Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003650.1 Hibiscus syriacus cultivar Beakdansim tig00007756_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: 117675
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:940 original size:20 final size:20
Alignment explanation
Indices: 915--961 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
905 CTATAACCGG
915 TCTGAACCGGCCCAACCCGA
1 TCTGAACCGGCCCAACCCGA
*
935 TCTGAACCGGCCCAACCCGG
1 TCTGAACCGGCCCAACCCGA
955 TCTGAAC
1 TCTGAAC
962 TAGGTTTGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.23, C:0.43, G:0.21, T:0.13
Consensus pattern (20 bp):
TCTGAACCGGCCCAACCCGA
Found at i:4571 original size:20 final size:22
Alignment explanation
Indices: 4546--4587 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
4536 GGTATTGGTA
4546 CATAAGA-GA-AGTATCGATAC
1 CATAAGAGGATAGTATCGATAC
4566 CATAAGAGGATAGTATCGATAC
1 CATAAGAGGATAGTATCGATAC
4588 TATAGTAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 7 0.35
21 2 0.10
22 11 0.55
ACGTcount: A:0.43, C:0.14, G:0.21, T:0.21
Consensus pattern (22 bp):
CATAAGAGGATAGTATCGATAC
Found at i:5537 original size:21 final size:21
Alignment explanation
Indices: 5391--5539 Score: 91
Period size: 21 Copynumber: 7.0 Consensus size: 21
5381 AGTCGAGGGT
*
5391 TATACGTGGTCCTTCGGGACA
1 TATATGTGGTCCTTCGGGACA
** * *
5412 TATATGTAATCCTTTGGAACA
1 TATATGTGGTCCTTCGGGACA
* * *
5433 TATATGCGGTTCTTCGAGACA
1 TATATGTGGTCCTTCGGGACA
* * * * * *
5454 CATATTTGGTCATTTGGAATA
1 TATATGTGGTCCTTCGGGACA
* **
5475 TATATGTGGTCCTTAAGGAGATT
1 TATATGTGGTCCTT-CGG-GACA
* * *
5498 TCTATGTGGTCATTCGGGATA
1 TATATGTGGTCCTTCGGGACA
*
5519 TATATGTGGTCCTTTGGGACA
1 TATATGTGGTCCTTCGGGACA
5540 AATTCTATGT
Statistics
Matches: 91, Mismatches: 35, Indels: 4
0.70 0.27 0.03
Matches are distributed among these distances:
21 73 0.80
22 4 0.04
23 14 0.15
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.37
Consensus pattern (21 bp):
TATATGTGGTCCTTCGGGACA
Found at i:5867 original size:2 final size:2
Alignment explanation
Indices: 5860--5929 Score: 140
Period size: 2 Copynumber: 35.0 Consensus size: 2
5850 CAAAATATGC
5860 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
5902 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
5930 GGCTATGAAA
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 68 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6320 original size:16 final size:17
Alignment explanation
Indices: 6293--6326 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
6283 ATTTTCATTC
6293 TTTTGTAAAAGTAAATG
1 TTTTGTAAAAGTAAATG
*
6310 TTTTG-AAAAGTTAATG
1 TTTTGTAAAAGTAAATG
6326 T
1 T
6327 GACACCTCGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.38, C:0.00, G:0.18, T:0.44
Consensus pattern (17 bp):
TTTTGTAAAAGTAAATG
Found at i:13200 original size:268 final size:268
Alignment explanation
