Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01011810.1 Kokia drynarioides strain JFW-HI SEQ_126805, 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: 218938
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Warning! 80 characters in sequence are not A, C, G, or T
Found at i:1707 original size:10 final size:9
Alignment explanation
Indices: 1615--1774 Score: 68
Period size: 9 Copynumber: 17.7 Consensus size: 9
1605 ACTTTACATA
1615 TTTTA-AAT
1 TTTTATAAT
1623 TTTTA-AAT
1 TTTTATAAT
*
1631 ATTTTAATTAAG
1 -TTTT-A-TAAT
1643 TTTTATTAA-
1 TTTTA-TAAT
1652 TTTTATAAAT
1 TTTTAT-AAT
* *
1662 TATTAGAAT
1 TTTTATAAT
1671 TTTTAT-AT
1 TTTTATAAT
1679 TTTTATAAT
1 TTTTATAAT
* *
1688 ATTTACAAT
1 TTTTATAAT
1697 TCTTTATAAT
1 T-TTTATAAT
*
1707 TTTAATAAGT
1 TTTTATAA-T
*
1717 TTATATCAAT
1 TTTTAT-AAT
* *
1727 GTTAAT-AT
1 TTTTATAAT
1735 TTTTA-ATAT
1 TTTTATA-AT
*
1744 TTTAAT-AT
1 TTTTATAAT
1752 TTTTAT--T
1 TTTTATAAT
*
1759 TTTTAATCAT
1 TTTT-ATAAT
1769 TTTTAT
1 TTTTAT
1775 GAAAAAAAAA
Statistics
Matches: 117, Mismatches: 19, Indels: 31
0.70 0.11 0.19
Matches are distributed among these distances:
7 5 0.04
8 31 0.26
9 41 0.35
10 32 0.27
11 6 0.05
12 2 0.02
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.60
Consensus pattern (9 bp):
TTTTATAAT
Found at i:1719 original size:27 final size:26
Alignment explanation
Indices: 1668--1765 Score: 69
Period size: 28 Copynumber: 3.7 Consensus size: 26
1658 AAATTATTAG
*
1668 AATTTTTATATTTTTATAATATTTAC
1 AATTTTTATATTTTAATAATATTTAC
1694 AATTCTTTATAATTTTAATAAGT-TTATATC
1 AATT-TTTAT-ATTTTAATAA-TATT-TA-C
* *
1724 AATGTTAATATTTT--TAATATTTTA-
1 AATTTTTATATTTTAATAATA-TTTAC
*
1748 ATATTTTTATTTTTTAAT
1 A-ATTTTTATATTTTAAT
1766 CATTTTTATG
Statistics
Matches: 56, Mismatches: 6, Indels: 19
0.69 0.07 0.23
Matches are distributed among these distances:
24 1 0.02
25 11 0.20
26 9 0.16
27 8 0.14
28 16 0.29
29 7 0.12
30 4 0.07
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.60
Consensus pattern (26 bp):
AATTTTTATATTTTAATAATATTTAC
Found at i:1742 original size:9 final size:9
Alignment explanation
Indices: 1728--1773 Score: 62
Period size: 8 Copynumber: 5.3 Consensus size: 9
1718 TATATCAATG
1728 TTAATATTT
1 TTAATATTT
1737 TTAATA-TT
1 TTAATATTT
1745 TTAATATTT
1 TTAATATTT
1754 TT-AT-TTT
1 TTAATATTT
1761 TTAATCATTT
1 TTAAT-ATTT
1771 TTA
1 TTA
1774 TGAAAAAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
7 5 0.15
8 12 0.36
9 10 0.30
10 6 0.18
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (9 bp):
TTAATATTT
Found at i:1774 original size:17 final size:16
Alignment explanation
Indices: 1669--1774 Score: 70
Period size: 17 Copynumber: 6.0 Consensus size: 16
1659 AATTATTAGA
*
1669 ATTTTTATATTTTTAT
1 ATTTTAATATTTTTAT
1685 AATATTTACA-ATTCTTTAT
1 -AT-TTTA-ATATT-TTTAT
*
1704 AATTTTAATAAGTTTATAT
1 -ATTTTAAT-A-TTTTTAT
*
1723 CAATGTTAATATTTTTAAT
1 --ATTTTAATATTTTT-AT
1742 ATTTTAATATTTTTAT
1 ATTTTAATATTTTTAT
*
1758 TTTTTAATCATTTTTAT
1 ATTTTAAT-ATTTTTAT
1775 GAAAAAAAAA
Statistics
Matches: 74, Mismatches: 6, Indels: 18
0.76 0.06 0.18
Matches are distributed among these distances:
16 9 0.12
17 24 0.32
18 14 0.19
19 17 0.23
20 10 0.14
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (16 bp):
ATTTTAATATTTTTAT
Found at i:6380 original size:23 final size:22
Alignment explanation
Indices: 6357--6481 Score: 119
Period size: 23 Copynumber: 5.4 Consensus size: 22
6347 CTAGCGCGCT
*
6357 CTCTGATTAGCACTGTGTGTGCT
1 CTCTG-TTAGCACTGTGTGTGCC
*
6380 CTTTGTTCAGCACTGTGTGTGCC
1 CTCTGTT-AGCACTGTGTGTGCC
*
6403 CTCTGTTTAGCA-TGTTTCGTGCC
1 CTCTG-TTAGCACTGTGT-GTGCC
*
6426 CTCTGTTCAGCACTGTGTATGCC
1 CTCTGTT-AGCACTGTGTGTGCC
6449 CTCTGTTATTAGCACT-TCGTGTGCC
1 CTCTG---TTAGCACTGT-GTGTGCC
6474 CTCTGTTA
1 CTCTGTTA
6482 CCCAGCACTT
Statistics
Matches: 86, Mismatches: 7, Indels: 19
0.77 0.06 0.17
Matches are distributed among these distances:
22 11 0.13
23 49 0.57
24 7 0.08
25 17 0.20
26 2 0.02
ACGTcount: A:0.11, C:0.26, G:0.22, T:0.40
Consensus pattern (22 bp):
CTCTGTTAGCACTGTGTGTGCC
Found at i:6406 original size:25 final size:24
Alignment explanation
Indices: 6365--6508 Score: 108
Period size: 23 Copynumber: 6.1 Consensus size: 24
6355 CTCTCTGATT
*
6365 AGCACTGTGTGTGCTCT-TTGTTC
1 AGCACTGTGTGTGCCCTCTTGTTC
*
6388 AGCACTGTGTGTGCCCTC-TGTTT
1 AGCACTGTGTGTGCCCTCTTGTTC
*
6411 AGCA-TGTTTCGTGCCCTC-TGTTC
1 AGCACTGTGT-GTGCCCTCTTGTTC
* *
6434 AGCACTGTGTATGCCCTC-TGTTATT
1 AGCACTGTGTGTGCCCTCTTG-T-TC
6459 AGCACT-TCGTGTGCCCTC-TGTTACCC
1 AGCACTGT-GTGTGCCCTCTTGTT---C
*
6485 AGCACT-TATGTGCCCT-TTGTTC
1 AGCACTGTGTGTGCCCTCTTGTTC
6507 AG
1 AG
6509 TACTTCGGTA
Statistics
Matches: 101, Mismatches: 10, Indels: 21
0.77 0.08 0.16
Matches are distributed among these distances:
22 7 0.07
23 50 0.50
24 7 0.07
25 30 0.30
26 7 0.07
ACGTcount: A:0.12, C:0.28, G:0.22, T:0.38
Consensus pattern (24 bp):
AGCACTGTGTGTGCCCTCTTGTTC
Found at i:6433 original size:46 final size:46
Alignment explanation
Indices: 6357--6480 Score: 153
Period size: 46 Copynumber: 2.7 Consensus size: 46
6347 CTAGCGCGCT
* * * *
6357 CTCTGATTAGCACTGTGTGTGCTCTTTGTTCAGCACTGTGTGTGCC
1 CTCTGTTTAGCACTGTGTGTGCCCTCTGTTCAGCACTGTGTATGCC
*
6403 CTCTGTTTAGCA-TGTTTCGTGCCCTCTGTTCAGCACTGTGTATGCC
1 CTCTGTTTAGCACTGTGT-GTGCCCTCTGTTCAGCACTGTGTATGCC
6449 CTCTGTTATTAGCACT-TCGTGTGCCCTCTGTT
1 CTCTG-T-TTAGCACTGT-GTGTGCCCTCTGTT
6481 ACCCAGCACT
Statistics
Matches: 67, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
45 4 0.06
46 41 0.61
47 1 0.01
48 19 0.28
