Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01006680.1 Kokia drynarioides strain JFW-HI SEQ_121274, 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: 87450
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Warning! 14 characters in sequence are not A, C, G, or T
Found at i:3006 original size:21 final size:22
Alignment explanation
Indices: 2980--3028 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
2970 AACAATGTTA
2980 TCAAATTA-TATACAAAATTAT
1 TCAAATTAGTATACAAAATTAT
* *
3001 TCAAA-TAGTGTACAATATTAT
1 TCAAATTAGTATACAAAATTAT
*
3022 TTAAATT
1 TCAAATT
3029 TATTAAGAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 2 0.09
21 20 0.87
22 1 0.04
ACGTcount: A:0.47, C:0.08, G:0.04, T:0.41
Consensus pattern (22 bp):
TCAAATTAGTATACAAAATTAT
Found at i:3468 original size:31 final size:32
Alignment explanation
Indices: 3433--3495 Score: 76
Period size: 31 Copynumber: 2.0 Consensus size: 32
3423 TTAAAAGTTA
3433 TCAAAACCTAGT-AAATATCATCAAAAT-TATC
1 TCAAAACCTAGTAAAATAT-ATCAAAATGTATC
** *
3464 TCAAAAGGTATTAAAATATATCAAAATGTATC
1 TCAAAACCTAGTAAAATATATCAAAATGTATC
3496 ACAATTACTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
31 17 0.63
32 10 0.37
ACGTcount: A:0.49, C:0.14, G:0.06, T:0.30
Consensus pattern (32 bp):
TCAAAACCTAGTAAAATATATCAAAATGTATC
Found at i:8791 original size:24 final size:23
Alignment explanation
Indices: 8742--8791 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
8732 CTATAGAAGT
* *
8742 TTTTTACTAAAAATTAAATTATA
1 TTTTTACTAAAAATTAAATAAAA
8765 TTTTTACTCAGAAAA-TAAATAAAA
1 TTTTTACT-A-AAAATTAAATAAAA
8789 TTT
1 TTT
8792 ATATCATTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 8 0.35
24 11 0.48
25 4 0.17
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (23 bp):
TTTTTACTAAAAATTAAATAAAA
Found at i:8860 original size:2 final size:2
Alignment explanation
Indices: 8855--8885 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
8845 TTTTTAATAC
*
8855 TA TA TA TA TA TC TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8886 GGATGAAATC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10517 original size:13 final size:13
Alignment explanation
Indices: 10499--10523 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10489 ATTTTTACAA
10499 TGTTTAATGGTTT
1 TGTTTAATGGTTT
10512 TGTTTAATGGTT
1 TGTTTAATGGTT
10524 AAAACGCAGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.00, G:0.24, T:0.60
Consensus pattern (13 bp):
TGTTTAATGGTTT
Found at i:17190 original size:22 final size:23
Alignment explanation
Indices: 17146--17192 Score: 60
Period size: 26 Copynumber: 2.0 Consensus size: 23
17136 TACGCAAACT
17146 AATATAAATAAATACTTTTTTATAAC
1 AATATAAATAAATAC---TTTATAAC
17172 AATATAAATAAATAC-TTATAA
1 AATATAAATAAATACTTTATAA
17193 GCCCTTAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
22 6 0.29
26 15 0.71
