Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01014018.1 Kokia drynarioides strain JFW-HI SEQ_129049, 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: 178492
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Warning! 42 characters in sequence are not A, C, G, or T
Found at i:3090 original size:20 final size:20
Alignment explanation
Indices: 3051--3090 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
3041 TTGAAAATGG
*
3051 TTTTTGGAAAATTATTTATT
1 TTTTTGGAAAATTATATATT
3071 TTTTTGGAAAAGTTA-ATATT
1 TTTTTGGAAAA-TTATATATT
3091 ATTTGGTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 15 0.83
21 3 0.17
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.55
Consensus pattern (20 bp):
TTTTTGGAAAATTATATATT
Found at i:12649 original size:587 final size:587
Alignment explanation
Indices: 11360--13114 Score: 2908
Period size: 587 Copynumber: 3.0 Consensus size: 587
11350 CCGGTACTTG
* * *
11360 ATGGTCAAGTATTGGTAGTAGTCAACTCAATGAACAATTTTAGAACTGTACAAATTTCTACCGAA
1 ATGGTCAAGTATCGGTAGTAGTCAATTCAATGAACAATTTTAGAACTGTACAGATTTCTACCGAA
*
11425 ACAAGTCATGCAACTACCGATACCAAAAACTCTAGAGAGCAAAAATCCATACCTTATAACTTCTA
66 ACAAGTCATGCAACTACCGATACCAAAAACTCTAGAGAGCAAAAATCCATACCTTACAACTTCTA
11490 CCGATACAAGCTTACATACTACCGATACATCAGTTCTATGAACTACCGATACCTGCAATTCAACT
131 CCGATACAAGCTTACATACTACCGATACATCAGTTCTATGAACTACCGATACCTGCAATTCAACT
* * * * *
11555 ACTGGTACAATCCAAGTTAGAGAACAACCTCTCTCCTACCTTGTATTTCTACCGATACATGCAAT
196 ACCGGTACAATCCAAGTTAGAGAAAAACCTCTCTCCTACCCTGTACTTCTATCGATACATGCAAT
* * *
11620 AATTCTACCGAAACAAGTATGCTGAATTTCATTAGTGATGCCAAGACACAAGTTTAATAGCTCAA
261 AATTCTACCGAAACAAGTATGCAGAATTTCATTAATGATGCCAAGACACAAGTTTAATACCTCAA
*
11685 ACACAACCAATATAAGTTATGCATTAAAACATCACAACACATACATAACTTCTAAGTCTTTACAA
326 ACACAACCAATATAAGTTATGCATTAAAACATCACAACACACACATAACTTCTAAGTCTTTACAA
*
11750 GCATTATAAGCCAAGACATCAAAGTTATACTACATGCATTTACAAAATCAAAATAGTAAGATTTC
391 GCATTATAAGCCAAGGCATCAAAGTTATACTACATGCATTTACAAAATCAAAATAGTAAGATTTC
11815 AACATCTTTGGTTCCATATCAAAGGTTAATAACATCCTAGTACATGCCATAAGACCAAGTGATAC
456 AACATCTTTGGTTCCATATCAAAGGTTAA-AACATCCTAGTACATGCCATAAGACCAAGTGATAC
* *
11880 AAAATCTACCGACAATTCCGCGATAGTGTGACTTCAGGTGAGGTCGATGATCCGATCTTCAGTAC
520 AAAATCTACCGATAATTCCGCGATAGTGTGACTTCAAGTGAGGTCGATGATCCGATCTTCAGTAC
* *
11945 TTG
585 CTA
* * *
11948 ATGGTCAAGTATCGGTAGTAGTTAATTCAATGAACAATTTTAAAACTGTGCAGATTTCTACCGAA
1 ATGGTCAAGTATCGGTAGTAGTCAATTCAATGAACAATTTTAGAACTGTACAGATTTCTACCGAA
* *
12013 ACAAGTCATGCAACTACCGATATCAAAAACTTTAGAGAGCAAAAATCCATACCTTACAACTTCTA
66 ACAAGTCATGCAACTACCGATACCAAAAACTCTAGAGAGCAAAAATCCATACCTTACAACTTCTA
*
12078 CCGATACAAGCTTACATACTACCGATACATCAGTTCTATGAACTATCGATACCTGCAATTCAACT
131 CCGATACAAGCTTACATACTACCGATACATCAGTTCTATGAACTACCGATACCTGCAATTCAACT
* *
12143 ACCGATACAATCCAAGTTAGAAAAAAAACCTCTCTCCTACCCTGTACTTCTATCGATACATGCAA
196 ACCGGTACAATCCAAGTTAG-AGAAAAACCTCTCTCCTACCCTGTACTTCTATCGATACATGCAA
* * *
12208 TAATTCTACCGAAACAAGTATGCAGAATTTCATTAATGACGCTAAGATACAAGTTTAATACCTCA
260 TAATTCTACCGAAACAAGTATGCAGAATTTCATTAATGATGCCAAGACACAAGTTTAATACCTCA
* * *
12273 AACACAACCAATATAAGTTATACATTAAAACATCACAACCCACACATAACTTTTAAGTCTTTACA
325 AACACAACCAATATAAGTTATGCATTAAAACATCACAACACACACATAACTTCTAAGTCTTTACA
*
12338 AGCATTATAAGCCAAGGCATCAAAGTTATACTACATGCATTTATAAAATCAAAAT-GTAAGATTT
390 AGCATTATAAGCCAAGGCATCAAAGTTATACTACATGCATTTACAAAATCAAAATAGTAAGATTT
12402 CAACATCTTTGGTTCCATATC-AAGGTTAAAAACATCCTAGTACATGCCATAAGACCAAGTGATA
455 CAACATCTTTGGTTCCATATCAAAGGTT-AAAACATCCTAGTACATGCCATAAGACCAAGTGATA
* * *
12466 CAAAATTTACCGATAATTCCGCGATAGTGTGACTTCACGTGAGGTCGATTATCCGATCTTCAGTA
519 CAAAATCTACCGATAATTCCGCGATAGTGTGACTTCAAGTGAGGTCGATGATCCGATCTTCAGTA