49 2 0.03
ACGTcount: A:0.10, C:0.27, G:0.23, T:0.40
Consensus pattern (46 bp):
CTCTGTTTAGCACTGTGTGTGCCCTCTGTTCAGCACTGTGTATGCC
Found at i:10639 original size:2 final size:2
Alignment explanation
Indices: 10632--10661 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
10622 TGTGAATTTG
10632 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10662 CTGATATTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:13419 original size:23 final size:23
Alignment explanation
Indices: 13368--13419 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
13358 AGGTCAGACA
* *
13368 ATATGAATACAAATCCAGATATAG
1 ATAT-AATACAAATACAGATACAG
*
13392 ATATAATACAGATACAGATACAG
1 ATATAATACAAATACAGATACAG
*
13415 TTATA
1 ATATA
13420 TGTGTAAACA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 20 0.83
24 4 0.17
ACGTcount: A:0.50, C:0.12, G:0.12, T:0.27
Consensus pattern (23 bp):
ATATAATACAAATACAGATACAG
Found at i:14271 original size:41 final size:42
Alignment explanation
Indices: 14225--14316 Score: 114
Period size: 43 Copynumber: 2.2 Consensus size: 42
14215 GTGTTTGGCT
*
14225 CGTGTGCCCCCAAACA-ATATACACACACCCTAACACATGCC
1 CGTGTGCCCCAAAACAGATATACACACACCCTAACACATGCC
* * * * *
14266 TGTGTGCCTCAAAATAGTATATACACACACTCTGACACATGCC
1 CGTGTGCCCCAAAACAG-ATATACACACACCCTAACACATGCC
14309 CGTGTGCC
1 CGTGTGCC
14317 TTCAAACTGT
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
41 12 0.29
43 30 0.71
ACGTcount: A:0.30, C:0.35, G:0.14, T:0.21
Consensus pattern (42 bp):
CGTGTGCCCCAAAACAGATATACACACACCCTAACACATGCC
Found at i:20774 original size:2 final size:2
Alignment explanation
Indices: 20767--20791 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
20757 TTACTAAATT
20767 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
20792 TTTAAATGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:26609 original size:12 final size:12
Alignment explanation
Indices: 26580--26622 Score: 59
Period size: 12 Copynumber: 3.3 Consensus size: 12
26570 CCTTCATCAG
26580 CATCCTCTTCCTCAT
1 CATCCTCTT-C-C-T
26595 CATCCTCTTCCT
1 CATCCTCTTCCT
26607 CATCCTCTTCCT
1 CATCCTCTTCCT
26619 CATC
1 CATC
26623 GTCCTCTTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
12 17 0.61
13 1 0.04
14 1 0.04
15 9 0.32
ACGTcount: A:0.12, C:0.49, G:0.00, T:0.40
Consensus pattern (12 bp):
CATCCTCTTCCT
Found at i:26647 original size:6 final size:6
Alignment explanation
Indices: 26594--26652 Score: 55
Period size: 6 Copynumber: 9.8 Consensus size: 6
26584 CTCTTCCTCA
* * * * * * *
26594 TCATCC TCTTCC TCATCC TCTTCC TCATCG TCCTCT TCTTCG TCATCC
1 TCATCC TCATCC TCATCC TCATCC TCATCC TCATCC TCATCC TCATCC
26642 TCATCC TCATC
1 TCATCC TCATC
26653 ATCTTCATCG
Statistics
Matches: 42, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
6 42 1.00
ACGTcount: A:0.10, C:0.46, G:0.03, T:0.41
Consensus pattern (6 bp):
TCATCC
Found at i:26657 original size:27 final size:27
Alignment explanation
Indices: 26580--26673 Score: 89
Period size: 27 Copynumber: 3.4 Consensus size: 27
26570 CCTTCATCAG
* * *
26580 CATCCTCTTCCTCATCATCCTCTTCCT
1 CATCCTCATCCTCATCATCTTCTTCGT
* *
26607 CATCCTCTTCCTCATCGTCCTCTTCTTCGT
1 CATCCTCATCCTCA---TCATCTTCTTCGT
*
26637 CATCCTCATCCTCATCATCTTCATCGT
1 CATCCTCATCCTCATCATCTTCTTCGT
* *
26664 CTTCATCATC
1 CATCCTCATC
26674 TATATCAAGC
Statistics
Matches: 56, Mismatches: 8, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
27 33 0.59
30 23 0.41
ACGTcount: A:0.13, C:0.44, G:0.03, T:0.40
Consensus pattern (27 bp):
CATCCTCATCCTCATCATCTTCTTCGT
Found at i:26661 original size:15 final size:15
Alignment explanation
Indices: 26580--26655 Score: 95
Period size: 15 Copynumber: 5.3 Consensus size: 15
26570 CCTTCATCAG
26580 CATCCTCTTCCTCAT
1 CATCCTCTTCCTCAT
26595 CATCCTCTT-C-C-T
1 CATCCTCTTCCTCAT
26607 CATCCTCTTCCTCAT
1 CATCCTCTTCCTCAT
* * *
26622 CGTCCTCTTCTTCGT
1 CATCCTCTTCCTCAT
*
26637 CATCCTCATCCTCAT
1 CATCCTCTTCCTCAT
26652 CATC
1 CATC
26656 TTCATCGTCT
Statistics
Matches: 51, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
12 10 0.20
13 2 0.04
14 2 0.04
15 37 0.73
ACGTcount: A:0.12, C:0.46, G:0.03, T:0.39
Consensus pattern (15 bp):
CATCCTCTTCCTCAT
Found at i:29912 original size:280 final size:281
Alignment explanation
Indices: 29341--30778 Score: 1527
Period size: 280 Copynumber: 5.2 Consensus size: 281
29331 GGTTACGGTT
* * * * * *
29341 ATTCGTTATGTTAAGATT-AATGAT-AGATTTAGTAAGTAAAAATAAAAGTAATGTTTAGATGTA
1 ATTCGTCATGTTAAG-TTCAGTGATAAG-TTTAGTAAGTAAAAATGAAATTAATATTTAGATTTA
* **** * ** * * *
29404 AACGATACCGGTATTTTTTTTTAA-TTAGGTTTAATAATTT-TTACACTTGAATTGACGTCATCC
64 AACAATAATACTATATTTTTCAAATTTATGTTTAATAATTTCTT-CAATTGAATTGACGTCATTC
* * * * *
29467 GTGATTTTAAGTTTAAAGAAAGATTTAGTAAATGTAAATAAAAGTAATATTTAGATTTAAGTTAT
128 ATGATGTTAAGTTTAAAGAAATATTTAATAAGTGTAAATAAAAGTAATATTTAGATTTAAGTTAT
** * * * *
29532 AATATTGTAATTTAGGATAAATCTGAATTATGGTGTCAATATTCATTATTTTATAATACTTACTA
193 AACGTTGTAATTTAGGATAAATCTAAATTATGGCGCCAATATTCATTATTTTATAATAATTACTA
29597 TATCTCTATAATTTAGTTGACGTC
258 TATCTCTATAATTTAGTTGACGTC
* * *
29621 ATTCGTCATGTTAAGTTTAGTGATAAGTTTAGTAAATAAAAATGAAATTAACATTTAGATTTAAA
1 ATTCGTCATGTTAAGTTCAGTGATAAGTTTAGTAAGTAAAAATGAAATTAATATTTAGATTTAAA
* *
29686 CAATAATACTATATTTTTCAAATTTATGTTTAATAATTTCTTTAATTGAATTGACGTCATTCATT
66 CAATAATACTATATTTTTCAAATTTATGTTTAATAATTTCTTCAATTGAATTGACGTCATTCATG
* * * * * * *
29751 AAGTTAAGCTTAAAGAAATGTTCAAAAAGTGTAAATAAAAGTAATCTTTATATTTAAGTTATAAC
131 ATGTTAAGTTTAAAGAAATATTTAATAAGTGTAAATAAAAGTAATATTTAGATTTAAGTTATAAC
* * * *
