Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01003720.1 Kokia drynarioides strain JFW-HI SEQ_116673, 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: 45072
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.32
Found at i:3368 original size:20 final size:20
Alignment explanation
Indices: 3313--3498 Score: 95
Period size: 20 Copynumber: 9.4 Consensus size: 20
3303 CTCATACTAT
3313 TATTCTCAT-ATAATTTTTT-
1 TATTCTC-TCATAATTTTTTG
*
3332 TATATTTCTTCAT-ATTTTTTG
1 TAT-TCTC-TCATAATTTTTTG
* *
3353 TATTCTCTCATAATTTGTAG
1 TATTCTCTCATAATTTTTTG
* * *
3373 TACTATCTCATAACTTTTTTTT
1 TATTCTCTCATAA--TTTTTTG
* *
3395 TAATTCT-TTAGAA--TTTTG
1 T-ATTCTCTCATAATTTTTTG
* *
3413 TATT-TCCTCGTAACTTTTTG
1 TATTCT-CTCATAATTTTTTG
*
3433 TA-T-TCT-ATAATTATTTG
1 TATTCTCTCATAATTTTTTG
* *
3450 TAATCTCTCATAATTTTTAG
1 TATTCTCTCATAATTTTTTG
*
3470 TATTCTCTTATAATTTTTTTG
1 TATTCTCTCATAA-TTTTTTG
*
3491 TATGCTCT
1 TATTCTCT
3499 TGGTATGCTT
Statistics
Matches: 125, Mismatches: 27, Indels: 28
0.69 0.15 0.16
Matches are distributed among these distances:
16 1 0.01
17 13 0.10
18 11 0.09
19 12 0.10
20 58 0.46
21 18 0.14
22 9 0.07
23 3 0.02
ACGTcount: A:0.23, C:0.13, G:0.06, T:0.58
Consensus pattern (20 bp):
TATTCTCTCATAATTTTTTG
Found at i:3610 original size:22 final size:22
Alignment explanation
Indices: 3567--3610 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
3557 TTATTTTTGC
**
3567 ATACTAATAAAATTTATTATAT
1 ATACTAATAAAATTTAAAATAT
*
3589 ATACTAATAAATTTTAAAATAT
1 ATACTAATAAAATTTAAAATAT
3611 TGAAAATTGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (22 bp):
ATACTAATAAAATTTAAAATAT
Found at i:3698 original size:19 final size:20
Alignment explanation
Indices: 3659--3717 Score: 68
Period size: 19 Copynumber: 3.0 Consensus size: 20
3649 CCAATAATTA
* * *
3659 GTATTTCCTTATAAATTTTG
1 GTATTCCCTCATAATTTTTG
3679 GTACTT-CCTCAT-ATTTTTG
1 GTA-TTCCCTCATAATTTTTG
3698 GTATTCCCTCATAATTTTTG
1 GTATTCCCTCATAATTTTTG
3718 ATATACTTTC
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
18 2 0.06
19 15 0.44
20 15 0.44
21 2 0.06
ACGTcount: A:0.20, C:0.17, G:0.10, T:0.53
Consensus pattern (20 bp):
GTATTCCCTCATAATTTTTG
Found at i:5265 original size:11 final size:11
Alignment explanation
Indices: 5251--5298 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
5241 TTTTAAATAT
5251 AATTTATTTTA
1 AATTTATTTTA
*
5262 AATTTAAATTTA
1 AATTT-ATTTTA
* *
5274 AATTAAGTTTA
1 AATTTATTTTA
5285 AATTTACTTTTA
1 AATTTA-TTTTA
5297 AA
1 AA
5299 ATTAAAATTA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
11 15 0.50
12 15 0.50
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (11 bp):
AATTTATTTTA
Found at i:5279 original size:5 final size:6
Alignment explanation
Indices: 5258--5321 Score: 60
Period size: 6 Copynumber: 11.0 Consensus size: 6
5248 TATAATTTAT
* ** *
5258 TTTAAA TTTAAA TTTAAA -TTAAG TTTAAA TTTACT TTTAAA ATTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* *
5305 ATT-AT TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA
5322 AAGTCTCATT
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
5 7 0.15
6 39 0.85
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (6 bp):
TTTAAA
Found at i:5322 original size:17 final size:17
Alignment explanation
Indices: 5214--5321 Score: 112
Period size: 17 Copynumber: 6.4 Consensus size: 17
5204 TAAATTCCTT
*
5214 TTTAAATTTATTATAAGA
1 TTTAAATTTATTTTAA-A
*
5232 -TTAAAATTATTTTAAA
1 TTTAAATTTATTTTAAA
*
5248 TAT-AATTTATTTTAAA
1 TTTAAATTTATTTTAAA
** *
5264 TTTAAATTTAAATTAAG
1 TTTAAATTTATTTTAAA
5281 TTTAAATTTACTTTTAAA
1 TTTAAATTTA-TTTTAAA
* *
5299 ATTAAAATTATTTTAAA
1 TTTAAATTTATTTTAAA
5316 TTTAAA
