Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001625.1 Hibiscus syriacus cultivar Beakdansim tig00003234_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: 99682
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
Found at i:5329 original size:2 final size:2
Alignment explanation
Indices: 5317--5352 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
5307 CACTGTTACT
5317 TA TA T- TA TA TA 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 TA TA TA TA TA TA T
5353 CAGGGATCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:7515 original size:18 final size:21
Alignment explanation
Indices: 7474--7518 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
7464 TTCGAAGGTG
7474 TGTTTTCTCTCTCTGTCTCTC
1 TGTTTTCTCTCTCTGTCTCTC
*
7495 TGTTTTCTC-CTGTGT-T-TC
1 TGTTTTCTCTCTCTGTCTCTC
7513 TGTTTT
1 TGTTTT
7519 GTTCATGTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 8 0.35
19 1 0.04
20 5 0.22
21 9 0.39
ACGTcount: A:0.00, C:0.24, G:0.13, T:0.62
Consensus pattern (21 bp):
TGTTTTCTCTCTCTGTCTCTC
Found at i:10959 original size:19 final size:20
Alignment explanation
Indices: 10931--10970 Score: 73
Period size: 19 Copynumber: 2.0 Consensus size: 20
10921 GGGTAATAAT
10931 ATAAGTAATGAAATGAAATA
1 ATAAGTAATGAAATGAAATA
10951 ATAAG-AATGAAATGAAATA
1 ATAAGTAATGAAATGAAATA
10970 A
1 A
10971 ATAAAAGATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.62, C:0.00, G:0.15, T:0.23
Consensus pattern (20 bp):
ATAAGTAATGAAATGAAATA
Found at i:16192 original size:3 final size:3
Alignment explanation
Indices: 16176--16211 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
16166 TCTCTTTTTT
16176 TTC TT- TTC TT- TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
16212 TTTGCACTCC
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 4 0.13
3 27 0.87
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (3 bp):
TTC
Found at i:19979 original size:26 final size:28
Alignment explanation
Indices: 19940--19993 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 28
19930 ATGAATAAAG
* *
19940 TTCGATTCGGTTAA-TATT-TAGAAAAA
1 TTCGATTCGATTAACTATTAAAGAAAAA
*
19966 TTCGATTTGATTAACTATTAAAGAAAAA
1 TTCGATTCGATTAACTATTAAAGAAAAA
19994 AGGTTCAGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 12 0.52
27 4 0.17
28 7 0.30
ACGTcount: A:0.43, C:0.07, G:0.13, T:0.37
Consensus pattern (28 bp):
TTCGATTCGATTAACTATTAAAGAAAAA
Found at i:20167 original size:18 final size:17
Alignment explanation
Indices: 20112--20196 Score: 72
Period size: 17 Copynumber: 5.2 Consensus size: 17
20102 ACATATTAAT
**
20112 ATAATATTAAAAAAATA
1 ATAATATTAAAATTATA
*
20129 ATATTATTAAAATTATA
1 ATAATATTAAAATTATA
*
20146 ATAATATTAAATATTTTA
1 ATAATATTAAA-ATTATA
*
20164 AT-A-ATTAATATT-T-
1 ATAATATTAAAATTATA
*
20177 -TATTATTAAAATTATA
1 ATAATATTAAAATTATA
20193 ATAA
1 ATAA
20197 GATATTAAAT
Statistics
Matches: 53, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
12 1 0.02
14 9 0.17
15 4 0.08
16 5 0.09
17 27 0.51
18 7 0.13
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
ATAATATTAAAATTATA
Found at i:20173 original size:15 final size:15
Alignment explanation
Indices: 20155--20196 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
20145 AATAATATTA
20155 AATATTTTAATAATT
1 AATATTTTAATAATT
*
20170 AATATTTT-ATTATT
1 AATATTTTAATAATT
* *
20184 AAAATTATAATAA
1 AATATTTTAATAA
20197 GATATTAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
AATATTTTAATAATT
