Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01012439.1 Kokia drynarioides strain JFW-HI SEQ_127443, 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: 48734
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Found at i:532 original size:23 final size:23
Alignment explanation
Indices: 499--573 Score: 84
Period size: 23 Copynumber: 3.3 Consensus size: 23
489 GGCCCTTTTT
*
499 AATTT-ATTTTAAATTTGATTTA
1 AATTTAATTTTAAATTTAATTTA
521 AATTTAATTTTAAA-TTAATCTTA
1 AATTTAATTTTAAATTTAAT-TTA
*
544 AATTTAA-ATTAAATTTAATTTCA
1 AATTTAATTTTAAATTTAATTT-A
*
567 AAATTAA
1 AATTTAA
574 AAAGTCCAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
22 16 0.35
23 30 0.65
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.51
Consensus pattern (23 bp):
AATTTAATTTTAAATTTAATTTA
Found at i:538 original size:17 final size:17
Alignment explanation
Indices: 518--574 Score: 71
Period size: 17 Copynumber: 3.3 Consensus size: 17
508 TAAATTTGAT
518 TTAAATTTAATTTTAAA
1 TTAAATTTAATTTTAAA
*
535 TT-AATCTTAAATTTAAA
1 TTAAAT-TTAATTTTAAA
*
552 TTAAATTTAATTTCAAAA
1 TTAAATTTAATTT-TAAA
570 TTAAA
1 TTAAA
575 AAGTCCAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
16 3 0.09
17 20 0.59
18 11 0.32
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (17 bp):
TTAAATTTAATTTTAAA
Found at i:561 original size:11 final size:12
Alignment explanation
Indices: 494--564 Score: 78
Period size: 11 Copynumber: 6.2 Consensus size: 12
484 GACTAGGCCC
*
494 TTTTTAATTT-A
1 TTTTAAATTTAA
*
505 TTTTAAATTTGA
1 TTTTAAATTTAA
517 -TTTAAATTTAA
1 TTTTAAATTTAA
528 TTTTAAA-TTAA
1 TTTTAAATTTAA
*
539 TCTTAAATTTAA
1 TTTTAAATTTAA
*
551 -ATTAAATTTAA
1 TTTTAAATTTAA
562 TTT
1 TTT
565 CAAAATTAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
11 39 0.76
12 12 0.24
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.58
Consensus pattern (12 bp):
TTTTAAATTTAA
Found at i:1221 original size:24 final size:24
Alignment explanation
Indices: 1194--1248 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
1184 AAATATCATT
* *
1194 AATAATATTATTAATTAT-ATTGAC
1 AATAATATTACTAA-TATCATTAAC
1218 AATAATATTACTAATATCATTAAC
1 AATAATATTACTAATATCATTAAC
1242 AATAATA
1 AATAATA
1249 ATGACATCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 3 0.11
24 25 0.89
ACGTcount: A:0.51, C:0.07, G:0.02, T:0.40
Consensus pattern (24 bp):
AATAATATTACTAATATCATTAAC
Found at i:2356 original size:29 final size:29
Alignment explanation
Indices: 2314--2750 Score: 328
Period size: 29 Copynumber: 15.0 Consensus size: 29
2304 CTCGGAGGTG
*
2314 CCTAAACTGTCCAAAAATTACTATTTTACC
1 CCTAAACT-TCCAAAAATTACCATTTTACC
* * *
2344 CCTGAACTTCCAAAAA-TATCATTTTAAC
1 CCTAAACTTCCAAAAATTACCATTTTACC
*
2372 CCTAAAACTTCTAAAAATTACCA-TTTACC
1 CCT-AAACTTCCAAAAATTACCATTTTACC