1 TTTAAA
5322 AAGTCTCATT
Statistics
Matches: 73, Mismatches: 14, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
16 15 0.21
17 46 0.63
18 12 0.16
ACGTcount: A:0.46, C:0.01, G:0.02, T:0.51
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:5997 original size:13 final size:13
Alignment explanation
Indices: 5981--6055 Score: 57
Period size: 13 Copynumber: 5.8 Consensus size: 13
5971 CAAAACATAT
5981 TTAATAA-AGAGTA
1 TTAATAATA-AGTA
*
5994 TTAATAATAATTA
1 TTAATAATAAGTA
6007 TTAATAAT-AGTA
1 TTAATAATAAGTA
* *
6019 ATAATAATAAATA
1 TTAATAATAAGTA
* *
6032 TAACATTAATAA-TG
1 TTA-A-TAATAAGTA
6046 TTAATAATAA
1 TTAATAATAA
6056 AATAAAAAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
12 16 0.32
13 23 0.46
14 5 0.10
15 6 0.12
ACGTcount: A:0.56, C:0.01, G:0.05, T:0.37
Consensus pattern (13 bp):
TTAATAATAAGTA
Found at i:7247 original size:30 final size:29
Alignment explanation
Indices: 7211--7480 Score: 251
Period size: 30 Copynumber: 9.1 Consensus size: 29
7201 TATTTTGGCT
*
7211 CCTCGAACTTCTCAAAAATTACATTTTAAC
1 CCTCGAACTT-TCAAAAATTACATTTTTAC
*
7241 CCTCGAACTTTCCAAAAATTACATTTTGA-
1 CCTCGAACTTT-CAAAAATTACATTTTTAC
* * *
7270 CCTCTAATTTTACAAAAATTACATTTTAAC
1 CCTCGAACTTT-CAAAAATTACATTTTTAC
* *
7300 CCTCGAACTTTGCAAAAATCATATTTTTAC
1 CCTCGAACTTT-CAAAAATTACATTTTTAC
*
7330 CCTCGAACTTTCCAAAAATTACATTTTGAC
1 CCTCGAACTTT-CAAAAATTACATTTTTAC
* * *
7360 CC-CTAAACTTTTCAAAAATCATATTTTTAC
1 CCTC-GAAC-TTTCAAAAATTACATTTTTAC
* **
7390 CCTCGAAGTTTTTAAAATTACATTTTTAC
1 CCTCGAACTTTCAAAAATTACATTTTTAC
* * *
7419 CCTCGAAATTCCAAAAATTTACATTTTTGC
1 CCTCGAACTTTCAAAAA-TTACATTTTTAC
* *
7449 CCACGAA-TTTCCAAAAATAACCA-TTTTAC
1 CCTCGAACTTT-CAAAAATTA-CATTTTTAC
7478 CCT
1 CCT
7481 AGGATGTCCA
Statistics
Matches: 197, Mismatches: 35, Indels: 17
0.79 0.14 0.07
Matches are distributed among these distances:
29 68 0.35
30 125 0.63
31 4 0.02
ACGTcount: A:0.35, C:0.24, G:0.04, T:0.36
Consensus pattern (29 bp):
CCTCGAACTTTCAAAAATTACATTTTTAC
Found at i:7301 original size:59 final size:60
Alignment explanation
Indices: 7180--7505 Score: 269
Period size: 59 Copynumber: 5.5 Consensus size: 60
7170 CCTAAAAGGT
* * * * *
7180 CCCT-GAACTATCCAAAAATCATATTTTGGCTCCTCGAA-CTTCTCAAAAATTACATTTTAA
1 CCCTCGAACTTTCCAAAAATTACATTTTGAC-CCTCGAATTTTC-CAAAAATTACATTTTAA
* *
7240 CCCTCGAACTTTCCAAAAATTACATTTTGA-CCTCTAATTTTACAAAAATTACATTTTAA
1 CCCTCGAACTTTCCAAAAATTACATTTTGACCCTCGAATTTTCCAAAAATTACATTTTAA
* * * * * *
7299 CCCTCGAACTTTGCAAAAATCATATTTTTACCCTCGAACTTTCCAAAAATTACATTTTGA
1 CCCTCGAACTTTCCAAAAATTACATTTTGACCCTCGAATTTTCCAAAAATTACATTTTAA
* * * * * * *
7359 CCC-CTAAACTTTTCAAAAATCATATTTTTACCCTCGAAGTTTT--TAAAATTACATTTTTA
1 CCCTC-GAACTTTCCAAAAATTACATTTTGACCCTCGAA-TTTTCCAAAAATTACATTTTAA
* * *
7418 CCCTCGAA-ATTCCAAAAATTTACATTTTTG-CCCACGAA-TTTCCAAAAATAACCATTTT-A
1 CCCTCGAACTTTCCAAAAA-TTACA-TTTTGACCCTCGAATTTTCCAAAAATTA-CATTTTAA
* * *
7477 CCCTAGGA-TGTCCAAAAATTACCATTTTG
1 CCCTCGAACTTTCCAAAAATTA-CATTTTG
7506 CTCACAAGTG
Statistics
Matches: 221, Mismatches: 33, Indels: 26
0.79 0.12 0.09
Matches are distributed among these distances:
57 3 0.01
58 16 0.07
59 102 0.46
60 76 0.34
61 24 0.11
ACGTcount: A:0.35, C:0.24, G:0.06, T:0.36
Consensus pattern (60 bp):
CCCTCGAACTTTCCAAAAATTACATTTTGACCCTCGAATTTTCCAAAAATTACATTTTAA
Found at i:7344 original size:89 final size:89
Alignment explanation
Indices: 7192--7445 Score: 316
Period size: 89 Copynumber: 2.8 Consensus size: 89
7182 CTGAACTATC
* ** *
7192 CAAAAATCATATTTTGGCTCCTCGAACTTCTCAAAAATTACATTTTAACCCTCGAACTTTCCAAA
1 CAAAAATCACATTTTAAC-CCTCGAACTT-TCAAAAATTACATTTTTACCCTCGAACTTTCCAAA
*
7257 AATTACATTTTGACCTCT-AA-TTTT