12531 CCTA
584 CCTA
* * * *
12535 ATGGTCAAGTATCGATAGTAGTCAATTCAATGAAAAATTTTAGAACTGTACTGATTTCTACCAAA
1 ATGGTCAAGTATCGGTAGTAGTCAATTCAATGAACAATTTTAGAACTGTACAGATTTCTACCGAA
*
12600 ACAAGTCATGCAACTACCGATA-CAAAAACCTCTAGAGAGCAAAAATCCATACCCTACAACTTCT
66 ACAAGTCATGCAACTACCGATACCAAAAA-CTCTAGAGAGCAAAAATCCATACCTTACAACTTCT
* * ** *
12664 ACCGATACAAGCTTACATACTACCGATACATCAATTTTATGAACTACCGATAGATGGAATTCAAC
130 ACCGATACAAGCTTACATACTACCGATACATCAGTTCTATGAACTACCGATACCTGCAATTCAAC
* * *
12729 TACCGGTACAATCCAAGTCAGAGAAAAACCTCTCTCCTACCCTTTACTTCTATCGATACATGTAA
195 TACCGGTACAATCCAAGTTAGAGAAAAACCTCTCTCCTACCCTGTACTTCTATCGATACATGCAA
* * *
12794 TAATTCTACTGAAACAAGTATACAGAATTTCATTAATGATGCCAAGACAAAAGTTTAATACCTCA
260 TAATTCTACCGAAACAAGTATGCAGAATTTCATTAATGATGCCAAGACACAAGTTTAATACCTCA
* * *
12859 AACATAACCAATATAAGTTATGCATTAGAACATCACAATACACACATAACTTCTAAGTCTTTACA
325 AACACAACCAATATAAGTTATGCATTAAAACATCACAACACACACATAACTTCTAAGTCTTTACA
12924 AGCATTATAAGCCAAGGCATCAAAGTTATACTACATGCATTTACAAAATCAAAATAGTAAGATTT
390 AGCATTATAAGCCAAGGCATCAAAGTTATACTACATGCATTTACAAAATCAAAATAGTAAGATTT
* *
12989 CAAAATCTTTGGTTCCATATCAAAGGTT--AACATCCTAGTACATGCCATAAGACCAAGTGATGC
455 CAACATCTTTGGTTCCATATCAAAGGTTAAAACATCCTAGTACATGCCATAAGACCAAGTGATAC
* *
13052 AAAATCTACCGATAATTTCGCGATAGTGTGACTTCAAGTGAGGTCGATGATTCGATCTTCAGT
520 AAAATCTACCGATAATTCCGCGATAGTGTGACTTCAAGTGAGGTCGATGATCCGATCTTCAGT
13115 TAGCAAAACG
Statistics
Matches: 1087, Mismatches: 75, Indels: 13
0.93 0.06 0.01
Matches are distributed among these distances:
585 92 0.08
586 219 0.20
587 323 0.30
588 241 0.22
589 212 0.20
ACGTcount: A:0.38, C:0.22, G:0.13, T:0.28
Consensus pattern (587 bp):
ATGGTCAAGTATCGGTAGTAGTCAATTCAATGAACAATTTTAGAACTGTACAGATTTCTACCGAA
ACAAGTCATGCAACTACCGATACCAAAAACTCTAGAGAGCAAAAATCCATACCTTACAACTTCTA
CCGATACAAGCTTACATACTACCGATACATCAGTTCTATGAACTACCGATACCTGCAATTCAACT
ACCGGTACAATCCAAGTTAGAGAAAAACCTCTCTCCTACCCTGTACTTCTATCGATACATGCAAT
AATTCTACCGAAACAAGTATGCAGAATTTCATTAATGATGCCAAGACACAAGTTTAATACCTCAA
ACACAACCAATATAAGTTATGCATTAAAACATCACAACACACACATAACTTCTAAGTCTTTACAA
GCATTATAAGCCAAGGCATCAAAGTTATACTACATGCATTTACAAAATCAAAATAGTAAGATTTC
AACATCTTTGGTTCCATATCAAAGGTTAAAACATCCTAGTACATGCCATAAGACCAAGTGATACA
AAATCTACCGATAATTCCGCGATAGTGTGACTTCAAGTGAGGTCGATGATCCGATCTTCAGTACC
TA
Found at i:19255 original size:23 final size:23
Alignment explanation
Indices: 19230--19578 Score: 490
Period size: 23 Copynumber: 15.3 Consensus size: 23
19220 CTTATTTGTA
* * *
19230 TGCTTAAATATTAATATAATTTA
1 TGCTTAAATATTAATGTGATTTG
19253 TGCTTAAATATTAATGTGATTTG
1 TGCTTAAATATTAATGTGATTTG
19276 TGCTTAAATATTAATGTGATTTG
1 TGCTTAAATATTAATGTGATTTG
*
19299 TGCTCAAATATTAATGTGATTTG
1 TGCTTAAATATTAATGTGATTTG
19322 TGCTT--A-ATTAATGTGATTTG
1 TGCTTAAATATTAATGTGATTTG
** * *
19342 CACTTAAATATTAATATGATTTA
1 TGCTTAAATATTAATGTGATTTG
*
19365 TGCTCAAATATTAATGTGATTTG
1 TGCTTAAATATTAATGTGATTTG
* *
19388 TGCTTAAATA-TAATGCGATTTA
1 TGCTTAAATATTAATGTGATTTG
19410 TGCTTAAATATTAATGTGATTTG
1 TGCTTAAATATTAATGTGATTTG
* *
19433 TGCTTATATATTAATGTGCTTTG
1 TGCTTAAATATTAATGTGATTTG
*
19456 TGCTTAAATATTAATATGATTTG
1 TGCTTAAATATTAATGTGATTTG
* *
19479 TGCTCAAATATTAATGTGATTTA
1 TGCTTAAATATTAATGTGATTTG
19502 TGCTTAAATATTAATGTGATTTG
1 TGCTTAAATATTAATGTGATTTG
* * *
19525 TGCTTAAATATGAATATGATTTA
1 TGCTTAAATATTAATGTGATTTG
*
19548 TGATTAAATATTAATGTGATTTG
1 TGCTTAAATATTAATGTGATTTG
19571 TGCTTAAA
1 TGCTTAAA
19579 GAATTAAGAT
Statistics
Matches: 285, Mismatches: 37, Indels: 8
0.86 0.11 0.02
Matches are distributed among these distances:
20 17 0.06
21 1 0.00
22 21 0.07
23 246 0.86
ACGTcount: A:0.33, C:0.06, G:0.15, T:0.46