Found at i:20362 original size:19 final size:18
Alignment explanation
Indices: 20324--20358 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
20314 ACAAAGAAAC
*
20324 TAGAAAAATGAATTACAT
1 TAGAAAAATCAATTACAT
20342 TAGAAAAATCAATTACA
1 TAGAAAAATCAATTACA
20359 ATTATCAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.57, C:0.09, G:0.09, T:0.26
Consensus pattern (18 bp):
TAGAAAAATCAATTACAT
Found at i:21087 original size:24 final size:24
Alignment explanation
Indices: 21058--21107 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
21048 ATTGTATTTG
21058 ATATATTA-AATAACATTATAATAT
1 ATATATTATAATAACATT-TAATAT
**
21082 ATATATTATAATATTATTTAATAT
1 ATATATTATAATAACATTTAATAT
21106 AT
1 AT
21108 CAAATACAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 16 0.70
25 7 0.30
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (24 bp):
ATATATTATAATAACATTTAATAT
Found at i:21177 original size:16 final size:17
Alignment explanation
Indices: 21156--21194 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
21146 TATGTTTAAA
*
21156 AAAATATT-TTGAGAGT
1 AAAATATTGATGAGAGT
21172 AAAATATTGATGAGAGT
1 AAAATATTGATGAGAGT
21189 ATAAAT
1 A-AAAT
21195 GAGTTAAGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 8 0.40
17 8 0.40
18 4 0.20
ACGTcount: A:0.49, C:0.00, G:0.18, T:0.33
Consensus pattern (17 bp):
AAAATATTGATGAGAGT
Found at i:21800 original size:24 final size:24
Alignment explanation
Indices: 21773--21843 Score: 115
Period size: 24 Copynumber: 2.9 Consensus size: 24
21763 CTATTATTTC
*
21773 GCTTTAATTGAGCTCAAATTTTAG
1 GCTTCAATTGAGCTCAAATTTTAG
21797 GCTTCAATTGAGCTCAAATTTTAG
1 GCTTCAATTGAGCTCAAATTTTAG
*
21821 GCTTCAATTGAGCTTCTAATTTT
1 GCTTCAATTGAGC-TCAAATTTT
21844 TTTTTTTGAG
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
24 36 0.82
25 8 0.18
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.42
Consensus pattern (24 bp):
GCTTCAATTGAGCTCAAATTTTAG
Found at i:23242 original size:287 final size:284
Alignment explanation
Indices: 22714--23269 Score: 697
Period size: 287 Copynumber: 1.9 Consensus size: 284
22704 CCCTAAGTTT
* * *
22714 TTTTAGATTTTCTATGTATTTTTTTTGAAAATTTATTTTCGCTTTCTATAATTTTATAAATTCAA
1 TTTTAGATTTTATATGTATTTTTTTTGAAAATATATTTTCGCTTCCTATAATTTTATAAATTCAA
** * * * **
22779 GATCGTCCATTAACATAAAATCTTGCATCCAGGGAGGGGCGAACTGGAATCTATAAAATTTTAGG
66 GATCACCCACTAACATAAAATCTTGCATCCAGAGAGGGGCAAACTAAAATCTATAAAATTTTAGG
* *
22844 GAGGGGCAAAATTCAATAGAAAATACATAAAAAATCTAAAATTTATGGTTATTTTTAATTTTATG
131 GAGGGGCAAAATTCAATAGAAAATACATAAAAAATCTAAAATTTATGGATAATTTTAATTTTATG
* * * * * * *
22909 GGAGCGATTGCCCTCACCCGCTCATGTCTCATTACAAAGGACGCTAGAGGAAAAACCTCTAACAA
196 GGAGCGACTGCCCTCACCCACGCATATCTCAGTACAAAGAACGCTAGAGGAAAAAACTCTAACAA
22974 CACTATTTTATAAATTATTATATA
261 CACTATTTTATAAATTATTATATA
*
22998 TTTTAGATTTTTTATATGTATTTTTTATTTAAAATATATTTTTCG-TTCCTATAATTTTATAAAT
1 TTTTAGA--TTTTATATGTATTTTTT-TTGAAAATATA-TTTTCGCTTCCTATAATTTTATAAAT
* * * * ** *
23062 TTACGTTCACCCCCTAACATAAAATCTTGTGTCCAGAGAGGAGGCAAACTAAAATTTATAAAA-T
62 TCAAGATCACCCACTAACATAAAATCTTGCATCCAGAGAGG-GGCAAACTAAAATCTATAAAATT
*
23126 TTAGGGAGGGGCGAAATTCAATA-AAAATACATAAAAAAATCTAAAATTTAT-GATAATTTTAAT
126 TTAGGGAGGGGCAAAATTCAATAGAAAATACAT-AAAAAATCTAAAATTTATGGATAATTTTAA-
* ** * * * *
23189 TTTTTTTTGAGGGACTGCCCTCACCCACGCCTATCTGAGTACAGAGAACGCTAGAGGAAAAAACT
189 TTTTATGGGAGCGACTGCCCTCACCCACGCATATCTCAGTACAAAGAACGCTAGAGGAAAAAACT
*
23254 CTAACAATACTATTTT
254 CTAACAACACTATTTT
23270 TTAGTAGTTT
Statistics
