Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167972.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_230, 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: 46222
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.35
Found at i:239 original size:27 final size:28
Alignment explanation
Indices: 200--267 Score: 66
Period size: 28 Copynumber: 2.4 Consensus size: 28
190 AAAGATCAAA
* *
200 TTCTTTCTTTTTTCCTCATTT-TTTCCT
1 TTCTCTCTCTTTTCCTCATTTCTTTCCT
* * *
227 TTCTCTCTCTTTTTGCTCTTTTCTTTTCT
1 TTCTCTCTC-TTTTCCTCATTTCTTTCCT
*
256 CTCTCTCTCTTT
1 TTCTCTCTCTTT
268 ATAGAACTTA
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
27 7 0.21
28 13 0.39
29 13 0.39
ACGTcount: A:0.01, C:0.29, G:0.01, T:0.68
Consensus pattern (28 bp):
TTCTCTCTCTTTTCCTCATTTCTTTCCT
Found at i:1020 original size:42 final size:43
Alignment explanation
Indices: 911--1259 Score: 205
Period size: 43 Copynumber: 8.1 Consensus size: 43
901 TTTCATAACT
* * * * *
911 TTTGAGAAAT-AATATA-GCTTCTCTAAGCAAAGGTTCAACCAC
1 TTTGAAAAATAAATA-AGGCTTCTCTAAACAGAGGCTCAACAAC
* * * * *
953 TTTTG-AATATAAATAAGACTCCTCTAAATAGAGGCTCAATAAC
1 -TTTGAAAAATAAATAAGGCTTCTCTAAACAGAGGCTCAACAAC
* * *
996 TTT-AAAAAAAAATAAGGCTTCTCTAAACAAAGGCTAAACAAC
1 TTTGAAAAATAAATAAGGCTTCTCTAAACAGAGGCTCAACAAC
* * * *
1038 TTTGAAAAGTAAATATGGC-TCATTTAAACAGAGGCTC-ACGA-
1 TTTGAAAAATAAATAAGGCTTC-TCTAAACAGAGGCTCAACAAC
* * * **
1079 TTGTGAAAAATAAATAGAGCCCT-TCTAAACATAGGCTCAATGAC
1 TT-TGAAAAATAAATA-AGGCTTCTCTAAACAGAGGCTCAACAAC
* * * * *
1123 TTTTGAAAAGA-AAATAAGACTCCTCTAAATAGAAGTTCAACAAC
1 -TTTGAAAA-ATAAATAAGGCTTCTCTAAACAGAGGCTCAACAAC
* * * * **
1167 TTTGAAAAGTAAATAAGGCTTCTCTCAATAGAGGCTTAATGAC
1 TTTGAAAAATAAATAAGGCTTCTCTAAACAGAGGCTCAACAAC
* * * **
1210 TTTTGAAAAATAAATAAAGC-GCATCTAAACAAAGGCTCAATGAC
1 -TTTGAAAAATAAATAAGGCTTC-TCTAAACAGAGGCTCAACAAC
1254 TTTGAA
1 TTTGAA
1260 TTGTAAATAA
Statistics
Matches: 234, Mismatches: 56, Indels: 32
0.73 0.17 0.10
Matches are distributed among these distances:
41 2 0.01
42 70 0.30
43 98 0.42
44 61 0.26
45 3 0.01
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.27
Consensus pattern (43 bp):
TTTGAAAAATAAATAAGGCTTCTCTAAACAGAGGCTCAACAAC
Found at i:1040 original size:85 final size:87
Alignment explanation
Indices: 911--1226 Score: 279
Period size: 85 Copynumber: 3.7 Consensus size: 87
901 TTTCATAACT
* * * * *
911 TTTGAGAAAT-AATATA-GCTTCTCTAAGCAAAGGTTCAACCACTTTTGAATA-TAAATAAGACT
1 TTTGAAAAATAAATA-AGGCTTCTCTAAACAAAGGCTCAACAACTTTTGAAAAGTAAATAAGACT
*
973 CCTCTAAATAGAGGCTCAATAAC
65 CCTCTAAATAGAGGCTCAACAAC
* * * *
996 TTT-AAAAAAAAATAAGGCTTCTCTAAACAAAGGCTAAACAAC-TTTGAAAAGTAAATATGGCTC
1 TTTGAAAAATAAATAAGGCTTCTCTAAACAAAGGCTCAACAACTTTTGAAAAGTAAATAAGACTC
* * * *
1059 ATTTAAACAGAGGCTC-ACGA-
66 CTCTAAATAGAGGCTCAACAAC
* * * ** *
1079 TTGTGAAAAATAAATAGAGCCCT-TCTAAACATAGGCTCAATGACTTTTGAAAAGAAAATAAGAC
1 TT-TGAAAAATAAATA-AGGCTTCTCTAAACAAAGGCTCAACAACTTTTGAAAAGTAAATAAGAC
* *
1143 TCCTCTAAATAGAAGTTCAACAAC
64 TCCTCTAAATAGAGGCTCAACAAC
* * * * * ** *
1167 TTTGAAAAGTAAATAAGGCTTCTCTCAATAGAGGCTTAATGACTTTTGAAAAATAAATAA
1 TTTGAAAAATAAATAAGGCTTCTCTAAACAAAGGCTCAACAACTTTTGAAAAGTAAATAA
1227 AGCGCATCTA
Statistics
Matches: 182, Mismatches: 39, Indels: 18
0.76 0.16 0.08
Matches are distributed among these distances:
83 2 0.01
84 15 0.08
85 79 0.43
86 37 0.20
87 47 0.26
88 2 0.01
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.27
Consensus pattern (87 bp):
TTTGAAAAATAAATAAGGCTTCTCTAAACAAAGGCTCAACAACTTTTGAAAAGTAAATAAGACTC
CTCTAAATAGAGGCTCAACAAC
Found at i:1150 original size:44 final size:44
Alignment explanation
Indices: 963--1256 Score: 187
Period size: 44 Copynumber: 6.8 Consensus size: 44
953 TTTTGAATAT
* * *
963 AAATAAGACTCCTCTAAATAGAGGCTCAATAAC-TTT-AAAAAA
