Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01009481.1 Kokia drynarioides strain JFW-HI SEQ_124190, 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: 47827
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Warning! 1 characters in sequence are not A, C, G, or T
Found at i:5260 original size:18 final size:18
Alignment explanation
Indices: 5221--5255 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
5211 TTTCTCAACA
5221 AAAATTACAAAATAATTT
1 AAAATTACAAAATAATTT
5239 AAAATT-CAAAAT-ATTT
1 AAAATTACAAAATAATTT
5255 A
1 A
5256 TAAAAATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.29
17 6 0.35
18 6 0.35
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (18 bp):
AAAATTACAAAATAATTT
Found at i:8824 original size:31 final size:31
Alignment explanation
Indices: 8786--8848 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
8776 ATTATGCTCT
*
8786 TGAAAC-TTGAATTGTAATTCATATGTATACA
1 TGAAACTTTG-ATTGTAATTCAAATGTATACA
* *
8817 TGAAACTTTGATTTTGATTCAAATGTATACA
1 TGAAACTTTGATTGTAATTCAAATGTATACA
8848 T
1 T
8849 TTAAAGAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 25 0.89
32 3 0.11
ACGTcount: A:0.37, C:0.10, G:0.13, T:0.41
Consensus pattern (31 bp):
TGAAACTTTGATTGTAATTCAAATGTATACA
Found at i:9345 original size:20 final size:20
Alignment explanation
Indices: 9316--9353 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
9306 CATGAGCTTG
9316 CAAAAAATTATCGATACCAC
1 CAAAAAATTATCGATACCAC
*
9336 CAAAATATTATCGATACC
1 CAAAAAATTATCGATACC
9354 TTATATGAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.24, G:0.05, T:0.24
Consensus pattern (20 bp):
CAAAAAATTATCGATACCAC
Found at i:10949 original size:21 final size:21
Alignment explanation
Indices: 10911--10950 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
10901 TAGCTATGGA
*
10911 ATTAAATACACATTATATTTT
1 ATTAAATACACATCATATTTT
10932 ATTAAA-ACACATCCATATT
1 ATTAAATACACAT-CATATT
10951 ATTCTAACTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.45, C:0.15, G:0.00, T:0.40
Consensus pattern (21 bp):
ATTAAATACACATCATATTTT
Found at i:18262 original size:12 final size:11
Alignment explanation
Indices: 18243--18272 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
18233 AAATACACTT
18243 AAAAACATTAA
1 AAAAACATTAA
18254 AACAAACATTAA
1 AA-AAACATTAA
18266 AAAAACA
1 AAAAACA
18273 AAATACATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.73, C:0.13, G:0.00, T:0.13
Consensus pattern (11 bp):
AAAAACATTAA
Found at i:18427 original size:21 final size:22
Alignment explanation
Indices: 18403--18583 Score: 95
Period size: 23 Copynumber: 7.9 Consensus size: 22
18393 AAAACGCATA
* *
18403 AAAAAATAGCATCC-AAACAGC
1 AAAAAATAACAACCAAAACAGC
18424 -AAAAATAACAACCAAAACAGC
1 AAAAAATAACAACCAAAACAGC
* *
18445 AATAAAAATAA-AAACAAAACAAC
1 -A-AAAAATAACAACCAAAACAGC
*
18468 AACAAAAATAACAACAAAAACAGC
1 -A-AAAAATAACAACCAAAACAGC
18492 AACAGTAAA-AA-AAGCACTAAAACAGC
1 AA-A--AAATAACAA-C-C-AAAACAGC
* * * *
18518 ATCAAAACAACAACTAAAACAGTA
1 A-AAAAATAACAACCAAAACAG-C
* *
18542 AAAAAATAATAACCAAAACAGT
1 AAAAAATAACAACCAAAACAGC
*
18564 AAAAATACAAC-ACCAAAACA
1 AAAAA-ATAACAACCAAAACA
18584 ACAATATAAT
Statistics
Matches: 125, Mismatches: 19, Indels: 31
0.71 0.11 0.18
Matches are distributed among these distances:
20 11 0.09
21 7 0.06
22 15 0.12
23 50 0.40
24 24 0.19
25 6 0.05
26 12 0.10
ACGTcount: A:0.67, C:0.20, G:0.05, T:0.08
Consensus pattern (22 bp):
AAAAAATAACAACCAAAACAGC
Found at i:18429 original size:20 final size:21
Alignment explanation
Indices: 18404--18493 Score: 74
Period size: 21 Copynumber: 4.1 Consensus size: 21
18394 AAACGCATAA
* *
18404 AAAAATAGCATCC-AAACAGC
1 AAAAATAACAACCAAAACAGC