Consensus pattern (23 bp):
TGCTTAAATATTAATGTGATTTG
Found at i:19688 original size:36 final size:35
Alignment explanation
Indices: 19648--19759 Score: 152
Period size: 36 Copynumber: 3.1 Consensus size: 35
19638 TGATAACGGT
* **
19648 TGTGAAAGTGAATATGTATGTATGTTCTTCATGCCA
1 TGTGAAAG-AAATATGTGGGTATGTTCTTCATGCCA
*
19684 TGTGACAGAAAATATGTGGGTATGTTCTTCATGCCA
1 TGTGAAAG-AAATATGTGGGTATGTTCTTCATGCCA
* *
19720 TGAGATAGAAATATGTGGGTATGTTCTTCATGCCA
1 TGTGAAAGAAATATGTGGGTATGTTCTTCATGCCA
19755 TGTGA
1 TGTGA
19760 CTGATAATAT
Statistics
Matches: 68, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
35 31 0.46
36 37 0.54
ACGTcount: A:0.28, C:0.12, G:0.25, T:0.36
Consensus pattern (35 bp):
TGTGAAAGAAATATGTGGGTATGTTCTTCATGCCA
Found at i:19739 original size:35 final size:36
Alignment explanation
Indices: 19658--19756 Score: 155
Period size: 36 Copynumber: 2.8 Consensus size: 36
19648 TGTGAAAGTG
** *
19658 AATATGTATGTATGTTCTTCATGCCATGTGACAGAA
1 AATATGTGGGTATGTTCTTCATGCCATGAGACAGAA
*
19694 AATATGTGGGTATGTTCTTCATGCCATGAGATAG-A
1 AATATGTGGGTATGTTCTTCATGCCATGAGACAGAA
19729 AATATGTGGGTATGTTCTTCATGCCATG
1 AATATGTGGGTATGTTCTTCATGCCATG
19757 TGACTGATAA
Statistics
Matches: 59, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
35 29 0.49
36 30 0.51
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.36
Consensus pattern (36 bp):
AATATGTGGGTATGTTCTTCATGCCATGAGACAGAA
Found at i:22604 original size:40 final size:40
Alignment explanation
Indices: 22551--22782 Score: 245
Period size: 40 Copynumber: 5.8 Consensus size: 40
22541 TTTGCACTGG
*
22551 CTCATAGCTTGCTAAGCCGTA-CATTGAATTTTAACACCGA
1 CTCATAGCCTGCTAAGCCGTAGC-TTGAATTTTAACACCGA
* * *
22591 CTCATAGCCTGCTAAGCCATAGCATGAATTTTAACA-CTA
1 CTCATAGCCTGCTAAGCCGTAGCTTGAATTTTAACACCGA
* * * * *
22630 GCTCATAGCTTGCTAAGTCATAGCTTGAATTTTAACAACGG
1 -CTCATAGCCTGCTAAGCCGTAGCTTGAATTTTAACACCGA
* * * *
22671 CACATAGTCTGCTAAGTCGTTGCTTGAATTTTAACACCGA
1 CTCATAGCCTGCTAAGCCGTAGCTTGAATTTTAACACCGA
* * * * *
22711 CACTTAGCCTGCTAAGTCGTAGCTTGAATTTTAACACTGG
1 CTCATAGCCTGCTAAGCCGTAGCTTGAATTTTAACACCGA
*
22751 CAT-ATAACCTGCTAAGCCGTAGCTTGAATTTT
1 C-TCATAGCCTGCTAAGCCGTAGCTTGAATTTT
22783 TTCGTAATAA
Statistics
Matches: 163, Mismatches: 25, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
39 2 0.01
40 159 0.98
41 2 0.01
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (40 bp):
CTCATAGCCTGCTAAGCCGTAGCTTGAATTTTAACACCGA
Found at i:22683 original size:80 final size:80
Alignment explanation
Indices: 22545--22782 Score: 275
Period size: 80 Copynumber: 3.0 Consensus size: 80
22535 AATTTTTTTG
* * * * *
22545 CACTGGCTCATAGCTTGCTAAGCCGTA-CATTGAATTTTAACACCGACTCATAGCCTGCTAAGCC
1 CACTAGCTCATAGCTTGCTAAGTCGTAGC-TTGAATTTTAACAACGGCACATAGCCTGCTAAGCC
* *
22609 ATAGCATGAATTTTAA
65 GTAGCTTGAATTTTAA
* * *
22625 CACTAGCTCATAGCTTGCTAAGTCATAGCTTGAATTTTAACAACGGCACATAGTCTGCTAAGTCG
1 CACTAGCTCATAGCTTGCTAAGTCGTAGCTTGAATTTTAACAACGGCACATAGCCTGCTAAGCCG
*
22690 TTGCTTGAATTTTAA
66 TAGCTTGAATTTTAA
* * * * * *
22705 CAC-CGACACTTAGCCTGCTAAGTCGTAGCTTGAATTTTAAC-ACTGGCATATAACCTGCTAAGC
1 CACTAG-CTCATAGCTTGCTAAGTCGTAGCTTGAATTTTAACAAC-GGCACATAGCCTGCTAAGC
22768 CGTAGCTTGAATTTT
64 CGTAGCTTGAATTTT
22783 TTCGTAATAA
Statistics
Matches: 134, Mismatches: 21, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
79 3 0.02
80 130 0.97
81 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (80 bp):
CACTAGCTCATAGCTTGCTAAGTCGTAGCTTGAATTTTAACAACGGCACATAGCCTGCTAAGCCG
TAGCTTGAATTTTAA
Found at i:25514 original size:24 final size:24
Alignment explanation
Indices: 25481--25530 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
