Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01013447.1 Kokia drynarioides strain JFW-HI SEQ_128473, 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: 119294
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.33
Warning! 35 characters in sequence are not A, C, G, or T
Found at i:25672 original size:21 final size:22
Alignment explanation
Indices: 25648--25690 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
25638 TTGTGTTTGA
25648 ATTTATTCACA-ATTTTTTATG
1 ATTTATTCACATATTTTTTATG
**
25669 ATTTATTTTCATATTTTTTATG
1 ATTTATTCACATATTTTTTATG
25691 CTTCATTTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.26, C:0.07, G:0.05, T:0.63
Consensus pattern (22 bp):
ATTTATTCACATATTTTTTATG
Found at i:34306 original size:25 final size:25
Alignment explanation
Indices: 34011--34290 Score: 341
Period size: 25 Copynumber: 11.2 Consensus size: 25
34001 AAAATATTGT
*
34011 TCTTACGAGCCACACAGAATATCGC
1 TCTTACGAGCCAGACAGAATATCGC
* * *
34036 TCTTACGAGCAAGATAAAATATCGC
1 TCTTACGAGCCAGACAGAATATCGC
* **
34061 CCTTACGAGCCAGACAGAATATTAC
1 TCTTACGAGCCAGACAGAATATCGC
* * *
34086 TCCTACAAGCCAGTCAGAATATCGC
1 TCTTACGAGCCAGACAGAATATCGC
* *
34111 TCTTATGAGCTAGACA-AATATCGC
1 TCTTACGAGCCAGACAGAATATCGC
*
34135 TCTTACGAGCTAGACAGAATATCGC
1 TCTTACGAGCCAGACAGAATATCGC
*
34160 TCTTACGAGCCAGATAGAATATCGC
1 TCTTACGAGCCAGACAGAATATCGC
*
34185 -CATTACGAGCCAGATAGAATATCGC
1 TC-TTACGAGCCAGACAGAATATCGC
* *
34210 -CATTACGAGCCAGATAGAATATCAC
1 TC-TTACGAGCCAGACAGAATATCGC
* *
34235 TCTTACGAGCCAGACAGTATATCAC
1 TCTTACGAGCCAGACAGAATATCGC
*
34260 TCTTACGAGCCAGACAAAATATCGC
1 TCTTACGAGCCAGACAGAATATCGC
34285 TCTTAC
1 TCTTAC
34291 AAGTTAGACA
Statistics
Matches: 222, Mismatches: 30, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
24 24 0.11
25 197 0.89
26 1 0.00
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (25 bp):
TCTTACGAGCCAGACAGAATATCGC
Found at i:38344 original size:26 final size:26
Alignment explanation
Indices: 38318--38567 Score: 218
Period size: 26 Copynumber: 9.6 Consensus size: 26
38308 CGTTTGCCAA
* *
38318 CATGAGTATACGTTAACGCTCGTCAA
1 CATGAGTATACGTTTACGCTCGTCAG
* * * ** *
38344 CATGATTATGCATTTATACTCGCCAG
1 CATGAGTATACGTTTACGCTCGTCAG
* * *
38370 CATGAATATACATTTACGCTCGTTAG
1 CATGAGTATACGTTTACGCTCGTCAG
* * *
38396 CATAAATATACGTTTATGCTCGTCAG
1 CATGAGTATACGTTTACGCTCGTCAG
* *
38422 CATGGGTATACGGTTACGCTCGTCAG
1 CATGAGTATACGTTTACGCTCGTCAG
*
38448 CATG-GATATACGTTTACGCTCGTGAG
1 CATGAG-TATACGTTTACGCTCGTCAG
* * * *
38474 CATG-GATATACGTTTGCACTCATTAG
1 CATGAG-TATACGTTTACGCTCGTCAG
*
38500 CATG-GATATATGTTTACGCTCGTCAG
1 CATGAG-TATACGTTTACGCTCGTCAG
* * *
38526 CATGAATATACTTTTACACTCGTCAG
1 CATGAGTATACGTTTACGCTCGTCAG
*
38552 CATGAATATACGTTTA
1 CATGAGTATACGTTTA
38568 TGCTACTATA
Statistics
Matches: 183, Mismatches: 39, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
25 1 0.01
26 182 0.99
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (26 bp):
CATGAGTATACGTTTACGCTCGTCAG
Found at i:38449 original size:78 final size:78
Alignment explanation
Indices: 38362--38571 Score: 267
Period size: 78 Copynumber: 2.7 Consensus size: 78
38352 TGCATTTATA
* * * *
38362 CTCGCCAGCATGAATATACATTTACGCTCGTTAGCATAAATATACGTTTATGCTCGTCAGCATGG
1 CTCGTCAGCATGAATATACATTTACGCTCGTCAGCATGAATATACGTTTATGCTCATCAGCATGG
*
38427 GTATACGGTTACG
66 ATATACGGTTACG
* * * * *** *
38440 CTCGTCAGCATGGATATACGTTTACGCTCGTGAGCATGGATATACGTTTGCACTCATTAGCATGG
1 CTCGTCAGCATGAATATACATTTACGCTCGTCAGCATGAATATACGTTTATGCTCATCAGCATGG
* *
38505 ATATATGTTTACG
66 ATATACGGTTACG
* *
38518 CTCGTCAGCATGAATATACTTTTACACTCGTCAGCATGAATATACGTTTATGCT
1 CTCGTCAGCATGAATATACATTTACGCTCGTCAGCATGAATATACGTTTATGCT
38572 ACTATAGCTC
Statistics
Matches: 110, Mismatches: 22, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
78 110 1.00
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (78 bp):
CTCGTCAGCATGAATATACATTTACGCTCGTCAGCATGAATATACGTTTATGCTCATCAGCATGG
ATATACGGTTACG
