Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003021.1 Hibiscus syriacus cultivar Beakdansim tig00006277_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: 102209
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Found at i:7456 original size:19 final size:19
Alignment explanation
Indices: 7432--7476 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
7422 TTAAAATATG
*
7432 ATTAATTT-ATTGAATATTA
1 ATTAATTTGATTCAA-ATTA
*
7451 ATTAATTTGCTTCAAATTA
1 ATTAATTTGATTCAAATTA
7470 ATTAATT
1 ATTAATT
7477 AGAGAAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 19 0.83
20 4 0.17
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.51
Consensus pattern (19 bp):
ATTAATTTGATTCAAATTA
Found at i:26290 original size:26 final size:26
Alignment explanation
Indices: 26238--26330 Score: 68
Period size: 26 Copynumber: 3.5 Consensus size: 26
26228 ATGATAGAAT
*
26238 AAAAGAAAATAATGTA-ACAAAGAAAAGA
1 AAAAGAAAAAAATG-ACA-AAAG-AAAGA
26266 AAAAGAAAAAAATGACAAAAGAAAGTA
1 AAAAGAAAAAAATGACAAAAGAAAG-A
*
26293 AAAA-AAACAAAA--ACAAAAAATAAGA
1 AAAAGAAA-AAAATGACAAAAGA-AAGA
*
26318 AAAATAACAAAAA
1 AAAAGAA-AAAAA
26331 AAATTATAAT
Statistics
Matches: 57, Mismatches: 2, Indels: 14
0.78 0.03 0.19
Matches are distributed among these distances:
25 12 0.21
26 16 0.28
27 15 0.26
28 14 0.25
ACGTcount: A:0.77, C:0.05, G:0.10, T:0.08
Consensus pattern (26 bp):
AAAAGAAAAAAATGACAAAAGAAAGA
Found at i:26302 original size:19 final size:19
Alignment explanation
Indices: 26267--26304 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
26257 AAGAAAAGAA
26267 AAAGAAAAAAATGACAAAAG
1 AAAGAAAAAAA-GACAAAAG
26287 AAAGTAAAAAAA-ACAAAA
1 AAAG-AAAAAAAGACAAAA
26305 ACAAAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 6 0.35
20 4 0.24
21 7 0.41
ACGTcount: A:0.79, C:0.05, G:0.11, T:0.05
Consensus pattern (19 bp):
AAAGAAAAAAAGACAAAAG
Found at i:26308 original size:25 final size:25
Alignment explanation
Indices: 26253--26330 Score: 72
Period size: 25 Copynumber: 3.1 Consensus size: 25
26243 AAAATAATGT
*
26253 AACAAAGAA-AAGAAAAAGAAA-AAA
1 AACAAAAAATAAGAAAAA-AAACAAA
*
26277 ATGACAAAAGA-AAGTAAAAAAAACAAA
1 A--ACAAAAAATAAG-AAAAAAAACAAA
*
26304 AACAAAAAATAAGAAAAATAACAAA
1 AACAAAAAATAAGAAAAAAAACAAA
26329 AA
1 AA
26331 AAATTATAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 9
0.78 0.07 0.16
Matches are distributed among these distances:
24 1 0.02
25 20 0.44
26 15 0.33
27 9 0.20
ACGTcount: A:0.79, C:0.06, G:0.09, T:0.05
Consensus pattern (25 bp):
AACAAAAAATAAGAAAAAAAACAAA
Found at i:26331 original size:26 final size:25
Alignment explanation
Indices: 26253--26331 Score: 72
Period size: 26 Copynumber: 3.1 Consensus size: 25
26243 AAAATAATGT
*
26253 AACAAAGAAAAGAAAAAGAAA-AAAA
1 AACAAAAAAAAGAAAAA-AAACAAAA
* *
26278 TGACAAAAGAAAGTAAAAAAAAC-AAA
1 -AACAAAAAAAAG-AAAAAAAACAAAA
*
26304 AACAAAAAATAAGAAAAATAACAAAA
1 AACAAAAAA-AAGAAAAAAAACAAAA
26330 AA
1 AA
26332 AATTATAATA
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
25 15 0.35
26 23 0.53
27 5 0.12
ACGTcount: A:0.80, C:0.06, G:0.09, T:0.05
Consensus pattern (25 bp):
AACAAAAAAAAGAAAAAAAACAAAA
Found at i:30480 original size:167 final size:167
Alignment explanation
Indices: 30199--30499 Score: 512
Period size: 167 Copynumber: 1.8 Consensus size: 167
30189 GATTTTCTTG
* * *
30199 CCTCTCTTTCGATGTCATTAAATATGGTTTCCCATATGTTTCCTAATTTCTAAGGTAAGGATAAA
1 CCTCTCTTTCGATGTCATTAAATATGGTTTCCCATATGCTTCCTAATTTCGAAGGTAAGGAGAAA
* *
30264 TGTCAAAATCAAGGTTAGCGGGTGTAATCTCGTAATGCATATAGACTGATAAATGACGTTGATTC
66 TGTCAAAATCAAGGTCAGCGGGTGTAATCTCGTAACGCATATAGACTGATAAATGACGTTGATTC
