Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01003700.1 Kokia drynarioides strain JFW-HI SEQ_116637, 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: 126708
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 9 characters in sequence are not A, C, G, or T
Found at i:374 original size:23 final size:24
Alignment explanation
Indices: 348--416 Score: 81
Period size: 23 Copynumber: 3.0 Consensus size: 24
338 TTATTGTTTC
*
348 GCACTTCGTGTGCTTACT-ATTTT
1 GCACTTCGTGTGCCTACTGATTTT
371 GCACTTCGTGTGCCTACTGA-TTT
1 GCACTTCGTGTGCCTACTGATTTT
* *
394 GCGCTAT-GTGCGCCTACTGATTT
1 GCACT-TCGTGTGCCTACTGATTT
417 CACTGTGTGT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
23 36 0.90
24 4 0.10
ACGTcount: A:0.13, C:0.25, G:0.22, T:0.41
Consensus pattern (24 bp):
GCACTTCGTGTGCCTACTGATTTT
Found at i:5897 original size:22 final size:23
Alignment explanation
Indices: 5848--5913 Score: 80
Period size: 23 Copynumber: 2.8 Consensus size: 23
5838 ATATAATTAT
*
5848 TTTTATATTAAATTATATTAGAATG
1 TTTTATATTAAA-TAT-TTTGAATG
*
5873 TTTTATATTAAATATTTTTAA-G
1 TTTTATATTAAATATTTTGAATG
5895 TTTTATATTAAAATATTTT
1 TTTTATATT-AAATATTTT
5914 ATTTTAAATT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
22 10 0.26
23 13 0.34
24 3 0.08
25 12 0.32
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.58
Consensus pattern (23 bp):
TTTTATATTAAATATTTTGAATG
Found at i:5913 original size:15 final size:15
Alignment explanation
Indices: 5895--5958 Score: 60
Period size: 15 Copynumber: 4.2 Consensus size: 15
5885 TATTTTTAAG
5895 TTTTATATTAAAATA
1 TTTTATATTAAAATA
*
5910 TTTTATTTTAAATTATA
1 TTTTATATTAAA--ATA
*
5927 TTTTGA-AATAAAATA
1 TTTT-ATATTAAAATA
*
5942 -TTTATATTATAATA
1 TTTTATATTAAAATA
5956 TTT
1 TTT
5959 CAAATATTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
13 1 0.03
14 10 0.26
15 16 0.41
17 11 0.28
18 1 0.03
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (15 bp):
TTTTATATTAAAATA
Found at i:5914 original size:22 final size:23
Alignment explanation
Indices: 5848--5914 Score: 75
Period size: 22 Copynumber: 2.9 Consensus size: 23
5838 ATATAATTAT
**
5848 TTTTATATTAAATTATATTAGAATG
1 TTTTATATTAAA--ATATTTTAATG
5873 TTTTATATT-AAATATTTTTAA-G
1 TTTTATATTAAAATA-TTTTAATG
5895 TTTTATATTAAAATATTTTA
1 TTTTATATTAAAATATTTTA
5915 TTTTAAATTA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
22 18 0.47
23 9 0.24
24 2 0.05
25 9 0.24
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (23 bp):
TTTTATATTAAAATATTTTAATG
Found at i:5982 original size:23 final size:23
Alignment explanation
Indices: 5937--5980 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
5927 TTTTGAAATA
5937 AAATATTTATATTATAATATTTC
1 AAATATTTATATTATAATATTTC
* *
5960 AAATATTT-TATTTTTATATTT
1 AAATATTTATATTATAATATTT
5981 TCTAAGTCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (23 bp):
AAATATTTATATTATAATATTTC
Found at i:6480 original size:40 final size:38
Alignment explanation
Indices: 6384--6486 Score: 102
Period size: 40 Copynumber: 2.6 Consensus size: 38
6374 CTTAAAAAAC
*
6384 TATTTTTGTTTAATTCTAATATATAGTTTTAAAATTTTA
1 TATTTTT-TTTAATTATAATATATAGTTTTAAAATTTTA
*
6423 T-TTTATCATTTTAATTATGATATATA-TTTTAAAATTTTTA
1 TATTT-T--TTTTAATTATAATATATAGTTTTAAAA-TTTTA
*
6463 TAATTTTTTTTATATTATTATATA
1 T-ATTTTTTTTA-ATTATAATATA
6487 AATCCAATGA
Statistics
Matches: 54, Mismatches: 3, Indels: 13
0.77 0.04 0.19
Matches are distributed among these distances:
38 3 0.06
39 15 0.28
40 31 0.57
41 2 0.04
42 3 0.06
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (38 bp):
TATTTTTTTTAATTATAATATATAGTTTTAAAATTTTA
Found at i:7228 original size:18 final size:18
Alignment explanation
Indices: 7207--7252 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
