Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008500.1 Hibiscus syriacus cultivar Beakdansim tig00111350_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: 122187
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:3114 original size:64 final size:65
Alignment explanation
Indices: 3041--3202 Score: 170
Period size: 64 Copynumber: 2.5 Consensus size: 65
3031 ATTGCTTGAA
* ***
3041 GGTGTATCGATGCACAAGTAGTGCATCGATGCACT-CTTTTAATATAA-AAACATCAAATGCAAT
1 GGTGCATCGATGCACAAGTAGTGCATCGATGCACTCCCAGTAATA-AACAAACATCAAATGCAAT
3104 T
65 T
* * * * *
3105 GGTGCATCGATGCATAAGGCA-TGCATCGATGCA-TCCCAGTAATAAACAAACATCGAATGTATT
1 GGTGCATCGATGCACAA-GTAGTGCATCGATGCACTCCCAGTAATAAACAAACATCAAATGCAAT
3168 T
65 T
* * *
3169 TGTGCACCGATGCACAGGTAGTGCATCGATGCAC
1 GGTGCATCGATGCACAAGTAGTGCATCGATGCAC
3203 CGATAGGGAA
Statistics
Matches: 79, Mismatches: 14, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
63 5 0.06
64 72 0.91
65 2 0.03
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (65 bp):
GGTGCATCGATGCACAAGTAGTGCATCGATGCACTCCCAGTAATAAACAAACATCAAATGCAATT
Found at i:4194 original size:30 final size:29
Alignment explanation
Indices: 4160--4228 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
4150 GGTTCTTCGG
*
4160 GACCTATGGCCAGTTACCGAGGATCTTTAT
1 GACCTATGGACAGTTACCG-GGATCTTTAT
* * * *
4190 GACCTCTGGATAGTTACCGGGGTCTTTGT
1 GACCTATGGACAGTTACCGGGATCTTTAT
*
4219 GACCTCTGGA
1 GACCTATGGA
4229 TAGGTCCTTC
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 18 0.53
30 16 0.47
ACGTcount: A:0.19, C:0.23, G:0.28, T:0.30
Consensus pattern (29 bp):
GACCTATGGACAGTTACCGGGATCTTTAT
Found at i:4224 original size:29 final size:30
Alignment explanation
Indices: 4171--4231 Score: 97
Period size: 29 Copynumber: 2.1 Consensus size: 30
4161 ACCTATGGCC
4171 AGTTACCGAGGATCTTTATGACCTCTGGAT
1 AGTTACCGAGGATCTTTATGACCTCTGGAT
* *
4201 AGTTACCG-GGGTCTTTGTGACCTCTGGAT
1 AGTTACCGAGGATCTTTATGACCTCTGGAT
4230 AG
1 AG
4232 GTCCTTCGGG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 21 0.72
30 8 0.28
ACGTcount: A:0.20, C:0.20, G:0.28, T:0.33
Consensus pattern (30 bp):
AGTTACCGAGGATCTTTATGACCTCTGGAT
Found at i:4506 original size:2 final size:2
Alignment explanation
Indices: 4499--4544 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
4489 GTATGCGTGG
4499 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
4541 AT AT
1 AT AT
4545 GAAAGGTGCA
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:17103 original size:18 final size:18
Alignment explanation
Indices: 17068--17103 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
17058 AAAATGGGTA
* *
17068 CATATGTTATATGTATTG
1 CATATGTTACATGAATTG
17086 CATATGTTACATGAATTG
1 CATATGTTACATGAATTG
17104 AATGAATATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.08, G:0.17, T:0.44
Consensus pattern (18 bp):
CATATGTTACATGAATTG
Found at i:18283 original size:149 final size:149
Alignment explanation
Indices: 17969--18272 Score: 599
Period size: 149 Copynumber: 2.0 Consensus size: 149
17959 GAGTCGAGGG
17969 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGTAAGACACAT
1 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGTAAGACACAT
*
18034 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATTTGGTCCTTATGGACATTATTA
66 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
18099 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
18118 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGTAAGACACAT
1 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGTAAGACACAT
18183 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
18248 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
18267 TCTACG
1 TCTACG
18273 TGGCACTTCG
Statistics
Matches: 154, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
149 154 1.00
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (149 bp):
TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGTAAGACACAT
ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
TATGGCACTACGGTGCAAT
Found at i:18284 original size:23 final size:23
Alignment explanation
Indices: 18250--18295 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
18240 CATTATTATA
*
18250 TGGCACTACGGTGCAATTCTACG
1 TGGCACTACGGTGCAATTATACG
*
18273 TGGCACTTCGGTGCAATTATACG
1 TGGCACTACGGTGCAATTATACG
18296 AGCTGTGGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.22, C:0.24, G:0.26, T:0.28
Consensus pattern (23 bp):
TGGCACTACGGTGCAATTATACG
Found at i:22301 original size:35 final size:32
Alignment explanation
Indices: 22260--22344 Score: 89
Period size: 32 Copynumber: 2.6 Consensus size: 32
22250 AATTCTAAAT
22260 AAATAATAATTATATAAATATTATTTTAATAAAAA
1 AAATAATAATTATATAAATA-TA--TTAATAAAAA
* * *
22295 AAATAATATTTACATAAATATATTAATATAAA
1 AAATAATAATTATATAAATATATTAATAAAAA
* * *
22327 ATATAATAACTATTTAAA
1 AAATAATAATTATATAAA
22345 AAAATATTAA
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
32 22 0.52
34 2 0.05
35 18 0.43
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (32 bp):
AAATAATAATTATATAAATATATTAATAAAAA
Found at i:22321 original size:32 final size:34
Alignment explanation
Indices: 22260--22335 Score: 93
Period size: 35 Copynumber: 2.3 Consensus size: 34
22250 AATTCTAAAT
*
22260 AAATAATAATTATATAAATATTATTTTAATAAAAA
1 AAATAATAATTACATAAATATTA-TTTAATAAAAA
* *
22295 AAATAATATTTACATAAATA-TA-TTAATATAAA
1 AAATAATAATTACATAAATATTATTTAATAAAAA
*
22327 ATATAATAA
1 AAATAATAA
22336 CTATTTAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
32 16 0.44
34 2 0.06
35 18 0.50
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (34 bp):
AAATAATAATTACATAAATATTATTTAATAAAAA