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.38
Consensus pattern (23 bp):
AATATAAATAAATACTTTATAAC
Found at i:19471 original size:19 final size:20
Alignment explanation
Indices: 19435--19472 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
19425 TTAAAAAATA
19435 TTAAATATAAATTATATATT
1 TTAAATATAAATTATATATT
19455 TTAAA-ATAATATT-TATAT
1 TTAAATATAA-ATTATATAT
19473 GATTGTTTTT
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TTAAATATAAATTATATATT
Found at i:22132 original size:65 final size:65
Alignment explanation
Indices: 22056--22185 Score: 260
Period size: 65 Copynumber: 2.0 Consensus size: 65
22046 GGGGAACTTG
22056 AAGATTCATTCAATATTTAGGGTAAGTTTTTTTAAACACAAACATGATGATAATAATAATAATAA
1 AAGATTCATTCAATATTTAGGGTAAGTTTTTTTAAACACAAACATGATGATAATAATAATAATAA
22121 AAGATTCATTCAATATTTAGGGTAAGTTTTTTTAAACACAAACATGATGATAATAATAATAATAA
1 AAGATTCATTCAATATTTAGGGTAAGTTTTTTTAAACACAAACATGATGATAATAATAATAATAA
22186 TAATAATAAG
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 65 1.00
ACGTcount: A:0.46, C:0.08, G:0.11, T:0.35
Consensus pattern (65 bp):
AAGATTCATTCAATATTTAGGGTAAGTTTTTTTAAACACAAACATGATGATAATAATAATAATAA
Found at i:22176 original size:3 final size:3
Alignment explanation
Indices: 22170--22194 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
22160 AAACATGATG
22170 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
22195 GAACACTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:30761 original size:19 final size:17
Alignment explanation
Indices: 30737--30777 Score: 64
Period size: 19 Copynumber: 2.3 Consensus size: 17
30727 AAATCATATG
30737 ATTTAATTAATTAATTTAA
1 ATTTAATTAATT-ATTT-A
30756 ATTTAATTAATTATTTA
1 ATTTAATTAATTATTTA
30773 ATTTA
1 ATTTA
30778 GTGTTTGTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 6 0.27
18 4 0.18
19 12 0.55
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTTAATTAATTATTTA
Found at i:34661 original size:38 final size:38
Alignment explanation
Indices: 34610--34684 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
34600 CACATCTGGG
*
34610 TTGCCTCAAATACCTATATCCTCCCAA-TGTTTCTTGAA
1 TTGCCTCAAATACCTATATCCTCACAAGT-TTTCTTGAA
* *
34648 TTGCCTTAAATACCTATATGCTCACAAGTTTTCTTGA
1 TTGCCTCAAATACCTATATCCTCACAAGTTTTCTTGA
34685 CATACTTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
38 32 0.97
39 1 0.03
ACGTcount: A:0.27, C:0.25, G:0.09, T:0.39
Consensus pattern (38 bp):
TTGCCTCAAATACCTATATCCTCACAAGTTTTCTTGAA
Found at i:41912 original size:2 final size:2
Alignment explanation
Indices: 41905--41930 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
41895 TATGATTTAA
41905 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
41931 TAATATAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:54754 original size:27 final size:28
Alignment explanation
Indices: 54704--54765 Score: 90
Period size: 27 Copynumber: 2.2 Consensus size: 28