1 AAATAAGACTCCTCTAAACAGAGGCTCAATGACTTTTGAAAAGA
* * * * ** *
1005 AAATAAGGCTTCTCTAAACAAAGGCTAAACAAC-TTTGAAAAGT
1 AAATAAGACTCCTCTAAACAGAGGCTCAATGACTTTTGAAAAGA
* * * * * *
1048 AAATATGGCTCATTTAAACAGAGGCTC-ACGA-TTGTGAAAA-A
1 AAATAAGACTCCTCTAAACAGAGGCTCAATGACTTTTGAAAAGA
*
1089 TAAAT-AGAGC-CCTTCTAAACATAGGCTCAATGACTTTTGAAAAGA
1 -AAATAAGA-CTCC-TCTAAACAGAGGCTCAATGACTTTTGAAAAGA
* * * ** *
1134 AAATAAGACTCCTCTAAATAGAAGTTCAACAAC-TTTGAAAAGT
1 AAATAAGACTCCTCTAAACAGAGGCTCAATGACTTTTGAAAAGA
* * * * *
1177 AAATAAGGCTTCTCTCAATAGAGGCTTAATGACTTTTGAAAA-A
1 AAATAAGACTCCTCTAAACAGAGGCTCAATGACTTTTGAAAAGA
* * *
1220 TAAATAA-AGCGCATCTAAACAAAGGCTCAATGACTTT
1 -AAATAAGA-CTCCTCTAAACAGAGGCTCAATGACTTT
1257 GAATTGTAAA
Statistics
Matches: 191, Mismatches: 48, Indels: 24
0.73 0.18 0.09
Matches are distributed among these distances:
41 2 0.01
42 58 0.30
43 62 0.32
44 63 0.33
45 6 0.03
ACGTcount: A:0.44, C:0.16, G:0.14, T:0.26
Consensus pattern (44 bp):
AAATAAGACTCCTCTAAACAGAGGCTCAATGACTTTTGAAAAGA
Found at i:1541 original size:33 final size:33
Alignment explanation
Indices: 1504--1567 Score: 103
Period size: 33 Copynumber: 1.9 Consensus size: 33
1494 TTCATGCATA
1504 AAACATTCT-CAAATGCAATGCATGCTATGCACT
1 AAACATT-TACAAATGCAATGCATGCTATGCACT
*
1537 AAACATTTAGAAATGCAATGCATGCTATGCA
1 AAACATTTACAAATGCAATGCATGCTATGCA
1568 AATGTCAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 1 0.03
33 28 0.97
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (33 bp):
AAACATTTACAAATGCAATGCATGCTATGCACT
Found at i:5932 original size:15 final size:16
Alignment explanation
Indices: 5912--5944 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
5902 AAGTCAAATC
*
5912 AAATT-AATTTAATTT
1 AAATTAAATTAAATTT
5927 AAATTAAATTAAATTT
1 AAATTAAATTAAATTT
5943 AA
1 AA
5945 TTGATTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
AAATTAAATTAAATTT
Found at i:12179 original size:58 final size:56
Alignment explanation
Indices: 12087--12422 Score: 415
Period size: 59 Copynumber: 5.8 Consensus size: 56
12077 TTTTTTTTTG
*
12087 CAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTCTTTTGAAACTTTAGTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATT-TTTTGAAAATTTA-TTT
* * * *
12145 CGAGGAAAATTGATACTTTTAACTTTTCCTCAAAAATTTATTTTTTAAAAATTTATTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAA--TATTTTTTGAAAATTTATTT
12203 CAAGGAAAATTGATACTTTCAAACTTTTCCCCAAAAATA-TTTTTGAAAACTTTTAATTT
1 CAAGGAAAATTGATACTTTC-AACTTTTCCCCAAAAATATTTTTTGAAAA--TTT-ATTT
* * *
12262 CGAGGAAAAATTGATACTTTTAACTTTTCCCTCAAAAACCTTTTTTTTGAAAATTTATTTT
1 CAAGG-AAAATTGATACTTTCAACTTTTCCC-CAAAAA--TATTTTTTGAAAATTTA-TTT
* *
12323 TAAGG-AAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAATTTATTT
* * *
12378 TAAGGAAAATTGGATACTTTCAACTTTTCCCTAAAAAAATTTTTT
1 CAAGGAAAATT-GATACTTTCAACTTTTCCCCAAAAATATTTTTT
12423 TGGAATTTTT
Statistics
Matches: 245, Mismatches: 19, Indels: 29
0.84 0.06 0.10
Matches are distributed among these distances:
55 8 0.03
56 29 0.12
57 33 0.13
58 63 0.26
59 67 0.27
60 25 0.10
61 9 0.04
62 1 0.00
63 10 0.04
ACGTcount: A:0.36, C:0.14, G:0.08, T:0.42
Consensus pattern (56 bp):
CAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAATTTATTT
Found at i:12471 original size:10 final size:9
Alignment explanation
Indices: 12459--12538 Score: 54
Period size: 10 Copynumber: 8.4 Consensus size: 9
12449 AAAATAGAAT
12459 AATAAAAAA
1 AATAAAAAA
12468 TAATAAAAATAA
1 -AAT-AAAA-AA
12480 AATAAATAAA
1 AATAAA-AAA
*
12490 GATAAAGAAA
1 AATAAA-AAA
*
12500 AGTAAAAAA
1 AATAAAAAA
*
12509 AATAAAAAT
1 AATAAAAAA
*
12518 AA-AATAAA
1 AATAAAAAA
* *
12526 GATAAAAAG
1 AATAAAAAA
12535 AATA
1 AATA
12539 TTAAATAAAC
Statistics
Matches: 54, Mismatches: 12, Indels: 9
0.72 0.16 0.12
Matches are distributed among these distances:
8 5 0.09
9 19 0.35
10 20 0.37
11 8 0.15
12 2 0.04
ACGTcount: A:0.78, C:0.00, G:0.06, T:0.16
Consensus pattern (9 bp):
AATAAAAAA
Found at i:12500 original size:25 final size:25
Alignment explanation
Indices: 12463--12547 Score: 75
Period size: 25 Copynumber: 3.4 Consensus size: 25
12453 TAGAATAATA
* *
12463 AAAAAT-AATAAAAATAAAATAAAT
1 AAAAATAAAGAAAAATAAAAAAAAT
* *
12487 AAAGATAAAGAAAAGTAAAAAAAAT
1 AAAAATAAAGAAAAATAAAAAAAAT
*
12512 AAAAATAAA-ATAAAGATAAAAAGAAT
1 AAAAATAAAGA-AAA-ATAAAAAAAAT
*
12538 ATTAAATAAA
1 A-AAAATAAA
12548 CCTAATAAAT
Statistics
Matches: 49, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
24 6 0.12
25 26 0.53
26 10 0.20
27 7 0.14
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (25 bp):
AAAAATAAAGAAAAATAAAAAAAAT
Found at i:13730 original size:18 final size:19
Alignment explanation
Indices: 13686--13731 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
13676 TAATAATAAT
13686 AATAAAATAATAAAATACAA
1 AATAAAA-AATAAAATACAA
*
13706 AAGAAAAAA-AAAATACAA
1 AATAAAAAATAAAATACAA
*
13724 GATAAAAA
1 AATAAAAA
13732 TTGAATTGGG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 15 0.65
19 2 0.09
20 6 0.26
ACGTcount: A:0.78, C:0.04, G:0.04, T:0.13
Consensus pattern (19 bp):
AATAAAAAATAAAATACAA
Found at i:13898 original size:10 final size:10
Alignment explanation
Indices: 13885--13930 Score: 58
Period size: 11 Copynumber: 4.5 Consensus size: 10
13875 AACATTGTCA
13885 TTTTTTGTTT
1 TTTTTTGTTT
13895 TTTTTTGTGTT
1 TTTTTTGT-TT
13906 TTTTTATGTTT
1 TTTTT-TGTTT
*
13917 TTTGTT-TTT
1 TTTTTTGTTT
13926 TTTTT
1 TTTTT
13931 CCAAAGCTCC
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
9 7 0.22
10 9 0.28
11 13 0.41
12 3 0.09
ACGTcount: A:0.02, C:0.00, G:0.11, T:0.87
Consensus pattern (10 bp):
TTTTTTGTTT
Found at i:14004 original size:43 final size:42
Alignment explanation
Indices: 13936--14026 Score: 128
Period size: 43 Copynumber: 2.1 Consensus size: 42
13926 TTTTTCCAAA
* *
13936 GCTCCTCTAAACAGAGGCTCAACGACTTTGAGAAACATAAATT
1 GCTCCTCTAAACAAAGGCACAACGACTTTGAGAAA-ATAAATT
* * *
13979 GCTCCTCTAAACAAAGGCACCACGACTTTGGGAAAGTAAATT
1 GCTCCTCTAAACAAAGGCACAACGACTTTGAGAAAATAAATT
14021 GCTCCT
1 GCTCCT
14027 TGACAATCAT
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 12 0.28
43 31 0.72
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (42 bp):
GCTCCTCTAAACAAAGGCACAACGACTTTGAGAAAATAAATT
Found at i:15253 original size:20 final size:18
Alignment explanation
Indices: 15233--15310 Score: 79
Period size: 21 Copynumber: 4.1 Consensus size: 18
15223 TTGAATCTTC
15233 TTTTTTCATTTTTTCATTT
1 TTTTTTC-TTTTTTCATTT
15252 CTTTCTTT-TTTTTTC-TTT
1 -TTT-TTTCTTTTTTCATTT
15270 TTTTTTCTTTTTCATCATCTT
1 TTTTTTCTTTTT--TCAT-TT
*
15291 TTTTTTCTTTTCTCATTT
1 TTTTTTCTTTTTTCATTT
15309 TT
1 TT
15311 CATCCATTTT
Statistics
Matches: 51, Mismatches: 1, Indels: 14
0.77 0.02 0.21
Matches are distributed among these distances:
16 3 0.06
17 8 0.16
18 7 0.14
19 13 0.25
20 4 0.08
21 16 0.31
ACGTcount: A:0.06, C:0.15, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTTTTCTTTTTTCATTT
Found at i:15265 original size:19 final size:18
Alignment explanation
Indices: 15230--15302 Score: 69
Period size: 19 Copynumber: 3.9 Consensus size: 18
15220 AATTTGAATC
15230 TTCTTTTTTCATTTTTTCAT
1 TTCTTTTTT--TTTTTTCAT
15250 TTCTTTCTTTTTTTTTC-T
1 TTCTTT-TTTTTTTTTCAT
*
15268 TT-TTTTTTCTTTTTCAT
1 TTCTTTTTTTTTTTTCAT
*
15285 CATCTTTTTTTTCTTTTC
1 -TTCTTTTTTTT-TTTTC
15303 TCATTTTTCA
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
16 9 0.20
17 4 0.09
18 4 0.09
19 14 0.31
20 11 0.24
21 3 0.07
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.78
Consensus pattern (18 bp):
TTCTTTTTTTTTTTTCAT
Found at i:15266 original size:14 final size:15