64 AATTACATTTTGACCCCTAAACTTTT
* * *
7281 ACAAAAATTACATTTTAACCCTCGAACTTTGCAAAAATCATATTTTTACCCTCGAACTTTCCAAA
1 -CAAAAATCACATTTTAACCCTCGAACTTT-CAAAAATTACATTTTTACCCTCGAACTTTCCAAA
7346 AATTACATTTTGACCCCTAAACTTTT
64 AATTACATTTTGACCCCTAAACTTTT
* * * ** *
7372 CAAAAATCATATTTTTACCCTCGAAGTTTTTAAAATTACATTTTTACCCTCGAA-ATTCCAAAAA
1 CAAAAATCACATTTTAACCCTCGAACTTTCAAAAATTACATTTTTACCCTCGAACTTTCCAAAAA
7436 TTTACATTTT
66 -TTACATTTT
7446 TGCCCACGAA
Statistics
Matches: 143, Mismatches: 17, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
88 10 0.07
89 88 0.62
90 41 0.29
91 4 0.03
ACGTcount: A:0.35, C:0.22, G:0.05, T:0.37
Consensus pattern (89 bp):
CAAAAATCACATTTTAACCCTCGAACTTTCAAAAATTACATTTTTACCCTCGAACTTTCCAAAAA
TTACATTTTGACCCCTAAACTTTT
Found at i:7475 original size:89 final size:88
Alignment explanation
Indices: 7211--7480 Score: 280
Period size: 89 Copynumber: 3.0 Consensus size: 88
7201 TATTTTGGCT
* * *
7211 CCTCGAACTTCT-CAAAAATTACATTTTAACCCTCGAACTTTCCAAAAATTACATTTTGACCTCT
1 CCTCGAACTT-TGCAAAAATTACATTTTTACCCTCGAACTTTCCAAAAATTACATTTTG-CCCCA
* * *
7275 AATTTTACAAAAATTACATTTTAAC
64 AACTTTACAAAAATAACATTTTTAC
* *
7300 CCTCGAACTTTGCAAAAATCATATTTTTACCCTCGAACTTTCCAAAAATTACATTTTGACCCCTA
1 CCTCGAACTTTGCAAAAATTACATTTTTACCCTCGAACTTTCCAAAAATTACATTTTG-CCCC-A
* * *
7365 AACTTTTCAAAAATCATATTTTTAC
64 AACTTTACAAAAATAACATTTTTAC
* ** *
7390 CCTCGAAGTTT-TTAAAATTACATTTTTACCCTCGAA-ATTCCAAAAATTTACATTTTTGCCCAC
1 CCTCGAACTTTGCAAAAATTACATTTTTACCCTCGAACTTTCCAAAAA-TTACA-TTTTGCCC-C
* *
7453 GAA-TTTCCAAAAATAACCA-TTTTAC
63 AAACTTTACAAAAATAA-CATTTTTAC
7478 CCT
1 CCT
7481 AGGATGTCCA
Statistics
Matches: 155, Mismatches: 20, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
88 30 0.19
89 89 0.57
90 36 0.23
ACGTcount: A:0.35, C:0.24, G:0.04, T:0.36
Consensus pattern (88 bp):
CCTCGAACTTTGCAAAAATTACATTTTTACCCTCGAACTTTCCAAAAATTACATTTTGCCCCAAA
CTTTACAAAAATAACATTTTTAC
Found at i:7591 original size:28 final size:29
Alignment explanation
Indices: 7458--7584 Score: 89
Period size: 29 Copynumber: 4.3 Consensus size: 29
7448 CCCACGAATT
* *
7458 TCCAAAAATAACCATTTTACCCT--AGGA
1 TCCAAAAATTACCATTTTACCCTCGAGCA
* * * * **
7485 TGTCCAAAAATTACCATTTTGCTCACAAGTG
1 --TCCAAAAATTACCATTTTACCCTCGAGCA
* * *
7516 TCTAAAAAATTACCGTTTTACCCTCGATCA
1 TC-CAAAAATTACCATTTTACCCTCGAGCA
*
7546 TCCTAAAATTACCATTTTACCC-CTGAGCA
1 TCCAAAAATTACCATTTTACCCTC-GAGCA
7575 TCCAAAAATT
1 TCCAAAAATT
7585 GCATTTTTTT
Statistics
Matches: 74, Mismatches: 20, Indels: 8
0.73 0.20 0.08
Matches are distributed among these distances:
28 1 0.01
29 51 0.69
30 20 0.27
31 2 0.03
ACGTcount: A:0.35, C:0.26, G:0.08, T:0.31
Consensus pattern (29 bp):
TCCAAAAATTACCATTTTACCCTCGAGCA
Found at i:8100 original size:78 final size:78
Alignment explanation
Indices: 7971--8126 Score: 303
Period size: 78 Copynumber: 2.0 Consensus size: 78
7961 TCACGACTTC
7971 AATTCTCCACGAAAACCGAAGCAAACGGGCATCCTTCATTCAAATCTTTTTAAATCATATGTCCG
1 AATTCTCCACGAAAACCGAAGCAAACGGGCATCCTTCATTCAAATCTTTTTAAATCATATGTCCG
8036 AGGATCATATTTT
66 AGGATCATATTTT
*
8049 AATTCTCCACGAAAATCGAAGCAAACGGGCATCCTTCATTCAAATCTTTTTAAATCATATGTCCG
1 AATTCTCCACGAAAACCGAAGCAAACGGGCATCCTTCATTCAAATCTTTTTAAATCATATGTCCG
8114 AGGATCATATTTT
66 AGGATCATATTTT
8127 GAGTTCTCAA
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 77 1.00
ACGTcount: A:0.33, C:0.22, G:0.13, T:0.31
Consensus pattern (78 bp):
AATTCTCCACGAAAACCGAAGCAAACGGGCATCCTTCATTCAAATCTTTTTAAATCATATGTCCG
AGGATCATATTTT
Found at i:20113 original size:208 final size:208
Alignment explanation
Indices: 19755--20211 Score: 738
Period size: 208 Copynumber: 2.2 Consensus size: 208
19745 AGTGAGCTGA
*
