Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01011365.1 Kokia drynarioides strain JFW-HI SEQ_126346, 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: 66227
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.34
Warning! 136 characters in sequence are not A, C, G, or T
Found at i:3154 original size:14 final size:14
Alignment explanation
Indices: 3135--3171 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
3125 TCGTTTCACT
*
3135 AAAAATAATTTTAA
1 AAAAATAATTTCAA
3149 AAAAATAATTTCAA
1 AAAAATAATTTCAA
3163 AAATAATAA
1 AAA-AATAA
3172 AAAATAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 16 0.76
15 5 0.24
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (14 bp):
AAAAATAATTTCAA
Found at i:10742 original size:20 final size:21
Alignment explanation
Indices: 10708--10764 Score: 73
Period size: 20 Copynumber: 2.7 Consensus size: 21
10698 AAATCATTTC
10708 ATATTTATATTTTTTAATT-TA
1 ATATTT-TATTTTTTAATTGTA
10729 A-ATTTTATTATTTTAATTGTA
1 ATATTTTATT-TTTTAATTGTA
*
10750 ATATTATATTTTTTA
1 ATATTTTATTTTTTA
10765 CAATTATTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
19 4 0.12
20 12 0.38
21 9 0.28
22 7 0.22
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (21 bp):
ATATTTTATTTTTTAATTGTA
Found at i:29117 original size:18 final size:19
Alignment explanation
Indices: 29096--29136 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
29086 CTTTAGATTT
*
29096 GTTTTAAAATTTA-ATAAA
1 GTTTTAAAATATATATAAA
*
29114 GTTTAAAAATATATATAAA
1 GTTTTAAAATATATATAAA
29133 -TTTT
1 GTTTT
29137 GGAATTTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 2
0.79 0.12 0.08
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (19 bp):
GTTTTAAAATATATATAAA
Found at i:32899 original size:62 final size:65
Alignment explanation
Indices: 32827--32967 Score: 148
Period size: 62 Copynumber: 2.2 Consensus size: 65
32817 TAAAAAATAA
* * * *
32827 AATATGTTAAATGTTCG-ATCTGTA-TTACATATTACAATTATTTAA-A-TTTATTTTTATCAAA
1 AATAT-TTAAATGTTCGCAT-TATATTTAAATATTACAATCATTTAACATTTTATTTTTACCAAA
32888 TT
64 TT
* ** *
32890 AATATTTAAAT-ATCGCATTATATTTAAATATTGTAATCATTTAACATTTTTTTTTTACCAAATT
1 AATATTTAAATGTTCGCATTATATTTAAATATTACAATCATTTAACATTTTATTTTTACCAAATT
*
32954 AATATCTAAATGTT
1 AATATTTAAATGTT
32968 ACTTTGTATT
Statistics
Matches: 63, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
61 6 0.10
62 25 0.40
63 6 0.10
64 25 0.40
65 1 0.02
ACGTcount: A:0.38, C:0.09, G:0.05, T:0.49
Consensus pattern (65 bp):
AATATTTAAATGTTCGCATTATATTTAAATATTACAATCATTTAACATTTTATTTTTACCAAATT
Found at i:39010 original size:2 final size:2
Alignment explanation
Indices: 39000--39045 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
38990 TGTAAAAAAT
*
39000 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
39042 TA TA
1 TA TA
39046 AACAATAATT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:40981 original size:3 final size:3
