Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009075.1 Hibiscus syriacus cultivar Beakdansim tig00112508_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: 1223780
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 7 of 7
Found at i:1162566 original size:2 final size:2
Alignment explanation
Indices: 1162559--1162607 Score: 66
Period size: 2 Copynumber: 25.0 Consensus size: 2
1162549 TCATGCTTAA
*
1162559 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GCT -T AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT
1162600 AT AT AT AT
1 AT AT AT AT
1162608 TACTTCATTT
Statistics
Matches: 43, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
1 2 0.05
2 40 0.93
3 1 0.02
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1168729 original size:29 final size:30
Alignment explanation
Indices: 1168697--1168759 Score: 119
Period size: 30 Copynumber: 2.1 Consensus size: 30
1168687 GTATTTTATC
1168697 AAAATTTGCAGAGAGA-GGGGGGGGGACTT
1 AAAATTTGCAGAGAGAGGGGGGGGGGACTT
1168726 AAAATTTGCAGAGAGAGGGGGGGGGGACTT
1 AAAATTTGCAGAGAGAGGGGGGGGGGACTT
1168756 AAAA
1 AAAA
1168760 GTAATAAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.35, C:0.06, G:0.43, T:0.16
Consensus pattern (30 bp):
AAAATTTGCAGAGAGAGGGGGGGGGGACTT
Found at i:1181610 original size:65 final size:65
Alignment explanation
Indices: 1181530--1181672 Score: 209
Period size: 65 Copynumber: 2.2 Consensus size: 65
1181520 TCTTAGAACC
* * *
1181530 ACTCAATTTTCCCGAAATAAAATAATAATGTTACCTTTAGCATG-AGTTG-GTTCTTTACTGAGT
1 ACTCAATTTTCCCGAAACAAAATAATAATGTTACCTTTAGCA-GCAG-CGAGTTCTCTACTGAGT
1181593 CA
64 CA
* *
1181595 ACTCAATTTTCCCGAAACAAAATAATAATGTTGCCTTTAGCAGCAGCGAGTTCTCTAGTGAGTCA
1 ACTCAATTTTCCCGAAACAAAATAATAATGTTACCTTTAGCAGCAGCGAGTTCTCTACTGAGTCA
1181660 ACTCAATTTTCCC
1 ACTCAATTTTCCC
1181673 ATTCTAGTGA
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
64 2 0.03
65 69 0.97
ACGTcount: A:0.31, C:0.21, G:0.14, T:0.34
Consensus pattern (65 bp):
ACTCAATTTTCCCGAAACAAAATAATAATGTTACCTTTAGCAGCAGCGAGTTCTCTACTGAGTCA
Found at i:1183285 original size:19 final size:18
Alignment explanation
Indices: 1183257--1183293 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
1183247 TTTCGAGGAA
1183257 GAATTAGGGAAGAAGAGG
1 GAATTAGGGAAGAAGAGG
1183275 GAATATAGGGAAGAAGAGG
1 GAAT-TAGGGAAGAAGAGG
1183294 TTCAAAACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.46, C:0.00, G:0.43, T:0.11
Consensus pattern (18 bp):
GAATTAGGGAAGAAGAGG
Found at i:1185576 original size:2 final size:2
Alignment explanation
Indices: 1185569--1185648 Score: 112
Period size: 2 Copynumber: 41.0 Consensus size: 2
1185559 GCTTGTGGTC
1185569 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
* *
1185611 AT AT AT GGT -T AT AT AA AT -T AT -T 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
1185649 TATGAATGGT
Statistics
Matches: 71, Mismatches: 3, Indels: 8
0.87 0.04 0.10
Matches are distributed among these distances:
1 3 0.04
2 67 0.94
3 1 0.01