Matches: 229, Mismatches: 36, Indels: 11
0.83 0.13 0.04
Matches are distributed among these distances:
284 7 0.03
286 34 0.15
287 165 0.72
288 23 0.10
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (284 bp):
TTTTAGATTTTATATGTATTTTTTTTGAAAATATATTTTCGCTTCCTATAATTTTATAAATTCAA
GATCACCCACTAACATAAAATCTTGCATCCAGAGAGGGGCAAACTAAAATCTATAAAATTTTAGG
GAGGGGCAAAATTCAATAGAAAATACATAAAAAATCTAAAATTTATGGATAATTTTAATTTTATG
GGAGCGACTGCCCTCACCCACGCATATCTCAGTACAAAGAACGCTAGAGGAAAAAACTCTAACAA
CACTATTTTATAAATTATTATATA
Found at i:23539 original size:2 final size:2
Alignment explanation
Indices: 23532--23577 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
23522 AACAAATTTC
23532 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
23574 AT AT
1 AT AT
23578 GCTTTTATGC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:28475 original size:19 final size:20
Alignment explanation
Indices: 28448--28489 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
28438 TTAACAAAAT
*
28448 ATTCTAAAA-AATTATTAAA
1 ATTCCAAAATAATTATTAAA
*
28467 ATTCCAAAATTAATTTTTAAA
1 ATTCCAAAA-TAATTATTAAA
28488 AT
1 AT
28490 AATAAATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 8 0.42
21 11 0.58
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.40
Consensus pattern (20 bp):
ATTCCAAAATAATTATTAAA
Found at i:29812 original size:17 final size:17
Alignment explanation
Indices: 29790--29823 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
29780 TTAGAGAGAC
29790 AAAAATAAATTATCAAT
1 AAAAATAAATTATCAAT
*
29807 AAAAATATATTATCAAT
1 AAAAATAAATTATCAAT
29824 TCATTTACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (17 bp):
AAAAATAAATTATCAAT
Found at i:31391 original size:15 final size:16
Alignment explanation
Indices: 31373--31405 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
31363 GTGGCAGATC
31373 AAAATCCAG-ACGGGA
1 AAAATCCAGAACGGGA
31388 AAAATCCAGAACGGGA
1 AAAATCCAGAACGGGA
31404 AA
1 AA
31406 GAAAGATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.52, C:0.18, G:0.24, T:0.06
Consensus pattern (16 bp):
AAAATCCAGAACGGGA
Found at i:37052 original size:2 final size:2
Alignment explanation
Indices: 37045--37070 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
37035 TGTTACGTTA
37045 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
37071 TAAACTCTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:37976 original size:19 final size:21
Alignment explanation
Indices: 37941--37982 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
37931 AGTATTTTAA
37941 TTGAAAATTAGTGAATAT-TT
1 TTGAAAATTAGTGAATATATT
*
37961 TTGAAAATT-TTGAATATATT
1 TTGAAAATTAGTGAATATATT
37981 TT
1 TT
37983 TTAAATTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (21 bp):
TTGAAAATTAGTGAATATATT
Found at i:41988 original size:14 final size:14
Alignment explanation
Indices: 41969--41995 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
41959 CCATTAGGTT
41969 CCTTCCACCATCCA
1 CCTTCCACCATCCA
41983 CCTTCCACCATCC
1 CCTTCCACCATCC
41996 TCGCCACCAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.19, C:0.59, G:0.00, T:0.22
Consensus pattern (14 bp):
CCTTCCACCATCCA
Found at i:43636 original size:30 final size:30
Alignment explanation
Indices: 43564--43636 Score: 128
Period size: 30 Copynumber: 2.4 Consensus size: 30
43554 GAGACAAAAA
* *
43564 ATAGTTCGGTGGCAAGATTGATTAATGGCC
1 ATAGTTTGGTGGTAAGATTGATTAATGGCC
43594 ATAGTTTGGTGGTAAGATTGATTAATGGCC
1 ATAGTTTGGTGGTAAGATTGATTAATGGCC
