAAG-TTACCAAAATTGTATTAG
* *
11970588 ATGGTTA-CTAAAATTATATTATAAGTTACCAAAATTGTATTAG
1 A-GGTTATC-AAAATTTTATTAGAAGTTACCAAAATTGTATTAG
*
11970631 AGGTTATCAAAATTTTATTAAAAGTTA
1 AGGTTATCAAAATTTTATTAGAAGTTA
11970658 TTGAAATTAA
Statistics
Matches: 59, Mismatches: 5, Indels: 10
0.80 0.07 0.14
Matches are distributed among these distances:
40 2 0.03
41 28 0.47
42 27 0.46
43 2 0.03
ACGTcount: A:0.43, C:0.05, G:0.12, T:0.40
Consensus pattern (42 bp):
AGGTTATCAAAATTTTATTAGAAGTTACCAAAATTGTATTAG
Found at i:11970640 original size:62 final size:63
Alignment explanation
Indices: 11970527--11970644 Score: 168
Period size: 62 Copynumber: 1.9 Consensus size: 63
11970517 GTTATCAAAA
* *
11970527 GGTTACTAAAATTACATTAAAAGGTTATCAAAATTTTATTGAAGATTATCAAAATTGTATAAT
1 GGTTACTAAAATTACATTAAAAGGTTACCAAAATTGTATTGAAGATTATCAAAATTGTATAAT
* * *
11970590 GGTTACTAAAATTATATTATAA-GTTACCAAAATTGTATT-AGAGGTTATCAAAATT
1 GGTTACTAAAATTACATTAAAAGGTTACCAAAATTGTATTGA-AGATTATCAAAATT
11970645 TTATTAAAAG
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
61 1 0.02
62 28 0.57
63 20 0.41
ACGTcount: A:0.43, C:0.07, G:0.12, T:0.38
Consensus pattern (63 bp):
GGTTACTAAAATTACATTAAAAGGTTACCAAAATTGTATTGAAGATTATCAAAATTGTATAAT
Found at i:11970657 original size:21 final size:21
Alignment explanation
Indices: 11970542--11970658 Score: 96
Period size: 21 Copynumber: 5.6 Consensus size: 21
11970532 CTAAAATTAC
*
11970542 ATTAAAAGGTTATCAAAATTTT
1 ATTAAAA-GTTATCAAAATTGT
*
11970564 ATT-GAAGATTATCAAAATTGT
1 ATTAAAAG-TTATCAAAATTGT
** *
11970585 A-TAATGGTTA-CTAAAATTAT
1 ATTAAAAGTTATC-AAAATTGT
* *
11970605 ATTATAAGTTACCAAAATTGT
1 ATTAAAAGTTATCAAAATTGT
* * *
11970626 ATTAGAGGTTATCAAAATTTT
1 ATTAAAAGTTATCAAAATTGT
11970647 ATTAAAAGTTAT
1 ATTAAAAGTTAT
11970659 TGAAATTAAA
Statistics
Matches: 74, Mismatches: 16, Indels: 11
0.73 0.16 0.11
Matches are distributed among these distances:
19 1 0.01
20 13 0.18
21 56 0.76
22 4 0.05
ACGTcount: A:0.44, C:0.05, G:0.11, T:0.40
Consensus pattern (21 bp):
ATTAAAAGTTATCAAAATTGT
Found at i:11974898 original size:20 final size:21
Alignment explanation
Indices: 11974862--11974913 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
11974852 CCCAAAATTA
11974862 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTA-TTTTTAAAAT
*
11974884 ATAAAATATTATTTTTTAAAT
1 ATAAAATATTATTTTTAAAAT
11974905 AT-AAATATT
1 ATAAAATATT
11974914 TAAAAATATC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 7 0.24
21 11 0.38
22 11 0.38
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
ATAAAATATTATTTTTAAAAT
Found at i:11974904 original size:21 final size:22
Alignment explanation
Indices: 11974862--11974913 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
11974852 CCCAAAATTA
11974862 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTATTTTTTAAAAT
11974884 ATAAAATATTATTTTTT-AAAT
1 ATAAAATATTATTTTTTAAAAT
11974905 AT-AAATATT
1 ATAAAATATT
11974914 TAAAAATATC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 7 0.23
21 6 0.20
22 17 0.57
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
ATAAAATATTATTTTTTAAAAT
Found at i:11974921 original size:30 final size:30
Alignment explanation
Indices: 11974886--11974942 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
11974876 TTTAAAATAT
* * *
11974886 AAAATATTATTTTTTAAATATAAATATTTA
1 AAAATATCATTATATAAATATAAATATTTA
*
11974916 AAAATATCATTATATAAATATATATAT
1 AAAATATCATTATATAAATATAAATAT
11974943 ATATATAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (30 bp):
AAAATATCATTATATAAATATAAATATTTA
Found at i:11980772 original size:19 final size:20
Alignment explanation
Indices: 11980736--11980773 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
11980726 AGACAGTTCA
11980736 ATTTATTAATTTTGATTTTG
1 ATTTATTAATTTTGATTTTG
11980756 ATTT-TTAACTTTT-ATTTT
1 ATTTATTAA-TTTTGATTTT
11980774 AATCATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.24, C:0.03, G:0.05, T:0.68
Consensus pattern (20 bp):
ATTTATTAATTTTGATTTTG
Found at i:11981689 original size:6 final size:6
Alignment explanation