25471 AAAGTTCGAC
*
25481 TGAAACAAATAAACAAAATTTAAT
1 TGAAAAAAATAAACAAAATTTAAT
* *
25505 TGAAAAAAATAAATAAAGTTTAAT
1 TGAAAAAAATAAACAAAATTTAAT
25529 TG
1 TG
25531 GAATATTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.60, C:0.04, G:0.08, T:0.28
Consensus pattern (24 bp):
TGAAAAAAATAAACAAAATTTAAT
Found at i:25830 original size:13 final size:13
Alignment explanation
Indices: 25812--25837 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
25802 GGGTTTATAG
25812 TACGAGGAAAAAT
1 TACGAGGAAAAAT
25825 TACGAGGAAAAAT
1 TACGAGGAAAAAT
25838 AAGAGAGTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.08, G:0.23, T:0.15
Consensus pattern (13 bp):
TACGAGGAAAAAT
Found at i:25876 original size:14 final size:15
Alignment explanation
Indices: 25852--25881 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
25842 GAGTTGTTTG
25852 AAAGCATAAAAATAA
1 AAAGCATAAAAATAA
25867 AAAG-ATAAAAATAA
1 AAAGCATAAAAATAA
25881 A
1 A
25882 GTAAGTTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.77, C:0.03, G:0.07, T:0.13
Consensus pattern (15 bp):
AAAGCATAAAAATAA
Found at i:29502 original size:14 final size:15
Alignment explanation
Indices: 29478--29507 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
29468 GAGTTGTTTC
29478 AAAGCATAAAAATAA
1 AAAGCATAAAAATAA
29493 AAAG-ATAAAAATAA
1 AAAGCATAAAAATAA
29507 A
1 A
29508 GTAAGTTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.77, C:0.03, G:0.07, T:0.13
Consensus pattern (15 bp):
AAAGCATAAAAATAA
Found at i:40362 original size:24 final size:24
Alignment explanation
Indices: 40317--40373 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 24
40307 TTTCTTACTC
*
40317 TTTTCTTTTTGTAATTTTACTT-A
1 TTTTCTTTTTGTAATTTCACTTGA
** *
40340 TTTTCTTTTTGTTCTGTTCACTTGT
1 TTTTCTTTTTGTAAT-TTCACTTGA
40365 TTTTCTTTT
1 TTTTCTTTT
40374 CTTTGGCTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 13 0.46
24 6 0.21
25 9 0.32
ACGTcount: A:0.09, C:0.12, G:0.07, T:0.72
Consensus pattern (24 bp):
TTTTCTTTTTGTAATTTCACTTGA
Found at i:51711 original size:79 final size:80
Alignment explanation
Indices: 51599--51747 Score: 203
Period size: 79 Copynumber: 1.9 Consensus size: 80
51589 TGGGTGCCAA
* * *
51599 GATTTGACGGATATTTATCGGTTTAACCGACTAGAGCTGGGCTCACATTTGTAGTTATT-CGCTA
1 GATTTGACGGATATTTATCGGTTTAACCAACTAGAGATGGGCTCACATTTGTAGTTATTCCGCCA
51663 AGCACTAGGTGTTAG
66 AGCACTAGGTGTTAG
* * * * *
51678 GATTTGATGGATATTTGTTGG-TTAATCCAACTAGAGATGGGCTCACTTTTGTGGTTATTCCGCC
1 GATTTGACGGATATTTATCGGTTTAA-CCAACTAGAGATGGGCTCACATTTGTAGTTATTCCGCC
51742 AAGCAC
65 AAGCAC
51748 CGGGTGCCAC
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
78 4 0.07
79 47 0.78
80 9 0.15
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.35
Consensus pattern (80 bp):
GATTTGACGGATATTTATCGGTTTAACCAACTAGAGATGGGCTCACATTTGTAGTTATTCCGCCA
AGCACTAGGTGTTAG
Found at i:51762 original size:79 final size:78
Alignment explanation
Indices: 51590--51762 Score: 186
Period size: 79 Copynumber: 2.2 Consensus size: 78
51580 GCTAGGTACT
* *
51590 GGGTGCCAAGATTTGACGGATATTTATCGGTTTAACCGACTAGAGCTGGGCTCACATTTGTAGTT
1 GGGTGCC-AGATTTGACGGATATTTATCGGTTTAACCAACTAGAGATGGGCTCACATTTGTAGTT
* *
51655 ATTCGCTAAGCACT
65 ATTCGCCAAGCACC
* ** * * * * *
51669 AGGTGTTAGGATTTGATGGATATTTGTTGG-TTAATCCAACTAGAGATGGGCTCACTTTTGTGGT
1 GGGTGCCA-GATTTGACGGATATTTATCGGTTTAA-CCAACTAGAGATGGGCTCACATTTGTAGT
51733 TATTCCGCCAAGCACC
64 TATT-CGCCAAGCACC
*
51749 GGGTGCCACATTTG
1 GGGTGCCAGATTTG
51763 TCGGTTTATC
Statistics
Matches: 75, Mismatches: 16, Indels: 6
0.77 0.16 0.06
Matches are distributed among these distances:
78 5 0.07
79 56 0.75