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1190726 original size:24 final size:24
Alignment explanation
Indices: 1190611--1190726 Score: 137
Period size: 24 Copynumber: 4.8 Consensus size: 24
1190601 CATAAATCAG
* * *
1190611 GTCAAGTATTATATCAGAAAT-CAG
1 GTCAAGTATCAGATCAG-AATCCAT
* * * *
1190635 GTCAAGTAACATATTAGAATCCAA
1 GTCAAGTATCAGATCAGAATCCAT
1190659 GTCAAGTATCAGATCAGAATCCAT
1 GTCAAGTATCAGATCAGAATCCAT
1190683 GT-AAGATATCAGATCAGAATCCAT
1 GTCAAG-TATCAGATCAGAATCCAT
1190707 GTCAAGTATCAGATCAGAAT
1 GTCAAGTATCAGATCAGAAT
1190727 TCAAATTGAA
Statistics
Matches: 81, Mismatches: 8, Indels: 6
0.85 0.08 0.06
Matches are distributed among these distances:
23 6 0.07
24 72 0.89
25 3 0.04
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.26
Consensus pattern (24 bp):
GTCAAGTATCAGATCAGAATCCAT
Found at i:1195369 original size:24 final size:24
Alignment explanation
Indices: 1195342--1195393 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
1195332 AACGGATATA
*
1195342 TCAAAAATCAAAACATAAATCAGG
1 TCAAAAATCAAAACAGAAATCAGG
** * *
1195366 TCAAGTATCATATCAGAAATCAGG
1 TCAAAAATCAAAACAGAAATCAGG
1195390 TCAA
1 TCAA
1195394 GTAACAGATC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.50, C:0.17, G:0.12, T:0.21
Consensus pattern (24 bp):
TCAAAAATCAAAACAGAAATCAGG
Found at i:1195394 original size:24 final size:24
Alignment explanation
Indices: 1195362--1195480 Score: 161
Period size: 24 Copynumber: 5.0 Consensus size: 24
1195352 AAACATAAAT
*
1195362 CAGGTCAAGTATCATATCAGAAAT-
1 CAGGTCAAGTATCAGATCAG-AATC
*
1195386 CAGGTCAAGTAACAGATCAGAATC
1 CAGGTCAAGTATCAGATCAGAATC
*
1195410 CAAGTCAAGTATCAGATCAGAATC
1 CAGGTCAAGTATCAGATCAGAATC
*
1195434 CATGTC-AGATATCAGATCAGAATC
1 CAGGTCAAG-TATCAGATCAGAATC
*
1195458 CATGTCAAGTATCAGATCAGAAT
1 CAGGTCAAGTATCAGATCAGAAT
1195481 TCAAATCGAA
Statistics
Matches: 87, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
23 5 0.06
24 80 0.92
25 2 0.02
ACGTcount: A:0.40, C:0.19, G:0.18, T:0.23
Consensus pattern (24 bp):
CAGGTCAAGTATCAGATCAGAATC
Found at i:1195496 original size:48 final size:48
Alignment explanation
Indices: 1195398--1195498 Score: 141
Period size: 48 Copynumber: 2.1 Consensus size: 48
1195388 GGTCAAGTAA
** *
1195398 CAGATCAGAATCCAAGTCAAGTATCAGATCAGAATCCATGTCAGATAT
1 CAGATCAGAATCCAAGTCAAGTATCAGATCAGAATCCAAATCAGAAAT
* *
1195446 CAGATCAGAATCCATGTCAAGTATCAGATCAGAATTCAAATC-GAAAAT
1 CAGATCAGAATCCAAGTCAAGTATCAGATCAGAATCCAAATCAG-AAAT
1195494 CAGAT
1 CAGAT
1195499 AAAATATTCA
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
47 1 0.02
48 46 0.98
ACGTcount: A:0.42, C:0.20, G:0.16, T:0.23
Consensus pattern (48 bp):
CAGATCAGAATCCAAGTCAAGTATCAGATCAGAATCCAAATCAGAAAT
Found at i:1197978 original size:18 final size:18
Alignment explanation
Indices: 1197957--1197991 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
1197947 GTCAACGCCG
1197957 GTCAACGGGTCGGGTCGA
1 GTCAACGGGTCGGGTCGA
1197975 GTCAACGGGTCGGGTCG
1 GTCAACGGGTCGGGTCG
1197992 GGTCGGGTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.14, C:0.23, G:0.46, T:0.17
