Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01002141.1 Kokia drynarioides strain JFW-HI SEQ_114085, 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: 95308
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Found at i:944 original size:30 final size:29
Alignment explanation
Indices: 882--944 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 29
872 CCCAAAAAGT
* *
882 CCCTAAACTTTCCAAAAATCACATTTTGA
1 CCCTAAACTTTCCAAAAATCACATTCTAA
* * *
911 CCCTCAAACTTTTCAAAATTTACATTCTAA
1 CCCT-AAACTTTCCAAAAATCACATTCTAA
941 CCCT
1 CCCT
945 TGAAATCTCC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 4 0.14
30 24 0.86
ACGTcount: A:0.35, C:0.30, G:0.02, T:0.33
Consensus pattern (29 bp):
CCCTAAACTTTCCAAAAATCACATTCTAA
Found at i:1091 original size:29 final size:28
Alignment explanation
Indices: 1023--1091 Score: 75
Period size: 29 Copynumber: 2.4 Consensus size: 28
1013 CCAAAATCTA
1023 CATTTTGACCCTAAACTCTCTAAAAATT
1 CATTTTGACCCTAAACTCTCTAAAAATT
* * * * *
1051 CAAATTTAACCCTCGAACTTTCTAAAATTT
1 C-ATTTTGACCCT-AAACTCTCTAAAAATT
1081 CATTTTGACCC
1 CATTTTGACCC
1092 CATTTTTTTT
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
28 1 0.03
29 17 0.53
30 14 0.44
ACGTcount: A:0.33, C:0.26, G:0.04, T:0.36
Consensus pattern (28 bp):
CATTTTGACCCTAAACTCTCTAAAAATT
Found at i:1368 original size:23 final size:24
Alignment explanation
Indices: 1342--1392 Score: 63
Period size: 22 Copynumber: 2.2 Consensus size: 24
1332 TTTTATCTCT
1342 TTTAAAATTCCCTTT-TATTTT-TA
1 TTTAAAA-TCCCTTTATATTTTCTA
*
1365 TTT-AAATCCTTTTATATTTTCTA
1 TTTAAAATCCCTTTATATTTTCTA
1388 TTTAA
1 TTTAA
1393 CCCTTCAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
21 6 0.25
22 9 0.38
23 8 0.33
24 1 0.04
ACGTcount: A:0.27, C:0.12, G:0.00, T:0.61
Consensus pattern (24 bp):
TTTAAAATCCCTTTATATTTTCTA
Found at i:1371 original size:22 final size:23
Alignment explanation
Indices: 1350--1392 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
1340 CTTTTAAAAT
1350 TCCCTTT-TATTTT-TATTTAAA
1 TCCCTTTATATTTTCTATTTAAA
*
1371 TCCTTTTATATTTTCTATTTAA
1 TCCCTTTATATTTTCTATTTAA
1393 CCCTTCAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 6 0.32
23 7 0.37
ACGTcount: A:0.23, C:0.14, G:0.00, T:0.63
Consensus pattern (23 bp):
TCCCTTTATATTTTCTATTTAAA
Found at i:1590 original size:18 final size:19
Alignment explanation
Indices: 1567--1617 Score: 54
Period size: 18 Copynumber: 2.7 Consensus size: 19
1557 TATATTTTAA
1567 TACTTTATATTTTGT-TTT
1 TACTTTATATTTTGTATTT
*
1585 TACTTTA-ACTTTCGTATTT
1 TACTTTATA-TTTTGTATTT
1604 TA-TTTATCATTTTG
1 TACTTTAT-ATTTTG
1618 CGTTATTACC
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
17 1 0.04
18 16 0.59
19 9 0.33
20 1 0.04
ACGTcount: A:0.20, C:0.10, G:0.06, T:0.65
Consensus pattern (19 bp):
TACTTTATATTTTGTATTT
Found at i:3550 original size:26 final size:26
Alignment explanation
Indices: 3489--3694 Score: 153
Period size: 26 Copynumber: 8.2 Consensus size: 26
3479 ATTTAGCTTA
* *
3489 TACGAGCCCAGT-TAGTAAACCGC-CT
1 TACGAG-CCAGTATAGTATATCGCTCT
*
3514 TGCGAGCCAGTATAGTATATCGCTCT
1 TACGAGCCAGTATAGTATATCGCTCT
*
3540 TACGAGTCAGT-TCAGTATATCGCTCT
1 TACGAGCCAGTAT-AGTATATCGCTCT
* * * *
3566 TACGACCCAGTACAATATATTG--C-
1 TACGAGCCAGTATAGTATATCGCTCT
* * *
3589 T-C---CCAATACAGTATATCACTCT
1 TACGAGCCAGTATAGTATATCGCTCT
* * * *
3611 TACAAGCCTGTTTAGTATATCACTCT
1 TACGAGCCAGTATAGTATATCGCTCT
* * *
3637 TATGAGCCAGTTTAGTATATCACTCT
1 TACGAGCCAGTATAGTATATCGCTCT
*
3663 TACGAGCCAGTACAGTATATCGCTCT
1 TACGAGCCAGTATAGTATATCGCTCT
3689 TACGAG
1 TACGAG
3695 ACAATTTAGT
Statistics
Matches: 145, Mismatches: 25, Indels: 21
0.76 0.13 0.11
Matches are distributed among these distances:
19 12 0.08
21 1 0.01
22 2 0.01
23 2 0.01
24 6 0.04
25 15 0.10
26 107 0.74
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.31
Consensus pattern (26 bp):
TACGAGCCAGTATAGTATATCGCTCT
Found at i:3577 original size:52 final size:51
Alignment explanation
Indices: 3516--3694 Score: 172
Period size: 52 Copynumber: 3.6 Consensus size: 51
3506 AACCGCCTTG
* *
3516 CGAGCCAGTATAGTATATCGCTCTTACGAGTCAGTTCAGTATATCGCTCTTA
1 CGAGCCAGTACAGTATATCGCTCTTACGAG-CAGTTCAGTATATCACTCTTA
* * * * *
3568 CGACCCAGTACAATATATTGCTC---C---CAATACAGTATATCACTCTTA
1 CGAGCCAGTACAGTATATCGCTCTTACGAGCAGTTCAGTATATCACTCTTA
* * ** * * *
3613 CAAGCCTGTTTAGTATATCACTCTTATGAGCCAGTTTAGTATATCACTCTTA
1 CGAGCCAGTACAGTATATCGCTCTTACGAG-CAGTTCAGTATATCACTCTTA
3665 CGAGCCAGTACAGTATATCGCTCTTACGAG
1 CGAGCCAGTACAGTATATCGCTCTTACGAG
3695 ACAATTTAGT
Statistics
Matches: 95, Mismatches: 25, Indels: 14
0.71 0.19 0.10
Matches are distributed among these distances:
45 33 0.35
49 1 0.01
52 61 0.64
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.32
Consensus pattern (51 bp):
CGAGCCAGTACAGTATATCGCTCTTACGAGCAGTTCAGTATATCACTCTTA
Found at i:3705 original size:26 final size:26
Alignment explanation
Indices: 3598--3705 Score: 144
Period size: 26 Copynumber: 4.2 Consensus size: 26
3588 CTCCCAATAC
* *
3598 AGTATATCACTCTTACAAGCCTGTTT
1 AGTATATCACTCTTACGAGCCAGTTT
*
3624 AGTATATCACTCTTATGAGCCAGTTT
1 AGTATATCACTCTTACGAGCCAGTTT
**
3650 AGTATATCACTCTTACGAGCCAGTAC
1 AGTATATCACTCTTACGAGCCAGTTT
* * *
3676 AGTATATCGCTCTTACGAGACAATTT
1 AGTATATCACTCTTACGAGCCAGTTT
3702 AGTA
1 AGTA
3706 ATTTCTTCAA
Statistics
Matches: 71, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 71 1.00
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (26 bp):
AGTATATCACTCTTACGAGCCAGTTT
Found at i:5765 original size:21 final size:21
Alignment explanation
Indices: 5739--5792 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