80 14 0.19
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.33
Consensus pattern (78 bp):
GGGTGCCAGATTTGACGGATATTTATCGGTTTAACCAACTAGAGATGGGCTCACATTTGTAGTTA
TTCGCCAAGCACC
Found at i:52465 original size:18 final size:18
Alignment explanation
Indices: 52444--52481 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
52434 ATTATGGTAG
*
52444 TTGAA-GATTATATATTTA
1 TTGAATGATT-TATATGTA
52462 TTGAATGATTTATATGTA
1 TTGAATGATTTATATGTA
52480 TT
1 TT
52482 TGAGAGAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (18 bp):
TTGAATGATTTATATGTA
Found at i:54714 original size:24 final size:24
Alignment explanation
Indices: 54687--54733 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
54677 AGAGTTGTTT
*
54687 GAAAGCATGAAAA-AAATAAAAATA
1 GAAAG-ATAAAAATAAATAAAAATA
*
54711 GAAAGATAAAAATAAATTAAAAT
1 GAAAGATAAAAATAAATAAAAAT
54734 TGAGTTGTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.70, C:0.02, G:0.11, T:0.17
Consensus pattern (24 bp):
GAAAGATAAAAATAAATAAAAATA
Found at i:61900 original size:18 final size:17
Alignment explanation
Indices: 61877--61910 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
61867 CTTTATATGC
61877 TTCAATTTTTCATTTCTA
1 TTCAATTTTTC-TTTCTA
61895 TTCAATTTTTCTTTCT
1 TTCAATTTTTCTTTCT
61911 CACATTGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.18, C:0.18, G:0.00, T:0.65
Consensus pattern (17 bp):
TTCAATTTTTCTTTCTA
Found at i:62482 original size:17 final size:18
Alignment explanation
Indices: 62448--62483 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
62438 TGAATTTCTA
62448 TCCAATTTATACCCTAAT
1 TCCAATTTATACCCTAAT
*
62466 TCCAATTTA-ATCCTAAT
1 TCCAATTTATACCCTAAT
62483 T
1 T
62484 AACTCATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.33, C:0.25, G:0.00, T:0.42
Consensus pattern (18 bp):
TCCAATTTATACCCTAAT
Found at i:70468 original size:22 final size:22
Alignment explanation
Indices: 70434--70489 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 22
70424 TATAAATTTC
70434 ATTAATATAATAAGATAATA-TTA
1 ATTAA-ATAATAA-ATAATACTTA
* *
70457 ATTAAATAATAATTTATACTTA
1 ATTAAATAATAAATAATACTTA
70479 ATT-AATAATAA
1 ATTAAATAATAA
70490 CTTAAATTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 12 0.40
22 13 0.43
23 5 0.17
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (22 bp):
ATTAAATAATAAATAATACTTA
Found at i:74610 original size:19 final size:19
Alignment explanation
Indices: 74575--74611 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
74565 ATTGCAATCT
*
74575 GAATAAAAAAATCTTAAAA
1 GAATAAAAAAATATTAAAA
*
74594 GAATAAAAAATTATTAAA
1 GAATAAAAAAATATTAAA
74612 TAAAATCTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.68, C:0.03, G:0.05, T:0.24
Consensus pattern (19 bp):
GAATAAAAAAATATTAAAA
Found at i:82028 original size:20 final size:21
Alignment explanation
Indices: 81991--82042 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
81981 TTACATGTGC
81991 AAAAAAATAATATATTAA-ATT
1 AAAAAAATAATATATTAATA-T
* *
82012 AAAAAAATAA-CTCTTAATAT
1 AAAAAAATAATATATTAATAT
82032 AAAAGAAATAA
1 AAAA-AAATAA
82043 ACGCAATTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 10 0.37
21 17 0.63
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (21 bp):
AAAAAAATAATATATTAATAT
Found at i:83447 original size:3 final size:3
Alignment explanation
Indices: 83439--83464 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
83429 AAACTACATT
83439 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
83465 TAACATAAAT
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:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:87514 original size:109 final size:113