19755 TCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATAAATGAAGCCAAGCTCAAAGCGAGCAAA
1 TCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAGCCAAGCTCAAAGCGAGCAAA
* *
19820 TCTTCGAACCCAAGCTTCCTGATGAGATATTGAGAAGCAAGTCGAAGCAATAAAATGGTTAGCTT
66 TCTTCGAACCCAAGCTTCCTGATGAGATAGTGAGAAGCAAGTCGAAGCAATAAAATGATTAGCTT
19885 CCTATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTAATGAGATACAGAGAAGCGGATTGAA
131 CCTATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTAATGAGATACAGAGAAGCGGATTGAA
* *
19950 ACAAGTGATGCAG
196 ACAAATGAGGCAG
* * * *
19963 TCATCTTCCTAATGAGATACTGAAAAGTAGACCAAATCAATGAAG-CAGGCTCAAAGTGAGCAAA
1 TCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAGCCAAGCTCAAAGCGAGCAAA
* *
20027 TCTTTGAACCCCAGCTTCCTGATGAGATAGTGAGAAGC-AGATCGAAGCAATAAAATGATTAGCT
66 TCTTCGAACCCAAGCTTCCTGATGAGATAGTGAGAAGCAAG-TCGAAGCAATAAAATGATTAGCT
*
20091 TCCTAATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTG
130 TCCT-ATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTAATGAGATACAGAGAAGCGGATTG
**
20156 AAACAAATGAGGTGG
194 AAACAAATGAGGCAG
* *
20171 TCATCATCCTGATGAGATATTGAGAAGTAGACCAAATCAAT
1 TCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAAT
20212 AACACCAAAC
Statistics
Matches: 229, Mismatches: 18, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
206 2 0.01
207 78 0.34
208 149 0.65
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.23
Consensus pattern (208 bp):
TCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAGCCAAGCTCAAAGCGAGCAAA
TCTTCGAACCCAAGCTTCCTGATGAGATAGTGAGAAGCAAGTCGAAGCAATAAAATGATTAGCTT
CCTATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTAATGAGATACAGAGAAGCGGATTGAA
ACAAATGAGGCAG
Found at i:20551 original size:6 final size:6
Alignment explanation
Indices: 20530--20619 Score: 82
Period size: 6 Copynumber: 15.8 Consensus size: 6
20520 TATTATAAGA
* *
20530 TTAAAT TT-ATT TTAAAT TTAAAT TT--GT TTAAAT TTAAAT TTAAA-
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
* * * * *
20574 TTAAGT TTAAAT TTAATT TTAAAA TTAAAA TT-ATT TTAAAT TTAAA
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAA
20620 AAGTCTCATT
Statistics
Matches: 67, Mismatches: 12, Indels: 10
0.75 0.13 0.11
Matches are distributed among these distances:
4 3 0.04
5 11 0.16
6 53 0.79
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (6 bp):
TTAAAT
Found at i:20565 original size:22 final size:23
Alignment explanation
Indices: 20540--20619 Score: 92
Period size: 23 Copynumber: 3.5 Consensus size: 23
20530 TTAAATTTAT
*
20540 TTTAAATTTAAATT-TGTTTAAA
1 TTTAAATTTAAATTAAGTTTAAA
20562 TTTAAATTTAAATTAAGTTTAAA
1 TTTAAATTTAAATTAAGTTTAAA
* ** *
20585 TTTAATTTTAAAATTAAAATT-AT
1 TTTAAATTT-AAATTAAGTTTAAA
20608 TTTAAATTTAAA
1 TTTAAATTTAAA
20620 AAGTCTCATT
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
22 17 0.34
23 24 0.48
24 9 0.18
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (23 bp):
TTTAAATTTAAATTAAGTTTAAA
Found at i:20589 original size:29 final size:29
Alignment explanation
Indices: 20556--20619 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
20546 TTTAAATTTG
*
20556 TTTAAATTT-AAATTTAAATTAAGTTTAAA
1 TTTAAATTTAAAATTAAAATT-AGTTTAAA
* *
20585 TTTAATTTTAAAATTAAAATTATTTTAAA
1 TTTAAATTTAAAATTAAAATTAGTTTAAA
20614 TTTAAA
1 TTTAAA
20620 AAGTCTCATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 20 0.67
30 10 0.33
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (29 bp):
TTTAAATTTAAAATTAAAATTAGTTTAAA
Found at i:20620 original size:17 final size:17
Alignment explanation
Indices: 20512--20619 Score: 121
Period size: 17 Copynumber: 6.4 Consensus size: 17
20502 TAAATTCCTT