54694 TGATGTTTTT
*
54704 ACCTTGAATTCATAATACAAAACCTTAA
1 ACCTTGAATCCATAATACAAAACCTTAA
* *
54732 ATCTTGAATCCA-AATCCAAAACCTTAA
1 ACCTTGAATCCATAATACAAAACCTTAA
54759 ACCTTGA
1 ACCTTGA
54766 CTCTAAACTC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
27 20 0.67
28 10 0.33
ACGTcount: A:0.44, C:0.24, G:0.05, T:0.27
Consensus pattern (28 bp):
ACCTTGAATCCATAATACAAAACCTTAA
Found at i:65794 original size:16 final size:16
Alignment explanation
Indices: 65773--65810 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
65763 AACAAGCTCG
* *
65773 TTTATTGACTCGTTTA
1 TTTATTGACACGTATA
65789 TTTATTGACACGTATA
1 TTTATTGACACGTATA
65805 TTTATT
1 TTTATT
65811 AATGATATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.24, C:0.11, G:0.11, T:0.55
Consensus pattern (16 bp):
TTTATTGACACGTATA
Found at i:66626 original size:29 final size:30
Alignment explanation
Indices: 66589--66655 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 30
66579 CAAGTTTTTG
*
66589 TTTTGAGCAT-CGAAAAAAAAAAATTTTCA
1 TTTTAAGCATCCGAAAAAAAAAAATTTTCA
* **
66618 TTTTAAGCATCGCGATAAAAAATTATTTTCA
1 TTTTAAGCATC-CGAAAAAAAAAAATTTTCA
66649 TTTTAAG
1 TTTTAAG
66656 TACTACCGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 9 0.28
31 23 0.72
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.37
Consensus pattern (30 bp):
TTTTAAGCATCCGAAAAAAAAAAATTTTCA
Found at i:69472 original size:753 final size:740
Alignment explanation
Indices: 68037--69534 Score: 2062
Period size: 753 Copynumber: 2.0 Consensus size: 740
68027 TTCTTCAGTC
* * * *
68037 TTTTTATTTTGAGCTTTGATTTTTTAAGAAAAAAGGGGAAAATGATGATAGTTATTGTCGCCTCA
1 TTTTTATTTTGAGCTATGATTTTTCAAGAAAAAAAGGGAAAATGATGATAGTTATTGTCGCCCCA
**
68102 GTCTTACTTTGCATACATTAATGTCTTTGTATGCAAAATTGGTGATTGACATTTTTATCTGATTT
66 GTCTTACTTTGCATACATTAATGTCTTCATATGCAAAATTGGTGATTGACATTTTTATCTGATTT
* * *
68167 CTATTCCTTCTAATATTGTCTGCCGCTTCATTTGTTTGCAAAATTTTGTCTAAAAAATATTATTT
131 CCATTCCTTCTAATATTGTCTGCAGCTTCACTTGTTTGCAAAA-TTTGTCTAAAAAATATTATTT
** *
68232 TTAATCTTGATTGAATGTGGATATGAAGATAGATCTTTGACACCCAGTCTGAGTTGCAATATGCT
195 TTAAAATTGATTGAATGTGGATATGAAGATAGATATTTGACACCCAGTCTGAGTTGCAATATGCT
*
68297 GAGACATTAGCGATCGACTATCTGATCCATTTACCATTACTCCAATGAGGGTTTAAACTGTAAAA
260 GAGACATTAGCGATCGACTATCTGATCCATTTACAATTACTCCAATGAGGGTTTAAACTGTAAAA
* *** * * **
68362 TATTCTCTTTTCTTGACTATTTTTTTTTTCTTTAGTTAGCAAAAAAAACCAATAAGCTCTAGTTT
325 TATTCTCTTTTATTGACTATTTTCAATTTCGTTAATTAGCAAAAAAAAAAAATAAGCTCTAGTTT
* *
68427 TTCTTATTGCTTCATTAGATTTGATTTTTTCAAAAGATATGTAAGGAGCTGTGATGAAACTTATC
390 TTCTTATTGCTTCATTAGATTCGATTTTTT-AAAAGATATGCAAGGAGCTGTGATGAAACTTATC
* * *
68492 CATCATTTCTGCATTTGAATGATGAATAGAAACATGCACTACCATCTGATCTCTTTTGTATATTT
454 CATCATTTCTGCATTTGAATGATGAATACAAACATGCACTACCATCTGATCTCTTTAGCATATTT
* * * *
68557 TCTTTACTTTTTTTGGTAATTGGGGTCAAATTTTAATTGATTTAATTGTTTTTTGCCTCGTTTTC