5729 AAGCCTACTA
* * *
5739 GGCACAGAGCTTGAAACCATC
1 GGCACAAAGCCTGAAAACATC
5760 GGCACAAAGCCTGAAAACATC
1 GGCACAAAGCCTGAAAACATC
5781 GGCACAAAGCCT
1 GGCACAAAGCCT
5793 ACTAGGCACC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.37, C:0.30, G:0.22, T:0.11
Consensus pattern (21 bp):
GGCACAAAGCCTGAAAACATC
Found at i:12303 original size:21 final size:21
Alignment explanation
Indices: 12277--12330 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
12267 AAGCCTACTA
*
12277 GGCACAGAGCCTGAAAACACC
1 GGCACAAAGCCTGAAAACACC
*
12298 GGCACAAAGCTTGAAAACACC
1 GGCACAAAGCCTGAAAACACC
12319 GGCACAAAGCCT
1 GGCACAAAGCCT
12331 ACTAGGCACC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.39, C:0.31, G:0.22, T:0.07
Consensus pattern (21 bp):
GGCACAAAGCCTGAAAACACC
Found at i:14993 original size:12 final size:12
Alignment explanation
Indices: 14978--15011 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
14968 TCGACTCAAG
14978 ATTTGACTTGGA
1 ATTTGACTTGGA
14990 ATTTGACTTGGA
1 ATTTGACTTGGA
15002 ATTTGACTTG
1 ATTTGACTTG
15012 ATAAACCCCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.24, C:0.09, G:0.24, T:0.44
Consensus pattern (12 bp):
ATTTGACTTGGA
Found at i:15978 original size:14 final size:14
Alignment explanation
Indices: 15959--16009 Score: 77
Period size: 14 Copynumber: 3.7 Consensus size: 14
15949 GTTTAAAAAT
15959 TTTAATTAAATTTA
1 TTTAATTAAATTTA
**
15973 TTTAATTAAAAAT-
1 TTTAATTAAATTTA
15986 TTTAATTAAATTTA
1 TTTAATTAAATTTA
16000 TTTAATTAAA
1 TTTAATTAAA
16010 AATTTATTCT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
13 11 0.34
14 21 0.66
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TTTAATTAAATTTA
Found at i:15981 original size:27 final size:27
Alignment explanation
Indices: 15951--16014 Score: 128
Period size: 27 Copynumber: 2.4 Consensus size: 27
15941 AGTTTAGGGT
15951 TTAAAAATTTTAATTAAATTTATTTAA
1 TTAAAAATTTTAATTAAATTTATTTAA
15978 TTAAAAATTTTAATTAAATTTATTTAA
1 TTAAAAATTTTAATTAAATTTATTTAA
16005 TTAAAAATTT
1 TTAAAAATTT
16015 ATTCTCATCC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (27 bp):
TTAAAAATTTTAATTAAATTTATTTAA
Found at i:16298 original size:10 final size:10
Alignment explanation
Indices: 16266--16306 Score: 55
Period size: 10 Copynumber: 4.1 Consensus size: 10
16256 ATTTGAATTC
16266 ATTTATGTTT
1 ATTTATGTTT
* *
16276 ATCTATATTT
1 ATTTATGTTT
*
16286 ATTTATTTTT
1 ATTTATGTTT
16296 ATTTATGTTT
1 ATTTATGTTT
16306 A
1 A
16307 AATTTAAAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.24, C:0.02, G:0.05, T:0.68
Consensus pattern (10 bp):
ATTTATGTTT
Found at i:19037 original size:20 final size:19
Alignment explanation
Indices: 18979--19030 Score: 86
Period size: 19 Copynumber: 2.7 Consensus size: 19
18969 AAGAAATAGG
* *
18979 AAACCAAAACAGTGAATAA
1 AAACCAAAGCAGAGAATAA
18998 AAACCAAAGCAGAGAATAA
1 AAACCAAAGCAGAGAATAA
19017 AAACCAAAGCAGAG
1 AAACCAAAGCAGAG
19031 TCTTAAATTG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.62, C:0.17, G:0.15, T:0.06
Consensus pattern (19 bp):
AAACCAAAGCAGAGAATAA
Found at i:26386 original size:21 final size:21
Alignment explanation
Indices: 26362--26406 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
26352 CTTAAAACTC
26362 TTTGATATTAAGTCAAAA-ACA
1 TTTGATA-TAAGTCAAAACACA
* *
26383 TTTGTTATAAGTTAAAACACA
1 TTTGATATAAGTCAAAACACA
26404 TTT
1 TTT
26407 AAAACTTGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.40
Consensus pattern (21 bp):
TTTGATATAAGTCAAAACACA
Found at i:27280 original size:15 final size:15
Alignment explanation
Indices: 27253--27291 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
27243 ATTAAAGTTT
*
27253 TTAATATAATATTGGA
1 TTAATA-AATATTAGA
27269 TTAATAAATATTAGA
1 TTAATAAATATTAGA
27284 TGTAATAA
1 T-TAATAA
27292 TGTAATATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.43
16 12 0.57
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (15 bp):
TTAATAAATATTAGA
Found at i:29139 original size:18 final size:19
Alignment explanation
Indices: 29105--29140 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
29095 ATTTTTTTTT
29105 AAATTTAAAATATTTATAA
1 AAATTTAAAATATTTATAA
*
29124 AAATTTCAAA-ATTTATA
1 AAATTTAAAATATTTATA
29141 TTTTAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.42
Consensus pattern (19 bp):
AAATTTAAAATATTTATAA
Found at i:31663 original size:31 final size:31
Alignment explanation
Indices: 31625--31700 Score: 134
Period size: 31 Copynumber: 2.5 Consensus size: 31
31615 TTTTTGATCC
31625 AATTTGATACTTAAACTTGACACTTTTTCTT
1 AATTTGATACTTAAACTTGACACTTTTTCTT
*
31656 AATTTGATACTTAAACTTGACACTTTTTTTT
1 AATTTGATACTTAAACTTGACACTTTTTCTT
*
31687 AAGTTGATACTTAA
1 AATTTGATACTTAA
31701 GCTTTTTGGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.32, C:0.13, G:0.08, T:0.47
Consensus pattern (31 bp):
AATTTGATACTTAAACTTGACACTTTTTCTT
Found at i:32002 original size:60 final size:58
Alignment explanation
Indices: 31913--32082 Score: 189
Period size: 60 Copynumber: 2.9 Consensus size: 58
31903 TAAATTTAGA
** * * *
31913 TACCAAATTGAATCTAAAAAAACTTAGGTACCAAATTAGGAAAAAATATTAAGTTCAGG
1 TACCAAATTGGGTCAAAAAAAATTTAGGTACCAAATTA-GAAAAAATATTAAGTTCAAG
* * *** *
31972 TACTAAATTGGGTCCAAAAAAAGTTTAGGTACCAAATTAAGAAAAAGGGTCAAGTTCAAG
1 TACCAAATTGGGT-CAAAAAAAATTTAGGTACCAAATT-AGAAAAAATATTAAGTTCAAG
*
32032 TACCAAATTGGGTCAAAAAAAAATTTAGATACCAAATTA-AAAAAATATTAA
1 TACCAAATTGGGTC-AAAAAAAATTTAGGTACCAAATTAGAAAAAATATTAA
32083 AGTACCAAAT
Statistics
Matches: 90, Mismatches: 18, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
58 8 0.09
59 12 0.13