Consensus pattern (18 bp):
GTCAACGGGTCGGGTCGA
Found at i:1198198 original size:9 final size:9
Alignment explanation
Indices: 1198184--1198212 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
1198174 GGTTCCTCGA
1198184 TTGAGGGGT
1 TTGAGGGGT
1198193 TTGAGGGGT
1 TTGAGGGGT
1198202 TTGAGGGGT
1 TTGAGGGGT
1198211 TT
1 TT
1198213 TGTTCCTCGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.10, C:0.00, G:0.52, T:0.38
Consensus pattern (9 bp):
TTGAGGGGT
Found at i:1199594 original size:64 final size:65
Alignment explanation
Indices: 1199451--1199613 Score: 195
Period size: 64 Copynumber: 2.5 Consensus size: 65
1199441 AATTGTTTAG
* * * *
1199451 TGTGTATTGATGCACAGGAAGTGCATCGATGCACCCCTTAAAAAATGGAAACATCGAATGCAATT
1 TGTGTATCGATGCATAGGAAGTGCATCGATGCACCCCTTAAAAAATGAAAACATCGAAGGCAATT
* * * * * *
1199516 GGTGCATCGATGCATAAGG-AGTGCATCGATGCATCCCTT-TAAGATGAAAACATCGAAGGTAAT
1 TGTGTATCGATGCAT-AGGAAGTGCATCGATGCACCCCTTAAAAAATGAAAACATCGAAGGCAAT
1199579 T
65 T
* *
1199580 TGTGTATCGATGCATGGGTAGTGCATCGATGCAC
1 TGTGTATCGATGCATAGGAAGTGCATCGATGCAC
1199614 ATGTTAAAGA
Statistics
Matches: 82, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
63 2 0.02
64 47 0.57
65 30 0.37
66 3 0.04
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (65 bp):
TGTGTATCGATGCATAGGAAGTGCATCGATGCACCCCTTAAAAAATGAAAACATCGAAGGCAATT
Found at i:1201167 original size:23 final size:23
Alignment explanation
Indices: 1201106--1201159 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
1201096 ATATGGAACA
*
1201106 TCGGTGCAATTCTACGCGGTACT
1 TCGGTGCAATTCTACGCGGCACT
* *
1201129 TCGATGCAATTCTACGTGGCACT
1 TCGGTGCAATTCTACGCGGCACT
1201152 TCGGTGCA
1 TCGGTGCA
1201160 TTTATACGAG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.19, C:0.26, G:0.26, T:0.30
Consensus pattern (23 bp):
TCGGTGCAATTCTACGCGGCACT
Found at i:1204743 original size:20 final size:23
Alignment explanation
Indices: 1204698--1204752 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 23
1204688 GCATGGGTAG
1204698 TGCATCGATGCACATGTTAAAGAA
1 TGCATCGATGCACATGTT-AAGAA
1204722 TGCATCGATGCAC-TG-T-AGAA
1 TGCATCGATGCACATGTTAAGAA
1204742 TGCATTCGATG
1 TGCA-TCGATG
1204753 AACTTCAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
20 8 0.27
21 6 0.20
22 1 0.03
23 2 0.07
24 13 0.43
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (23 bp):
TGCATCGATGCACATGTTAAGAA
Found at i:1211475 original size:16 final size:16
Alignment explanation
Indices: 1211454--1211486 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
1211444 AGGATGGGGA
1211454 GCAAAGGTTGGAAAGG
1 GCAAAGGTTGGAAAGG
1211470 GCAAAGGTTGGAAAGG
1 GCAAAGGTTGGAAAGG
1211486 G
1 G
1211487 AGGGTTATAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.06, G:0.45, T:0.12
Consensus pattern (16 bp):
GCAAAGGTTGGAAAGG
Found at i:1212116 original size:2 final size:2
Alignment explanation
Indices: 1212109--1212147 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
1212099 GTATGTATGC