29816 GTTGTAATTTAGGATAAATATGAA-TATGGCGTCAATGTTCATTATTTTATAATAATTACTATAT
196 GTTGTAATTTAGGATAAATCTAAATTATGGCGCCAATATTCATTATTTTATAATAATTACTATAT
*
29880 TTCTATAATTTAGTTGACGTC
261 CTCTATAATTTAGTTGACGTC
* * * * * *
29901 ATTCATCATGTTAAGTTCAGCGATAGGTTTAGTAAATAAAAATGGAATTAAAATTTAGATTTAAA
1 ATTCGTCATGTTAAGTTCAGTGATAAGTTTAGTAAGTAAAAATGAAATTAATATTTAGATTTAAA
* * * * *
29966 CAATAATACTATATTTTTCAAATTTATGCTTAATAATTTCTTCGATTGAGTTCACGTTATTCATG
66 CAATAATACTATATTTTTCAAATTTATGTTTAATAATTTCTTCAATTGAATTGACGTCATTCATG
* * * *
30031 TTGTTAAGTTTAAAGAAATATTTAGTAAGTGTAAATAAAAGTAATCTTTAGATTTAAATTATAAC
131 ATGTTAAGTTTAAAGAAATATTTAATAAGTGTAAATAAAAGTAATATTTAGATTTAAGTTATAAC
* * *
30096 GTTGTAAATTAGGATAAATCTAAATTATGGCGCTAATGTTCATTATTTTATAATAATTACTATAT
196 GTTGTAATTTAGGATAAATCTAAATTATGGCGCCAATATTCATTATTTTATAATAATTACTATAT
*
30161 CTCTATAATTTAATTGACGTC
261 CTCTATAATTTAGTTGACGTC
* * * *
30182 A-T-GT-A----AAGTTCAGTGATAAATTTAGTAAGTAAAAGTGGAATTAATGTTTAGATTTAAA
1 ATTCGTCATGTTAAGTTCAGTGATAAGTTTAGTAAGTAAAAATGAAATTAATATTTAGATTTAAA
* * * * * *
30240 CAACAATGCT-T-TTTTTTAAATTTATGTTTAATGATTTTTTCAATTAAATTGACG-CTATTCAT
66 CAATAATACTATATTTTTCAAATTTATGTTTAATAATTTCTTCAATTGAATTGACGTC-ATTCAT
** * * * * *
30302 GATGTTAAGTTTAAAGAAAGGTTTACT-CGATCTAAATAAATGTAATATTTAGATTCAAGTTATA
130 GATGTTAAGTTTAAAGAAATATTTAATAAG-TGTAAATAAAAGTAATATTTAGATTTAAGTTATA
* * * * ** * * * *
30366 ACGCTATAATTTAGTAGAGGTCTAAATTATGGCACCAATATTTATTATTTTATGATAATTACTAC
194 ACGTTGTAATTTAGGATAAATCTAAATTATGGCGCCAATATTCATTATTTTATAATAATTACTAT
* * *
30431 ATCAT-TATAATATAGTTGATGAC
259 ATC-TCTATAATTTAGTTGACGTC
* * * * * *
30454 GTTCGTCATGTTAAGCTCATTTAT-AGTTTTAGTAAGTAAAAATGAATTTAATGTTTAGATTTAA
1 ATTCGTCATGTTAAGTTCAGTGATAAG-TTTAGTAAGTAAAAATGAAATTAATATTTAGATTTAA
* * * * *
30518 ACAATAATATTATTTTTTTTAAAATTTTATGTTTAATAATTTCTTCAATTGAATTTACGTTATTC
65 ACAATAATACTA-TATTTTTCAAA-TTTATGTTTAATAATTTCTTCAATTGAATTGACGTCATTC
* * *
30583 GTGATGTTAAATTTAAAGAAATATTTAGTAAGTGTAAATAAATA-TAATATTTAGA-TTAAGTTA
128 ATGATGTTAAGTTTAAAGAAATATTTAATAAGTGTAAATAAA-AGTAATATTTAGATTTAAGTTA
** * * * * *
30646 TAACCCTATAATTTATGATAAAGTCTAAATTATAGCACCAATATTCATTATTTTATAATAACTAC
192 TAACGTTGTAATTTAGGATAAA-TCTAAATTATGGCGCCAATATTCATTATTTTATAATAATTAC
*
30711 --TATCTCTATAATTTAGTTGATGTC
256 TATATCTCTATAATTTAGTTGACGTC
* * * *
30735 ATTCGTTATGTTAAGTTTAATGAT-AGATTTAGTAAGTGAAAATG
1 ATTCGTCATGTTAAGTTCAGTGATAAG-TTTAGTAAGTAAAAATG
30779 GGATTAATGT
Statistics
Matches: 971, Mismatches: 162, Indels: 49
0.82 0.14 0.04
Matches are distributed among these distances:
271 1 0.00
272 162 0.17
273 3 0.00
274 56 0.06
275 1 0.00
278 2 0.00
279 54 0.06
280 318 0.33
281 224 0.23
282 33 0.03
283 116 0.12
284 1 0.00
ACGTcount: A:0.38, C:0.08, G:0.13, T:0.42
Consensus pattern (281 bp):
ATTCGTCATGTTAAGTTCAGTGATAAGTTTAGTAAGTAAAAATGAAATTAATATTTAGATTTAAA
CAATAATACTATATTTTTCAAATTTATGTTTAATAATTTCTTCAATTGAATTGACGTCATTCATG
ATGTTAAGTTTAAAGAAATATTTAATAAGTGTAAATAAAAGTAATATTTAGATTTAAGTTATAAC
GTTGTAATTTAGGATAAATCTAAATTATGGCGCCAATATTCATTATTTTATAATAATTACTATAT
CTCTATAATTTAGTTGACGTC
Found at i:32085 original size:435 final size:436
Alignment explanation
Indices: 31462--32321 Score: 1668
Period size: 435 Copynumber: 2.0 Consensus size: 436
31452 ATATTCATTA
31462 TTTTATAATAATTACTATATTCTAAACTTTAGTTGACGTCATTCGTGGTGTTAAGCTTATTGACA
1 TTTTATAATAATTACTATATTCTAAACTTTAGTTGACGTCATTCGTGGTGTTAAGCTTATTGACA
31527 GATTTAGTAAGTGAAAAGGCATTAATGTTTAAATTTAAATATATTTTTAAAATTTATGTTTAATA
66 GATTTAGTAAGTGAAAAGGCATTAATGTTTAAATTTAAATATATTTTTAAAATTTATGTTTAATA
*
31592 ATTTCTTTTATTTAGTTGACGTAATACATTATGTTAAGCTCAAAGAAAAATTTAATGCGTGTATA
131 ATTTCTTCTATTTAGTTGACGTAATACATTATGTTAAGCTCAAAGAAAAATTTAATGCGTGTATA
31657 TAAAAGTGATGTTTAAAATAACGTGATAATTTAGGATAAGCCTAAGTTATGGCACCAAAATACAT
196 TAAAAGTGATGTTTAAAATAACGTGATAATTTAGGATAAGCCTAAGTTATGGCACCAAAATACAT
*
31722 TATTTTATAATAAATTACTATATTTCTACAATGTAGTTGACACCATTTGTGATGTTAAGCTCAAT
261 TATTTTATAATAAATTACAATATTTCTACAATGTAGTTGACACCATTTGTGATGTTAAGCTCAAT
*
31787 GATCGATTTAGTAAGT-AAAAATGAAATTAATGTTTAGATTAACAATAATAATATATTTTTAAAA
326 GATCGATTTAGTAAATAAAAAATGAAATTAATGTTTAGATTAACAATAATAATATATTTTTAAAA
31851 TTTATATTTAAGAACTCAACAAGTGGTTTCAGTGGAAAAGAAGATG
391 TTTATATTTAAGAACTCAACAAGTGGTTTCAGTGGAAAAGAAGATG
31897 TTTTATAATAATTACTATATTCTAAACTTTAGTTGACGTCATTCGTGGTGTTAAGCTTATTGACA
1 TTTTATAATAATTACTATATTCTAAACTTTAGTTGACGTCATTCGTGGTGTTAAGCTTATTGACA
31962 GATTTAGTAAGTGAAAAGGCATTAATGTTTAAATTTAAATATATTTTTAAAATTTATGTTTAATA
66 GATTTAGTAAGTGAAAAGGCATTAATGTTTAAATTTAAATATATTTTTAAAATTTATGTTTAATA
32027 ATTTCTTCTATTTAGTTGACGTAATACATTATGTTAAGCTCAAAGAAAAATTTAATGCGTGTATA
131 ATTTCTTCTATTTAGTTGACGTAATACATTATGTTAAGCTCAAAGAAAAATTTAATGCGTGTATA
32092 TAAAAGTGATGTTTAAAATAACGTGATAATTTAGGATAAGCCTAAGTTATGGCACCAAAATACAT
196 TAAAAGTGATGTTTAAAATAACGTGATAATTTAGGATAAGCCTAAGTTATGGCACCAAAATACAT
*
32157 TATTTTATAATAAATTACAATATTTCTACAATGTAGTTTACACCATTTGTGATGTTAAGCTCAAT
261 TATTTTATAATAAATTACAATATTTCTACAATGTAGTTGACACCATTTGTGATGTTAAGCTCAAT
*
32222 GATCGATTTAGTAAATAAAAAATGAAATTAATGTTTAGATTAACAATAATACTATATTTTTAAAA
326 GATCGATTTAGTAAATAAAAAATGAAATTAATGTTTAGATTAACAATAATAATATATTTTTAAAA
32287 TTTATATTTAAGAACTCAACAAGTGGTTTCAGTGG
391 TTTATATTTAAGAACTCAACAAGTGGTTTCAGTGG
32322 GTTCGAGCGC
Statistics
Matches: 419, Mismatches: 5, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
435 337 0.80
436 82 0.20
ACGTcount: A:0.38, C:0.09, G:0.14, T:0.39
Consensus pattern (436 bp):
TTTTATAATAATTACTATATTCTAAACTTTAGTTGACGTCATTCGTGGTGTTAAGCTTATTGACA
GATTTAGTAAGTGAAAAGGCATTAATGTTTAAATTTAAATATATTTTTAAAATTTATGTTTAATA