60 69 0.77
61 1 0.01
ACGTcount: A:0.50, C:0.11, G:0.14, T:0.25
Consensus pattern (58 bp):
TACCAAATTGGGTCAAAAAAAATTTAGGTACCAAATTAGAAAAAATATTAAGTTCAAG
Found at i:32088 original size:24 final size:22
Alignment explanation
Indices: 32048--32092 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
32038 ATTGGGTCAA
*
32048 AAAAAAATTTAGATACCAAATT
1 AAAAAAATTTAAATACCAAATT
32070 AAAAAAATATTAAAGTACCAAAT
1 AAAAAAAT-TTAAA-TACCAAAT
32093 ATTATATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 8 0.40
23 4 0.20
24 8 0.40
ACGTcount: A:0.62, C:0.09, G:0.04, T:0.24
Consensus pattern (22 bp):
AAAAAAATTTAAATACCAAATT
Found at i:32918 original size:17 final size:17
Alignment explanation
Indices: 32896--32968 Score: 67
Period size: 17 Copynumber: 4.1 Consensus size: 17
32886 TGTACAGTAG
32896 TATCAAACAATTTCACA
1 TATCAAACAATTTCACA
*
32913 TATCAATCAATTTAGCACAA
1 TATCAAACAATTT--CAC-A
*
32933 TGAT-AAACACTTTCACA
1 T-ATCAAACAATTTCACA
* *
32950 TATCAATCAATTTAACA
1 TATCAAACAATTTCACA
32967 TA
1 TA
32969 ATAACAAACA
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
16 2 0.04
17 26 0.58
18 3 0.07
19 3 0.07
20 9 0.20
21 2 0.04
ACGTcount: A:0.45, C:0.21, G:0.03, T:0.32
Consensus pattern (17 bp):
TATCAAACAATTTCACA
Found at i:32978 original size:37 final size:37
Alignment explanation
Indices: 32899--32998 Score: 119
Period size: 37 Copynumber: 2.7 Consensus size: 37
32889 ACAGTAGTAT
* *
32899 CAAACAATTTCACATATCAATCAATTTAGCACAATGA
1 CAAACAATTTCACATATCAATCAATTTAACACAATAA
* * *
32936 TAAACACTTTCACATATCAATCAATTTAACATAATAA
1 CAAACAATTTCACATATCAATCAATTTAACACAATAA
* * * *
32973 CAAACAGTCTCGCAAATCAATCAATT
1 CAAACAATTTCACATATCAATCAATT
32999 CAATATGTTA
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 53 1.00
ACGTcount: A:0.46, C:0.22, G:0.04, T:0.28
Consensus pattern (37 bp):
CAAACAATTTCACATATCAATCAATTTAACACAATAA
Found at i:34042 original size:29 final size:29
Alignment explanation
Indices: 33982--34065 Score: 98
Period size: 29 Copynumber: 2.9 Consensus size: 29
33972 TTTTTGAAGA
*
33982 ATAGTGGAAAAATTGTAAAATAT-GAAAT
1 ATAGTGGAAAAATTGTAAAATATGGAAAG
* *
34010 ATAGTGGCAAAATTGTAAAATCTGGAAAG
1 ATAGTGGAAAAATTGTAAAATATGGAAAG
* * * *
34039 ATAGTGGTAGAATTATAAAATTTGGAA
1 ATAGTGGAAAAATTGTAAAATATGGAA
34066 GACTATTGGC
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
28 21 0.44
29 27 0.56
ACGTcount: A:0.48, C:0.02, G:0.21, T:0.29
Consensus pattern (29 bp):
ATAGTGGAAAAATTGTAAAATATGGAAAG
Found at i:35365 original size:17 final size:17
Alignment explanation
Indices: 35329--35378 Score: 82
Period size: 17 Copynumber: 2.9 Consensus size: 17
35319 GTTTAAATTG
*
35329 ATTTAAATTTATTTTTAA
1 ATTTAAATTTA-TCTTAA
35347 ATTTAAATTTATCTTAA
1 ATTTAAATTTATCTTAA
35364 ATTTAAATTTATCTT
1 ATTTAAATTTATCTT
35379 TTTAAATTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
17 20 0.65
18 11 0.35
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (17 bp):
ATTTAAATTTATCTTAA
Found at i:35374 original size:29 final size:28
Alignment explanation
Indices: 35320--35374 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
35310 TAAAATTAGG
**
35320 TTTAAATTGATTTAAATTTATTTTTAAA
1 TTTAAATTGATTTAAATTTAAATTTAAA
*
35348 TTTAAATTTATCTTAAATTTAAATTTA
1 TTTAAATTGAT-TTAAATTTAAATTTA
35375 TCTTTTTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 10 0.43
29 13 0.57
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (28 bp):
TTTAAATTGATTTAAATTTAAATTTAAA
Found at i:35389 original size:6 final size:6
Alignment explanation
Indices: 35329--35374 Score: 51
Period size: 6 Copynumber: 7.8 Consensus size: 6
35319 GTTTAAATTG
* *
35329 ATTTAA ATTTAT TTTTAA ATTTAA ATTT-- ATCTTAA ATTTAA ATTTA
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA AT-TTAA ATTTAA ATTTA
35375 TCTTTTTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
4 2 0.06
5 2 0.06
6 27 0.82
7 2 0.06
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (6 bp):
ATTTAA
Found at i:35467 original size:18 final size:19
Alignment explanation
Indices: 35441--35480 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
35431 AAGCCCAAAT
35441 AAAATTAAATTA-AAAGTCC
1 AAAATTAAA-TACAAAGTCC
35460 AAAA-TAAATACAAAGTCC
1 AAAATTAAATACAAAGTCC
35478 AAA
1 AAA
35481 TTACAATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 2 0.10
18 14 0.70
19 4 0.20
ACGTcount: A:0.62, C:0.12, G:0.05, T:0.20
Consensus pattern (19 bp):
AAAATTAAATACAAAGTCC
Found at i:36146 original size:3 final size:3
Alignment explanation
Indices: 36132--36181 Score: 50
Period size: 3 Copynumber: 17.0 Consensus size: 3
36122 GCTCATAGGT
* *
36132 ATA ATA ATTA ATA ATA ATA ATA ATA ATA A-A GTA TTA AT- ATA ATA
1 ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
36176 AAA ATA
1 ATA ATA
36182 CGAAAAGTCA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
2 3 0.08
3 33 0.85
4 3 0.08
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:36156 original size:19 final size:19
Alignment explanation
Indices: 36131--36176 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
36121 TGCTCATAGG
*
36131 TATAATAATTAA-TAATAA
1 TATAATAATAAAGTAATAA
*
36149 TAATAATAATAAAGTATTAA
1 T-ATAATAATAAAGTAATAA
36169 TATAATAA
1 TATAATAA
36177 AAATACGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 1 0.04
19 17 0.71
20 6 0.25
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (19 bp):
TATAATAATAAAGTAATAA
Found at i:37145 original size:29 final size:29
Alignment explanation
Indices: 37112--37561 Score: 460
Period size: 29 Copynumber: 15.4 Consensus size: 29
37102 AAACTATTTG
* *