Indices: 12723--13264 Score: 1075
Period size: 268 Copynumber: 2.0 Consensus size: 268
12713 TCGAAGAGGA
12723 AAAACTTGGTTATCGGAATGATAATTCATCTGGAAGATCAAAAGAGCAGTGTTCGCAGTTTATTA
1 AAAACTTGGTTATCGGAATGATAATTCATCTGGAAGATCAAAAGAGCAGTGTTCGCAGTTTATTA
12788 ATAAAATGAATGCTACAGAACCTGAGAGTCACTACAAGTTGAGAGTTCCCTGTGGTCTCACTCAA
66 ATAAAATGAATGCTACAGAACCTGAGAGTCACTACAAGTTGAGAGTTCCCTGTGGTCTCACTCAA
12853 GGTTCTTCCATTACAATCATTGGCGTTACAAATGGTGTTCTTGGTGATTTTCGCATTGATTTAAC
131 GGTTCTTCCATTACAATCATTGGCGTTACAAATGGTGTTCTTGGTGATTTTCGCATTGATTTAAC
12918 AGGGGAAACACTTCCAGGGGAGCCTGATCCACCAATAATTTTGCATTACAATGTTAGACTTCATG
196 AGGGGAAACACTTCCAGGGGAGCCTGATCCACCAATAATTTTGCATTACAATGTTAGACTTCATG
12983 GGGATAAG
261 GGGATAAG
12991 AAAACTTGGTTATCGGAATGATAATTCATCTGGAAGATCAAAAGAGCAGTGTTCGCAGTTTATTA
1 AAAACTTGGTTATCGGAATGATAATTCATCTGGAAGATCAAAAGAGCAGTGTTCGCAGTTTATTA
13056 ATAAAATGAATGCTACAGAACCTGAGAGTCACTACAAGTTGAGAGTTCCCTGTGGTCTCACTCAA
66 ATAAAATGAATGCTACAGAACCTGAGAGTCACTACAAGTTGAGAGTTCCCTGTGGTCTCACTCAA
13121 GGTTCTTCCATTACAATCATTGGCGTTACAAATGGTGTTCTTGGTGATTTTCGCATTGATTTAAC
131 GGTTCTTCCATTACAATCATTGGCGTTACAAATGGTGTTCTTGGTGATTTTCGCATTGATTTAAC
13186 AGGGGAAACACTTCCAGGGGAGCCTGATCCACCAATAATTTTGCATTACAATGTTAGACTTCATG
196 AGGGGAAACACTTCCAGGGGAGCCTGATCCACCAATAATTTTGCATTACAATGTTAGACTTCATG
13251 GGGATAAG
261 GGGATAAG
*
13259 ATAACT
1 AAAACT
13265 GAGGACCCGG
Statistics
Matches: 273, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
268 273 1.00
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (268 bp):
AAAACTTGGTTATCGGAATGATAATTCATCTGGAAGATCAAAAGAGCAGTGTTCGCAGTTTATTA
ATAAAATGAATGCTACAGAACCTGAGAGTCACTACAAGTTGAGAGTTCCCTGTGGTCTCACTCAA
GGTTCTTCCATTACAATCATTGGCGTTACAAATGGTGTTCTTGGTGATTTTCGCATTGATTTAAC
AGGGGAAACACTTCCAGGGGAGCCTGATCCACCAATAATTTTGCATTACAATGTTAGACTTCATG
GGGATAAG
Found at i:21206 original size:20 final size:20
Alignment explanation
Indices: 21178--21217 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
21168 ATACCAAATC
* *
21178 CTCTTAAATCATCTCAACTT
1 CTCTCAAATCATCCCAACTT
*
21198 CTCTCAAATCCTCCCAACTT
1 CTCTCAAATCATCCCAACTT
21218 AAGGTATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.38, G:0.00, T:0.35
Consensus pattern (20 bp):
CTCTCAAATCATCCCAACTT
Found at i:21277 original size:12 final size:12
Alignment explanation
Indices: 21223--21277 Score: 56
Period size: 12 Copynumber: 4.2 Consensus size: 12
21213 AACTTAAGGT
*
21223 ATATTTTATTTT
1 ATATTTTATTTA
21235 ATATTTTATTTA
1 ATATTTTATTTA
21247 ATTATTTAATTATTTTA
1 A-TA-TT--TTA-TTTA
21264 ATATTTTATTTA
1 ATATTTTATTTA
21276 AT
1 AT
21278 TAATTTTTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
12 18 0.49
13 5 0.14
14 2 0.05
15 2 0.05
16 5 0.14
17 5 0.14
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTTTATTTA
Found at i:23632 original size:31 final size:31
Alignment explanation
Indices: 23573--23633 Score: 88