ATTTCTTCTATTTAGTTGACGTAATACATTATGTTAAGCTCAAAGAAAAATTTAATGCGTGTATA
TAAAAGTGATGTTTAAAATAACGTGATAATTTAGGATAAGCCTAAGTTATGGCACCAAAATACAT
TATTTTATAATAAATTACAATATTTCTACAATGTAGTTGACACCATTTGTGATGTTAAGCTCAAT
GATCGATTTAGTAAATAAAAAATGAAATTAATGTTTAGATTAACAATAATAATATATTTTTAAAA
TTTATATTTAAGAACTCAACAAGTGGTTTCAGTGGAAAAGAAGATG
Found at i:36009 original size:38 final size:38
Alignment explanation
Indices: 35958--36033 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
35948 TGTTAGGGCA
35958 TTTGGCCCGAAGATAGCGTTGGAGAGATAAGGGAATGT
1 TTTGGCCCGAAGATAGCGTTGGAGAGATAAGGGAATGT
35996 TTTGGCCCGAAGATAGCGTTGGAGAGATAAGGGAATGT
1 TTTGGCCCGAAGATAGCGTTGGAGAGATAAGGGAATGT
36034 CGAGCATAAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.29, C:0.11, G:0.37, T:0.24
Consensus pattern (38 bp):
TTTGGCCCGAAGATAGCGTTGGAGAGATAAGGGAATGT
Found at i:38801 original size:21 final size:21
Alignment explanation
Indices: 38777--38817 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
38767 ATGTGATTCT
* *
38777 GCATACTTGTTTCAGTAGAAC
1 GCATACATGTATCAGTAGAAC
*
38798 GCATACATGTATCGGTAGAA
1 GCATACATGTATCAGTAGAA
38818 GTACAGGGTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (21 bp):
GCATACATGTATCAGTAGAAC
Found at i:39655 original size:90 final size:90
Alignment explanation
Indices: 39512--39754 Score: 256
Period size: 90 Copynumber: 2.7 Consensus size: 90
39502 ACCATCTTAT
* * * * * * *
39512 GCATATCATATAGCATAATCAACCAAATAATAATCACAATCTTATGCTTATCATACGGCTTAA-T
1 GCATATCATATAGCATAATCAACCAAATAATAATTACCATATCATGCATATCATACAGCATAACT
* * *
39576 CAATTAAATAGTATTTACCATGTCATA
66 -AATCAAATAGTATATACCATATCA-A
* * *
39603 -CATATCATATAACATAATCAACCAAATAGTAATTACCATATCATGCATATCATATAGCATAACT
1 GCATATCATATAGCATAATCAACCAAATAATAATTACCATATCATGCATATCATACAGCATAACT
*
39667 AATCAAATAGTATATATCATATCAA
66 AATCAAATAGTATATACCATATCAA
* * ** * * * *
39692 GTATATAATATAGTGTAATAAATCAAATAATAATTACCACATCATGCATATCATATAGCATAA
1 GCATATCATATAGCATAATCAACCAAATAATAATTACCATATCATGCATATCATACAGCATAA
39755 TCAACTACAT
Statistics
Matches: 127, Mismatches: 23, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
89 1 0.01
90 125 0.98
91 1 0.01
ACGTcount: A:0.45, C:0.17, G:0.07, T:0.32
Consensus pattern (90 bp):
GCATATCATATAGCATAATCAACCAAATAATAATTACCATATCATGCATATCATACAGCATAACT
AATCAAATAGTATATACCATATCAA
Found at i:39771 original size:45 final size:45
Alignment explanation
Indices: 39510--39772 Score: 219
Period size: 45 Copynumber: 5.8 Consensus size: 45
39500 TCACCATCTT
* * * * *
39510 ATGCATATCATATAGCATAATCAACCAAATAATAATCACAATCTT
1 ATGCATATCATATAGCATAATCAACTAAATAATAATTACCATATC
* ** * * * * *
39555 ATGCTTATCATACGGCTTAATCAATTAAATAGTATTTACCATGTC
1 ATGCATATCATATAGCATAATCAACTAAATAATAATTACCATATC
* * * *
39600 ATACATATCATATAACATAATCAACCAAATAGTAATTACCATATC
1 ATGCATATCATATAGCATAATCAACTAAATAATAATTACCATATC
* *
39645 ATGCATATCATATAGCATAA-CTAA-TCAAATAGT-ATATATCATATC
1 ATGCATATCATATAGCATAATC-AACT-AAATAATAAT-TACCATATC
* * * ** * *
39690 AAGTATATAATATAGTGTAAT-AAATCAAATAATAATTACCACATC
1 ATGCATATCATATAGCATAATCAACT-AAATAATAATTACCATATC
*
39735 ATGCATATCATATAGCATAATCAACTACATAATAATTA
1 ATGCATATCATATAGCATAATCAACTAAATAATAATTA
39773 TCACTCGGTT
Statistics
Matches: 170, Mismatches: 41, Indels: 14
0.76 0.18 0.06
Matches are distributed among these distances:
44 5 0.03
45 160 0.94
46 5 0.03
ACGTcount: A:0.45, C:0.17, G:0.06, T:0.32
Consensus pattern (45 bp):
ATGCATATCATATAGCATAATCAACTAAATAATAATTACCATATC
Found at i:50823 original size:21 final size:21
Alignment explanation
Indices: 50797--50840 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
50787 TATCTATACA
*
50797 TGTCGTTACTGTTCATGGACT
1 TGTCGTTACTGTTCATAGACT
50818 TGTCGTTACTGTTCATAGACT
1 TGTCGTTACTGTTCATAGACT
50839 TG
1 TG
50841 ACTTTATTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.16, C:0.18, G:0.23, T:0.43
Consensus pattern (21 bp):
TGTCGTTACTGTTCATAGACT
Found at i:50851 original size:21 final size:21
Alignment explanation
Indices: 50800--50852 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
50790 CTATACATGT
* *
50800 CGTTACTGTTCATGGACTTGT
1 CGTTACTGTTCATAGACTTGA
50821 CGTTACTGTTCATAGACTTGA
1 CGTTACTGTTCATAGACTTGA
* *
50842 CTTTATTGTTC
1 CGTTACTGTTC
50853 GTGGAACTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.17, C:0.19, G:0.19, T:0.45
Consensus pattern (21 bp):
CGTTACTGTTCATAGACTTGA
Found at i:51790 original size:31 final size:29
Alignment explanation
Indices: 51755--51857 Score: 120
Period size: 31 Copynumber: 3.4 Consensus size: 29
51745 TTAATATAAC
51755 ATTTGGTACCTAAACTTGACACTTTTTCCTA
1 ATTTGGTACCTAAACTTG-CA-TTTTTCCTA
** *
51786 ATTTGGTACCTAAACTT--ATTTGGGCCCA
1 ATTTGGTACCTAAACTTGCATTT-TTCCTA
51814 ATTTGGTACCTAAACTTGGCATTTTTTCCTA
1 ATTTGGTACCTAAACTT-GCA-TTTTTCCTA
51845 ATTTGGTACCTAA
1 ATTTGGTACCTAA
51858 GCTTTTTTAG
Statistics
Matches: 61, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
27 3 0.05
28 21 0.34
31 34 0.56
32 3 0.05
ACGTcount: A:0.25, C:0.20, G:0.14, T:0.41
Consensus pattern (29 bp):
ATTTGGTACCTAAACTTGCATTTTTCCTA
Found at i:51825 original size:28 final size:28
Alignment explanation
Indices: 51785--51892 Score: 99
Period size: 28 Copynumber: 3.8 Consensus size: 28
51775 ACTTTTTCCT
*
51785 AATTTGGTACCTAAACTTATTTGGGCCC
1 AATTTGGTACCTAAACTTATTTAGGCCC
*** *
51813 AATTTGGTACCTAAACTTGGCATTTTTTCCT
1 AATTTGGTACCTAAACTT---ATTTAGGCCC
* * **
51844 AATTTGGTACCTAAGCTTTTTTAGGTTC
1 AATTTGGTACCTAAACTTATTTAGGCCC
*
51872 AATTTGGTACCTAAATTTATT
1 AATTTGGTACCTAAACTTATT
51893 AAATGTTATG