43624 ATAGTTTGGTGGT
1 ATAGTTTGGTGGT
43637 CTCCCATGTA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.25, C:0.08, G:0.32, T:0.36
Consensus pattern (30 bp):
ATAGTTTGGTGGTAAGATTGATTAATGGCC
Found at i:46196 original size:12 final size:13
Alignment explanation
Indices: 46170--46202 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
46160 AAGCAAAGGC
*
46170 AATACAAATTTAA
1 AATACAAATTAAA
46183 AATA-AAATTAAA
1 AATACAAATTAAA
46195 AATACAAA
1 AATACAAA
46203 AGAACAGAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.70, C:0.06, G:0.00, T:0.24
Consensus pattern (13 bp):
AATACAAATTAAA
Found at i:51400 original size:31 final size:31
Alignment explanation
Indices: 51365--51427 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
51355 TCAATAAAGT
*
51365 TTAAAAAATTAT-AAAGTACTTATTAAATTTA
1 TTAAAAAATTATAAAAGTA-TTAATAAATTTA
* *
51396 TTAAAAGATTATAAAATTATTAATAAATTTA
1 TTAAAAAATTATAAAAGTATTAATAAATTTA
51427 T
1 T
51428 CCAAATACAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 23 0.82
32 5 0.18
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.43
Consensus pattern (31 bp):
TTAAAAAATTATAAAAGTATTAATAAATTTA
Found at i:53401 original size:33 final size:33
Alignment explanation
Indices: 53363--53444 Score: 146
Period size: 33 Copynumber: 2.5 Consensus size: 33
53353 TCATTTCATT
53363 TCATTTCATTTCTAAAATATTTTTAAAATTTAA
1 TCATTTCATTTCTAAAATATTTTTAAAATTTAA
**
53396 TCATTTCATTTCTAAAATATTTTTACTATTTAA
1 TCATTTCATTTCTAAAATATTTTTAAAATTTAA
53429 TCATTTCATTTCTAAA
1 TCATTTCATTTCTAAA
53445 TTTAATCATT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 47 1.00
ACGTcount: A:0.35, C:0.12, G:0.00, T:0.52
Consensus pattern (33 bp):
TCATTTCATTTCTAAAATATTTTTAAAATTTAA
Found at i:56200 original size:31 final size:31
Alignment explanation
Indices: 56155--56219 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
56145 AAGCTGCTCA
*
56155 CGAGCTTCAGTTCAG-GATTTCGAGTTCGAGT
1 CGAGCTCCAGTTCAGAGATTTCGAG-TCGAGT
* * *
56186 CGAGCTCCATTTCAGAGTTTTTGAGTCGAGT
1 CGAGCTCCAGTTCAGAGATTTCGAGTCGAGT
56217 CGA
1 CGA
56220 ACTCAACAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
31 22 0.76
32 7 0.24
ACGTcount: A:0.20, C:0.20, G:0.28, T:0.32
Consensus pattern (31 bp):
CGAGCTCCAGTTCAGAGATTTCGAGTCGAGT
Found at i:57211 original size:31 final size:31
Alignment explanation
Indices: 57173--57235 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
57163 CATTCATGCA
57173 TTGTTATTGGAAGAGAAGGGGAAAGGGAAGG
1 TTGTTATTGGAAGAGAAGGGGAAAGGGAAGG
57204 TTGTTATTGGAAGAGAAGGGGAAAGGGAAGG
1 TTGTTATTGGAAGAGAAGGGGAAAGGGAAGG
57235 T
1 T
57236 GATAAGTAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.35, C:0.00, G:0.44, T:0.21
Consensus pattern (31 bp):
TTGTTATTGGAAGAGAAGGGGAAAGGGAAGG
Found at i:60447 original size:23 final size:23
Alignment explanation
Indices: 60421--60468 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
60411 ATAAAGTACA
*
60421 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
60444 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
60467 AT
1 AT
60469 TTACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:60875 original size:21 final size:22
Alignment explanation
Indices: 60850--60901 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
60840 ACACTTTACA
*
60850 ATATAACCACTACCTATTACATT
1 ATATAAACA-TACCTATTACATT
60873 ATATAAACGATACCTATTACATT
1 ATATAAAC-ATACCTATTACATT
60896 ATATAA
1 ATATAA
60902 GGGCTACCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATAAACATACCTATTACATT
Found at i:60886 original size:23 final size:23
Alignment explanation
Indices: 60860--60922 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
60850 ATATAACCAC
60860 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
60883 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
60906 TACCTATTACATCATAT
1 TACCTATTACATTATAT
60923 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:61374 original size:38 final size:39
Alignment explanation
Indices: 61326--61408 Score: 141
Period size: 38 Copynumber: 2.2 Consensus size: 39
61316 AAGTTGTAGA
*
61326 TTTGATTTCCTTTTGCTTGGCATCATATGAG-ATTGGAT
1 TTTGATTTCCTTTTGCTTGGCACCATATGAGCATTGGAT
*
61364 TTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTGGAT
1 TTTGATTTCCTTTTGCTTGGCACCATATGAGCATTGGAT
61403 TTTGAT
1 TTTGAT
61409 GAGCATCGGA
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
38 30 0.71
39 12 0.29
ACGTcount: A:0.17, C:0.14, G:0.20, T:0.48
Consensus pattern (39 bp):
TTTGATTTCCTTTTGCTTGGCACCATATGAGCATTGGAT
Found at i:61717 original size:24 final size:25
Alignment explanation
Indices: 61664--61717 Score: 76
Period size: 24 Copynumber: 2.2 Consensus size: 25
61654 CGAAATATAT
61664 TGAAATTCAAACTCAAATTGAAATA
1 TGAAATTCAAACTCAAATTGAAATA
* *
61689 T-AAATTCAAACTCCAATT-ACATA
1 TGAAATTCAAACTCAAATTGAAATA
61712 TGAAAT
1 TGAAAT
61718 GAATTTGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 5 0.19
24 20 0.77
25 1 0.04
ACGTcount: A:0.50, C:0.15, G:0.06, T:0.30
Consensus pattern (25 bp):
TGAAATTCAAACTCAAATTGAAATA
Found at i:62027 original size:25 final size:25
Alignment explanation
Indices: 61993--62043 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
61983 TTTTTCCAAA
*
61993 TAATGTACCCATAACAATGTTCAAT
1 TAATGTACCCACAACAATGTTCAAT
*
62018 TAATGTACCCACAACAATGTTTAAT
1 TAATGTACCCACAACAATGTTCAAT
62043 T
1 T
62044 GATTTGTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.33
Consensus pattern (25 bp):
TAATGTACCCACAACAATGTTCAAT
Found at i:62373 original size:23 final size:22
Alignment explanation
Indices: 62311--62382 Score: 90
Period size: 23 Copynumber: 3.2 Consensus size: 22
62301 ACACTTTACA
*
62311 ATATAACCACTACCTATTACATT
1 ATATAA-CGCTACCTATTACATT
*
62334 ATATAACGATACCTATTACATT
1 ATATAACGCTACCTATTACATT
* *
62356 ATATAAGGGCTACCTATTACATC
1 ATATAA-CGCTACCTATTACATT
62379 ATAT
1 ATAT
62383 GTTTACCTAT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
22 20 0.47
23 23 0.53
ACGTcount: A:0.39, C:0.21, G:0.06, T:0.35
Consensus pattern (22 bp):
ATATAACGCTACCTATTACATT
Found at i:63156 original size:184 final size:184
Alignment explanation
Indices: 62847--63190 Score: 589
Period size: 184 Copynumber: 1.9 Consensus size: 184
62837 TTCAAATTAC
* *
62847 CGACACTTTTTTAAATGGTATCGACACATTTTTATTCCAATCTGGACATAAAGTACCGACACAAT
1 CGACACTTTTTTAAATCGTATCGACACATTTTTATTCCAATATGGACATAAAGTACCGACACAAT
* *
62912 ATTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTT
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
*
62977 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAATTT
131 ATATTACAAAATTACCTATTACATTATAATTATGGGTTCCGATGTGTAAAATTT
*
63031 CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
1 CGACACTTTTTTAAATCGTATCGACACATTTTTATTCCAATATGGACATAAAGTACCGACACAAT
*
63096 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTATATTTATACCGGTT
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
* * **
63161 ATATTGCAAATTTACCTATTTTATTATAAT