Alignment explanation
Indices: 87307--87533 Score: 381
Period size: 117 Copynumber: 2.0 Consensus size: 113
87297 AATGGTAATA
87307 GCTGCTAAACTAATTATCATTATCACCTACCATTTAATAAATCAAATTAGGCAAAACTTATTTTG
1 GCTGCTAAACTAATTATCATTATCACCTACCATTTAATAAATCAAATTAGGCAAAACTTATTTTG
87372 GTTTATTTTATATATATATATATATAATTTTTATGAATTAACTATATATTTG
66 G----TTTTATATATATATATATATAATTTTTATGAATTAACTATATATTTG
*
87424 GCTGCTAAATTAATTATCATTATCACCTACCATTTAATAAATCAAATTAGGCAAAACTTATTTTG
1 GCTGCTAAACTAATTATCATTATCACCTACCATTTAATAAATCAAATTAGGCAAAACTTATTTTG
87489 G-TTTAT-T-TATATAT-TATAATTTTTATGAATTAACTATATATTTG
66 GTTTTATATATATATATATATAATTTTTATGAATTAACTATATATTTG
87533 G
1 G
87534 TTTACTTCAT
Statistics
Matches: 109, Mismatches: 1, Indels: 8
0.92 0.01 0.07
Matches are distributed among these distances:
109 31 0.28
110 7 0.06
111 1 0.01
112 5 0.05
117 65 0.60
ACGTcount: A:0.37, C:0.11, G:0.07, T:0.44
Consensus pattern (113 bp):
GCTGCTAAACTAATTATCATTATCACCTACCATTTAATAAATCAAATTAGGCAAAACTTATTTTG
GTTTTATATATATATATATATAATTTTTATGAATTAACTATATATTTG
Found at i:88324 original size:11 final size:11
Alignment explanation
Indices: 88308--88337 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
88298 TTAAACTTTT
88308 TTTATTTATTA
1 TTTATTTATTA
88319 TTTATTTATTA
1 TTTATTTATTA
*
88330 TTAATTTA
1 TTTATTTA
88338 ATTAATTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (11 bp):
TTTATTTATTA
Found at i:89549 original size:2 final size:2
Alignment explanation
Indices: 89542--89583 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
89532 ACCTAATTTC
89542 AT AT AT AT AT 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 AT AT AT AT AT
89584 TTGTTTAATT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:92323 original size:18 final size:18
Alignment explanation
Indices: 92297--92331 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
92287 TGAGTCCTTT
*
92297 AACAAATAATTATCAATA
1 AACAAATAATCATCAATA
*
92315 AACATATAATCATCAAT
1 AACAAATAATCATCAAT
92332 CAAGTAAACA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (18 bp):
AACAAATAATCATCAATA
Found at i:113095 original size:24 final size:25
Alignment explanation
Indices: 113054--113105 Score: 81
Period size: 24 Copynumber: 2.1 Consensus size: 25
113044 TTCCGTAAAA
113054 AAAGAACAATAAAATAACTAAAGCCT
1 AAAGAACAATAAAATAACTAAA-CCT
113080 AAAGAA-AA-AAAATAACTAAACCT
1 AAAGAACAATAAAATAACTAAACCT
113103 AAA
1 AAA
113106 TTACAATGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
23 6 0.23
24 12 0.46
25 2 0.08
26 6 0.23
ACGTcount: A:0.67, C:0.13, G:0.06, T:0.13
Consensus pattern (25 bp):
AAAGAACAATAAAATAACTAAACCT
Found at i:117902 original size:25 final size:25
Alignment explanation
Indices: 117873--117924 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
117863 AAAAGAGTAT
117873 TGCTTTGAAATAAGAAAAGGAAATA
1 TGCTTTGAAATAAGAAAAGGAAATA
117898 TGCTTTGAAATAAGAAAAGGAAATA
1 TGCTTTGAAATAAGAAAAGGAAATA
117923 TG
1 TG
117925 AAGACAATGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.50, C:0.04, G:0.21, T:0.25
Consensus pattern (25 bp):
TGCTTTGAAATAAGAAAAGGAAATA
Found at i:125557 original size:37 final size:37
Alignment explanation
Indices: 125516--125588 Score: 146
Period size: 37 Copynumber: 2.0 Consensus size: 37
125506 TTAGGGAGAA
125516 AACCTATGTCATTTGTAATACCATCACTTGTACACTT
1 AACCTATGTCATTTGTAATACCATCACTTGTACACTT
125553 AACCTATGTCATTTGTAATACCATCACTTGTACACT
1 AACCTATGTCATTTGTAATACCATCACTTGTACACT
125589 CACAAAGTTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (37 bp):
AACCTATGTCATTTGTAATACCATCACTTGTACACTT
Found at i:131498 original size:14 final size:14