Found at i:41613 original size:11 final size:11
Alignment explanation
Indices: 41599--41636 Score: 67
Period size: 11 Copynumber: 3.5 Consensus size: 11
41589 GAGGTCTTTG
41599 TTTTTCTTTTC
1 TTTTTCTTTTC
41610 TTTTTCTTTTC
1 TTTTTCTTTTC
*
41621 TTTTTCTTTCC
1 TTTTTCTTTTC
41632 TTTTT
1 TTTTT
41637 GGGCCTGCCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (11 bp):
TTTTTCTTTTC
Found at i:41664 original size:3 final size:3
Alignment explanation
Indices: 41656--41707 Score: 50
Period size: 3 Copynumber: 17.0 Consensus size: 3
41646 AACGGCCCAA
* * * * *
41656 ATT ATT ATT ATC ATT ACT ACT ACT ATT ATT ATT ATT AAAT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT
41702 ATT ATT
1 ATT ATT
41708 TTTAAGGTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
3 40 0.95
4 2 0.05
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.56
Consensus pattern (3 bp):
ATT
Found at i:42384 original size:144 final size:145
Alignment explanation
Indices: 42154--42453 Score: 421
Period size: 145 Copynumber: 2.1 Consensus size: 145
42144 GATTTTTTTT
* * *
42154 AAAAAAGAAAGTTTAGATTTTTAAAAATAAAAATCTGGTTTTTAATCATTTTAAAGGAAAATTTT
1 AAAAAAGAAAGTTTAGATTTTTAAAAATAAAAATATGGTTTTTAATCATTTTAAAGAAAAATCTT
* ** * *
42219 AAATTTTTAAACAAAT-TTTTT-TTTTTTAGTTATTTTAAAATAAAAGCTTTGATCTTTAAGAAA
66 AAATTTTTAAACAAATGTTTTTATTTTTAAACTATTTCAAAATAAAAACTTTGATCTTTAAGAAA
42282 AGTAGTGATTTT-TTAA
131 AGTAGT--TTTTCTTAA
*
42298 GAAAAAA-AAAGTTTAGATTTTTAAAAATAAAAATATGTTTTTTTAATCATTTTAAAGAAAAATC
1 -AAAAAAGAAAGTTTAGATTTTTAAAAATAAAAATATG-GTTTTTAATCATTTTAAAGAAAAATC
* *
42362 TTAAATTTTTAAAGAAA-GTTTTTATTTTTGAAACTATTTCGAAATAAAAACTTTGATCTTTAAG
64 TTAAATTTTTAAACAAATGTTTTTATTTTT-AAACTATTTCAAAATAAAAACTTTGATCTTTAAG
42426 AAAAGTAGTTTTTCTTAA
128 AAAAGTAGTTTTTCTTAA
42444 AAAAAAGAAA
1 AAAAAAGAAA
42454 AAAGAAAAGT
Statistics
Matches: 138, Mismatches: 11, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
144 29 0.21
145 60 0.43
146 12 0.09
147 37 0.27
ACGTcount: A:0.45, C:0.04, G:0.09, T:0.42
Consensus pattern (145 bp):
AAAAAAGAAAGTTTAGATTTTTAAAAATAAAAATATGGTTTTTAATCATTTTAAAGAAAAATCTT
AAATTTTTAAACAAATGTTTTTATTTTTAAACTATTTCAAAATAAAAACTTTGATCTTTAAGAAA
AGTAGTTTTTCTTAA
Found at i:45510 original size:31 final size:34
Alignment explanation
Indices: 45465--45526 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 34
45455 ATATTTAAAA
*
45465 TTCAAAATATTTATAA-AA-ATTAAAAAAATATT
1 TTCAAAATAATTATAATAATATTAAAAAAATATT
*
45497 TTCAAAA-AATTATAATAATTTTAAAAAAAT
1 TTCAAAATAATTATAATAATATTAAAAAAAT
45527 TCTAAATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
31 7 0.27
32 9 0.35
33 10 0.38
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (34 bp):
TTCAAAATAATTATAATAATATTAAAAAAATATT
Found at i:45534 original size:21 final size:21
Alignment explanation
Indices: 45420--45554 Score: 99
Period size: 19 Copynumber: 6.7 Consensus size: 21
45410 ACAAAATTGC
45420 AAAAAAA-TCAAAATAATTTT
1 AAAAAAATTCAAAATAATTTT
*
45440 -CAAAAATTCAAAATAATATTT
1 AAAAAAATTCAAAATAAT-TTT
45461 ---AAAATTCAAAAT-A-TTT
1 AAAAAAATTCAAAATAATTTT
* * *
45477 ATAAAAATTAAAAAAATATTTT
1 AAAAAAATTCAAAATA-ATTTT
* *
45499 CAAAAAATT-ATAATAATTTT
1 AAAAAAATTCAAAATAATTTT
* *
45519 AAAAAAATTCTAAATAATATAT
1 AAAAAAATTCAAAATAAT-TTT
*
45541 AAAAAAGTT-AAAAT
1 AAAAAAATTCAAAAT
45555 TTTAAAATTT
Statistics
Matches: 92, Mismatches: 13, Indels: 19
0.74 0.10 0.15
Matches are distributed among these distances:
16 3 0.03
18 1 0.01
19 27 0.29
20 23 0.25
21 18 0.20
22 20 0.22
ACGTcount: A:0.61, C:0.04, G:0.01, T:0.33
Consensus pattern (21 bp):
AAAAAAATTCAAAATAATTTT
Found at i:45544 original size:20 final size:20
Alignment explanation
Indices: 45421--45545 Score: 80
Period size: 20 Copynumber: 6.2 Consensus size: 20
45411 CAAAATTGCA
* *
45421 AAAAAATCAAAATAAT-TTT
1 AAAAATTCAAAATAATATAT
45440 CAAAAATTCAAAATAATAT-T
1 -AAAAATTCAAAATAATATAT
* *
45460 TAAAATTCAAAAT-ATTTAT
1 AAAAATTCAAAATAATATAT
* *
45479 AAAAATT-AAAAAAATATTTT