7197 TCTTGAATAT
**
7207 TATTTTAATATTTTATTC
1 TATTTTAATATTTTAACC
7225 TATTTT-AT-TTTTAACC
1 TATTTTAATATTTTAACC
7241 TAATTTTAATAT
1 T-ATTTTAATAT
7253 CCAGTTCACT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
16 7 0.30
17 7 0.30
18 8 0.35
19 1 0.04
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (18 bp):
TATTTTAATATTTTAACC
Found at i:7496 original size:19 final size:19
Alignment explanation
Indices: 7474--7553 Score: 62
Period size: 19 Copynumber: 4.2 Consensus size: 19
7464 TATATTTTTT
7474 AAATTCAAAATAT-TTATAA
1 AAATTCAAAATATATTA-AA
7493 AAATTCTAAATATATATTAAA
1 AAATTC-AAA-ATATATTAAA
7514 AAATT-AAAATA-ATGTAAA
1 AAATTCAAAATATAT-TAAA
*
7532 GAAAGTT-AAAAT-TTTTAAA
1 -AAA-TTCAAAATATATTAAA
7551 AAA
1 AAA
7554 ATTAAGACAA
Statistics
Matches: 53, Mismatches: 1, Indels: 15
0.77 0.01 0.22
Matches are distributed among these distances:
17 2 0.04
18 10 0.19
19 16 0.30
20 11 0.21
21 11 0.21
22 3 0.06
ACGTcount: A:0.60, C:0.03, G:0.04, T:0.34
Consensus pattern (19 bp):
AAATTCAAAATATATTAAA
Found at i:7515 original size:21 final size:19
Alignment explanation
Indices: 7474--7524 Score: 61
Period size: 21 Copynumber: 2.6 Consensus size: 19
7464 TATATTTTTT
7474 AAATTCAAAATATTTATAA
1 AAATTCAAAATATTTATAA
7493 AAATTCTAAATATATATTA-AA
1 AAATTC-AAA-ATAT-TTATAA
7514 AAATT-AAAATA
1 AAATTCAAAATA
7525 ATGTAAAGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
18 3 0.10
19 9 0.31
20 3 0.10
21 11 0.38
22 3 0.10
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (19 bp):
AAATTCAAAATATTTATAA
Found at i:9846 original size:55 final size:55
Alignment explanation
Indices: 9771--9901 Score: 190
Period size: 55 Copynumber: 2.4 Consensus size: 55
9761 TAAACGTGCT
* * * * * *
9771 ACATAACAATCGATGTAAACATATAAATAATCAATTCAAAATAAGCAGTATTCCA
1 ACATGACAATCGATTTAAACATATAAACAATCAATTCAAAAGAAGCAATATTCAA
*
9826 ACATGACAATCAATTTAAACATATAAACAATCAATTCAAAAGAAGCAATATTCAA
1 ACATGACAATCGATTTAAACATATAAACAATCAATTCAAAAGAAGCAATATTCAA
*
9881 ACACGACAATCGATTTAAACA
1 ACATGACAATCGATTTAAACA
9902 CAATAACAAC
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
55 67 1.00
ACGTcount: A:0.52, C:0.18, G:0.07, T:0.24
Consensus pattern (55 bp):
ACATGACAATCGATTTAAACATATAAACAATCAATTCAAAAGAAGCAATATTCAA
Found at i:9926 original size:55 final size:55
Alignment explanation
Indices: 9776--9932 Score: 145
Period size: 55 Copynumber: 2.9 Consensus size: 55
9766 GTGCTACATA
* * * * * * * * * *
9776 ACAATCGATGTAAACATATAAATAATCAATTCAAAATAAGCAGTATTCCAACATG
1 ACAATCAATTTAAACAAATAAACAACCAATCCAAAAGAAGCAATATTCAAACACG
* * *
9831 ACAATCAATTTAAACATATAAACAATCAATTCAAAAGAAGCAATATTCAAACACG
1 ACAATCAATTTAAACAAATAAACAACCAATCCAAAAGAAGCAATATTCAAACACG
* ** *
9886 ACAATCGATTTAAACACAAT-AACAACCGGTCCAAAGGAAGCAATATT
1 ACAATCAATTTAAACA-AATAAACAACCAATCCAAAAGAAGCAATATT
9933 TATGAGAAAT
Statistics
Matches: 87, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
55 85 0.98
56 2 0.02
ACGTcount: A:0.50, C:0.18, G:0.09, T:0.22
Consensus pattern (55 bp):
ACAATCAATTTAAACAAATAAACAACCAATCCAAAAGAAGCAATATTCAAACACG
Found at i:12659 original size:104 final size:104
Alignment explanation
Indices: 12479--12693 Score: 421
Period size: 104 Copynumber: 2.1 Consensus size: 104
12469 TTTCTTATTT
12479 ATGAGTTGGGGAAGAGCTATAGTAATTTTAAATATTGTGTCAAAAAAAACAGATATGATCAAAAC
1 ATGAGTTGGGGAAGAGCTATAGTAATTTTAAATATTGTGTCAAAAAAAACAGATATGATCAAAAC
12544 CTATAATGATTGTTAAAAAAACTATTATATATCATAGAA
66 CTATAATGATTGTTAAAAAAACTATTATATATCATAGAA
*
12583 ATGAGTTGGGGAAGAGCTATAGTAATTTTAAATATTGTGTCAAAAAAAGCAGATATGATCAAAAC
1 ATGAGTTGGGGAAGAGCTATAGTAATTTTAAATATTGTGTCAAAAAAAACAGATATGATCAAAAC
12648 CTATAATGATTGTTAAAAAAACTATTATATATCATAGAA
66 CTATAATGATTGTTAAAAAAACTATTATATATCATAGAA