Indices: 11981678--11981704 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
11981668 TACCAAGAAG
11981678 CTGTAA CTGTAA CTGTAA CTGTAA CTG
1 CTGTAA CTGTAA CTGTAA CTGTAA CTG
11981705 GTAATGAGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.33
Consensus pattern (6 bp):
CTGTAA
Found at i:11982297 original size:20 final size:21
Alignment explanation
Indices: 11982259--11982299 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
11982249 TACATCCTAC
11982259 ATTAGATAAAAAAATTTAATT
1 ATTAGATAAAAAAATTTAATT
11982280 ATTAG-TAAATAAAA-TTAATT
1 ATTAGATAAA-AAAATTTAATT
11982300 TTTATGTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (21 bp):
ATTAGATAAAAAAATTTAATT
Found at i:11985397 original size:17 final size:18
Alignment explanation
Indices: 11985372--11985405 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
11985362 AAGCCAAATT
*
11985372 TATTTTTTTA-TTATTTC
1 TATTATTTTATTTATTTC
11985389 TATTATTTTATTTATTT
1 TATTATTTTATTTATTT
11985406 TTTCTCACAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (18 bp):
TATTATTTTATTTATTTC
Found at i:11985404 original size:21 final size:20
Alignment explanation
Indices: 11985371--11985410 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
11985361 AAAGCCAAAT
11985371 TTATTTTTTTATTATTTCTA
1 TTATTTTTTTATTATTTCTA
*
11985391 TTATTTTATTTATTTTTTCT
1 TTATTTT-TTTATTATTTCT
11985411 CACAATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (20 bp):
TTATTTTTTTATTATTTCTA
Found at i:11985435 original size:151 final size:148
Alignment explanation
Indices: 11985164--11985464 Score: 437
Period size: 151 Copynumber: 2.0 Consensus size: 148
11985154 GAAACTTTGT
* *
11985164 TGTACCCTAAAAGTATAATTACCTTTAAAAAAAATTTTTCACACCTTAAAGCCAAATTTTTTTTA
1 TGTACCCTAAAAGTATAATTACCTTTAAAAAAAATTCTTCACACCCTAAAGCCAAATTTTTTTTA
* *
11985229 TTATTTCTATTCTTTTTTTTTTATTTTTTCTAAAAATATATATCAAAATATTAGTTTAAAAAAAA
66 TTATTTCTATTCTATTTTATTTATTTTTTCTAAAAATATATATCAAAATATTAGTTTAAAAAAAA
11985294 GTCTTGGTAAAAGGTTGG
131 GTCTTGGTAAAAGGTTGG
*
11985312 TGTACTCT-AAAGTCATAATTACCTTTTAAAAAAATATTCTTCACACCCTAAAGCCAAATTTATT
1 TGTACCCTAAAAGT-ATAATTACC-TTTAAAAAAA-ATTCTTCACACCCTAAAGCCAAA--T-TT
* * * *
11985376 TTTTTATTATTTCTA-T-TATTTTATTTATTTTTTCTCACAATATATGTCAAAATATTAGTTTCA
60 TTTTTATTATTTCTATTCTATTTTATTTATTTTTTCTAAAAATATATATCAAAATATTAGTTTAA
*
11985439 AAAAAAGTCTTGGTAGAAGGTTGG
125 AAAAAAGTCTTGGTAAAAGGTTGG
11985463 TG
1 TG
11985465 AGCGTTATTT
Statistics
Matches: 137, Mismatches: 10, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
147 5 0.04
148 16 0.12
149 10 0.07
150 21 0.15
151 66 0.48
152 2 0.01
153 17 0.12
ACGTcount: A:0.36, C:0.12, G:0.08, T:0.44
Consensus pattern (148 bp):
TGTACCCTAAAAGTATAATTACCTTTAAAAAAAATTCTTCACACCCTAAAGCCAAATTTTTTTTA
TTATTTCTATTCTATTTTATTTATTTTTTCTAAAAATATATATCAAAATATTAGTTTAAAAAAAA
GTCTTGGTAAAAGGTTGG
Found at i:11988702 original size:39 final size:39
Alignment explanation
Indices: 11988648--11988725 Score: 104
Period size: 39 Copynumber: 2.0 Consensus size: 39
11988638 TTAGGTTCTG
* *
11988648 TTGTTCTTCATAGTTAGCCAT-TTTGTGGTTAAGGGTTTT
1 TTGTTCTTCAAAGTTAGCCATATTT-TGGTTAAGGATTTT
* *
11988687 TTGTTCTTCAAAGTTAGGCATATTTTGGTTTAGGATTTT
1 TTGTTCTTCAAAGTTAGCCATATTTTGGTTAAGGATTTT
11988726 CTATAATTCT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
39 31 0.91
40 3 0.09
ACGTcount: A:0.18, C:0.09, G:0.22, T:0.51
Consensus pattern (39 bp):
TTGTTCTTCAAAGTTAGCCATATTTTGGTTAAGGATTTT
Found at i:11990178 original size:42 final size:42
Alignment explanation
Indices: 11990131--11990238 Score: 121
Period size: 42 Copynumber: 2.6 Consensus size: 42
11990121 GTGAAAGATG
*
11990131 TAGCTAAGGTAGTAGAGAATGAAATAGT-ATAAAATCAACATT
1 TAGCTAAGGTAGTAGAGAATGAAATAGTGA-AAAATCAACATA
* * * *
11990173 TAGCTAATGCAGTA-AGGAATAAAATGGTGAAAAATCAACATA
1 TAGCTAAGGTAGTAGA-GAATGAAATAGTGAAAAATCAACATA
* *
11990215 TAGATAAGGTAGTAGGGAATGAAA
1 TAGCTAAGGTAGTAGAGAATGAAA
11990239 GGATAGAAAA
Statistics
Matches: 53, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
41 1 0.02
42 51 0.96
43 1 0.02
ACGTcount: A:0.48, C:0.06, G:0.22, T:0.23