2401 CCTAAACTTCCAAAAA-T-CTCATTTTGACC
1 CCTAAACTTCCAAAAATTAC-CATTTT-ACC
2430 CC-AAACCTTCCAAAAATTACCATTTTACC
1 CCTAAA-CTTCCAAAAATTACCATTTTACC
**
2459 CCCGAACTTCCAAAAATCTA--ATTTTTGA-C
1 CCTAAACTTCCAAAAAT-TACCA-TTTT-ACC
* *
2488 CC-AAACCTTCCAAAAGTTACCATTTTACT
1 CCTAAA-CTTCCAAAAATTACCATTTTACC
* *
2517 CCTGAACTTCCAAAAA-TCCCATTTTTGACC
1 CCTAAACTTCCAAAAATTACCA-TTTT-ACC
* * ** *
2547 TCGAAACTTATAAAAATTACCATTTTACA
1 CCTAAACTTCCAAAAATTACCATTTTACC
*
2576 CCTAAACTTCCAAAAA-TCCCATTTTTGACC
1 CCTAAACTTCCAAAAATTACCA-TTTT-ACC
* **
2606 CCAAAACTTTTAAAAATTACCATTTTA-C
1 CCTAAACTTCCAAAAATTACCATTTTACC
* *
2634 CCTCAAACTCCCAAAAA-TCCCATTTTTAACC
1 CCT-AAACTTCCAAAAATTACCA-TTTT-ACC
* *
2665 CCGAAACTTCTAAAAATTACCATTTTA-C
1 CCTAAACTTCCAAAAATTACCATTTTACC
* * *
2693 CCTCGAACTTCTAAAAATCA-CATTTTAACC
1 CCT-AAACTTCCAAAAATTACCATTTT-ACC
* * * *
2723 CCGAAACATCCAAATATTACTATTTTAC
1 CCTAAACTTCCAAAAATTACCATTTTAC
2751 TCCCGGATGT
Statistics
Matches: 322, Mismatches: 53, Indels: 65
0.73 0.12 0.15
Matches are distributed among these distances:
26 1 0.00
27 3 0.01
28 60 0.19
29 156 0.48
30 86 0.27
31 16 0.05
ACGTcount: A:0.37, C:0.29, G:0.03, T:0.31
Consensus pattern (29 bp):
CCTAAACTTCCAAAAATTACCATTTTACC
Found at i:2592 original size:59 final size:58
Alignment explanation
Indices: 2317--2718 Score: 454
Period size: 59 Copynumber: 6.9 Consensus size: 58
2307 GGAGGTGCCT
* * ** *
2317 AAACTGTCCAAAAATTACTATTTTACCCCTGAACTTCCAAAAATATCA-TTTTAACCCTA
1 AAACT-TCTAAAAATTACCATTTTACCCCTGAACTTCCAAAAATCCCATTTTTGACCC-A
* *
2376 AAACTTCTAAAAATTACCA-TTTACCCCTAAACTTCCAAAAATCTCA-TTTTGACCCCA
1 AAACTTCTAAAAATTACCATTTTACCCCTGAACTTCCAAAAATCCCATTTTTGA-CCCA
* * * **
2433 AACCTTCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCTAATTTTTGACCCA
1 AAACTTCTAAAAATTACCATTTTACCCCTGAACTTCCAAAAATCCCATTTTTGACCCA
* * * * *
2491 AACCTTCCAAAAGTTACCATTTTACTCCTGAACTTCCAAAAATCCCATTTTTGACCTCG
1 AAACTTCTAAAAATTACCATTTTACCCCTGAACTTCCAAAAATCCCATTTTTGACC-CA
* * *
2550 AAACTTATAAAAATTACCATTTTACACCTAAACTTCCAAAAATCCCATTTTTGACCCCA
1 AAACTTCTAAAAATTACCATTTTACCCCTGAACTTCCAAAAATCCCATTTTTGA-CCCA
* * * * *
2609 AAACTTTTAAAAATTACCATTTTA-CCCTCAAACTCCCAAAAATCCCATTTTTAACCCCG
1 AAACTTCTAAAAATTACCATTTTACCCCT-GAACTTCCAAAAATCCCATTTTTGA-CCCA
* *
2668 AAACTTCTAAAAATTACCATTTTA-CCCTCGAACTTCTAAAAATCACATTTT
1 AAACTTCTAAAAATTACCATTTTACCCCT-GAACTTCCAAAAATCCCATTTT
2719 AACCCCGAAA
Statistics
Matches: 304, Mismatches: 33, Indels: 12
0.87 0.09 0.03
Matches are distributed among these distances:
57 48 0.16
58 97 0.32
59 157 0.52
60 2 0.01
ACGTcount: A:0.37, C:0.28, G:0.03, T:0.31
Consensus pattern (58 bp):
AAACTTCTAAAAATTACCATTTTACCCCTGAACTTCCAAAAATCCCATTTTTGACCCA
Found at i:5788 original size:158 final size:158
Alignment explanation