37112 AAAATTCCATTTTTACCCTCAAACTTTCA
1 AAAATTCCATTTTTACCCTCGAACTTCCA
* *
37141 AAAATTCCATTTTTACCCCCAAACTTCCA
1 AAAATTCCATTTTTACCCTCGAACTTCCA
*
37170 AAAATTCCATTTTTACCCTCAAACTTCCA
1 AAAATTCCATTTTTACCCTCGAACTTCCA
* * *
37199 AAAATTCCATTTTTGA-TCTCAAAACTTCAA
1 AAAATTCCATTTTT-ACCCTC-GAACTTCCA
37229 AAAATTCCATTTTTACTCC-CGAACTTCC-
1 AAAATTCCATTTTTAC-CCTCGAACTTCCA
*
37257 AAAATTCCATTTTTACCCTCGAACTTCAA
1 AAAATTCCATTTTTACCCTCGAACTTCCA
37286 AAAATTCCATTTTTACCC-CTGAACTTCCA
1 AAAATTCCATTTTTACCCTC-GAACTTCCA
*
37315 AAAAATCC-TTTTT-CCCTCGAACTTCCA
1 AAAATTCCATTTTTACCCTCGAACTTCCA
*
37342 AAAATTCCATTTTTACCCCCGAACTTCCA
1 AAAATTCCATTTTTACCCTCGAACTTCCA
*
37371 AAAATTCCATTTTTTCCCTCGAACTTCCA
1 AAAATTCCATTTTTACCCTCGAACTTCCA
*
37400 AAAATGT-CATTTTTGACCC-AGAAACTTCCA
1 AAAAT-TCCATTTTT-ACCCTCG-AACTTCCA
*
37430 AAAATTCCATTTTTACCCTCGAACCTCC-
1 AAAATTCCATTTTTACCCTCGAACTTCCA
* **
37458 AAAATCTCCATTTTCGA-CCTCGAAAC-TCTT
1 AAAAT-TCCATTTT-TACCCTCG-AACTTCCA
* *
37488 AAAATTACC-CTTTTACCC-CTGAA-TGTCTA
1 AAAATT-CCATTTTTACCCTC-GAACT-TCCA
* * *
37517 AAAATTTCATTTTTTAACCTCGAACTTTCCC
1 AAAATTCCA-TTTTTACCCTCGAAC-TTCCA
37548 AAAATTACCATTTT
1 AAAATT-CCATTTT
37562 GCCCCGAGAA
Statistics
Matches: 361, Mismatches: 30, Indels: 58
0.80 0.07 0.13
Matches are distributed among these distances:
27 21 0.06
28 46 0.13
29 207 0.57
30 70 0.19
31 14 0.04
32 3 0.01
ACGTcount: A:0.32, C:0.29, G:0.04, T:0.35
Consensus pattern (29 bp):
AAAATTCCATTTTTACCCTCGAACTTCCA
Found at i:38586 original size:552 final size:552
Alignment explanation
Indices: 37543--38629 Score: 2129
Period size: 552 Copynumber: 2.0 Consensus size: 552
37533 ACCTCGAACT
37543 TTCCCAAAATTACCATTTTGCCCCGAGAATCTAAAATTACCATTTTGCCCTCGAGTATCCGAAAA
1 TTCCCAAAATTACCATTTTGCCCCGAGAATCTAAAATTACCATTTTGCCCTCGAGTATCCGAAAA
37608 GTCTCATTTTCAAACTCGATCGCGTCATTTTTCTTCATCATCAATATTTGCGTTTATTTTTAATT
66 GTCTCATTTTCAAACTCGATCGCGTCATTTTTCTTCATCATCAATATTTGCGTTTATTTTTAATT
37673 AATTATGCACTTGTATTTTGCATTTTTGATTTTTGCACATCATTTATCTTCCTAATTACCTTACT
131 AATTATGCACTTGTATTTTGCATTTTTGATTTTTGCACATCATTTATCTTCCTAATTACCTTACT
37738 TCATGTTATTTAATATCCATTATTAACTGCTCATTCATATTTAACTCGCATGTTTGTTTTCAAAA
196 TCATGTTATTTAATATCCATTATTAACTGCTCATTCATATTTAACTCGCATGTTTGTTTTCAAAA
* *
37803 TTATTTTCATAAAAAACTTAAAACCGAGATAATATTCTTTTATTTCGAGTTTCAAAAATTTGCGC
261 TTATTTTCATAAAAAACTTAAAACCGAGACAATATTCTTTTATTTCGAGTTTCAAAAATTTACGC
* *
37868 CTTAACTTACTAGGTGCAATTGTTCTTCAAATCGAAATAATCGAATATCCTTAATCGAGGTAATG
326 CTTAACTTACTAGGTGCAATTGTTCTTCAAATCGAAATAATCGAATACCCTTAATCGAGGCAATG
37933 TTTCCTTATCTTCGATTCTGAAAATTTACGCCTTAACTTACTAGGTGCAATCTTTCCTCAAATCG
391 TTTCCTTATCTTCGATTCTGAAAATTTACGCCTTAACTTACTAGGTGCAATCTTTCCTCAAATCG
37998 AGATAATCAAATATCCTTTTCCCAAAATTTAAAAAGTTTTACGAAGGAAAACTCGTTATTTATGG
456 AGATAATCAAATATCCTTTTCCCAAAATTTAAAAAGTTTTACGAAGGAAAACTCGTTATTTATGG
38063 ATCTTGAAATGTCATTTTTTGTCCTAACTCAC
521 ATCTTGAAATGTCATTTTTTGTCCTAACTCAC
38095 TTCCCAAAATTACCATTTTGCCCCGAGAATCTAAAATTACCATTTTGCCCTCGAGTATCCGAAAA
1 TTCCCAAAATTACCATTTTGCCCCGAGAATCTAAAATTACCATTTTGCCCTCGAGTATCCGAAAA
38160 GTCTCATTTTCAAACTCGATCGCGTCATTTTTCTTCATCATCAATATTTGCGTTTATTTTTAATT
66 GTCTCATTTTCAAACTCGATCGCGTCATTTTTCTTCATCATCAATATTTGCGTTTATTTTTAATT
38225 AATTATGCACTTGTATTTTGCATTTTTGATTTTTGCACATCATTTATCTTCCTAATTACCTTACT
131 AATTATGCACTTGTATTTTGCATTTTTGATTTTTGCACATCATTTATCTTCCTAATTACCTTACT
*
38290 TCATGTTATTTAATATCCATTATTAACTGCTTATTCATATTTAACTCGCATGTTTGTTTTCAAAA
196 TCATGTTATTTAATATCCATTATTAACTGCTCATTCATATTTAACTCGCATGTTTGTTTTCAAAA
38355 TTATTTTCATAAAAAACTTAAAACCGAGACAATATTCTTTTATTTCGAGTTTCAAAAATTTACGC
261 TTATTTTCATAAAAAACTTAAAACCGAGACAATATTCTTTTATTTCGAGTTTCAAAAATTTACGC
38420 CTTAACTTACTAGGTGCAATTGTTCTTCAAATCGAAATAATCGAATACCCTTAATCGAGGCAATG
326 CTTAACTTACTAGGTGCAATTGTTCTTCAAATCGAAATAATCGAATACCCTTAATCGAGGCAATG
38485 TTTCCTTATCTTCGATTCTGAAAATTTACGCCTTAACTTACTAGGTGCAATCTTTCCTCAAATCG
391 TTTCCTTATCTTCGATTCTGAAAATTTACGCCTTAACTTACTAGGTGCAATCTTTCCTCAAATCG
38550 AGATAATCAAATATCCTTTTCCCAAAATTTAAAAAGTTTTACGAAGGAAAACTCGTTATTTATGG
456 AGATAATCAAATATCCTTTTCCCAAAATTTAAAAAGTTTTACGAAGGAAAACTCGTTATTTATGG
38615 ATCTTGAAATGTCAT
521 ATCTTGAAATGTCAT
38630 GTCCTAACTC
Statistics
Matches: 530, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
552 530 1.00
ACGTcount: A:0.30, C:0.19, G:0.10, T:0.40
Consensus pattern (552 bp):
TTCCCAAAATTACCATTTTGCCCCGAGAATCTAAAATTACCATTTTGCCCTCGAGTATCCGAAAA
GTCTCATTTTCAAACTCGATCGCGTCATTTTTCTTCATCATCAATATTTGCGTTTATTTTTAATT
AATTATGCACTTGTATTTTGCATTTTTGATTTTTGCACATCATTTATCTTCCTAATTACCTTACT
TCATGTTATTTAATATCCATTATTAACTGCTCATTCATATTTAACTCGCATGTTTGTTTTCAAAA
TTATTTTCATAAAAAACTTAAAACCGAGACAATATTCTTTTATTTCGAGTTTCAAAAATTTACGC
CTTAACTTACTAGGTGCAATTGTTCTTCAAATCGAAATAATCGAATACCCTTAATCGAGGCAATG
TTTCCTTATCTTCGATTCTGAAAATTTACGCCTTAACTTACTAGGTGCAATCTTTCCTCAAATCG
AGATAATCAAATATCCTTTTCCCAAAATTTAAAAAGTTTTACGAAGGAAAACTCGTTATTTATGG
ATCTTGAAATGTCATTTTTTGTCCTAACTCAC
Found at i:39207 original size:18 final size:18
Alignment explanation
Indices: 39186--39231 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
39176 TACTTTCAAG
* *
39186 GGTTCGCATACTTATTAA
1 GGTTCACATACTTATAAA
*
39204 GGTTCACATATTTATAAA
1 GGTTCACATACTTATAAA
*
39222 GGGTCACATA
1 GGTTCACATA
39232 TATAAGTACT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (18 bp):
GGTTCACATACTTATAAA
Found at i:39876 original size:21 final size:21
Alignment explanation
Indices: 39852--39927 Score: 75
Period size: 21 Copynumber: 3.7 Consensus size: 21
39842 CTTTTTTGGT
39852 AAACATATTCATGTTCGCATA
1 AAACATATTCATGTTCGCATA
*
39873 AAACATATTCATGCTT-GCTTA
1 AAACATATTCATG-TTCGCATA
* * **