30329 CATTTGTGAATTTGGCCTTCCCTCGCTCCCATTATTC
131 CATTTGTGAATTTGGCCTTCCCTCGCTCCCATTATTC
* *
30366 CCTCTCTTTCGATGTCATTAAATATGGTTTCCCATTTGCTTCCTAATTTCGGAGGTAAGGAGAAA
1 CCTCTCTTTCGATGTCATTAAATATGGTTTCCCATATGCTTCCTAATTTCGAAGGTAAGGAGAAA
* * *
30431 TGTCGAAATCAAGGTCAGCTGGTGTAATCTCGTAACGCATATGGACTGATAAATGACGTTGATTC
66 TGTCAAAATCAAGGTCAGCGGGTGTAATCTCGTAACGCATATAGACTGATAAATGACGTTGATTC
30496 CATT
131 CATT
30500 GGTCAATGTA
Statistics
Matches: 124, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
167 124 1.00
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (167 bp):
CCTCTCTTTCGATGTCATTAAATATGGTTTCCCATATGCTTCCTAATTTCGAAGGTAAGGAGAAA
TGTCAAAATCAAGGTCAGCGGGTGTAATCTCGTAACGCATATAGACTGATAAATGACGTTGATTC
CATTTGTGAATTTGGCCTTCCCTCGCTCCCATTATTC
Found at i:31342 original size:32 final size:33
Alignment explanation
Indices: 31287--31353 Score: 84
Period size: 32 Copynumber: 2.1 Consensus size: 33
31277 AGAAATATAA
* *
31287 TTTTTGAAAGTTTAGTAGTCAAAGT-ATAATTT
1 TTTTTGAAAGTTTAGGAGCCAAAGTGATAATTT
*
31319 TTTTTGAAAGTTTAGG-GACCAAAGTGGTAATTT
1 TTTTTGAAAGTTTAGGAG-CCAAAGTGATAATTT
31352 TT
1 TT
31354 CCAAAAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
31 1 0.03
32 21 0.70
33 8 0.27
ACGTcount: A:0.31, C:0.04, G:0.19, T:0.45
Consensus pattern (33 bp):
TTTTTGAAAGTTTAGGAGCCAAAGTGATAATTT
Found at i:34078 original size:36 final size:36
Alignment explanation
Indices: 34038--34199 Score: 166
Period size: 36 Copynumber: 4.5 Consensus size: 36
34028 TAACATATTT
* *
34038 AGTGCCATGTGATTGTACCATAGGTGTGGCACATTC
1 AGTGCCATGTGATTGTACCATAGGTGCGACACATTC
* * * *
34074 AGTGCCCTATGATTGCACCATAGGTGC-AGCATACTT-
1 AGTGCCATGTGATTGTACCATAGGTGCGA-CACA-TTC
* * * * *
34110 AGGGCCATATGATTGTACCGTAGATGCGACACATTT
1 AGTGCCATGTGATTGTACCATAGGTGCGACACATTC
* *
34146 AGTGTCATGTGATTGAACCATAGGTGCGACACATTC
1 AGTGCCATGTGATTGTACCATAGGTGCGACACATTC
*
34182 AGTGCCATGTGAATGTAC
1 AGTGCCATGTGATTGTAC
34200 ATGTATTGTA
Statistics
Matches: 100, Mismatches: 22, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
35 2 0.02
36 95 0.95
37 3 0.03
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.28
Consensus pattern (36 bp):
AGTGCCATGTGATTGTACCATAGGTGCGACACATTC
Found at i:38031 original size:24 final size:24
Alignment explanation
Indices: 37999--38058 Score: 93
Period size: 24 Copynumber: 2.5 Consensus size: 24
37989 TCGATCAATC
37999 TTGTATTAGTGCATTCGTGCACTA
1 TTGTATTAGTGCATTCGTGCACTA
* *
38023 TTGTATTAGTGCATTTGTGCACTC
1 TTGTATTAGTGCATTCGTGCACTA
*
38047 CTGTATTAGTGC
1 TTGTATTAGTGC
38059 TCTTGTGTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.18, C:0.17, G:0.22, T:0.43
Consensus pattern (24 bp):
TTGTATTAGTGCATTCGTGCACTA
Found at i:38101 original size:24 final size:24
Alignment explanation
Indices: 38045--38116 Score: 69
Period size: 24 Copynumber: 3.0 Consensus size: 24
38035 ATTTGTGCAC
*
38045 TCCTGTATTAGTGCTC-TTGTGTAA
1 TCCTGTATTAGTAC-CATTGTGTAA
*
38069 T-CTCATATTAGTACCATTGTGTAA
1 TCCT-GTATTAGTACCATTGTGTAA
38093 TCCTGTATTTAGTA-CATTCGTGTA
1 TCCTGTA-TTAGTACCATT-GTGTA
38117 CTTCTGGCGC
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
23 3 0.08
24 24 0.60
25 13 0.32
ACGTcount: A:0.22, C:0.17, G:0.17, T:0.44
Consensus pattern (24 bp):
TCCTGTATTAGTACCATTGTGTAA
Found at i:38350 original size:33 final size:31
Alignment explanation
Indices: 38321--38381 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
38311 GTTATGAGAT
* *
38321 GTGAATATGTGAAAAATACAGGTTATATGAA
1 GTGAATATGTGAAAAATACAAGTGATATGAA
*
38352 GTGAATATGTGAAAAGTACAAGTGATATGA
1 GTGAATATGTGAAAAATACAAGTGATATGA