Found at i:22352 original size:34 final size:34
Alignment explanation
Indices: 22285--22365 Score: 98
Period size: 34 Copynumber: 2.4 Consensus size: 34
22275 AAATATTATT
*
22285 TTAATA-AAAAA-AATAATATTTACATAAATATA
1 TTAATATAAAAATAATAATATTTACATAAAAATA
22317 TTAATATAAAATATAATAACTATTTA-A-AAAAATA
1 TTAATATAAAA-ATAATAA-TATTTACATAAAAATA
*
22351 TTAACATAAAAATAA
1 TTAATATAAAAATAA
22366 ATTTTTTACC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
32 6 0.14
33 8 0.19
34 17 0.40
35 6 0.14
36 6 0.14
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (34 bp):
TTAATATAAAAATAATAATATTTACATAAAAATA
Found at i:23070 original size:68 final size:69
Alignment explanation
Indices: 22952--23084 Score: 162
Period size: 68 Copynumber: 1.9 Consensus size: 69
22942 TCACTTATTC
* *
22952 CCAATATTAGCATTTTCAATAGAAAAAATAATGTTTTAAATAATAATTTACT-AGAAATGTTAAA
1 CCAATATTAACATTTTCAATAGAAAAAATAATATTTTAAATAATAATTTACTGA-AAATGTTAAA
23016 TGCGT
65 TGCGT
* * * * * **
23021 CCAATATTAATATTTTCGATA-AACAAATAATATTTTAAGTAGTGTTTTACTGAAAATGTTAAAT
1 CCAATATTAACATTTTCAATAGAAAAAATAATATTTTAAATAATAATTTACTGAAAATGTTAAAT
23085 ATTTTAAATA
Statistics
Matches: 54, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
68 35 0.65
69 19 0.35
ACGTcount: A:0.44, C:0.08, G:0.10, T:0.38
Consensus pattern (69 bp):
CCAATATTAACATTTTCAATAGAAAAAATAATATTTTAAATAATAATTTACTGAAAATGTTAAAT
GCGT
Found at i:24161 original size:21 final size:21
Alignment explanation
Indices: 24132--24184 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
24122 ATTCTGACTA
24132 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGCGATTTCCCAAAT
* * *
24153 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTCCCAAAT
*
24174 TCGCAATGCGA
1 TCGCATTGCGA
24185 ATACGTAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTCCCAAAT
Found at i:24199 original size:20 final size:20
Alignment explanation
Indices: 24174--24360 Score: 195
Period size: 20 Copynumber: 9.3 Consensus size: 20
24164 TTTTCCTAAT
24174 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* * **
24194 TCGCAACGCAAATTTGGTAAA
1 TCGCAATGCGAA-TACGTAAA
*
24215 TCGCAATGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
*
24235 TCGCAATGCGAAT-C-TGACTA
1 TCGCAATGCGAATACGT-A-AA
*
24255 TCGCAATGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
*
24275 TCGCAATGCGAAT-C-TGACTA
1 TCGCAATGCGAATACGT-A-AA
*
24295 TCGCAATGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
*
24315 TCGCAATGCAAATACGTAAA
1 TCGCAATGCGAATACGTAAA
24335 TCGCAATGCGAAT-CTGTAAA
1 TCGCAATGCGAATAC-GTAAA
24355 TCGCAA
1 TCGCAA
24361 CGAGATTATG
Statistics
Matches: 137, Mismatches: 20, Indels: 20
0.77 0.11 0.11
Matches are distributed among these distances:
18 2 0.01
19 5 0.04
20 109 0.80
21 19 0.14
22 2 0.01
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.24
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:24267 original size:40 final size:40
Alignment explanation
Indices: 24174--24381 Score: 235
Period size: 40 Copynumber: 5.2 Consensus size: 40
24164 TTTTCCTAAT
* * * * *
24174 TCGCAATGCGAATACGTAAATCGCAACGCAAATTTGGTA-AA
1 TCGCAATGCGATTACGTAAATCGCAATGCGAATCT-G-ACTA
24215 TCGCAATGCGATTACGTAAATCGCAATGCGAATCTGACTA
1 TCGCAATGCGATTACGTAAATCGCAATGCGAATCTGACTA
24255 TCGCAATGCGATTACGTAAATCGCAATGCGAATCTGACTA
1 TCGCAATGCGATTACGTAAATCGCAATGCGAATCTGACTA
* *
24295 TCGCAATGCGATTACGTAAATCGCAATGCAAATAC-GTA-AA
1 TCGCAATGCGATTACGTAAATCGCAATGCGAAT-CTG-ACTA
* * * * *
24335 TCGCAATGCGAAT-CTGTAAATCGCAACGAGATTATGACTA
1 TCGCAATGCGATTAC-GTAAATCGCAATGCGAATCTGACTA
24375 TCGCAAT
1 TCGCAAT
24382 AATGAATTTC
Statistics
Matches: 147, Mismatches: 14, Indels: 13
0.84 0.08 0.07
Matches are distributed among these distances:
39 3 0.02
40 111 0.76
41 33 0.22
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.24
Consensus pattern (40 bp):
TCGCAATGCGATTACGTAAATCGCAATGCGAATCTGACTA
Found at i:24298 original size:60 final size:59
Alignment explanation
Indices: 24210--24381 Score: 167
Period size: 60 Copynumber: 2.9 Consensus size: 59
24200 CGCAAATTTG
* *
24210 GTAAATCGCAATGCG-AT-T-ACGTAAATCGCAATGCGAATCTGACTATCGCAATGCGATTAC
1 GTAAATCGCAATGCGAATCTGAC-T--ATCGCAATGCGAAT-TGACTATCGCAATGCAAATAC
24270 GTAAATCGCAATGCGAATCTGACTATCGCAATGCG-ATT-ACGTAAATCGCAATGCAAATAC
1 GTAAATCGCAATGCGAATCTGACTATCGCAATGCGAATTGAC-T--ATCGCAATGCAAATAC
* * * *
24330 GTAAATCGCAATGCGAATCTGTA-AATCGCAACGAGATTATGACTATCGCAAT
1 GTAAATCGCAATGCGAATCTG-ACTATCGCAATGCGAAT-TGACTATCGCAAT
24382 AATGAATTTC
Statistics
Matches: 96, Mismatches: 6, Indels: 20
0.79 0.05 0.16
Matches are distributed among these distances:
57 2 0.02
58 2 0.02
59 2 0.02
60 78 0.81
61 4 0.04
62 4 0.04
63 4 0.04
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.24
Consensus pattern (59 bp):
GTAAATCGCAATGCGAATCTGACTATCGCAATGCGAATTGACTATCGCAATGCAAATAC
Found at i:25239 original size:24 final size:24
Alignment explanation
Indices: 25212--25265 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
25202 GTATTCGAAA
25212 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
25236 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
25260 TTTGAT
1 TTTGAT
25266 GATTTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:27710 original size:20 final size:21
Alignment explanation
Indices: 27685--27773 Score: 105
Period size: 20 Copynumber: 4.4 Consensus size: 21
27675 CAACGTGGAA
27685 ATCGCAACGC-GAATATGACT
1 ATCGCAACGCAGAATATGACT
*
27705 ATCGCAACACAGAA-ATGACT
1 ATCGCAACGCAGAATATGACT
* *
27725 ATCGCAATGCGGAAT-TGACT
1 ATCGCAACGCAGAATATGACT
* *
27745 ATCGCAACG-TGAAAATGACT
1 ATCGCAACGCAGAATATGACT
27765 ATCGCAACG
1 ATCGCAACG
27774 AGAGAATCGC
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