39894 AAATATA-TCATATTCTTATA
1 AAACATATTCATGTTCGCATA
*
39914 AAACATTTTCATGT
1 AAACATATTCATGT
39928 ACATGCCTTG
Statistics
Matches: 43, Mismatches: 9, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
19 2 0.05
20 11 0.26
21 28 0.65
22 2 0.05
ACGTcount: A:0.38, C:0.16, G:0.07, T:0.39
Consensus pattern (21 bp):
AAACATATTCATGTTCGCATA
Found at i:40464 original size:33 final size:33
Alignment explanation
Indices: 40427--40496 Score: 140
Period size: 33 Copynumber: 2.1 Consensus size: 33
40417 TTGAAACTTA
40427 GTTTAAAACCTTAAGCTCTTGTATAACATAATG
1 GTTTAAAACCTTAAGCTCTTGTATAACATAATG
40460 GTTTAAAACCTTAAGCTCTTGTATAACATAATG
1 GTTTAAAACCTTAAGCTCTTGTATAACATAATG
40493 GTTT
1 GTTT
40497 GTACATACAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.34, C:0.14, G:0.13, T:0.39
Consensus pattern (33 bp):
GTTTAAAACCTTAAGCTCTTGTATAACATAATG
Found at i:42603 original size:15 final size:15
Alignment explanation
Indices: 42583--42643 Score: 68
Period size: 15 Copynumber: 3.9 Consensus size: 15
42573 AAAATTTAGA
42583 TGCAAGAAAGTAAAT
1 TGCAAGAAAGTAAAT
** *
42598 TGCAAGAATTTTTAAAG
1 TGCAAGAA--AGTAAAT
*
42615 TGCAAGAAAATAAAT
1 TGCAAGAAAGTAAAT
42630 TGCAAGAAAGTAAA
1 TGCAAGAAAGTAAA
42644 CTGGTAAAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
15 25 0.68
17 12 0.32
ACGTcount: A:0.52, C:0.07, G:0.18, T:0.23
Consensus pattern (15 bp):
TGCAAGAAAGTAAAT
Found at i:42607 original size:29 final size:31
Alignment explanation
Indices: 42553--42637 Score: 97
Period size: 32 Copynumber: 2.8 Consensus size: 31
42543 GGTTGTTTTG
*
42553 GTGCAAGAAAAGTAAA-TGCGAA-AA-TTTAGA
1 GTGCAAG-AAAGTAAATTGC-AAGAATTTTAAA
42583 -TGCAAGAAAGTAAATTGCAAGAATTTTTAAA
1 GTGCAAGAAAGTAAATTGCAAGAA-TTTTAAA
*
42614 GTGCAAGAAAATAAATTGCAAGAA
1 GTGCAAGAAAGTAAATTGCAAGAA
42638 AGTAAACTGG
Statistics
Matches: 48, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
28 10 0.21
29 11 0.23
31 5 0.10
32 22 0.46
ACGTcount: A:0.51, C:0.07, G:0.20, T:0.22
Consensus pattern (31 bp):
GTGCAAGAAAGTAAATTGCAAGAATTTTAAA
Found at i:43962 original size:78 final size:78
Alignment explanation
Indices: 43833--43988 Score: 312
Period size: 78 Copynumber: 2.0 Consensus size: 78
43823 GCTTACAGAG
43833 CATACCTTAGTGTTTCCATTCTTAGAATATCTCATAAATCTAGAAACATAACTAGGTCTCATAAG
1 CATACCTTAGTGTTTCCATTCTTAGAATATCTCATAAATCTAGAAACATAACTAGGTCTCATAAG
43898 TTTACTAAGCAAA
66 TTTACTAAGCAAA
43911 CATACCTTAGTGTTTCCATTCTTAGAATATCTCATAAATCTAGAAACATAACTAGGTCTCATAAG
1 CATACCTTAGTGTTTCCATTCTTAGAATATCTCATAAATCTAGAAACATAACTAGGTCTCATAAG
43976 TTTACTAAGCAAA
66 TTTACTAAGCAAA
43989 ATAATGCAAA
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
78 78 1.00
ACGTcount: A:0.37, C:0.19, G:0.10, T:0.33
Consensus pattern (78 bp):
CATACCTTAGTGTTTCCATTCTTAGAATATCTCATAAATCTAGAAACATAACTAGGTCTCATAAG
TTTACTAAGCAAA
Found at i:45932 original size:17 final size:17
Alignment explanation
Indices: 45910--45946 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
45900 AGGGGTTGTG
45910 ATGTGGGCATAAAACTC
1 ATGTGGGCATAAAACTC
45927 ATGTGGGCATAAAACTC
1 ATGTGGGCATAAAACTC
45944 ATG
1 ATG
45947 CACCATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.24
Consensus pattern (17 bp):
ATGTGGGCATAAAACTC
Found at i:52325 original size:23 final size:23
Alignment explanation
Indices: 52298--53516 Score: 1362
Period size: 23 Copynumber: 53.3 Consensus size: 23
52288 ACATACTCAC
52298 TTTAAGCACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* * * *
52321 TTTAATCATAAATCATAGTAATA
1 TTTAAGCACAAATCACATTAATA
52344 TTTAAGCACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
*
52367 TTTAAGCATAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* * *
52390 TTTGAGCACAAATTATATTAATA
1 TTTAAGCACAAATCACATTAATA
*
52413 TTTAAGCACAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
* * *
52436 TTTGAGAACAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
**
52459 TTTAATAACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* *
52482 TTTGAGAACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* *
52505 TTTAAGAACAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
* *
52528 TTTAAGGATAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
*
52551 TTTAAGCACAAATTACATTAATA
1 TTTAAGCACAAATCACATTAATA
* *
52574 TTTGAGCACAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
52597 TTTAAGCACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
*
52620 TTTAAGCACAAATCAAATTAATA
1 TTTAAGCACAAATCACATTAATA
*
52643 TTTAAGTACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* *
52666 TTTAAGCACAAATTATATTAATA
1 TTTAAGCACAAATCACATTAATA
* * *
52689 TTTGAGCACACATCAGATTAATA
1 TTTAAGCACAAATCACATTAATA
*
52712 TTTAAGCACAAATCACATTATTA
1 TTTAAGCACAAATCACATTAATA
* * *
52735 TTTGAGAACAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
** * *
52758 TTTAATAACAAATAAAATTAATA
1 TTTAAGCACAAATCACATTAATA
52781 TTTAAGCACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
*
52804 TTTAAGCATAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
*
52827 TTTAAGCACAAATTACATTAATA
1 TTTAAGCACAAATCACATTAATA
* * *
52850 TTTGAGCACAAATTAAATTAATA
1 TTTAAGCACAAATCACATTAATA
*
52873 TTTAAGTACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* *
52896 TTTGAGCACAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
*
52919 TTTAAGCATAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* * *
52942 CTTAATCATAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* *
52965 CTTAAGCACAAATCACATTACTA
1 TTTAAGCACAAATCACATTAATA
* *
52988 TTTAATCATAAATCAGC-TTAATA
1 TTTAAGCACAAATCA-CATTAATA
* *