38382 TTTAAATGAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.44, C:0.03, G:0.25, T:0.28
Consensus pattern (31 bp):
GTGAATATGTGAAAAATACAAGTGATATGAA
Found at i:39160 original size:37 final size:37
Alignment explanation
Indices: 39110--39185 Score: 134
Period size: 37 Copynumber: 2.1 Consensus size: 37
39100 ACTGAATTTC
*
39110 AAATAGTATATGTTTTAAACTTTGATGTGACATCTCT
1 AAATAGTATATGTTTTAAACTTTGATATGACATCTCT
*
39147 AAATAGTATATGTTTTAAATTTTGATATGACATCTCT
1 AAATAGTATATGTTTTAAACTTTGATATGACATCTCT
39184 AA
1 AA
39186 CTCGTATTCA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.36, C:0.09, G:0.12, T:0.43
Consensus pattern (37 bp):
AAATAGTATATGTTTTAAACTTTGATATGACATCTCT
Found at i:46443 original size:48 final size:48
Alignment explanation
Indices: 46371--46486 Score: 151
Period size: 48 Copynumber: 2.4 Consensus size: 48
46361 ACAAAATGCC
* * *
46371 CATAGCTTGTCCATAAATGGTGGCACTGACATTGAGAAACAAGATGTA
1 CATAGCTCGACCATAAATGATGGCACTGACATTGAGAAACAAGATGTA
* * *
46419 CATAGCTCGACCATTAATGATGGCACTGACATTGAGGAACAAGATGTG
1 CATAGCTCGACCATAAATGATGGCACTGACATTGAGAAACAAGATGTA
* * *
46467 TATAGCCCGACCGTAAATGA
1 CATAGCTCGACCATAAATGA
46487 AGACGTTGAA
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 58 1.00
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.23
Consensus pattern (48 bp):
CATAGCTCGACCATAAATGATGGCACTGACATTGAGAAACAAGATGTA
Found at i:49944 original size:45 final size:45
Alignment explanation
Indices: 49850--49947 Score: 115
Period size: 45 Copynumber: 2.2 Consensus size: 45
49840 GGGTAGACTT
* * * * **
49850 GGGTCACATAGAATCAATATCTCTCAAGTATCTCAGGTGAGGTTT
1 GGGTCACATAGAATCAAGACCTCTCAAGTATCTAAAGTGAGGTCC
* * *
49895 GGGTCACATAGCATCGAGACCTCTCAAGTATCTAAAGTTAGGTCC
1 GGGTCACATAGAATCAAGACCTCTCAAGTATCTAAAGTGAGGTCC
49940 GGGTCACA
1 GGGTCACA
49948 CAACATCAGC
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (45 bp):
GGGTCACATAGAATCAAGACCTCTCAAGTATCTAAAGTGAGGTCC
Found at i:51622 original size:130 final size:130
Alignment explanation
Indices: 51481--51728 Score: 424
Period size: 130 Copynumber: 1.9 Consensus size: 130
51471 TATTTATATA
*
51481 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTG
* * *
51546 TTAGCACATGATCATGACACGTGTCATTGGTGACACGTGTTACCACCTAATTATTTATATATGCT
66 TTAACACATGATCATGACACGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
51611 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTG
* * * *
51676 TTAACACATGATCATGATATGTGTTATTGGTGACACATGTCACCTCCTAATTA
66 TTAACACATGATCATGACACGTGTCATTGGTGACACATGTCACCACCTAATTA
51729 GAAGAAAATT
Statistics
Matches: 110, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
130 110 1.00
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (130 bp):
ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTG
TTAACACATGATCATGACACGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
Found at i:51759 original size:130 final size:129
Alignment explanation
Indices: 51495--51759 Score: 309
Period size: 130 Copynumber: 2.0 Consensus size: 129
51485 ATTTGGTCCT
* *
51495 AAATTAAATAAAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTGTTAGCACATGATCA
1 AAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTGTTAACACATGATCA
* * *** * * **** *
51560 TGACACGTGTCATTGGTGACACGTGTTACCACCTAATTATTTATATATGCTATCAATTTGGTCCT
66 TGACACGTGTCATTGGTGACACATGTCACCACCTAATTAAGAAAATAAGCTATCAAAGAAGT-CA
51625 AAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTGTTAACACATGATCA
1 AAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTGTTAACACATGATCA
* * * * *
51690 TGATATGTGTTATTGGTGACACATGTCACCTCCTAATTAGAAGAAAATTAAGTTA-CAAAGAAGT