1212109 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- 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
1212148 TCTCGTTTGT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1215263 original size:11 final size:10
Alignment explanation
Indices: 1215252--1215333 Score: 52
Period size: 9 Copynumber: 8.6 Consensus size: 10
1215242 CAAAATAAAT
1215252 AAAAAATGAA
1 AAAAAATGAA
1215262 TAAAAAA-GAA
1 -AAAAAATGAA
*
1215272 GAAAAATG-A
1 AAAAAATGAA
*
1215281 AAAAAACG-A
1 AAAAAATGAA
*
1215290 AAAAAA-GAT
1 AAAAAATGAA
*
1215299 AAAAGAT-AA
1 AAAAAATGAA
1215308 AAAAAAT-AA
1 AAAAAATGAA
1215317 AGAAAAAT-AA
1 A-AAAAATGAA
1215327 AGAAAAA
1 A-AAAAA
1215334 GAATAAATAA
Statistics
Matches: 60, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
8 1 0.02
9 34 0.57
10 19 0.32
11 6 0.10
ACGTcount: A:0.79, C:0.01, G:0.11, T:0.09
Consensus pattern (10 bp):
AAAAAATGAA
Found at i:1215266 original size:10 final size:10
Alignment explanation
Indices: 1215243--1215340 Score: 55
Period size: 10 Copynumber: 10.2 Consensus size: 10
1215233 TTTCCTACAC
*
1215243 AAAATAAATAA
1 AAAATGAAT-A
1215254 AAAATGAATA
1 AAAATGAATA
* *
1215264 AAAAAGAAGA
1 AAAATGAATA
1215274 AAAATGAA-A
1 AAAATGAATA
*
1215283 AAAACGAA-A
1 AAAATGAATA
1215292 AAAA-G-ATA
1 AAAATGAATA
*
1215300 AAAGAT-AAAA
1 AAA-ATGAATA
* *
1215310 AAAATAAAGA
1 AAAATGAATA
* *
1215320 AAAATAAAGA
1 AAAATGAATA
1215330 AAAA-GAATA
1 AAAATGAATA
1215339 AA
1 AA
1215341 TAAAAAGGGG
Statistics
Matches: 73, Mismatches: 9, Indels: 12
0.78 0.10 0.13
Matches are distributed among these distances:
7 1 0.01
8 5 0.07
9 21 0.29
10 38 0.52
11 8 0.11
ACGTcount: A:0.79, C:0.01, G:0.10, T:0.10
Consensus pattern (10 bp):
AAAATGAATA
Found at i:1215302 original size:16 final size:16
Alignment explanation
Indices: 1215289--1215346 Score: 50
Period size: 17 Copynumber: 3.5 Consensus size: 16
1215279 GAAAAAAACG
1215289 AAAAAAAGATAAAAGAT
1 AAAAAAA-ATAAAAGAT
1215306 AAAAAAAAT-AAAGA-
1 AAAAAAAATAAAAGAT
1215320 AAAATAAAGA-AAAAGAAT
1 AAAA-AAA-ATAAAAG-AT
1215338 AAATAAAAA
1 AAA-AAAAA
1215347 GGGGTTCAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
14 4 0.11
15 8 0.23
16 7 0.20
17 9 0.26
18 6 0.17
19 1 0.03
ACGTcount: A:0.81, C:0.00, G:0.09, T:0.10
Consensus pattern (16 bp):
AAAAAAAATAAAAGAT
Found at i:1215302 original size:17 final size:19
Alignment explanation
Indices: 1215253--1215302 Score: 61
Period size: 18 Copynumber: 2.7 Consensus size: 19
1215243 AAAATAAATA
1215253 AAAAATGAATAAAAAAGAAG
1 AAAAATG-ATAAAAAAGAAG
1215273 AAAAATGA-AAAAAACGAA-
1 AAAAATGATAAAAAA-GAAG
1215291 AAAAA-GATAAAA
1 AAAAATGATAAAA
1215303 GATAAAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
17 2 0.07
18 15 0.54
19 4 0.14
20 7 0.25
ACGTcount: A:0.78, C:0.02, G:0.12, T:0.08
Consensus pattern (19 bp):
AAAAATGATAAAAAAGAAG
Found at i:1215311 original size:19 final size:18
Alignment explanation
Indices: 1215289--1215346 Score: 55
Period size: 19 Copynumber: 3.2 Consensus size: 18
1215279 GAAAAAAACG
1215289 AAAAAAAGATAAAAGATAA
1 AAAAAAAGATAAAA-ATAA
