Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001635.1 Hibiscus syriacus cultivar Beakdansim tig00003266_pilon, 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: 115882
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Found at i:1804 original size:31 final size:30
Alignment explanation
Indices: 1754--1820 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 30
1744 AAAATAGGTA
**
1754 AATTATTTATTTAGTCACTCATTTATTATTT
1 AATT-TTTATTTAGTCACTCAACTATTATTT
*
1785 AATTTTTATTTTGGTCACTCAACTATTATTT
1 AATTTTTA-TTTAGTCACTCAACTATTATTT
1816 -ATTTT
1 AATTTT
1821 AAATCACACT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
30 9 0.28
31 23 0.72
ACGTcount: A:0.27, C:0.10, G:0.04, T:0.58
Consensus pattern (30 bp):
AATTTTTATTTAGTCACTCAACTATTATTT
Found at i:2992 original size:23 final size:23
Alignment explanation
Indices: 2957--3018 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
2947 CTTACACTTC
*
2957 AATACCAATTCCCTAAAATCCCA
1 AATACCAAATCCCTAAAATCCCA
*
2980 AATACAAAATCCCTAAAATCCCA
1 AATACCAAATCCCTAAAATCCCA
*
3003 AA-ACCCAATCCCTAAA
1 AATACCAAATCCCTAAA
3019 TCCTAGTAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
22 12 0.34
23 23 0.66
ACGTcount: A:0.48, C:0.34, G:0.00, T:0.18
Consensus pattern (23 bp):
AATACCAAATCCCTAAAATCCCA
Found at i:5010 original size:18 final size:17
Alignment explanation
Indices: 4975--5017 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
4965 GAAAATATTA
*
4975 AAATAATAAAAGCGATT
1 AAATAATAAAAGCAATT
*
4992 AAATAAGTAAAAGTAATT
1 AAATAA-TAAAAGCAATT
5010 AAA-AATAA
1 AAATAATAA
5018 GAAGATGAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.65, C:0.02, G:0.09, T:0.23
Consensus pattern (17 bp):
AAATAATAAAAGCAATT
Found at i:5643 original size:23 final size:22
Alignment explanation
Indices: 5616--5659 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
5606 CTTGAAAAAT
5616 AAAAGAAAAATGAAAAGAACTTG
1 AAAAGAAAAATGAAAA-AACTTG
* *
5639 AAAAGTAAAATGAGAAAACTT
1 AAAAGAAAAATGAAAAAACTT
5660 TTATAAAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.64, C:0.05, G:0.16, T:0.16
Consensus pattern (22 bp):
AAAAGAAAAATGAAAAAACTTG
Found at i:10156 original size:24 final size:24
Alignment explanation
Indices: 10129--10235 Score: 97
Period size: 24 Copynumber: 4.5 Consensus size: 24
10119 AAACGAAGAT
* *
10129 ATCAGAAATCAAAACATAATTTAG
1 ATCAGAAATCAAAACAGAATTCAG
* * *
10153 ATCAGATATCAGAACAGAATCCAG
1 ATCAGAAATCAAAACAGAATTCAG
* * * * *
10177 GTTAGGAATCAGAACAGATTTCAG
1 ATCAGAAATCAAAACAGAATTCAG
** *
10201 ATCAGATGTCAAAACAGAATTCAA
1 ATCAGAAATCAAAACAGAATTCAG
10225 ATCAGAAATCA
1 ATCAGAAATCA
10236 GATAAAATAT
Statistics
Matches: 62, Mismatches: 21, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
24 62 1.00
ACGTcount: A:0.48, C:0.16, G:0.15, T:0.21
Consensus pattern (24 bp):
ATCAGAAATCAAAACAGAATTCAG
Found at i:10235 original size:48 final size:48
Alignment explanation
Indices: 10129--10237 Score: 121
Period size: 48 Copynumber: 2.3 Consensus size: 48
10119 AAACGAAGAT
* * *
10129 ATCAGAAATCAAAACATAATTTAGATCAGATATCAGAACAGAATCCAG
1 ATCAGAAATCAGAACATAATTTAGATCAGATATCAAAACAGAATCCAA
* * * * * *
10177 GTTAGGAATCAGAACA-GATTTCAGATCAGATGTCAAAACAGAATTCAA
1 ATCAGAAATCAGAACATAATTT-AGATCAGATATCAAAACAGAATCCAA
10225 ATCAGAAATCAGA
1 ATCAGAAATCAGA
10238 TAAAATATTC
Statistics
Matches: 48, Mismatches: 12, Indels: 2
0.77 0.19 0.03
Matches are distributed among these distances:
47 4 0.08
48 44 0.92
ACGTcount: A:0.48, C:0.16, G:0.16, T:0.21
Consensus pattern (48 bp):
ATCAGAAATCAGAACATAATTTAGATCAGATATCAAAACAGAATCCAA
Found at i:14466 original size:18 final size:19
Alignment explanation
Indices: 14443--14491 Score: 66
Period size: 18 Copynumber: 2.6 Consensus size: 19
14433 GTAAGAAAAA
14443 TATTAAAATAA-TAAAAGC
1 TATTAAAATAAGTAAAAGC
14461 TATT-AAATAAGTAAAAGC
1 TATTAAAATAAGTAAAAGC
*
14479 AATTAAAAATAAG
1 TATT-AAAATAAG
14492 AAGATGAAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
17 6 0.22
18 14 0.52
20 7 0.26
ACGTcount: A:0.61, C:0.04, G:0.08, T:0.27
Consensus pattern (19 bp):
TATTAAAATAAGTAAAAGC
Found at i:18765 original size:22 final size:23
Alignment explanation
Indices: 18737--18790 Score: 92
Period size: 22 Copynumber: 2.4 Consensus size: 23
18727 TTATAGTTTC
18737 AGGTTTTTTGTAATTC-AAAAAT
1 AGGTTTTTTGTAATTCAAAAAAT
18759 AGGTTTTTTGTAATTCAAAAAAT
1 AGGTTTTTTGTAATTCAAAAAAT
*
18782 AGATTTTTT
1 AGGTTTTTT
18791 TAAATTAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 16 0.53
23 14 0.47
ACGTcount: A:0.35, C:0.04, G:0.13, T:0.48
Consensus pattern (23 bp):
AGGTTTTTTGTAATTCAAAAAAT
Found at i:18796 original size:23 final size:22
Alignment explanation
Indices: 18740--18790 Score: 84
Period size: 23 Copynumber: 2.3 Consensus size: 22
18730 TAGTTTCAGG
*
18740 TTTTTTGTAATTCAAAAATAGG
1 TTTTTTGTAATTCAAAAATAGA
18762 TTTTTTGTAATTCAAAAAATAGA
1 TTTTTTGTAATTC-AAAAATAGA
18785 TTTTTT
1 TTTTTT
18791 TAAATTAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
22 13 0.48
23 14 0.52
ACGTcount: A:0.35, C:0.04, G:0.10, T:0.51
Consensus pattern (22 bp):
TTTTTTGTAATTCAAAAATAGA
Found at i:18951 original size:28 final size:28
Alignment explanation
Indices: 18917--18979 Score: 117
Period size: 28 Copynumber: 2.2 Consensus size: 28
18907 AAAATGTTAG
18917 ACACCTACTTAAACAAAAAGTTCTTTAA
1 ACACCTACTTAAACAAAAAGTTCTTTAA
*
18945 ACACCTACTTAAACAAAAAGTTTTTTAA
1 ACACCTACTTAAACAAAAAGTTCTTTAA
18973 ACACCTA
1 ACACCTA
18980 AGATAACAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.46, C:0.22, G:0.03, T:0.29
Consensus pattern (28 bp):
ACACCTACTTAAACAAAAAGTTCTTTAA
Found at i:19295 original size:2 final size:2
Alignment explanation
Indices: 19288--19353 Score: 114
Period size: 2 Copynumber: 32.0 Consensus size: 2
19278 TATCATAAAG