131 ATATTACAAAATTACCTATTACATTATAAT
63191 ATGTTGAAAG
Statistics
Matches: 149, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
184 149 1.00
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (184 bp):
CGACACTTTTTTAAATCGTATCGACACATTTTTATTCCAATATGGACATAAAGTACCGACACAAT
ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
ATATTACAAAATTACCTATTACATTATAATTATGGGTTCCGATGTGTAAAATTT
Found at i:64624 original size:3 final size:3
Alignment explanation
Indices: 64616--64696 Score: 72
Period size: 3 Copynumber: 27.0 Consensus size: 3
64606 ACTTGTTTGG
* * * **
64616 ATC ATC ATC TTC ATC ATC ATC ATC ATC ATC GTC ATC ATC TTC ATC GCC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* * * * *
64664 AGC TTC ATC GTC ATC ATC ATC GTC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
64697 GTCAGCTTCA
Statistics
Matches: 59, Mismatches: 19, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.23, C:0.35, G:0.06, T:0.36
Consensus pattern (3 bp):
ATC
Found at i:64633 original size:12 final size:12
Alignment explanation
Indices: 64620--64708 Score: 88
Period size: 12 Copynumber: 7.4 Consensus size: 12
64610 GTTTGGATCA
* *
64620 TCATCTTCATCA
1 TCATCGTCATCT
* *
64632 TCATCATCATCA
1 TCATCGTCATCT
* *
64644 TCGTCATCATCT
1 TCATCGTCATCT
* *
64656 TCATCGCCAGCT
1 TCATCGTCATCT
*
64668 TCATCGTCATCA
1 TCATCGTCATCT
64680 TCATCGTCATCT
1 TCATCGTCATCT
*
64692 TCATCGTCAGCT
1 TCATCGTCATCT
64704 TCATC
1 TCATC
64709 TTCTGCGACC
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 65 1.00
ACGTcount: A:0.21, C:0.35, G:0.08, T:0.36
Consensus pattern (12 bp):
TCATCGTCATCT
Found at i:64639 original size:18 final size:18
Alignment explanation
Indices: 64620--64711 Score: 76
Period size: 18 Copynumber: 5.1 Consensus size: 18
64610 GTTTGGATCA
* *
64620 TCATCTTCATCATCATCA
1 TCATCATCATCATCATCT
*
64638 TCATCATCGTCATCATCT
1 TCATCATCATCATCATCT
** * * *
64656 TCATCGCCAGCTTCATCG
1 TCATCATCATCATCATCT
*
64674 TCATCATCATCGTCATCT
1 TCATCATCATCATCATCT
* * *
64692 TCATCGTCAGCTTCATCT
1 TCATCATCATCATCATCT
64710 TC
1 TC
64712 TGCGACCGCT
Statistics
Matches: 57, Mismatches: 17, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 57 1.00
ACGTcount: A:0.21, C:0.35, G:0.08, T:0.37
Consensus pattern (18 bp):
TCATCATCATCATCATCT
Found at i:64672 original size:36 final size:36
Alignment explanation
Indices: 64632--64708 Score: 118
Period size: 36 Copynumber: 2.1 Consensus size: 36
64622 ATCTTCATCA
*
64632 TCATCATCATCATCGTCATCATCTTCATCGCCAGCT
1 TCATCATCATCATCATCATCATCTTCATCGCCAGCT
* * *
64668 TCATCGTCATCATCATCGTCATCTTCATCGTCAGCT
1 TCATCATCATCATCATCATCATCTTCATCGCCAGCT
64704 TCATC
1 TCATC
64709 TTCTGCGACC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.21, C:0.35, G:0.09, T:0.35
Consensus pattern (36 bp):
TCATCATCATCATCATCATCATCTTCATCGCCAGCT
Found at i:64711 original size:6 final size:6
Alignment explanation
Indices: 64620--64711 Score: 67
Period size: 6 Copynumber: 15.3 Consensus size: 6
64610 GTTTGGATCA
* * * * * * * *
64620 TCATCT TCATCA TCATCA TCATCA TCGTCA TCATCT TCATCG CCAGCT
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
* * * * *
64668 TCATCG TCATCA TCATCG TCATCT TCATCG TCAGCT TCATCT TC
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TC
64712 TGCGACCGCT
Statistics
Matches: 68, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
6 68 1.00
ACGTcount: A:0.21, C:0.35, G:0.08, T:0.37
Consensus pattern (6 bp):
TCATCT
Found at i:67338 original size:199 final size:199