66 TGACACGTGTCATTGGTGACACATGTCACCACCTAATT--AAGAAAA-TAAGCTATCAAAGAAGT
51754 -A
128 CA
51755 AAATT
1 AAATT
51760 TGGGTCTTGG
Statistics
Matches: 113, Mismatches: 19, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
130 100 0.88
132 8 0.07
133 5 0.04
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.35
Consensus pattern (129 bp):
AAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTGTTAACACATGATCA
TGACACGTGTCATTGGTGACACATGTCACCACCTAATTAAGAAAATAAGCTATCAAAGAAGTCA
Found at i:52037 original size:27 final size:26
Alignment explanation
Indices: 51967--52042 Score: 70
Period size: 27 Copynumber: 2.9 Consensus size: 26
51957 AAATGATGGG
51967 AAAA-AAATATCTGATA---TTTTTT
1 AAAATAAATATCTGATATTTTTTTTT
*
51989 AAAATAAGAAGTATACTAATATTTTTTTGTT
1 AAAAT-A-AA-TAT-CTGATATTTTTTT-TT
52020 AAAATAAATATCTGATATTTTTT
1 AAAATAAATATCTGATATTTTTT
52043 ACAACACTAT
Statistics
Matches: 43, Mismatches: 2, Indels: 13
0.74 0.03 0.22
Matches are distributed among these distances:
22 4 0.09
24 1 0.02
25 2 0.05
26 3 0.07
27 16 0.37
28 3 0.07
29 2 0.05
30 5 0.12
31 7 0.16
ACGTcount: A:0.43, C:0.04, G:0.07, T:0.46
Consensus pattern (26 bp):
AAAATAAATATCTGATATTTTTTTTT
Found at i:53219 original size:118 final size:116
Alignment explanation
Indices: 53021--53236 Score: 299
Period size: 118 Copynumber: 1.8 Consensus size: 116
53011 CCCTCTATAG
* * * *
53021 TTTCTCTCATTTATATTTTAGACAAATAATGTTTCGGTTTTAGTGGACATGGCTAAATTACACTG
1 TTTCTCCCATTTAGATTTTAGACAAATAATGTTTCGGTTTTAATGGACATGGCTAAATTACACTA
*
53086 CCCCATAATTTTGTTTTAATTTAAATGGTCAAATTCGTAAACCCCCCATAA
66 CCCCATAATTTTGTTTTAATATAAATGGTCAAATTCGTAAACCCCCCATAA
* **
53137 TTTCTCCCATTTAGATTTTAGACAAATGTATGTTTTTTGTTTTAATAGG-CATGGCTAAATTACA
1 TTTCTCCCATTTAGATTTTAGACAAAT-AATG-TTTCGGTTTTAAT-GGACATGGCTAAATTACA
* * *
53201 CTACTCTATACTTTTGTTTTAATATAAATGGTCAAA
63 CTACCCCATAATTTTGTTTTAATATAAATGGTCAAA
53237 ATTCATACAA
Statistics
Matches: 86, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
116 25 0.29
117 3 0.03
118 56 0.65
119 2 0.02
ACGTcount: A:0.30, C:0.16, G:0.12, T:0.42
Consensus pattern (116 bp):
TTTCTCCCATTTAGATTTTAGACAAATAATGTTTCGGTTTTAATGGACATGGCTAAATTACACTA
CCCCATAATTTTGTTTTAATATAAATGGTCAAATTCGTAAACCCCCCATAA
Found at i:61279 original size:33 final size:33
Alignment explanation
Indices: 61242--61322 Score: 146
Period size: 33 Copynumber: 2.5 Consensus size: 33
61232 GTCATCCTCA
61242 TCTTCCTCATCCTTTTTATCAAAAACACTGTAT
1 TCTTCCTCATCCTTTTTATCAAAAACACTGTAT
*
61275 TCTTCCTCATCCTTTTTATCAAAAACATTGTAT
1 TCTTCCTCATCCTTTTTATCAAAAACACTGTAT
61308 TCTTCCTCAT-CTTTT
1 TCTTCCTCATCCTTTT
61323 GTTGTTGCAT
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 5 0.11
33 42 0.89
ACGTcount: A:0.23, C:0.27, G:0.02, T:0.47
Consensus pattern (33 bp):
TCTTCCTCATCCTTTTTATCAAAAACACTGTAT
Found at i:70263 original size:20 final size:22
Alignment explanation
Indices: 70237--70296 Score: 79
Period size: 20 Copynumber: 2.8 Consensus size: 22
70227 ACATTCACAA
*
70237 TGGTATCGATACTCCTCTC-TG
1 TGGTATCGATACTCCCCTCATG
70258 -GGTATCGATACTCCCCTCATG
1 TGGTATCGATACTCCCCTCATG
*
70279 TGGTATCGACACTTCCCC
1 TGGTATCGATAC-TCCCC
70297 AAGTATCAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
20 17 0.50
21 2 0.06
22 10 0.29
23 5 0.15
ACGTcount: A:0.17, C:0.33, G:0.18, T:0.32
Consensus pattern (22 bp):
TGGTATCGATACTCCCCTCATG
Found at i:70573 original size:20 final size:20
Alignment explanation
Indices: 70545--70582 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
70535 TCTGATCAAG
*
70545 GCCCTGAGTATCGATACTAA
1 GCCCCGAGTATCGATACTAA
70565 GCCCCGAGTATCGATACT
1 GCCCCGAGTATCGATACT