Alignment explanation
Indices: 40973--40998 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
40963 ACTCATGATA
40973 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
40999 GTGATGGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:45461 original size:62 final size:58
Alignment explanation
Indices: 45395--45525 Score: 165
Period size: 62 Copynumber: 2.2 Consensus size: 58
45385 AAAAAAACTT
* * *
45395 AATTTTGTGAGATTTAAAAATATCACGAAAATAAGTGAGAAAAAAGACATCATAAAAAAT-CC
1 AATTTGGTGAGATTTAAAAATATCACGAAAAGAA---A-AAAAAA-ACATCACAAAAAATCCC
* *
45457 AATTTGGTAAGGTTTAAAAATATCACGAAAAGAAAAAAAAAACATCACAAAAAATCCC
1 AATTTGGTGAGATTTAAAAATATCACGAAAAGAAAAAAAAAACATCACAAAAAATCCC
45515 AATTTGGTGAG
1 AATTTGGTGAG
45526 CTCTCACGGA
Statistics
Matches: 62, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
57 13 0.21
58 18 0.29
59 1 0.02
62 30 0.48
ACGTcount: A:0.53, C:0.11, G:0.14, T:0.23
Consensus pattern (58 bp):
AATTTGGTGAGATTTAAAAATATCACGAAAAGAAAAAAAAAACATCACAAAAAATCCC
Found at i:48361 original size:2 final size:2
Alignment explanation
Indices: 48344--48375 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
48334 AAATGAATTG
48344 AT AT A- AT AT A- 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 AT AT AT AT
48376 TAGAGGAGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 26 0.93
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:52742 original size:21 final size:21
Alignment explanation
Indices: 52683--52744 Score: 56
Period size: 21 Copynumber: 2.9 Consensus size: 21
52673 AAGTAAAAAG
52683 TGCTTCTCTTTTATTC-T-TTC
1 TGCTTCTC-TTTATTCATCTTC
* *
52703 TTCTTCTTCTTCATCTTCATCTTC
1 TGCTTC-TCTT--TATTCATCTTC
52727 TGCTTCTCTTTATTCATC
1 TGCTTCTCTTTATTCATC
52745 AGTCATGATG
Statistics
Matches: 33, Mismatches: 4, Indels: 9
0.72 0.09 0.20
Matches are distributed among these distances:
20 7 0.21
21 9 0.27
22 4 0.12
23 5 0.15
24 8 0.24
ACGTcount: A:0.08, C:0.29, G:0.03, T:0.60
Consensus pattern (21 bp):
TGCTTCTCTTTATTCATCTTC
Found at i:56900 original size:12 final size:12
Alignment explanation
Indices: 56883--56907 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
56873 AAAGGCAATC
56883 CCAAGTCCAAGA
1 CCAAGTCCAAGA
56895 CCAAGTCCAAGA
1 CCAAGTCCAAGA
56907 C
1 C
56908 GGGCGGTTCC
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:0.40, C:0.36, G:0.16, T:0.08
Consensus pattern (12 bp):
CCAAGTCCAAGA
Found at i:62539 original size:11 final size:11
Alignment explanation
Indices: 62502--62551 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
62492 CTGGTGTTTT
62502 TTTTTCTGTTA
1 TTTTTCTGTTA
* *
62513 TTTTTGTCGTTG
1 TTTTTCT-GTTA
62525 TTTTTCTGTTA
1 TTTTTCTGTTA
* *
62536 TTTTACTATTA
1 TTTTTCTGTTA
62547 TTTTT
1 TTTTT
62552 TTTGTTGTTT
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
11 22 0.71
12 9 0.29
ACGTcount: A:0.10, C:0.08, G:0.10, T:0.72