12687 ATGAGTT
1 ATGAGTT
12694 TTAAGTTATG
Statistics
Matches: 110, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
104 110 1.00
ACGTcount: A:0.45, C:0.07, G:0.16, T:0.31
Consensus pattern (104 bp):
ATGAGTTGGGGAAGAGCTATAGTAATTTTAAATATTGTGTCAAAAAAAACAGATATGATCAAAAC
CTATAATGATTGTTAAAAAAACTATTATATATCATAGAA
Found at i:15791 original size:2 final size:2
Alignment explanation
Indices: 15784--15812 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
15774 AAACAAAACA
15784 AT 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 AT A
15813 GATGGACATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:20099 original size:23 final size:23
Alignment explanation
Indices: 20073--20142 Score: 86
Period size: 23 Copynumber: 3.0 Consensus size: 23
20063 TTGATTTAAC
20073 TTAATCGAACATGTTCACGAACA
1 TTAATCGAACATGTTCACGAACA
* * * *
20096 TTAAACGAACATATTCATGAATA
1 TTAATCGAACATGTTCACGAACA
*
20119 TATAATTGAACATGTTCACGAACA
1 T-TAATCGAACATGTTCACGAACA
20143 ATGTTTATGA
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
23 20 0.54
24 17 0.46
ACGTcount: A:0.43, C:0.17, G:0.11, T:0.29
Consensus pattern (23 bp):
TTAATCGAACATGTTCACGAACA
Found at i:21659 original size:129 final size:129
Alignment explanation
Indices: 21429--21816 Score: 616
Period size: 129 Copynumber: 3.0 Consensus size: 129
21419 TGGATTTTAT
* * * * *
21429 AGAGAGATATTTACTTTCCTACTAAAAGTAAGAAAATTGTTTCTGGTTCTGTGTTTGATTTGTGT
1 AGAGAGAGATTTACTTTCCTACTAAAAGTAAGAAAATTATTTTTGGTTCTGTGTTTGATTCGTGA
* * *
21494 TTGTTTGAGCTCACACTCGAAGTGATTCGTGGTACGAGAATAGCGAAGAAGATTGTTCAGTTGA
66 TTGTTCGAGCCCACACTCGAAGTGATTCGTGGTACGAGAATAGCGAAGAAGATTGTTCGGTTGA
*
21558 AGAGAGAGATTTACTTTTCTACTAAAAGTAAGAAAATTATTTTTGGTTCTGTGTTTGATTCGTGA
1 AGAGAGAGATTTACTTTCCTACTAAAAGTAAGAAAATTATTTTTGGTTCTGTGTTTGATTCGTGA
* ** * *
21623 TTGTTCGAGCCCACACTCAAAACGATTCATGGTACGAGAATAGCGAAGAA-AGTCGTTCGGTTGA
66 TTGTTCGAGCCCACACTCGAAGTGATTCGTGGTACGAGAATAGCGAAGAAGA-TTGTTCGGTTGA
*
21687 AGAGAGAGATTTACTTTCCTCCTAAAAGTAAGAAAATTATTTTTGGTTCTGTGTTTGATTCGTGA
1 AGAGAGAGATTTACTTTCCTACTAAAAGTAAGAAAATTATTTTTGGTTCTGTGTTTGATTCGTGA
*
21752 TTGTTCGAGCCCACACTCGAAGTGATTCGTGGTACGAGAATAGCGAAGAAGGTTGTTCGGTTGA
66 TTGTTCGAGCCCACACTCGAAGTGATTCGTGGTACGAGAATAGCGAAGAAGATTGTTCGGTTGA
21816 A
1 A
21817 AGCTAAGAAC
Statistics
Matches: 235, Mismatches: 22, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
128 1 0.00
129 234 1.00
ACGTcount: A:0.29, C:0.13, G:0.24, T:0.34
Consensus pattern (129 bp):
AGAGAGAGATTTACTTTCCTACTAAAAGTAAGAAAATTATTTTTGGTTCTGTGTTTGATTCGTGA
TTGTTCGAGCCCACACTCGAAGTGATTCGTGGTACGAGAATAGCGAAGAAGATTGTTCGGTTGA
Found at i:26679 original size:38 final size:38
Alignment explanation
Indices: 26628--26702 Score: 141
Period size: 38 Copynumber: 2.0 Consensus size: 38
26618 CGGACATGCA
26628 TGGCCCATGGATACAAGAAAGCTCTTCGAGCCCACATC
1 TGGCCCATGGATACAAGAAAGCTCTTCGAGCCCACATC
*
26666 TGGCCCATGGATACAAGGAAGCTCTTCGAGCCCACAT
1 TGGCCCATGGATACAAGAAAGCTCTTCGAGCCCACAT
26703 GTTACTACAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.28, C:0.31, G:0.23, T:0.19
Consensus pattern (38 bp):
TGGCCCATGGATACAAGAAAGCTCTTCGAGCCCACATC
Found at i:30358 original size:14 final size:14
Alignment explanation
Indices: 30339--30367 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
30329 ATGTCACAAA
30339 CCTTCCATAACCAC
1 CCTTCCATAACCAC
30353 CCTTCCATAACCAC
1 CCTTCCATAACCAC
30367 C
1 C
30368 AAAGCCCCAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.52, G:0.00, T:0.21
Consensus pattern (14 bp):
CCTTCCATAACCAC
Found at i:33961 original size:16 final size:18
Alignment explanation
Indices: 33919--33964 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
33909 GCTCGAGTAC
33919 TTATATTTTA-AATTCTT
1 TTATATTTTATAATTCTT