Consensus pattern (42 bp):
TAGCTAAGGTAGTAGAGAATGAAATAGTGAAAAATCAACATA
Found at i:11990427 original size:24 final size:24
Alignment explanation
Indices: 11990379--11990427 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
11990369 AAGGGTAATA
*
11990379 AGGGTAAAACATGAAGATGCGGCT
1 AGGGTAAAACATGAAGATGCAGCT
** *
11990403 AGGGTAAAAGTTGAAGATGTAGCT
1 AGGGTAAAACATGAAGATGCAGCT
11990427 A
1 A
11990428 ATAAAAATAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.39, C:0.08, G:0.33, T:0.20
Consensus pattern (24 bp):
AGGGTAAAACATGAAGATGCAGCT
Found at i:11994186 original size:37 final size:37
Alignment explanation
Indices: 11994145--11994221 Score: 111
Period size: 37 Copynumber: 2.1 Consensus size: 37
11994135 CAATTTCCTA
* * *
11994145 CAATCACACCAA-AGAAATATCAATAAGCAAATTCTAG
1 CAATCACACCAAGA-AAATATCAAGAAACAAATACTAG
11994182 CAATCACACCAAGAAAATATCAAGAAACAAATACTAG
1 CAATCACACCAAGAAAATATCAAGAAACAAATACTAG
11994219 CAA
1 CAA
11994222 AAACATTAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 35 0.97
38 1 0.03
ACGTcount: A:0.55, C:0.22, G:0.08, T:0.16
Consensus pattern (37 bp):
CAATCACACCAAGAAAATATCAAGAAACAAATACTAG
Found at i:11994236 original size:37 final size:37
Alignment explanation
Indices: 11994150--11994237 Score: 95
Period size: 37 Copynumber: 2.4 Consensus size: 37
11994140 TCCTACAATC
* * * * **
11994150 ACACCAAAGAAATATCAATAAGCAAATTCTAGCAATC
1 ACACCAAAAAAATATCAAGAAACAAATACTAGCAAAA
*
11994187 ACACCAAGAAAATATCAAGAAACAAATACTAGCAAAA
1 ACACCAAAAAAATATCAAGAAACAAATACTAGCAAAA
**
11994224 ACATTAAAAAAATA
1 ACACCAAAAAAATA
11994238 CCAGTAAATT
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.59, C:0.18, G:0.07, T:0.16
Consensus pattern (37 bp):
ACACCAAAAAAATATCAAGAAACAAATACTAGCAAAA
Found at i:11998848 original size:20 final size:23
Alignment explanation
Indices: 11998818--11998872 Score: 64
Period size: 20 Copynumber: 2.6 Consensus size: 23
11998808 AACTTATTAC
*
11998818 AATAAACATTAAT-ATA-AAAAT
1 AATAAAAATTAATAATATAAAAT
11998839 -ATAAAAATT-ATAATATAAAAT
1 AATAAAAATTAATAATATAAAAT
*
11998860 AATCAAAATTAAT
1 AATAAAAATTAAT
11998873 TTTAAGAAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
19 2 0.07
20 11 0.39
21 5 0.18
22 8 0.29
23 2 0.07
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (23 bp):
AATAAAAATTAATAATATAAAAT
Found at i:11999042 original size:20 final size:21
Alignment explanation
Indices: 11999014--11999053 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
11999004 TTTAATTATT
11999014 TTTGATGATCCAAAATTACTC
1 TTTGATGATCCAAAATTACTC
*
11999035 TTTG-TGATCTAAAATTACT
1 TTTGATGATCCAAAATTACT
11999054 GTTACATAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.42
Consensus pattern (21 bp):
TTTGATGATCCAAAATTACTC
Found at i:12000887 original size:24 final size:23
Alignment explanation
Indices: 12000855--12000900 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
12000845 TTTTTTTGAA
* *
12000855 ATTTTATTTTTAATTATTAATATT
1 ATTTTATTTATAATCA-TAATATT
12000879 ATTTTATTTATAATCATAATAT
1 ATTTTATTTATAATCATAATAT
12000901 GATATGATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (23 bp):
ATTTTATTTATAATCATAATATT
Found at i:12004160 original size:2 final size:2
Alignment explanation
Indices: 12004155--12004184 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
12004145 TTTTTTTTTG
*
12004155 TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
12004185 AGCATGCTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:12004884 original size:38 final size:37
Alignment explanation
Indices: 12004813--12004885 Score: 94
Period size: 38 Copynumber: 1.9 Consensus size: 37
12004803 TATTTAATGG
* *
12004813 TAAAAATTTTTACTAAAAATATTATCAACATTTTTAC
1 TAAAAATATTTACTAAAAATATTATCAAAATTTTTAC
*
12004850 TAAAAATATTTATCTAAAAA-ATATATTAAAATTTTT
1 TAAAAATATTTA-CTAAAAATAT-TATCAAAATTTTT
12004886 TAAAATTTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
37 13 0.42
38 18 0.58
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (37 bp):
TAAAAATATTTACTAAAAATATTATCAAAATTTTTAC
Found at i:12009879 original size:31 final size:31