*
20512 TTTAAATTTATTATAAGA
1 TTTAAATTTATTTTAA-A
20530 -TTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
*
20546 TTTAAATTT-GTTTAAA
1 TTTAAATTTATTTTAAA
** *
20562 TTTAAATTTAAATTAAG
1 TTTAAATTTATTTTAAA
20579 TTTAAATTTAATTTTAAA
1 TTTAAATTT-ATTTTAAA
* *
20597 ATTAAAATTATTTTAAA
1 TTTAAATTTATTTTAAA
20614 TTTAAA
1 TTTAAA
20620 AAGTCTCATT
Statistics
Matches: 76, Mismatches: 11, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
16 16 0.21
17 48 0.63
18 12 0.16
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:23897 original size:28 final size:28
Alignment explanation
Indices: 23866--23928 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
23856 AAAATGTGAT
*
23866 TTTTGGATACTCGAGGGCAAAATGGTAA
1 TTTTGGACACTCGAGGGCAAAATGGTAA
* *
23894 TTTTGGACACTCGAGGGTAAAATGGTAT
1 TTTTGGACACTCGAGGGCAAAATGGTAA
23922 TTTTGGA
1 TTTTGGA
23929 AAAGTTCGAG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.29, C:0.10, G:0.29, T:0.33
Consensus pattern (28 bp):
TTTTGGACACTCGAGGGCAAAATGGTAA
Found at i:23970 original size:58 final size:57
Alignment explanation
Indices: 23908--24093 Score: 169
Period size: 58 Copynumber: 3.2 Consensus size: 57
23898 GGACACTCGA
*
23908 GGGTAAAATGGTATTTTTGGAAAAGTTCGAGGTTAAAAATGGAATTTTACACA-TCCGG
1 GGGTAAAATGGTATTTTTGGAAAA-TTCGAGGTCAAAAATGGAATTTTACA-AGTCCGG
* ** ** *
23966 GGGTAAAATGGTAATCTTTAAAAAATTTC-AGGATCAAAAATGGAATTTTTGGAAGTTCGG
1 GGGTAAAATGGT-ATTTTTGGAAAA-TTCGAGG-TCAAAAATGGAA-TTTTACAAGTCCGG
* * * * * *
24026 GGGTAAAATGATAATTTTGGAAAAATCGGGGTCAAAAATGGAATTTTAAGAAGTTCGG
1 GGGTAAAATGGTATTTTTGGAAAATTCGAGGTCAAAAATGGAATTTT-ACAAGTCCGG
24084 GGGTCAAAAT
1 GGGT-AAAAT
24094 ATAATTTTTT
Statistics
Matches: 105, Mismatches: 16, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
57 4 0.04
58 42 0.40
59 39 0.37
60 20 0.19
ACGTcount: A:0.38, C:0.07, G:0.26, T:0.30
Consensus pattern (57 bp):
GGGTAAAATGGTATTTTTGGAAAATTCGAGGTCAAAAATGGAATTTTACAAGTCCGG
Found at i:24043 original size:29 final size:30
Alignment explanation
Indices: 24009--24102 Score: 90
Period size: 29 Copynumber: 3.2 Consensus size: 30
23999 TCAAAAATGG
24009 AATTTTTGGAAGTTCGGGGGT-AAAATGAT
1 AATTTTTGGAAGTTCGGGGGTCAAAATGAT
** *
24038 AA-TTTTGGAAAAATC-GGGGTCAAAAATG-G
1 AATTTTTGG-AAGTTCGGGGGTC-AAAATGAT
**
24067 AATTTTAAGAAGTTCGGGGGTCAAAAT-AT
1 AATTTTTGGAAGTTCGGGGGTCAAAATGAT
24096 AATTTTT
1 AATTTTT
24103 TTGATAGTTT
Statistics
Matches: 50, Mismatches: 9, Indels: 12
0.70 0.13 0.17
Matches are distributed among these distances:
28 11 0.22
29 23 0.46
30 16 0.32
ACGTcount: A:0.36, C:0.05, G:0.26, T:0.33
Consensus pattern (30 bp):
AATTTTTGGAAGTTCGGGGGTCAAAATGAT
Found at i:24087 original size:30 final size:30
Alignment explanation
Indices: 23999--24092 Score: 90
Period size: 30 Copynumber: 3.2 Consensus size: 30
23989 AATTTCAGGA
**
23999 TCAAAAATGGAATTTTTGGAAGTTCGGGGG
1 TCAAAAATGGAATTTTAAGAAGTTCGGGGG
* *
24029 T--AAAATGATAATTTTGGAA-AA-ATC-GGGG
1 TCAAAAATG-GAATTTT--AAGAAGTTCGGGGG
24057 TCAAAAATGGAATTTTAAGAAGTTCGGGGG
1 TCAAAAATGGAATTTTAAGAAGTTCGGGGG
24087 TCAAAA
1 TCAAAA
24093 TATAATTTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 16
0.69 0.08 0.22
Matches are distributed among these distances:
27 2 0.04
28 13 0.26
29 16 0.32
30 19 0.38
ACGTcount: A:0.38, C:0.06, G:0.28, T:0.28
Consensus pattern (30 bp):
TCAAAAATGGAATTTTAAGAAGTTCGGGGG
Found at i:25911 original size:17 final size:17
Alignment explanation
Indices: 25889--25924 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
25879 CCATACTTTA
25889 AAATTTAAATTTAAAAT
1 AAATTTAAATTTAAAAT
25906 AAATTTAAATTTAAAAT
1 AAATTTAAATTTAAAAT
25923 AA
1 AA