19 3 0.05
20 53 0.90
21 3 0.05
ACGTcount: A:0.37, C:0.24, G:0.20, T:0.19
Consensus pattern (21 bp):
ATCGCAACGCAGAATATGACT
Found at i:27744 original size:40 final size:40
Alignment explanation
Indices: 27685--27773 Score: 119
Period size: 40 Copynumber: 2.2 Consensus size: 40
27675 CAACGTGGAA
27685 ATCGCAACGCGAATATGACTATCGCAACACAG-AAATGACT
1 ATCGCAACGCGAATATGACTATCGCAAC-CAGAAAATGACT
* **
27725 ATCGCAATGCGGAAT-TGACTATCGCAACGTGAAAATGACT
1 ATCGCAACGC-GAATATGACTATCGCAACCAGAAAATGACT
27765 ATCGCAACG
1 ATCGCAACG
27774 AGAGAATCGC
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
39 1 0.02
40 38 0.88
41 4 0.09
ACGTcount: A:0.37, C:0.24, G:0.20, T:0.19
Consensus pattern (40 bp):
ATCGCAACGCGAATATGACTATCGCAACCAGAAAATGACT
Found at i:27802 original size:19 final size:19
Alignment explanation
Indices: 27778--27854 Score: 101
Period size: 19 Copynumber: 4.3 Consensus size: 19
27768 GCAACGAGAG
27778 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
27797 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
27816 AATCGCAA--CG-AGTG--
1 AATCGCAATGCGAAATGAA
27830 AATCGCAATGCGAAAATGAA
1 AATCGCAATGCG-AAATGAA
27850 AATCG
1 AATCG
27855 TTCGCATTGC
Statistics
Matches: 50, Mismatches: 2, Indels: 11
0.79 0.03 0.17
Matches are distributed among these distances:
14 8 0.16
16 5 0.10
17 2 0.04
18 3 0.06
19 27 0.54
20 5 0.10
ACGTcount: A:0.45, C:0.17, G:0.22, T:0.16
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:28035 original size:14 final size:14
Alignment explanation
Indices: 28016--28052 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
28006 CATCAATTAA
28016 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
28030 ACAAATCATCTTTT
1 ACAAATCAACATTT
28044 ACAAATCAA
1 ACAAATCAA
28053 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:30102 original size:21 final size:21
Alignment explanation
Indices: 30076--30120 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
30066 GATTTCTGGG
* *
30076 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
30097 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
30118 CAA
1 CAA
30121 ACGACAGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:31381 original size:31 final size:31
Alignment explanation
Indices: 31343--31420 Score: 95
Period size: 31 Copynumber: 2.5 Consensus size: 31
31333 AGAGTCGAGG
*
31343 GTTTACCTATG-TCTTTCGAGACATATGGACA
1 GTTTACCTAGGTTC-TTCGAGACATATGGACA
* *
31374 GTTTACCTAGGTTCTTCGGGACCTATGGACA
1 GTTTACCTAGGTTCTTCGAGACATATGGACA
* *
31405 GTTTACCGAGGATCTT
1 GTTTACCTAGGTTCTT
31421 TATGACCTCT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
31 39 0.95
32 2 0.05
ACGTcount: A:0.22, C:0.21, G:0.23, T:0.35
Consensus pattern (31 bp):
GTTTACCTAGGTTCTTCGAGACATATGGACA
Found at i:31495 original size:29 final size:30
Alignment explanation
Indices: 31393--31492 Score: 148
Period size: 30 Copynumber: 3.3 Consensus size: 30
31383 GGTTCTTCGG
*
31393 GACCTATGGACAGTTTACCGAGGATCTTTAT
1 GACCTCTGGACAG-TTACCGAGGATCTTTAT
31424 GACCTCTGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
* * *
31454 GACCTCTGGATAGTTACCG-GGGTCTTTGT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
31483 GACCTCTGGA
1 GACCTCTGGA
31493 TAGGTCCTTC
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
29 18 0.28
30 35 0.54
31 12 0.18
ACGTcount: A:0.21, C:0.22, G:0.26, T:0.31
Consensus pattern (30 bp):
GACCTCTGGACAGTTACCGAGGATCTTTAT
Found at i:32341 original size:42 final size:42
Alignment explanation
Indices: 32262--32354 Score: 107
Period size: 42 Copynumber: 2.2 Consensus size: 42
32252 CCTCTTCAAC
* * *
32262 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTTGAGG
1 GATGACAGGGGCCTCTTGAACGATGGGAGAGGACTCTTGAGG
* * **
32304 GATGATAGGGGCCTCTTGAACGATAGGG-GAGGCCTCTTGAAC
1 GATGACAGGGGCCTCTTGAACGAT-GGGAGAGGACTCTTGAGG
32346 GATGACAGG
1 GATGACAGG
32355 TGAGTCGGGC
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
42 39 0.93
43 3 0.07
ACGTcount: A:0.23, C:0.17, G:0.40, T:0.20
Consensus pattern (42 bp):
GATGACAGGGGCCTCTTGAACGATGGGAGAGGACTCTTGAGG
Found at i:32921 original size:20 final size:20
Alignment explanation
Indices: 32896--32942 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
32886 CAACAACAAA
*
32896 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATAACT
* **
32916 ATCGCAATGCGAATTTAACT
1 ATCGCAACGCGAAAATAACT
32936 ATCGCAA
1 ATCGCAA
32943 AGAGAGAATC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.38, C:0.23, G:0.17, T:0.21
Consensus pattern (20 bp):
ATCGCAACGCGAAAATAACT
Found at i:33041 original size:20 final size:20
Alignment explanation
Indices: 32989--33112 Score: 143
Period size: 20 Copynumber: 6.5 Consensus size: 20
32979 GATTCTTTCG
** *
32989 TTGCGATAGTCAAATTCACA
1 TTGCGATAGTCATTTTCGCA
33009 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
33029 TTGCGATAGTCATTTTTGCA
1 TTGCGATAGTCATTTTCGCA
*
33049 TTGCGAT--TC--TCTCG--
1 TTGCGATAGTCATTTTCGCA
*
33063 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
33083 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
33103 TTGAGATAGT
1 TTGCGATAGT
33113 AAACTGTTCT
Statistics
Matches: 89, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
14 7 0.08
16 5 0.06
18 6 0.07
20 71 0.80
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.40
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:33071 original size:74 final size:74
Alignment explanation
Indices: 32972--33112 Score: 219
Period size: 74 Copynumber: 1.9 Consensus size: 74
32962 TTTTCATTTC
* *
32972 GCATTACGATTCTTTCGTTGCGATAGTCAAATTCACATTGCGATAGTCATTTTCGCATTGCGATA
1 GCATTACGATTCTCTCGTTGCGATAGTCAAATTCACATTGCGATAGTCATTTTCGCATTGAGATA