18424 AAAAATAACAACCAAAACAGC
1 AAAAATAACAACCAAAACAGC
* * *
18445 AATAAAAATAAAAACAAAACAACAAC
1 ---AAAAATAACAAC-CAA-AACAGC
*
18471 AAAAATAACAACAAAAACAGC
1 AAAAATAACAACCAAAACAGC
18492 AA
1 AA
18494 CAGTAAAAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 11
0.76 0.09 0.15
Matches are distributed among these distances:
20 11 0.19
21 14 0.25
22 3 0.05
23 11 0.19
24 11 0.19
25 2 0.04
26 5 0.09
ACGTcount: A:0.69, C:0.20, G:0.04, T:0.07
Consensus pattern (21 bp):
AAAAATAACAACCAAAACAGC
Found at i:18487 original size:12 final size:12
Alignment explanation
Indices: 18418--18487 Score: 70
Period size: 12 Copynumber: 5.9 Consensus size: 12
18408 ATAGCATCCA
*
18418 AACAGCAAAAAT
1 AACAACAAAAAT
* *
18430 AACAACCAAAAC
1 AACAACAAAAAT
* *
18442 AGCAATAAAAAT
1 AACAACAAAAAT
* *
18454 AAAAAC-AAAAC
1 AACAACAAAAAT
18465 AACAACAAAAAT
1 AACAACAAAAAT
18477 AACAACAAAAA
1 AACAACAAAAA
18488 CAGCAACAGT
Statistics
Matches: 44, Mismatches: 13, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
11 9 0.20
12 35 0.80
ACGTcount: A:0.73, C:0.19, G:0.03, T:0.06
Consensus pattern (12 bp):
AACAACAAAAAT
Found at i:18494 original size:12 final size:12
Alignment explanation
Indices: 18432--18539 Score: 51
Period size: 12 Copynumber: 9.0 Consensus size: 12
18422 GCAAAAATAA
*
18432 CAACCAAAACAG
1 CAACAAAAACAG
* * *
18444 CAATAAAAATAA
1 CAACAAAAACAG
* *
18456 AAAC-AAAACAA
1 CAACAAAAACAG
* *
18467 CAACAAAAATAA
1 CAACAAAAACAG
18479 CAACAAAAACAG
1 CAACAAAAACAG
*
18491 CAACAGTAAAAAAAG
1 CAAC---AAAAACAG
*
18506 C-ACTAAAACAG
1 CAACAAAAACAG
* *
18517 CATC-AAAACAA
1 CAACAAAAACAG
*
18528 CAACTAAAACAG
1 CAACAAAAACAG
18540 TAAAAAAATA
Statistics
Matches: 72, Mismatches: 18, Indels: 12
0.71 0.18 0.12
Matches are distributed among these distances:
11 25 0.35
12 37 0.51
14 2 0.03
15 8 0.11
ACGTcount: A:0.67, C:0.21, G:0.06, T:0.06
Consensus pattern (12 bp):
CAACAAAAACAG
Found at i:18563 original size:23 final size:24
Alignment explanation
Indices: 18423--18583 Score: 127
Period size: 23 Copynumber: 6.8 Consensus size: 24
18413 ATCCAAACAG
18423 CAAAAATAACAACCAAAACAGCAA
1 CAAAAATAACAACCAAAACAGCAA
* * *
18447 TAAAAATAA-AAACAAAACAACAA
1 CAAAAATAACAACCAAAACAGCAA
*
18470 CAAAAATAACAACAAAAACAGCAA
1 CAAAAATAACAACCAAAACAGCAA
* * *
18494 CAGTAAAAAAAGC-ACTAAAACAGCAT
1 CA--AAAATAA-CAACCAAAACAGCAA
* * *
18520 C-AAAACAACAACTAAAACAGTAA
1 CAAAAATAACAACCAAAACAGCAA
* *
18543 -AAAAATAATAACCAAAACAGTAA
1 CAAAAATAACAACCAAAACAGCAA
* *
18566 -AAATACAAC-ACCAAAACA
1 CAAAAATAACAACCAAAACA
18584 ACAATATAAT
Statistics
Matches: 112, Mismatches: 19, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
22 10 0.09
23 62 0.55
24 21 0.19
26 18 0.16
27 1 0.01
ACGTcount: A:0.68, C:0.20, G:0.04, T:0.08
Consensus pattern (24 bp):
CAAAAATAACAACCAAAACAGCAA
Found at i:19350 original size:21 final size:21
Alignment explanation
Indices: 19317--19356 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
19307 TTGATTTTTT
* *
19317 TTCAGGATGAAAATACTAAAA
1 TTCAAGATAAAAATACTAAAA
*
19338 TTCAAGATAAAAATGCTAA
1 TTCAAGATAAAAATACTAA
19357 TGTGACATTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.53, C:0.10, G:0.12, T:0.25
Consensus pattern (21 bp):
TTCAAGATAAAAATACTAAAA
Found at i:20306 original size:2 final size:2
Alignment explanation
Indices: 20299--20325 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
20289 TTAAATTTGC
20299 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
20326 ATTAATATTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:23187 original size:24 final size:24
Alignment explanation
Indices: 23160--23218 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 24
23150 TTCAAAACGT
23160 AATAAATAAAT-ATATTAAATATAA