Indices: 5491--5971 Score: 630
Period size: 158 Copynumber: 3.0 Consensus size: 158
5481 ACAACTCATA
* *
5491 TGAGCATTACAGGTTATATGGGTGCTAGTCTTAGATGTCCTACCGATGGCTAAGGTCCTGCATTA
1 TGAGCATTACAGGTTATATGGGTGCTGGTCTTAGATGTCCTACCGATGGCTGAGGTCCTGCATTA
* * * **
5556 GTTGCGGATTCTCCATAGT-TCGTGTGAGTAGCATCGCGTAGCCTAACATCTCGATTCACAGCTC
66 GTTGCGGATTCTCCACA-TCTCGTGTGAGAAGCATCGCTTAGCCTAACATCTCGACCCACAGCTC
5620 GTGTGAGCAGGCCCATTTCACAGCTCGTG
130 GTGTGAGCAGGCCCATTTCACAGCTCGTG
* * *
5649 TGAGCATTACAGGTTATATGGGTGTTGGTCTTAGATGTCCTACCGATGACTGAGGTCCTGCATTG
1 TGAGCATTACAGGTTATATGGGTGCTGGTCTTAGATGTCCTACCGATGGCTGAGGTCCTGCATTA
* * * * *
5714 GTTACGGATTCTCCACATCTTGTGTGAGAAACATCGCTTAGCCTAACATCTTGACCCACAGCTTG
66 GTTGCGGATTCTCCACATCTCGTGTGAGAAGCATCGCTTAGCCTAACATCTCGACCCACAGCTCG
*
5779 TGT-ACGCAGGCCCATTTCATAGCTCGTG
131 TGTGA-GCAGGCCCATTTCACAGCTCGTG
* * *
5807 TGAGCATTACAGGTTATATGGGTGCTGGTCTTAGATGTCTTACCGATGGCTGAGGT-TTAACATT
1 TGAGCATTACAGGTTATATGGGTGCTGGTCTTAGATGTCCTACCGATGGCTGAGGTCCT-GCA-T
* * * * * * *
5871 TA-TTGTGGATTCTCTACAGCTCGTGTGAGCAGCATCG-TGTGGCCTCACATCTCGACCCACAAC
64 TAGTTGCGGATTCTCCACATCTCGTGTGAGAAGCATCGCT-TAGCCTAACATCTCGACCCACAGC
* *
5934 TCGTGTGAGTAAGCCCATTTCACAGCTCGTG
128 TCGTGTGAGCAGGCCCATTTCACAGCTCGTG
5965 TGAGCAT
1 TGAGCAT
5972 ATATGATTAC
Statistics
Matches: 280, Mismatches: 37, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
157 4 0.01
158 273 0.98
159 3 0.01
ACGTcount: A:0.21, C:0.23, G:0.25, T:0.31
Consensus pattern (158 bp):
TGAGCATTACAGGTTATATGGGTGCTGGTCTTAGATGTCCTACCGATGGCTGAGGTCCTGCATTA
GTTGCGGATTCTCCACATCTCGTGTGAGAAGCATCGCTTAGCCTAACATCTCGACCCACAGCTCG
TGTGAGCAGGCCCATTTCACAGCTCGTG
Found at i:8810 original size:28 final size:29
Alignment explanation
Indices: 8732--8810 Score: 74
Period size: 28 Copynumber: 2.8 Consensus size: 29
8722 TTTATTCAAT
* * *
8732 ACTCGCCACAAAGGTTTTCCTTT-TAGAG
1 ACTCACCACAAAGGCTTTCCTTTACAGAG
** * *
8760 ACTTGCCACAAAGGC-GTCATTTACAGAG
1 ACTCACCACAAAGGCTTTCCTTTACAGAG
8788 A-TCACCACAAAGGCTTTCCTTTA
1 ACTCACCACAAAGGCTTTCCTTTA
8811 TTGGTGTTTT
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
27 16 0.40
28 24 0.60
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (29 bp):
ACTCACCACAAAGGCTTTCCTTTACAGAG
Found at i:17640 original size:84 final size:84
Alignment explanation
Indices: 17499--17668 Score: 340
Period size: 84 Copynumber: 2.0 Consensus size: 84
17489 TACATACCTA
17499 TTATGCATTTATCTATCTATCTATGTATAGTATGCCAATTTATGCATAAGATTATGTATCCATCT
1 TTATGCATTTATCTATCTATCTATGTATAGTATGCCAATTTATGCATAAGATTATGTATCCATCT
17564 ATCTACTTTAACTGCACAT
66 ATCTACTTTAACTGCACAT
17583 TTATGCATTTATCTATCTATCTATGTATAGTATGCCAATTTATGCATAAGATTATGTATCCATCT
1 TTATGCATTTATCTATCTATCTATGTATAGTATGCCAATTTATGCATAAGATTATGTATCCATCT
17648 ATCTACTTTAACTGCACAT