33037 GTCATTTTT
66 GTCATTTTT
* ** * *
33046 GCATTGCGATTCTCTCGTTGCGATAGTCATTTTCGCGTTGCGATAGTCATTTTCGCATTGAGATA
1 GCATTACGATTCTCTCGTTGCGATAGTCAAATTCACATTGCGATAGTCATTTTCGCATTGAGATA
33111 GT
66 GT
33113 AAACTGTTCT
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
74 60 1.00
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.40
Consensus pattern (74 bp):
GCATTACGATTCTCTCGTTGCGATAGTCAAATTCACATTGCGATAGTCATTTTCGCATTGAGATA
GTCATTTTT
Found at i:35007 original size:20 final size:20
Alignment explanation
Indices: 34984--35033 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
34974 CTGAAACTTT
34984 AAATCGCAACACGAAAATGA
1 AAATCGCAACACGAAAATGA
35004 AAATCGCAACACGAAAATGA
1 AAATCGCAACACGAAAATGA
**
35024 CTATCGCAAC
1 AAATCGCAAC
35034 GCAAGAATCG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.50, C:0.24, G:0.14, T:0.12
Consensus pattern (20 bp):
AAATCGCAACACGAAAATGA
Found at i:35102 original size:20 final size:20
Alignment explanation
Indices: 35077--35123 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
35067 GATTCTCTCG
35077 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCAAATTCGCA
** *
35097 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCAAATTCGCA
35117 TTGCGAT
1 TTGCGAT
35124 TCACTCATTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.36
Consensus pattern (20 bp):
TTGCGATAGTCAAATTCGCA
Found at i:35739 original size:20 final size:20
Alignment explanation
Indices: 35694--35807 Score: 108
Period size: 20 Copynumber: 5.7 Consensus size: 20
35684 ACGCTATGTA
35694 AATCGCATTGCGATAGTTA-G-
1 AATCGCATTGCGAT--TTACGT
*
35714 ATTCGCATTGCGATTTACGT
1 AATCGCATTGCGATTTACGT
*
35734 AATCGCATTGCGATTTACAT
1 AATCGCATTGCGATTTACGT
* *
35754 AATCGCATTGCGATTTTTC-A
1 AATCGCATTGCGA-TTTACGT
* *
35774 AATTCGCGTTGTGATTTACGT
1 AA-TCGCATTGCGATTTACGT
*
35795 ATTCGCATTGCGA
1 AATCGCATTGCGA
35808 ATTAGGAAAA
Statistics
Matches: 77, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
18 3 0.04
19 1 0.01
20 59 0.77
21 14 0.18
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.37
Consensus pattern (20 bp):
AATCGCATTGCGATTTACGT
Found at i:35793 original size:61 final size:60
Alignment explanation
Indices: 35694--35807 Score: 165
Period size: 61 Copynumber: 1.9 Consensus size: 60
35684 ACGCTATGTA
*
35694 AATCGCATTGCGATAGTTAGATTCGCATTGCGATTTACGTAATCGCATTGCGATTTACAT
1 AATCGCATTGCGATAGTTAAATTCGCATTGCGATTTACGTAATCGCATTGCGATTTACAT
** * * *
35754 AATCGCATTGCGATTTTTCAAATTCGCGTTGTGATTTACGTATTCGCATTGCGA
1 AATCGCATTGCGATAGTT-AAATTCGCATTGCGATTTACGTAATCGCATTGCGA
35808 ATTAGGAAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
60 16 0.34
61 31 0.66
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.37
Consensus pattern (60 bp):
AATCGCATTGCGATAGTTAAATTCGCATTGCGATTTACGTAATCGCATTGCGATTTACAT
Found at i:35802 original size:41 final size:40
Alignment explanation
Indices: 35693--35816 Score: 110
Period size: 41 Copynumber: 3.1 Consensus size: 40
35683 GACGCTATGT
*
35693 AAATCGCATTGCGATAGTT--AGATTCGCATTGCGATTTACG
1 AAATCGCATTGCGAT--TTACATATTCGCATTGCGATTTACG
* * *
35733 TAATCGCATTGCGATTTACATAATCGCATTGCGATTTTTC-
1 AAATCGCATTGCGATTTACATATTCGCATTGCGA-TTTACG
* * * * *
35773 AAATTCGCGTTGTGATTTACGTATTCGCATTGCGAATTAGG
1 AAA-TCGCATTGCGATTTACATATTCGCATTGCGATTTACG
35814 AAA
1 AAA
35817 ATCACAACGC
Statistics
Matches: 67, Mismatches: 12, Indels: 9
0.76 0.14 0.10
Matches are distributed among these distances:
38 2 0.03
40 31 0.46
41 34 0.51
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.35
Consensus pattern (40 bp):
AAATCGCATTGCGATTTACATATTCGCATTGCGATTTACG
Found at i:35830 original size:21 final size:21
Alignment explanation
Indices: 35804--35849 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
35794 TATTCGCATT
35804 GCGAATTAGGAAAATCACAAC
1 GCGAATTAGGAAAATCACAAC
* * * *
35825 GCGAATTTGGGAAATCGCAAT
1 GCGAATTAGGAAAATCACAAC
35846 GCGA
1 GCGA
35850 TAGTCAGAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.39, C:0.17, G:0.26, T:0.17
Consensus pattern (21 bp):
GCGAATTAGGAAAATCACAAC
Found at i:36701 original size:32 final size:32
Alignment explanation
Indices: 36665--36734 Score: 88
Period size: 31 Copynumber: 2.2 Consensus size: 32
36655 TATTTATTTT
*
36665 TTAAAAATAAATAATAATGCAATAAAAATA-AA
1 TTAAAAATAAAT-ACAATGCAATAAAAATATAA
* *
36697 TTAAAAATGAATACAATTCAATAAAAATATAA
1 TTAAAAATAAATACAATGCAATAAAAATATAA
36729 TGTAAA
1 T-TAAA
36735 GCTAAAAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
31 15 0.45
32 14 0.42
33 4 0.12
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.27
Consensus pattern (32 bp):
TTAAAAATAAATACAATGCAATAAAAATATAA
Found at i:36709 original size:21 final size:21
Alignment explanation
Indices: 36666--36724 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
36656 ATTTATTTTT
*
36666 TAAAAATAAATAATAATGCAA
1 TAAAAATAAATAAAAATGCAA
36687 TAAAAATAAATTAAAAATG-AA
1 TAAAAATAAA-TAAAAATGCAA
* * *
36708 TACAATTCAATAAAAAT
1 TAAAAATAAATAAAAAT
36725 ATAATGTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
20 7 0.21
21 19 0.58
22 7 0.21
ACGTcount: A:0.66, C:0.05, G:0.03, T:0.25
Consensus pattern (21 bp):
TAAAAATAAATAAAAATGCAA
Found at i:37265 original size:20 final size:21
Alignment explanation
Indices: 37242--37288 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
37232 TTTACATTAT
37242 ATTTTTATTG-AATTTTATTC
1 ATTTTTATTGCAATTTTATTC
* *
37262 ATTTTTATTGCATTTTTATTT
1 ATTTTTATTGCAATTTTATTC
37283 ATTTTT
1 ATTTTT
37289 TTAAAAGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 10 0.42
21 14 0.58
ACGTcount: A:0.21, C:0.04, G:0.04, T:0.70
Consensus pattern (21 bp):