1 AATAAATAAATAATATTAAATA-AA
*
23184 AATAAATAAGTATAATATTATATAAA
1 AATAAATAA--ATAATATTAAATAAA
23210 AAT-AATAAA
1 AATAAATAAA
23219 AAGGGAGTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
23 1 0.03
24 9 0.29
25 5 0.16
26 7 0.23
27 9 0.29
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (24 bp):
AATAAATAAATAATATTAAATAAA
Found at i:23200 original size:20 final size:20
Alignment explanation
Indices: 23163--23201 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
23153 AAAACGTAAT
*
23163 AAATAAATATATTAAATATA
1 AAATAAATATAGTAAATATA
23183 AAATAAATA-AGTATAATAT
1 AAATAAATATAGTA-AATAT
23202 TATATAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (20 bp):
AAATAAATATAGTAAATATA
Found at i:23532 original size:10 final size:10
Alignment explanation
Indices: 23517--23542 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
23507 ATTAATATAA
23517 AAAGAAAAAT
1 AAAGAAAAAT
23527 AAAGAAAAAT
1 AAAGAAAAAT
23537 AAAGAA
1 AAAGAA
23543 TTGAAACAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.81, C:0.00, G:0.12, T:0.08
Consensus pattern (10 bp):
AAAGAAAAAT
Found at i:24278 original size:29 final size:29
Alignment explanation
Indices: 24190--24410 Score: 119
Period size: 30 Copynumber: 7.5 Consensus size: 29
24180 CCAGTATTTT
*
24190 AAAAATTACATTTT-AACTCTCAAACATCTTC
1 AAAAATTACATTTTGATC-CTCAAAC-T-TTC
* * *
24221 -AAAATTGCAGTTT-AACCTCCAAACTTTTC
1 AAAAATTACATTTTGATCCT-CAAAC-TTTC
*
24250 AAAAATTACATTTT-ATTCCTCGAACTTTC
1 AAAAATTACATTTTGA-TCCTCAAACTTTC
*
24279 TTAAAATTACATTTTGATCCTCAAACTTTC
1 -AAAAATTACATTTTGATCCTCAAACTTTC
* * * * *
24309 CAAAATTGCATTTTTATCCCCAAACTTCC
1 AAAAATTACATTTTGATCCTCAAACTTTC
** * * * *
24338 TGAAATCACATTTTGACCCCCAAACTTACC
1 AAAAATTACATTTTGATCCTCAAACTT-TC
* * * * *
24368 CAAAATCACATTTT-TTCTCTAAAATTTTC
1 AAAAATTACATTTTGATC-CTCAAACTTTC
*
24397 TAAAATTACATTTT
1 AAAAATTACATTTT
24411 AACCCCAAAT
Statistics
Matches: 153, Mismatches: 30, Indels: 16
0.77 0.15 0.08
Matches are distributed among these distances:
29 68 0.44
30 81 0.53
31 4 0.03
ACGTcount: A:0.35, C:0.24, G:0.03, T:0.38
Consensus pattern (29 bp):
AAAAATTACATTTTGATCCTCAAACTTTC
Found at i:24285 original size:60 final size:60
Alignment explanation
Indices: 24186--24322 Score: 140
Period size: 60 Copynumber: 2.3 Consensus size: 60
24176 AAAGCCAGTA
*
24186 TTTT-AAAAATTACATTTTAACTCTCAAACATCTTCAAAATTGCAGTTT-AACCTCCAAAC
1 TTTTCAAAAATTACATTTTAACTCTCAAACATCTTCAAAATTACAGTTTGAACCT-CAAAC
* * * * *
24245 TTTTCAAAAATTACATTTT-ATTCCTCGAACTTTCTT-AAAATTACATTTTGATCCTCAAAC
1 TTTTCAAAAATTACATTTTAACT-CTCAAAC-ATCTTCAAAATTACAGTTTGAACCTCAAAC
* *
24305 -TTTCCAAAATTGCATTTT
1 TTTTCAAAAATTACATTTT
24323 TATCCCCAAA
Statistics
Matches: 66, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
59 22 0.33
60 36 0.55
61 8 0.12
ACGTcount: A:0.35, C:0.20, G:0.04, T:0.41
Consensus pattern (60 bp):
TTTTCAAAAATTACATTTTAACTCTCAAACATCTTCAAAATTACAGTTTGAACCTCAAAC
Found at i:24408 original size:59 final size:58
Alignment explanation
Indices: 24272--24416 Score: 148
Period size: 59 Copynumber: 2.5 Consensus size: 58
24262 TTATTCCTCG
* * * ** *
24272 AACTTTCTTAAAATTACATTTTGATCCTCAAACTTTCCAAAATTGCATTTTTATCCCCA
1 AACTTTC-TAAAATTACATTTTGACCCCCAAACTTCCCAAAATCACATTTTTATCCCAA
* * * *
24331 AACTTCCTGAAATCACATTTTGACCCCCAAACTTACCCAAAATCACATTTTT-TCTCTAA
1 AACTTTCTAAAATTACATTTTGACCCCCAAACTT-CCCAAAATCACATTTTTATC-CCAA
* *
24390 AATTTTCTAAAATTACATTTTAACCCC
1 AACTTTCTAAAATTACATTTTGACCCC
24417 AAATGCTTTG
Statistics
Matches: 69, Mismatches: 15, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
58 25 0.36
59 44 0.64
ACGTcount: A:0.34, C:0.26, G:0.03, T:0.37
Consensus pattern (58 bp):
AACTTTCTAAAATTACATTTTGACCCCCAAACTTCCCAAAATCACATTTTTATCCCAA