19288 TA TA TA TA TA TCA TGA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA T-A T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA
19332 TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA
19354 CCAAAAAATC
Statistics
Matches: 62, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
2 58 0.94
3 4 0.06
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (2 bp):
TA
Found at i:20119 original size:57 final size:57
Alignment explanation
Indices: 20050--20221 Score: 260
Period size: 57 Copynumber: 3.0 Consensus size: 57
20040 CATAACCATA
*
20050 CAACCCCATCACGAACAGTAAGGCCCATAGCACAAAGCCAAGGAACCTGCAAGTATT
1 CAACCCCATCACGAACAGTAAGGCCCATAGCACAAAGCCGAGGAACCTGCAAGTATT
20107 CAACCCCATCACGAACAGTAAGGCTCTCA-A-CACAAAGCCGAGGAACCTGCAAGTATT
1 CAACCCCATCACGAACAGTAAGGC-C-CATAGCACAAAGCCGAGGAACCTGCAAGTATT
* * *
20164 CAACCCCGTCACGAACAGTAAGGCTC-TCAGCACAAAGCCGAGAAACCTGCAAGTATT
1 CAACCCCATCACGAACAGTAAGGCCCAT-AGCACAAAGCCGAGGAACCTGCAAGTATT
20221 C
1 C
20222 TTCCTCCAAC
Statistics
Matches: 106, Mismatches: 4, Indels: 10
0.88 0.03 0.08
Matches are distributed among these distances:
55 1 0.01
56 1 0.01
57 100 0.94
58 2 0.02
59 2 0.02
ACGTcount: A:0.37, C:0.32, G:0.18, T:0.13
Consensus pattern (57 bp):
CAACCCCATCACGAACAGTAAGGCCCATAGCACAAAGCCGAGGAACCTGCAAGTATT
Found at i:24250 original size:23 final size:23
Alignment explanation
Indices: 24224--24282 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 23
24214 TAAACATTCA
*
24224 ATATAACAAA-TAATATTTTTATT
1 ATATAA-AAATTAATATTATTATT
24247 ATATAAAAATTAATATTATTATT
1 ATATAAAAATTAATATTATTATT
*
24270 -TTTAAAATATTAA
1 ATATAAAA-ATTAA
24283 AATAATTTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
22 9 0.28
23 23 0.72
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (23 bp):
ATATAAAAATTAATATTATTATT
Found at i:24279 original size:29 final size:27
Alignment explanation
Indices: 24237--24293 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 27
24227 TAACAAATAA
**
24237 TATTTTTATTATATAAAAATTAATATTAT
1 TATTTTTAAAATATAAAAA-TAAT-TTAT
*
24266 TATTTTTAAAATATTAAAATAATTTAT
1 TATTTTTAAAATATAAAAATAATTTAT
24293 T
1 T
24294 CAATATTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 5 0.20
28 4 0.16
29 16 0.64
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (27 bp):
TATTTTTAAAATATAAAAATAATTTAT
Found at i:24306 original size:14 final size:15
Alignment explanation
Indices: 24287--24318 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
24277 TATTAAAATA
24287 ATTTAT-TCAATATT
1 ATTTATGTCAATATT
24301 ATTTATGTCAATATT
1 ATTTATGTCAATATT
24316 ATT
1 ATT
24319 AAAATATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.34, C:0.06, G:0.03, T:0.56
Consensus pattern (15 bp):
ATTTATGTCAATATT
Found at i:24715 original size:23 final size:23
Alignment explanation
Indices: 24668--24734 Score: 59
Period size: 23 Copynumber: 3.0 Consensus size: 23
24658 ATATAATATC
* *
24668 ATATAT-TTTATAATA-TAATTGA
1 ATATATATTAATAATATTAA-TAA
*
24690 ATATATATTCATAATATTAATAA
1 ATATATATTAATAATATTAATAA
*
24713 ATATA-ATATAACAATATTAATA
1 ATATATAT-TAATAATATTAATA
24735 TTTTTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
22 8 0.21
23 27 0.71
24 3 0.08
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.43
Consensus pattern (23 bp):
ATATATATTAATAATATTAATAA
Found at i:24730 original size:32 final size:32
Alignment explanation
Indices: 24694--24755 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
24684 AATTGAATAT
*
24694 ATATTCATAATATTAATAAATATAATATAACA
1 ATATTAATAATATTAATAAATATAATATAACA
* * *
24726 ATATTAATATTTTTAATAAATATATTATAA
1 ATATTAATAATATTAATAAATATAATATAA
24756 TATTTAATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (32 bp):
ATATTAATAATATTAATAAATATAATATAACA
Found at i:24733 original size:29 final size:27
Alignment explanation
Indices: 24701--24767 Score: 71
Period size: 32 Copynumber: 2.3 Consensus size: 27
24691 TATATATTCA
24701 TAATATTAATAAATATAATATAACAATAT
1 TAATATTAATAAATATAATATAA-AAT-T
* *
24730 TAATATTTTTAATAAATATATTATAATATT
1 TAATA---TTAATAAATATAATATAAAATT
24760 TAATATTA
1 TAATATTA
24768 TTTAGTATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
27 3 0.09
29 5 0.15
30 6 0.18
31 2 0.06
32 17 0.52
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.46
Consensus pattern (27 bp):
TAATATTAATAAATATAATATAAAATT
Found at i:38985 original size:26 final size:25
Alignment explanation
Indices: 38955--39005 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 25
38945 TTTTCTTTAG
* *
38955 AATTTTATAAGTTTGTCTCTTTCTAA
1 AATTTTAGAAGTTTATCTC-TTCTAA
38981 AATTTTAGAAGTTTATCTCTTCTAA
1 AATTTTAGAAGTTTATCTCTTCTAA
39006 TATAAGATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 6 0.26
26 17 0.74
ACGTcount: A:0.29, C:0.12, G:0.08, T:0.51
Consensus pattern (25 bp):
AATTTTAGAAGTTTATCTCTTCTAA
Found at i:39277 original size:15 final size:15
Alignment explanation
Indices: 39222--39277 Score: 50
Period size: 15 Copynumber: 3.9 Consensus size: 15
39212 ATAAAAAAAT
39222 ATAAAATTTA-AAAC
1 ATAAAATTTATAAAC
*
39236 TTAAAATTTTATAATAC
1 ATAAAA-TTTATAA-AC
39253 AT--AA--TATAAAC
1 ATAAAATTTATAAAC
39264 ATAAAATTTATAAA
1 ATAAAATTTATAAA
39278 TTTAAATAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 13
0.69 0.04 0.27
Matches are distributed among these distances:
11 4 0.12
12 5 0.15
13 2 0.06
14 5 0.15
15 12 0.36
16 2 0.06
17 3 0.09
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (15 bp):
ATAAAATTTATAAAC
Found at i:39310 original size:42 final size:41
Alignment explanation
Indices: 39217--39311 Score: 95
Period size: 42 Copynumber: 2.3 Consensus size: 41
39207 TCCACATAAA
** *
39217 AAAATATAAAATTTAAAACTTAAAATTTTATAATACATAAT
1 AAAATATAAAATTTAAAACTTAAAATAATATAATACAAAAT
* *
39258 ATAAACATAAAATTTATAAA-TTTAAATAATATAACCTA-AAAAT