Alignment explanation
Indices: 12009830--12009891 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
12009820 GAGAGGGCAA
* * * *
12009830 AGAAAAGGAAATGGGCTTCTCATTCTGATCT
1 AGAAAAGAAAAAGAGCTTCTCATCCTGATCT
12009861 AGAAAAGAAAAAGAGCTTCTCATCCTGATCT
1 AGAAAAGAAAAAGAGCTTCTCATCCTGATCT
12009892 TTCTTCTAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (31 bp):
AGAAAAGAAAAAGAGCTTCTCATCCTGATCT
Found at i:12012871 original size:37 final size:37
Alignment explanation
Indices: 12012763--12012882 Score: 109
Period size: 37 Copynumber: 3.1 Consensus size: 37
12012753 AAATCTGATT
*
12012763 TTTTTTCACTTATTTTTCTCTTAACTTTAATATAATA
1 TTTTTTCACTTATTTTTCTCTTAACTTTAATATACTA
* * * * *
12012800 TTTATT-AGGTT-TTTTTGTAAATAAAACTCATTTAATATACTA
1 TTTTTTCA-CTTATTTTTCT--CT-TAA--C-TTTAATATACTA
12012842 TTTTTTCACTTATTTTTCTCTTAACTTTAATATACTA
1 TTTTTTCACTTATTTTTCTCTTAACTTTAATATACTA
12012879 TTTT
1 TTTT
12012883 ATTTAATAAA
Statistics
Matches: 63, Mismatches: 11, Indels: 18
0.68 0.12 0.20
Matches are distributed among these distances:
36 7 0.11
37 23 0.37
38 2 0.03
39 2 0.03
40 2 0.03
41 2 0.03
42 18 0.29
43 7 0.11
ACGTcount: A:0.28, C:0.12, G:0.03, T:0.57
Consensus pattern (37 bp):
TTTTTTCACTTATTTTTCTCTTAACTTTAATATACTA
Found at i:12014828 original size:2 final size:2
Alignment explanation
Indices: 12014811--12014844 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
12014801 TTGGCAGCTT
* *
12014811 TA TA TA TC TA TT TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
12014845 AGCACCTGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:12019283 original size:22 final size:24
Alignment explanation
Indices: 12019239--12019289 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 24
12019229 CATGCTATAA
12019239 AAAATTAATATAAATATA-TTTTT
1 AAAATTAATATAAATATATTTTTT
* *
12019262 AAAATTAA-ATGAATTTATTTTTT
1 AAAATTAATATAAATATATTTTTT
12019285 AAAAT
1 AAAAT
12019290 AACTAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 7 0.28
23 18 0.72
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (24 bp):
AAAATTAATATAAATATATTTTTT
Found at i:12020530 original size:35 final size:35
Alignment explanation
Indices: 12020482--12020558 Score: 102
Period size: 35 Copynumber: 2.2 Consensus size: 35
12020472 ATGTTTTAAC
* *
12020482 AAATTTGATATTTAAATATATAATATT-TATTTAAAT
1 AAATATGA-ATTTAAATA-ATAATATTAAATTTAAAT
*
12020518 GAATATGAATTTAAATAATAATATTAAATTTAAAT
1 AAATATGAATTTAAATAATAATATTAAATTTAAAT
12020553 AAATAT
1 AAATAT
12020559 TTAAATAAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
34 8 0.22
35 22 0.61
36 6 0.17
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (35 bp):
AAATATGAATTTAAATAATAATATTAAATTTAAAT
Found at i:12020549 original size:19 final size:18
Alignment explanation
Indices: 12020491--12020554 Score: 69
Period size: 19 Copynumber: 3.6 Consensus size: 18
12020481 CAAATTTGAT
*
12020491 ATTTAAATATATAATATTT
1 ATTTAAATA-ATAATATTA
* *
12020510 ATTTAAAT--GAATATGA
1 ATTTAAATAATAATATTA
12020526 ATTTAAATAATAATATTAA
1 ATTTAAATAATAATATT-A
12020545 ATTTAAATAA
1 ATTTAAATAA
12020555 ATATTTAAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
16 13 0.35
18 5 0.14
19 19 0.51
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (18 bp):
ATTTAAATAATAATATTA
Found at i:12020561 original size:31 final size:32
Alignment explanation
Indices: 12020489--12020566 Score: 97
Period size: 35 Copynumber: 2.4 Consensus size: 32
12020479 AACAAATTTG
*
12020489 ATATTTAAATATATAATATTTATTTAAATGAAT
1 ATATTTAAATA-ATAATATTAATTTAAATGAAT
12020522 ATGAATTTAAATAATAATATTAAATTTAAAT-AA-
1 AT--ATTTAAATAATAATATT-AATTTAAATGAAT
12020555 ATATTTAAATAA
1 ATATTTAAATAA
12020567 ATTCAAATAT
Statistics
Matches: 41, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
31 10 0.24
33 4 0.10
34 10 0.24
35 17 0.41
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (32 bp):
ATATTTAAATAATAATATTAATTTAAATGAAT
Found at i:12021262 original size:27 final size:27
Alignment explanation
Indices: 12021232--12021333 Score: 68
Period size: 27 Copynumber: 3.7 Consensus size: 27