70583 TTGTCTTAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (20 bp):
GCCCCGAGTATCGATACTAA
Found at i:75094 original size:27 final size:27
Alignment explanation
Indices: 75059--75118 Score: 95
Period size: 27 Copynumber: 2.3 Consensus size: 27
75049 TTAATGAATA
75059 TTTAATTCAGAATAATTAAATAAGATT
1 TTTAATTCAGAATAATTAAATAAGATT
* *
75086 TTTATTTCAGAATAATTAAATCAGA-T
1 TTTAATTCAGAATAATTAAATAAGATT
75112 TTTAATT
1 TTTAATT
75119 AATTCAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 7 0.23
27 23 0.77
ACGTcount: A:0.43, C:0.05, G:0.07, T:0.45
Consensus pattern (27 bp):
TTTAATTCAGAATAATTAAATAAGATT
Found at i:79009 original size:18 final size:22
Alignment explanation
Indices: 78958--79009 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 22
78948 ACTTTCCTGA
78958 GAGTATCGATACTCCTCCATCT
1 GAGTATCGATACTCCTCCATCT
* *
78980 GGGTATCCATACT-C-CC-T-T
1 GAGTATCGATACTCCTCCATCT
78998 GAGTATCGATAC
1 GAGTATCGATAC
79010 CAAAATTACC
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
18 11 0.42
19 1 0.04
20 2 0.08
21 1 0.04
22 11 0.42
ACGTcount: A:0.23, C:0.29, G:0.17, T:0.31
Consensus pattern (22 bp):
GAGTATCGATACTCCTCCATCT
Found at i:86146 original size:144 final size:143
Alignment explanation
Indices: 85923--86181 Score: 362
Period size: 144 Copynumber: 1.8 Consensus size: 143
85913 ATATATCTTT
* * * * *
85923 TATATTTTATAAATATGATATTTATTTACTTAGAAATATCAGAAAATGACTTCTAGTTGCTTTAA
1 TATAATTTATAAATAGGATATTTAGTTACTTAAAAATATCAGAAAAGGACTTCTAGTTGCTTTAA
* *
85988 GACAACCCCTTTC-TTAATATTAAAAAATAAATAAATATTAATAA-AATATTTCTCTAAAAATAA
66 GACAACCCATTTCTTTAATATT-AAAAATAAATAAATATTAAGAATAATATTTCTCTAAAAATAA
86051 ATTAAATTAATATA
130 ATTAAATTAATATA
* *
86065 TATAATTTATAAAAGTAGGATATTTAGTTATTTAAAAATATCATAAAAGGA-TATCTAGTTGCTT
1 TATAATTTAT-AAA-TAGGATATTTAGTTACTTAAAAATATCAGAAAAGGACT-TCTAGTTGCTT
* *
86129 TAAGACAACTCATTTCTTTGATATTAAAAATAAATAAATATTAAGAATAATAT
63 TAAGACAACCCATTTCTTTAATATTAAAAATAAATAAATATTAAGAATAATAT
86182 AATATTTTTT
Statistics
Matches: 101, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
142 9 0.09
143 4 0.04
144 76 0.75
145 12 0.12
ACGTcount: A:0.46, C:0.08, G:0.07, T:0.39
Consensus pattern (143 bp):
TATAATTTATAAATAGGATATTTAGTTACTTAAAAATATCAGAAAAGGACTTCTAGTTGCTTTAA
GACAACCCATTTCTTTAATATTAAAAATAAATAAATATTAAGAATAATATTTCTCTAAAAATAAA
TTAAATTAATATA
Found at i:86171 original size:17 final size:17
Alignment explanation
Indices: 86149--86187 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
86139 CATTTCTTTG
86149 ATATTAAAAATAA-ATAA
1 ATATTAAAAATAATAT-A
*
86166 ATATTAAGAATAATATA
1 ATATTAAAAATAATATA
86183 ATATT
1 ATATT
86188 TTTTCTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 18 0.90
18 2 0.10
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (17 bp):
ATATTAAAAATAATATA
Found at i:88225 original size:139 final size:134
Alignment explanation
Indices: 87912--88517 Score: 518
Period size: 122 Copynumber: 4.7 Consensus size: 134
87902 AATCTGGCAA
* *
87912 AAGGTTGAACAAGTTATTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAAATGAGTTCTTCTCATTAT
* * * *
87977 GAACTCCTTCTGCAAATGATG-TCCCTCAAAAGAGGAGTTAACTCAACTTCATATGTGATGAATT
66 GAACTCC-TCTGGAAATGTTGATCCCTCAAAAGAGGAGTTAACTCAACTCCATATGTGATGAATC
88041 AAGAT
130 AAGAT
* * *
88046 AAGGTTGAATAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAAATGAGTTCTTCTCGTCAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAAATGAGTTCTTCTCATTAT
* ** ** * *
88111 GAAATTCCTCTGGAAATGTTGAT-CCTCAAGTGAGGTTCTTCTTTCATTCAACTCCATA-GATGA
66 G-AACTCCTCTGGAAATGTTGATCCCTCAAAAGAGG-----AGTTAACTCAACTCCATATG-TGA
*