519 TCTTTACATTTTTTGGGAATTGAGGTCAAATTTTAATTGATTTAACTGTTTTTTGCCTCGTTTTC
* * * *
68622 CGTTAGTTGCTGCAATCTATGATGAAAATGAATAATCAAGCTTCATTTATGTTATGATGATTATA
584 CGTCAGTTGCTGCAATCTATGATGAAAATGAATAATCAAGCCTCATGTATCTTATGATGATTATA
* * * * * *
68687 TAAATAATCACCATCTTTCGATTGATATTGCTGATCTTTATTCACACAGTT-TATTGTAGCTCAG
649 TAAATAATCACCATCTTTCGACTGAGATTGCTGATCTTTATT-AAAAAATTATACTGTAGCTCAG
* *
68751 TCATGAAGATAATGATATAGGTCAAATG
713 TCATGAAGATAATGATATAGGTAAAAAG
68779 TTTTTATTTTGAGCTATG-TTTTTCAAGGAAAAAAAGGGAAAATGATGATAGTTATTGTCGCCCC
1 TTTTTATTTTGAGCTATGATTTTTCAA-GAAAAAAAGGGAAAATGATGATAGTTATTGTCGCCCC
*
68843 AGTCTTACTTTGCATATATTAATGTCTTCATATGCAAAATTGGTGATTGACATTTTTATCTGATT
65 AGTCTTACTTTGCATACATTAATGTCTTCATATGCAAAATTGGTGATTGACATTTTTATCTGATT
* * * *
68908 TCCGTTTCTTTTAATTATTGTCTGCAGCTTCACTTGTTTGCAAAA-TTGTCT-AAAAATCTTATT
130 TCCATTCCTTCTAA-TATTGTCTGCAGCTTCACTTGTTTGCAAAATTTGTCTAAAAAATATTATT
68971 TTTAAAAAAAAAATTGATTGAATGTGGATATGAAGATAGATATTTGACACCCAGTCTGAGTTGCA
194 TTT------AAAATTGATTGAATGTGGATATGAAGATAGATATTTGACACCCAGTCTGAGTTGCA
*
69036 ATATGCTGAGACATTAGCGATCGACTATCTGATCCATTTACAATTATTCCAATG-GGGTTGTAAA
253 ATATGCTGAGACATTAGCGATCGACTATCTGATCCATTTACAATTACTCCAATGAGGGTT-TAAA
* *
69100 CTGTAAAATATTCTCTTTTATTGATTATTTTCAATTT-GTTAATTTGCCAAACAGAAATTGCAAA
317 CTGTAAAATATTCTCTTTTATTGACTATTTTCAATTTCGTTAATTAG-CAAA-A-AAA----AAA
* * * *
69164 AAGTTATAGTTCTA-TTTTTGTTTTATGCTTCA-TAGGATTCGATTTTTT-TAAGATATGCAAGG
375 AA--TA-AGCTCTAGTTTTTCTTAT-TGCTTCATTA-GATTCGATTTTTTAAAAGATATGCAAGG
* * *
69226 AGGTGTGATGATACTTATCCATCATTTCTGCATTTGAATGATGAGTACAAACATGCACTACCATC
435 AGCTGTGATGAAACTTATCCATCATTTCTGCATTTGAATGATGAATACAAACATGCACTACCATC
*
69291 TGATCTCTTTAGCATATTTTGTTTA-ATTTTTTGGGAATTTGAGGTCAAATTTTAATTGATTTAA
500 TGATCTCTTTAGCATATTTTCTTTACATTTTTTGGGAA-TTGAGGTCAAATTTTAATTGATTTAA
* ** * * *
69355 CTGTTTTTTGCCTTGTTTTTTGTCAGTTGCTGCAATCTATGATGAAAATGAATCATCATGCCTGA
564 CTGTTTTTTGCCTCGTTTTCCGTCAGTTGCTGCAATCTATGATGAAAATGAATAATCAAGCCTCA
* * *
69420 TGTGTCTTATGATGATTATATAAATATTCACCATCTTTCGGCTGAGATTGCTGATCTTTATTAAA
629 TGTATCTTATGATGATTATATAAATAATCACCATCTTTCGACTGAGATTGCTGATCTTTATTAAA
* * * *
69485 AAATTATACTGTAGCTTAGTCTTGAAGTTACTGATATAGGTAAAAAG
694 AAATTATACTGTAGCTCAGTCATGAAGATAATGATATAGGTAAAAAG
69532 TTT
1 TTT
69535 AGCATTAAAC
Statistics
Matches: 662, Mismatches: 71, Indels: 35
0.86 0.09 0.05
Matches are distributed among these distances:
740 14 0.02
741 13 0.02
742 124 0.19
743 28 0.04
745 11 0.02
746 145 0.22
747 1 0.00
748 3 0.00
752 18 0.03
753 268 0.40
754 12 0.02
755 25 0.04
ACGTcount: A:0.29, C:0.13, G:0.16, T:0.42
Consensus pattern (740 bp):
TTTTTATTTTGAGCTATGATTTTTCAAGAAAAAAAGGGAAAATGATGATAGTTATTGTCGCCCCA
GTCTTACTTTGCATACATTAATGTCTTCATATGCAAAATTGGTGATTGACATTTTTATCTGATTT
CCATTCCTTCTAATATTGTCTGCAGCTTCACTTGTTTGCAAAATTTGTCTAAAAAATATTATTTT
TAAAATTGATTGAATGTGGATATGAAGATAGATATTTGACACCCAGTCTGAGTTGCAATATGCTG