1 A-AAATATAAAATTTA-AAACTTAAAATAATATAA--TACAAAAT
39301 AAAATATAAAA
1 AAAATATAAAA
39312 ATATAAAAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
41 1 0.02
42 33 0.75
43 8 0.18
44 2 0.05
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (41 bp):
AAAATATAAAATTTAAAACTTAAAATAATATAATACAAAAT
Found at i:39319 original size:15 final size:15
Alignment explanation
Indices: 39295--39354 Score: 50
Period size: 15 Copynumber: 3.9 Consensus size: 15
39285 AATATAACCT
39295 AAAA-ATAAAATATA
1 AAAATATAAAATATA
* *
39309 AAAATATAAAAAACA
1 AAAATATAAAATATA
*
39324 AAATTATAAAATCATA
1 AAAATATAAAAT-ATA
*
39340 ATTAAATTTAAAATA
1 A--AAATATAAAATA
39355 ATTTGAGATT
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
14 4 0.11
15 18 0.51
16 3 0.09
17 1 0.03
18 9 0.26
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (15 bp):
AAAATATAAAATATA
Found at i:40062 original size:2 final size:2
Alignment explanation
Indices: 40057--40100 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
40047 TTAATACAAT
40057 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
40098 TA T
1 TA T
40101 TTTAAACTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:41670 original size:2 final size:2
Alignment explanation
Indices: 41659--41841 Score: 125
Period size: 2 Copynumber: 93.5 Consensus size: 2
41649 TTGAAACAAT
41659 TA TA -A TA TA TA 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 TA TA TA TA TA TA
* * * *
41700 TA TA TA TA TA TA TA TA -A TA AA CTA TG TA TA TA AA CTA TA TA GTT
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA -TA TA TA -TA
* * * *
41744 TA TA TT TA TA T- TA T- TA TA AA CTA TA TA T- TA TA TA TC TA AA
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA
* * * *
41784 T- TA TA TA GTT TA TA TT TA TA T- TA T- TA -A TG TA AA T- TA TA
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
41822 TA TA AA CTA TA TA TA TA TA T
1 TA TA TA -TA TA TA TA TA TA T
41842 TATGTATAAA
Statistics
Matches: 139, Mismatches: 26, Indels: 32
0.71 0.13 0.16
Matches are distributed among these distances:
1 10 0.07
2 123 0.88
3 6 0.04
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:41754 original size:50 final size:46
Alignment explanation
Indices: 41659--41787 Score: 69
Period size: 43 Copynumber: 3.0 Consensus size: 46
41649 TTGAAACAAT
* * *
41659 TATAATATATATATATATATA-TATATATATATATATATA-TA-TA
1 TATAATAAATATATATATAAACTATATATATATATTTATATTATTA
* * * * *
41702 TAT-ATATATATATA-ATAAACTATGTATATAAACTATATAGT-TTA
1 TATAATAAATATATATATAAACTATATATATATA-TTTATATTATTA
* * * *
41746 TAT-TTATAT-TAT-TATAAACTATATATTATATATCTAAATTAT
1 TATAATAAATATATATATAAACTATATA-TATATATTTATATTAT
41788 ATAGTTTATA
Statistics
Matches: 70, Mismatches: 9, Indels: 13
0.76 0.10 0.14
Matches are distributed among these distances:
41 4 0.06
42 21 0.30
43 28 0.40
44 17 0.24
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (46 bp):
TATAATAAATATATATATAAACTATATATATATATTTATATTATTA
Found at i:41864 original size:20 final size:20
Alignment explanation
Indices: 41841--41935 Score: 93
Period size: 20 Copynumber: 4.7 Consensus size: 20
41831 TATATATATA
*
41841 TTATGTATAAACTATAGAGT
1 TTATATATAAACTATAGAGT
* * *
41861 TTATATATGAACTATTG-GA
1 TTATATATAAACTATAGAGT
* *
41880 CTATATATAAACTATATAGT
1 TTATATATAAACTATAGAGT
* *
41900 TTATTAATATAAATTATATAGT
1 TTA-T-ATATAAACTATAGAGT
41922 TTATATATAAACTA
1 TTATATATAAACTA
41936 AATATGAATT
Statistics
Matches: 60, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
19 14 0.23
20 26 0.43
21 2 0.03
22 18 0.30
ACGTcount: A:0.43, C:0.05, G:0.08, T:0.43
Consensus pattern (20 bp):
TTATATATAAACTATAGAGT
Found at i:41911 original size:61 final size:63
Alignment explanation
Indices: 41818--41935 Score: 170
Period size: 61 Copynumber: 1.9 Consensus size: 63
41808 TAATGTAAAT
* *
41818 TATATATAAACTATATATATATATTATGTATAAACTATAGAGTTTATATATGAACTATTGGAC
1 TATATATAAACTATATATATATATTATATATAAACTATAGAGTTTATATATAAACTATTGGAC
* *
41881 TATATATAAACTATATAGT-T-TATTA-ATATAAATTATATAGTTTATATATAAACTA
1 TATATATAAACTATATA-TATATATTATATATAAACTATAGAGTTTATATATAAACTA
41936 AATATGAATT
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
61 26 0.52
62 5 0.10
63 18 0.36
64 1 0.02
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.43
Consensus pattern (63 bp):
TATATATAAACTATATATATATATTATATATAAACTATAGAGTTTATATATAAACTATTGGAC
Found at i:42060 original size:28 final size:27
Alignment explanation
Indices: 42008--42064 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 27
41998 TATATACTAT
* *
42008 GTATAAATTATATAGTTTAAATATAAA
1 GTATAAAGTATATAGTATAAATATAAA
42035 GTATATAAGTATATA-TATAAACTATAAA
1 GTATA-AAGTATATAGTATAAA-TATAAA
42063 GT
1 GT
42065 GTGTATAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
27 10 0.38
28 16 0.62
ACGTcount: A:0.51, C:0.02, G:0.09, T:0.39
Consensus pattern (27 bp):
GTATAAAGTATATAGTATAAATATAAA
Found at i:43292 original size:17 final size:18
Alignment explanation
Indices: 43270--43303 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
43260 AATATGAATG
43270 CAACATGAA-ATGCAATT
1 CAACATGAACATGCAATT
43287 CAACATGAACATGCAAT
1 CAACATGAACATGCAAT
43304 ACTAAAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.47, C:0.21, G:0.12, T:0.21
Consensus pattern (18 bp):
CAACATGAACATGCAATT
Found at i:43545 original size:2 final size:2
Alignment explanation
Indices: 43538--44423 Score: 200
Period size: 2 Copynumber: 440.5 Consensus size: 2
43528 CATCATCCGG
43538 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
43579 -T AT ACT CT AT AT AT AT AT AT AA AGT AT A- AA AGT AT A- AT AT
1 AT AT A-T AT AT AT AT AT AT AT AT A-T AT AT AT A-T AT AT AT AT
* * * * * *
43619 AA AGT AT AA AGT AT A- AT -T AT AA AG ACT AA AGT AT AT AA AT AT
1 AT A-T AT AT A-T AT AT AT AT AT AT AT A-T AT A-T AT AT AT AT AT