Statistics
Matches: 62, Mismatches: 15, Indels: 6
0.75 0.18 0.07
Matches are distributed among these distances:
28 39 0.63
31 23 0.37
ACGTcount: A:0.25, C:0.17, G:0.15, T:0.44
Consensus pattern (28 bp):
AATTTGGTACCTAAACTTATTTAGGCCC
Found at i:51827 original size:59 final size:59
Alignment explanation
Indices: 51755--51886 Score: 201
Period size: 59 Copynumber: 2.2 Consensus size: 59
51745 TTAATATAAC
*
51755 ATTTGGTACCTAAACTTGACACTTTTTCCTAATTTGGTACCTAAACTTATTTGGGCCCA
1 ATTTGGTACCTAAACTTGACACTTTTTCCTAATTTGGTACCTAAACTTATTTAGGCCCA
* * * * **
51814 ATTTGGTACCTAAACTTGGCATTTTTTCCTAATTTGGTACCTAAGCTTTTTTAGGTTCA
1 ATTTGGTACCTAAACTTGACACTTTTTCCTAATTTGGTACCTAAACTTATTTAGGCCCA
51873 ATTTGGTACCTAAA
1 ATTTGGTACCTAAA
51887 TTTATTAAAT
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
59 66 1.00
ACGTcount: A:0.25, C:0.19, G:0.14, T:0.42
Consensus pattern (59 bp):
ATTTGGTACCTAAACTTGACACTTTTTCCTAATTTGGTACCTAAACTTATTTAGGCCCA
Found at i:52391 original size:31 final size:31
Alignment explanation
Indices: 52267--52397 Score: 92
Period size: 31 Copynumber: 4.3 Consensus size: 31
52257 AACAAAAAAA
* *
52267 TTAGGTACCAAATTAAGAAAAAGA-GTCAAGT
1 TTAGGTATCAAATTAAGAAAAA-ATATCAAGT
* ***
52298 TCAGGTATCAAATT-AGACCCCAA-A--AAGT
1 TTAGGTATCAAATTAAGA-AAAAATATCAAGT
* * * *
52326 TTAAGTACCAACTTAAGAAAAAATGTCAAGT
1 TTAGGTATCAAATTAAGAAAAAATATCAAGT
* *
52357 TTAGGTATCAAATTAGGAAAAATTATCAAGT
1 TTAGGTATCAAATTAAGAAAAAATATCAAGT
*
52388 TTAGGCATCA
1 TTAGGTATCA
52398 GATTGAACAG
Statistics
Matches: 74, Mismatches: 21, Indels: 10
0.70 0.20 0.10
Matches are distributed among these distances:
28 16 0.22
29 3 0.04
30 4 0.05
31 51 0.69
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (31 bp):
TTAGGTATCAAATTAAGAAAAAATATCAAGT
Found at i:55840 original size:18 final size:18
Alignment explanation
Indices: 55819--55861 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
55809 ATAATAGGTT
55819 TTAATTAAATAAATTT-AA
1 TTAATTAAA-AAATTTAAA
* *
55837 TTAATTGAAAATTTTAAA
1 TTAATTAAAAAATTTAAA
55855 TTAATTA
1 TTAATTA
55862 CACATTGAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (18 bp):
TTAATTAAAAAATTTAAA
Found at i:57887 original size:15 final size:15
Alignment explanation
Indices: 57852--57908 Score: 55
Period size: 15 Copynumber: 3.7 Consensus size: 15
57842 TATTATTATG
57852 TGATATTAATATAAGTA
1 TGATATTAAT-TAA-TA
57869 --ATATTAATTAATA
1 TGATATTAATTAATA
*
57882 TGATATTATATTAATG
1 TGATATTA-ATTAATA
*
57898 TGAAATTAATT
1 TGATATTAATT
57909 GATTTGATCA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
13 2 0.06
14 3 0.09
15 17 0.49
16 13 0.37
ACGTcount: A:0.46, C:0.00, G:0.09, T:0.46
Consensus pattern (15 bp):
TGATATTAATTAATA
Found at i:74843 original size:4 final size:4
Alignment explanation
Indices: 74834--74874 Score: 55
Period size: 4 Copynumber: 10.2 Consensus size: 4
74824 TTAATTATTA
* * *
74834 ATTG ATTG ATTG ATTG ATTG ATGG ATGG ATTG ATGG ATTG A
1 ATTG ATTG ATTG ATTG ATTG ATTG ATTG ATTG ATTG ATTG A
74875 AAGGTTGTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.27, C:0.00, G:0.32, T:0.41
Consensus pattern (4 bp):
ATTG
Found at i:74849 original size:12 final size:12
Alignment explanation
Indices: 74834--74874 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
74824 TTAATTATTA
*
74834 ATTGATTGATTG
1 ATTGATTGATGG
74846 ATTGATTGATGG
1 ATTGATTGATGG
*
74858 ATGGATTGATGG
1 ATTGATTGATGG
74870 ATTGA
1 ATTGA
74875 AAGGTTGTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.27, C:0.00, G:0.32, T:0.41
Consensus pattern (12 bp):
ATTGATTGATGG
Found at i:93748 original size:43 final size:43
Alignment explanation
Indices: 93699--93841 Score: 173
Period size: 43 Copynumber: 3.3 Consensus size: 43
93689 TATGTGTATT
* * *
93699 AGTATAATT-ATTTCAGCTTGTTCAATGATGCACTGTGTGTGCC
1 AGTATAATTGCTTT-AGCTTGTTCGATGATGCACTGCGTGTGCC
* * *
93742 AATATAATTGCCTTGGCTTGTTCGATGATGCACTGCGTGTGCC
1 AGTATAATTGCTTTAGCTTGTTCGATGATGCACTGCGTGTGCC
**
93785 AGTATAATTGCTTT-GACTTGACCGATGATGCACTGCGTGTGCC
1 AGTATAATTGCTTTAG-CTTGTTCGATGATGCACTGCGTGTGCC
93828 AGTATAATGTGCTT
1 AGTATAAT-TGCTT
93842 CGTCCTGTCA
Statistics
Matches: 87, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
42 1 0.01
43 79 0.91
44 7 0.08
ACGTcount: A:0.22, C:0.18, G:0.24, T:0.36
Consensus pattern (43 bp):
AGTATAATTGCTTTAGCTTGTTCGATGATGCACTGCGTGTGCC
Found at i:115634 original size:108 final size:108
Alignment explanation
Indices: 115418--115622 Score: 365
Period size: 108 Copynumber: 1.9 Consensus size: 108
115408 AACAAGACTG
* * *
115418 TTAGTAACTTTATGTTTTGGTCACTCAACTTGAAAATGTTACAAAATGGTCATTGAACTATTTAG
1 TTAGTAACTTTATGTTTTGGTCACTCAACTAGAAAATGTTACAAAATGGTCACTGAACTATTCAG
* *
115483 AAGTTCTCATTTAAGTCCCCGGGCTGTTATAATCACTGCTGCA
66 AAGTTCTCATTTAAGTCACAGGGCTGTTATAATCACTGCTGCA
115526 TTAGTAACTTTATGTTTTGGTCACTCAACTAGAAAATGTTACAAAATGGTCACTGAACTATTCAG
1 TTAGTAACTTTATGTTTTGGTCACTCAACTAGAAAATGTTACAAAATGGTCACTGAACTATTCAG
115591 AAGTTCTCATTTAAGTCACAGGGCTGTTATAA
66 AAGTTCTCATTTAAGTCACAGGGCTGTTATAA
115623 CTGCTGCTGC
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
108 92 1.00
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.36
Consensus pattern (108 bp):
TTAGTAACTTTATGTTTTGGTCACTCAACTAGAAAATGTTACAAAATGGTCACTGAACTATTCAG
AAGTTCTCATTTAAGTCACAGGGCTGTTATAATCACTGCTGCA
Found at i:129703 original size:24 final size:22
Alignment explanation
Indices: 129668--129728 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
129658 AGCTGATTAG
129668 TATAT-ATAATATTTATAGAAAAGA