AGACATTAGCGATCGACTATCTGATCCATTTACAATTACTCCAATGAGGGTTTAAACTGTAAAAT
ATTCTCTTTTATTGACTATTTTCAATTTCGTTAATTAGCAAAAAAAAAAAATAAGCTCTAGTTTT
TCTTATTGCTTCATTAGATTCGATTTTTTAAAAGATATGCAAGGAGCTGTGATGAAACTTATCCA
TCATTTCTGCATTTGAATGATGAATACAAACATGCACTACCATCTGATCTCTTTAGCATATTTTC
TTTACATTTTTTGGGAATTGAGGTCAAATTTTAATTGATTTAACTGTTTTTTGCCTCGTTTTCCG
TCAGTTGCTGCAATCTATGATGAAAATGAATAATCAAGCCTCATGTATCTTATGATGATTATATA
AATAATCACCATCTTTCGACTGAGATTGCTGATCTTTATTAAAAAATTATACTGTAGCTCAGTCA
TGAAGATAATGATATAGGTAAAAAG
Found at i:77979 original size:31 final size:32
Alignment explanation
Indices: 77915--77981 Score: 91
Period size: 32 Copynumber: 2.1 Consensus size: 32
77905 TACGAAATGA
*
77915 TCACAAAATTATTCAAAAGTTTTCATTTTAAG
1 TCACAAAACTATTCAAAAGTTTTCATTTTAAG
* * *
77947 TCACGAAACTATTCAAAATTTTTTA-TTTAAG
1 TCACAAAACTATTCAAAAGTTTTCATTTTAAG
77978 TCAC
1 TCAC
77982 TGAACTGTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
31 10 0.32
32 21 0.68
ACGTcount: A:0.39, C:0.15, G:0.06, T:0.40
Consensus pattern (32 bp):
TCACAAAACTATTCAAAAGTTTTCATTTTAAG
Found at i:78971 original size:30 final size:30
Alignment explanation
Indices: 78935--79000 Score: 114
Period size: 30 Copynumber: 2.2 Consensus size: 30
78925 ATTTACATTT
*
78935 CAGTCCCTCAACTTTAAAAATGTGACAAAG
1 CAGTCCCTCAACTTTAAAAATGTGACAAAA
*
78965 CAGTCCCTCAACTTTGAAAATGTGACAAAA
1 CAGTCCCTCAACTTTAAAAATGTGACAAAA
78995 CAGTCC
1 CAGTCC
79001 TTTTTCGTCA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.38, C:0.26, G:0.14, T:0.23
Consensus pattern (30 bp):
CAGTCCCTCAACTTTAAAAATGTGACAAAA
Found at i:80149 original size:32 final size:31
Alignment explanation
Indices: 80085--80144 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 31
80075 AAGAGGACTA
*
80085 TTTTGTCACTTTTCGATAAGTTTAGTGATTG
1 TTTTGTCACTTTTCGATAAGTTAAGTGATTG
80116 TTTTGTCACATTTTC-A-AAGTTAAGTGATT
1 TTTTGTCAC-TTTTCGATAAGTTAAGTGATT
80145 TTGTTAAATG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 12 0.44
31 10 0.37
32 5 0.19
ACGTcount: A:0.23, C:0.10, G:0.17, T:0.50
Consensus pattern (31 bp):
TTTTGTCACTTTTCGATAAGTTAAGTGATTG
Found at i:80678 original size:16 final size:17
Alignment explanation
Indices: 80641--80678 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
80631 CCCTAAAAGA
*
80641 AAATTTGGATTGCAAAT
1 AAATTTGGAATGCAAAT
80658 AAATTTGGAATG-AAAT
1 AAATTTGGAATGCAAAT
*
80674 GAATT
1 AAATT
80679 AAAATTTAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.45, C:0.03, G:0.18, T:0.34
Consensus pattern (17 bp):
AAATTTGGAATGCAAAT
Found at i:84700 original size:15 final size:16
Alignment explanation
Indices: 84674--84703 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
84664 TGTGGTTGAT
84674 GTGAATTTTAATATTA
1 GTGAATTTTAATATTA
84690 GTGAA-TTTAATATT
1 GTGAATTTTAATATT
84704 TTGGAGATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.50
Consensus pattern (16 bp):
GTGAATTTTAATATTA
Done.