* * * * *
43661 AT A- AA AT A- AA AT AT AT AA AGT AT AT AT AC AT AT AA AGT AT A-
1 AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT A-T AT AT
* * * * *
43702 AGT AT GT AT AA AT AT AT AA ACT AT AA AGT AT CAA AGT AT AT A- AGT
1 A-T AT AT AT AT AT AT AT AT A-T AT AT A-T AT -AT A-T AT AT AT A-T
* *
43747 AT AT A- AT AT A- AA AT AT AT AGT AT -T AA AT A- AGT AT AT A- AGT
1 AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT A-T AT AT AT A-T
* *
43787 AT AT AT AT AA ACT AT AA AGT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT A-T AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT
* * * *
43831 AT AT AT AT AT AT AT AT AT AA AGT AT A- AG AA ACT AT A- AA AT AT
1 AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT A-T AT AT AT AT AT
* * * *
43873 AG AT AT AT AT ACT TT AT AT -T AT AT ACT -T AT AT ACT TT AGT CT
1 AT AT AT AT AT A-T AT AT AT AT AT AT A-T AT AT AT A-T AT A-T AT
* * * * * * * *
43915 TT AT A- AT -T AA ACT CT CT CT CT AT AT A- AT AT AT TT AT ACT TT
1 AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT A-T AT
* * *
43956 AT AT -T AT AT ACT TT AT ACT AA ACT TT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT A-T AT AT A-T AT A-T AT AT AT AT AT AT AT AT AT
* * *
43998 A- AGT AT AT A- AT AT AA AGT AT AT A- AT AT AT AT AA AGT -T TT
1 AT A-T AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT A-T AT AT
* * *
44037 ACT AT AA AGT AT AT TT ACT -T AT AGT TT AT AT AT AT ACT -T AT A-
1 A-T AT AT A-T AT AT AT A-T AT AT A-T AT AT AT AT AT A-T AT AT AT
* * * * *
44079 AT AT ACT -T AT -T TT AT AGT -T TT AT AT AC AT AT AT AC ACT TT
1 AT AT A-T AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT A-T AT
* * * * *
44119 AT ACT TT AA AGT AT AT AT AC CT -T AT AGT TT AT AT AT AT AT AT
1 AT A-T AT AT A-T AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT
* * * * * *
44161 AT ACT TT AT AGT TT AA ACT TT AT AT AT ACT -T AT ACT -T TT TT AT
1 AT A-T AT AT A-T AT AT A-T AT AT AT AT A-T AT AT A-T AT AT AT AT
* * *
44204 AT AT GT AT AT TT AA AT A- AGT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT
44246 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
44288 AT AT AT AT ACT -T AT A- AT GT AT -T A- AT -T AT GT AT A- AGT AT
1 AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT
* * * ** * *
44326 A- AT GT AC AT -T AT AT AT AC AT GC AT CAT AT -T AT CT A- AC AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT
* * *
44365 -T CAT -T AT AC AT AT -T AT AT AT TT AA AT A- AGT AT AT AT AT AT
1 AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT
44405 AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT A
44424 ATTGTTTTAA
Statistics
Matches: 642, Mismatches: 135, Indels: 214
0.65 0.14 0.22
Matches are distributed among these distances:
1 51 0.08
2 536 0.83
3 55 0.09
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.44
Consensus pattern (2 bp):
AT
Found at i:43606 original size:7 final size:7
Alignment explanation
Indices: 43596--43809 Score: 97
Period size: 7 Copynumber: 29.6 Consensus size: 7
43586 TATATATATA
43596 TATAAAG
1 TATAAAG
43603 TATAAAAG
1 TAT-AAAG
43611 TAT-AA-
1 TATAAAG
43616 TATAAAG
1 TATAAAG
43623 TATAAAG
1 TATAAAG
*
43630 TAT-AAT
1 TATAAAG
43636 TATAAAG
1 TATAAAG
43643 -ACTAAAG
1 TA-TAAAG
*
43650 TATATAAA
1 TATA-AAG
43658 TATATAA-
1 TATA-AAG
* *
43665 AATAAAATA
1 TAT-AAA-G
43674 TATAAAG
1 TATAAAG
*
43681 TATATATACA
1 TATA-A-A-G
43691 TATAAAG
1 TATAAAG
43698 TATAAGTATG
1 TATAA--A-G
*
43708 TATAAATA
1 TATAAA-G
*
43716 TATAAAC
1 TATAAAG
43723 TATAAAG
1 TATAAAG
43730 TATCAAAG
1 TAT-AAAG
43738 TATATAAG
1 TATA-AAG
43746 TATATAA-
1 TATA-AAG
*
43753 TATAAAA
1 TATAAAG
*
43760 TATATAG
1 TATAAAG
*
43767 TATTAA-
1 TATAAAG
43773 -AT-AAG
1 TATAAAG
43778 TATATAAG
1 TATA-AAG
*
43786 TATATA-
1 TATAAAG
*
43792 TATAAAC
1 TATAAAG
43799 TATAAAG
1 TATAAAG
43806 TATA
1 TATA
43810 TATATATATA
Statistics
Matches: 165, Mismatches: 18, Indels: 48
0.71 0.08 0.21
Matches are distributed among these distances:
4 2 0.01
5 5 0.03
6 19 0.12
7 69 0.42
8 55 0.33
9 5 0.03
10 10 0.06
ACGTcount: A:0.56, C:0.02, G:0.08, T:0.34
Consensus pattern (7 bp):
TATAAAG
Found at i:44025 original size:31 final size:32
Alignment explanation
Indices: 43981--44050 Score: 97
Period size: 31 Copynumber: 2.2 Consensus size: 32
43971 TACTAAACTT
43981 TATATATATATATATATAAGTATATAATATAAAG
1 TATATATATATATATA-AAGT-TATAATATAAAG
* *
44015 TATATA-ATATATATAAAGTTTTACTATAAAG
1 TATATATATATATATAAAGTTATAATATAAAG
44046 TATAT
1 TATAT
44051 TTACTTATAG
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
31 15 0.44
32 4 0.12
33 9 0.26
34 6 0.18
ACGTcount: A:0.50, C:0.01, G:0.06, T:0.43
Consensus pattern (32 bp):
TATATATATATATATAAAGTTATAATATAAAG
Found at i:44185 original size:51 final size:48
Alignment explanation
Indices: 44090--44299 Score: 160
Period size: 49 Copynumber: 4.6 Consensus size: 48
44080 TATACTTATT
* *
44090 TTATAGTTTTATATACATATATACACTTTATACTTTAAAGTATATATACC
1 TTATAG-TTTATATATATATATATACTTTATACTTTAAAGTATATATA-C
* *
44140 TTATAGTTTATATATATATATATACTTTATAGTTTAAACTTTATATATAC
1 TTATAGTTTATATATATATATATACTTTATACTTTAAA--GTATATATAC
* * * *
44190 TTATACTTT-TTTATATATGTATA-TTTA-A--AT-AAGTATATATA-
1 TTATAGTTTATATATATATATATACTTTATACTTTAAAGTATATATAC
* * * *
44231 -TATA-TATATATATATATATATA-TATATA-TATATA-TATATATA-
1 TTATAGTTTATATATATATATATACTTTATACTTTAAAGTATATATAC
*
44273 TATATA-TATATATATATATATATACTT
1 T-TATAGTTTATATATATATATATACTT
44300 ATAATGTATT
Statistics
Matches: 136, Mismatches: 15, Indels: 23
0.78 0.09 0.13
Matches are distributed among these distances:
39 2 0.01
40 19 0.14
41 1 0.01
42 18 0.13
43 1 0.01
44 24 0.18
45 2 0.01
47 1 0.01
48 4 0.03
49 41 0.30
50 15 0.11
51 8 0.06