ATTTTTATTGCAATTTTATTC
Found at i:37286 original size:10 final size:10
Alignment explanation
Indices: 37242--37288 Score: 58
Period size: 10 Copynumber: 4.6 Consensus size: 10
37232 TTTACATTAT
*
37242 ATTTTTATTG
1 ATTTTTATTC
*
37252 AATTTTATTC
1 ATTTTTATTC
37262 ATTTTTATTGC
1 ATTTTTATT-C
*
37273 ATTTTTATTT
1 ATTTTTATTC
37283 ATTTTT
1 ATTTTT
37289 TTAAAAGAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
10 22 0.69
11 10 0.31
ACGTcount: A:0.21, C:0.04, G:0.04, T:0.70
Consensus pattern (10 bp):
ATTTTTATTC
Found at i:39208 original size:2 final size:2
Alignment explanation
Indices: 39201--39247 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
39191 TCTTCATCTA
39201 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
39243 AT AT A
1 AT AT A
39248 CTGCATGGAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:39979 original size:27 final size:28
Alignment explanation
Indices: 39934--39991 Score: 91
Period size: 27 Copynumber: 2.1 Consensus size: 28
39924 TATGTTTAAA
* *
39934 AATTAAAAAATATTTAAAATTTAAAATT
1 AATTAAAAAATATTAAAAATTAAAAATT
39962 AATTAAAAAA-ATTAAAAATTAAAAATT
1 AATTAAAAAATATTAAAAATTAAAAATT
39989 AAT
1 AAT
39992 CATATTAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
27 18 0.64
28 10 0.36
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (28 bp):
AATTAAAAAATATTAAAAATTAAAAATT
Found at i:40018 original size:95 final size:97
Alignment explanation
Indices: 39907--40080 Score: 307
Period size: 97 Copynumber: 1.8 Consensus size: 97
39897 TAAGAAAGAA
*
39907 ATTTTTTATTAAGTATCTATGTTTAAAAATT-AAAAAA-TATTTAAAATTTAAAATTAATTAAAA
1 ATTTTTTATTAAGTATCTATGTTTAAAAATTAAAAAAATTAATTAAAATTTAAAATTAATTAAAA
39970 AAATTAAAAATTAAAAATTAATCATATTAATT
66 AAATTAAAAATTAAAAATTAATCATATTAATT
* *
40002 ATTTTTTATTAGGTATCTATGTTTAAAAATTAAAAAAATTAATTAATATTTAAAATTAATTAAAA
1 ATTTTTTATTAAGTATCTATGTTTAAAAATTAAAAAAATTAATTAAAATTTAAAATTAATTAAAA
40067 AAATTAAAAATTAA
66 AAATTAAAAATTAA
40081 TCATATTAAT
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
95 30 0.41
96 6 0.08
97 38 0.51
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.42
Consensus pattern (97 bp):
ATTTTTTATTAAGTATCTATGTTTAAAAATTAAAAAAATTAATTAAAATTTAAAATTAATTAAAA
AAATTAAAAATTAAAAATTAATCATATTAATT
Found at i:40047 original size:13 final size:13
Alignment explanation
Indices: 40029--40073 Score: 54
Period size: 13 Copynumber: 3.2 Consensus size: 13
40019 TATGTTTAAA
40029 AATTAAAAAAATT
1 AATTAAAAAAATT
40042 AATTAATATTTAAAATT
1 AATTAA-A---AAAATT
40059 AATTAAAAAAATT
1 AATTAAAAAAATT
40072 AA
1 AA
40074 AAATTAATCA
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
13 14 0.50
14 1 0.04
16 1 0.04
17 12 0.43
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
AATTAAAAAAATT
Found at i:43339 original size:20 final size:20
Alignment explanation
Indices: 43296--43339 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
43286 GCCGCCGGCT
** **
43296 GCCCATTAATTTTTCTGGTT
1 GCCCATTAATTTTTCCAGCC
43316 GCCCATTAATTTTTCCAGCC
1 GCCCATTAATTTTTCCAGCC
43336 GCCC
1 GCCC
43340 CATTTGCTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.16, C:0.32, G:0.14, T:0.39
Consensus pattern (20 bp):
GCCCATTAATTTTTCCAGCC
Found at i:46818 original size:22 final size:23
Alignment explanation
Indices: 46790--46849 Score: 77
Period size: 23 Copynumber: 2.7 Consensus size: 23
46780 CTCGTATAAA
* *
46790 TACACCGAAGTTCTAC-TAGAAT
1 TACACCGAAGTGCCACGTAGAAT
*
46812 TACACCGAAGTGCCGCGTAGAAT
1 TACACCGAAGTGCCACGTAGAAT
*
46835 TGCACCGAAGTGCCA
1 TACACCGAAGTGCCA
46850 TATAAAATGT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
22 13 0.41
23 19 0.59
ACGTcount: A:0.32, C:0.27, G:0.22, T:0.20
Consensus pattern (23 bp):
TACACCGAAGTGCCACGTAGAAT
Found at i:51821 original size:23 final size:23
Alignment explanation
Indices: 51791--51851 Score: 113
Period size: 23 Copynumber: 2.7 Consensus size: 23
51781 CCCATATAAA
51791 TGCACCGAAGTGCCACGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
*
51814 TGCACCGAAGTGCCGCGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
51837 TGCACCGAAGTGCCA
1 TGCACCGAAGTGCCA
51852 TATAAAATGT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.28, C:0.28, G:0.28, T:0.16
Consensus pattern (23 bp):
TGCACCGAAGTGCCACGTAGAAT
Found at i:53417 original size:22 final size:22
Alignment explanation
Indices: 53392--53434 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
53382 TCTTCCTTTA
*
53392 GGGGGAATCGGTTCCCTCCTGT
1 GGGGGAATCGGTTCCCCCCTGT
*
53414 GGGGGTATCGGTTCCCCCCTG
1 GGGGGAATCGGTTCCCCCCTG
53435 ACATTATGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.07, C:0.30, G:0.37, T:0.26
Consensus pattern (22 bp):
GGGGGAATCGGTTCCCCCCTGT
Found at i:58687 original size:13 final size:13
Alignment explanation
Indices: 58669--58693 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
58659 ATTAATTAAT
58669 TAAAATTTTTATA
1 TAAAATTTTTATA
58682 TAAAATTTTTAT
1 TAAAATTTTTAT
58694 TTTATAATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TAAAATTTTTATA
Found at i:58697 original size:188 final size:187
Alignment explanation
Indices: 58375--58742 Score: 628
Period size: 188 Copynumber: 2.0 Consensus size: 187
58365 AAATTTTAAA
* * * *
58375 TTTTAAATATATTATATATAACATATGGGTTTAGCCCAAACTATTTAAAACTCAATTAATAATTT
1 TTTTAAATATATTATATATAACATATGGGCTCAACCCAAACCATTTAAAACTCAATTAATAATTT
*
58440 AAGATCCAATAACTTTTAATCCTAAATCAATATTAATTAATTAAAAAATTTATATAAAACTTATA
66 AAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTTATATAAAACTTATA
*
58505 TTTTATAATTATATATTATTTAAATTAATTGTAAACTGATTTTTTGAATTAATTTTTT
131 TTTTATAATTATATATTATTTAAATTAATTATAAACTG-TTTTTTGAATTAATTTTTT