1 AAAAATTCAAAATAATA-TAT
* * *
45499 CAAAAAATT-ATAATAATTTTAA
1 --AAAAATTCAAAATAA-TATAT
*
45521 AAAAATTCTAAATAATATAT
1 AAAAATTCAAAATAATATAT
45541 AAAAA
1 AAAAA
45546 AGTTAAAATT
Statistics
Matches: 81, Mismatches: 16, Indels: 16
0.72 0.14 0.14
Matches are distributed among these distances:
18 7 0.09
19 21 0.26
20 33 0.41
21 6 0.07
22 13 0.16
23 1 0.01
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.34
Consensus pattern (20 bp):
AAAAATTCAAAATAATATAT
Found at i:45692 original size:16 final size:16
Alignment explanation
Indices: 45673--45710 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
45663 TTTAAAACGT
*
45673 TTTCAAATATATATAG
1 TTTCAAATATACATAG
45689 TTTCAAATATACATAG
1 TTTCAAATATACATAG
45705 TTTCAA
1 TTTCAA
45711 GTTTATCATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.42, C:0.11, G:0.05, T:0.42
Consensus pattern (16 bp):
TTTCAAATATACATAG
Found at i:45711 original size:97 final size:99
Alignment explanation
Indices: 45609--45796 Score: 353
Period size: 100 Copynumber: 1.9 Consensus size: 99
45599 TAATTAATGA
45609 TTCAAGTTTATCATACTAAAGTATATTA-T-TTATTATTATTATTATTATTTTGATTTTAAAACG
1 TTCAAGTTTATCATACTAAAGTATATTATTATTATTATTATTATTATTATTTTGATTTTAAAACG
45672 TTTTCAAATATATATAGTTTCAAATATACATAGT
66 TTTTCAAATATATATAGTTTCAAATATACATAGT
45706 TTCAAGTTTATCATACTAAAGTATATTATTTATTATTATTATTATTATTATTTTGATTTTAAAAC
1 TTCAAGTTTATCATACTAAAGTATATTA-TTATTATTATTATTATTATTATTTTGATTTTAAAAC
45771 GTTTTCAAATATATATAGTTTCAAAT
65 GTTTTCAAATATATATAGTTTCAAAT
45797 TTATGTGCTC
Statistics
Matches: 88, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
97 28 0.32
99 1 0.01
100 59 0.67
ACGTcount: A:0.37, C:0.07, G:0.06, T:0.51
Consensus pattern (99 bp):
TTCAAGTTTATCATACTAAAGTATATTATTATTATTATTATTATTATTATTTTGATTTTAAAACG
TTTTCAAATATATATAGTTTCAAATATACATAGT
Found at i:49238 original size:59 final size:59
Alignment explanation
Indices: 49145--49262 Score: 218
Period size: 59 Copynumber: 2.0 Consensus size: 59
49135 AAATCGACAA
*
49145 CTAGTGAGAAGGATGAAGATTCCAATGATAATGACGAGAAGGAGGAAGAGATGGCTATG
1 CTAGTGAGAAGGATGAAGATTCCAATGATAATGACGACAAGGAGGAAGAGATGGCTATG
*
49204 CTAGTGAGAAGGATGAAGATTCCAATGATGATGACGACAAGGAGGAAGAGATGGCTATG
1 CTAGTGAGAAGGATGAAGATTCCAATGATAATGACGACAAGGAGGAAGAGATGGCTATG
49263 TTGGTAAGAT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 57 1.00
ACGTcount: A:0.38, C:0.09, G:0.34, T:0.19
Consensus pattern (59 bp):
CTAGTGAGAAGGATGAAGATTCCAATGATAATGACGACAAGGAGGAAGAGATGGCTATG
Found at i:49639 original size:20 final size:20
Alignment explanation
Indices: 49614--49655 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
49604 TGCATTCGAT
49614 GAATTGACTATAGATTTTGA
1 GAATTGACTATAGATTTTGA
49634 GAATTGACTATAGATTTTGA
1 GAATTGACTATAGATTTTGA
49654 GA
1 GA
49656 CTATGAACTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.05, G:0.21, T:0.38
Consensus pattern (20 bp):
GAATTGACTATAGATTTTGA
Found at i:54975 original size:17 final size:17
Alignment explanation
Indices: 54939--54976 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
54929 GAATGGCTAA
*
54939 AAATGGATAAATAACCT
1 AAATGGATAAATAACAT
54956 AAATGGAATAAATAA-AT
1 AAATGG-ATAAATAACAT
54973 AAAT
1 AAAT
54977 AAAGTTTAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.61, C:0.05, G:0.11, T:0.24
Consensus pattern (17 bp):
AAATGGATAAATAACAT
Found at i:57302 original size:24 final size:24
Alignment explanation
Indices: 57274--57327 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
57264 GCGCTCACCC
* * *
57274 TCATCCTTGTGCTTCTTCTTCTTT
1 TCATCCTTCTGCCTCTTCCTCTTT
*
57298 TCATCTTTCTGCCTCTTCCTCTTT
1 TCATCCTTCTGCCTCTTCCTCTTT
*
57322 TTATCC
1 TCATCC
57328 ATCGAACCAA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.06, C:0.33, G:0.06, T:0.56
Consensus pattern (24 bp):
TCATCCTTCTGCCTCTTCCTCTTT
Found at i:57631 original size:21 final size:21
Alignment explanation
Indices: 57606--57652 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