Found at i:31733 original size:15 final size:17
Alignment explanation
Indices: 31715--31751 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
31705 AAAAAAAAAC
*
31715 AAAAACAA-AAATAAT-
1 AAAAACAATAAAAAATG
31730 AAAAACAATAAAAAATG
1 AAAAACAATAAAAAATG
31747 AAAAA
1 AAAAA
31752 ATGAAAAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 8 0.42
16 6 0.32
17 5 0.26
ACGTcount: A:0.81, C:0.05, G:0.03, T:0.11
Consensus pattern (17 bp):
AAAAACAATAAAAAATG
Found at i:32725 original size:99 final size:99
Alignment explanation
Indices: 32578--33216 Score: 672
Period size: 99 Copynumber: 6.5 Consensus size: 99
32568 TACCCTAAAA
* * ** ** *
32578 ATATGAAGGGAAAGTTTGAGGCTGTAACAACGAACCCGGTACCTTAGAAGATGCAATGGGAAATG
1 ATATGAAGGGAAAGGTTGAGGCCGTAACGGCGAACCCGGTACCTTAGAAGATGTGATGGGAAAGG
* * * * *
32643 TTGAGGTCGTAACGGCGAACTCGGTACCATTAAG
66 TTGAGGCCGCAACGACGAACCCGGTACCATGAAG
* *
32677 ATATGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCTTAGAAGATATGA--GGAAAGG
1 ATATGAAGGGAAAGGTTGAGGCCGTAACGGCGAACCCGGTACCTTAGAAGATGTGATGGGAAAGG
* * * ***
32740 TTGAGGCTGCAACGGCGAGCCTAATACCATGAAG
66 TTGAGGCCGCAACGACGAACCCGGTACCATGAAG
* * * * * * *
32774 ATATTAAGTGAAAGGTTGAGGCCGCAACGGTGAACCCGATACCTTAAAAGATGTGATAGGAAAGG
1 ATATGAAGGGAAAGGTTGAGGCCGTAACGGCGAACCCGGTACCTTAGAAGATGTGATGGGAAAGG
*
32839 TTAAGGCCGCAACGACGAACCCGGTACCATGAAG
66 TTGAGGCCGCAACGACGAACCCGGTACCATGAAG
* * * * * *
32873 ATATGAAGGGAAAGGTTGAGGTCGTAACAGTGAACCTGATGCCTTAGAAGATGTGATGGGAAAGG
1 ATATGAAGGGAAAGGTTGAGGCCGTAACGGCGAACCCGGTACCTTAGAAGATGTGATGGGAAAGG
* * * *
32938 TTAAGGCCGCAAAGGCGAACCCGGTACCTTAGAAG
66 TTGAGGCCGCAACGACGAACCCGGTACCAT-GAAG
** * * * *
32973 ATATGAAGGGAAACTTTGAGGCCGTAACGGCAAATCCGGTACCTTAAAAGATGTGATCGGAAAGG
1 ATATGAAGGGAAAGGTTGAGGCCGTAACGGCGAACCCGGTACCTTAGAAGATGTGATGGGAAAGG
* *
33038 TTGAGGTCGCAACGACGAACCCGGTACCATAAAG
66 TTGAGGCCGCAACGACGAACCCGGTACCATGAAG
* * ** * * * * *
33072 ATATCAAAGGAAAGGTTGAGGCCGTAACAACGAACCTGATACTTTAGAATATGTGATAGG-AAGG
1 ATATGAAGGGAAAGGTTGAGGCCGTAACGGCGAACCCGGTACCTTAGAAGATGTGATGGGAAAGG
* * * *
33136 ATTGATGCCGCAACGATGAATCCGGCACCATGAAG
66 -TTGAGGCCGCAACGACGAACCCGGTACCATGAAG
* * * *
33171 ATATGAAGGGAAAGGTTAAGGCTGCAACGGCGAACCCAGTACCTTA
1 ATATGAAGGGAAAGGTTGAGGCCGTAACGGCGAACCCGGTACCTTA
33217 AGAAAACATG
Statistics
Matches: 444, Mismatches: 92, Indels: 8
0.82 0.17 0.01
Matches are distributed among these distances:
97 81 0.18
98 4 0.01
99 277 0.62
100 82 0.18
ACGTcount: A:0.34, C:0.18, G:0.30, T:0.18
Consensus pattern (99 bp):
ATATGAAGGGAAAGGTTGAGGCCGTAACGGCGAACCCGGTACCTTAGAAGATGTGATGGGAAAGG
TTGAGGCCGCAACGACGAACCCGGTACCATGAAG
Found at i:33039 original size:199 final size:197
Alignment explanation
Indices: 32578--33217 Score: 726
Period size: 199 Copynumber: 3.2 Consensus size: 197
32568 TACCCTAAAA
* ** * ** * *
32578 ATATGAAGGGAAAGTTTGAGGCTGTAACAACGAACCCGGTACCTTAGAAGATGCAATGGGAAATG
1 ATATGAAGGGAAAGTTTGAGGCCGTAACGGCGAACCCGGTACCTTAAAAGATGTGATAGGAAAGG
* * * * * *
32643 TTGAGGTCGTAACGGCGAACTCGGTACCATTAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGC
66 TTGAGGTCGCAACGACGAACCCGGTACCATAAAGATATGAAGGGAAAGGTTGAGGCCGTAACAGC
* * * * * ***
32708 GAACCCGGTACCTTAGAAGATATGA-GGAAAGGTTGAGGCTGCAACGGCGAGCCTAATACCATGA
131 GAACCTGATACCTTAGAAGATGTGATGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCATGA
32772 AG
196 AG
* * * * * *
32774 ATATTAAGTGAAAGGTTGAGGCCGCAACGGTGAACCCGATACCTTAAAAGATGTGATAGGAAAGG
1 ATATGAAGGGAAAGTTTGAGGCCGTAACGGCGAACCCGGTACCTTAAAAGATGTGATAGGAAAGG
* * * * *
32839 TTAAGGCCGCAACGACGAACCCGGTACCATGAAGATATGAAGGGAAAGGTTGAGGTCGTAACAGT
66 TTGAGGTCGCAACGACGAACCCGGTACCATAAAGATATGAAGGGAAAGGTTGAGGCCGTAACAGC
* * * *