12021222 ATTATAATTC
12021232 TATAATTATCAAATTATAATAAAAATA
1 TATAATTATCAAATTATAATAAAAATA
** *
12021259 TATAAAAATTCATAATTTATAAATATAAAT-
1 TATAATTA-TCA-AA-TTAT-AATAAAAATA
* **
12021289 TAT-A-TATCAAATTTTAATAAATTTTA
1 TATAATTATCAAATTATAATAAA-AATA
*
12021315 TATAATT-TTAAATTATAAT
1 TATAATTATCAAATTATAAT
12021334 TAATTAATTA
Statistics
Matches: 57, Mismatches: 10, Indels: 16
0.69 0.12 0.19
Matches are distributed among these distances:
24 5 0.09
25 4 0.07
26 5 0.09
27 20 0.35
28 5 0.09
29 3 0.05
30 7 0.12
31 8 0.14
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (27 bp):
TATAATTATCAAATTATAATAAAAATA
Found at i:12021310 original size:22 final size:20
Alignment explanation
Indices: 12021283--12021325 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 20
12021273 ATTTATAAAT
12021283 ATAAATTATATATCAAATTTTA
1 ATAAATTATATAT--AATTTTA
*
12021305 ATAAATTTTATATAATTTTA
1 ATAAATTATATATAATTTTA
12021325 A
1 A
12021326 ATTATAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 8 0.40
22 12 0.60
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (20 bp):
ATAAATTATATATAATTTTA
Found at i:12022597 original size:25 final size:22
Alignment explanation
Indices: 12022568--12022619 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 22
12022558 TTGGCCTCCA
12022568 TTGTTCATTTCATTCTTTTATTTT
1 TTGTTC-TTTCATT-TTTTATTTT
*
12022592 GTTGTTCTTTTATTTTTTATTTT
1 -TTGTTCTTTCATTTTTTATTTT
12022615 TTGTT
1 TTGTT
12022620 TTCTAAGTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 5 0.19
23 9 0.35
24 6 0.23
25 6 0.23
ACGTcount: A:0.10, C:0.08, G:0.08, T:0.75
Consensus pattern (22 bp):
TTGTTCTTTCATTTTTTATTTT
Found at i:12028611 original size:16 final size:16
Alignment explanation
Indices: 12028592--12028649 Score: 50
Period size: 16 Copynumber: 3.8 Consensus size: 16
12028582 ATATTTTTTT
*
12028592 AAAATATAAATATTTA
1 AAAATATAAATATATA
* *
12028608 AAAATATCATTATATA
1 AAAATATAAATATATA
*
12028624 AATATATATAA-ATA-A
1 AAAATATA-AATATATA
12028639 AAAAT-TAAATA
1 AAAATATAAATA
12028650 ATTAATTAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
13 2 0.06
14 3 0.09
15 5 0.15
16 22 0.67
17 1 0.03
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (16 bp):
AAAATATAAATATATA
Found at i:12028822 original size:21 final size:21
Alignment explanation
Indices: 12028798--12028850 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
12028788 ATTAACCCCA
12028798 TAGGGTCGGGTCGGAACCCGT
1 TAGGGTCGGGTCGGAACCCGT
12028819 TAGGGTCGGGTCGGAACCCGT
1 TAGGGTCGGGTCGGAACCCGT
*
12028840 TAGGGACGGGT
1 TAGGGTCGGGT
12028851 TGGATTGTCG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.15, C:0.21, G:0.45, T:0.19
Consensus pattern (21 bp):
TAGGGTCGGGTCGGAACCCGT
Found at i:12030077 original size:20 final size:19
Alignment explanation
Indices: 12030045--12030107 Score: 69
Period size: 20 Copynumber: 3.4 Consensus size: 19
12030035 TATATAAAAA
12030045 TAATTTTTAATTATTTATT
1 TAATTTTTAATTATTTATT
*
12030064 TAATTTTATAATTATTTATA
1 TAATTTT-TAATTATTTATT
*
12030084 T-ATTATTT-A-TATATATT
1 TAATT-TTTAATTATTTATT
12030101 TAATTTT
1 TAATTTT
12030108 ATATTTATAT
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
17 9 0.24
18 4 0.11
19 11 0.29
20 14 0.37
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
TAATTTTTAATTATTTATT
Found at i:12030116 original size:20 final size:20
Alignment explanation
Indices: 12030045--12030117 Score: 59
Period size: 20 Copynumber: 3.9 Consensus size: 20
12030035 TATATAAAAA
* *
12030045 TAATTTT-TAATTATTTATT
1 TAATTTTATATTTATATATT
12030064 TAATTTTATA---AT-TATT
1 TAATTTTATATTTATATATT
*
12030080 TATATATTAT-TTATATATATT
1 TA-ATTTTATATT-TATATATT
12030101 TAATTTTATATTTATAT
1 TAATTTTATATTTATAT
12030118 TAAAAATAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 15
0.72 0.03 0.25
Matches are distributed among these distances:
16 6 0.14
17 8 0.18
19 7 0.16
20 15 0.34
21 8 0.18
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (20 bp):
TAATTTTATATTTATATATT
Found at i:12032939 original size:42 final size:42
Alignment explanation