Alignment explanation
Indices: 66171--67329 Score: 2180
Period size: 198 Copynumber: 5.8 Consensus size: 199
66161 TTTAAATTAG
66171 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
66236 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66301 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGAAA
66366 AAAA
196 AAAA
66370 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
66435 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGA-TTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
** *
66499 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGAAA
66564 AAAA
196 AAAA
66568 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
66633 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66698 CGACAC-TTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGAAA
66762 AAAA
196 AAAA
66766 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACC-GTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
66830 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
66895 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGGAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGAAA
66960 AAAA
196 AAAA
*
66964 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACTGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
67029 ATTGTACCAGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* *
67094 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGAAA
67159 AAAA
196 AAAA
67163 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
* *
67228 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGATTTTGGGA
*
67293 TTGACACTTTTTTATATATGGATCGACACTTTATGGG
130 TCGACAC-TTTTTATATATGGATCGACACTTTATGGG
67330 CACCCTGTTG
Statistics
Matches: 938, Mismatches: 17, Indels: 8
0.97 0.02 0.01
Matches are distributed among these distances:
197 76 0.08
198 432 0.46
199 380 0.41
200 21 0.02
201 29 0.03
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (199 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGAAA
AAAA
Found at i:67503 original size:19 final size:19
Alignment explanation
Indices: 67457--67505 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
67447 TTATATTCAC
*
67457 ATACAAAAATATAAATCGT
1 ATACAAAATTATAAATCGT
*
67476 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
67495 ATACAAAATTA
1 ATACAAAATTA
67506 ACTCGACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:69329 original size:33 final size:33
Alignment explanation
Indices: 69292--69357 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
69282 CATCTTAATA
*
69292 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* *
69325 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
69358 CCATCTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.23, C:0.48, G:0.00, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:69430 original size:21 final size:21
Alignment explanation
Indices: 69390--69454 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
69380 CCCCTTATGC
* *
69390 CTCTCGAGTGTATCTTCGACT
1 CTCTCGAGTTTCTCTTCGACT
*
69411 CTCTCGAGTTTCTCTACGACT
1 CTCTCGAGTTTCTCTTCGACT
* *
69432 -TGATCAAGTTTCTCTTCGACT
1 CT-CTCGAGTTTCTCTTCGACT
69453 CT
1 CT
69455 TGATTGTCTT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
20 1 0.03
21 34 0.94
22 1 0.03
ACGTcount: A:0.15, C:0.29, G:0.15, T:0.40
Consensus pattern (21 bp):
CTCTCGAGTTTCTCTTCGACT
Found at i:71703 original size:17 final size:18
Alignment explanation