33936 TTATAATTTTATAATT-TT
1 TTAT-ATTTTATAATTCTT
33954 TTAT-TTTTATA
1 TTATATTTTATA
33965 CACTTTTTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
16 7 0.26
17 4 0.15
18 12 0.44
19 4 0.15
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (18 bp):
TTATATTTTATAATTCTT
Found at i:33971 original size:26 final size:24
Alignment explanation
Indices: 33934--33995 Score: 63
Period size: 26 Copynumber: 2.5 Consensus size: 24
33924 TTTTAAATTC
33934 TTTTATAATTTTATA-ATTTTTTAT
1 TTTTATAATTTT-TAGATTTTTTAT
* *
33958 TTTTATACACTTTTTAGGTTTTTTTT
1 TTTTATA-A-TTTTTAGATTTTTTAT
33984 TTTTAATAATTT
1 TTTT-ATAATTT
33996 CAACGGTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
24 7 0.22
25 6 0.19
26 16 0.50
27 3 0.09
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.69
Consensus pattern (24 bp):
TTTTATAATTTTTAGATTTTTTAT
Found at i:35237 original size:17 final size:18
Alignment explanation
Indices: 35204--35238 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
35194 TTAATAACAC
35204 AAATATAAAATATTATAA
1 AAATATAAAATATTATAA
35222 AAATATAAAA-ATTATAA
1 AAATATAAAATATTATAA
35239 TTGTTACTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
AAATATAAAATATTATAA
Found at i:35432 original size:19 final size:18
Alignment explanation
Indices: 35388--35436 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
35378 AGTTTTATTA
*
35388 TATATTTTTATAATCTTTG
1 TATATTTTT-TAATATTTG
*
35407 TAT-TTTTTTAATATTTT
1 TATATTTTTTAATATTTG
35424 TAATATTTTTTAA
1 T-ATATTTTTTAA
35437 AGTTTTTTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 8 0.31
18 7 0.27
19 11 0.42
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (18 bp):
TATATTTTTTAATATTTG
Found at i:37274 original size:26 final size:24
Alignment explanation
Indices: 37245--37295 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 24
37235 TTTGAAAGTA
*
37245 AAAAATTAAATATGATGATAATTAAT
1 AAAAACTAAATATG-TGA-AATTAAT
*
37271 AAAAACTAAATGTGTGAAATTAAT
1 AAAAACTAAATATGTGAAATTAAT
37295 A
1 A
37296 TTATATATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 8 0.35
25 3 0.13
26 12 0.52
ACGTcount: A:0.57, C:0.02, G:0.10, T:0.31
Consensus pattern (24 bp):
AAAAACTAAATATGTGAAATTAAT
Found at i:37319 original size:22 final size:23
Alignment explanation
Indices: 37291--37333 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
37281 TGTGTGAAAT
*
37291 TAATATT-ATATATTTATAAAAA
1 TAATATTAATATATTGATAAAAA
37313 TAATATTAATATATTGATAAA
1 TAATATTAATATATTGATAAA
37334 TTAATTTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (23 bp):
TAATATTAATATATTGATAAAAA
Found at i:37345 original size:23 final size:22
Alignment explanation
Indices: 37287--37345 Score: 52
Period size: 22 Copynumber: 2.7 Consensus size: 22
37277 TAAATGTGTG
37287 AAATTAATATTAT-ATATTTATA
1 AAATTAAT-TTATAATATTTATA
* *
37309 AAAATAATATTA-ATATATTGAT-
1 AAATTAAT-TTATA-ATATTTATA
37331 AAATTAATTTATAAT
1 AAATTAATTTATAAT
37346 TGGTAAATCA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
21 5 0.16
22 19 0.61
23 7 0.23
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.46
Consensus pattern (22 bp):
AAATTAATTTATAATATTTATA
Found at i:38517 original size:22 final size:23
Alignment explanation
Indices: 38493--38542 Score: 68
Period size: 22 Copynumber: 2.2 Consensus size: 23
38483 TTTAATTAAT
38493 AAATATATATTTTAA-AAATTATAA
1 AAATAT-TA-TTTAATAAATTATAA
38517 AAATATTATTTAATAAATT-TAA
1 AAATATTATTTAATAAATTATAA
38539 AAAT
1 AAAT
38543 TAACACGTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 12 0.48
23 7 0.28
24 6 0.24
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (23 bp):
AAATATTATTTAATAAATTATAA
Found at i:39423 original size:17 final size:17
Alignment explanation