Alignment explanation
Indices: 131475--131513 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
131465 CCAGAAAAGT
131475 AAACCATTTTCCAG
1 AAACCATTTTCCAG
* *
131489 AAATCATTTTCCGG
1 AAACCATTTTCCAG
131503 AAACCATTTTC
1 AAACCATTTTC
131514 AGTCAAACAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.26, G:0.08, T:0.33
Consensus pattern (14 bp):
AAACCATTTTCCAG
Found at i:132679 original size:15 final size:15
Alignment explanation
Indices: 132655--132684 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
132645 TATACGCTTT
*
132655 AAACCCAAAAAAAAA
1 AAACCAAAAAAAAAA
132670 AAACCAAAAAAAAAA
1 AAACCAAAAAAAAAA
132685 CCTAAAAATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.83, C:0.17, G:0.00, T:0.00
Consensus pattern (15 bp):
AAACCAAAAAAAAAA
Found at i:132680 original size:12 final size:13
Alignment explanation
Indices: 132663--132692 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
132653 TTAAACCCAA
132663 AAAAAAAAAACC-
1 AAAAAAAAAACCT
132675 AAAAAAAAAACCT
1 AAAAAAAAAACCT
132688 AAAAA
1 AAAAA
132693 TCAAAACAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.71
13 5 0.29
ACGTcount: A:0.83, C:0.13, G:0.00, T:0.03
Consensus pattern (13 bp):
AAAAAAAAAACCT
Found at i:134663 original size:13 final size:12
Alignment explanation
Indices: 134641--134672 Score: 55
Period size: 13 Copynumber: 2.6 Consensus size: 12
134631 AATTTTTTTT
134641 AAAAAAAAAGAA
1 AAAAAAAAAGAA
134653 AAAAAAGAAAGAA
1 AAAAAA-AAAGAA
134666 AAAAAAA
1 AAAAAAA
134673 TAGGACAAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAGAA
Found at i:136055 original size:62 final size:62
Alignment explanation
Indices: 135954--136078 Score: 187
Period size: 62 Copynumber: 2.0 Consensus size: 62
135944 GACTCTCCCT
* * * *
135954 ACCATCCCGTAAGTTAGACTAGAATTTTAAACATTTTTTGCTCATCAAGCCTTGGTTTAATG
1 ACCATCCCGTAAGTAAGACTAGAAGTTTAAACATATTTTGCTCATCAAACCTTGGTTTAATG
* * *
136016 ACCATCTCGTAAGTAAGACTAGACGTTTAAACATATTTTGCTCCTCAAACCTTGGTTTAATG
1 ACCATCCCGTAAGTAAGACTAGAAGTTTAAACATATTTTGCTCATCAAACCTTGGTTTAATG
136078 A
1 A
136079 AGTCTGGATG
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
62 56 1.00
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.35
Consensus pattern (62 bp):
ACCATCCCGTAAGTAAGACTAGAAGTTTAAACATATTTTGCTCATCAAACCTTGGTTTAATG
Found at i:138238 original size:2 final size:2
Alignment explanation
Indices: 138231--138266 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
138221 CACCCGTGAG
138231 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T- TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
138267 GAATGCTAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
TC
Found at i:146682 original size:21 final size:20
Alignment explanation
Indices: 146636--146673 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
146626 TTTATTTTTA
146636 ATTTTACAAAAAATTCTTCT
1 ATTTTACAAAAAATTCTTCT
146656 ATTTTA-AAAAAATATCTT
1 ATTTTACAAAAAAT-TCTT
146674 AACATTTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.45, C:0.11, G:0.00, T:0.45
Consensus pattern (20 bp):
ATTTTACAAAAAATTCTTCT
Found at i:148301 original size:17 final size:16
Alignment explanation
Indices: 148279--148332 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 16
148269 TAACTGCTAC
148279 CTAACTATTTCTTTAAA
1 CTAACTA-TTCTTTAAA
* *
148296 CTAACTA-AC-TT-AC
1 CTAACTATTCTTTAAA
148309 CTAACTATGTCTTTAAA
1 CTAACTAT-TCTTTAAA
148326 CTAACTA
1 CTAACTA
148333 ACTAAATTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 8
0.71 0.10 0.20
Matches are distributed among these distances:
13 8 0.28
14 2 0.07
15 2 0.07
16 2 0.07
17 15 0.52