Alignment explanation
Indices: 15230--15279 Score: 61
Period size: 14 Copynumber: 3.4 Consensus size: 15
15220 AATTTGAATC
15230 TTCTTT-TTTCATTTT
1 TTCTTTCTTTC-TTTT
15245 TTCATTTCTTTCTTTT
1 TTC-TTTCTTTCTTTT
15261 TT-TTTCTTT-TTTT
1 TTCTTTCTTTCTTTT
15274 TTCTTT
1 TTCTTT
15280 TTCATCATCT
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
13 6 0.19
14 10 0.31
15 3 0.09
16 9 0.28
17 4 0.12
ACGTcount: A:0.04, C:0.14, G:0.00, T:0.82
Consensus pattern (15 bp):
TTCTTTCTTTCTTTT
Found at i:15268 original size:10 final size:10
Alignment explanation
Indices: 15253--15281 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
15243 TTTTCATTTC
15253 TTTCTTTTTT
1 TTTCTTTTTT
15263 TTTCTTTTTT
1 TTTCTTTTTT
15273 TTTCTTTTT
1 TTTCTTTTT
15282 CATCATCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (10 bp):
TTTCTTTTTT
Found at i:15273 original size:36 final size:38
Alignment explanation
Indices: 15228--15314 Score: 94
Period size: 36 Copynumber: 2.4 Consensus size: 38
15218 TCAATTTGAA
*
15228 TCTTCTTTTTTCAT-TTTTTCAT-TTCTTTCTTTTT-TTT
1 TCTT-TTTTTTCATCTTTTTCATCATCTTT-TTTTTCTTT
15265 TCTTTTTTTT--TCTTTTTCATCATCTTTTTTTTCTTT
1 TCTTTTTTTTCATCTTTTTCATCATCTTTTTTTTCTTT
**
15301 TCTCATTTTTCATC
1 TCTTTTTTTTCATC
15315 CATTTTTGAT
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
34 1 0.02
35 13 0.31
36 22 0.52
37 4 0.10
38 2 0.05
ACGTcount: A:0.07, C:0.18, G:0.00, T:0.75
Consensus pattern (38 bp):
TCTTTTTTTTCATCTTTTTCATCATCTTTTTTTTCTTT
Found at i:15276 original size:24 final size:26
Alignment explanation
Indices: 15228--15279 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
15218 TCAATTTGAA
15228 TCTTCTTTTTTCATTTTTTCATTTCTT
1 TCTTCTTTTTTCATTTTTT-ATTTCTT
*
15255 TCTTTTTTTTTC-TTTTTT-TTTCTT
1 TCTTCTTTTTTCATTTTTTATTTCTT
15279 T
1 T
15280 TTCATCATCT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 7 0.29
26 6 0.25
27 11 0.46
ACGTcount: A:0.04, C:0.15, G:0.00, T:0.81
Consensus pattern (26 bp):
TCTTCTTTTTTCATTTTTTATTTCTT
Found at i:15321 original size:29 final size:28
Alignment explanation
Indices: 15259--15321 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 28
15249 TTTCTTTCTT
* *
15259 TTTTTTTCTTTTTTTTTCTTTTTCATCA
1 TTTTTTTCTTCTTTTCTCTTTTTCATCA
15287 TCTTTTTT-TTCTTTTCTCATTTTTCATCCA
1 T-TTTTTTCTTCTTTTCTC-TTTTTCAT-CA
15317 TTTTT
1 TTTTT
15322 GATATCTTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
28 9 0.30
29 18 0.60
30 3 0.10
ACGTcount: A:0.08, C:0.17, G:0.00, T:0.75
Consensus pattern (28 bp):
TTTTTTTCTTCTTTTCTCTTTTTCATCA
Found at i:15657 original size:11 final size:10
Alignment explanation
Indices: 15629--15656 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
15619 ATGTGTGGCA
15629 TTTTTTTTCT
1 TTTTTTTTCT
15639 TTTTTTTTCT
1 TTTTTTTTCT
15649 TTTTTTTT
1 TTTTTTTT
15657 TGAGATCTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (10 bp):
TTTTTTTTCT
Found at i:19208 original size:31 final size:29
Alignment explanation
Indices: 19173--19268 Score: 72
Period size: 27 Copynumber: 3.2 Consensus size: 29
19163 ATTCTTTTGA
19173 AACTTTAGTTTCGAGGAAAATTGATACTTTC
1 AACTTTA-TTTC-AGGAAAATTGATACTTTC
* ** *
19204 AACTTT-TTCTCA--AAAATTTATTTTTTAA
1 AACTTTATT-TCAGGAAAATTGATACTTT-C
*
19232 AAATTTATTTTCAAGGAAAATTGATACTTTC
1 AACTTTA-TTTC-AGGAAAATTGATACTTTC
19263 AACTTT
1 AACTTT
19269 TCCCCAAAAA
Statistics
Matches: 48, Mismatches: 10, Indels: 14
0.67 0.14 0.19
Matches are distributed among these distances:
27 11 0.23
28 5 0.10
29 5 0.10
30 5 0.10
31 11 0.23
32 11 0.23
ACGTcount: A:0.35, C:0.11, G:0.08, T:0.45
Consensus pattern (29 bp):
AACTTTATTTCAGGAAAATTGATACTTTC
Found at i:19330 original size:60 final size:58
Alignment explanation
Indices: 19121--19466 Score: 451