Consensus pattern (11 bp):
TTTTTCTGTTA
Found at i:63406 original size:17 final size:17
Alignment explanation
Indices: 63378--63450 Score: 103
Period size: 17 Copynumber: 4.4 Consensus size: 17
63368 TTGAAAATTG
63378 AATTTA-TTTAAATTTA
1 AATTTATTTTAAATTTA
*
63394 AGTTTATTTTAAATTTA
1 AATTTATTTTAAATTTA
*
63411 AATTTATTTGAAATTTA
1 AATTTATTTTAAATTTA
* *
63428 AATTTATTATAAAATTA
1 AATTTATTTTAAATTTA
63445 AATTTA
1 AATTTA
63451 GAAAGTCCAA
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
16 5 0.10
17 45 0.90
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
AATTTATTTTAAATTTA
Found at i:63426 original size:7 final size:6
Alignment explanation
Indices: 63383--63450 Score: 56
Period size: 6 Copynumber: 11.8 Consensus size: 6
63373 AATTGAATTT
* *
63383 ATTTAA ATTTAA GTTT-A TTTTAA ATTTAA ATTT-- ATTTGAA ATTTAA
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTT-AA ATTTAA
*
63429 ATTT-- ATTATAA AATTAA ATTTA
1 ATTTAA ATT-TAA ATTTAA ATTTA
63451 GAAAGTCCAA
Statistics
Matches: 50, Mismatches: 5, Indels: 14
0.72 0.07 0.20
Matches are distributed among these distances:
4 7 0.14
5 5 0.10
6 32 0.64
7 6 0.12
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (6 bp):
ATTTAA
Found at i:63434 original size:34 final size:33
Alignment explanation
Indices: 63371--63450 Score: 115
Period size: 34 Copynumber: 2.4 Consensus size: 33
63361 GAACTTATTG
* * *
63371 AAAATTGAATTTATTTAAATTTAAGTTTATTTT
1 AAAATTAAATTTATTTAAATTTAAATTTATTAT
*
63404 AAATTTAAATTTATTTGAAATTTAAATTTATTAT
1 AAAATTAAATTTATTT-AAATTTAAATTTATTAT
63438 AAAATTAAATTTA
1 AAAATTAAATTTA
63451 GAAAGTCCAA
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
33 14 0.34
34 27 0.66
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (33 bp):
AAAATTAAATTTATTTAAATTTAAATTTATTAT
Found at i:63505 original size:15 final size:15
Alignment explanation
Indices: 63481--63537 Score: 69
Period size: 15 Copynumber: 3.7 Consensus size: 15
63471 AAAACAAAGT
63481 CCAATTACAAATGGC
1 CCAATTACAAATGGC
*
63496 CCAATAACAAATGGC
1 CCAATTACAAATGGC
* *
63511 CCAGTTACAGATGGCC
1 CCAATTACAAATGG-C
*
63527 CCAAATACAAA
1 CCAATTACAAA
63538 CTACCCAAAA
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
15 25 0.74
16 9 0.26
ACGTcount: A:0.42, C:0.28, G:0.14, T:0.16
Consensus pattern (15 bp):
CCAATTACAAATGGC
Found at i:64156 original size:15 final size:15
Alignment explanation
Indices: 64136--64181 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
64126 AAATGTTTTG
64136 ATATTAATAATAATA
1 ATATTAATAATAATA
* *
64151 ATATTAATAATTATT
1 ATATTAATAATAATA
64166 A-ATTAATAATTAATA
1 ATATTAATAA-TAATA
64181 A
1 A
64182 AAAAACGAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
14 8 0.31
15 18 0.69
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
ATATTAATAATAATA
Found at i:64168 original size:7 final size:7
Alignment explanation
Indices: 64143--64181 Score: 55