66 ATCTACTTTAACTGCACAT
17667 TT
1 TT
17669 TCTCGAAAAT
Statistics
Matches: 86, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 86 1.00
ACGTcount: A:0.29, C:0.18, G:0.09, T:0.44
Consensus pattern (84 bp):
TTATGCATTTATCTATCTATCTATGTATAGTATGCCAATTTATGCATAAGATTATGTATCCATCT
ATCTACTTTAACTGCACAT
Found at i:23956 original size:3 final size:3
Alignment explanation
Indices: 23948--23985 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
23938 TTCACATAAC
* *
23948 CTG CTG CTG CTG CTG CTG CTG CTA CTG CTG CTA CTG CT
1 CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG CT
23986 ATTGTCGAGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.05, C:0.34, G:0.26, T:0.34
Consensus pattern (3 bp):
CTG
Found at i:24010 original size:26 final size:26
Alignment explanation
Indices: 23980--24033 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
23970 TACTGCTGCT
23980 ACTGCTATTGTCGAGTTGTCAACAAA
1 ACTGCTATTGTCGAGTTGTCAACAAA
24006 ACTGCTATTGTCGAGTTGTCAACAAA
1 ACTGCTATTGTCGAGTTGTCAACAAA
24032 AC
1 AC
24034 AAAGCAGGGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (26 bp):
ACTGCTATTGTCGAGTTGTCAACAAA
Found at i:24181 original size:16 final size:16
Alignment explanation
Indices: 24146--24187 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
24136 GCTTTCTTTT
24146 TTATAAAAATAA-TAA
1 TTATAAAAATAATTAA
24161 --A-AAAAATAATTAA
1 TTATAAAAATAATTAA
24174 TTATAAAAATAATT
1 TTATAAAAATAATT
24188 TATTTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
12 8 0.35
13 4 0.17
15 1 0.04
16 10 0.43
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
TTATAAAAATAATTAA
Found at i:26868 original size:6 final size:7
Alignment explanation
Indices: 26857--26884 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
26847 CCCCCAACCC
26857 CTTTTTT
1 CTTTTTT
26864 CTTTTTT
1 CTTTTTT
26871 CTTTTTT
1 CTTTTTT
26878 CTTTTTT
1 CTTTTTT
26885 ACAGGTGCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (7 bp):
CTTTTTT
Found at i:32297 original size:16 final size:16
Alignment explanation
Indices: 32246--32297 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
32236 ACCTTAGTAA
32246 ATATTGTTTATTTATT
1 ATATTGTTTATTTATT
* **
32262 ATA-TGTTTGAATTAAC
1 ATATTGTTT-ATTTATT
32278 ATATTGTTTATTTATT
1 ATATTGTTTATTTATT
32294 ATAT
1 ATAT
32298 GTGAGACTAC
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
15 5 0.18
16 18 0.64
17 5 0.18
ACGTcount: A:0.31, C:0.02, G:0.08, T:0.60
Consensus pattern (16 bp):
ATATTGTTTATTTATT
Found at i:41696 original size:21 final size:21
Alignment explanation
Indices: 41672--41739 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
41662 CTTTTAGTCC
41672 TCATGGGAACGATATCTTTAA
1 TCATGGGAACGATATCTTTAA
* * * *
41693 TCATCGTAGCTATA-CTATTAA