57596 CTCCAGTAGG
57606 TTCTTTCATTT-CATTTTCTTC
1 TTCTTT-ATTTCCATTTTCTTC
* *
57627 TTCTTTTTTTCCCTTTTCTTC
1 TTCTTTATTTCCATTTTCTTC
57648 TTCTT
1 TTCTT
57653 CCTTCTCCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 3 0.13
21 20 0.87
ACGTcount: A:0.04, C:0.26, G:0.00, T:0.70
Consensus pattern (21 bp):
TTCTTTATTTCCATTTTCTTC
Found at i:57662 original size:21 final size:21
Alignment explanation
Indices: 57619--57660 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
57609 TTTCATTTCA
* *
57619 TTTTCTTCTTCTTTTTTTCCC
1 TTTTCTTCTTCTTCTTCTCCC
57640 TTTTCTTCTTCTTCCTTCTCC
1 TTTTCTTCTTCTT-CTTCTCC
57661 TTCATCTAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTTCTTCTTCTTCTTCTCCC
Found at i:67540 original size:12 final size:11
Alignment explanation
Indices: 67510--67541 Score: 55
Period size: 11 Copynumber: 2.8 Consensus size: 11
67500 CATTCTCTTC
67510 TTTCTCTAGTT
1 TTTCTCTAGTT
67521 TTTCTCTAGTT
1 TTTCTCTAGTT
67532 TTCTCTCTAG
1 TT-TCTCTAG
67542 CCTTCCCATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.65
12 7 0.35
ACGTcount: A:0.09, C:0.22, G:0.09, T:0.59
Consensus pattern (11 bp):
TTTCTCTAGTT
Found at i:67971 original size:21 final size:21
Alignment explanation
Indices: 67945--67987 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
67935 TGTGATATAA
67945 CTAATGAATTAATCATTTAAG
1 CTAATGAATTAATCATTTAAG
67966 CTAATGAATTAATCATTTAAG
1 CTAATGAATTAATCATTTAAG
67987 C
1 C
67988 AAATTGAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.42, C:0.12, G:0.09, T:0.37
Consensus pattern (21 bp):
CTAATGAATTAATCATTTAAG
Found at i:73055 original size:73 final size:73
Alignment explanation
Indices: 72900--73057 Score: 221
Period size: 73 Copynumber: 2.2 Consensus size: 73
72890 TTGAACTTGT
*
72900 ATCAATACAAGTATTCTAGAGAGCAAAAATGTATAGTTGTAGGGAAGATGTATCGATACTTGGAA
1 ATCAATACAAGTATTCTAGAGAGCAAAAATGTATAGTTCTAGGGAAGATGTATCGATACTTGGAA
*
72965 TAGTGAGT
66 TAGTGAGC
* * * *
72973 AT-AGATACAAGTATTCTAGAGCA-CAAAAATGTATAGTTCTAGGGAATATTTCTCGATGCTTGG
1 ATCA-ATACAAGTATTCTAGAG-AGCAAAAATGTATAGTTCTAGGGAAGATGTATCGATACTTGG
73036 AATAGTGAGC
64 AATAGTGAGC
*
73046 ATCATTACAAGT
1 ATCAATACAAGT
73058 GCCTTATTTT
Statistics
Matches: 75, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
72 1 0.01
73 72 0.96
74 2 0.03
ACGTcount: A:0.37, C:0.11, G:0.22, T:0.30
Consensus pattern (73 bp):
ATCAATACAAGTATTCTAGAGAGCAAAAATGTATAGTTCTAGGGAAGATGTATCGATACTTGGAA
TAGTGAGC
Found at i:76949 original size:20 final size:20
Alignment explanation
Indices: 76883--76949 Score: 62
Period size: 20 Copynumber: 3.2 Consensus size: 20
76873 ATGTCGGTTG
*
76883 TTGTTTGCCCTTCGGTGCCTC
1 TTGTTTGCACTTCGGTG-CTC
* * * *
76904 TTTTTTTTCACTTCGATGCCC
1 -TTGTTTGCACTTCGGTGCTC
*
76925 CTGTTTGCACTTCGGTGCTC
1 TTGTTTGCACTTCGGTGCTC
76945 TTGTT
1 TTGTT
76950 ATTACAAATG
Statistics
Matches: 34, Mismatches: 11, Indels: 2
0.72 0.23 0.04
Matches are distributed among these distances:
20 19 0.56
21 2 0.06
22 13 0.38
ACGTcount: A:0.04, C:0.28, G:0.19, T:0.48
Consensus pattern (20 bp):
TTGTTTGCACTTCGGTGCTC
Found at i:81151 original size:18 final size:17
Alignment explanation
Indices: 81104--81156 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 17
81094 TTTTAATTCA
81104 ATTTAATTTAATTTTTTT
1 ATTTAATTT-ATTTTTTT
* *
81122 GTTTTATTTTATTTTTTT
1 -ATTTAATTTATTTTTTT
81140 ATTTAATGTTATATTTT
1 ATTTAAT-TTAT-TTTT
81157 CCATGTTTGC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
17 5 0.18
18 12 0.43
19 11 0.39
ACGTcount: A:0.23, C:0.00, G:0.04, T:0.74
Consensus pattern (17 bp):
ATTTAATTTATTTTTTT
Found at i:83646 original size:27 final size:26
Alignment explanation
Indices: 83616--83667 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
83606 TTAAACAAAG
* *
83616 TCCTAAAGAATATTTACATATTAATTA
1 TCCTAAACAATATTTA-AAATTAATTA
*
83643 TCCTATACAATATTTAAAATTAATT
1 TCCTAAACAATATTTAAAATTAATT
83668 TAAAATCCTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 8 0.36
27 14 0.64