1 TATATAAT-ATATTTATA-AAAA-A
**
129692 TATATAATATATTCCTAAAAAA
1 TATATAATATATTTATAAAAAA
*
129714 TATACAATATATTTA
1 TATATAATATATTTA
129729 GATATTTCTA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
22 13 0.42
23 4 0.13
24 12 0.39
25 2 0.06
ACGTcount: A:0.52, C:0.05, G:0.03, T:0.39
Consensus pattern (22 bp):
TATATAATATATTTATAAAAAA
Found at i:138545 original size:42 final size:42
Alignment explanation
Indices: 138498--138581 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
138488 TTCAGTATAA
* *
138498 AAACTCCATTGATTCTTTTATTAATCTTCAATCAATTCTCGC
1 AAACTCCATTGATTCTTTCATTAATCGTCAATCAATTCTCGC
138540 AAACTCCATTGATTCTTTCATTAATCGTCAATCAATTCTCGC
1 AAACTCCATTGATTCTTTCATTAATCGTCAATCAATTCTCGC
138582 TCCAATATCT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.29, C:0.25, G:0.06, T:0.40
Consensus pattern (42 bp):
AAACTCCATTGATTCTTTCATTAATCGTCAATCAATTCTCGC
Found at i:146280 original size:15 final size:15
Alignment explanation
Indices: 146260--146294 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
146250 TTAAAAAAGT
* *
146260 TAAAATTTTTATATA
1 TAAAATTTTAATAAA
146275 TAAAATTTTAATAAA
1 TAAAATTTTAATAAA
146290 TAAAA
1 TAAAA
146295 AATATATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
TAAAATTTTAATAAA
Found at i:147438 original size:21 final size:22
Alignment explanation
Indices: 147414--147461 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
147404 GTCCCTCTAA
* *
147414 AAAATTTTA-AAATATTTCTTC
1 AAAATTTTATAAATATATATTC
147435 AAAATTTTATAAATATATATTC
1 AAAATTTTATAAATATATATTC
147457 AAAAT
1 AAAAT
147462 AATTATTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 9 0.38
22 15 0.62
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (22 bp):
AAAATTTTATAAATATATATTC
Found at i:152984 original size:96 final size:96
Alignment explanation
Indices: 152818--152991 Score: 237
Period size: 96 Copynumber: 1.8 Consensus size: 96
152808 TCGATTATCC
* * * *
152818 CGATTTGATGAAAGATTGCACCTGGTAAGTTAAGGCGCAAACTTTCAGAATCGAAGATAAAGAAA
1 CGATTTGAAGAAAAATTGCACCTAGTAAGTTAAGACGCAAACTTTCAGAATCGAAGATAAAGAAA
*
152883 CATTGCCTCGATTAAGGGTATTCAATTATTT
66 CATTGCCCCGATTAAGGGTATTCAATTATTT
*
152914 CGATTTGAAGAAAAATTGCACCTAGTAAGTTAAGACGCAAA-TTTCCGAAATTCGAA-ATAAA-A
1 CGATTTGAAGAAAAATTGCACCTAGTAAGTTAAGACGCAAACTTTCAG-AA-TCGAAGATAAAGA
*
152976 GAATATTGCCCCGATT
64 -AACATTGCCCCGATT
152992 TTAAAGTTTT
Statistics
Matches: 68, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
95 6 0.09
96 57 0.84
97 5 0.07
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.28
Consensus pattern (96 bp):
CGATTTGAAGAAAAATTGCACCTAGTAAGTTAAGACGCAAACTTTCAGAATCGAAGATAAAGAAA
CATTGCCCCGATTAAGGGTATTCAATTATTT
Found at i:153306 original size:29 final size:29
Alignment explanation
Indices: 153225--153395 Score: 191
Period size: 29 Copynumber: 5.8 Consensus size: 29
153215 TTCGGATACC
* * *
153225 CGAGGGCAAAAATGGTAATTTTTGGAAGTTT
1 CGAGGGTAAAAATGG-GATTTTTTGAAG-TT
*
153256 CGGGGGTCAAAAATGGGATTTTTTGAAGTT
1 CGAGGGT-AAAAATGGGATTTTTTGAAGTT
** *
153286 TTAGGGTTAAAATGGGATTTTTTGAAGTT
1 CGAGGGTAAAAATGGGATTTTTTGAAGTT
*
153315 CGAGGGTAAAAATGGGATTTTTGGAAGTTT
1 CGAGGGTAAAAATGGGATTTTTTGAAG-TT
* * *
153345 TG-GGGTCAAAATGGGATTTTTAGAAGTT
1 CGAGGGTAAAAATGGGATTTTTTGAAGTT
*
153373 CGGGGGTAAAAATGGGATTTTTT
1 CGAGGGTAAAAATGGGATTTTTT
153396 AATAGTTTAG
Statistics
Matches: 119, Mismatches: 18, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
28 3 0.03
29 84 0.71
30 9 0.08
31 15 0.13
32 8 0.07
ACGTcount: A:0.29, C:0.04, G:0.32, T:0.36
Consensus pattern (29 bp):
CGAGGGTAAAAATGGGATTTTTTGAAGTT
Found at i:153334 original size:58 final size:58
Alignment explanation
Indices: 153233--153395 Score: 236
Period size: 58 Copynumber: 2.8 Consensus size: 58
153223 CCCGAGGGCA
* * *
153233 AAAATGGTAATTTTTGGAAGTTTCGGGGGTCAAAAATGGGATTTTTTGAAGTTTTAGGGTT
1 AAAATGG-GATTTTTAGAAG-TTCGGGGGT-AAAAATGGGATTTTTTGAAGTTTTAGGGTC
* * * *
153294 AAAATGGGATTTTTTGAAGTTCGAGGGTAAAAATGGGATTTTTGGAAGTTTTGGGGTC
1 AAAATGGGATTTTTAGAAGTTCGGGGGTAAAAATGGGATTTTTTGAAGTTTTAGGGTC
153352 AAAATGGGATTTTTAGAAGTTCGGGGGTAAAAATGGGATTTTTT
1 AAAATGGGATTTTTAGAAGTTCGGGGGTAAAAATGGGATTTTTT
153396 AATAGTTTAG
Statistics
Matches: 93, Mismatches: 9, Indels: 3
0.89 0.09 0.03
Matches are distributed among these distances:
58 68 0.73
59 8 0.09
60 10 0.11
61 7 0.08
ACGTcount: A:0.29, C:0.03, G:0.31, T:0.37
Consensus pattern (58 bp):
AAAATGGGATTTTTAGAAGTTCGGGGGTAAAAATGGGATTTTTTGAAGTTTTAGGGTC
Found at i:155189 original size:17 final size:17
Alignment explanation
Indices: 155151--155219 Score: 93
Period size: 17 Copynumber: 4.0 Consensus size: 17
155141 TTTGAACTTT
*
155151 TTTAATTTTAAAATTAAA
1 TTTAAATTTAAAATT-AA
*
155169 TTTAAATTTAAGATTAA
1 TTTAAATTTAAAATTAA
*
155186 TTTAAATTTAAAATAAA
1 TTTAAATTTAAAATTAA
*
155203 TCTAAATTTAAAATTAA
1 TTTAAATTTAAAATTAA
155220 AAAGGGGCTT
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
17 32 0.71
18 13 0.29
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (17 bp):
TTTAAATTTAAAATTAA
Found at i:155195 original size:6 final size:6
Alignment explanation
Indices: 155151--155220 Score: 65
Period size: 6 Copynumber: 12.0 Consensus size: 6
155141 TTTGAACTTT
* *
155151 TTTAAT TTTAAA ATTAAA TTTAAA TTTAAGA -TT-AA TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAA-A TTTAAA TTTAAA TTTAAA
* * *
155198 -ATAAA TCTAAA TTTAAA ATTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA
155221 AAGGGGCTTG
Statistics
Matches: 53, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
4 1 0.02