25925 GTGTAAACTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
AAATTTAAATTTAAAAT
Found at i:25931 original size:17 final size:17
Alignment explanation
Indices: 25889--25931 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
25879 CCATACTTTA
*
25889 AAATTTAAATTTAAAAT
1 AAATGTAAATTTAAAAT
*
25906 AAATTTAAATTTAAAAT
1 AAATGTAAATTTAAAAT
*
25923 AAGTGTAAA
1 AAATGTAAA
25932 CTGAAGTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (17 bp):
AAATGTAAATTTAAAAT
Found at i:26503 original size:49 final size:49
Alignment explanation
Indices: 26450--26937 Score: 297
Period size: 49 Copynumber: 9.9 Consensus size: 49
26440 GTGTTTTCGC
* * *
26450 GGTACTAGATCCGCCGTTGTGGCTTAGATCTTTCTCTTCATGTGTCCGA
1 GGTACTAGATCCGCCGTTGCGGCTTAGATCTTTCCCTTCATGTCTCCGA
* * * * * ** *
26499 GGTACTA-AGTTCGTCGTTGCGACTTAAACCTTTCCCTTTTTGTATCTTC-A
1 GGTACTAGA-TCCGCCGTTGCGGCTTAGATCTTTCCCTTCATG--TCTCCGA
* * ** * * * * *
26549 TGGCACTAGATTCATCATTGCAGCTTAAATCTTTCCCTTCATGTCTTCGT
1 -GGTACTAGATCCGCCGTTGCGGCTTAGATCTTTCCCTTCATGTCTCCGA
* * * *
26599 GGTACTGGATCCACTGTTGCGGCTTAGATCTTTCCCTTCATGTCTTC-A
1 GGTACTAGATCCGCCGTTGCGGCTTAGATCTTTCCCTTCATGTCTCCGA
* * * *
26647 TGGTACTGGATCCGTCGTTGCGGCTTAGGTCTTTCCCTTCATGTCTCTGA
1 -GGTACTAGATCCGCCGTTGCGGCTTAGATCTTTCCCTTCATGTCTCCGA
* ** * * * ** *
26697 GGTACAAGATTTGCCGTTGCGACTTAAACCTTTCCCCTT-ATGTCTTTGC
1 GGTACTAGATCCGCCGTTGCGGCTTAGATCTTT-CCCTTCATGTCTCCGA
* **
26746 GGTACTGGATCCGCCGCCGCGGCTTAGATCTTTCCCTTCATGTC-CTC-A
1 GGTACTAGATCCGCCGTTGCGGCTTAGATCTTTCCCTTCATGTCTC-CGA
* * * *
26794 TGGTACTGGATCCGCTGTTACGGCTTAGATCTTTCCCTTCATGTCTTCAGA
1 -GGTACTAGATCCGCCGTTGCGGCTTAGATCTTTCCCTTCATGTC-TCCGA
* * * * * * * * ** *
26845 GGTACTAGGTTCACCATTGCGACTTAAACCTTTCCCTT-GTGTCTTTGT
1 GGTACTAGATCCGCCGTTGCGGCTTAGATCTTTCCCTTCATGTCTCCGA
* * * * * *
26893 GCTATTGGATCCACCGTTGCGGCCTAGATCTTTCCCTTCTTGTCT
1 GGTACTAGATCCGCCGTTGCGGCTTAGATCTTTCCCTTCATGTCT
26938 TATGGTGCTG
Statistics
Matches: 335, Mismatches: 88, Indels: 32
0.74 0.19 0.07
Matches are distributed among these distances:
48 36 0.11
49 226 0.67
50 35 0.10
51 37 0.11
52 1 0.00
ACGTcount: A:0.15, C:0.27, G:0.20, T:0.38
Consensus pattern (49 bp):
GGTACTAGATCCGCCGTTGCGGCTTAGATCTTTCCCTTCATGTCTCCGA
Found at i:26690 original size:98 final size:97
Alignment explanation
Indices: 26450--26943 Score: 343
Period size: 98 Copynumber: 5.0 Consensus size: 97
26440 GTGTTTTCGC
* * * * * * * * **
26450 GGTACTAGATCCGCCGTTGTGGCTTAGATCTTTCTCTTCATGTGTCCGAGGTACT-AAGTTCGTC
1 GGTACTGGATCCG-CGTTGCGGCTTAGATCTTTCCCTTCATGTCTTCGTGGTACTGGA-TCCACC
* * * **
26514 GTTGCGACTTAAACCTTTCCCTTTTTGTATCTTCAT
64 GTTGCGGCTTAGATCTTTCCCTTCATG--TCTTCAT
* * ** * * * *
26550 GGCACTAGATTCATCATTGCAGCTTAAATCTTTCCCTTCATGTCTTCGTGGTACTGGATCCACTG
1 GGTACTGGA-TCCGCGTTGCGGCTTAGATCTTTCCCTTCATGTCTTCGTGGTACTGGATCCACCG
26615 TTGCGGCTTAGATCTTTCCCTTCATGTCTTCAT
65 TTGCGGCTTAGATCTTTCCCTTCATGTCTTCAT
* * ** ***
26648 GGTACTGGATCCGTCGTTGCGGCTTAGGTCTTTCCCTTCATGTC-TCTGAGGTACAAGATTTGCC
1 GGTACTGGATCCG-CGTTGCGGCTTAGATCTTTCCCTTCATGTCTTC-GTGGTACTGGATCCACC
* * * ***
26712 GTTGCGACTTAAACCTTTCCCCTT-ATGTCTTTGC
64 GTTGCGGCTTAGATCTTT-CCCTTCATGTCTTCAT
** * * * *
26746 GGTACTGGATCCGCCGCCGCGGCTTAGATCTTTCCCTTCATGTCCTCATGGTACTGGATCCGCTG
1 GGTACTGGATCCG-CGTTGCGGCTTAGATCTTTCCCTTCATGTCTTCGTGGTACTGGATCCACCG
* *
26811 TTACGGCTTAGATCTTTCCCTTCATGTCTTCAGA
65 TTGCGGCTTAGATCTTTCCCTTCATGTCTTCA-T
* * * * * * * * *
26845 GGTACTAGGTTCAC-CATTGCGACTTAAACCTTTCCCTT-GTGTCTTTGTGCTATTGGATCCACC
1 GGTACT-GGATC-CGCGTTGCGGCTTAGATCTTTCCCTTCATGTCTTCGTGGTACTGGATCCACC
* *
26908 GTTGCGGCCTAGATCTTTCCCTTCTTGTCTT-AT
64 GTTGCGGCTTAGATCTTTCCCTTCATGTCTTCAT
26941 GGT
1 GGT
26944 GCTGAGACCT