ACGTcount: A:0.44, C:0.12, G:0.02, T:0.42
Consensus pattern (26 bp):
TCCTAAACAATATTTAAAATTAATTA
Found at i:84515 original size:22 final size:22
Alignment explanation
Indices: 84490--84535 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
84480 AGAAACACAA
*
84490 AAAAAC-ATATTTTTATTTTTTT
1 AAAAACTAAATTTTT-TTTTTTT
*
84512 AAAATCTAAATTTTTTTTTTTT
1 AAAAACTAAATTTTTTTTTTTT
84534 AA
1 AA
84536 TAAAAATCAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (22 bp):
AAAAACTAAATTTTTTTTTTTT
Found at i:84515 original size:23 final size:23
Alignment explanation
Indices: 84489--84540 Score: 54
Period size: 22 Copynumber: 2.3 Consensus size: 23
84479 TAGAAACACA
*
84489 AAAAAAC-ATATTTTTATTTTTTT
1 AAAAAACTAAATTTTT-TTTTTTT
*
84512 -AAAATCTAAATTTTTTTTTTTT
1 AAAAAACTAAATTTTTTTTTTTT
84534 AATAAAA
1 AA-AAAA
84541 ATCACTATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 5
0.74 0.10 0.16
Matches are distributed among these distances:
22 12 0.52
23 8 0.35
24 3 0.13
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (23 bp):
AAAAAACTAAATTTTTTTTTTTT
Found at i:84714 original size:149 final size:147
Alignment explanation
Indices: 84459--85021 Score: 490
Period size: 149 Copynumber: 3.8 Consensus size: 147
84449 AATAGTTAAA
** * * * *
84459 AAAAATTTAAACTTTTTCTTTAGAAA-CACAAAAAAACATATTTTTATTTTTTTAAAATCTAAA-
1 AAAAATTTAAACTTTGACTTTA-AAATAAC-TAAAAA-AT-TTTTTTTTTTTTTTAAATCTAAAT
* * * *
84522 T-TTTTT-TTTTTTAATAAAAATCACTATTTTACTTAAAATTCCAAACTTTTATTTTGAAATAAT
62 TATTTTTCTTTTTTAATGAAAATCAATA-TTTACTTAAAAATCCAAACTTTTATTTCGAAATAAT
84585 TAAAAAAATCAAAATTTTGTTT
126 TAAAAAAATCAAAATTTTGTTT
* * ***
84607 AAAATTTTAAACTTTGACTTTAAAATCACTAAATTTTTTTTTTTTTTTTTTAAATCTAACATTAT
1 AAAAATTTAAACTTTGACTTTAAAATAACTAAAAAATTTTTTTTTTTTTTTAAATCTAA-ATTAT
* *
84672 TTTTCTTTTTTAATGAAAATAAATACTTTACTTAAAAATCCAAACTTTTATTTCGAAATAGTTAA
65 TTTTCTTTTTTAATGAAAATCAATA-TTTACTTAAAAATCCAAACTTTTATTTCGAAATAATTAA
* *
84737 AAAAATCAAAACTTTATTT
129 AAAAATCAAAATTTTGTTT
* ** *** * * *
84756 AAAAATTTAAATTTTTTCTTTAAAATAACTAAAAAATAGATTTTTATTTTTAAA---AATATAAA
1 AAAAATTTAAACTTTGACTTTAAAATAACTAAAAAATTTTTTTTTTTTTTTAAATCTAA-ATTAT
* * * * *
84818 CTTTCTCTTTTTAAAGAAAATCATTATTTAACTTCAAAATCCAAACTTTTATTTCGAATTAGATA
65 TTTTCT-TTTTTAATGAAAATCAATATTT-ACTTAAAAATCCAAACTTTTATTTCGAAATA-AT-
*
84883 AAAAAAAATCAAAATTTTGTTT
126 TAAAAAAATCAAAATTTTGTTT
* ** * * * *
84905 AAAAATTTAAACTTT---TTTTAAATAACTAAAAACA--GATTTTTATTTTTAAA--AAAATAAA
1 AAAAATTTAAACTTTGACTTTAAAATAACTAAAAA-ATTTTTTTTTTTTTTTAAATCTAAATTAT
* * *
84963 CTGTCTTTTTTTAA-GAAAATCACTATTTTACTTAAAAATCCAAACTTTTATTTCGAAAT
65 TTTTC-TTTTTTAATGAAAATCAATA-TTTACTTAAAAATCCAAACTTTTATTTCGAAAT
85022 CGTTTTAAAA
Statistics
Matches: 353, Mismatches: 49, Indels: 30
0.82 0.11 0.07
Matches are distributed among these distances:
144 38 0.11
145 55 0.16
146 34 0.10
147 53 0.15
148 28 0.08
149 145 0.41
ACGTcount: A:0.43, C:0.09, G:0.03, T:0.45
Consensus pattern (147 bp):
AAAAATTTAAACTTTGACTTTAAAATAACTAAAAAATTTTTTTTTTTTTTTAAATCTAAATTATT
TTTCTTTTTTAATGAAAATCAATATTTACTTAAAAATCCAAACTTTTATTTCGAAATAATTAAAA
AAATCAAAATTTTGTTT
Found at i:85464 original size:3 final size:3
Alignment explanation
Indices: 85456--85489 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
85446 CATGTAACTT
85456 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
85490 GATGATGATG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:85977 original size:42 final size:42
Alignment explanation
Indices: 85918--86351 Score: 512
Period size: 42 Copynumber: 10.3 Consensus size: 42
85908 TGGACCCCTG
*
85918 AATGCAATGAAAAGTAAATGGACCTCCATACCTGGGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* * * *
85960 AATGCAATGAAAAGTAAAT-GAGCTTCCACACTTGGGCCTTTG
1 AATGCAATGAAAAGTAAATGGA-CCTCCACACCTGGGCCTCTA
* * *
86002 AATGCAATGAAAAGTAAATAGACCTCTACACATGGGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* * * * * *
86044 AATGTAATGATAAGTAAATGAACCTACAAACCTTGGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* * * * *