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.50
Consensus pattern (48 bp):
TTATAGTTTATATATATATATATACTTTATACTTTAAAGTATATATAC
Found at i:49174 original size:24 final size:24
Alignment explanation
Indices: 49143--49259 Score: 128
Period size: 24 Copynumber: 4.8 Consensus size: 24
49133 TTCGATTTGA
*
49143 ATTCTGATCTGATACTTGACATGG
1 ATTCTGATATGATACTTGACATGG
* *
49167 ATTATGATATGATA-TCTGACATAG
1 ATTCTGATATGATACT-TGACATGG
*
49191 ATTCTGATATGATACTTGACTTGG
1 ATTCTGATATGATACTTGACATGG
* * *
49215 ATTCTGATCTGATACTTGACCTTTG
1 ATTCTGATATGATACTTGA-CATGG
* *
49240 ATTTTAATATGATACTTGAC
1 ATTCTGATATGATACTTGAC
49260 CTGATTTATG
Statistics
Matches: 79, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
23 1 0.01
24 57 0.72
25 21 0.27
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (24 bp):
ATTCTGATATGATACTTGACATGG
Found at i:50773 original size:7 final size:7
Alignment explanation
Indices: 50753--50795 Score: 54
Period size: 7 Copynumber: 6.3 Consensus size: 7
50743 GCCTTTGGGT
50753 TATATAA
1 TATATAA
50760 -ATAATAA
1 TAT-ATAA
50767 TATATAA
1 TATATAA
50774 TATATAA
1 TATATAA
*
50781 TA-ATTA
1 TATATAA
50787 TATATAA
1 TATATAA
50794 TA
1 TA
50796 ATGTACATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
6 7 0.23
7 22 0.71
8 2 0.06
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
TATATAA
Found at i:50784 original size:20 final size:21
Alignment explanation
Indices: 50753--50795 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 21
50743 GCCTTTGGGT
50753 TATATAAATAATAATATATAA
1 TATATAAATAATAATATATAA
*
50774 TATAT-AATAATTATATATAA
1 TATATAAATAATAATATATAA
50794 TA
1 TA
50796 ATGTACATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
TATATAAATAATAATATATAA
Found at i:50789 original size:13 final size:13
Alignment explanation
Indices: 50759--50797 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
50749 GGGTTATATA
50759 AATA-ATAATATAT
1 AATATATAATA-AT
50772 AATATATAATAAT
1 AATATATAATAAT
*
50785 TATATATAATAAT
1 AATATATAATAAT
50798 GTACATAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 18 0.75
14 6 0.25
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
AATATATAATAAT
Found at i:51337 original size:83 final size:83
Alignment explanation
Indices: 51235--51730 Score: 762
Period size: 83 Copynumber: 6.0 Consensus size: 83
51225 GTGGAGTCTG
* * * * *
51235 ATACTTTGTTGAAAAATCCGTTCCACTACTCTTTCGTGGAGTTCGAACTTTATTTTGCTTCACTA
1 ATACTTTGCTGAAAAATCCGTTCCACTACTCTTCCGTGGAGTTCAAATTTTACTTTGCTTCACTA
**
51300 CTCTTTAGTGAAGATTTC
66 CTCTTCCGTGAAGATTTC
* * *
51318 ATACTTTGTTGAAAAATCCGTTCCACTACTCTTCCGTGGAGTTCGAATTTTACTATGCTTCACTA
1 ATACTTTGCTGAAAAATCCGTTCCACTACTCTTCCGTGGAGTTCAAATTTTACTTTGCTTCACTA
51383 CTCTTCCGTGAAGATTTC
66 CTCTTCCGTGAAGATTTC
* * * * * * *
51401 ATATTTTACTGAAAAATCCTTTCCACTACTCTTCCGTAGACTTCGAATTTTACTTTGCTTCATTA
1 ATACTTTGCTGAAAAATCCGTTCCACTACTCTTCCGTGGAGTTCAAATTTTACTTTGCTTCACTA
51466 CTCTTCCGTGAAGATTTC
66 CTCTTCCGTGAAGATTTC
* * *
51484 ATATTTTGCTGAAAAATCCATTCCACTACTCTTCCGTGGAGTTTAAATTTTACTTTGCTTCACTA
1 ATACTTTGCTGAAAAATCCGTTCCACTACTCTTCCGTGGAGTTCAAATTTTACTTTGCTTCACTA
*
51549 CTCTTCCGTGAATATTTC
66 CTCTTCCGTGAAGATTTC
* *
51567 ATACTTTGCTAAAAAATCCGTTCCACTACTCTTCCATGGAGTTCAAATTTTACTTTGCTTCACTA
1 ATACTTTGCTGAAAAATCCGTTCCACTACTCTTCCGTGGAGTTCAAATTTTACTTTGCTTCACTA
51632 CTCTTCCGTGAAGATTTC
66 CTCTTCCGTGAAGATTTC
51650 ATACTTTGCTGAAAATAT--GTTCCACTACTCTTCCGTGGAGTTCAAATTTTACTTTGCTTCACT
1 ATACTTTGCTGAAAA-ATCCGTTCCACTACTCTTCCGTGGAGTTCAAATTTTACTTTGCTTCACT
51713 ACTCTTCCGTGAAGATTT
65 ACTCTTCCGTGAAGATTT
51731 ATCTGGCTTG
Statistics
Matches: 382, Mismatches: 30, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
82 62 0.16
83 318 0.83
84 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.12, T:0.41
Consensus pattern (83 bp):
ATACTTTGCTGAAAAATCCGTTCCACTACTCTTCCGTGGAGTTCAAATTTTACTTTGCTTCACTA
CTCTTCCGTGAAGATTTC
Found at i:61115 original size:21 final size:21
Alignment explanation
Indices: 61085--61131 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
61075 GGATCTGAAC
* *
61085 CGGGCCTGTGTGCTTTGTAAT
1 CGGGCATGTGTGCCTTGTAAT
*
61106 TGGGCATGTGTGCCTTGTAAT
1 CGGGCATGTGTGCCTTGTAAT
61127 CGGGC
1 CGGGC
61132 TCCTGAGTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.11, C:0.19, G:0.36, T:0.34
Consensus pattern (21 bp):
CGGGCATGTGTGCCTTGTAAT
Found at i:61211 original size:20 final size:21
Alignment explanation
Indices: 61181--61220 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
61171 CCTTCGGGTT
61181 ATATAAATAATAATATATAAC
1 ATATAAATAATAATATATAAC
*
61202 ATAT-AATAATTATATATAA
1 ATATAAATAATAATATATAA
61221 TAATGTGCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (21 bp):
ATATAAATAATAATATATAAC
Found at i:61390 original size:24 final size:24
Alignment explanation
Indices: 61346--61391 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
61336 GAGTCAATTT
**
61346 TTTTATATTAATGTCGGTTTCACA
1 TTTTATATTAATGTCAATTTCACA
61370 TTTTATAATTAAT-TCAATTTCA
1 TTTTAT-ATTAATGTCAATTTCA
61392 TCCCTCATCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 13 0.68
25 6 0.32
ACGTcount: A:0.30, C:0.11, G:0.07, T:0.52
Consensus pattern (24 bp):
TTTTATATTAATGTCAATTTCACA
Found at i:61490 original size:7 final size:7
Alignment explanation
Indices: 61478--61503 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
61468 TATATATATA
61478 TATAAAC
1 TATAAAC
61485 TATAAAC
1 TATAAAC
61492 TATAAAC
1 TATAAAC
61499 TATAA
1 TATAA
61504 TTATATATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.12, G:0.00, T:0.31
Consensus pattern (7 bp):
TATAAAC
Found at i:61942 original size:24 final size:24
Alignment explanation
Indices: 61902--61947 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
61892 TTTAGTCCAT
*
61902 TTTTATATTAATATCAACTTCACA
1 TTTTATATGAATATCAACTTCACA