53011 TTTAAGTATAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
*
53034 TTT-------AATCACATTACTA
1 TTTAAGCACAAATCACATTAATA
* * *
53050 TTTAATCATAAATCGGC-TTAATA
1 TTTAAGCACAAATC-ACATTAATA
*
53073 TTTAAGCATAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
** * *
53096 TTTAATTATAAATTACATTAATA
1 TTTAAGCACAAATCACATTAATA
* * * *
53119 CTTAAGCACAAATTACATTACTC
1 TTTAAGCACAAATCACATTAATA
* * *
53142 TTTAATCATAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
*
53165 TTTAAGCATAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* * *
53188 TTTGAGCATAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
*
53211 TTTAAGCATAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* * *
53234 TTTAAGCATAAATAATATT-ATCA
1 TTTAAGCACAAATCACATTAAT-A
* * **
53257 TTTAAGCATAAATCATAACAATA
1 TTTAAGCACAAATCACATTAATA
*
53280 TTTAAGCATAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* * *
53303 TTTAAGTATAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
* * *
53326 TTTAAGCATAAATCATATTAA-C
1 TTTAAGCACAAATCACATTAATA
* *
53348 TTTAAGCATAAATCACAATAATA
1 TTTAAGCACAAATCACATTAATA
* *
53371 TTTAAGCATAAATCGCATTAATA
1 TTTAAGCACAAATCACATTAATA
*
53394 TTTAAGCACAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
* * * *
53417 TTTAAGTATAAATTACAATAATA
1 TTTAAGCACAAATCACATTAATA
*
53440 TTTAAGCATAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* * * *
53463 TTTAGGAATAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
* * *
53486 TTTGATCACAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
53509 TTTAAGCA
1 TTTAAGCA
53517 TTGATATAAG
Statistics
Matches: 1030, Mismatches: 152, Indels: 28
0.85 0.13 0.02
Matches are distributed among these distances:
16 15 0.01
22 23 0.02
23 988 0.96
24 4 0.00
ACGTcount: A:0.47, C:0.12, G:0.05, T:0.35
Consensus pattern (23 bp):
TTTAAGCACAAATCACATTAATA
Found at i:53040 original size:16 final size:16
Alignment explanation
Indices: 53021--53057 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
53011 TTTAAGTATA
53021 AATCACATTAATATTT
1 AATCACATTAATATTT
*
53037 AATCACATTACTATTT
1 AATCACATTAATATTT
53053 AATCA
1 AATCA
53058 TAAATCGGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.43, C:0.16, G:0.00, T:0.41
Consensus pattern (16 bp):
AATCACATTAATATTT
Found at i:55061 original size:30 final size:30
Alignment explanation
Indices: 55025--55083 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
55015 CTTGAAAACA
55025 TTAGATTGGGAGGCTCGTTTATGTTTTATT
1 TTAGATTGGGAGGCTCGTTTATGTTTTATT
*
55055 TTAGATTGGGAGGCTCTTTTATGTTTTAT
1 TTAGATTGGGAGGCTCGTTTATGTTTTAT
55084 AGTTTTTCTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.17, C:0.07, G:0.25, T:0.51
Consensus pattern (30 bp):
TTAGATTGGGAGGCTCGTTTATGTTTTATT
Found at i:57984 original size:57 final size:55
Alignment explanation
Indices: 57918--58031 Score: 165
Period size: 57 Copynumber: 2.0 Consensus size: 55
57908 AGAGAAATAA
* * * *
57918 GAAACATTTGGAAATGATTGTGGTTTTCTCCAAAATGAAAATGAAAATTAAGAAAT
1 GAAACATTTGGAAATAATTGTAGTTTTCTCCAAAATGAAAATAAAAATGAA-AAAT
*
57974 GAAATCATTTGGAAATAATTGTAGTTTTCTCGAAAATGAAAATAAAAATGAAAAAT
1 GAAA-CATTTGGAAATAATTGTAGTTTTCTCCAAAATGAAAATAAAAATGAAAAAT
58030 GA
1 GA
58032 CTTGAAAAAT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
56 10 0.19
57 42 0.81
ACGTcount: A:0.47, C:0.06, G:0.17, T:0.30
Consensus pattern (55 bp):
GAAACATTTGGAAATAATTGTAGTTTTCTCCAAAATGAAAATAAAAATGAAAAAT
Found at i:60560 original size:21 final size:21
Alignment explanation
Indices: 60534--60576 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
60524 ATTAATTAAA
60534 TGGGTACTGCTTCTTCAAGGG
1 TGGGTACTGCTTCTTCAAGGG
60555 TGGGTACTGCTTCTTCAAGGG
1 TGGGTACTGCTTCTTCAAGGG
60576 T
1 T
60577 TTGATATTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.14, C:0.19, G:0.33, T:0.35
Consensus pattern (21 bp):
TGGGTACTGCTTCTTCAAGGG
Found at i:63957 original size:24 final size:22
Alignment explanation
Indices: 63930--63987 Score: 57
Period size: 24 Copynumber: 2.5 Consensus size: 22
63920 AAAAATATAT
63930 ATAATTATTAAATATTAAATT-AAA
1 ATAATTATTAAA-A--AAATTAAAA
63954 ATAATATATTTAAAAAAATTAAAA
1 ATAAT-TA-TTAAAAAAATTAAAA
63978 ATAA-TATTAA
1 ATAATTATTAA
63988 CATGCCTTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
21 4 0.13
22 2 0.06
23 5 0.16
24 12 0.39
25 3 0.10
26 5 0.16
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
ATAATTATTAAAAAAATTAAAA
Found at i:64694 original size:26 final size:26
Alignment explanation
Indices: 64659--64712 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
64649 GACAAGATTT
64659 TTTTGCTTGAGCCCGGTCCAAATATA
1 TTTTGCTTGAGCCCGGTCCAAATATA
64685 TTTTGCTTGAGCCCGGTCCAAATATA
1 TTTTGCTTGAGCCCGGTCCAAATATA
64711 TT
1 TT
64713 ATGTTATAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.37
Consensus pattern (26 bp):
TTTTGCTTGAGCCCGGTCCAAATATA
Found at i:64956 original size:35 final size:35
Alignment explanation
Indices: 64890--64957 Score: 91
Period size: 36 Copynumber: 1.9 Consensus size: 35
64880 ATGGAATACA
** *
64890 ATAAAATGTTATTATATTTATTTTTGTTTTTTAAT
1 ATAAAATGTTATTATATTTATGGTAGTTTTTTAAT
*
64925 ATAAAATATTTATTATATTTATGGTAGTTTTTT
1 ATAAAAT-GTTATTATATTTATGGTAGTTTTTT
64958 TAAAATATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
35 7 0.25
36 21 0.75
ACGTcount: A:0.32, C:0.00, G:0.07, T:0.60
Consensus pattern (35 bp):
ATAAAATGTTATTATATTTATGGTAGTTTTTTAAT
Found at i:67098 original size:30 final size:31
Alignment explanation
Indices: 67033--67098 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 31
67023 CGATGTCAGA
* *
67033 AATACATCAATATATACATTAAAAAAAACTTG