Period size: 59 Copynumber: 5.8 Consensus size: 58
19111 GATTGTTTTT
* *
19121 TTTTGCAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTCTTTTGAAACTTTA
1 TTTT-CAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTTA
* * * * * *
19180 GTTTCGAGGAAAATTGATACTTTCAACTTTTTCTCAAAAATTTATTTTTTAAAAATTTA
1 TTTTCAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATAT-TTTTTTGAAAATTTA
19239 TTTTCAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAACTTTTA
1 TTTTCAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAA--TTTA
* * * * *
19299 ATTTCGAGGAAAATTGATACTTTCAATTTTTCCTCAAAAACCTTTTTTTTTGAAAATTTA
1 TTTTCAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAA--TATTTTTTTGAAAATTTA
* * *
19359 TTTTTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-GTTTTTGGAAATTTA
1 TTTTCAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTTA
* *
19416 TTTTTTTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTT
1 --TTTTCAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTT
19467 TGGAATTTTT
Statistics
Matches: 250, Mismatches: 29, Indels: 15
0.85 0.10 0.05
Matches are distributed among these distances:
57 13 0.05
58 46 0.18
59 94 0.38
60 84 0.34
62 13 0.05
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.45
Consensus pattern (58 bp):
TTTTCAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTTA
Found at i:19428 original size:119 final size:116
Alignment explanation
Indices: 19121--19467 Score: 461
Period size: 119 Copynumber: 2.9 Consensus size: 116
19111 GATTGTTTTT
* *
19121 TTTTGCAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTCTTTTGAAACTTTA-GTTTC
1 TTTT-CAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATT-TTTGGAAACTTTATATTTC
19185 GAGGAAAATTGATACTTTCAACTTTTT-CTCAAAAATTTATTTTTTAAAAATTTA
64 GAGGAAAATTGATACTTTCAA-TTTTTCCTCAAAAATTT-TTTTTTAAAAATTTA
*
19239 TTTTCAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAACTTT-TAATTT
1 TTTTCAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATA--TTTTTGGAAACTTTAT-ATTT
*
19303 CGAGGAAAATTGATACTTTCAATTTTTCCTCAAAAACCTTTTTTTTTGAAAATTTA
63 CGAGGAAAATTGATACTTTCAATTTTTCCTCAAAAA--TTTTTTTTTAAAAATTTA
* * *
19359 TTTTTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATAGTTTTTGGAAA-TTTATTTTTTT
1 TTTTCAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTGGAAACTTTA-TATTTC
* *
19423 AAGGAAAATTGATACTTTCAACTTTTCC-CTAAAAATATTTTTTTT
64 GAGGAAAATTGATACTTTCAATTTTTCCTC-AAAAAT-TTTTTTTT
19468 GGAATTTTTG
Statistics
Matches: 207, Mismatches: 11, Indels: 22
0.86 0.05 0.09
Matches are distributed among these distances:
117 39 0.19
118 31 0.15
119 78 0.38
120 56 0.27
121 3 0.01
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.45
Consensus pattern (116 bp):
TTTTCAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTGGAAACTTTATATTTCGA
GGAAAATTGATACTTTCAATTTTTCCTCAAAAATTTTTTTTTAAAAATTTA
Found at i:19517 original size:15 final size:16
Alignment explanation
Indices: 19487--19549 Score: 58
Period size: 15 Copynumber: 3.8 Consensus size: 16
19477 GATTTTTATT
19487 TAAAGAAAATAGAATAA
1 TAAAGAAAATA-AATAA
19504 TAAA-AAAATAAATAA
1 TAAAGAAAATAAATAA
* *
19519 -AAATAAAATAAAAAAGA
1 TAAAGAAAAT-AAATA-A
19536 TAAAGAAAAGTAAA
1 TAAAGAAAA-TAAA
19550 AAAAATAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
14 3 0.08
15 10 0.26
16 10 0.26
17 5 0.13
18 10 0.26
19 1 0.03
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (16 bp):
TAAAGAAAATAAATAA
Found at i:19524 original size:6 final size:6
Alignment explanation
Indices: 19492--19577 Score: 54
Period size: 6 Copynumber: 13.7 Consensus size: 6
19482 TTATTTAAAG
*
19492 AAAATA GAATAATA AAAA-A ATAAATA AAAATA AAATAAA AAAGATA AAGAA-A
1 AAAATA -AA-AATA AAAATA A-AAATA AAAATA AAA-ATA AAA-ATA AA-AATA
*
19544 AGTAAA-A AAAATA AAAAT- AAAATA AAGATA AAAA