88174 TGAATCAAGCT
124 TGAATCAAGAT
* * * *
88185 AAGGTCGAACAAGTTCTTCTTATTATGAACTTCTTATTCCTCTTCAAATGACTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAAATGAGTTCTTCTCATTAT
* ** * * *
88250 GAGCTCCTCTGGAAATGTTGA----T-----GTTGA--T--CT-ATCTCCTTATGTGATAGAGTC
66 GAACTCCTCTGGAAATGTTGATCCCTCAAAAGAGGAGTTAACTCAACTCCATATGTGAT-GAATC
* *
88301 GAACAA
130 -AAGAT
*
88307 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTCTTCAAATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAAATGAGTTCTTCTCATTAT
* * * * * * *
88372 GAGCTCCTCTGGAAA---TG-T---T--AATGATGA--T--CT-ATCTCCTTCTGTGATAGAGTC
66 GAACTCCTCTGGAAATGTTGATCCCTCAAAAGAGGAGTTAACTCAACTCCATATGTGAT-GAATC
* *
88423 GAGCAA
130 AAG-AT
*
88429 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAAATGAGTTCTTCTCATTAT
*
88494 GAACTCTTCTGGAAATGTTGATCC
66 GAACTCCTCTGGAAATGTTGATCC
88518 ATCGAGTGAT
Statistics
Matches: 401, Mismatches: 49, Indels: 50
0.80 0.10 0.10
Matches are distributed among these distances:
119 3 0.01
120 11 0.03
121 7 0.02
122 182 0.45
123 1 0.00
125 2 0.00
126 1 0.00
130 2 0.00
134 82 0.20
135 7 0.02
138 19 0.05
139 84 0.21
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.38
Consensus pattern (134 bp):
AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAAATGAGTTCTTCTCATTAT
GAACTCCTCTGGAAATGTTGATCCCTCAAAAGAGGAGTTAACTCAACTCCATATGTGATGAATCA
AGAT
Found at i:88324 original size:122 final size:122
Alignment explanation
Indices: 88185--88515 Score: 554
Period size: 122 Copynumber: 2.7 Consensus size: 122
88175 GAATCAAGCT
* * * *
88185 AAGGTCGAACAAGTTCTTCTTATTATGAACTTCTTATTCCTCTTCAAATGACTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAAATGAGTTCTTCTCATTAT
*
88250 GAGCTCCTCTGGAAATGTTGATGTTGATCTATCTCCTTATGTGATAGAGTCGAACAA
66 GAGCTCCTCTGGAAATGTTGATGATGATCTATCTCCTTATGTGATAGAGTCGAACAA
*
88307 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTCTTCAAATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAAATGAGTTCTTCTCATTAT
* * *
88372 GAGCTCCTCTGGAAATGTTAATGATGATCTATCTCCTTCTGTGATAGAGTCGAGCAA
66 GAGCTCCTCTGGAAATGTTGATGATGATCTATCTCCTTATGTGATAGAGTCGAACAA
*
88429 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAAATGAGTTCTTCTCATTAT
* *
88494 GAACTCTTCTGGAAATGTTGAT
66 GAGCTCCTCTGGAAATGTTGAT
88516 CCATCGAGTG
Statistics
Matches: 195, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
122 195 1.00
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.39
Consensus pattern (122 bp):
AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAAATGAGTTCTTCTCATTAT
GAGCTCCTCTGGAAATGTTGATGATGATCTATCTCCTTATGTGATAGAGTCGAACAA
Found at i:88748 original size:36 final size:35
Alignment explanation
Indices: 88708--89040 Score: 147
Period size: 36 Copynumber: 9.2 Consensus size: 35
88698 AGTGAAATTG
* *
88708 TCTCAAGCGAGACACAGTTTGTTTTAAGAAAAACAA
1 TCTCAAGCGAGAAACA-ATTGTTTTAAGAAAAACAA
* * ** **
88744 TCTCAAGTGAGATA-AATTGCTATTTCAAGTGAAACTT
1 TCTCAAGCGAGAAACAATTG-T-TTT-AAGAAAAACAA
*
88781 TCTCCAGCGAGAAACAACTTGTTTTAAGAAAAACAA
1 TCTCAAGCGAGAAACAA-TTGTTTTAAGAAAAACAA
* * ** **
88817 TCTCAAGTGAGATA-AATTGCTATTTCAAGTGAAACGT
1 TCTCAAGCGAGAAACAATTG-T-TTT-AAGAAAAACAA
*
88854 TCTCCAGCGAGAAACAACTTGTTTTAAGAAAAACAA
1 TCTCAAGCGAGAAACAA-TTGTTTTAAGAAAAACAA
* * * ** ** **
88890 TCTCAAGTGAGATA-AATTACTAGTTCGAGTGAAACTT
1 TCTCAAGCGAGAAACAATT-GT--TTTAAGAAAAACAA
*
88927 TCTCCAA-CGAGAAATAATTTGTTTTAAGAAAAACAA
1 TCT-CAAGCGAGAAACAA-TTGTTTTAAGAAAAACAA
* * * ** **
88963 TCTCAAGTGAGATA-AATTGCTATTTCGAGTGAAACTT
1 TCTCAAGCGAGAAACAATTG-T-TTT-AAGAAAAACAA
* *
89000 TCTCCAA-CGAGAAACAGTTTTTTTAAGAAAAACAA
1 TCT-CAAGCGAGAAACAATTGTTTTAAGAAAAACAA