Indices: 39398--39431 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
39388 TAAGGTGTAG
*
39398 TAATTTTAAAATTTTAA
1 TAATATTAAAATTTTAA
*
39415 TAATATTAAACTTTTAA
1 TAATATTAAAATTTTAA
39432 ATATTTTTCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (17 bp):
TAATATTAAAATTTTAA
Found at i:40129 original size:24 final size:23
Alignment explanation
Indices: 40102--40174 Score: 76
Period size: 24 Copynumber: 3.1 Consensus size: 23
40092 AACTTAGTCA
40102 AACAAGTTATTGAACATGTTCACG
1 AACAA-TTATTGAACATGTTCACG
** *
40126 AAC-ATTAAACGGACATGTTCACG
1 AACAATT-ATTGAACATGTTCACG
*
40149 AACATATAATTGAACATGTTCACG
1 AACA-ATTATTGAACATGTTCACG
40173 AA
1 AA
40175 GAATATTAGT
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
22 2 0.05
23 17 0.44
24 18 0.46
25 2 0.05
ACGTcount: A:0.41, C:0.18, G:0.15, T:0.26
Consensus pattern (23 bp):
AACAATTATTGAACATGTTCACG
Found at i:40141 original size:23 final size:24
Alignment explanation
Indices: 40113--40174 Score: 90
Period size: 23 Copynumber: 2.6 Consensus size: 24
40103 ACAAGTTATT
40113 GAACATGTTCACGAACAT-TAAAC
1 GAACATGTTCACGAACATATAAAC
* **
40136 GGACATGTTCACGAACATATAATT
1 GAACATGTTCACGAACATATAAAC
40160 GAACATGTTCACGAA
1 GAACATGTTCACGAA
40175 GAATATTAGT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 17 0.50
24 17 0.50
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.24
Consensus pattern (24 bp):
GAACATGTTCACGAACATATAAAC
Found at i:40187 original size:25 final size:24
Alignment explanation
Indices: 40112--40187 Score: 73
Period size: 23 Copynumber: 3.2 Consensus size: 24
40102 AACAAGTTAT
* *
40112 TGAACATGTTCACGAACAT-TAAA
1 TGAACATGTTCACGAAAATATAAG
* * * *
40135 CGGACATGTTCACGAACATATAAT
1 TGAACATGTTCACGAAAATATAAG
*
40159 TGAACATGTTCACGAAGAATATTAG
1 TGAACATGTTCACGAA-AATATAAG
40184 TGAA
1 TGAA
40188 TAATAAACAA
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
23 17 0.40
24 17 0.40
25 9 0.21
ACGTcount: A:0.41, C:0.16, G:0.17, T:0.26
Consensus pattern (24 bp):
TGAACATGTTCACGAAAATATAAG
Found at i:44194 original size:177 final size:177
Alignment explanation
Indices: 43898--44251 Score: 627
Period size: 177 Copynumber: 2.0 Consensus size: 177
43888 CTTGTAAACG
* *
43898 GAAATATTCGGATCCAGAGCTGATAAACCTACCAAATGAATATTCTGGGTTTTATAATTAGCTTC
1 GAAATATTCGGATCCAGAGCTGATAAACCTACCAAATAAATATTCTGGGTTTTATAAGTAGCTTC
* *
43963 AACTTTCAATTCTCATTCCATTTTACACGTTATTAAAGTCAAAACTCTGATGAATTCAGAAATAG
66 AACTTTCAATTCCCATACCATTTTACACGTTATTAAAGTCAAAACTCTGATGAATTCAGAAATAG
44028 AATGGATTTATGATCAAACTAAAAGATGATGCCATATGTACTCTAAC
131 AATGGATTTATGATCAAACTAAAAGATGATGCCATATGTACTCTAAC
* *
44075 GAAATATTCGGATCCAGAGCTGATAAATCTACCTAATAAATATTCTGGGTTTTATAAGTAGCTTC
1 GAAATATTCGGATCCAGAGCTGATAAACCTACCAAATAAATATTCTGGGTTTTATAAGTAGCTTC
*
44140 AACTTTCAATTCCCATACCATTTTACTCGTTATTAAAGTCAAAACTCTGATGAATTCAGAAATAG
66 AACTTTCAATTCCCATACCATTTTACACGTTATTAAAGTCAAAACTCTGATGAATTCAGAAATAG
* *
44205 AATGGATTTATGATCAGACTAAAAGATGATGCTATATGTACTCTAAC
131 AATGGATTTATGATCAAACTAAAAGATGATGCCATATGTACTCTAAC
44252 TCCACAACAA
Statistics
Matches: 168, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
177 168 1.00
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (177 bp):
GAAATATTCGGATCCAGAGCTGATAAACCTACCAAATAAATATTCTGGGTTTTATAAGTAGCTTC
AACTTTCAATTCCCATACCATTTTACACGTTATTAAAGTCAAAACTCTGATGAATTCAGAAATAG
AATGGATTTATGATCAAACTAAAAGATGATGCCATATGTACTCTAAC
Found at i:57400 original size:2 final size:2
Alignment explanation
Indices: 57393--57418 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
57383 ATACGATCGC
57393 GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA
57419 ACTAGTACAC
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:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:58851 original size:28 final size:28