1 A--AAATA AAAATA AAAATA AAAATA AAAATA AAAA
19578 GAATATTAAA
Statistics
Matches: 65, Mismatches: 5, Indels: 19
0.73 0.06 0.21
Matches are distributed among these distances:
5 10 0.15
6 29 0.45
7 20 0.31
8 6 0.09
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:19551 original size:19 final size:18
Alignment explanation
Indices: 19487--19558 Score: 57
Period size: 19 Copynumber: 4.2 Consensus size: 18
19477 GATTTTTATT
* *
19487 TAAAGAAAAT-AGAATAA
1 TAAAGAAAATAAAAAAAA
19504 TAAA-AAAATAAATAAAAA
1 TAAAGAAAATAAA-AAAAA
*
19522 T----AAAATAAAAAAGA
1 TAAAGAAAATAAAAAAAA
19536 TAAAGAAAAGTAAAAAAAA
1 TAAAGAAAA-TAAAAAAAA
19555 TAAA
1 TAAA
19559 AATAAAATAA
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
14 5 0.11
15 8 0.18
16 5 0.11
17 5 0.11
18 9 0.20
19 12 0.27
ACGTcount: A:0.78, C:0.00, G:0.07, T:0.15
Consensus pattern (18 bp):
TAAAGAAAATAAAAAAAA
Found at i:19574 original size:11 final size:9
Alignment explanation
Indices: 19507--19582 Score: 55
Period size: 9 Copynumber: 8.1 Consensus size: 9
19497 AGAATAATAA
19507 AAAAATAAAT
1 AAAAA-AAAT
19517 AAAAATAAAAT
1 -AAAA-AAAAT
*
19528 AAAAAAGAT
1 AAAAAAAAT
*
19537 AAAGAAAAGT
1 AAA-AAAAAT
19547 AAAAAAAAT
1 AAAAAAAAT
*
19556 AAAAATAA-
1 AAAAAAAAT
* *
19564 AATAAAGAT
1 AAAAAAAAT
*
19573 AAAAAGAAT
1 AAAAAAAAT
19582 A
1 A
19583 TTAAATAAAT
Statistics
Matches: 51, Mismatches: 11, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
8 5 0.10
9 26 0.51
10 11 0.22
11 8 0.16
12 1 0.02
ACGTcount: A:0.79, C:0.00, G:0.07, T:0.14
Consensus pattern (9 bp):
AAAAAAAAT
Found at i:19592 original size:26 final size:25
Alignment explanation
Indices: 19507--19591 Score: 68
Period size: 24 Copynumber: 3.4 Consensus size: 25
19497 AGAATAATAA
* *
19507 AAAAAT-AAATAAAAATAAAATAAA-
1 AAAAATAAAAT-AAAGTAAAAAAAAT
*
19531 AAAGATAAAGA-AAAGTAAAAAAAAT
1 AAAAATAAA-ATAAAGTAAAAAAAAT
*
19556 AAAAATAAAATAAAGATAAAAAGAAT
1 AAAAATAAAATAAAG-TAAAAAAAAT
*
19582 ATTAAATAAA
1 A-AAAATAAA
19592 TCTAATAAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
24 17 0.35
25 14 0.29
26 11 0.22
27 7 0.14
ACGTcount: A:0.78, C:0.00, G:0.06, T:0.16
Consensus pattern (25 bp):
AAAAATAAAATAAAGTAAAAAAAAT
Found at i:19651 original size:20 final size:20
Alignment explanation
Indices: 19615--19652 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
19605 AACAAATAAA
**
19615 CAAAGAAATGAAAAAAAATT
1 CAAAGAAAAAAAAAAAAATT
19635 CAAAGAAAAAAAAAAAAA
1 CAAAGAAAAAAAAAAAAA
19653 AACCTGGAGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.79, C:0.05, G:0.08, T:0.08
Consensus pattern (20 bp):
CAAAGAAAAAAAAAAAAATT
Found at i:20127 original size:31 final size:31
Alignment explanation
Indices: 20071--20129 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
20061 ATTGGGCAGG
* ** *
20071 TCGCCGAAAACTTCAAGGTTGGCCGGAATTT
1 TCGCCGAAAAATTCAAACTTCGCCGGAATTT
20102 TCGCCGAAAAATTCAAACTTCGCCGGAA
1 TCGCCGAAAAATTCAAACTTCGCCGGAA
20130 AATGCAACCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (31 bp):
TCGCCGAAAAATTCAAACTTCGCCGGAATTT
Found at i:24767 original size:17 final size:17
Alignment explanation
Indices: 24745--24780 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
24735 GGTCTTGATT
24745 TCGATGTTTAGAAATAA
1 TCGATGTTTAGAAATAA
24762 TCGATGTTTAGAAATAA
1 TCGATGTTTAGAAATAA
24779 TC
1 TC
24781 TCCATGACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.39, C:0.08, G:0.17, T:0.36
Consensus pattern (17 bp):
TCGATGTTTAGAAATAA
Found at i:25284 original size:16 final size:16
Alignment explanation
Indices: 25260--25297 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
25250 ATTTTATTTT
25260 TATTT-ATTTTTACCA
1 TATTTAATTTTTACCA
* *
25275 TTTTTAATTTTTTCCA
1 TATTTAATTTTTACCA
25291 TATTTAA
1 TATTTAA