89035 TCTCAA
1 TCTCAA
89041 ATGAGATAAA
Statistics
Matches: 212, Mismatches: 63, Indels: 46
0.66 0.20 0.14
Matches are distributed among these distances:
34 14 0.07
35 23 0.11
36 76 0.36
37 73 0.34
38 18 0.08
39 8 0.04
ACGTcount: A:0.40, C:0.16, G:0.15, T:0.29
Consensus pattern (35 bp):
TCTCAAGCGAGAAACAATTGTTTTAAGAAAAACAA
Found at i:88754 original size:73 final size:73
Alignment explanation
Indices: 88522--89050 Score: 502
Period size: 73 Copynumber: 7.2 Consensus size: 73
88512 TGATCCATCG
* * * * *
88522 AGTGATGA-AAATTTCTGTTTCTAGTGAAACTGTCTCAACCGAGACA-AATCTTGTTTTAAGAAA
1 AGTGA-GATAAATTGCTGTTTCAAGTGAAATTGTCTCAAGCGAGAAACAAT-TTGTTTTAAG--A
* * **
88585 AAAACTATTTTG
62 AAAACAATCTCA
* * *** * **
88597 AGTGAGATAAAATTTCTTGTTTCAAGTGAAAGAATTGTTTCAAGCGAGACAATTCTTTGCTTTGG
1 AGTGAGAT-AAATTGC-TGTTTCAAGTG--A-AATTGTCTCAAGCGAGA-AACAATTTGTTTTAA
* *
88662 GAAAAACTATCTCG
60 GAAAAACAATCTCA
* * * *
88676 AGTGAGATAAATTTCTGTTTCGAGTGAAATTGTCTCAAGCGAGACACAGTTTGTTTTAAGAAAAA
1 AGTGAGATAAATTGCTGTTTCAAGTGAAATTGTCTCAAGCGAGAAACAATTTGTTTTAAGAAAAA
88741 CAATCTCA
66 CAATCTCA
* * *
88749 AGTGAGATAAATTGCTATTTCAAGTGAAACTT-TCTCCAGCGAGAAACAACTTGTTTTAAGAAAA
1 AGTGAGATAAATTGCTGTTTCAAGTGAAA-TTGTCTCAAGCGAGAAACAATTTGTTTTAAGAAAA
88813 ACAATCTCA
65 ACAATCTCA
* * * *
88822 AGTGAGATAAATTGCTATTTCAAGTGAAA-CGTTCTCCAGCGAGAAACAACTTGTTTTAAGAAAA
1 AGTGAGATAAATTGCTGTTTCAAGTGAAATTG-TCTCAAGCGAGAAACAATTTGTTTTAAGAAAA
88886 ACAATCTCA
65 ACAATCTCA
* * *
88895 AGTGAGATAAATTACTAG-TTCGAGTGAAACTT-TCTCCAA-CGAGAAATAATTTGTTTTAAGAA
1 AGTGAGATAAATTGCT-GTTTCAAGTGAAA-TTGTCT-CAAGCGAGAAACAATTTGTTTTAAGAA
88957 AAACAATCTCA
63 AAACAATCTCA
* * *
88968 AGTGAGATAAATTGCTATTTCGAGTGAAACTT-TCTCCAA-CGAGAAACAGTTT-TTTTAAGAAA
1 AGTGAGATAAATTGCTGTTTCAAGTGAAA-TTGTCT-CAAGCGAGAAACAATTTGTTTTAAGAAA
89030 AACAATCTCA
64 AACAATCTCA
*
89040 AATGAGATAAA
1 AGTGAGATAAA
89051 ATTTATTTGA
Statistics
Matches: 395, Mismatches: 43, Indels: 35
0.84 0.09 0.07
Matches are distributed among these distances:
72 30 0.08
73 260 0.66
74 22 0.06
75 6 0.02
76 7 0.02
77 20 0.05
78 7 0.02
79 20 0.05
80 14 0.04
81 8 0.02
82 1 0.00
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (73 bp):
AGTGAGATAAATTGCTGTTTCAAGTGAAATTGTCTCAAGCGAGAAACAATTTGTTTTAAGAAAAA
CAATCTCA
Found at i:88863 original size:146 final size:146
Alignment explanation
Indices: 88662--89050 Score: 593
Period size: 146 Copynumber: 2.7 Consensus size: 146
88652 TTTGCTTTGG
* * * * * *
88662 GAAAAACTATCTCGAGTGAGATAAATTTCTGTTTCGAGTGAAA-TTGTCTCAAGCGAGACACAGT
1 GAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAAACTT-TCTCCAGCGAGAAACAGT
* * *
88726 TTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAACTTTCTCCAGCGA
65 TTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTACTAGTTCAAGTGAAACTTTCTCCAACGA
88791 GAAACAACTTGTTTTAA
130 GAAACAACTTGTTTTAA
* * **
88808 GAAAAACAATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAACGTTCTCCAGCGAGAAACAACT
1 GAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAAACTTTCTCCAGCGAGAAACAGTT
*
88873 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTACTAGTTCGAGTGAAACTTTCTCCAACGAG
66 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTACTAGTTCAAGTGAAACTTTCTCCAACGAG
* *
88938 AAATAATTTGTTTTAA
131 AAACAACTTGTTTTAA
*
88954 GAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAAACTTTCTCCAACGAGAAACAGTT
1 GAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAAACTTTCTCCAGCGAGAAACAGTT
*
89019 T-TTTTAAGAAAAACAATCTCAAATGAGATAAA
66 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAA
89051 ATTTATTTGA
Statistics