*
61926 TTTTATAATGAAT-TCAATTTCA
1 TTTTAT-ATGAATATCAACTTCA
61948 TCCCTCATCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 14 0.74
25 5 0.26
ACGTcount: A:0.37, C:0.13, G:0.02, T:0.48
Consensus pattern (24 bp):
TTTTATATGAATATCAACTTCACA
Found at i:62066 original size:22 final size:23
Alignment explanation
Indices: 62038--62250 Score: 140
Period size: 22 Copynumber: 9.7 Consensus size: 23
62028 CACATATATA
62038 TAAAGTATATAATATA-AAGTAT
1 TAAAGTATATAATATATAAGTAT
*
62060 TAAAGTATATAATATA-AAGTAA
1 TAAAGTATATAATATATAAGTAT
* * ***
62082 TAAAATGT-TTGGATATAAGTAT
1 TAAAGTATATAATATATAAGTAT
62104 TAAAGTATATAA-ATATAAGTAT
1 TAAAGTATATAATATATAAGTAT
*
62126 TAAA-TATA-AAGTATATAAATA-
1 TAAAGTATATAA-TATATAAGTAT
62147 TATAAGTACTA-AAGTATATAA-TA-
1 TA-AAGTA-TATAA-TATATAAGTAT
*
62170 TAAAGTAT-TAAACTTTATAA-TA-
1 TAAAGTATAT-AA-TATATAAGTAT
62192 T-AAGTAT-TAA-ATATAAAGTAT
1 TAAAGTATATAATATAT-AAGTAT
*
62213 TAAAATATATAA-ATATAAGTAT
1 TAAAGTATATAATATATAAGTAT
62235 TAAA-TATA-AAGTATAT
1 TAAAGTATATAA-TATAT
62251 TAATTATCAT
Statistics
Matches: 159, Mismatches: 16, Indels: 32
0.77 0.08 0.15
Matches are distributed among these distances:
18 3 0.02
19 2 0.01
20 8 0.05
21 23 0.14
22 97 0.61
23 14 0.09
24 12 0.08
ACGTcount: A:0.54, C:0.01, G:0.08, T:0.37
Consensus pattern (23 bp):
TAAAGTATATAATATATAAGTAT
Found at i:62076 original size:36 final size:36
Alignment explanation
Indices: 62031--62248 Score: 216
Period size: 36 Copynumber: 5.8 Consensus size: 36
62021 TTACACACAC
62031 ATAT-ATATAAAGTA-TATAATATAAAGTATTAAAGT
1 ATATAATATAAAGTATTA-AATATAAAGTATTAAAGT
*
62066 ATATAATATAAAGTAATAAAATGTTTGGATATAAGTATTAAAGT
1 ATATAATATAAAGT-ATTAAA----T--ATA-AAGTATTAAAGT
62110 ATATAA-ATATAAGTATTAAATATAAAGTATATAAA-T
1 ATATAATATA-AAGTATTAAATATAAAGTAT-TAAAGT
*
62146 ATATAAGTACTAAAGTA-TATAATATAAAGTATTAAACT
1 ATATAA-TA-TAAAGTATTA-AATATAAAGTATTAAAGT
* *
62184 TTATAATAT-AAGTATTAAATATAAAGTATTAAAAT
1 ATATAATATAAAGTATTAAATATAAAGTATTAAAGT
62219 ATATAA-ATATAAGTATTAAATATAAAGTAT
1 ATATAATATA-AAGTATTAAATATAAAGTAT
62249 ATTAATTATC
Statistics
Matches: 158, Mismatches: 5, Indels: 39
0.78 0.02 0.19
Matches are distributed among these distances:
34 2 0.01
35 31 0.20
36 45 0.28
37 18 0.11
38 25 0.16
39 3 0.02
41 1 0.01
43 11 0.07
44 22 0.14
ACGTcount: A:0.54, C:0.01, G:0.08, T:0.37
Consensus pattern (36 bp):
ATATAATATAAAGTATTAAATATAAAGTATTAAAGT
Found at i:62084 original size:8 final size:7
Alignment explanation
Indices: 62036--62249 Score: 92
Period size: 8 Copynumber: 29.6 Consensus size: 7
62026 CACACATATA
62036 TATAAAG
1 TATAAAG
62043 TATATAA-
1 TATA-AAG
62050 TATAAAG
1 TATAAAG
62057 TATTAAAG
1 TA-TAAAG
62065 TATATAA-
1 TATA-AAG
62072 TATAAAG
1 TATAAAG
62079 TAATAAAATG
1 T-AT-AAA-G
* **
62089 TTTGGA-
1 TATAAAG
62095 TAT-AAG
1 TATAAAG
62101 TATTAAAG
1 TA-TAAAG
*
62109 TATATAAA
1 TATA-AAG
62117 TAT-AAG
1 TATAAAG
62123 TATTAAA-
1 TA-TAAAG
62130 TATAAAG
1 TATAAAG
*
62137 TATATAAA
1 TATA-AAG
62145 TATATAAG
1 TATA-AAG
62153 TACTAAAG
1 TA-TAAAG
62161 TATATAA-
1 TATA-AAG
62168 TATAAAG
1 TATAAAG
*
62175 TATTAAAC
1 TA-TAAAG
*
62183 TTTATAA-
1 TATA-AAG
62190 TAT-AAG
1 TATAAAG
62196 TATTAAA-
1 TA-TAAAG
62203 TATAAAG
1 TATAAAG
*
62210 TATTAAAA
1 TA-TAAAG
*
62218 TATATAAA
1 TATA-AAG
62226 TAT-AAG
1 TATAAAG
62232 TATTAAA-
1 TA-TAAAG
62239 TATAAAG
1 TATAAAG
62246 TATA
1 TATA
62250 TTAATTATCA
Statistics
Matches: 163, Mismatches: 14, Indels: 60
0.69 0.06 0.25
Matches are distributed among these distances:
5 3 0.02
6 32 0.20
7 53 0.33
8 67 0.41
9 6 0.04
10 2 0.01
ACGTcount: A:0.54, C:0.01, G:0.08, T:0.36
Consensus pattern (7 bp):
TATAAAG
Found at i:62195 original size:73 final size:73
Alignment explanation
Indices: 62034--62248 Score: 223
Period size: 73 Copynumber: 2.9 Consensus size: 73
62024 CACACACATA
* **
62034 TATATAAAGTATATAATA-TAAAGTATTAAAGTATAT-AATATA-AAGTAATAAAATGT-TTGGA
1 TATATAAA-TATA-AGTATTAAA-TA-TAAAGTATATAAATATATAAGT-AT-AAA-GTATTAAA
*
62095 TAT-AAGTATTAAAG
59 TATAAAGTATTAAAC
62109 TATATAAATATAAGTATTAAATATAAAGTATATAAATATATAAGTACTAAAGTA-TATAATATAA
1 TATATAAATATAAGTATTAAATATAAAGTATATAAATATATAAGTA-TAAAGTATTA-AATATAA
62173 AGTATTAAAC
64 AGTATTAAAC
* *
62183 TTTAT-AATATAAGTATTAAATATAAAGTAT-TAAAATATATAAATAT-AAGTATTAAATATAAA
1 TATATAAATATAAGTATTAAATATAAAGTATAT-AAATATATAAGTATAAAGTATTAAATATAAA
62245 GTAT
65 GTAT
62249 ATTAATTATC
Statistics
Matches: 125, Mismatches: 6, Indels: 22
0.82 0.04 0.14
Matches are distributed among these distances:
71 17 0.14
72 17 0.14
73 56 0.45
74 27 0.22
75 8 0.06
ACGTcount: A:0.54, C:0.01, G:0.08, T:0.37
Consensus pattern (73 bp):
TATATAAATATAAGTATTAAATATAAAGTATATAAATATATAAGTATAAAGTATTAAATATAAAG
TATTAAAC
Found at i:62222 original size:57 final size:60
Alignment explanation
Indices: 62128--62238 Score: 167
Period size: 57 Copynumber: 1.9 Consensus size: 60
62118 ATAAGTATTA
*
62128 AATATAAAGTATATAAATATATAAGTACTAAAGTATAT-AATATAAAGTATTAAACTTTAT
1 AATATAAAGTATATAAATATATAAGTACTAAAATATATAAATAT-AAGTATTAAACTTTAT
*
62188 AATAT-AAGTAT-TAAATATA-AAGTATTAAAATATATAAATATAAGTATTAAA
1 AATATAAAGTATATAAATATATAAGTACTAAAATATATAAATATAAGTATTAAA
62239 TATAAAGTAT
Statistics
Matches: 48, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
57 24 0.50
58 13 0.27
59 6 0.12
60 5 0.10
ACGTcount: A:0.56, C:0.02, G:0.06, T:0.36
Consensus pattern (60 bp):
AATATAAAGTATATAAATATATAAGTACTAAAATATATAAATATAAGTATTAAACTTTAT
Found at i:62272 original size:21 final size:20
Alignment explanation
Indices: 62246--62308 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 20
62236 AAATATAAAG
62246 TATATTAATTATCATAATTAA
1 TATATTAATTAT-ATAATTAA
*
62267 TATATTAATTATAT--TTAT
1 TATATTAATTATATAATTAA
62285 TA-ATTTAATTATTATAATTAA
1 TATA-TTAATTA-TATAATTAA
62306 TAT
1 TAT
62309 TTTTGGTTTC