Indices: 71681--71723 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
71671 ATATATCCGG
71681 TATCATT-TTACCGGTTT
1 TATCATTGTTACCGGTTT
71698 TATCATTTTGTTACCGGTTT
1 TATCA--TTGTTACCGGTTT
71718 TATCAT
1 TATCAT
71724 ATTTTTACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
17 5 0.22
18 1 0.04
19 2 0.09
20 15 0.65
ACGTcount: A:0.19, C:0.16, G:0.12, T:0.53
Consensus pattern (18 bp):
TATCATTGTTACCGGTTT
Found at i:71713 original size:20 final size:20
Alignment explanation
Indices: 71686--71732 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
71676 TCCGGTATCA
71686 TTTTACCGGTTTTATCAT-T
1 TTTTACCGGTTTTATCATAT
71705 TTGTTACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCATAT
71726 TTTTACC
1 TTTTACC
71733 TGTTATATCG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.55
Consensus pattern (20 bp):
TTTTACCGGTTTTATCATAT
Found at i:71880 original size:20 final size:20
Alignment explanation
Indices: 71854--71899 Score: 76
Period size: 20 Copynumber: 2.3 Consensus size: 20
71844 CACTTTTAAA
71854 TTTACCGGTTTTATCAT-TT
1 TTTACCGGTTTTATCATATT
71873 TGTTACCGGTTTTATCATATT
1 T-TTACCGGTTTTATCATATT
71894 TTTACC
1 TTTACC
71900 TGGTATATCG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.54
Consensus pattern (20 bp):
TTTACCGGTTTTATCATATT
Found at i:76146 original size:21 final size:21
Alignment explanation
Indices: 76122--76162 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
76112 CAGATTGCTC
76122 AGAGGGAACCGATTCCCCCCA
1 AGAGGGAACCGATTCCCCCCA
*
76143 AGAGGGTACCGATTCCCCCC
1 AGAGGGAACCGATTCCCCCC
76163 TGAATGGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.24, C:0.39, G:0.24, T:0.12
Consensus pattern (21 bp):
AGAGGGAACCGATTCCCCCCA
Found at i:81992 original size:20 final size:20
Alignment explanation
Indices: 81967--82044 Score: 70
Period size: 20 Copynumber: 3.9 Consensus size: 20
81957 TTTTGGTGCA
*
81967 GAGGGAATCGATCCCCCCAT
1 GAGGGAACCGATCCCCCCAT
* **
81987 GAGGGAACCGATTCCCCTTT
1 GAGGGAACCGATCCCCCCAT
82007 GAAGGGAACCGATTCCCCCCA-
1 G-AGGGAACCGA-TCCCCCCAT
*
82028 G-GGGAATCGATACCCCC
1 GAGGGAACCGAT-CCCCC
82045 TGGGGTTCTG
Statistics
Matches: 47, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
18 1 0.02
19 13 0.28
20 17 0.36
21 11 0.23
22 5 0.11
ACGTcount: A:0.24, C:0.35, G:0.26, T:0.15
Consensus pattern (20 bp):
GAGGGAACCGATCCCCCCAT
Found at i:82045 original size:41 final size:41
Alignment explanation
Indices: 81968--82045 Score: 97
Period size: 41 Copynumber: 1.9 Consensus size: 41
81958 TTTGGTGCAG
* *
81968 AGGGAATCGATCCCCCCATGAGGGAACCGATTCCCCTTTGA
1 AGGGAACCGATCCCCCCATGAGGGAACCGATCCCCCTTTGA
*
82009 AGGGAACCGATTCCCCCCA-G-GGGAATCGATACCCCCT
1 AGGGAACCGA-TCCCCCCATGAGGGAACCGAT-CCCCCT
82046 GGGGTTCTGT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 9 0.28
41 15 0.47
42 8 0.25
ACGTcount: A:0.24, C:0.35, G:0.24, T:0.17
Consensus pattern (41 bp):
AGGGAACCGATCCCCCCATGAGGGAACCGATCCCCCTTTGA
Found at i:94785 original size:26 final size:26
Alignment explanation
Indices: 94756--94821 Score: 118
Period size: 25 Copynumber: 2.6 Consensus size: 26
94746 ATAATATTTT
94756 CTCTAACAACAGTTTTTTTATAAGAA
1 CTCTAACAACAGTTTTTTTATAAGAA
94782 CTCTAACAACAG-TTTTTTATAAGAA
1 CTCTAACAACAGTTTTTTTATAAGAA
94807 CTCTAACAACA-TTTT
1 CTCTAACAACAGTTTT
94822 AGATGTCTAA
Statistics
Matches: 39, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
25 27 0.69
26 12 0.31
ACGTcount: A:0.38, C:0.18, G:0.06, T:0.38
Consensus pattern (26 bp):
CTCTAACAACAGTTTTTTTATAAGAA
Done.