Indices: 12032880--12032966 Score: 138
Period size: 42 Copynumber: 2.1 Consensus size: 42
12032870 ACTCGGATAG
* * *
12032880 ACAGGAGGCGCTGGAGGCAGAATTGGTGGTGTTGGTGGCTTC
1 ACAGGAGGAGCTGGAGGCAGAATTGGCGGAGTTGGTGGCTTC
*
12032922 ACAGGAGGAGTTGGAGGCAGAATTGGCGGAGTTGGTGGCTTC
1 ACAGGAGGAGCTGGAGGCAGAATTGGCGGAGTTGGTGGCTTC
12032964 ACA
1 ACA
12032967 ATGGGAGGAC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.21, C:0.14, G:0.44, T:0.22
Consensus pattern (42 bp):
ACAGGAGGAGCTGGAGGCAGAATTGGCGGAGTTGGTGGCTTC
Found at i:12032969 original size:105 final size:105
Alignment explanation
Indices: 12032805--12033134 Score: 588
Period size: 105 Copynumber: 3.1 Consensus size: 105
12032795 TGGAGGCACA
* *
12032805 GTTGGTGGCTGCACAGGAGGAGTTGGAGGCAGAATTGGCGGTGTTGGTGGGTTCACAATGGGAGG
1 GTTGGTGGCTTCACAGGAGGAGTTGGAGGCAGAATTGGCGGTGTTGGTGGCTTCACAATGGGAGG
12032870 ACTCGGATAGACAGGAGGCGCTGGAGGCAGAATTGGTGGT
66 ACTCGGATAGACAGGAGGCGCTGGAGGCAGAATTGGTGGT
*
12032910 GTTGGTGGCTTCACAGGAGGAGTTGGAGGCAGAATTGGCGGAGTTGGTGGCTTCACAATGGGAGG
1 GTTGGTGGCTTCACAGGAGGAGTTGGAGGCAGAATTGGCGGTGTTGGTGGCTTCACAATGGGAGG
*
12032975 ACTCGGATAGACAGGTGGCGCTGGAGGCAGAATTGGTGGT
66 ACTCGGATAGACAGGAGGCGCTGGAGGCAGAATTGGTGGT
*
12033015 GTTGGTGGCTTCACAGGAGGAGTTGGAGGCAGAATTGGCGGTGTTGGTGGCTTCACGATGGGAGG
1 GTTGGTGGCTTCACAGGAGGAGTTGGAGGCAGAATTGGCGGTGTTGGTGGCTTCACAATGGGAGG
* * *
12033080 ACTCGGATAGACAGGAGGCGTTGGAGGCAGAATCGGCGGT
66 ACTCGGATAGACAGGAGGCGCTGGAGGCAGAATTGGTGGT
12033120 GTTGGTGGCTTCACA
1 GTTGGTGGCTTCACA
12033135 ATGGGAGGAC
Statistics
Matches: 215, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
105 215 1.00
ACGTcount: A:0.20, C:0.14, G:0.44, T:0.22
Consensus pattern (105 bp):
GTTGGTGGCTTCACAGGAGGAGTTGGAGGCAGAATTGGCGGTGTTGGTGGCTTCACAATGGGAGG
ACTCGGATAGACAGGAGGCGCTGGAGGCAGAATTGGTGGT
Found at i:12033103 original size:63 final size:63
Alignment explanation
Indices: 12033027--12033183 Score: 251
Period size: 63 Copynumber: 2.5 Consensus size: 63
12033017 TGGTGGCTTC
* *
12033027 ACAGGAGGAGTTGGAGGCAGAATTGGCGGTGTTGGTGGCTTCACGATGGGAGGACTCGGATAG
1 ACAGGAGGAGTTGGAGGCAGAATTGGCGGTGTTGGTGGCTTCACAATGGGAGGACTAGGATAG
* *
12033090 ACAGGAGGCGTTGGAGGCAGAATCGGCGGTGTTGGTGGCTTCACAATGGGAGGACTAGGATAG
1 ACAGGAGGAGTTGGAGGCAGAATTGGCGGTGTTGGTGGCTTCACAATGGGAGGACTAGGATAG
** *
12033153 ACAGGAGGTTTTGGAGGCAGAATTGGTGGTG
1 ACAGGAGGAGTTGGAGGCAGAATTGGCGGTG
12033184 ATATGACTGG
Statistics
Matches: 86, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
63 86 1.00
ACGTcount: A:0.23, C:0.12, G:0.44, T:0.21
Consensus pattern (63 bp):
ACAGGAGGAGTTGGAGGCAGAATTGGCGGTGTTGGTGGCTTCACAATGGGAGGACTAGGATAG
Found at i:12033286 original size:36 final size:36
Alignment explanation
Indices: 12033237--12033445 Score: 91
Period size: 36 Copynumber: 5.5 Consensus size: 36
12033227 GACAGGAGGT
* *
12033237 TTGGGTACGTAAGGTGGGGGCTTTACAACTGGGGGC
1 TTGGGAACATAAGGTGGGGGCTTTACAACTGGGGGC
*** *
12033273 TTGGGAACATAAGGTGGCTTAGGCGC-CGGC-ACGTAGGGAGGT
1 TTGGGAACATAAGGTGG----GG-GCTTTACAAC-T-GGG-GGC
* * * *
12033315 TTGGGTACGTAAGGTGGTGGCTTTACAACCGGGGGC
1 TTGGGAACATAAGGTGGGGGCTTTACAACTGGGGGC
****
12033351 TTGGGAACATAAGGTGGCTTGGGCACCGGC-ACGTAGGGAGGC
1 TTGGGAACATAAGGTGG---GGGC-TTTACAAC-T-GGG-GGC
*** * *
12033393 TTGGGTGTATAAGGTGGTGGCTTTACAACCGGGGGC
1 TTGGGAACATAAGGTGGGGGCTTTACAACTGGGGGC
12033429 TTGGGAACATAAGGTGG
1 TTGGGAACATAAGGTGG
12033446 CTTGGGCACC
Statistics
Matches: 121, Mismatches: 34, Indels: 36
0.63 0.18 0.19
Matches are distributed among these distances:
36 49 0.40
37 8 0.07
38 3 0.02
39 14 0.12
40 5 0.04
41 8 0.07
42 34 0.28
ACGTcount: A:0.20, C:0.15, G:0.43, T:0.22
Consensus pattern (36 bp):
TTGGGAACATAAGGTGGGGGCTTTACAACTGGGGGC
Found at i:12033324 original size:78 final size:78
Alignment explanation
Indices: 12033231--12033550 Score: 469
Period size: 78 Copynumber: 4.1 Consensus size: 78
12033221 TTTGACGACA
* * * * *
12033231 GGAGGTTTGGGTACGTAAGGTGGGGGCTTTACAACTGGGGGCTTGGGAACATAAGGTGGCTTAGG
1 GGAGGCTTGGGTACATAAGGTGGTGGCTTTACAACCGGGGGCTTGGGAACATAAGGTGGCTTGGG
*
12033296 CGCCGGCACGTAG
66 CACCGGCACGTAG