86086 AATGCAATGAAAAGTAAATGGGCCTCTACACCTTGGTCTTTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
*
86128 AATGCAATGAAAAGTAAATGGACCTCCACACTTGGGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* ** *
86170 AATGCAATAAAAAAAAGTAAATAAACCTCCACACGTGGGCCTCTA
1 AATGCAAT---GAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* *
86215 AATACAATGAAAAGTAAATGGACCTCCACACTTGGGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* * * * *
86257 AATGCAATGAAAAGTAAAT-GAGTCTCTACACCTAGGCCTTTG
1 AATGCAATGAAAAGTAAATGGA-CCTCCACACCTGGGCCTCTA
*
86299 AATGCGATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
*
86341 AATTCAATGAA
1 AATGCAATGAA
86352 TGCTTTCCTT
Statistics
Matches: 327, Mismatches: 58, Indels: 14
0.82 0.15 0.04
Matches are distributed among these distances:
41 4 0.01
42 282 0.86
43 4 0.01
45 37 0.11
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.23
Consensus pattern (42 bp):
AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
Found at i:86274 original size:171 final size:168
Alignment explanation
Indices: 85918--86348 Score: 569
Period size: 171 Copynumber: 2.5 Consensus size: 168
85908 TGGACCCCTG
* * * * *
85918 AATGCAATGAAAAGTAAATGGACCTCCATACCTGGGCCTCTAAATGCAATGAAAAGTAAAT-GAG
1 AATGCAATGAAAAGTAAATGGGCCTCTACACCTAGGCCTTTAAATGCAATGAAAAGTAAATGGA-
* * * * * *
85982 CTTCCACACTTGGGCCTTTGAATGCAATGAAAAGTAAATAGACCTCTACACATGGGCCTCTAAAT
65 CCTCCACACTTGGGCCTCTAAATGCAATAAAAAGTAAATAAACCTCCACACATGGGCCTCTAAAT
** *
86047 GTAATGATAAGTAAATGAACCTACAAACCTTGGCCTCTA
130 ACAATGAAAAGTAAATGAACCTACAAACCTTGGCCTCTA
* *
86086 AATGCAATGAAAAGTAAATGGGCCTCTACACCTTGGTCTTTAAATGCAATGAAAAGTAAATGGAC
1 AATGCAATGAAAAGTAAATGGGCCTCTACACCTAGGCCTTTAAATGCAATGAAAAGTAAATGGAC
*
86151 CTCCACACTTGGGCCTCTAAATGCAATAAAAAAAAGTAAATAAACCTCCACACGTGGGCCTCTAA
66 CTCCACACTTGGGCCTCTAAATGCAAT---AAAAAGTAAATAAACCTCCACACATGGGCCTCTAA
* * *
86216 ATACAATGAAAAGTAAATGGACCTCCACA-CTTGGGCCTCTA
128 ATACAATGAAAAGTAAATGAACCTACAAACCTT-GGCCTCTA
* * * *
86257 AATGCAATGAAAAGTAAATGAGTCTCTACACCTAGGCCTTTGAATGCGATGAAAAGTAAATGGAC
1 AATGCAATGAAAAGTAAATGGGCCTCTACACCTAGGCCTTTAAATGCAATGAAAAGTAAATGGAC
* *
86322 CTCCACACCTGGGCCTCTAAATTCAAT
66 CTCCACACTTGGGCCTCTAAATGCAAT
86349 GAATGCTTTC
Statistics
Matches: 231, Mismatches: 27, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
168 80 0.35
169 2 0.01
170 3 0.01
171 146 0.63
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.23
Consensus pattern (168 bp):
AATGCAATGAAAAGTAAATGGGCCTCTACACCTAGGCCTTTAAATGCAATGAAAAGTAAATGGAC
CTCCACACTTGGGCCTCTAAATGCAATAAAAAGTAAATAAACCTCCACACATGGGCCTCTAAATA
CAATGAAAAGTAAATGAACCTACAAACCTTGGCCTCTA
Found at i:86762 original size:23 final size:23
Alignment explanation
Indices: 86736--86801 Score: 71
Period size: 23 Copynumber: 2.8 Consensus size: 23
86726 TCTTGCTCTC
*
86736 TCTTTCTAATTTTTTTCTTTTTT
1 TCTTTTTAATTTTTTTCTTTTTT
**
86759 TCTTTTTCTTTTTTCTTCTTTTTT
1 TCTTTTTAATTTTT-TTCTTTTTT
*
86783 T-TTTTTGTATTTTTTTCTT
1 TCTTTTT-AATTTTTTTCTT
86802 AATTTAAACA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
23 21 0.58
24 15 0.42
ACGTcount: A:0.05, C:0.12, G:0.02, T:0.82
Consensus pattern (23 bp):
TCTTTTTAATTTTTTTCTTTTTT
Found at i:86766 original size:14 final size:14
Alignment explanation
Indices: 86747--86801 Score: 62
Period size: 13 Copynumber: 4.1 Consensus size: 14
86737 CTTTCTAATT
86747 TTTTTCTTTTTTTC
1 TTTTTCTTTTTTTC
86761 TTTTTC-TTTTTTC
1 TTTTTCTTTTTTTC
*
86774 TTCTT-TTTTTTT-
1 TTTTTCTTTTTTTC
* *
86786 TTTGTATTTTTTTC
1 TTTTTCTTTTTTTC
86800 TT
1 TT
86802 AATTTAAACA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
12 3 0.09
13 24 0.69
14 8 0.23
ACGTcount: A:0.02, C:0.11, G:0.02, T:0.85
Consensus pattern (14 bp):
TTTTTCTTTTTTTC
Found at i:86772 original size:16 final size:15
Alignment explanation
Indices: 86745--86798 Score: 63
Period size: 16 Copynumber: 3.5 Consensus size: 15
86735 CTCTTTCTAA
86745 TTTTTTTCTTTTTTTC