58563 TTTTAAATATATTATATATAACATATGGGCTCAACCCAAACCATTTAAAACTCAATTAATAATTT
1 TTTTAAATATATTATATATAACATATGGGCTCAACCCAAACCATTTAAAACTCAATTAATAATTT
* ** * *
58628 AAGATCTAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAATTTTTATATAAAATTTTTA
66 AAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTTATATAAAACTTATA
58693 TTTTATAATTATATATTATTTAAATTAATTATAAACTGTTTTTTGAATTA
131 TTTTATAATTATATATTATTTAAATTAATTATAAACTGTTTTTTGAATTA
58743 TAAAATATTT
Statistics
Matches: 169, Mismatches: 11, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
187 12 0.07
188 157 0.93
ACGTcount: A:0.43, C:0.08, G:0.04, T:0.45
Consensus pattern (187 bp):
TTTTAAATATATTATATATAACATATGGGCTCAACCCAAACCATTTAAAACTCAATTAATAATTT
AAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTTATATAAAACTTATA
TTTTATAATTATATATTATTTAAATTAATTATAAACTGTTTTTTGAATTAATTTTTT
Found at i:68761 original size:13 final size:13
Alignment explanation
Indices: 68743--68779 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 13
68733 TATAAATAAA
68743 TATAAATAAATAT
1 TATAAATAAATAT
68756 TATAAAATAAATAT
1 TAT-AAATAAATAT
*
68770 TATTAATAAA
1 TATAAATAAA
68780 ATAAATATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 9 0.41
14 13 0.59
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
TATAAATAAATAT
Found at i:68805 original size:21 final size:18
Alignment explanation
Indices: 68737--68798 Score: 90
Period size: 18 Copynumber: 3.4 Consensus size: 18
68727 TTCATATATA
*
68737 AATAAATATAAATAAATATT
1 AATAAA-ATAAAT-ATTATT
68757 -ATAAAATAAATATTATT
1 AATAAAATAAATATTATT
68774 AATAAAATAAATATTATT
1 AATAAAATAAATATTATT
68792 AATAAAA
1 AATAAAA
68799 AATTAAACTC
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
17 5 0.12
18 30 0.75
19 5 0.12
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
AATAAAATAAATATTATT
Found at i:69723 original size:3 final size:3
Alignment explanation
Indices: 69715--69758 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
69705 TAGTGCATAA
69715 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
69759 ATGTACTTCT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:87323 original size:12 final size:12
Alignment explanation
Indices: 87308--87353 Score: 56
Period size: 12 Copynumber: 3.6 Consensus size: 12
87298 CGGTTTTTTT
*
87308 ACCGGATAAAAA
1 ACCGGTTAAAAA
87320 ACCGGTTTGAAAAAA
1 ACCGG-TT--AAAAA
87335 ACCGGTTAAAAA
1 ACCGGTTAAAAA
87347 ACCGGTT
1 ACCGGTT
87354 TTTATCCGGA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
12 17 0.57
13 1 0.03
14 2 0.07
15 10 0.33
ACGTcount: A:0.46, C:0.17, G:0.20, T:0.17
Consensus pattern (12 bp):
ACCGGTTAAAAA
Found at i:87335 original size:15 final size:13
Alignment explanation
Indices: 87314--87354 Score: 57
Period size: 12 Copynumber: 3.1 Consensus size: 13
87304 TTTTACCGGA
87314 TAAAAAACCGGTT
1 TAAAAAACCGGTT
87327 TGAAAAAAACCGG-T
1 T--AAAAAACCGGTT
87341 TAAAAAACCGGTT
1 TAAAAAACCGGTT
87354 T
1 T
87355 TTATCCGGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 10 0.40
13 3 0.12
14 2 0.08
15 10 0.40
ACGTcount: A:0.46, C:0.15, G:0.17, T:0.22
Consensus pattern (13 bp):
TAAAAAACCGGTT
Found at i:89589 original size:21 final size:21
Alignment explanation
Indices: 89565--89604 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
89555 TTATTTTTAT
89565 AACTTTATTTCAATTATCGTA
1 AACTTTATTTCAATTATCGTA
*
89586 AACTTTGTTTCAATTATCG
1 AACTTTATTTCAATTATCG
89605 AACTTGAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.15, G:0.07, T:0.47
Consensus pattern (21 bp):
AACTTTATTTCAATTATCGTA
Found at i:89652 original size:33 final size:33
Alignment explanation
Indices: 89599--89697 Score: 155
Period size: 33 Copynumber: 3.0 Consensus size: 33
89589 TTTGTTTCAA
89599 TTATCGAACTT-GAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
*
89631 TTATCGAACTTGGAAGTTTTTAAATATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
* * *
89664 TTATCAAACTTGGAAGTATTTAAGTATTTCAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
89697 T
1 T
89698 ATGTTGAGTT
Statistics
Matches: 61, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
32 11 0.18
33 50 0.82
ACGTcount: A:0.33, C:0.07, G:0.14, T:0.45
Consensus pattern (33 bp):
TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
Found at i:89726 original size:13 final size:13
Alignment explanation
Indices: 89683--89737 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
89673 TTGGAAGTAT
89683 TTAAGTATTTCAA
1 TTAAGTATTTCAA
* *
89696 TTATGTTGAGTT-AA
1 TTAAG-T-ATTTCAA
89710 TTAAGTATTTCAA
1 TTAAGTATTTCAA
*
89723 TTAAGTATTTGAA
1 TTAAGTATTTCAA
89736 TT
1 TT
89738 TATCGAACTT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
12 3 0.09
13 21 0.62
14 7 0.21
15 3 0.09
ACGTcount: A:0.35, C:0.04, G:0.13, T:0.49
Consensus pattern (13 bp):
TTAAGTATTTCAA
Found at i:90175 original size:17 final size:18
Alignment explanation
Indices: 90155--90188 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
90145 GTTTTTTTAT
90155 AACCG-GTTTTTTAAAAA
1 AACCGAGTTTTTTAAAAA
*
90172 AACCGATTTTTTTAAAA
1 AACCGAGTTTTTTAAAA
90189 CCGAAACCGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.41, C:0.12, G:0.09, T:0.38
Consensus pattern (18 bp):
AACCGAGTTTTTTAAAAA
Found at i:90188 original size:15 final size:15
Alignment explanation
Indices: 90136--90192 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
90126 ATCTGGAATA
* *
90136 TTAAAATCGGTTTTT
1 TTAAAACCGATTTTT
* *
90151 TTATAACCGGTTTTT
1 TTAAAACCGATTTTT
*
90166 TAAAAAAACCGATTTTT
1 T--TAAAACCGATTTTT
90183 TTAAAACCGA
1 TTAAAACCGA
90193 AACCGGTTAC
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
15 22 0.65
17 12 0.35
ACGTcount: A:0.35, C:0.12, G:0.11, T:0.42