* *
12033309 GGAGGTTTGGGTACGTAAGGTGGTGGCTTTACAACCGGGGGCTTGGGAACATAAGGTGGCTTGGG
1 GGAGGCTTGGGTACATAAGGTGGTGGCTTTACAACCGGGGGCTTGGGAACATAAGGTGGCTTGGG
12033374 CACCGGCACGTAG
66 CACCGGCACGTAG
**
12033387 GGAGGCTTGGGTGTATAAGGTGGTGGCTTTACAACCGGGGGCTTGGGAACATAAGGTGGCTTGGG
1 GGAGGCTTGGGTACATAAGGTGGTGGCTTTACAACCGGGGGCTTGGGAACATAAGGTGGCTTGGG
12033452 CACCGGCACGTAG
66 CACCGGCACGTAG
** * * * * *
12033465 GGAGGCTTGGGTGTATAAGGTGGAGGCTTTACAACAGGAGGTTTGGGGACATAAGGTGGCTTGGG
1 GGAGGCTTGGGTACATAAGGTGGTGGCTTTACAACCGGGGGCTTGGGAACATAAGGTGGCTTGGG
* *
12033530 CACTGGCACGTGG
66 CACCGGCACGTAG
12033543 GGAGGCTT
1 GGAGGCTT
12033551 TACGACAGGA
Statistics
Matches: 227, Mismatches: 15, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
78 227 1.00
ACGTcount: A:0.19, C:0.15, G:0.43, T:0.22
Consensus pattern (78 bp):
GGAGGCTTGGGTACATAAGGTGGTGGCTTTACAACCGGGGGCTTGGGAACATAAGGTGGCTTGGG
CACCGGCACGTAG
Found at i:12033407 original size:42 final size:42
Alignment explanation
Indices: 12033359--12033487 Score: 128
Period size: 42 Copynumber: 3.2 Consensus size: 42
12033349 GCTTGGGAAC
12033359 ATAAGGTGGCTTGGGCACCGGCACGTAGGGAGGCTTGGGTGT
1 ATAAGGTGGCTTGGGCACCGGCACGTAGGGAGGCTTGGGTGT
**** * ***
12033401 ATAAGGTGG--T-GGC-TTTACAAC--CGGG-GGCTTGGGAAC
1 ATAAGGTGGCTTGGGCACCGGC-ACGTAGGGAGGCTTGGGTGT
12033437 ATAAGGTGGCTTGGGCACCGGCACGTAGGGAGGCTTGGGTGT
1 ATAAGGTGGCTTGGGCACCGGCACGTAGGGAGGCTTGGGTGT
12033479 ATAAGGTGG
1 ATAAGGTGG
12033488 AGGCTTTACA
Statistics
Matches: 63, Mismatches: 16, Indels: 16
0.66 0.17 0.17
Matches are distributed among these distances:
36 17 0.27
37 3 0.05
38 2 0.03
39 10 0.16
40 2 0.03
41 3 0.05
42 26 0.41
ACGTcount: A:0.19, C:0.16, G:0.43, T:0.22
Consensus pattern (42 bp):
ATAAGGTGGCTTGGGCACCGGCACGTAGGGAGGCTTGGGTGT
Found at i:12033553 original size:57 final size:55
Alignment explanation
Indices: 12033481--12033808 Score: 231
Period size: 57 Copynumber: 5.8 Consensus size: 55
12033471 TTGGGTGTAT
* * *
12033481 AAGGTGGAGGCTTTACAACAGGAGGTTTGGGGACATAAGGTGGCTTGGGCACTGGC
1 AAGGGGGAGGCTTTACAACAGGAGGTTTGGGGACATAGGGAGGCTTGGGCA-TGGC
* * * *
12033537 ACGTGGGGAGGCTTTACGACAGGAGGTTTGGGTACATAGGGAGGCTTTGGTGTAT---
1 AAG-GGGGAGGCTTTACAACAGGAGGTTTGGGGACATAGGGAGGC-TTGG-GCATGGC
* * * * **
12033592 AAGGTGGAGGCTTTACAACAGGTGGCTTGGGCACCGGCACGTAGGGAGGCTTGGG--TGTAT
1 AAGGGGGAGGCTTTACAACAGGAGG-TTTGG----GG-ACATAGGGAGGCTTGGGCATG-GC
* * * *
12033652 AAGGTGGAGGCTTTACAACAGGAGGTTTGGGCACATAAGGTGGCTTGGGCACTGGC
1 AAGGGGGAGGCTTTACAACAGGAGGTTTGGGGACATAGGGAGGCTTGGGCA-TGGC
* * * *
12033708 ACGTGGGGAGGCTTTACGACAGGAGGTTTGGGTACATAGGGAGGCTTTGGTGTAT---
1 AAG-GGGGAGGCTTTACAACAGGAGGTTTGGGGACATAGGGAGGC-TTGG-GCATGGC
* * * * *
12033763 AAGGTGGAGGCTTTACAAAAGGTGGCTTGGGTACATAGGGAGGCTT
1 AAGGGGGAGGCTTTACAACAGGAGGTTTGGGGACATAGGGAGGCTT
12033809 TACAACTGGA
Statistics
Matches: 218, Mismatches: 35, Indels: 41
0.74 0.12 0.14
Matches are distributed among these distances:
53 2 0.01
54 69 0.32
55 9 0.04
56 5 0.02
57 74 0.34
58 11 0.05
59 13 0.06
60 35 0.16
ACGTcount: A:0.22, C:0.13, G:0.41, T:0.24
Consensus pattern (55 bp):
AAGGGGGAGGCTTTACAACAGGAGGTTTGGGGACATAGGGAGGCTTGGGCATGGC
Found at i:12033666 original size:60 final size:59
Alignment explanation
Indices: 12033444--12033685 Score: 227
Period size: 60 Copynumber: 4.2 Consensus size: 59
12033434 AACATAAGGT
12033444 GGCTTGGGCACCGGCACGTAGGGAGGCTTGGGTGTATAAGGTGGAGGCTTTACAACAGGA
1 GGCTTGGGCA-CGGCACGTAGGGAGGCTTGGGTGTATAAGGTGGAGGCTTTACAACAGGA
* * * * ** * * *
12033504 GG-TTTGG---GG-ACATAAGGTGGCTTGGGCACTG-GCACGTGGGGAGGCTTTACGACAGGA
1 GGCTTGGGCACGGCACGTAGGGAGGCTTGGG---TGTATAAG-GTGGAGGCTTTACAACAGGA
* * * *
12033561 GGTTTGGGTA---CA--TAGGGAGGCTTTGGTGTATAAGGTGGAGGCTTTACAACAGGT
1 GGCTTGGGCACGGCACGTAGGGAGGCTTGGGTGTATAAGGTGGAGGCTTTACAACAGGA
12033615 GGCTTGGGCACCGGCACGTAGGGAGGCTTGGGTGTATAAGGTGGAGGCTTTACAACAGGA
1 GGCTTGGGCA-CGGCACGTAGGGAGGCTTGGGTGTATAAGGTGGAGGCTTTACAACAGGA
*
12033675 GGTTTGGGCAC
1 GGCTTGGGCAC
12033686 ATAAGGTGGC
Statistics
Matches: 143, Mismatches: 24, Indels: 31
0.72 0.12 0.16
Matches are distributed among these distances:
54 41 0.29
55 4 0.03
56 2 0.01
57 33 0.23
58 6 0.04
59 6 0.04
60 51 0.36
ACGTcount: A:0.21, C:0.15, G:0.42, T:0.23
Consensus pattern (59 bp):
GGCTTGGGCACGGCACGTAGGGAGGCTTGGGTGTATAAGGTGGAGGCTTTACAACAGGA
Found at i:12033725 original size:171 final size:171
Alignment explanation
Indices: 12033439--12033793 Score: 692
Period size: 171 Copynumber: 2.1 Consensus size: 171
12033429 TTGGGAACAT
12033439 AAGGTGGCTTGGGCACCGGCACGTAGGGAGGCTTGGGTGTATAAGGTGGAGGCTTTACAACAGGA
1 AAGGTGGCTTGGGCACCGGCACGTAGGGAGGCTTGGGTGTATAAGGTGGAGGCTTTACAACAGGA
*
12033504 GGTTTGGGGACATAAGGTGGCTTGGGCACTGGCACGTGGGGAGGCTTTACGACAGGAGGTTTGGG
66 GGTTTGGGCACATAAGGTGGCTTGGGCACTGGCACGTGGGGAGGCTTTACGACAGGAGGTTTGGG
12033569 TACATAGGGAGGCTTTGGTGTATAAGGTGGAGGCTTTACAA
131 TACATAGGGAGGCTTTGGTGTATAAGGTGGAGGCTTTACAA
*
12033610 CAGGTGGCTTGGGCACCGGCACGTAGGGAGGCTTGGGTGTATAAGGTGGAGGCTTTACAACAGGA
1 AAGGTGGCTTGGGCACCGGCACGTAGGGAGGCTTGGGTGTATAAGGTGGAGGCTTTACAACAGGA
12033675 GGTTTGGGCACATAAGGTGGCTTGGGCACTGGCACGTGGGGAGGCTTTACGACAGGAGGTTTGGG
66 GGTTTGGGCACATAAGGTGGCTTGGGCACTGGCACGTGGGGAGGCTTTACGACAGGAGGTTTGGG
12033740 TACATAGGGAGGCTTTGGTGTATAAGGTGGAGGCTTTACAA
131 TACATAGGGAGGCTTTGGTGTATAAGGTGGAGGCTTTACAA
12033781 AAGGTGGCTTGGG
1 AAGGTGGCTTGGG
12033794 TACATAGGGA
Statistics
Matches: 181, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
171 181 1.00
ACGTcount: A:0.21, C:0.14, G:0.42, T:0.23
Consensus pattern (171 bp):
AAGGTGGCTTGGGCACCGGCACGTAGGGAGGCTTGGGTGTATAAGGTGGAGGCTTTACAACAGGA
GGTTTGGGCACATAAGGTGGCTTGGGCACTGGCACGTGGGGAGGCTTTACGACAGGAGGTTTGGG
TACATAGGGAGGCTTTGGTGTATAAGGTGGAGGCTTTACAA
Found at i:12033807 original size:18 final size:18
Alignment explanation
Indices: 12033729--12033808 Score: 51
Period size: 18 Copynumber: 4.4 Consensus size: 18
12033719 CTTTACGACA
*
12033729 GGAGGTTTGGGTACATAG
1 GGAGGCTTGGGTACATAG
*
12033747 GGAGGCTTTGGTGTATA-AGG
1 GGAGGC-TTGG-GTACATA-G
* *
12033767 TGGAGGCTT---TACAAAA
1 -GGAGGCTTGGGTACATAG
*
12033783 GGTGGCTTGGGTACATAG
1 GGAGGCTTGGGTACATAG
12033801 GGAGGCTT
1 GGAGGCTT
12033809 TACAACTGGA
Statistics
Matches: 46, Mismatches: 8, Indels: 16
0.66 0.11 0.23
Matches are distributed among these distances:
15 7 0.15
16 3 0.07
17 1 0.02
18 17 0.37
19 5 0.11
20 7 0.15
21 6 0.13
ACGTcount: A:0.23, C:0.09, G:0.41, T:0.28
Consensus pattern (18 bp):
GGAGGCTTGGGTACATAG
Found at i:12033826 original size:33 final size:33
Alignment explanation
Indices: 12033768--12033856 Score: 99
Period size: 33 Copynumber: 2.7 Consensus size: 33
12033758 TGTATAAGGT
* * * *
12033768 GGAGGCTTTACAAAAGGTGGCTTGGGTACAT-A
1 GGAGGCTTTACAACAGGAGGCTTGGGGAAATGA
* *
12033800 GGGAGGCTTTACAACTGGAGGTTTGGGGAAATGA
1 -GGAGGCTTTACAACAGGAGGCTTGGGGAAATGA
*
12033834 GGAGGCTTTACTACAGGAGGCTT
1 GGAGGCTTTACAACAGGAGGCTT
12033857 AGGTGGCTTA
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
33 45 0.98
34 1 0.02
ACGTcount: A:0.26, C:0.12, G:0.37, T:0.25
Consensus pattern (33 bp):
GGAGGCTTTACAACAGGAGGCTTGGGGAAATGA
Found at i:12035524 original size:30 final size:31
Alignment explanation
Indices: 12035475--12035532 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
12035465 GAGTAGGCAA
12035475 TTTTGAGTTAACCCTGTCGGTGCTAGAAAAT
1 TTTTGAGTTAACCCTGTCGGTGCTAGAAAAT
12035506 TTTTGAGTTAACCC-GTCGGTGCTAGAA
1 TTTTGAGTTAACCCTGTCGGTGCTAGAA
12035533 CCTACCTACT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
30 13 0.48
31 14 0.52
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.34
Consensus pattern (31 bp):
TTTTGAGTTAACCCTGTCGGTGCTAGAAAAT
Found at i:12038175 original size:12 final size:11
Alignment explanation
Indices: 12038153--12038198 Score: 60
Period size: 11 Copynumber: 4.2 Consensus size: 11
12038143 TGTTCAACCC
12038153 TTTA-ATATAT
1 TTTATATATAT
12038163 TTTATAGTATAT
1 TTTATA-TATAT
12038175 TTTATA-ATTAT
1 TTTATATA-TAT
12038186 TTTATATATAT
1 TTTATATATAT
12038197 TT
1 TT
12038199 AAATTTAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
10 5 0.16
11 15 0.47
12 12 0.38
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (11 bp):
TTTATATATAT
Done.