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
17 1 0.03
18 12 0.34
19 3 0.09
20 2 0.06
21 17 0.49
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (20 bp):
TATATTAATTATATAATTAA
Found at i:64226 original size:2 final size:2
Alignment explanation
Indices: 64219--64280 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
64209 TGATCTCCTC
64219 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
64261 AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
64281 CTATGGAGAG
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:65561 original size:2 final size:2
Alignment explanation
Indices: 65554--65591 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
65544 ACATAACAGA
65554 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
65592 GGATCCTAAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:70252 original size:31 final size:31
Alignment explanation
Indices: 70177--70259 Score: 103
Period size: 31 Copynumber: 2.7 Consensus size: 31
70167 AAGTTCCCGG
* * * *
70177 GGCCACGGGGCCTACCCAAGAAAAATATTAG
1 GGCCACAGAGCCTACCCAAGAAAAATATCAA
* *
70208 GGCCACAGGGCCTACCCAAGAAAAATCTCAA
1 GGCCACAGAGCCTACCCAAGAAAAATATCAA
*
70239 GGCCGCAGAGCCTACCCAAGA
1 GGCCACAGAGCCTACCCAAGA
70260 GCCACATTAG
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.35, C:0.31, G:0.24, T:0.10
Consensus pattern (31 bp):
GGCCACAGAGCCTACCCAAGAAAAATATCAA
Found at i:75434 original size:31 final size:31
Alignment explanation
Indices: 75399--75464 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
75389 GGCCACGGAT
* * *
75399 CCTACCTAAGAAAAATCTCAGGGCTGCAGGG
1 CCTACCCAAGAAAAATCTCAAGGCTGCAGAG
*
75430 CCTACCCAAGAAAAATCTTAAGGCTGCAGAG
1 CCTACCCAAGAAAAATCTCAAGGCTGCAGAG
75461 CCTA
1 CCTA
75465 TCGAAAAGAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.35, C:0.27, G:0.21, T:0.17
Consensus pattern (31 bp):
CCTACCCAAGAAAAATCTCAAGGCTGCAGAG
Found at i:77953 original size:31 final size:31
Alignment explanation
Indices: 77915--77994 Score: 108
Period size: 31 Copynumber: 2.6 Consensus size: 31
77905 GGAATCAACT
* * *
77915 TACCCAAGAAATTTC-CTGGGGCCACGGGGCC
1 TACCCAAGAAATATCTC-AGGGCCACAGGGCC
*
77946 TACCCAAGAAAAATCTCAGGGCCACAGGGCC
1 TACCCAAGAAATATCTCAGGGCCACAGGGCC
77977 TACCCAAGAAATATCTCA
1 TACCCAAGAAATATCTCA
77995 AAGCTTCAGA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
31 42 0.98
32 1 0.02
ACGTcount: A:0.33, C:0.31, G:0.21, T:0.15
Consensus pattern (31 bp):
TACCCAAGAAATATCTCAGGGCCACAGGGCC
Found at i:78009 original size:31 final size:31
Alignment explanation
Indices: 77943--78016 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 31
77933 GGGCCACGGG
** *
77943 GCCTACCCAAGAAAAATCTCAGGGCCACAGG
1 GCCTACCCAAGAAAAATCTCAAAGCCACAGA
* **
77974 GCCTACCCAAGAAATATCTCAAAGCTTCAGA
1 GCCTACCCAAGAAAAATCTCAAAGCCACAGA
*
78005 GCCTACCGAAGA
1 GCCTACCCAAGA
78017 GTCACATTAG
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.36, C:0.31, G:0.19, T:0.14
Consensus pattern (31 bp):
GCCTACCCAAGAAAAATCTCAAAGCCACAGA
Found at i:84595 original size:20 final size:20
Alignment explanation
Indices: 84570--84611 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
84560 ATACAAAACA
84570 AAAGTACAAGTTCCCAACCC
1 AAAGTACAAGTTCCCAACCC
84590 AAAGTACAAGTTCCCAACCC
1 AAAGTACAAGTTCCCAACCC
84610 AA
1 AA
84612 GGCTGAATCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.43, C:0.33, G:0.10, T:0.14
Consensus pattern (20 bp):
AAAGTACAAGTTCCCAACCC
Found at i:85743 original size:14 final size:14
Alignment explanation
Indices: 85724--85780 Score: 57
Period size: 14 Copynumber: 4.3 Consensus size: 14
85714 TTTTTATATT
85724 TTATATTAATATAA
1 TTATATTAATATAA
*
85738 TTATATTAATATTA
1 TTATATTAATATAA
* * *
85752 TTTTTTTAAAATAA
1 TTATATTAATATAA
85766 -TAT-TT-ATATAA
1 TTATATTAATATAA
85777 TTAT
1 TTAT
85781 TATTTATTTA
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
11 5 0.14
12 5 0.14
13 2 0.06
14 23 0.66
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
TTATATTAATATAA
Found at i:87627 original size:21 final size:21
Alignment explanation
Indices: 87561--87621 Score: 104
Period size: 21 Copynumber: 2.9 Consensus size: 21
87551 ATCTCCTCAG
*
87561 GGTTACATTCCTAGCCTGCCA
1 GGTTACATTCCTAGCCCGCCA
87582 GGTTACATTCCTAGCCCGCCA
1 GGTTACATTCCTAGCCCGCCA
*
87603 GGTTACATGCCTAGCCCGC
1 GGTTACATTCCTAGCCCGC
87622 AGGGTTTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.18, C:0.36, G:0.21, T:0.25
Consensus pattern (21 bp):
GGTTACATTCCTAGCCCGCCA
Found at i:88186 original size:34 final size:34
Alignment explanation
Indices: 88142--88216 Score: 141
Period size: 34 Copynumber: 2.2 Consensus size: 34
88132 TTAAATGTTT
*
88142 TTAAAATACAAATTATAGTATTCGAAATTTAACA
1 TTAAATTACAAATTATAGTATTCGAAATTTAACA
88176 TTAAATTACAAATTATAGTATTCGAAATTTAACA
1 TTAAATTACAAATTATAGTATTCGAAATTTAACA
88210 TTAAATT
1 TTAAATT
88217 CAACTTAATA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.48, C:0.08, G:0.05, T:0.39
Consensus pattern (34 bp):
TTAAATTACAAATTATAGTATTCGAAATTTAACA
Found at i:88271 original size:19 final size:19
Alignment explanation
Indices: 88235--88272 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
88225 TATTCCAATT
*
88235 GAAATTTAAAATTGTATTC
1 GAAATTTAAAATTATATTC
88254 GAAA-TTAAAAGTTATATTC
1 GAAATTTAAAA-TTATATTC
88273 CAATTATAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.45, C:0.05, G:0.11, T:0.39
Consensus pattern (19 bp):
GAAATTTAAAATTATATTC
Found at i:88356 original size:13 final size:13
Alignment explanation
Indices: 88338--88363 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
88328 TATCCTTAAC
88338 ATATACATTAAAA
1 ATATACATTAAAA
88351 ATATACATTAAAA
1 ATATACATTAAAA
88364 CCCACGTGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
ATATACATTAAAA
Found at i:88858 original size:16 final size:16