1 AATACATCAATATATACATCAAAAAAAAC-AG
67065 AATACATCAATATATACA-CAAAACAAAA-AG
1 AATACATCAATATATACATCAAAA-AAAACAG
67095 AATA
1 AATA
67099 GTTTTTATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
30 5 0.16
31 4 0.13
32 22 0.71
ACGTcount: A:0.61, C:0.14, G:0.03, T:0.23
Consensus pattern (31 bp):
AATACATCAATATATACATCAAAAAAAACAG
Found at i:70863 original size:40 final size:40
Alignment explanation
Indices: 70806--70885 Score: 124
Period size: 40 Copynumber: 2.0 Consensus size: 40
70796 CTACTCTTGG
* * *
70806 ATCGTTTCCAGCCATATTCCTTAGCTCTCGTCTTCTTCTT
1 ATCGTTTCCAACCATATTCCTTACCTCTCGTATTCTTCTT
*
70846 ATCGTTTCCAACTATATTCCTTACCTCTCGTATTCTTCTT
1 ATCGTTTCCAACCATATTCCTTACCTCTCGTATTCTTCTT
70886 CTTAGTGTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.15, C:0.31, G:0.07, T:0.46
Consensus pattern (40 bp):
ATCGTTTCCAACCATATTCCTTACCTCTCGTATTCTTCTT
Found at i:71313 original size:9 final size:9
Alignment explanation
Indices: 71299--71372 Score: 53
Period size: 9 Copynumber: 8.1 Consensus size: 9
71289 ATATACTTAT
71299 AAAATAATA
1 AAAATAATA
71308 AAAAT-ATA
1 AAAATAATA
* *
71316 ATAAGTATTA
1 A-AAATAATA
71326 AAAATAGATA
1 AAAATA-ATA
* *
71336 TAAAGAATA
1 AAAATAATA
71345 AAAAT-ATA
1 AAAATAATA
*
71353 ATAAGTAATA
1 A-AAATAATA
*
71363 GAAATAATA
1 AAAATAATA
71372 A
1 A
71373 TGCATATTAA
Statistics
Matches: 48, Mismatches: 12, Indels: 10
0.69 0.17 0.14
Matches are distributed among these distances:
8 8 0.17
9 28 0.58
10 12 0.25
ACGTcount: A:0.68, C:0.00, G:0.07, T:0.26
Consensus pattern (9 bp):
AAAATAATA
Found at i:71329 original size:19 final size:18
Alignment explanation
Indices: 71303--71373 Score: 81
Period size: 18 Copynumber: 3.8 Consensus size: 18
71293 ACTTATAAAA
71303 TAATAAAAATATAATAAG
1 TAATAAAAATATAATAAG
* *
71321 TATTAAAAATAGATATAAAG
1 TAATAAAAATATA-AT-AAG
71341 -AATAAAAATATAATAAG
1 TAATAAAAATATAATAAG
*
71358 TAATAGAAATAATAAT
1 TAATAAAAAT-ATAAT
71374 GCATATTAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
17 3 0.07
18 21 0.48
19 17 0.39
20 3 0.07
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (18 bp):
TAATAAAAATATAATAAG
Found at i:72260 original size:36 final size:36
Alignment explanation
Indices: 72206--72538 Score: 227
Period size: 36 Copynumber: 9.2 Consensus size: 36
72196 TACGTCTCAA
*
72206 TTAGAGTGTAATGCTATGTGAGTGCATACATCTCGG
1 TTAGAGCGTAATGCTATGTGAGTGCATACATCTCGG
* * *
72242 TTAAAGCGTAATGCTATGTGAGTGCATACGTCTCAG
1 TTAGAGCGTAATGCTATGTGAGTGCATACATCTCGG
* *
72278 TTAGAGCGTAATGCTATGTGAGTGCATACGTCTTGG
1 TTAGAGCGTAATGCTATGTGAGTGCATACATCTCGG
** * * * * *
72314 TTAGAGTATATTACTATGTAATTGCTTACATCTCGG
1 TTAGAGCGTAATGCTATGTGAGTGCATACATCTCGG
* * * * * * * **
72350 TTAGAGCGTAATGTTAAGGGATTACTTACGTCTCAA
1 TTAGAGCGTAATGCTATGTGAGTGCATACATCTCGG
* * * * * *
72386 TTAGAGTGTAATGCTAAGGGATTGCTTACATCTTGG
1 TTAGAGCGTAATGCTATGTGAGTGCATACATCTCGG
* * * * * *
72422 TTAGAGCATAATGCAATGTGATTGTATAC-TAATCGA
1 TTAGAGCGTAATGCTATGTGAGTGCATACAT-CTCGG
* ** * * * * *
72458 TTAGAGCGTATTTTTATGTAATTGCTTACGTCTCAG
1 TTAGAGCGTAATGCTATGTGAGTGCATACATCTCGG
* * * * *
72494 TTAGAGCGTAATGCTAAGAGAGTGCTTACGTCTCGA
1 TTAGAGCGTAATGCTATGTGAGTGCATACATCTCGG
72530 TTAGAGCGT
1 TTAGAGCGT
72539 GATTCTAAAT
Statistics
Matches: 230, Mismatches: 65, Indels: 4
0.77 0.22 0.01
Matches are distributed among these distances:
35 1 0.00
36 228 0.99
37 1 0.00
ACGTcount: A:0.27, C:0.14, G:0.24, T:0.35
Consensus pattern (36 bp):
TTAGAGCGTAATGCTATGTGAGTGCATACATCTCGG
Found at i:72390 original size:108 final size:108
Alignment explanation
Indices: 72231--72536 Score: 337
Period size: 108 Copynumber: 2.8 Consensus size: 108
72221 ATGTGAGTGC
* * * * *
72231 ATACATCTCGGTTAAAGCGTAATGCTATGTGAGTGCATACGTCTCAGTTAGAGCGTAATGCTATG
1 ATACATCTCGGTTAGAGCGTAATGTTATGTGATTGCTTACGTCTCAGTTAGAGCGTAATGCTAAG
* * * * *
72296 TGAGTGCATACGTCTTGGTTAGAGTATATTACTATGTAATTGCT
66 AGAGTGCTTACGTCTTGGTTAGAGCATAATACAATGTAATTG-T
* * * * *
72340 -TACATCTCGGTTAGAGCGTAATGTTAAGGGATTACTTACGTCTCAATTAGAGTGTAATGCTAAG
1 ATACATCTCGGTTAGAGCGTAATGTTATGTGATTGCTTACGTCTCAGTTAGAGCGTAATGCTAAG
* * * * *
72404 GGATTGCTTACATCTTGGTTAGAGCATAATGCAATGTGATTGT
66 AGAGTGCTTACGTCTTGGTTAGAGCATAATACAATGTAATTGT
* * * * *
72447 ATAC-TAATCGATTAGAGCGTATTTTTATGTAATTGCTTACGTCTCAGTTAGAGCGTAATGCTAA
1 ATACAT-CTCGGTTAGAGCGTAATGTTATGTGATTGCTTACGTCTCAGTTAGAGCGTAATGCTAA
* *
72511 GAGAGTGCTTACGTCTCGATTAGAGC
65 GAGAGTGCTTACGTCTTGGTTAGAGC
72537 GTGATTCTAA
Statistics
Matches: 161, Mismatches: 34, Indels: 5
0.81 0.17 0.03
Matches are distributed among these distances:
107 2 0.01
108 159 0.99
ACGTcount: A:0.27, C:0.14, G:0.24, T:0.35
Consensus pattern (108 bp):
ATACATCTCGGTTAGAGCGTAATGTTATGTGATTGCTTACGTCTCAGTTAGAGCGTAATGCTAAG
AGAGTGCTTACGTCTTGGTTAGAGCATAATACAATGTAATTGT
Found at i:72530 original size:72 final size:72
Alignment explanation
Indices: 72193--72538 Score: 293
Period size: 72 Copynumber: 4.8 Consensus size: 72
72183 TCGATGGAGA
* * * * * * *
72193 GCTTACGTCTCAATTAGAGTGTAATGCTATGTGAGTGCATACATCTCGGTTAAAGCGTAATGCTA
1 GCTTACGTCTCAGTTAGAGCGTAATGCTAAGTGAGTGCTTACGTCTCGATTAGAGCGTAATGCTA
* *
72258 TGTGAGT
66 TGTAATT
* * * * * ** * *
72265 GCATACGTCTCAGTTAGAGCGTAATGCTATGTGAGTGCATACGTCTTGGTTAGAGTATATTACTA
1 GCTTACGTCTCAGTTAGAGCGTAATGCTAAGTGAGTGCTTACGTCTCGATTAGAGCGTAATGCTA
72330 TGTAATT
66 TGTAATT
* * * * * * * *
72337 GCTTACATCTCGGTTAGAGCGTAATGTTAAGGGATTACTTACGTCTCAATTAGAGTGTAATGCTA
1 GCTTACGTCTCAGTTAGAGCGTAATGCTAAGTGAGTGCTTACGTCTCGATTAGAGCGTAATGCTA
* **
72402 AGGGATT
66 TGTAATT
* ** * * * * *
72409 GCTTACATCTTGGTTAGAGCATAATGC-AATGTGATTG-TATAC-TAATCGATTAGAGCGTATTT