Matches: 220, Mismatches: 22, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
145 30 0.14
146 189 0.86
147 1 0.00
ACGTcount: A:0.40, C:0.15, G:0.16, T:0.29
Consensus pattern (146 bp):
GAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAAACTTTCTCCAGCGAGAAACAGTT
TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTACTAGTTCAAGTGAAACTTTCTCCAACGAG
AAACAACTTGTTTTAA
Found at i:89053 original size:73 final size:72
Alignment explanation
Indices: 88662--89050 Score: 539
Period size: 73 Copynumber: 5.3 Consensus size: 72
88652 TTTGCTTTGG
* * * * * *
88662 GAAAAACTATCTCGAGTGAGATAAATTTCTGTTTCGAGTGAAA-TTGTCT-CAAGCGAGACACAG
1 GAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAAACTT-TCTCCAA-CGAGAAACAC
88725 TTTGTTTTAA
64 TTT-TTTTAA
* *
88735 GAAAAACAATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAACTTTCTCCAGCGAGAAACAACT
1 GAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAAACTTTCTCCAACGAGAAAC-ACT
*
88800 TGTTTTAA
65 TTTTTTAA
* * *
88808 GAAAAACAATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAACGTTCTCCAGCGAGAAACAACT
1 GAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAAACTTTCTCCAACGAGAAAC-ACT
*
88873 TGTTTTAA
65 TTTTTTAA
* * * *
88881 GAAAAACAATCTCAAGTGAGATAAATTACTAGTTCGAGTGAAACTTTCTCCAACGAGAAATAATT
1 GAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAAACTTTCTCCAACGAGAAACACTT
88946 TGTTTTAA
66 T-TTTTAA
*
88954 GAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAAACTTTCTCCAACGAGAAACAGTT
1 GAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAAACTTTCTCCAACGAGAAACACTT
89019 TTTTTAA
66 TTTTTAA
*
89026 GAAAAACAATCTCAAATGAGATAAA
1 GAAAAACAATCTCAAGTGAGATAAA
89051 ATTTATTTGA
Statistics
Matches: 289, Mismatches: 23, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
72 33 0.11
73 249 0.86
74 7 0.02
ACGTcount: A:0.40, C:0.15, G:0.16, T:0.29
Consensus pattern (72 bp):
GAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAAACTTTCTCCAACGAGAAACACTT
TTTTTAA
Found at i:90558 original size:75 final size:75
Alignment explanation
Indices: 90435--90615 Score: 263
Period size: 75 Copynumber: 2.4 Consensus size: 75
90425 ATAAGATGAT
* *
90435 ATGGGCCTTCAGTATGCCCCAACCTTTGCTGATACGAACGTTCAAAATGAGTCAACATTCCTATT
1 ATGGGCTTTCAGTATGCCCCAACCTTTGCTTATACGAACGTTCAAAATGAGTCAACATTCCTATT
90500 TCTGATTGAA
66 TCTGATTGAA
* * * * * *
90510 ATGGGCTTTCAGTGTGCCCCAACATTTGCTTATATGAATGTTCAAAATGCGTCAAGATTCCTATT
1 ATGGGCTTTCAGTATGCCCCAACCTTTGCTTATACGAACGTTCAAAATGAGTCAACATTCCTATT
90575 TCTGATTGAA
66 TCTGATTGAA
* * *
90585 ATTGGCTTTTAGCATGCCCCAACCTTTGCTT
1 ATGGGCTTTCAGTATGCCCCAACCTTTGCTT
90616 CTTGTTGATG
Statistics
Matches: 93, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
75 93 1.00
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.34
Consensus pattern (75 bp):
ATGGGCTTTCAGTATGCCCCAACCTTTGCTTATACGAACGTTCAAAATGAGTCAACATTCCTATT
TCTGATTGAA
Found at i:91950 original size:24 final size:26
Alignment explanation
Indices: 91913--91960 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
91903 TTTTTCTTTT
91913 TTTTCATCTTTTTTT-CCTTTTTTCC
1 TTTTCATCTTTTTTTACCTTTTTTCC
*
91938 TTTT-ATCTTTTTTTATCTTTTTT
1 TTTTCATCTTTTTTTACCTTTTTT
91961 TTATGAATGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.06, C:0.17, G:0.00, T:0.77
Consensus pattern (26 bp):
TTTTCATCTTTTTTTACCTTTTTTCC
Found at i:92252 original size:2 final size:2
Alignment explanation
Indices: 92245--92278 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
92235 ACAACAAGGG
*
92245 AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
92279 TTGAAAGGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Done.