32904 GAACCTGATGCCTTAGAAGATGTGATGGGAAAGGTTAAGGCCGCAAAGGCGAACCCGGTACCTTA
131 GAACCTGATACCTTAGAAGATGTGAT-GGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCAT-
32969 GAAG
194 GAAG
* * * *
32973 ATATGAAGGGAAACTTTGAGGCCGTAACGGCAAATCCGGTACCTTAAAAGATGTGATCGGAAAGG
1 ATATGAAGGGAAAGTTTGAGGCCGTAACGGCGAACCCGGTACCTTAAAAGATGTGATAGGAAAGG
* * *
33038 TTGAGGTCGCAACGACGAACCCGGTACCATAAAGATATCAAAGGAAAGGTTGAGGCCGTAACAAC
66 TTGAGGTCGCAACGACGAACCCGGTACCATAAAGATATGAAGGGAAAGGTTGAGGCCGTAACAGC
* * * ** * *
33103 GAACCTGATACTTTAGAATATGTGATAGG-AAGGATTGATGCCGCAACGATGAATCCGGCACCAT
131 GAACCTGATACCTTAGAAGATGTGAT-GGAAAGG-TTGAGGCCGCAACGGCGAACCCGGTACCAT
33167 GAAG
194 GAAG
* * * * *
33171 ATATGAAGGGAAAGGTTAAGGCTGCAACGGCGAACCCAGTACCTTAA
1 ATATGAAGGGAAAGTTTGAGGCCGTAACGGCGAACCCGGTACCTTAA
33218 GAAAACATGA
Statistics
Matches: 366, Mismatches: 74, Indels: 6
0.82 0.17 0.01
Matches are distributed among these distances:
196 127 0.35
198 76 0.21
199 163 0.45
ACGTcount: A:0.34, C:0.18, G:0.30, T:0.18
Consensus pattern (197 bp):
ATATGAAGGGAAAGTTTGAGGCCGTAACGGCGAACCCGGTACCTTAAAAGATGTGATAGGAAAGG
TTGAGGTCGCAACGACGAACCCGGTACCATAAAGATATGAAGGGAAAGGTTGAGGCCGTAACAGC
GAACCTGATACCTTAGAAGATGTGATGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCATGA
AG
Found at i:33105 original size:49 final size:49
Alignment explanation
Indices: 32532--33217 Score: 506
Period size: 50 Copynumber: 13.9 Consensus size: 49
32522 TCCACAGGTT
* * * * * * * * * *
32532 TGAAGGGGAAGATTAAGGCTGCAACGGTGAATCTGATACCCTAAAAATA
1 TGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCTTAAAGATA
* * * **
32581 TGAAGGGAAAGTTTGAGGCTGTAACAACGAACCCGGTACCTTAGAAG--A
1 TGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCTTA-AAGATA
* * * *
32629 TGCAATGGGAAATGTTGAGGTCGTAACGGCGAACTCGGTACCATT-AAGATA
1 TG-AA-GGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACC-TTAAAGATA
32680 TGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCTTAGAAGATA
1 TGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCTTA-AAGATA
* * *** * *
32730 TG-A-GGAAAGGTTGAGGCTGCAACGGCGAGCCTAATACCATGAAGATA
1 TGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCTTAAAGATA
* * * * *
32777 TTAAGTGAAAGGTTGAGGCCGCAACGGTGAACCCGATACCTTAAAAGATG
1 TGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCTT-AAAGATA
* * * *
32827 TGATA-GGAAAGGTTAAGGCCGCAACGACGAACCCGGTACCATGAAGATA
1 TGA-AGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCTTAAAGATA
* * * * * * * *
32876 TGAAGGGAAAGGTTGAGGTCGTAACAGTGAACCTGATGCCTTAGAAGATG
1 TGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCTTA-AAGATA
* * *
32926 TGATGGGAAAGGTTAAGGCCGCAAAGGCGAACCCGGTACCTTAGAAGATA
1 TGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCTTA-AAGATA
** * * * *
32976 TGAAGGGAAACTTTGAGGCCGTAACGGCAAATCCGGTACCTTAAAAGATG
1 TGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCTT-AAAGATA
** * * *
33026 TGATCGGAAAGGTTGAGGTCGCAACGACGAACCCGGTACCATAAAGATA
1 TGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCTTAAAGATA
* * * ** * * * * *
33075 TCAAAGGAAAGGTTGAGGCCGTAACAACGAACCTGATACTTTAGAATATG
1 TGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCTTA-AAGATA
* ** * * * *
33125 TGATA-GG-AAGGATTGATGCCGCAACGATGAATCCGGCACCATGAAGATA
1 TGA-AGGGAAAGG-TTGAGGCCGCAACGGCGAACCCGGTACCTTAAAGATA
* * *
33174 TGAAGGGAAAGGTTAAGGCTGCAACGGCGAACCCAGTACCTTAA
1 TGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCTTAA
33218 GAAAACATGA
Statistics
Matches: 489, Mismatches: 128, Indels: 40
0.74 0.19 0.06
Matches are distributed among these distances:
47 7 0.01
48 39 0.08
49 209 0.43
50 226 0.46
51 8 0.02
ACGTcount: A:0.35, C:0.17, G:0.29, T:0.19
Consensus pattern (49 bp):
TGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCTTAAAGATA
Found at i:33774 original size:17 final size:17
Alignment explanation
Indices: 33752--33784 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
33742 TAGTAAACAA
33752 ATTTTAAATTCAAATTT
1 ATTTTAAATTCAAATTT
*
33769 ATTTTAAATTTAAATT
1 ATTTTAAATTCAAATT
33785 GTCCAATACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (17 bp):
ATTTTAAATTCAAATTT
Found at i:34440 original size:13 final size:12
Alignment explanation
Indices: 34418--34476 Score: 54
Period size: 13 Copynumber: 5.1 Consensus size: 12
34408 ATTTCAAAAC
34418 ATAATAAATAAGT
1 ATAATAAATAA-T
*
34431 ATATTAAAT-AT
1 ATAATAAATAAT
34442 ATAATAAATAAAT
1 ATAATAAAT-AAT
*
34455 ATAAT-ATTAAT
1 ATAATAAATAAT
34466 -TAA-AAATAAT
1 ATAATAAATAAT
34476 A
1 A
34477 AAAAAGGGAG
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
10 8 0.21
11 12 0.32
12 3 0.08
13 15 0.39
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.36
Consensus pattern (12 bp):
ATAATAAATAAT
Found at i:35712 original size:276 final size:276
Alignment explanation
Indices: 35219--35764 Score: 1065
Period size: 276 Copynumber: 2.0 Consensus size: 276
35209 GATCCGACTT
35219 GCTCTAACTCAGCAAGAGGATCTGCGTGTTTTGGAAGGATGGGTTATTTACCCATTCAATCCTTC
1 GCTCTAACTCAGCAAGAGGATCTGCGTGTTTTGGAAGGATGGGTTATTTACCCATTCAATCCTTC
35284 CACTTTTTCCCACTATTTCAATCAAGTCCTTTAATTTTTTTTATTTTTTACAATTTTACCCAGTA
66 CACTTTTTCCCACTATTTCAATCAAGTCCTTTAATTTTTTTTATTTTTTACAATTTTACCCAGTA
*
35349 ATTTCAATTCCTTTTTAATCTAGTCTTTCGACTTTAGGATGCATGAGAGGCTGCCACATGTCATT
131 ATTTCAATTCCTTTTTAATCTAGTCCTTCGACTTTAGGATGCATGAGAGGCTGCCACATGTCATT
*
35414 TATGGGTTATTTGCGCAAAATCCCTTATTTAAAAATTGTATTTTGACCCCTAAACTTCTCTAAAA
196 TATGGGTTATTTGCGCAAAATCCCTTATTTAAAAATTGTATTTTGACCCCCAAACTTCTCTAAAA
35479 TTACATTTTGGAAGAG
261 TTACATTTTGGAAGAG
35495 GCTCTAACTCAGCAAGAGGATCTGCGTGTTTTGGAAGGATGGGTTATTTACCCATTCAATCCTTC
1 GCTCTAACTCAGCAAGAGGATCTGCGTGTTTTGGAAGGATGGGTTATTTACCCATTCAATCCTTC
35560 CACTTTTTCCCACTATTTCAATCAAGTCCTTTAATTTTTTTTATTTTTTACAATTTTACCCAGTA
66 CACTTTTTCCCACTATTTCAATCAAGTCCTTTAATTTTTTTTATTTTTTACAATTTTACCCAGTA
*
35625 ATTTCAATTCCTTTTTAATCTAGTCCTTCGACTTTCGGATGCATGAGAGGCTGCCACATGTCATT
131 ATTTCAATTCCTTTTTAATCTAGTCCTTCGACTTTAGGATGCATGAGAGGCTGCCACATGTCATT
35690 TATGGGTTATTTGCGCAAAATCCCTTATTTAAAAATTGTATTTTGACCCCCAAACTTCTCTAAAA
196 TATGGGTTATTTGCGCAAAATCCCTTATTTAAAAATTGTATTTTGACCCCCAAACTTCTCTAAAA
35755 TTACATTTTG
261 TTACATTTTG
35765 ATCCTTAAAC
Statistics
Matches: 267, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
276 267 1.00
ACGTcount: A:0.26, C:0.20, G:0.14, T:0.40
Consensus pattern (276 bp):
GCTCTAACTCAGCAAGAGGATCTGCGTGTTTTGGAAGGATGGGTTATTTACCCATTCAATCCTTC
CACTTTTTCCCACTATTTCAATCAAGTCCTTTAATTTTTTTTATTTTTTACAATTTTACCCAGTA
ATTTCAATTCCTTTTTAATCTAGTCCTTCGACTTTAGGATGCATGAGAGGCTGCCACATGTCATT
TATGGGTTATTTGCGCAAAATCCCTTATTTAAAAATTGTATTTTGACCCCCAAACTTCTCTAAAA
TTACATTTTGGAAGAG
Found at i:35763 original size:30 final size:30
Alignment explanation
Indices: 35729--35910 Score: 158
Period size: 30 Copynumber: 6.2 Consensus size: 30
35719 TAAAAATTGT
* *
35729 ATTTTGACCCCCAAACTTCTCTAAAATTAC
1 ATTTTGATCCCTAAACTTCTCTAAAATTAC
*
35759 ATTTTGATCCTTAAACTT-TCCTAAAATTAC
1 ATTTTGATCCCTAAACTTCT-CTAAAATTAC
* * * *
35789 ATTTTGATCCTTGAACTTTTCTAAAATTTC
1 ATTTTGATCCCTAAACTTCTCTAAAATTAC
* * * *
35819 ATTTTGATCCTTGAACTTC-CTTAAATCAC
1 ATTTTGATCCCTAAACTTCTCTAAAATTAC
* * *
35848 ATTTTGA-CCCTTAACTTTCTCAAAAATCAC
1 ATTTTGATCCCTAAAC-TTCTCTAAAATTAC
* * *
35878 ATTTTAACCCCTAAACTTC-C-AAAATTAT
1 ATTTTGATCCCTAAACTTCTCTAAAATTAC
35906 ATTTT
1 ATTTT
35911 TACCTCTATA
Statistics
Matches: 130, Mismatches: 17, Indels: 12
0.82 0.11 0.08
Matches are distributed among these distances:
28 17 0.13
29 19 0.15
30 86 0.66
31 8 0.06