Consensus pattern (15 bp):
TTAAAACCGATTTTT
Found at i:90579 original size:34 final size:34
Alignment explanation
Indices: 90536--90603 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
90526 GAATTCCATT
* *
90536 TTGAATTATTATTGATGTTAGAACCTGGTGCAAC
1 TTGAATTATTAATGATGTTAAAACCTGGTGCAAC
90570 TTGAATTATTAATGATGTTAAAACCTGGTGCAAC
1 TTGAATTATTAATGATGTTAAAACCTGGTGCAAC
90604 AACAAAATAC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.37
Consensus pattern (34 bp):
TTGAATTATTAATGATGTTAAAACCTGGTGCAAC
Found at i:90653 original size:25 final size:25
Alignment explanation
Indices: 90625--90672 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
90615 AATAAAGGTC
90625 CTAGGTTCAAATAGTAGTGTATGTG
1 CTAGGTTCAAATAGTAGTGTATGTG
*
90650 CTAGGTTCAAATAGTTGTGTATG
1 CTAGGTTCAAATAGTAGTGTATG
90673 CAAAATGTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.27, C:0.08, G:0.27, T:0.38
Consensus pattern (25 bp):
CTAGGTTCAAATAGTAGTGTATGTG
Found at i:99245 original size:19 final size:19
Alignment explanation
Indices: 99221--99291 Score: 124
Period size: 19 Copynumber: 3.7 Consensus size: 19
99211 AAATGCAATT
*
99221 AGTGCATCTATGCATAAGG
1 AGTGCATCGATGCATAAGG
99240 AGTGCATCGATGCATAAGG
1 AGTGCATCGATGCATAAGG
*
99259 AGTGCATCGATGCATGAGG
1 AGTGCATCGATGCATAAGG
99278 AGTGCATCGATGCA
1 AGTGCATCGATGCA
99292 CCTACTTAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 50 1.00
ACGTcount: A:0.30, C:0.17, G:0.31, T:0.23
Consensus pattern (19 bp):
AGTGCATCGATGCATAAGG
Found at i:100060 original size:22 final size:20
Alignment explanation
Indices: 100032--100109 Score: 97
Period size: 20 Copynumber: 3.9 Consensus size: 20
100022 GTTCTTAAGG
100032 AGTGGTCCTTCGGGACATATAC
1 AGTGGTCCTTCGGGACA-AT-C
100054 AGTGGTCCTTCGGGAC-AT-
1 AGTGGTCCTTCGGGACAATC
* *
100072 AGTGGTTCTTCGGAACAATC
1 AGTGGTCCTTCGGGACAATC
*
100092 AGTGGTCTTTCGGGACAA
1 AGTGGTCCTTCGGGACAA
100110 ATATTTAGTT
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
18 14 0.29
19 2 0.04
20 17 0.35
22 16 0.33
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (20 bp):
AGTGGTCCTTCGGGACAATC
Found at i:100104 original size:38 final size:40
Alignment explanation
Indices: 100032--100108 Score: 113
Period size: 38 Copynumber: 2.0 Consensus size: 40
100022 GTTCTTAAGG
*
100032 AGTGGTCCTTCGGGACATATACAGTGGTCCTTCGGGACAT
1 AGTGGTCCTTCGGAACATATACAGTGGTCCTTCGGGACAT
* *
100072 AGTGGTTCTTCGGAACA-AT-CAGTGGTCTTTCGGGACA
1 AGTGGTCCTTCGGAACATATACAGTGGTCCTTCGGGACA
100109 AATATTTAGT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
38 17 0.50
39 2 0.06
40 15 0.44
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.29
Consensus pattern (40 bp):
AGTGGTCCTTCGGAACATATACAGTGGTCCTTCGGGACAT
Found at i:106213 original size:19 final size:19
Alignment explanation
Indices: 106189--106259 Score: 124
Period size: 19 Copynumber: 3.7 Consensus size: 19
106179 GAATGCAATT
*
106189 AGTGCATCGATGCATAAAG
1 AGTGCATCGATGCATAAGG
106208 AGTGCATCGATGCATAAGG
1 AGTGCATCGATGCATAAGG
*
106227 AGTGCATCGATGCATGAGG
1 AGTGCATCGATGCATAAGG
106246 AGTGCATCGATGCA
1 AGTGCATCGATGCA
106260 CCTACTTAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 50 1.00
ACGTcount: A:0.31, C:0.17, G:0.31, T:0.21
Consensus pattern (19 bp):
AGTGCATCGATGCATAAGG
Found at i:106773 original size:24 final size:21
Alignment explanation
Indices: 106746--106803 Score: 55
Period size: 24 Copynumber: 2.5 Consensus size: 21
106736 ATGTGAAATA
106746 ATGAAAGTGATCACATGTGTGTAT
1 ATGAAAGTGAT-ACATGT-T-TAT
106770 ATG-AAGTGAAATACATGTTTAT
1 ATGAAAGTG--ATACATGTTTAT
106792 ATGAAAAGTGAT
1 ATG-AAAGTGAT
106804 GAGAAGATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
22 8 0.27
23 6 0.20
24 14 0.47
25 2 0.07
ACGTcount: A:0.40, C:0.05, G:0.22, T:0.33
Consensus pattern (21 bp):
ATGAAAGTGATACATGTTTAT
Found at i:107046 original size:18 final size:18
Alignment explanation
Indices: 107023--107096 Score: 85
Period size: 18 Copynumber: 3.9 Consensus size: 18
107013 GGAAATATAC
*
107023 AGTGGTCCTTTGGGACAT
1 AGTGGTCCTTCGGGACAT
* *
107041 AGTGGTTCTTCGGGAAGAAT
1 AGTGGTCCTTCGGG-A-CAT
107061 CAGTGGTCCTTCGGGACAT
1 -AGTGGTCCTTCGGGACAT
*
107080 AGTGGTCCTTCAGGACA
1 AGTGGTCCTTCGGGACA
107097 AATATTCAGT
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
18 28 0.60
19 3 0.06
20 3 0.06
21 13 0.28
ACGTcount: A:0.20, C:0.19, G:0.32, T:0.28
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAT
Found at i:109600 original size:10 final size:10
Alignment explanation
Indices: 109585--109611 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
109575 TCTAATTCTT
109585 AACGAGCCGA
1 AACGAGCCGA
109595 AACGAGCCGA
1 AACGAGCCGA
109605 AACGAGC
1 AACGAGC
109612 TATTTGATAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.30, G:0.30, T:0.00
Consensus pattern (10 bp):
AACGAGCCGA
Found at i:110506 original size:4 final size:4
Alignment explanation
Indices: 110497--110556 Score: 120
Period size: 4 Copynumber: 15.0 Consensus size: 4
110487 AGTCACTTCT
110497 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
110545 CATA CATA CATA
1 CATA CATA CATA
110557 TATATATATA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 56 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:114188 original size:135 final size:135
Alignment explanation
Indices: 114023--114288 Score: 523
Period size: 135 Copynumber: 2.0 Consensus size: 135
114013 GAGATAACAT
114023 ATACATATCTCACAAGAAATTAAATTCCTGTATCAACAGTCAATTTTAATATCACTTCTAGGCCT
1 ATACATATCTCACAAGAAATTAAATTCCTGTATCAACAGTCAATTTTAATATCACTTCTAGGCCT
114088 AATTGGCTAAAACTGAACTATATAATACTTCAGATTATTGTTAAGTTCCGGTAAAACACTGACCT