1 GCTTACGTCTCAGTTAGAGCGTAATGCTAA-GTGAGTGCT-TACGT-CTCGATTAGAGCGTAATG
*
72471 TTATGTAATT
63 CTATGTAATT
*
72481 GCTTACGTCTCAGTTAGAGCGTAATGCTAAGAGAGTGCTTACGTCTCGATTAGAGCGT
1 GCTTACGTCTCAGTTAGAGCGTAATGCTAAGTGAGTGCTTACGTCTCGATTAGAGCGT
72539 GATTCTAAAT
Statistics
Matches: 217, Mismatches: 51, Indels: 12
0.77 0.18 0.04
Matches are distributed among these distances:
71 4 0.02
72 209 0.96
73 4 0.02
ACGTcount: A:0.27, C:0.14, G:0.24, T:0.35
Consensus pattern (72 bp):
GCTTACGTCTCAGTTAGAGCGTAATGCTAAGTGAGTGCTTACGTCTCGATTAGAGCGTAATGCTA
TGTAATT
Found at i:79722 original size:108 final size:108
Alignment explanation
Indices: 79527--79767 Score: 329
Period size: 108 Copynumber: 2.2 Consensus size: 108
79517 TCGATGGAGA
* * * * * *
79527 GCTTATGTCTCGGTTAGAGTGTAATACTATGTGAGTGCATACATCTTGGTTAGAACGTATTGCTG
1 GCTTATGTCTCGGTTAGAGCGTAATACTAGGTAAGTGCATACATCTCGGTTAGAACGTATTACTA
* *
79592 TGTAATTACTTACGTCTCGGTTAGAGCGTAATGCTAAGGGATT
66 TGTAATTACTTACGTCTCGGTTAGAGCGTAATGCTAAGAGAGT
* * * * * **
79635 TCTTACGTCTCGATTAGAGCGTAATTCTAGGTAATTGCATATGTCTCGGTTAGAACGTATTACTA
1 GCTTATGTCTCGGTTAGAGCGTAATACTAGGTAAGTGCATACATCTCGGTTAGAACGTATTACTA
* *
79700 TGTAATTGCTTACGTCTCGGTTAGAGCGTGATGCTAAGAGAGT
66 TGTAATTACTTACGTCTCGGTTAGAGCGTAATGCTAAGAGAGT
79743 GCTTATGTCTCGGTTAGAGCGTAAT
1 GCTTATGTCTCGGTTAGAGCGTAAT
79768 GGTAAGTGAC
Statistics
Matches: 113, Mismatches: 20, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
108 113 1.00
ACGTcount: A:0.24, C:0.15, G:0.25, T:0.36
Consensus pattern (108 bp):
GCTTATGTCTCGGTTAGAGCGTAATACTAGGTAAGTGCATACATCTCGGTTAGAACGTATTACTA
TGTAATTACTTACGTCTCGGTTAGAGCGTAATGCTAAGAGAGT
Found at i:79782 original size:36 final size:36
Alignment explanation
Indices: 79527--79791 Score: 215
Period size: 36 Copynumber: 7.4 Consensus size: 36
79517 TCGATGGAGA
* * * * *
79527 GCTTATGTCTCGGTTAGAGTGTAATACTATGTGAGT
1 GCTTACGTCTCGGTTAGAGCGTAATGCTAAGTGATT
* * * * * ** *
79563 GCATACATCTTGGTTAGAACGTATTGCTGTGTAATT
1 GCTTACGTCTCGGTTAGAGCGTAATGCTAAGTGATT
* *
79599 ACTTACGTCTCGGTTAGAGCGTAATGCTAAGGGATT
1 GCTTACGTCTCGGTTAGAGCGTAATGCTAAGTGATT
* * * * *
79635 TCTTACGTCTCGATTAGAGCGTAATTCTAGGTAATT
1 GCTTACGTCTCGGTTAGAGCGTAATGCTAAGTGATT
* * * * * * *
79671 GCATATGTCTCGGTTAGAACGTATTACTATGTAATT
1 GCTTACGTCTCGGTTAGAGCGTAATGCTAAGTGATT
* * *
79707 GCTTACGTCTCGGTTAGAGCGTGATGCTAAGAGAGT
1 GCTTACGTCTCGGTTAGAGCGTAATGCTAAGTGATT
* * *
79743 GCTTATGTCTCGGTTAGAGCGTAATGGTAAGTGACT
1 GCTTACGTCTCGGTTAGAGCGTAATGCTAAGTGATT
**
79779 GCTTTTGTCTCGG
1 GCTTACGTCTCGG
79792 CTAGGGCATA
Statistics
Matches: 178, Mismatches: 51, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
36 178 1.00
ACGTcount: A:0.23, C:0.15, G:0.26, T:0.36
Consensus pattern (36 bp):
GCTTACGTCTCGGTTAGAGCGTAATGCTAAGTGATT
Found at i:82455 original size:16 final size:17
Alignment explanation
Indices: 82434--82471 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
82424 GAATTTCTAA
82434 AGAAAGAAAGAAAAG-G
1 AGAAAGAAAGAAAAGAG
* *
82450 AGAAAGAGAGAATAGAG
1 AGAAAGAAAGAAAAGAG
82467 AGAAA
1 AGAAA
82472 CCAAAAGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.66, C:0.00, G:0.32, T:0.03
Consensus pattern (17 bp):
AGAAAGAAAGAAAAGAG
Found at i:85837 original size:20 final size:20
Alignment explanation
Indices: 85808--85861 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
85798 CTTTAATTAA
85808 TATTTT-AAAATTTTAAAAT
1 TATTTTGAAAATTTTAAAAT
*
85827 TATTTTGAAAATTTTAAAGT
1 TATTTTGAAAATTTTAAAAT
85847 TATTTTGAAAATTTT
1 TATTTTGAAAATTTT
85862 CTGTGAAGAG
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 6 0.18
20 27 0.82
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.54
Consensus pattern (20 bp):
TATTTTGAAAATTTTAAAAT
Found at i:86505 original size:113 final size:113
Alignment explanation
Indices: 86305--86532 Score: 438
Period size: 113 Copynumber: 2.0 Consensus size: 113
86295 AATTGGACCC
*
86305 AATTTTGGAGAGGCTCAAATCTCCATTATAATACATATAAAAGGAAGCACACCTTATTAGCCCCC
1 AATTTTGGAGAGGCTCAAATCTCCATCATAATACATATAAAAGGAAGCACACCTTATTAGCCCCC
86370 CTCTCTCCTAGTTAAACCAGGGGATTGTTTTTCTATTAAATAGGCATT
66 CTCTCTCCTAGTTAAACCAGGGGATTGTTTTTCTATTAAATAGGCATT
86418 AATTTTGGAGAGGCTCAAATCTCCATCATAATACATATAAAAGGAAGCACACCTTATTAGCCCCC
1 AATTTTGGAGAGGCTCAAATCTCCATCATAATACATATAAAAGGAAGCACACCTTATTAGCCCCC
*
86483 CTCTCTCCTAGTTAAACTAGGGGATTGTTTTTCTATTAAATAGGCATT
66 CTCTCTCCTAGTTAAACCAGGGGATTGTTTTTCTATTAAATAGGCATT
86531 AA
1 AA
86533 ATGTATTTTA
Statistics
Matches: 113, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
113 113 1.00
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.32
Consensus pattern (113 bp):
AATTTTGGAGAGGCTCAAATCTCCATCATAATACATATAAAAGGAAGCACACCTTATTAGCCCCC
CTCTCTCCTAGTTAAACCAGGGGATTGTTTTTCTATTAAATAGGCATT
Found at i:92621 original size:18 final size:18
Alignment explanation
Indices: 92598--92634 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
92588 ACAATTCATA
92598 TCACTTTCAATTCCAATT
1 TCACTTTCAATTCCAATT
* *
92616 TCACTTTCACTTTCAATT
1 TCACTTTCAATTCCAATT
92634 T
1 T
92635 TGATCATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.24, C:0.27, G:0.00, T:0.49
Consensus pattern (18 bp):
TCACTTTCAATTCCAATT
Found at i:93116 original size:24 final size:23
Alignment explanation
Indices: 93078--93131 Score: 90
Period size: 23 Copynumber: 2.3 Consensus size: 23
93068 ACTCAAATAT
93078 ATTTTTACCATAAAAAATTCAAA
1 ATTTTTACCATAAAAAATTCAAA
*
93101 ATTTTTACCATAAAAATTTCAAA
1 ATTTTTACCATAAAAAATTCAAA
*
93124 AATTTTAC
1 ATTTTTAC
93132 TTTAGCCAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (23 bp):
ATTTTTACCATAAAAAATTCAAA
Done.