1 TCATGGGAACGATATCT-TTAA
*
41714 TTAATGGGAACGATATCTTTAA
1 -TCATGGGAACGATATCTTTAA
41736 TCAT
1 TCAT
41740 CGTAACTATA
Statistics
Matches: 34, Mismatches: 10, Indels: 6
0.68 0.20 0.12
Matches are distributed among these distances:
20 2 0.06
21 17 0.50
22 13 0.38
23 2 0.06
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.37
Consensus pattern (21 bp):
TCATGGGAACGATATCTTTAA
Found at i:41735 original size:43 final size:43
Alignment explanation
Indices: 41674--41761 Score: 167
Period size: 43 Copynumber: 2.0 Consensus size: 43
41664 TTTAGTCCTC
*
41674 ATGGGAACGATATCTTTAATCATCGTAGCTATACTATTAATTA
1 ATGGGAACGATATCTTTAATCATCGTAACTATACTATTAATTA
41717 ATGGGAACGATATCTTTAATCATCGTAACTATACTATTAATTA
1 ATGGGAACGATATCTTTAATCATCGTAACTATACTATTAATTA
41760 AT
1 AT
41762 AGGTACACTT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (43 bp):
ATGGGAACGATATCTTTAATCATCGTAACTATACTATTAATTA
Found at i:41736 original size:22 final size:22
Alignment explanation
Indices: 41674--41736 Score: 58
Period size: 22 Copynumber: 2.9 Consensus size: 22
41664 TTTAGTCCTC
*
41674 ATGGGAACGATATCTTTAA-TC
1 ATGGGAACGATATCTTTAATTA
* * * *
41695 ATCGTAGCTATA-CTATTAATTA
1 ATGGGAACGATATCT-TTAATTA
41717 ATGGGAACGATATCTTTAAT
1 ATGGGAACGATATCTTTAAT
41737 CATCGTAACT
Statistics
Matches: 30, Mismatches: 9, Indels: 5
0.68 0.20 0.11
Matches are distributed among these distances:
20 2 0.07
21 12 0.40
22 14 0.47
23 2 0.07
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (22 bp):
ATGGGAACGATATCTTTAATTA
Found at i:41757 original size:21 final size:21
Alignment explanation
Indices: 41689--41757 Score: 68
Period size: 21 Copynumber: 3.2 Consensus size: 21
41679 AACGATATCT
*
41689 TTAATCATCGTAGCTATACTA
1 TTAATCATCGTAACTATACTA
* * * *
41710 TTAATTAATGGGAACGATATCT-
1 TTAA-TCATCGTAACTATA-CTA
41732 TTAATCATCGTAACTATACTA
1 TTAATCATCGTAACTATACTA
41753 TTAAT
1 TTAAT
41758 TAATAGGTAC
Statistics
Matches: 36, Mismatches: 9, Indels: 6
0.71 0.18 0.12
Matches are distributed among these distances:
20 2 0.06
21 19 0.53
22 13 0.36
23 2 0.06
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.39
Consensus pattern (21 bp):
TTAATCATCGTAACTATACTA
Found at i:42315 original size:41 final size:41
Alignment explanation
Indices: 42269--42351 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
42259 TCCCTTACCC
42269 CATGTACTAATGCCACATGCAAACCTATACCCAAGCTCTAG
1 CATGTACTAATGCCACATGCAAACCTATACCCAAGCTCTAG
*
42310 CATGTACTAATGCCACATGCAAACCTATACCGAAGCTCTAG
1 CATGTACTAATGCCACATGCAAACCTATACCCAAGCTCTAG
42351 C
1 C
42352 TGTTAGTCGG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.34, C:0.31, G:0.13, T:0.22
Consensus pattern (41 bp):
CATGTACTAATGCCACATGCAAACCTATACCCAAGCTCTAG
Found at i:42663 original size:2 final size:2