Period size: 7 Copynumber: 5.9 Consensus size: 7
64133 TTGATATTAA
64143 TAATAA-
1 TAATAAT
64149 TAAT-AT
1 TAATAAT
64155 TAATAAT
1 TAATAAT
*
64162 TATTAAT
1 TAATAAT
64169 TAATAAT
1 TAATAAT
64176 TAATAA
1 TAATAA
64182 AAAAACGAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
5 1 0.03
6 8 0.28
7 20 0.69
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
TAATAAT
Found at i:65448 original size:59 final size:59
Alignment explanation
Indices: 65288--65898 Score: 788
Period size: 59 Copynumber: 10.4 Consensus size: 59
65278 GGAGGTCCTT
* * * *
65288 GAACTTTCCAAAAATCACCATTTTACCCCTGAACTTCCAAAAATCTCATTTTTGACCCC
1 GAACTTTCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCTC
*
65347 GAACTTTCCAAAAA-TACCATTTTACCCCCGAACTTCAAAAAATCCCATTTTTGACCTC
1 GAACTTTCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCTC
* **
65405 GAACTTTCCAAAAATTACCATTTTACCCTCGAACTTCCAAAAATCCCATTTTTGATATC
1 GAACTTTCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCTC
* * * * *
65464 GAACCTTCTAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCTCTTTTTTGACCCC
1 GAACTTTCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCTC
* * * *
65523 AAACCTTCCAAAAATTACCA-TTTACCCCCGAACTTCCAAAAATCTCATTTTTGACCCC
1 GAACTTTCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCTC
*
65581 GAACTTTCCAAAAATTACCATTTTACCCTCGAACTTCCAAAAATCCCATTTTTGACCTC
1 GAACTTTCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCTC
* * * * *
65640 GAACCTTCTAAAAATTACCGTTTTATCCCCGAACTTCCACAAATCCCATTTTT-ACC-C
1 GAACTTTCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCTC
* * * * *
65697 TAAAATTTCCAAAAATTATCATTTTACCCCCAAACTTCCAAAAAATCCCTTTTTTGACCTC
1 -GAACTTTCCAAAAATTACCATTTTACCCCCGAACTTCC-AAAAATCCCATTTTTGACCTC
*
65758 GAA-TATTCTAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCTC
1 GAACT-TTCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCTC
* * * * * *
65817 GAA-TCTTCTAAAAATTACCATTTTACCCTCGAACTTCTAGAAATCCTATTTTTGA-TTCC
1 GAACT-TTCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCT-C
* *
65876 GAACATTCC-AAAACTACCATTTT
1 GAACTTTCCAAAAATTACCATTTT
65899 GCCACTCCGT
Statistics
Matches: 488, Mismatches: 55, Indels: 19
0.87 0.10 0.03
Matches are distributed among these distances:
57 1 0.00
58 155 0.32
59 296 0.61
60 35 0.07
61 1 0.00
ACGTcount: A:0.33, C:0.30, G:0.05, T:0.32
Consensus pattern (59 bp):
GAACTTTCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCTC
Found at i:65515 original size:117 final size:117
Alignment explanation
Indices: 65288--65898 Score: 777
Period size: 117 Copynumber: 5.2 Consensus size: 117
65278 GGAGGTCCTT
* *
65288 GAACTTTCCAAAAATCACCATTTTACCCCTGAACTTCCAAAAATCTCATTTTTGACCCCGAACTT
1 GAACTTTCCAAAAATTACCATTTTACCCC-GAACTTCCAAAAATCCCATTTTTGACCCCGAACTT
*
65353 TCCAAAAA-TACCATTTTACCCCCGAACTTCAAAAAATCCCATTTTTGACCTC
65 TCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCTC
*** *
65405 GAACTTTCCAAAAATTACCATTTTACCCTCGAACTTCCAAAAATCCCATTTTTGATATCGAACCT
1 GAACTTTCCAAAAATTACCATTTTACCC-CGAACTTCCAAAAATCCCATTTTTGACCCCGAACTT
* * * *
65470 TCTAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCTCTTTTTTGACCCC
65 TCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCTC
* * *
65523 AAACCTTCCAAAAATTACCA-TTTACCCCCGAACTTCCAAAAATCTCATTTTTGACCCCGAACTT
1 GAACTTTCCAAAAATTACCATTTTA-CCCCGAACTTCCAAAAATCCCATTTTTGACCCCGAACTT
*
65587 TCCAAAAATTACCATTTTACCCTCGAACTTCCAAAAATCCCATTTTTGACCTC
65 TCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCTC
* * * * ** *
65640 GAACCTTCTAAAAATTACCGTTTTATCCCCGAACTTCCACAAATCCCATTTTT-ACCCTAAAATT
1 GAACTTTCCAAAAATTACCATTTTA-CCCCGAACTTCCAAAAATCCCATTTTTGACCCCGAACTT
* * *
65704 TCCAAAAATTATCATTTTACCCCCAAACTTCCAAAAAATCCCTTTTTTGACCTC
65 TCCAAAAATTACCATTTTACCCCCGAACTTCC-AAAAATCCCATTTTTGACCTC
* *
65758 GAA-TATTCTAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCTCGAA-T
1 GAACT-TTCCAAAAATTACCATTTTA-CCCCGAACTTCCAAAAATCCCATTTTTGACCCCGAACT
* * * * * *
65821 CTTCTAAAAATTACCATTTTACCCTCGAACTTCTAGAAATCCTATTTTTGA-TTCC
64 -TTCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCT-C
* *
65876 GAACATTCC-AAAACTACCATTTT
1 GAACTTTCCAAAAATTACCATTTT
65899 GCCACTCCGT
Statistics
Matches: 429, Mismatches: 55, Indels: 20
0.85 0.11 0.04
Matches are distributed among these distances:
117 215 0.50
118 181 0.42
119 33 0.08
ACGTcount: A:0.33, C:0.30, G:0.05, T:0.32
Consensus pattern (117 bp):
GAACTTTCCAAAAATTACCATTTTACCCCGAACTTCCAAAAATCCCATTTTTGACCCCGAACTTT
CCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCTC
Found at i:65598 original size:176 final size:177
Alignment explanation
Indices: 65288--65898 Score: 865
Period size: 176 Copynumber: 3.5 Consensus size: 177
65278 GGAGGTCCTT
* * * * *
65288 GAACTTTCCAAAAATCACCATTTTACCCCTGAACTTCCAAAAATCTCATTTTTGACCCCGAACTT
1 GAACCTTCTAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCTCATTTTTGACCCCAAACTT
*
65353 TCCAAAAA-TACCATTTTACCCCCGAACTTCAAAAAATCCCATTTTTGACCTCGAACTTTCCAAA
66 TCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCTCGAACTTTCCAAA
**
65417 AATTACCATTTTACCCTCGAACTTCCAAAAATCCCATTTTTGATATC
131 AATTACCATTTTACCCTCGAACTTCCAAAAATCCCATTTTTGACCTC
* *
65464 GAACCTTCTAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCTCTTTTTTGACCCCAAACCT
1 GAACCTTCTAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCTCATTTTTGACCCCAAACTT
* *
65529 TCCAAAAATTACCA-TTTACCCCCGAACTTCCAAAAATCTCATTTTTGACCCCGAACTTTCCAAA
66 TCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCTCGAACTTTCCAAA
65593 AATTACCATTTTACCCTCGAACTTCCAAAAATCCCATTTTTGACCTC
131 AATTACCATTTTACCCTCGAACTTCCAAAAATCCCATTTTTGACCTC
* * * * * *
65640 GAACCTTCTAAAAATTACCGTTTTATCCCCGAACTTCCACAAATCCCATTTTT-ACCCTAAAATT
1 GAACCTTCTAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCTCATTTTTGACCCCAAACTT
* * * *
65704 TCCAAAAATTATCATTTTACCCCCAAACTTCCAAAAAATCCCTTTTTTGACCTCGAA-TATTCTA