66 AATTGGCTAAAACTGAACTATATAATACTTCAGATTATTGTTAAGTTCCGGTAAAACACTGACCT
114153 ATATA
131 ATATA
*
114158 ATACATATCTCACAAGAAATTAAATTCCTGTATCAGCAGTCAATTTTAATATCACTTCTAGGCCT
1 ATACATATCTCACAAGAAATTAAATTCCTGTATCAACAGTCAATTTTAATATCACTTCTAGGCCT
114223 AATTGGCTAAAACTGAACTATATAATACTTCAGATTATTGTTAAGTTCCGGTAAAACACTGACCT
66 AATTGGCTAAAACTGAACTATATAATACTTCAGATTATTGTTAAGTTCCGGTAAAACACTGACCT
114288 A
131 A
114289 CAAACAGAAA
Statistics
Matches: 130, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
135 130 1.00
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (135 bp):
ATACATATCTCACAAGAAATTAAATTCCTGTATCAACAGTCAATTTTAATATCACTTCTAGGCCT
AATTGGCTAAAACTGAACTATATAATACTTCAGATTATTGTTAAGTTCCGGTAAAACACTGACCT
ATATA
Found at i:116182 original size:15 final size:15
Alignment explanation
Indices: 116162--116211 Score: 68
Period size: 14 Copynumber: 3.4 Consensus size: 15
116152 TGTAATAATT
116162 TAATAATACTAATA-A
1 TAATAATA-TAATATA
116177 TAATAATATAATATA
1 TAATAATATAATATA
*
116192 TAAT-ATGTAATATA
1 TAATAATATAATATA
116206 TAATAA
1 TAATAA
116212 AATGAGAACG
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
14 18 0.56
15 14 0.44
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (15 bp):
TAATAATATAATATA
Found at i:116194 original size:7 final size:7
Alignment explanation
Indices: 116171--116210 Score: 55
Period size: 7 Copynumber: 5.7 Consensus size: 7
116161 TTAATAATAC
116171 TAATA-A
1 TAATATA
116177 TAATAATA
1 TAAT-ATA
116185 TAATATA
1 TAATATA
*
116192 TAATATG
1 TAATATA
116199 TAATATA
1 TAATATA
116206 TAATA
1 TAATA
116211 AAATGAGAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
6 4 0.13
7 21 0.70
8 5 0.17
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (7 bp):
TAATATA
Found at i:116467 original size:36 final size:35
Alignment explanation
Indices: 116388--116720 Score: 329
Period size: 36 Copynumber: 9.3 Consensus size: 35
116378 TGATCTTGCT
* * *
116388 TTCACTACTCTTCCATGAAGGTTGG-GTTGTTCTAC
1 TTCACTACTCTTCCGTGAAGGTTGGAATTGAT-TAC
116423 TTCACTACTCTTCCGTGAAGGTTGGAATTGTATTAC
1 TTCACTACTCTTCCGTGAAGGTTGGAATTG-ATTAC
* * *
116459 TTCGCTACTCTTTCGTGAAGGCTGAGAA-TGATTAAC
1 TTCACTACTCTTCCGTGAAGGTTG-GAATTGATT-AC
*
116495 TTCAATACTCTTCCGTGAAGGTT-GAATTGCATTAC
1 TTCACTACTCTTCCGTGAAGGTTGGAATTG-ATTAC
* *
116530 TTCACTACTCTTCCGTTAAGGATAGGAA-TGATTGAC
1 TTCACTACTCTTCCGTGAAGG-TTGGAATTGATT-AC
* *
116566 TTCATTACTCTTCCGTGAAGGCT-GAATTGCATTAC
1 TTCACTACTCTTCCGTGAAGGTTGGAATTG-ATTAC
* **
116601 TTCACTACTCTTCCGTGAAGATTAAAATTGCATTAC
1 TTCACTACTCTTCCGTGAAGGTTGGAATTG-ATTAC
* **
116637 TTCACTACTCTTTCGTGAAGACTGAGAA-TGATTAAC
1 TTCACTACTCTTCCGTGAAGGTTG-GAATTGATT-AC
*
116673 TTCACTACTCTTCCGTGAAGGCTGAGAA-TGATTGAC
1 TTCACTACTCTTCCGTGAAGGTTG-GAATTGATT-AC
*
116709 TTCATTACTCTT
1 TTCACTACTCTT
116721 TCGTAAAGAT
Statistics
Matches: 255, Mismatches: 29, Indels: 27
0.82 0.09 0.09
Matches are distributed among these distances:
34 6 0.02
35 80 0.31
36 160 0.63
37 9 0.04
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (35 bp):
TTCACTACTCTTCCGTGAAGGTTGGAATTGATTAC
Found at i:116529 original size:71 final size:71
Alignment explanation
Indices: 116421--116720 Score: 365
Period size: 71 Copynumber: 4.2 Consensus size: 71
116411 GGGTTGTTCT
* * * * *
116421 ACTTCACTACTCTTCCGTGAAGGTTGGAATTGTATTACTTCGCTACTCTTTCGTGAAGGCTGAGA
1 ACTTCACTACTCTTCCGTGAAGGCT-GAATTGCATTACTTCACTACTCTTCCGTGAAGGATGAGA
*
116486 ATGATTA
65 ATGATTG
* * *
116493 ACTTCAATACTCTTCCGTGAAGGTTGAATTGCATTACTTCACTACTCTTCCGTTAAGGAT-AGGA
1 ACTTCACTACTCTTCCGTGAAGGCTGAATTGCATTACTTCACTACTCTTCCGTGAAGGATGA-GA
116557 ATGATTG
65 ATGATTG
* * *
116564 ACTTCATTACTCTTCCGTGAAGGCTGAATTGCATTACTTCACTACTCTTCCGTGAA-GATTAAAA
1 ACTTCACTACTCTTCCGTGAAGGCTGAATTGCATTACTTCACTACTCTTCCGTGAAGGATGAGAA
116628 TTGCATT-
66 -TG-ATTG
* * * *
116635 ACTTCACTACTCTTTCGTGAAGACTGAGAATG-ATTAACTTCACTACTCTTCCGTGAAGGCTGAG
1 ACTTCACTACTCTTCCGTGAAGGCTGA-ATTGCATT-ACTTCACTACTCTTCCGTGAAGGATGAG
116699 AATGATTG
64 AATGATTG
*
116707 ACTTCATTACTCTT
1 ACTTCACTACTCTT
116721 TCGTAAAGAT
Statistics
Matches: 201, Mismatches: 19, Indels: 16
0.85 0.08 0.07
Matches are distributed among these distances:
70 6 0.03
71 124 0.62
72 66 0.33
73 5 0.02
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (71 bp):
ACTTCACTACTCTTCCGTGAAGGCTGAATTGCATTACTTCACTACTCTTCCGTGAAGGATGAGAA
TGATTG
Found at i:116583 original size:107 final size:104
Alignment explanation
Indices: 116388--116720 Score: 402
Period size: 107 Copynumber: 3.1 Consensus size: 104
116378 TGATCTTGCT
* ** * *
116388 TTCACTACTCTTCCATGAAGGTTGGGTTG-TTCTACTTCACTACTCTTCCGTGAAGGTTGGAATT
1 TTCACTACTCTTCCGTGAAGGTTGAATTGCAT-TACTTCACTACTCTTCCGTGAAGGATGGAA-T
* *
116452 GTATTACTTCGCTACTCTTTCGTGAAGGCTGAGAATGATTAAC
64 G-ATTACTTCACTACTCTTCCGTGAAGGCTGAGAATGATT-AC
* *
116495 TTCAATACTCTTCCGTGAAGGTTGAATTGCATTACTTCACTACTCTTCCGTTAAGGATAGGAATG
1 TTCACTACTCTTCCGTGAAGGTTGAATTGCATTACTTCACTACTCTTCCGTGAAGGAT-GGAATG
* *
116560 ATTGACTTCATTACTCTTCCGTGAAGGCTGA-ATTGCATTAC
65 ATT-ACTTCACTACTCTTCCGTGAAGGCTGAGAATG-ATTAC
* * *
116601 TTCACTACTCTTCCGTGAAGATTAAAATTGCATTACTTCACTACTCTTTCGTGAA-GACTGAGAA
1 TTCACTACTCTTCCGTGAAGGTT-GAATTGCATTACTTCACTACTCTTCCGTGAAGGA-TG-GAA
116665 TGATTAACTTCACTACTCTTCCGTGAAGGCTGAGAATGATTGAC
63 TGATT-ACTTCACTACTCTTCCGTGAAGGCTGAGAATGATT-AC
*
116709 TTCATTACTCTT
1 TTCACTACTCTT
116721 TCGTAAAGAT
Statistics
Matches: 197, Mismatches: 20, Indels: 17
0.84 0.09 0.07
Matches are distributed among these distances:
106 32 0.16
107 144 0.73
108 21 0.11
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (104 bp):
TTCACTACTCTTCCGTGAAGGTTGAATTGCATTACTTCACTACTCTTCCGTGAAGGATGGAATGA
TTACTTCACTACTCTTCCGTGAAGGCTGAGAATGATTAC
Done.