ACGTcount: A:0.37, C:0.22, G:0.02, T:0.39
Consensus pattern (16 bp):
CTAACTATTCTTTAAA
Found at i:148310 original size:30 final size:30
Alignment explanation
Indices: 148276--148335 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
148266 ACATAACTGC
*
148276 TACCTAACTATTTCTTTAAACTAACTAACT
1 TACCTAACTATGTCTTTAAACTAACTAACT
148306 TACCTAACTATGTCTTTAAACTAACTAACT
1 TACCTAACTATGTCTTTAAACTAACTAACT
148336 AAATTAACAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.37, C:0.23, G:0.02, T:0.38
Consensus pattern (30 bp):
TACCTAACTATGTCTTTAAACTAACTAACT
Found at i:149313 original size:134 final size:134
Alignment explanation
Indices: 149073--149339 Score: 516
Period size: 134 Copynumber: 2.0 Consensus size: 134
149063 TTTGCTAGAA
*
149073 CTTCATCATGCTGATTCACTTGAACTGTTTCATCATATTCAATGGATGTTAACTTCAAGTTTTGC
1 CTTCATCATGCTGATTCACTTAAACTGTTTCATCATATTCAATGGATGTTAACTTCAAGTTTTGC
149138 TTTAAAGGAGTAACAACCATCTTCCCTTCTGAAAGCCCTATATCTGAAATTAGATCAACAACATA
66 TTTAAAGGAGTAACAACCATCTTCCCTTCTGAAAGCCCTATATCTGAAATTAGATCAACAACATA
149203 CTTT
131 CTTT
149207 CTTCATCATGCTGATTCACTTAAACTGTTTCATCATATTCAATGGATGTTAACTTCAAGTTTTGC
1 CTTCATCATGCTGATTCACTTAAACTGTTTCATCATATTCAATGGATGTTAACTTCAAGTTTTGC
*
149272 TTTAAAGGAGTAACAACCATCTTCCCTTCTGAAAGCCCTATATCTGAAATTAGATCAATAACATA
66 TTTAAAGGAGTAACAACCATCTTCCCTTCTGAAAGCCCTATATCTGAAATTAGATCAACAACATA
149337 CTT
131 CTT
149340 CCTTTGACTC
Statistics
Matches: 131, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
134 131 1.00
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.36
Consensus pattern (134 bp):
CTTCATCATGCTGATTCACTTAAACTGTTTCATCATATTCAATGGATGTTAACTTCAAGTTTTGC
TTTAAAGGAGTAACAACCATCTTCCCTTCTGAAAGCCCTATATCTGAAATTAGATCAACAACATA
CTTT
Found at i:154465 original size:12 final size:11
Alignment explanation
Indices: 154448--154477 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
154438 ACCCTTATTT
154448 ATGATTAATTA
1 ATGATTAATTA
154459 GATGATTAATTA
1 -ATGATTAATTA
154471 ATGATTA
1 ATGATTA
154478 CAAATATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.43, C:0.00, G:0.13, T:0.43
Consensus pattern (11 bp):
ATGATTAATTA
Found at i:158368 original size:24 final size:24
Alignment explanation
Indices: 158341--158415 Score: 114
Period size: 24 Copynumber: 3.1 Consensus size: 24
158331 AGTTTGACTC
* *
158341 AAACAAATAAATAGAGTTTTATTG
1 AAACAAATAAACAGAGTTTAATTG
*
158365 AAACAAATAAACAAAGTTTAATTG
1 AAACAAATAAACAGAGTTTAATTG
*
158389 AAACAATTAAACAGAGTTTAATTG
1 AAACAAATAAACAGAGTTTAATTG
158413 AAA
1 AAA
158416 GATTATTTCT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 46 1.00
ACGTcount: A:0.55, C:0.07, G:0.11, T:0.28
Consensus pattern (24 bp):
AAACAAATAAACAGAGTTTAATTG
Found at i:160361 original size:24 final size:24
Alignment explanation
Indices: 160334--160384 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
160324 AATTTATCTC
*
160334 AAACAAATAAATAGAGTTTAATTG
1 AAACAAATAAACAGAGTTTAATTG
160358 AAACAAATAAACAGAGTTTAATTG
1 AAACAAATAAACAGAGTTTAATTG
160382 AAA
1 AAA
160385 GATGATTTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.57, C:0.06, G:0.12, T:0.25
Consensus pattern (24 bp):
AAACAAATAAACAGAGTTTAATTG
Found at i:168289 original size:13 final size:13
Alignment explanation
Indices: 168257--168295 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
168247 TAATTTTAAC
*
168257 TTAGATTAATTTAGT
1 TTAGATTAA--TACT
168272 TTAGATTAATACT
1 TTAGATTAATACT
168285 TTAGATTAATA
1 TTAGATTAATA
168296 TCATTCACCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 14 0.61
15 9 0.39
ACGTcount: A:0.38, C:0.03, G:0.10, T:0.49
Consensus pattern (13 bp):
TTAGATTAATACT
Done.