25298 AATTACCAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 4 0.21
16 15 0.79
ACGTcount: A:0.26, C:0.11, G:0.00, T:0.63
Consensus pattern (16 bp):
TATTTAATTTTTACCA
Found at i:27046 original size:45 final size:45
Alignment explanation
Indices: 26928--27165 Score: 129
Period size: 45 Copynumber: 5.4 Consensus size: 45
26918 TATGCTCGGT
* * **
26928 AACTTTTT--AAAATTTAAAAAGATT-CTCTAAATAG-AAGTGTGAC
1 AACTTTTTGAAAAATTT-AAAAGGTTCCTCTAAATAGAAACT-CAAC
*
26971 AACTTTTTG-AAAATTTAAAAGGTTCCTCTAAATA-AATGCTCAAC
1 AACTTTTTGAAAAATTTAAAAGGTTCCTCTAAATAGAA-ACTCAAC
* * * **
27015 AACTTATTGAAAAATTTGAAAGGCTT-TTCTAAATAGAAACTTGAC
1 AACTTTTTGAAAAATTTAAAAGG-TTCCTCTAAATAGAAACTCAAC
* ** * * ** * *
27060 AACTTTTTGAAAAATTTTAAAGACTCATTTAAGCA-AAGGCTCAAT
1 AACTTTTTGAAAAATTTAAAAGGTTCCTCTAAATAGAA-ACTCAAC
* * * *
27105 AAC-TTTT-AAAAATTTTAAAAGGCTCCTCTAAATAGAGTA-TCGAT
1 AACTTTTTGAAAAA-TTTAAAAGGTTCCTCTAAATAGA-AACTCAAC
27149 AACTTTTTGAAAAATTT
1 AACTTTTTGAAAAATTT
27166 TGGAGGCTCT
Statistics
Matches: 149, Mismatches: 32, Indels: 26
0.72 0.15 0.13
Matches are distributed among these distances:
43 20 0.13
44 56 0.38
45 64 0.43
46 9 0.06
ACGTcount: A:0.42, C:0.12, G:0.11, T:0.35
Consensus pattern (45 bp):
AACTTTTTGAAAAATTTAAAAGGTTCCTCTAAATAGAAACTCAAC
Found at i:27153 original size:89 final size:86
Alignment explanation
Indices: 26885--27344 Score: 290
Period size: 89 Copynumber: 5.2 Consensus size: 86
26875 AGCCTCAATC
* ** * * *
26885 ACTTTTTGAAAATTTAAAAGGCTCCTTTAAACATATGCTCGGTAACTTTTTAAAATTTAAAAAGA
1 ACTTTTTGAAAATTTAAAAGGCTCCTTTAAACAAATGCTCAATAACTTTTAAAAATTTAAAAGGC
*
26950 TTCTCTAAATAGAAGTGTGACA
66 TTCTCTAAATAG-AGTATGACA
* * * * *
26972 ACTTTTTGAAAATTTAAAAGGTTCCTCTAAATAAATGCTCAACAACTTATTGAAAAATTTGAAAG
1 ACTTTTTGAAAATTTAAAAGGCTCCTTTAAACAAATGCTCAATAACTT-TT-AAAAATTTAAAAG
* *
27037 GCTTTTCTAAATAGA-AACTTGACA
64 GCTTCTCTAAATAGAGTA--TGACA
* * * * *
27061 ACTTTTTGAAAAATTTTAAAGACTCATTTAAGCAAAGGCTCAATAACTTTTAAAAATTTTAAAAG
1 ACTTTTTG-AAAATTTAAAAGGCTCCTTTAAACAAATGCTCAATAACTTTTAAAAA-TTTAAAAG
* *
27126 GCTCCTCTAAATAGAGTATCGATA
64 GCTTCTCTAAATAGAGTAT-GACA
*** * ** * * *
27150 ACTTTTTGAAAAATTTTGGAGGCTCTTTTAAGTAGAA-GCTCAATAACTGTTGAAAATTTAAGTA
1 ACTTTTTG-AAAATTTAAAAGGCTCCTTTAAACA-AATGCTCAATAACTTTTAAAAATTTAA-AA
* *
27214 -GCTTATCTAAACATAG-GCT-TGAAA
63 GGCTTCTCT-AA-ATAGAG-TATGACA
* * * * * * * * *
27238 AC-TTTTGAGAATTTAAAAGACT-TTATTAAATAAAGGCTTAACAACTTTTGAAAATTTAAAAAG
1 ACTTTTTGAAAATTTAAAAGGCTCCT-TTAAACAAATGCTCAATAACTTTTAAAAATTTAAAAGG
* * *
27301 CTCCTCTAAGTACAG-ACTTGACA
65 CTTCTCTAAATAGAGTA--TGACA
*
27324 AC-TTTTGAGAATTTTAAAAGG
1 ACTTTTTGA-AAATTTAAAAGG
27345 TTTCTCTAAA
Statistics
Matches: 295, Mismatches: 57, Indels: 42
0.75 0.14 0.11
Matches are distributed among these distances:
84 2 0.01
85 8 0.03
86 55 0.19
87 55 0.19
88 25 0.08
89 111 0.38
90 39 0.13
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.34
Consensus pattern (86 bp):
ACTTTTTGAAAATTTAAAAGGCTCCTTTAAACAAATGCTCAATAACTTTTAAAAATTTAAAAGGC
TTCTCTAAATAGAGTATGACA
Found at i:27196 original size:45 final size:45
Alignment explanation
Indices: 26848--27205 Score: 170
Period size: 44 Copynumber: 8.1 Consensus size: 45
26838 ATAACGTTCT
* * *
26848 AAAAATTTGAAAGGCT-TCTTTAAACA-AAGCCTCAATCACTTTTTG
1 AAAAATTTTAAAGGCTCT-TTTAAATAGAAG-CTCAATAACTTTTTG
* * * * * **
26893 -AAAATTTAAAAGGCTCCTTTAAACATATGCTCGGTAACTTTTT-
1 AAAAATTTTAAAGGCTCTTTTAAATAGAAGCTCAATAACTTTTTG
* * * * ** *
26936 -AAAATTTAAAAAGAT-TCTCTAAATAGAAG-TGTGACAACTTTTTG
1 AAAAATTTTAAAGGCTCT-TTTAAATAGAAGCT-CAATAACTTTTTG
* * * * * *
26980 -AAAATTTAAAAGGTTCCTCTAAATA-AATGCTCAACAACTTATTG
1 AAAAATTTTAAAGGCTCTTTTAAATAGAA-GCTCAATAACTTTTTG
* * ** *
27024 AAAAATTTGAAAGGCT-TTTCTAAATAGAAACTTGACAACTTTTTG
1 AAAAATTTTAAAGGCTCTTT-TAAATAGAAGCTCAATAACTTTTTG