ACGTcount: A:0.32, C:0.23, G:0.04, T:0.41
Consensus pattern (30 bp):
ATTTTGATCCCTAAACTTCTCTAAAATTAC
Found at i:35895 original size:59 final size:60
Alignment explanation
Indices: 35745--35902 Score: 196
Period size: 59 Copynumber: 2.7 Consensus size: 60
35735 ACCCCCAAAC
* *
35745 TTCTCTAAAATTACATTTTGATCCTTAAACTTTCCTAAAATTACATTTTGATCCTTGAACT
1 TTCTCTAAAATTACATTTTGATCCTTAAAC-TTCCTAAAATCACATTTTGACCCTTGAACT
* * *
35806 TT-TCTAAAATTTCATTTTGATCCTTGAACTTCCTTAAATCACATTTTGACCCTT-AACT
1 TTCTCTAAAATTACATTTTGATCCTTAAACTTCCTAAAATCACATTTTGACCCTTGAACT
* * * * *
35864 TTCTCAAAAATCACATTTTAACCCCTAAACTTCC-AAAAT
1 TTCTCTAAAATTACATTTTGATCCTTAAACTTCCTAAAAT
35903 TATATTTTTA
Statistics
Matches: 83, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
58 10 0.12
59 46 0.55
60 25 0.30
61 2 0.02
ACGTcount: A:0.32, C:0.23, G:0.04, T:0.41
Consensus pattern (60 bp):
TTCTCTAAAATTACATTTTGATCCTTAAACTTCCTAAAATCACATTTTGACCCTTGAACT
Found at i:36522 original size:24 final size:24
Alignment explanation
Indices: 36490--36539 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
36480 TGTACATCAA
36490 ATAAATCATGCATTTAAGGATCGT
1 ATAAATCATGCATTTAAGGATCGT
36514 ATAAATCATGCATTTAAGGATCGT
1 ATAAATCATGCATTTAAGGATCGT
36538 AT
1 AT
36540 TTTAAATTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.34
Consensus pattern (24 bp):
ATAAATCATGCATTTAAGGATCGT
Found at i:42369 original size:29 final size:28
Alignment explanation
Indices: 42315--42383 Score: 84
Period size: 29 Copynumber: 2.4 Consensus size: 28
42305 GTTTGGGTGA
* ***
42315 TTGGTCACTTTGGCCCTTATGGTTTTTT
1 TTGGTCACATTGGCCCTTAACCTTTTTT
42343 TTGGCTCACATTGGCCCTTAACCTTTTTT
1 TTGG-TCACATTGGCCCTTAACCTTTTTT
*
42372 TTGGTCAAATTG
1 TTGGTCACATTG
42384 ATCATTTTTA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
28 11 0.31
29 24 0.69
ACGTcount: A:0.13, C:0.20, G:0.19, T:0.48
Consensus pattern (28 bp):
TTGGTCACATTGGCCCTTAACCTTTTTT
Found at i:42657 original size:13 final size:12
Alignment explanation
Indices: 42632--42656 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
42622 TTCCTTCCGG
42632 TGGGTTTTTTTT
1 TGGGTTTTTTTT
42644 TGGGTTTTTTTT
1 TGGGTTTTTTTT
42656 T
1 T
42657 TCTGTTCTCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.00, G:0.24, T:0.76
Consensus pattern (12 bp):
TGGGTTTTTTTT
Found at i:45039 original size:23 final size:22
Alignment explanation
Indices: 45009--45158 Score: 124
Period size: 23 Copynumber: 6.5 Consensus size: 22
44999 ACACTAGCGC
45009 GCTCTCTGTTTAGCACGTCTCGT
1 GCTCTCTGTTTAGCACGTCT-GT
*
45032 GCTCTCTGTTATTAGCACTGTGTGT
1 GCTCTCTG-T-TTAGCAC-GTCTGT
*
45057 GCTCTCT-TATTAGCACTTCGTGT
1 GCTCTCTGT-TTAGCACGTC-TGT
* *
45080 GCTCTCTGATTAGCACTTCGTGT
1 GCTCTCTGTTTAGCACGTC-TGT
* * *
45103 GCTCTCTGATTAGTAC-TTTGT
1 GCTCTCTGTTTAGCACGTCTGT
*
45124 GTACTCTCTGTTTAGCACTGTGTGT
1 G--CTCTCTGTTTAGCAC-GTCTGT
45149 GCTCTCTGTT
1 GCTCTCTGTT
45159 GCCCAGAACT
Statistics
Matches: 109, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
21 4 0.04
22 2 0.02
23 78 0.72
24 1 0.01
25 21 0.19
26 3 0.03
ACGTcount: A:0.11, C:0.24, G:0.21, T:0.43
Consensus pattern (22 bp):
GCTCTCTGTTTAGCACGTCTGT
Found at i:45139 original size:69 final size:67
Alignment explanation
Indices: 45009--45205 Score: 204
Period size: 69 Copynumber: 2.8 Consensus size: 67
44999 ACACTAGCGC
* * * *
45009 GCTCTCTGTTTAGCACGTCTCGTGCTCTCTGTTATTAGCACTGTGTGTGCTCTCT-TATTAGCAC
1 GCTCTCTG-TTAGCACTTCT-GTGCTCTCTG--ATTAGTACTTTGTGTACTCTCTGT-TTAGCAC
45073 T-TCGTGT
61 TGT-GTGT
45080 GCTCTCTGATTAGCACTTCGTGTGCTCTCTGATTAGTACTTTGTGTACTCTCTGTTTAGCACTGT
1 GCTCTCTG-TTAGCACTTC-TGTGCTCTCTGATTAGTACTTTGTGTACTCTCTGTTTAGCACTGT
45145 GTGT
64 GTGT
* *
45149 GCTCTCTGTTGCCCAGAACTTATGTGCTCTCTG-TTAGTACTTTG-GTACTCTCTGTTT