5 7 0.13
6 44 0.83
7 1 0.02
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (6 bp):
TTTAAA
Found at i:155210 original size:23 final size:23
Alignment explanation
Indices: 155158--155221 Score: 69
Period size: 23 Copynumber: 2.8 Consensus size: 23
155148 TTTTTTAATT
* *
155158 TTAAAATTAAATTTAAATTTAAGA
1 TTAAATTTAAATTTAAA-ATAAGA
155182 TT-AATTTAAATTTAAAATAA-A
1 TTAAATTTAAATTTAAAATAAGA
*
155203 TCTAAATTTAAAATTAAAA
1 T-TAAATTTAAATTTAAAA
155222 AGGGGCTTGG
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
21 2 0.06
22 4 0.11
23 27 0.77
24 2 0.06
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (23 bp):
TTAAATTTAAATTTAAAATAAGA
Found at i:155909 original size:204 final size:204
Alignment explanation
Indices: 155615--156127 Score: 733
Period size: 204 Copynumber: 2.5 Consensus size: 204
155605 GGAAAATGGT
* * *
155615 TTTGGTTCACTTCCTC-GTATTTCACCAGGAAGCTAACCGTTTTATTACTTCGA-CTTGCTTCTC
1 TTTGGTCCACTT-CTCAGTA-TTCATCAGGAAGCTAACC-TTTTATTACTTC-ACCCTGCTTCTC
* * *
155678 AGTGTCTCATCAAGAAGCTGGGGTTCGAAGATTTGCTCACATCAGGCGTGAGTTTGATTTGGTCT
62 AGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCACATCAGGAGTGAGTTTGATTTGGTCT
* *
155743 TCTTCTTAGTATCTCATCAGGAAGATGATTGCGTCGTTTGTTTCAATTCGCTTATCTGTATCTCA
127 TCTTCTCAGTATCTCATCAGGAAGATGACTGCGTCGTTTGTTTCAATTCGCTTATCTGTATCTCA
* *
155808 TTAGGAAGACGAA
192 TCAGAAAGACGAA
* * *
155821 TTTGGTCCACTTCTCAGTATTCATCAGGAAGCTAACCCTTTATTGCTTCACCCTGCTTCTCCGTA
1 TTTGGTCCACTTCTCAGTATTCATCAGGAAGCTAACCTTTTATTACTTCACCCTGCTTCTCAGTA
* * *
155886 TCTCATCAGGAAGCTGGGGTTCGAGGATTTACTCACATCGGGAGTGAGTTTGATTTGGTCTTCTT
66 TCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCACATCAGGAGTGAGTTTGATTTGGTCTTCTT
* *
155951 CTCAGTATCTCATCAGGAAGATGACTGTGTCGTTTGTTTCAATTCGCTTCTCTGTATCTCATCAG
131 CTCAGTATCTCATCAGGAAGATGACTGCGTCGTTTGTTTCAATTCGCTTATCTGTATCTCATCAG
156016 AAAGACGAA
196 AAAGACGAA
* * * * * * *
156025 TTTGGTCTACTTGTCAACTATCTCATCAGGAAGCTAACCTTTTATTTCTTCACCCTTCTTTTCTG
1 TTTGGTCCACTTCTC-AGTAT-TCATCAGGAAGCTAACCTTTTATTACTTCACCCTGCTTCTCAG
156090 TATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCAC
64 TATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCAC
156128 TCTAAGCCTC
Statistics
Matches: 275, Mismatches: 28, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
203 1 0.00
204 162 0.59
205 24 0.09
206 88 0.32
ACGTcount: A:0.21, C:0.22, G:0.20, T:0.37
Consensus pattern (204 bp):
TTTGGTCCACTTCTCAGTATTCATCAGGAAGCTAACCTTTTATTACTTCACCCTGCTTCTCAGTA
TCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCACATCAGGAGTGAGTTTGATTTGGTCTTCTT
CTCAGTATCTCATCAGGAAGATGACTGCGTCGTTTGTTTCAATTCGCTTATCTGTATCTCATCAG
AAAGACGAA
Found at i:166140 original size:29 final size:30
Alignment explanation
Indices: 166086--166277 Score: 236
Period size: 29 Copynumber: 6.5 Consensus size: 30
166076 ACCTGAGGCT
*
166086 AAAATGGTAATTTTTGGAAGTTTCG-GGGTCA
1 AAAATGG-GATTTTTGGAAGTTTCGAGGGT-A
*
166117 AAAATGGGATTTTTGAAAG-TTCG-GGAGT-
1 AAAATGGGATTTTTGGAAGTTTCGAGG-GTA
166145 AAAATGGGATTTTTGGAAGTTTCGAGGGTCA
1 AAAATGGGATTTTTGGAAGTTTCGAGGGT-A
*
166176 AAAATGAGATTTTTGGAAG-TTCGAGGGTA
1 AAAATGGGATTTTTGGAAGTTTCGAGGGTA
* * *
166205 AAAATAGGATTTTTAGAAGTTTTG-GGGTTA
1 AAAATGGGATTTTTGGAAGTTTCGAGGG-TA
166235 AAAATGGGATTTTTGGAAG-TTCGAGGGTA
1 AAAATGGGATTTTTGGAAGTTTCGAGGGTA
166264 AAAATGGGATTTTT
1 AAAATGGGATTTTT
166278 AAACAATTTA
Statistics
Matches: 142, Mismatches: 11, Indels: 18
0.83 0.06 0.11
Matches are distributed among these distances:
28 18 0.13
29 51 0.36
30 48 0.34
31 25 0.18
ACGTcount: A:0.32, C:0.04, G:0.30, T:0.34
Consensus pattern (30 bp):
AAAATGGGATTTTTGGAAGTTTCGAGGGTA
Found at i:166177 original size:59 final size:59
Alignment explanation
Indices: 166086--166277 Score: 280
Period size: 59 Copynumber: 3.2 Consensus size: 59
166076 ACCTGAGGCT
* *
166086 AAAATGGTAATTTTTGGAAGTTTCGGGGTCAAAAATGGGATTTTTGAAAGTTCG-GGAGT-
1 AAAATGG-GATTTTTGGAAGTTTCGGGGTCAAAAATGGGATTTTTGGAAGTTCGAGG-GTA
*
166145 AAAATGGGATTTTTGGAAGTTTCGAGGGTCAAAAATGAGATTTTTGGAAGTTCGAGGGTA
1 AAAATGGGATTTTTGGAAGTTTCG-GGGTCAAAAATGGGATTTTTGGAAGTTCGAGGGTA
* * * *
166205 AAAATAGGATTTTTAGAAGTTTTGGGGTTAAAAATGGGATTTTTGGAAGTTCGAGGGTA
1 AAAATGGGATTTTTGGAAGTTTCGGGGTCAAAAATGGGATTTTTGGAAGTTCGAGGGTA
166264 AAAATGGGATTTTT
1 AAAATGGGATTTTT
166278 AAACAATTTA
Statistics
Matches: 121, Mismatches: 9, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
58 16 0.13
59 82 0.68
60 23 0.19
ACGTcount: A:0.32, C:0.04, G:0.30, T:0.34
Consensus pattern (59 bp):
AAAATGGGATTTTTGGAAGTTTCGGGGTCAAAAATGGGATTTTTGGAAGTTCGAGGGTA
Found at i:167230 original size:3 final size:3
Alignment explanation
Indices: 167222--167248 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
167212 ATTTATTTAT
167222 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
167249 AGAAAAACTT
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:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:168022 original size:11 final size:11
Alignment explanation
Indices: 168000--168059 Score: 66
Period size: 11 Copynumber: 5.4 Consensus size: 11
167990 TTTAATTTTA
*
168000 AAATTAAAATT
1 AAATTTAAATT
*
168011 AATTTTAAATT
1 AAATTTAAATT
168022 AAATTTAAATT
1 AAATTTAAATT
* *
168033 AAAGATTAATTT
1 AAA-TTTAAATT
*
168045 AAATTTAAAAT
1 AAATTTAAATT
168056 AAAT
1 AAAT
168060 CAAAATTTAA
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
11 31 0.77
12 9 0.22
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.42
Consensus pattern (11 bp):
AAATTTAAATT
Found at i:168022 original size:17 final size:18