1 TTTTTTT-TTTTTTTC
*
86761 TTTTTCTTTTTTCTTC
1 TTTTT-TTTTTTTTTC
* *
86777 TTTTTTTTTTTTGTA
1 TTTTTTTTTTTTTTC
86792 TTTTTTT
1 TTTTTTT
86799 CTTAATTTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
15 14 0.42
16 17 0.52
17 2 0.06
ACGTcount: A:0.02, C:0.09, G:0.02, T:0.87
Consensus pattern (15 bp):
TTTTTTTTTTTTTTC
Found at i:93822 original size:18 final size:19
Alignment explanation
Indices: 93791--93827 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
93781 AATTAAATCA
93791 TAAAACATTACGAACAAAT
1 TAAAACATTACGAACAAAT
*
93810 TAAAACA-TACGAATAAAT
1 TAAAACATTACGAACAAAT
93828 GCTCATGAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.59, C:0.14, G:0.05, T:0.22
Consensus pattern (19 bp):
TAAAACATTACGAACAAAT
Found at i:96854 original size:51 final size:51
Alignment explanation
Indices: 96484--96864 Score: 141
Period size: 51 Copynumber: 7.5 Consensus size: 51
96474 TTCAAAATAA
* * *
96484 AAACTTTTAT-TTCAAAATAGTT-AAAAAATCAGAACTTTGTTTAAAAATTT
1 AAACTTTT-TCTTTAAAATAGTTAAAAAAATCAAAACTTTATTTAAAAATTT
* **** * *
96534 AAACTTTTTCTTTAAAATCA-CTAAAAACAGATTTTTA-TTT-TTTTAAAATCT
1 AAACTTTTTCTTTAAAAT-AGTTAAAAA-A-ATCAAAACTTTATTTAAAAATTT
** ** * ** * *
96585 AAAC--TTTCTTT--CCTTTTTAATGAAAATCACTACTTTACTT-AAAATCT
1 AAACTTTTTCTTTAAAATAGTTAA-AAAAATCAAAACTTTATTTAAAAATTT
* * *
96632 AAACATTTAT-TTTGAAATAGTTAAAAAAAATCAAAACTTTGTTTAAAAATTT
1 AAAC-TTTTTCTTTAAAATAGTT-AAAAAAATCAAAACTTTATTTAAAAATTT
* * * **
96684 AAAATTTTTCTTTAAAATCA-CT-AAAAAA-CATATTTTTATTTTTCTAAAAATTT
1 AAACTTTTTCTTTAAAAT-AGTTAAAAAAATCAAAACTTTA---TT-TAAAAATTT
*** ** * ** * **
96737 AAA--TTTTCTTT-CTTTTTTTAATGAAAATCACTACTTTACTTAAAAATCC
1 AAACTTTTTCTTTAAAATAGTTAA-AAAAATCAAAACTTTATTTAAAAATTT
*
96786 AAACTTTTAT-TTCAAAATAGTTAAAAAAATCAAAACTTTATTTAAAAATTT
1 AAACTTTT-TCTTTAAAATAGTTAAAAAAATCAAAACTTTATTTAAAAATTT
**
96837 AAACTTTTTCTTTAAAATAACTAAAAAA
1 AAACTTTTTCTTTAAAATAGTTAAAAAA
96865 TAGATTTTTA
Statistics
Matches: 236, Mismatches: 64, Indels: 61
0.65 0.18 0.17
Matches are distributed among these distances:
46 4 0.02
47 19 0.08
48 4 0.02
49 27 0.11
50 28 0.12
51 97 0.41
52 35 0.15
53 22 0.09
ACGTcount: A:0.44, C:0.11, G:0.03, T:0.43
Consensus pattern (51 bp):
AAACTTTTTCTTTAAAATAGTTAAAAAAATCAAAACTTTATTTAAAAATTT
Found at i:97015 original size:148 final size:148
Alignment explanation
Indices: 96458--97122 Score: 840
Period size: 153 Copynumber: 4.4 Consensus size: 148
96448 TGATTAAAAT
* ** * *
96458 AAAATCACTACTTTACTTCAAAATAAAAACTTTTATTTCAAAATAGTT-AAAAAATCAGAACTTT
1 AAAATCACTACTTTACTTAAAAATCCAAACTTTTATTTCGAAATAGTTAAAAAAATCAAAACTTT
* ** *
96522 GTTTAAAAATTTAAACTTTTTCTTTAAAATCACT-AAAAACAGATTTTTATTTTTTTAAAATCTA
66 GTTTAAAAATTTAAACTTTTTCTTTAAAATAACTAAAAAACAGATTTTTATTTTTAAAAAATATA
* *
96586 AACTTTCTTTCCTTTTTAATG
131 AAC-TTC--TCTTTTTTAAAG
* * *
96607 AAAATCACTACTTTACTT-AAAATCTAAACATTTATTTTGAAATAGTTAAAAAAAATCAAAACTT
1 AAAATCACTACTTTACTTAAAAATCCAAACTTTTATTTCGAAATAGTT-AAAAAAATCAAAACTT
* * * * *
96671 TGTTTAAAAATTTAAAATTTTTCTTTAAAATCACTAAAAAACATATTTTTATTTTTCTAAAAATT
65 TGTTTAAAAATTTAAACTTTTTCTTTAAAATAACTAAAAAACAGATTTTTATTTTT-AAAAAATA
* *
96736 TAAATTTTCTTTCTTTTTTTAATG
129 TAAA-CTTC--TC-TTTTTTAAAG
*
96760 AAAATCACTACTTTACTTAAAAATCCAAACTTTTATTTCAAAATAGTTAAAAAAATCAAAACTTT
1 AAAATCACTACTTTACTTAAAAATCCAAACTTTTATTTCGAAATAGTTAAAAAAATCAAAACTTT
* *
96825 ATTTAAAAATTTAAACTTTTTCTTTAAAATAACTAAAAAATAGATTTTTATTTTTAAAAAATATA
66 GTTTAAAAATTTAAACTTTTTCTTTAAAATAACTAAAAAACAGATTTTTATTTTTAAAAAATATA
96890 AAC-TCTCTTTTTTAAAG
131 AACTTCTCTTTTTTAAAG
* * *
96907 AAAATCACTATTTTACTTCAAAATCCAAACTTTTATTTCGAAATAGTTAAAAAAAATGAAAACTT
1 AAAATCACTACTTTACTTAAAAATCCAAACTTTTATTTCGAAATAGTT-AAAAAAATCAAAACTT
* *
96972 TGTTTAAAAATTTAAACTTTTT-TTTTAAATAAACTAAAAAATAGATTTTTA-TTTTAAAAAATA
65 TGTTTAAAAATTTAAACTTTTTCTTTAAAAT-AACTAAAAAACAGATTTTTATTTTTAAAAAATA
* *
97035 TAAACTTTGTCTTTTTATTAAG
129 TAAAC-TTCTCTTTTT-TAAAG
* * *
97057 AAAATCACTATTTTACTTAAAAAT-CAAACTTTTATTTCGAAATTGTTTTAAAAAAACCAAAACT