* *
1215308 AAAAAATAAAGAAAAATAA
1 AAAAAA-AGATAAAAATAA
* *
1215327 AGAAAAAGA-ATAAATAA
1 AAAAAAAGATAAAAATAA
1215344 AAA
1 AAA
1215347 GGGGTTCAAG
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
17 9 0.28
18 2 0.06
19 15 0.47
20 6 0.19
ACGTcount: A:0.81, C:0.00, G:0.09, T:0.10
Consensus pattern (18 bp):
AAAAAAAGATAAAAATAA
Found at i:1216989 original size:133 final size:132
Alignment explanation
Indices: 1216630--1217197 Score: 381
Period size: 133 Copynumber: 4.3 Consensus size: 132
1216620 TTTATTTCAT
* * * * * * *
1216630 ATTCAATCTTCCCTGAAGAGTAGCGAAGTGGATCAAAATTTTCTCGAGCCTGATCTCTC-CTAAA
1 ATTCAATATTCCCTGAAGAGCAACGAAGTGGAACAAATTTTTAT-GAGTCTGATCT-TCACTAAA
* * ** * ** * * * * *
1216694 AAGTAGTAGAGC-ATATTTTTTTCTTAAAGATTTTGTCTTCCTAAAGAGTAGTGAAACAAATCGA
64 GAGTAGTGGAGCGA-ATCCTCTTCTTTCAGATTTGGTCTTCCTGAAGAGAAGTGAAGCAAATCAA
1216758 -TTCCG
128 GTT-CG
* * * * * * * * * * *
1216763 ATTCAATCTTCCCTTAAAAACAACAAAGTGGATCAAA--ATTA--CGTATG-TTTTCCCCTAAAG
1 ATTCAATATTCCCTGAAGAGCAACGAAGTGGAACAAATTTTTATGAGTCTGATCTT-CACTAAAG
* * * * *
1216823 AGTAGTGGAGCAAATCCTCATTCTTTCAGATTTGGTATTCCTGAATAGAAATGAAGTAAATCAAG
65 AGTAGTGGAGCGAATCCTC-TTCTTTCAGATTTGGTCTTCCTGAAGAGAAGTGAAGCAAATCAAG
*
1216888 TTTG
129 TTCG
* * * * *
1216892 ATTTAATCTTCCCTGAAGAGCAACGAAGTGGAACAAATTTTTTTGAGTTTGATC-TCTATTAAAG
1 ATTCAATATTCCCTGAAGAGCAACGAAGTGGAACAAATTTTTATGAGTCTGATCTTC-ACTAAAG
* * * * *
1216956 AGTAGTGGAGCGGATTCTTCTTCTTTCATATTTGGTCTTCCTGAAGACAAGTGAAGCAAATCGA-
65 AGTAGTGGAGC-GAATCCTCTTCTTTCAGATTTGGTCTTCCTGAAGAGAAGTGAAGCAAATCAAG
*
1217020 TTCCA
129 TT-CG
* * * * * *
1217025 ATTCAATATTCCCTAAAGAG-AAGTGCAGAGGATCATAA--TTTATGAGTCTGATCTTCCCTAAA
1 ATTCAATATTCCCTGAAGAGCAA-CGAAGTGGAACA-AATTTTTATGAGTCTGATCTTCACTAAA
* ** * * *
1217087 GAGTAGTGGAGCAGACTCGACTTCTTTCAGATTTGATCTTCCTGAAGAGCAGTGAAACAAATCAA
64 GAGTAGTGGAGC-GAATCCTCTTCTTTCAGATTTGGTCTTCCTGAAGAGAAGTGAAGCAAATCAA
1217152 GTTCG
128 GTTCG
*
1217157 ATTCAATATTCCCTGAAGAGCAGCGAAGT-GAATCAAATTTT
1 ATTCAATATTCCCTGAAGAGCAACGAAGTGGAA-CAAATTTT
1217198 CCAGACCTAA
Statistics
Matches: 332, Mismatches: 82, Indels: 42
0.73 0.18 0.09
Matches are distributed among these distances:
126 1 0.00
127 3 0.01
128 21 0.06
129 66 0.20
130 2 0.01
131 8 0.02
132 102 0.31
133 121 0.36
134 8 0.02
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Consensus pattern (132 bp):
ATTCAATATTCCCTGAAGAGCAACGAAGTGGAACAAATTTTTATGAGTCTGATCTTCACTAAAGA
GTAGTGGAGCGAATCCTCTTCTTTCAGATTTGGTCTTCCTGAAGAGAAGTGAAGCAAATCAAGTT
CG
Found at i:1220572 original size:26 final size:28
Alignment explanation
Indices: 1220522--1220573 Score: 81
Period size: 26 Copynumber: 1.9 Consensus size: 28
1220512 TAAGATTGGT
*
1220522 CACTTTCGTTTTTAATTTAATTAAGAAA
1 CACTTTCGATTTTAATTTAATTAAGAAA
1220550 CACTTTC-ATTTT-ATTTAATTAAGA
1 CACTTTCGATTTTAATTTAATTAAGA
1220574 CGGGTCATCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 12 0.52
27 4 0.17
28 7 0.30
ACGTcount: A:0.35, C:0.12, G:0.06, T:0.48
Consensus pattern (28 bp):
CACTTTCGATTTTAATTTAATTAAGAAA
Done.