* * **
27069 AAAAATTTTAAAGACTCATTTAAGCA-AAGGCTCAATAAC-TTTT-
1 AAAAATTTTAAAGGCTCTTTTAAATAGAA-GCTCAATAACTTTTTG
* * * *
27112 AAAAATTTTAAAAGGCTCCTCTAAATAG-AGTATCGATAACTTTTTG
1 AAAAATTTT-AAAGGCTCTTTTAAATAGAAG-CTCAATAACTTTTTG
** * *
27158 AAAAATTTTGGAGGCTCTTTTAAGTAGAAGCTCAATAAC-TGTTG
1 AAAAATTTTAAAGGCTCTTTTAAATAGAAGCTCAATAACTTTTTG
27202 AAAA
1 AAAA
27206 TTTAAGTAGC
Statistics
Matches: 240, Mismatches: 54, Indels: 39
0.72 0.16 0.12
Matches are distributed among these distances:
42 1 0.00
43 42 0.17
44 100 0.42
45 82 0.34
46 15 0.06
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.34
Consensus pattern (45 bp):
AAAAATTTTAAAGGCTCTTTTAAATAGAAGCTCAATAACTTTTTG
Found at i:27362 original size:44 final size:43
Alignment explanation
Indices: 27231--27362 Score: 131
Period size: 43 Copynumber: 3.0 Consensus size: 43
27221 TAAACATAGG
* * * *
27231 CTTGAAAACTTTTGAGAATTTAAAAGACTTTAT-TAAATAAAGG
1 CTTGACAACTTTTGAGAATTTAAAAG-GTTTCTCTAAATAAAGA
* * * * * * *
27274 CTTAACAACTTTTGAAAATTTAAAAAGCTCCTCTAAGTACAGA
1 CTTGACAACTTTTGAGAATTTAAAAGGTTTCTCTAAATAAAGA
*
27317 CTTGACAACTTTTGAGAATTTTAAAAGGTTTCTCTAAATAGAGA
1 CTTGACAACTTTTGAGAA-TTTAAAAGGTTTCTCTAAATAAAGA
27361 CT
1 CT
27363 CGATAGCTTT
Statistics
Matches: 69, Mismatches: 18, Indels: 3
0.77 0.20 0.03
Matches are distributed among these distances:
42 2 0.03
43 45 0.65
44 22 0.32
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.34
Consensus pattern (43 bp):
CTTGACAACTTTTGAGAATTTAAAAGGTTTCTCTAAATAAAGA
Found at i:31452 original size:2 final size:2
Alignment explanation
Indices: 31445--31469 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
31435 AGGTTTTTAT
31445 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
31470 GAAAGGTATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:33755 original size:2 final size:2
Alignment explanation
Indices: 33742--33771 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
33732 TGCTACAAGC
*
33742 AT AT AA 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
33772 CACGTGTTCG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:34084 original size:31 final size:29
Alignment explanation
Indices: 34041--34115 Score: 109
Period size: 29 Copynumber: 2.7 Consensus size: 29
34031 TTCATAATCT
* *
34041 TGTCTTTTCTTTCTTTCTTT-AT-ATTTA
1 TGTCTTTTCTTTCTTTCTTTCTTGATATA
*
34068 TGTTTTTTCTTTCTTTCTTTCTTGATATA
1 TGTCTTTTCTTTCTTTCTTTCTTGATATA
34097 TGTCTTTTCTTTCTTTCTT
1 TGTCTTTTCTTTCTTTCTT
34116 CATATAGGAT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
27 19 0.45
28 1 0.02
29 22 0.52
ACGTcount: A:0.08, C:0.16, G:0.05, T:0.71
Consensus pattern (29 bp):
TGTCTTTTCTTTCTTTCTTTCTTGATATA
Found at i:34108 original size:29 final size:27
Alignment explanation
Indices: 34041--34121 Score: 108
Period size: 27 Copynumber: 2.9 Consensus size: 27
34031 TTCATAATCT
*
34041 TGTCTTTTCTTTCTTTCTTTATATTTA
1 TGTCTTTTCTTTCTTTCTTTATATATA
* *
34068 TGTTTTTTCTTTCTTTCTTTCTTGATATA
1 TGTCTTTTCTTTCTTTCTTT-AT-ATATA
*
34097 TGTCTTTTCTTTCTTTCTTCATATA
1 TGTCTTTTCTTTCTTTCTTTATATA
34122 GGATGCATCT
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
27 22 0.48
28 2 0.04
29 22 0.48
ACGTcount: A:0.11, C:0.16, G:0.05, T:0.68
Consensus pattern (27 bp):
TGTCTTTTCTTTCTTTCTTTATATATA
Found at i:43653 original size:14 final size:15
Alignment explanation
Indices: 43619--43655 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
43609 TTTTCTTGAA
*
43619 TAAAAAATGAAACAT
1 TAAAAAATTAAACAT
43634 T-AAAAATTAAA-AT
1 TAAAAAATTAAACAT
43647 TAAAAAATT
1 TAAAAAATT
43656 TTCCAACAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 3 0.15
14 16 0.80
15 1 0.05
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.27
Consensus pattern (15 bp):
TAAAAAATTAAACAT
Done.