Alignment explanation
Indices: 58806--58866 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
58796 TAAGATAACT
*
58806 ATATAAAAAAATTTAATAAATAAAA-AAA
1 ATATAAAAAAATTAAAT-AATAAAATAAA
** *
58834 ATATAAAATTATTAAATATTAAAATAAA
1 ATATAAAAAAATTAAATAATAAAATAAA
58862 ATATA
1 ATATA
58867 TTTTTTTTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 6 0.21
28 22 0.79
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (28 bp):
ATATAAAAAAATTAAATAATAAAATAAA
Found at i:67897 original size:79 final size:79
Alignment explanation
Indices: 67758--67966 Score: 285
Period size: 79 Copynumber: 2.6 Consensus size: 79
67748 CTGACATATA
* *
67758 TGACACCCCAGTGCTTAGCGGATAAACCGCAAATGTGAGCCCAGCTCTAGTTGGATTAACCAACG
1 TGACA-CCCAGTGCCTAGCGGATAAACCGCAAATGTGAGCCCAGCTCTAGTTGGATTAACCAACA
* *
67823 ATGCCCGTCAAATCC
65 ATACCCATCAAATCC
* * *
67838 T-AGCACTCAGTGCCTAGCGGATAAACCGCGATTGTGAGCCCAGCTCTAGTTGGATTAACCAACA
1 TGA-CACCCAGTGCCTAGCGGATAAACCGCAAATGTGAGCCCAGCTCTAGTTGGATTAACCAACA
*
67902 ATATCCATCAAATCC
65 ATACCCATCAAATCC
* * * *
67917 TGACACCCAATGCCTAACGGATAAACCGCAAATGTGTGCCCAGCACTAGT
1 TGACACCCAGTGCCTAGCGGATAAACCGCAAATGTGAGCCCAGCTCTAGT
67967 CAGTTAAATT
Statistics
Matches: 112, Mismatches: 15, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
79 108 0.96
80 4 0.04
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (79 bp):
TGACACCCAGTGCCTAGCGGATAAACCGCAAATGTGAGCCCAGCTCTAGTTGGATTAACCAACAA
TACCCATCAAATCC
Found at i:71467 original size:3 final size:3
Alignment explanation
Indices: 71459--71485 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
71449 GAGCCAACTA
71459 TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT
71486 GATTCTCAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:76566 original size:33 final size:33
Alignment explanation
Indices: 76524--76589 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
76514 ATATAAATAA
76524 GCAGGAAGTGTAAATTTGAGATTATACCAATTT
1 GCAGGAAGTGTAAATTTGAGATTATACCAATTT
76557 GCAGGAAGTGTAAATTTGAGATTATACCAATTT
1 GCAGGAAGTGTAAATTTGAGATTATACCAATTT
76590 TTCAAAAGTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.36, C:0.09, G:0.21, T:0.33
Consensus pattern (33 bp):
GCAGGAAGTGTAAATTTGAGATTATACCAATTT
Found at i:76612 original size:32 final size:33
Alignment explanation
Indices: 76529--76626 Score: 114
Period size: 33 Copynumber: 3.0 Consensus size: 33
76519 AATAAGCAGG
* *
76529 AAGTGTAAATTTGAGATTATACCAA-TTTGCAGG
1 AAGTGTAAATTTGAGATTATACCAATTTTTCA-A
76562 AAGTGTAAATTTGAGATTATACCAATTTTTCAA
1 AAGTGTAAATTTGAGATTATACCAATTTTTCAA
*
76595 AAGT-TAAATTT-ATGATTAT-CTCAATATTTCAA
1 AAGTGTAAATTTGA-GATTATAC-CAATTTTTCAA
76627 TTAGACCTGA
Statistics
Matches: 59, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
31 2 0.03
32 23 0.39
33 29 0.49
34 5 0.08
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.39
Consensus pattern (33 bp):
AAGTGTAAATTTGAGATTATACCAATTTTTCAA
Found at i:76878 original size:22 final size:21
Alignment explanation
Indices: 76827--76959 Score: 94
Period size: 22 Copynumber: 6.4 Consensus size: 21
76817 AAAAATTATA
*
76827 TTATTGTTTTGGTGTTG-CTT
1 TTATTGTTTTGGTGTTGTTTT
** *
76847 TTGCTATTTTGGTGTTGTATTT
1 TTATTGTTTTGGTGTTGT-TTT
*
76869 TTATTGTTTTGATGTTGTGTTT
1 TTATTGTTTTGGTGTTGT-TTT
* *
76891 TTATTGTTTTGAT-AT-TTTT
1 TTATTGTTTTGGTGTTGTTTT
* *
76910 TTACTGTTTTGGTGTTATTTTT
1 TTATTGTTTTGGTGTT-GTTTT
* * * *
76932 TTACTATTTTGGTGCT-ATTT
1 TTATTGTTTTGGTGTTGTTTT
76952 TTATTGTT
1 TTATTGTT
76960 ATTTTTGTTA
Statistics
Matches: 90, Mismatches: 18, Indels: 10
0.76 0.15 0.08
Matches are distributed among these distances:
19 14 0.16
20 25 0.28
21 1 0.01
22 50 0.56
ACGTcount: A:0.11, C:0.04, G:0.19, T:0.67