1 GCTCTCTGTT----AGCACTTCTGTGCTCTCTGATTAGTACTTTGTGTACTCTCTGTTT
45206 GTTCCGTATA
Statistics
Matches: 112, Mismatches: 7, Indels: 16
0.83 0.05 0.12
Matches are distributed among these distances:
68 2 0.02
69 52 0.46
70 13 0.12
71 38 0.34
72 7 0.06
ACGTcount: A:0.12, C:0.24, G:0.21, T:0.43
Consensus pattern (67 bp):
GCTCTCTGTTAGCACTTCTGTGCTCTCTGATTAGTACTTTGTGTACTCTCTGTTTAGCACTGTGT
GT
Found at i:45156 original size:46 final size:46
Alignment explanation
Indices: 45009--45156 Score: 176
Period size: 46 Copynumber: 3.2 Consensus size: 46
44999 ACACTAGCGC
*
45009 GCTCTCTGTTTAGCACGTCTCGTG--CTCTCTGTTATTAGCACTGTGTGT
1 GCTCTCTGATTAGCAC-T-TCGTGTACTCTCTG-T-TTAGCACTGTGTGT
* * *
45057 GCTCTCTTATTAGCACTTCGTGTGCTCTCTGATTAGCACT-TCGTGT
1 GCTCTCTGATTAGCACTTCGTGTACTCTCTGTTTAGCACTGT-GTGT
* *
45103 GCTCTCTGATTAGTACTTTGTGTACTCTCTGTTTAGCACTGTGTGT
1 GCTCTCTGATTAGCACTTCGTGTACTCTCTGTTTAGCACTGTGTGT
45149 GCTCTCTG
1 GCTCTCTG
45157 TTGCCCAGAA
Statistics
Matches: 88, Mismatches: 8, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
45 1 0.01
46 64 0.73
47 2 0.02
48 21 0.24
ACGTcount: A:0.11, C:0.24, G:0.22, T:0.43
Consensus pattern (46 bp):
GCTCTCTGATTAGCACTTCGTGTACTCTCTGTTTAGCACTGTGTGT
Found at i:45825 original size:11 final size:11
Alignment explanation
Indices: 45805--45847 Score: 59
Period size: 11 Copynumber: 3.8 Consensus size: 11
45795 TTATATTTAA
45805 AAAATAATTTT
1 AAAATAATTTT
*
45816 AAATTAATTTT
1 AAAATAATTTT
*
45827 AAAAAAATTTT
1 AAAATAATTTT
45838 AAAAATAATT
1 -AAAATAATT
45848 AATTTTTTTG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
11 19 0.70
12 8 0.30
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
AAAATAATTTT
Found at i:45846 original size:23 final size:23
Alignment explanation
Indices: 45799--45847 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
45789 ATTTTTTTAT
*
45799 ATTTAAAAAATAATTTTAAATTA
1 ATTTAAAAAATAATTTTAAAATA
*
45822 ATTTTAAAAA-AATTTTAAAAATA
1 ATTTAAAAAATAATTTT-AAAATA
45845 ATT
1 ATT
45848 AATTTTTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 6 0.26
23 17 0.74
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
ATTTAAAAAATAATTTTAAAATA
Found at i:46950 original size:40 final size:40
Alignment explanation
Indices: 46906--46984 Score: 131
Period size: 40 Copynumber: 2.0 Consensus size: 40
46896 TAAGAAGATG
* *
46906 ATTTTAATATTTTTATATCTTAAAAAATAATTTTAAATTA
1 ATTTTAAAATTTTTATATCTTAAAAAATAATTTAAAATTA
*
46946 ATTTTAAAATTTTTATATTTTAAAAAATAATTTAAAATT
1 ATTTTAAAATTTTTATATCTTAAAAAATAATTTAAAATT
46985 GTTTGCTGAC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (40 bp):
ATTTTAAAATTTTTATATCTTAAAAAATAATTTAAAATTA
Found at i:47674 original size:17 final size:17
Alignment explanation
Indices: 47647--47684 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
47637 ATATGTTAAA
*
47647 ATTTTTAATTTTTTCGTT
1 ATTTTTAATTTATTCG-T
47665 ATTTTT-ATTTATTCGT
1 ATTTTTAATTTATTCGT
47681 ATTT
1 ATTT
47685 AATCAAGTCG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 5 0.26
17 8 0.42
18 6 0.32
ACGTcount: A:0.18, C:0.05, G:0.05, T:0.71
Consensus pattern (17 bp):
ATTTTTAATTTATTCGT
Found at i:47799 original size:17 final size:16
Alignment explanation
Indices: 47763--47826 Score: 65
Period size: 17 Copynumber: 3.8 Consensus size: 16
47753 TATTTTAAGA
*
47763 TTAAATTTGTTTAAAAAT
1 TTAAATTTATTT--AAAT
*
47781 TTAAAATTATTATAAAT
1 TTAAATTTATT-TAAAT
*
47798 TTAAATTTAATTTAAGT
1 TTAAATTT-ATTTAAAT
47815 TTAAATTTATTT
1 TTAAATTTATTT
47827 T
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
16 4 0.10
17 23 0.57
18 12 0.30
19 1 0.03
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (16 bp):
TTAAATTTATTTAAAT
Done.