Statistics
Matches: 305, Mismatches: 79, Indels: 24
0.75 0.19 0.06
Matches are distributed among these distances:
96 3 0.01
97 10 0.03
98 188 0.62
99 31 0.10
100 69 0.23
101 4 0.01
ACGTcount: A:0.15, C:0.27, G:0.20, T:0.38
Consensus pattern (97 bp):
GGTACTGGATCCGCGTTGCGGCTTAGATCTTTCCCTTCATGTCTTCGTGGTACTGGATCCACCGT
TGCGGCTTAGATCTTTCCCTTCATGTCTTCAT
Found at i:26773 original size:147 final size:147
Alignment explanation
Indices: 26416--26943 Score: 525
Period size: 147 Copynumber: 3.6 Consensus size: 147
26406 TAAGGTTTGT
* * * * * *
26416 CATTGCGACTTAAACCTTTCCGTTGTGT-TTTCGCGGTACTAGATCCGCCGTTGTGGCTTAGATC
1 CATTGCGACTTAAACCTTTCCCTTATGTCTTT-GTGGTACTGGATCCACCGTTGCGGCTTAGATC
* * * * * * * * * **
26480 TTTCTCTTCATGTGTCCGA-GGTACT-AAGTTCG-TCGTTGCGACTTAAACCTTTCCCTTTTTGT
65 TTTCCCTTCATGTCTTC-ATGGTACTGGA-TCCGCT-GTTACGGCTTAGATCTTTCCCTTCATG-
* * * *
26542 ATCTTCA-TGGCACTAGATTCAT
126 -TCTTCAGAGGTACAAGATTCAC
* * *
26564 CATTGC-AGCTTAAATCTTTCCCTTCATGTCTTCGTGGTACTGGATCCACTGTTGCGGCTTAGAT
1 CATTGCGA-CTTAAACCTTTCCCTT-ATGTCTTTGTGGTACTGGATCCACCGTTGCGGCTTAGAT
* *
26628 CTTTCCCTTCATGTCTTCATGGTACTGGATCCG-TCGTTGCGGCTTAGGTCTTTCCCTTCATGTC
64 CTTTCCCTTCATGTCTTCATGGTACTGGATCCGCT-GTTACGGCTTAGATCTTTCCCTTCATGTC
* **
26692 -TCTGAGGTACAAGATTTGC
128 TTCAGAGGTACAAGATTCAC
* * * **
26711 CGTTGCGACTTAAACCTTTCCCCTTATGTCTTTGCGGTACTGGATCCGCCGCCGCGGCTTAGATC
1 CATTGCGACTTAAACCTTT-CCCTTATGTCTTTGTGGTACTGGATCCACCGTTGCGGCTTAGATC
*
26776 TTTCCCTTCATGTCCTCATGGTACTGGATCCGCTGTTACGGCTTAGATCTTTCCCTTCATGTCTT
65 TTTCCCTTCATGTCTTCATGGTACTGGATCCGCTGTTACGGCTTAGATCTTTCCCTTCATGTCTT
* *
26841 CAGAGGTACTAGGTTCAC
130 CAGAGGTACAAGATTCAC
* * * *
26859 CATTGCGACTTAAACCTTTCCCTTGTGTCTTTGTGCTATTGGATCCACCGTTGCGGCCTAGATCT
1 CATTGCGACTTAAACCTTTCCCTTATGTCTTTGTGGTACTGGATCCACCGTTGCGGCTTAGATCT
*
26924 TTCCCTTCTTGTCTT-ATGGT
66 TTCCCTTCATGTCTTCATGGT
26944 GCTGAGACCT
Statistics
Matches: 316, Mismatches: 54, Indels: 22
0.81 0.14 0.06
Matches are distributed among these distances:
146 7 0.02
147 170 0.54
148 60 0.19
149 76 0.24
150 3 0.01
ACGTcount: A:0.15, C:0.27, G:0.20, T:0.38
Consensus pattern (147 bp):
CATTGCGACTTAAACCTTTCCCTTATGTCTTTGTGGTACTGGATCCACCGTTGCGGCTTAGATCT
TTCCCTTCATGTCTTCATGGTACTGGATCCGCTGTTACGGCTTAGATCTTTCCCTTCATGTCTTC
AGAGGTACAAGATTCAC
Found at i:39355 original size:29 final size:29
Alignment explanation
Indices: 39309--39398 Score: 92
Period size: 29 Copynumber: 3.1 Consensus size: 29
39299 TAATCTTCCT
*
39309 CCCCAAACTTCTTAAAAATCATGTTTTGA
1 CCCCAAACTTCTTCAAAATCATGTTTTGA
* * ** *
39338 CTCTAAACTT-TTCCAAAATTGTATTTTGA
1 CCCCAAACTTCTT-CAAAATCATGTTTTGA
* *
39367 CCCCAAACTTCTTCAAAATCACGTTTTAA
1 CCCCAAACTTCTTCAAAATCATGTTTTGA
39396 CCC
1 CCC
39399 TCGAACATCT
Statistics
Matches: 46, Mismatches: 13, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
28 2 0.04
29 42 0.91
30 2 0.04
ACGTcount: A:0.32, C:0.27, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCCAAACTTCTTCAAAATCATGTTTTGA
Found at i:39452 original size:29 final size:29
Alignment explanation
Indices: 39381--39452 Score: 90
Period size: 29 Copynumber: 2.5 Consensus size: 29
39371 AAACTTCTTC
* *
39381 AAAATCACGTTTTAACCCTCGAACATCTA
1 AAAATCACGTTTTTACCCTCGAACATCAA
* ** *
39410 AAAATTACCATTTTACCCTCGGACATCAA
1 AAAATCACGTTTTTACCCTCGAACATCAA
39439 AAAATCACGTTTTT
1 AAAATCACGTTTTT
39453 GACCTCAAAT
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.38, C:0.25, G:0.07, T:0.31
Consensus pattern (29 bp):
AAAATCACGTTTTTACCCTCGAACATCAA
Found at i:39481 original size:29 final size:31
Alignment explanation
Indices: 39449--39523 Score: 93
Period size: 29 Copynumber: 2.5 Consensus size: 31
39439 AAAATCACGT