Consensus pattern (21 bp):
TTATTGTTTTGGTGTTGTTTT
Found at i:76973 original size:24 final size:23
Alignment explanation
Indices: 76946--77013 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 23
76936 TATTTTGGTG
*
76946 CTATTTTTATTGTTATTTTTGTTA
1 CTATTTTT-TTGTTATTTTTGCTA
* *
76970 CTATTTTTTCTATTATTTTTGCTG
1 CTATTTTTT-TGTTATTTTTGCTA
* *
76994 CTGTTTTGGTTGTTATTTTT
1 CTATTTT-TTTGTTATTTTT
77014 AGTTGTTTGG
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
23 1 0.03
24 34 0.94
25 1 0.03
ACGTcount: A:0.12, C:0.07, G:0.12, T:0.69
Consensus pattern (23 bp):
CTATTTTTTTGTTATTTTTGCTA
Found at i:98305 original size:16 final size:16
Alignment explanation
Indices: 98284--98317 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
98274 TAATAATTTA
*
98284 TTAATTTTATATATAT
1 TTAATTTTATAAATAT
98300 TTAATTTTATAAATAT
1 TTAATTTTATAAATAT
98316 TT
1 TT
98318 TTGTTTTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TTAATTTTATAAATAT
Found at i:98350 original size:2 final size:2
Alignment explanation
Indices: 98343--98374 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
98333 ATTTATTTTA
98343 AT AT AT 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 AT AT AT
98375 TTGGTTTAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:101249 original size:21 final size:21
Alignment explanation
Indices: 101216--101269 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
101206 ATATACACAT
*
101216 TAAAAATAT-AAAAATAAACA
1 TAAATATATAAAAAATAAACA
** *
101236 TAAATATATAAAAAATTCAGA
1 TAAATATATAAAAAATAAACA
*
101257 AAAATATATAAAA
1 TAAATATATAAAA
101270 TCTAGAAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 8 0.29
21 20 0.71
ACGTcount: A:0.70, C:0.04, G:0.02, T:0.24
Consensus pattern (21 bp):
TAAATATATAAAAAATAAACA
Found at i:101270 original size:48 final size:48
Alignment explanation
Indices: 101218--101310 Score: 127
Period size: 48 Copynumber: 1.9 Consensus size: 48
101208 ATACACATTA
*
101218 AAAATATA-AAAATAA-ACATAAATATATAAAAAATTCAGAAAAATATAT
1 AAAATATAGAAAATAATA-ATAAAT-TATAAAAAATTCACAAAAATATAT
* *
101266 AAAATCTAGAAAATAATAATAAATTATAAAAAATTTACAAAAATA
1 AAAATATAGAAAATAATAATAAATTATAAAAAATTCACAAAAATA
101311 CAATAATTGA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
48 26 0.65
49 13 0.32
50 1 0.03
ACGTcount: A:0.68, C:0.04, G:0.02, T:0.26
Consensus pattern (48 bp):
AAAATATAGAAAATAATAATAAATTATAAAAAATTCACAAAAATATAT
Found at i:101278 original size:19 final size:19
Alignment explanation
Indices: 101217--101270 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 19
101207 TATACACATT
** *
101217 AAAAATATAAAAATAAACAT
1 AAAAATATAAAAA-ATTCAG
*
101237 AAATATATAAAAAATTCAG
1 AAAAATATAAAAAATTCAG
*
101256 AAAAATATATAAAAT
1 AAAAATATAAAAAAT
101271 CTAGAAAATA
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
19 16 0.57
20 12 0.43
ACGTcount: A:0.70, C:0.04, G:0.02, T:0.24
Consensus pattern (19 bp):
AAAAATATAAAAAATTCAG
Found at i:101522 original size:23 final size:22
Alignment explanation
Indices: 101487--101549 Score: 74
Period size: 23 Copynumber: 2.8 Consensus size: 22
101477 TTATTTTGAC
* *
101487 TTTTTAAAATTTATAAATAATT
1 TTTTTAAATTTTATAAATAATA
*
101509 TTTTTAGAATTTTATAAAAAATA
1 TTTTTA-AATTTTATAAATAATA
101532 TTTTTAAACTTTT-TAAAT
1 TTTTTAAA-TTTTATAAAT
101550 TTTTAATATT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
22 12 0.34
23 23 0.66
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (22 bp):
TTTTTAAATTTTATAAATAATA
Found at i:101586 original size:8 final size:7
Alignment explanation
Indices: 101551--101589 Score: 60
Period size: 7 Copynumber: 5.3 Consensus size: 7
101541 TTTTTAAATT
101551 TTTAATA
1 TTTAATA
101558 TTTAATA
1 TTTAATA
101565 TTTAAATA
1 TTT-AATA