Alignment explanation
Indices: 42656--42698 Score: 70
Period size: 2 Copynumber: 21.5 Consensus size: 2
42646 GCAAAATACA
42656 AG AG AG AG AG A- ACG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG A-G AG AG AG AG AG AG AG AG AG AG AG AG AG AG
42698 A
1 A
42699 ATCATCTATG
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 1 0.03
2 37 0.95
3 1 0.03
ACGTcount: A:0.51, C:0.02, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:44124 original size:329 final size:329
Alignment explanation
Indices: 43516--44172 Score: 942
Period size: 329 Copynumber: 2.0 Consensus size: 329
43506 GGTTGACCTG
* * * * *
43516 TATAAATAAAGAGATAAAAAAGTAGAGAATAATGAACACAAATATTTTATGTGGAAAGCCCTTAA
1 TATAAACAAAGAGATAAAAAAGTAGAGAAGAATGAACACAAATATTTTACGTGGAAAACCCTCAA
* * * * *
43581 AGAGGGAAAAATCACAGGCAAAAGAGGTTTCAATTTTTCATTAAATGAGTAAATAAAAGAGAGTA
66 AAAGGGAAAAACCACAGGCAAAAGAGGCTTCAACTTTTCATTAAATGAGTAAACAAAAGAGAGTA
* * * *
43646 TAATATGGAGAAAATAAACTTAAATGTACTAAACGTACATTACTCAAAACCCCGAATACAAAACT
131 CAATATGGAGAAAATAAACCTAAATGTACAAAACGTACATTACCCAAAACCCCGAATACAAAACT
* * * * * *
43711 CAAAATCCCAAAGAGAAGATCGATAAATAATACCCTAAATCTCATAAGGCACTCACAAAAGGGGT
196 CAAAATCCCAAAGAGAAGATCGATAAACAAAACCCTAAATATCAAAAGACACTCACAAAAGAGGT
* *
43776 ATAAAATACTCTCCATAATTACCATGAAACTCTCACCAAAACTCATATGCGACTACATCTTGTCG
261 ATAAAATACTCTCCATAATTACCACGAAACTCTCACAAAAACTCATATGCGACTACATCTTGTCG
43841 CCCA
326 CCCA
* *
43845 TATAAACAACGAGATAATAAAAGTGGAGAAGAATGAACACAAATATTTTACGTGGAAAACCCTCA
1 TATAAACAAAGAGATAA-AAAAGTAGAGAAGAATGAACACAAATATTTTACGTGGAAAACCCTCA
* * *
43910 AAAAGGG-AAAACCACTGGCAAAAGAGGCTTCGACTTTTCACTT-AATGAGTAAACAAACGAGAG
65 AAAAGGGAAAAACCACAGGCAAAAGAGGCTTCAACTTTTCA-TTAAATGAGTAAACAAAAGAGAG
* ** *
43973 TACAATATGGAGAAAATTAACCTAAATGTACAAAACGTACATTACCCAAAACTTCGAATACAAAG
129 TACAATATGGAGAAAATAAACCTAAATGTACAAAACGTACATTACCCAAAACCCCGAATACAAAA
* *
44038 CTCAAAATCTCAAAGAGCAA-ATCGGTAAACAAAACCCTAAATATCAAAAGACACTCACAAAAGA
194 CTCAAAATCCCAAAGAG-AAGATCGATAAACAAAACCCTAAATATCAAAAGACACTCACAAAAGA
* * *
44102 GGTATAAAATACTCTCCATAATTATCACGAAACTCTCATAAAAACTCATATGCGACTATATCTTG
258 GGTATAAAATACTCTCCATAATTACCACGAAACTCTCACAAAAACTCATATGCGACTACATCTTG
44167 TCGCCC
323 TCGCCC
44173 CTAAAGAAAA
Statistics
Matches: 289, Mismatches: 36, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
329 237 0.82
330 52 0.18
ACGTcount: A:0.46, C:0.19, G:0.14, T:0.22
Consensus pattern (329 bp):
TATAAACAAAGAGATAAAAAAGTAGAGAAGAATGAACACAAATATTTTACGTGGAAAACCCTCAA
AAAGGGAAAAACCACAGGCAAAAGAGGCTTCAACTTTTCATTAAATGAGTAAACAAAAGAGAGTA
CAATATGGAGAAAATAAACCTAAATGTACAAAACGTACATTACCCAAAACCCCGAATACAAAACT
CAAAATCCCAAAGAGAAGATCGATAAACAAAACCCTAAATATCAAAAGACACTCACAAAAGAGGT
ATAAAATACTCTCCATAATTACCACGAAACTCTCACAAAAACTCATATGCGACTACATCTTGTCG
CCCA
Done.