66 TCCAAAAATTACCATTTTACCCCCGAACTTCC-AAAAATCCCATTTTTGACCTCGAACT-TTCCA
*
65768 AAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCTC
129 AAAATTACCATTTTACCCTCGAACTTCCAAAAATCCCATTTTTGACCTC
* * * * ** * *
65817 GAATCTTCTAAAAATTACCATTTTACCCTCGAACTTCTAGAAATC-CTATTTTTGATTCCGAACA
1 GAACCTTCTAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCTC-ATTTTTGACCCCAAACT
*
65881 TTCC-AAAACTACCATTTT
65 TTCCAAAAATTACCATTTT
65899 GCCACTCCGT
Statistics
Matches: 388, Mismatches: 41, Indels: 11
0.88 0.09 0.03
Matches are distributed among these distances:
175 21 0.05
176 224 0.58
177 135 0.35
178 8 0.02
ACGTcount: A:0.33, C:0.30, G:0.05, T:0.32
Consensus pattern (177 bp):
GAACCTTCTAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCTCATTTTTGACCCCAAACTT
TCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCTCGAACTTTCCAAA
AATTACCATTTTACCCTCGAACTTCCAAAAATCCCATTTTTGACCTC
Found at i:65869 original size:29 final size:28
Alignment explanation
Indices: 65308--65869 Score: 273
Period size: 29 Copynumber: 19.1 Consensus size: 28
65298 AAAATCACCA
*
65308 TTTTACCC-CTGAACTTCCAAAAATCTCAT
1 TTTTACCCTC-GAACTTCTAAAAATC-CAT
*
65337 TTTTGACCC-CGAACTTTCCAAAAATACCA-
1 TTTT-ACCCTCGAAC-TTCTAAAAAT-CCAT
* *
65366 TTTTACCCCCGAACTTCAAAAAATCCCAT
1 TTTTACCCTCGAACTTCTAAAAAT-CCAT
*
65395 TTTTGA-CCTCGAACTTTCCAAAAATTACCA-
1 TTTT-ACCCTCGAAC-TTCTAAAAA-T-CCAT
*
65425 TTTTACCCTCGAACTTCCAAAAATCCCAT
1 TTTTACCCTCGAACTTCTAAAAAT-CCAT
**
65454 TTTTGA-TATCGAACCTTCTAAAAATTACCA-
1 TTTT-ACCCTCGAA-CTTCTAAAAA-T-CCAT
* * *
65484 TTTTACCCCCGAACTTCCAAAAATCTCTT
1 TTTTACCCTCGAACTTCTAAAAATC-CAT
* *
65513 TTTTGACCC-CAAACCTTCCAAAAATTACCA-
1 TTTT-ACCCTCGAA-CTTCTAAAAA-T-CCAT
* *
65543 -TTTACCCCCGAACTTCCAAAAATCTCAT
1 TTTTACCCTCGAACTTCTAAAAATC-CAT
*
65571 TTTTGACCC-CGAACTTTCCAAAAATTACCA-
1 TTTT-ACCCTCGAAC-TTCTAAAAA-T-CCAT
*
65601 TTTTACCCTCGAACTTCCAAAAATCCCAT
1 TTTTACCCTCGAACTTCTAAAAAT-CCAT
*
65630 TTTTGA-CCTCGAACCTTCTAAAAATTACC-G
1 TTTT-ACCCTCGAA-CTTCTAAAAA-T-CCAT
* *
65660 TTTTATCCC-CGAACTTCCACAAATCCCAT
1 TTTTA-CCCTCGAACTTCTAAAAAT-CCAT
** * * *
65689 TTTTACCCTAAAATTTCCAAAAAT-TAT
1 TTTTACCCTCGAACTTCTAAAAATCCAT
* * * *
65716 CATTTTACCCCCAAACTTCCAAAAAATCCCTT
1 --TTTTACCCTCGAACTT-CTAAAAAT-CCAT
*
65748 TTTTGA-CCTCGAATATTCTAAAAATTACCA-
1 TTTT-ACCCTCGAA-CTTCTAAAAA-T-CCAT
* *
65778 TTTTACCCCCGAACTTCCAAAAATCCCAT
1 TTTTACCCTCGAACTTCTAAAAAT-CCAT
65807 TTTTGA-CCTCGAATCTTCTAAAAATTACCA-
1 TTTT-ACCCTCGAA-CTTCTAAAAA-T-CCAT
*
65837 TTTTACCCTCGAACTTCTAGAAATCCTAT
1 TTTTACCCTCGAACTTCTAAAAATCC-AT
65866 TTTT
1 TTTT
65870 GATTCCGAAC
Statistics
Matches: 429, Mismatches: 51, Indels: 106
0.73 0.09 0.18
Matches are distributed among these distances:
26 1 0.00
27 8 0.02
28 52 0.12
29 173 0.40
30 163 0.38
31 29 0.07
32 3 0.01
ACGTcount: A:0.33, C:0.30, G:0.05, T:0.33
Consensus pattern (28 bp):
TTTTACCCTCGAACTTCTAAAAATCCAT
Done.