Alignment explanation
Indices: 167991--168077 Score: 67
Period size: 17 Copynumber: 5.0 Consensus size: 18
167981 TTGAACTTTT
167991 TTAATTTTAAAATTAAAA
1 TTAATTTTAAAATTAAAA
*
168009 TTAATTTT-AAATTAAAT
1 TTAATTTTAAAATTAAAA
* *
168026 TTAA-ATTAAAGATT-AAT
1 TTAATTTTAAA-ATTAAAA
*
168043 TTAAATTTAAAA-T-AAA
1 TTAATTTTAAAATTAAAA
* *
168059 TCAAAATTTAAAATTAAAA
1 T-TAATTTTAAAATTAAAA
168078 AGGGGTCCGG
Statistics
Matches: 58, Mismatches: 5, Indels: 11
0.78 0.07 0.15
Matches are distributed among these distances:
16 6 0.10
17 32 0.55
18 17 0.29
19 3 0.05
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.41
Consensus pattern (18 bp):
TTAATTTTAAAATTAAAA
Found at i:168055 original size:7 final size:6
Alignment explanation
Indices: 167990--168076 Score: 56
Period size: 6 Copynumber: 15.0 Consensus size: 6
167980 TTTGAACTTT
* * * *
167990 TTTAAT TTTAAA ATTAAA ATTAAT TTTAAA -TTAAA TTTAAA -TTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * ** *
168036 GATT-AA TTTAAA TTTAAA -ATAAA TCAAAA TTTAAA ATTAAA
1 -TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
168077 AAGGGGTCCG
Statistics
Matches: 64, Mismatches: 12, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
5 16 0.25
6 46 0.72
7 2 0.03
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (6 bp):
TTTAAA
Found at i:168058 original size:23 final size:23
Alignment explanation
Indices: 167991--168058 Score: 73
Period size: 23 Copynumber: 2.9 Consensus size: 23
167981 TTGAACTTTT
* * **
167991 TTAATTTTAAAATTAAAATTAATT
1 TTAA-TTTAAATTTAAAATAAAGA
* *
168015 TTAAATTAAATTTAAATTAAAGA
1 TTAATTTAAATTTAAAATAAAGA
168038 TTAATTTAAATTTAAAATAAA
1 TTAATTTAAATTTAAAATAAA
168059 TCAAAATTTA
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
23 32 0.89
24 4 0.11
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.44
Consensus pattern (23 bp):
TTAATTTAAATTTAAAATAAAGA
Found at i:175421 original size:10 final size:10
Alignment explanation
Indices: 175406--175444 Score: 69
Period size: 10 Copynumber: 3.9 Consensus size: 10
175396 CTCGCCTGTT
175406 GACCGAACCC
1 GACCGAACCC
175416 GACCGAACCC
1 GACCGAACCC
175426 GACCGAACCC
1 GACCGAACCC
*
175436 GATCGAACC
1 GACCGAACC
175445 TGATTGTTGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
10 28 1.00
ACGTcount: A:0.31, C:0.46, G:0.21, T:0.03
Consensus pattern (10 bp):
GACCGAACCC
Found at i:186364 original size:2 final size:2
Alignment explanation
Indices: 186357--186412 Score: 94
Period size: 2 Copynumber: 28.0 Consensus size: 2
186347 TTCATCAATT
* *
186357 CA CA CA CA TA CA CA CA CA CA CA TA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
186399 CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA
186413 TATATATATA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.46, G:0.00, T:0.04
Consensus pattern (2 bp):
CA
Found at i:203136 original size:20 final size:22
Alignment explanation
Indices: 203111--203160 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 22
203101 AACTCGAAGA
*
203111 AAAAAAAATGAAAGAG-AAA-G
1 AAAAAAAAGGAAAGAGAAAACG
* *
203131 AAAAAAGAGGAAAGGGAAAACG
1 AAAAAAAAGGAAAGAGAAAACG
203153 AAAAAAAA
1 AAAAAAAA
203161 AATTATTATT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 13 0.54
21 3 0.12
22 8 0.33
ACGTcount: A:0.74, C:0.02, G:0.22, T:0.02
Consensus pattern (22 bp):
AAAAAAAAGGAAAGAGAAAACG
Found at i:203236 original size:15 final size:15
Alignment explanation
Indices: 203216--203254 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
203206 CGTGAATGAC
203216 ATGTTAATATT-ATTA
1 ATGTTAATATTGA-TA
203231 ATGTTAATATTGATA
1 ATGTTAATATTGATA
*
203246 GTGTTAATA
1 ATGTTAATA
203255 CTGTTAACAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 21 0.95
16 1 0.05
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (15 bp):
ATGTTAATATTGATA
Found at i:210534 original size:30 final size:29
Alignment explanation
Indices: 210455--210544 Score: 90
Period size: 31 Copynumber: 3.0 Consensus size: 29
210445 CCCCCCAAAA
* *
210455 TTATACATCAATTATGATTTAATGTGCAATT
1 TTATACATGAATTTTGATTTAATGT--AATT
* * *
210486 GTATACATGAACTTTGATTTTATGTAATT
1 TTATACATGAATTTTGATTTAATGTAATT
* *
210515 TTATACATGAAATTTTGATTTGATCTAATT
1 TTATACATG-AATTTTGATTTAATGTAATT
210545 CTTGTAAATT
Statistics
Matches: 49, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
29 12 0.24
30 17 0.35
31 20 0.41
ACGTcount: A:0.33, C:0.08, G:0.11, T:0.48
Consensus pattern (29 bp):
TTATACATGAATTTTGATTTAATGTAATT
Found at i:216862 original size:30 final size:29
Alignment explanation
Indices: 216826--216887 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 29
216816 TTTCGGTTAA
* *
216826 AATCGATTTAATTTGGTTAATTGGTCGGTT
1 AATCGATTTAATTTGATCAA-TGGTCGGTT
*
216856 AATCGATTTAATTTGATCGATGGTCGGTT
1 AATCGATTTAATTTGATCAATGGTCGGTT
216885 AAT
1 AAT
216888 AATTTTTTGA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 12 0.41
30 17 0.59
ACGTcount: A:0.26, C:0.08, G:0.23, T:0.44
Consensus pattern (29 bp):
AATCGATTTAATTTGATCAATGGTCGGTT
Found at i:216956 original size:18 final size:17
Alignment explanation
Indices: 216933--216976 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
216923 TCGAAATTGG
216933 ATAATTAATCGAA-TTA
1 ATAATTAATCGAACTTA
*
216949 ACTGAATTAACCGAACTTA
1 A-T-AATTAATCGAACTTA
216968 ATAATTAAT
1 ATAATTAAT
216977 AATACAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
16 1 0.04
17 7 0.30
18 11 0.48
19 4 0.17
ACGTcount: A:0.48, C:0.11, G:0.07, T:0.34
Consensus pattern (17 bp):
ATAATTAATCGAACTTA
Done.