Alignment explanation
Indices: 88834--88874 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
88824 ACAAAATAAT
* *
88834 GGAAGGCGCCCCCCTG
1 GGAACGCGCCCCCCCG
88850 GGAACGCGCCCCCCCG
1 GGAACGCGCCCCCCCG
88866 GGAACGCGC
1 GGAACGCGC
88875 TTTCACTGCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.15, C:0.46, G:0.37, T:0.02
Consensus pattern (16 bp):
GGAACGCGCCCCCCCG
Found at i:90588 original size:22 final size:23
Alignment explanation
Indices: 90563--90637 Score: 63
Period size: 22 Copynumber: 3.4 Consensus size: 23
90553 TTTAAATGAT
90563 TAATTATAATTATTGAATAT-AA
1 TAATTATAATTATTGAATATAAA
* *
90585 TAATTA-ATATTATTTATTATAAA
1 TAATTATA-ATTATTGAATATAAA
*
90608 TAATT-T-ATTATT-AATTTTAAA
1 TAATTATAATTATTGAA-TATAAA
90629 T-ATTATAAT
1 TAATTATAAT
90638 AATTTCACCT
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
20 4 0.09
21 14 0.33
22 18 0.42
23 7 0.16
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (23 bp):
TAATTATAATTATTGAATATAAA
Found at i:90590 original size:26 final size:26
Alignment explanation
Indices: 90561--90641 Score: 75
Period size: 26 Copynumber: 3.3 Consensus size: 26
90551 ATTTTAAATG
90561 ATTAATTA-TAATTATTGAATATAATA
1 ATTAATTATTAATTATT-AATATAATA
*
90587 ATTAA-TATTATTTATT-ATA-AATA
1 ATTAATTATTAATTATTAATATAATA
* *
90610 ATTTATTATTAATT-TTAAATATTATA
1 ATTAATTATTAATTATT-AATATAATA
90636 A-TAATT
1 ATTAATT
90642 TCACCTTCTA
Statistics
Matches: 45, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
23 10 0.22
24 10 0.22
25 9 0.20
26 16 0.36
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (26 bp):
ATTAATTATTAATTATTAATATAATA
Found at i:90618 original size:21 final size:22
Alignment explanation
Indices: 90563--90635 Score: 73
Period size: 21 Copynumber: 3.4 Consensus size: 22
90553 TTTAAATGAT
90563 TAATTATAATTATTGAA-TAT-AA
1 TAATTAT-ATTATT-AATTATAAA
*
90585 TAATTAATATTATTTATTATAAA
1 TAATT-ATATTATTAATTATAAA
*
90608 TAATT-TATTATTAATTTTAAA
1 TAATTATATTATTAATTATAAA
90629 T-ATTATA
1 TAATTATA
90636 ATAATTTCAC
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
20 3 0.07
21 18 0.41
22 14 0.32
23 9 0.20
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (22 bp):
TAATTATATTATTAATTATAAA
Found at i:94212 original size:15 final size:15
Alignment explanation
Indices: 94194--94249 Score: 67
Period size: 15 Copynumber: 3.6 Consensus size: 15
94184 TAACCGGTTT
94194 CGGTTTTAAAAAAAC
1 CGGTTTTAAAAAAAC
*
94209 CGGTTTTTTTAAAAAAC
1 CGG--TTTTAAAAAAAC
*
94226 CGGTTATAAAAAAAC
1 CGGTTTTAAAAAAAC
*
94241 CGATTTTAA
1 CGGTTTTAA
94250 TATTCCAGAT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
15 20 0.59
17 14 0.41
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.32
Consensus pattern (15 bp):
CGGTTTTAAAAAAAC
Found at i:94222 original size:17 final size:17
Alignment explanation
Indices: 94197--94247 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
94187 CCGGTTTCGG
94197 TTTTAAAAAAACCGGTT
1 TTTTAAAAAAACCGGTT
*
94214 TTTTTAAAAAACCGG--
1 TTTTAAAAAAACCGGTT
* *
94229 TTATAAAAAAACCGATT
1 TTTTAAAAAAACCGGTT
94246 TT
1 TT
94248 AATATTCCAG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
15 12 0.43
17 16 0.57
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.35
Consensus pattern (17 bp):
TTTTAAAAAAACCGGTT
Found at i:94667 original size:13 final size:13
Alignment explanation
Indices: 94646--94700 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
94636 AAGTTCGATA
*
94646 AATTCAAATACTT
1 AATTGAAATACTT
94659 AATTGAAATACTT
1 AATTGAAATACTT
* *
94672 AATT-AACTCAACAT
1 AATTGAAAT--ACTT
94686 AATTGAAATACTT
1 AATTGAAATACTT
94699 AA
1 AA
94701 ATACTTCCAA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
12 3 0.09
13 21 0.62
14 7 0.21
15 3 0.09
ACGTcount: A:0.49, C:0.13, G:0.04, T:0.35
Consensus pattern (13 bp):
AATTGAAATACTT
Found at i:94782 original size:32 final size:33
Alignment explanation
Indices: 94686--94784 Score: 164
Period size: 33 Copynumber: 3.0 Consensus size: 33
94676 AACTCAACAT
* * *
94686 AATTGAAATACTTAAATACTTCCAAGTTTGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
94719 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
94752 AATTCAAATACTTAAAAACTT-CAAGTTCGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
94784 A
1 A
94785 TTGAAACAAA
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 12 0.19
33 51 0.81
ACGTcount: A:0.45, C:0.15, G:0.07, T:0.32
Consensus pattern (33 bp):
AATTCAAATACTTAAAAACTTCCAAGTTCGATA
Found at i:94803 original size:21 final size:21
Alignment explanation
Indices: 94779--94818 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
94769 ACTTCAAGTT
94779 CGATAATTGAAACAAAGTTTA
1 CGATAATTGAAACAAAGTTTA
*
94800 CGATAATTGAAATAAAGTT
1 CGATAATTGAAACAAAGTT
94819 AAAAAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.47, C:0.07, G:0.15, T:0.30
Consensus pattern (21 bp):
CGATAATTGAAACAAAGTTTA
Found at i:101616 original size:12 final size:12
Alignment explanation
Indices: 101599--101623 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
101589 GCAGAAAATT
101599 AGTCGAGGTAAC
1 AGTCGAGGTAAC
101611 AGTCGAGGTAAC
1 AGTCGAGGTAAC
101623 A
1 A
101624 ATGCCAGAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.16, G:0.32, T:0.16
Consensus pattern (12 bp):
AGTCGAGGTAAC
Found at i:106318 original size:22 final size:22
Alignment explanation
Indices: 106293--106344 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
106283 TTTATTTGAC
106293 AATATTT-TTTCTCTTTTAATTT
1 AATATTTATTTCTCTTTT-ATTT
* * *
106315 AATATTTATTTTTGTTTTCTTT
1 AATATTTATTTCTCTTTTATTT
106337 AATATTTA
1 AATATTTA
106345 ACTCTTTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 18 0.69
23 8 0.31
ACGTcount: A:0.25, C:0.06, G:0.02, T:0.67
Consensus pattern (22 bp):
AATATTTATTTCTCTTTTATTT
Done.