1 AAAATCACTACTTTACTTAAAAATCCAAACTTTTATTTCGAAATAG--TTAAAAAAATCAAAACT
97121 TT
64 TT
97123 TCCCAAAATC
Statistics
Matches: 465, Mismatches: 37, Indels: 27
0.88 0.07 0.05
Matches are distributed among these distances:
147 78 0.17
148 82 0.18
149 46 0.10
150 92 0.20
151 21 0.05
152 27 0.06
153 94 0.20
154 25 0.05
ACGTcount: A:0.44, C:0.11, G:0.03, T:0.42
Consensus pattern (148 bp):
AAAATCACTACTTTACTTAAAAATCCAAACTTTTATTTCGAAATAGTTAAAAAAATCAAAACTTT
GTTTAAAAATTTAAACTTTTTCTTTAAAATAACTAAAAAACAGATTTTTATTTTTAAAAAATATA
AACTTCTCTTTTTTAAAG
Found at i:97569 original size:3 final size:3
Alignment explanation
Indices: 97561--97593 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
97551 AAACCCTAAA
97561 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
97594 TGTAAGAGCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:102723 original size:40 final size:39
Alignment explanation
Indices: 102677--102806 Score: 106
Period size: 40 Copynumber: 3.3 Consensus size: 39
102667 CGACCTTGAG
102677 TCGATGAGACACTGGGTGTCATTATTTACTTCGGATAGAT
1 TCGATGAGACACTGGGTGTCATT-TTTACTTCGGATAGAT
** * ** * * *
102717 TCGATGAGGTACTAGGTACCA-CTTTACTTCGGCTAG-G
1 TCGATGAGACACTGGGTGTCATTTTTACTTCGGATAGAT
* *
102754 CCGATGAGACACTGGGTGTCACTTTATTACTTC-GA-ACTAT
1 TCGATGAGACACTGGGTGTCA-TTT-TTACTTCGGATA-GAT
102794 TCGATGAGACACT
1 TCGATGAGACACT
102807 AAGTGCCATT
Statistics
Matches: 66, Mismatches: 19, Indels: 10
0.69 0.20 0.11
Matches are distributed among these distances:
37 15 0.23
38 14 0.21
39 2 0.03
40 35 0.53
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.32
Consensus pattern (39 bp):
TCGATGAGACACTGGGTGTCATTTTTACTTCGGATAGAT
Found at i:102777 original size:37 final size:38
Alignment explanation
Indices: 102678--102779 Score: 98
Period size: 37 Copynumber: 2.7 Consensus size: 38
102668 GACCTTGAGT
* **
102678 CGATGAGACACTGGGTGTCATTATTTACTTCGGATAGATT
1 CGATGAGACACTGGGTGTCA--CTTTACTTCGGATAGAGC
** * ** *
102718 CGATGAGGTACTAGGTACCACTTTACTTCGGCTAG-GC
1 CGATGAGACACTGGGTGTCACTTTACTTCGGATAGAGC
102755 CGATGAGACACTGGGTGTCACTTTA
1 CGATGAGACACTGGGTGTCACTTTA
102780 TTACTTCGAA
Statistics
Matches: 48, Mismatches: 14, Indels: 3
0.74 0.22 0.05
Matches are distributed among these distances:
37 20 0.42
38 13 0.27
40 15 0.31
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (38 bp):
CGATGAGACACTGGGTGTCACTTTACTTCGGATAGAGC
Found at i:104638 original size:3 final size:3
Alignment explanation
Indices: 104630--104662 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
104620 AGGAGTGTAA
104630 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
104663 TAAGAAGTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:108879 original size:16 final size:16
Alignment explanation
Indices: 108858--108889 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
108848 GGTAATTTTT
*
108858 ATGTTAAAGGACTAAA
1 ATGTTAAAGGAATAAA
108874 ATGTTAAAGGAATAAA
1 ATGTTAAAGGAATAAA
108890 TTTGTAAGGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.03, G:0.19, T:0.25
Consensus pattern (16 bp):
ATGTTAAAGGAATAAA
Found at i:109017 original size:18 final size:18
Alignment explanation
Indices: 108994--109040 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
108984 ATTTGCAAGT
108994 TTGAACTAAAAGACTAAA
1 TTGAACTAAAAGACTAAA
109012 TTGAACTAAAAGACTAAA
1 TTGAACTAAAAGACTAAA
109030 TTGAA-TAAAAG
1 TTGAACTAAAAG
109041 TCAAAAGTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
17 6 0.21
18 23 0.79
ACGTcount: A:0.55, C:0.09, G:0.13, T:0.23
Consensus pattern (18 bp):
TTGAACTAAAAGACTAAA
Found at i:117593 original size:3 final size:3
Alignment explanation
Indices: 117581--117625 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
117571 TAGAAACATA
117581 AAT AAT -AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
117626 TGACTATAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 39 0.95
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Done.