39449 TTTTGA-CCTCAAATTTTCCAAA-AGTTCAA
1 TTTTGATCCTCAAATTTTCCAAAGAGTTCAA
* * * *
39478 TTTTAATCC-CAAATTTTCTAAAGATTTCGA
1 TTTTGATCCTCAAATTTTCCAAAGAGTTCAA
39508 TTTTGATCCTCAAATT
1 TTTTGATCCTCAAATT
39524 CCTCAAATTA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
29 17 0.45
30 15 0.39
31 6 0.16
ACGTcount: A:0.32, C:0.19, G:0.07, T:0.43
Consensus pattern (31 bp):
TTTTGATCCTCAAATTTTCCAAAGAGTTCAA
Found at i:44003 original size:6 final size:6
Alignment explanation
Indices: 43979--44050 Score: 69
Period size: 6 Copynumber: 12.5 Consensus size: 6
43969 ATATAAGAAC
* * * *
43979 AAATTT AAACTT AAA-TT AAGTTT AAATTT AAA-AT AAATTT AAACTT
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT
* *
44025 AAACTT AAA-AT AAATTT AAATTT AAA
1 AAATTT AAATTT AAATTT AAATTT AAA
44051 AACAAATTTA
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
5 12 0.22
6 43 0.78
ACGTcount: A:0.56, C:0.04, G:0.01, T:0.39
Consensus pattern (6 bp):
AAATTT
Found at i:44005 original size:23 final size:22
Alignment explanation
Indices: 43979--44050 Score: 73
Period size: 23 Copynumber: 3.4 Consensus size: 22
43969 ATATAAGAAC
*
43979 AAATTTAAACTTAAATTAAGTTT
1 AAATTTAAACTTAAA-TAAATTT
44002 AAATTT--A---AAATAAATTT
1 AAATTTAAACTTAAATAAATTT
*
44019 AAACTTAAACTTAAAATAAATTT
1 AAATTTAAACTT-AAATAAATTT
44042 AAATTTAAA
1 AAATTTAAA
44051 AACAAATTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 12
0.73 0.05 0.22
Matches are distributed among these distances:
17 11 0.28
18 3 0.08
19 1 0.03
21 1 0.03
23 24 0.60
ACGTcount: A:0.56, C:0.04, G:0.01, T:0.39
Consensus pattern (22 bp):
AAATTTAAACTTAAATAAATTT
Found at i:44005 original size:41 final size:40
Alignment explanation
Indices: 43959--44067 Score: 122
Period size: 41 Copynumber: 2.8 Consensus size: 40
43949 TATATTTAGG
43959 ATAAATTTAAATATAAGAACAAATTTAAACTTAAA--T---
1 ATAAATTTAAATATAA-AACAAATTTAAACTTAAACTTAAA
* * *
43995 -TAAGTTTAAATTTAAAATAAATTTAAACTTAAACTTAAA
1 ATAAATTTAAATATAAAACAAATTTAAACTTAAACTTAAA
*
44034 ATAAATTTAAATTTAAAAACAAATTTAAACTTAA
1 ATAAATTTAAATAT-AAAACAAATTTAAACTTAA
44068 GATAAATCTA
Statistics
Matches: 61, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
34 17 0.28
35 13 0.21
36 1 0.02
40 12 0.20
41 18 0.30
ACGTcount: A:0.57, C:0.06, G:0.02, T:0.36
Consensus pattern (40 bp):
ATAAATTTAAATATAAAACAAATTTAAACTTAAACTTAAA
Found at i:44015 original size:11 final size:11
Alignment explanation
Indices: 44001--44044 Score: 61
Period size: 11 Copynumber: 3.9 Consensus size: 11
43991 AAATTAAGTT
44001 TAAATTTAAAA
1 TAAATTTAAAA
*
44012 TAAATTTAAACT
1 TAAATTTAAA-A
*
44024 TAAACTTAAAA
1 TAAATTTAAAA
44035 TAAATTTAAA
1 TAAATTTAAA
44045 TTTAAAAACA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
11 19 0.68
12 9 0.32
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:44049 original size:17 final size:17
Alignment explanation
Indices: 43945--44079 Score: 90
Period size: 17 Copynumber: 7.5 Consensus size: 17
43935 AAACTCTATT
* **
43945 AATTTATATTTAGGATA
1 AATTTAAATTTAAAATA
* *
43962 AATTTAAATATAAGAACA
1 AATTTAAATTTAA-AATA
* *
43980 AATTTAAACTTAAATTA
1 AATTTAAATTTAAAATA
*
43997 AGTTTAAATTTAAAATA
1 AATTTAAATTTAAAATA
44014 AATTTAAACTTAAACTTAAAATA
1 AATTTAAA--T----TTAAAATA
*
44037 AATTTAAATTTAAAAACA
1 AATTTAAATTT-AAAATA
* *
44055 AATTTAAACTTAAGATA
1 AATTTAAATTTAAAATA
*
44072 AATCTAAA
1 AATTTAAA
44080 ACAAAATAGG
Statistics
Matches: 92, Mismatches: 18, Indels: 16
0.73 0.14 0.13
Matches are distributed among these distances:
17 46 0.50
18 28 0.30
19 1 0.01
21 1 0.01
23 16 0.17
ACGTcount: A:0.55, C:0.05, G:0.04, T:0.36
Consensus pattern (17 bp):
AATTTAAATTTAAAATA
Done.