101573 TTTAATA
1 TTTAATA
101580 TTATAATA
1 TT-TAATA
101588 TT
1 TT
101590 CTATTTTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
7 16 0.53
8 14 0.47
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
TTTAATA
Found at i:101587 original size:15 final size:14
Alignment explanation
Indices: 101551--101589 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 14
101541 TTTTTAAATT
101551 TTTAATATTTAATA
1 TTTAATATTTAATA
101565 TTTAAATATTTAATA
1 TTT-AATATTTAATA
101580 TTATAATATT
1 TT-TAATATT
101590 CTATTTTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 3 0.13
15 19 0.83
16 1 0.04
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
TTTAATATTTAATA
Found at i:109861 original size:20 final size:18
Alignment explanation
Indices: 109838--109873 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
109828 AATTTTATAT
*
109838 AAAATTTAAAAAGTATAAG
1 AAAAATTAAAAA-TATAAG
109857 AAAAATTAAAAATATAA
1 AAAAATTAAAAATATAA
109874 ATTATAACAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.25
Consensus pattern (18 bp):
AAAAATTAAAAATATAAG
Found at i:110336 original size:6 final size:7
Alignment explanation
Indices: 110303--110338 Score: 54
Period size: 7 Copynumber: 4.9 Consensus size: 7
110293 AAAATATATT
110303 TTTTATAC
1 TTTT-TAC
110311 TTTTATAC
1 TTTT-TAC
110319 TTTTTAC
1 TTTTTAC
110326 TTTTTAC
1 TTTTTAC
110333 TTTTTA
1 TTTTTA
110339 AATGATTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
7 16 0.57
8 12 0.43
ACGTcount: A:0.19, C:0.11, G:0.00, T:0.69
Consensus pattern (7 bp):
TTTTTAC
Found at i:110949 original size:52 final size:52
Alignment explanation
Indices: 110871--110975 Score: 210
Period size: 52 Copynumber: 2.0 Consensus size: 52
110861 AGAAACCCCA
110871 TGTCTGACTCTGACCACAGACAACTGTTTGCTTAGACATGTATAAATGATGT
1 TGTCTGACTCTGACCACAGACAACTGTTTGCTTAGACATGTATAAATGATGT
110923 TGTCTGACTCTGACCACAGACAACTGTTTGCTTAGACATGTATAAATGATGT
1 TGTCTGACTCTGACCACAGACAACTGTTTGCTTAGACATGTATAAATGATGT
110975 T
1 T
110976 ACTTGCTTCA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (52 bp):
TGTCTGACTCTGACCACAGACAACTGTTTGCTTAGACATGTATAAATGATGT
Found at i:124248 original size:12 final size:12
Alignment explanation
Indices: 124231--124272 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
124221 ACATCCGAAT
124231 AACAAAAATAAC
1 AACAAAAATAAC
124243 AACAAAAA-AAGC
1 AACAAAAATAA-C
*
124255 AGCAAAAATAAC
1 AACAAAAATAAC
*
124267 AGCAAA
1 AACAAA
124273 GCAACATTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
11 2 0.07
12 23 0.85
13 2 0.07
ACGTcount: A:0.71, C:0.17, G:0.07, T:0.05
Consensus pattern (12 bp):
AACAAAAATAAC
Found at i:124351 original size:21 final size:21
Alignment explanation
Indices: 124313--124374 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
124303 AAATAATAGT
*
124313 AAAAACAACAACTGAAACAGTAA
1 AAAAACAAC-AC-AAAACAGTAA
* *
124336 AAAAA-AGCACCAAAACAATAA
1 AAAAACAACA-CAAAACAGTAA
124357 AAAAACAACACAAAACAG
1 AAAAACAACACAAAACAG
124375 CAATCAAAAC
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
21 21 0.66
22 6 0.19
23 5 0.16
ACGTcount: A:0.69, C:0.19, G:0.06, T:0.05
Consensus pattern (21 bp):
AAAAACAACACAAAACAGTAA
Found at i:124404 original size:33 final size:33
Alignment explanation
Indices: 124346--124411 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 33
124336 AAAAAAGCAC
*
124346 CAAAACAATAAAAAAACAACACAAAACAGCAAT
1 CAAAACAATAAAAAAACAACACAAAACAACAAT
*
124379 CAAAACAGTAAAAAATAGC-AC-CAAAACAACAAT
1 CAAAACAATAAAAAA-A-CAACACAAAACAACAAT
124412 ATAATTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
33 25 0.86
34 3 0.10
35 1 0.03
ACGTcount: A:0.67, C:0.21, G:0.05, T:0.08
Consensus pattern (33 bp):
CAAAACAATAAAAAAACAACACAAAACAACAAT
Done.