Period size: 34 Copynumber: 1.9 Consensus size: 31
23563 GTTAACTTTG
23573 TTTATTACCATTTAATACTAGTTATTGTAATTT
1 TTTATTACCATTTAATAC-A-TTATTGTAATTT
23606 TTTATTTACCATTTAATAC-TTATTGTAA
1 TTTA-TTACCATTTAATACATTATTGTAA
23634 GTTTGTTGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
31 9 0.33
33 4 0.15
34 14 0.52
ACGTcount: A:0.31, C:0.10, G:0.05, T:0.54
Consensus pattern (31 bp):
TTTATTACCATTTAATACATTATTGTAATTT
Found at i:27072 original size:14 final size:13
Alignment explanation
Indices: 27048--27076 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
27038 ATCATATATA
27048 ATTATAAAAAAAT
1 ATTATAAAAAAAT
27061 ATTATAAAAAAA-
1 ATTATAAAAAAAT
27073 ATTA
1 ATTA
27077 CCTTATAACG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.25
13 12 0.75
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
ATTATAAAAAAAT
Found at i:33097 original size:31 final size:31
Alignment explanation
Indices: 33061--33131 Score: 97
Period size: 31 Copynumber: 2.3 Consensus size: 31
33051 ATGGTTGAGG
* *
33061 GACTAAAATCGAATGGACCGATAACGTTAGA
1 GACTAAAATCGAACGGACCGATAAAGTTAGA
* *
33092 GACTAAAATCGAACGGACTGATAAAGTTAGG
1 GACTAAAATCGAACGGACCGATAAAGTTAGA
*
33123 GACTTAAAT
1 GACTAAAAT
33132 TAGACATACC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.21
Consensus pattern (31 bp):
GACTAAAATCGAACGGACCGATAAAGTTAGA
Found at i:33593 original size:23 final size:23
Alignment explanation
Indices: 33565--33612 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
33555 TTTATTATCA
*
33565 TTATCACATTAAATATTAT-AATT
1 TTATCACATGAAAT-TTATAAATT
*
33588 TTATCATATGAAATTTATAAATT
1 TTATCACATGAAATTTATAAATT
33611 TT
1 TT
33613 TAATAAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 4 0.18
23 18 0.82
ACGTcount: A:0.42, C:0.06, G:0.02, T:0.50
Consensus pattern (23 bp):
TTATCACATGAAATTTATAAATT
Found at i:35840 original size:2 final size:2
Alignment explanation
Indices: 35833--35864 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
35823 ATCTCATAAT
35833 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
35865 CGTATACACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:36947 original size:69 final size:69
Alignment explanation
Indices: 36836--36974 Score: 260
Period size: 69 Copynumber: 2.0 Consensus size: 69
36826 ATGTCACACC
*
36836 CAAAATCCGTTCTAGTAGTTTTGGATTTATCCGAAAGATAAGTAGACCCGTGAAGATTATAATTT
1 CAAAATCCGTGCTAGTAGTTTTGGATTTATCCGAAAGATAAGTAGACCCGTGAAGATTATAATTT
36901 AAGT
66 AAGT
*
36905 CAAAATCCGTGCTAGTAGTTTTGGATTTATCCGAAAGGTAAGTAGACCCGTGAAGATTATAATTT
1 CAAAATCCGTGCTAGTAGTTTTGGATTTATCCGAAAGATAAGTAGACCCGTGAAGATTATAATTT
36970 AAGT
66 AAGT
36974 C
1 C
36975 GTTGTGCCGA
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
69 68 1.00
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.32
Consensus pattern (69 bp):
CAAAATCCGTGCTAGTAGTTTTGGATTTATCCGAAAGATAAGTAGACCCGTGAAGATTATAATTT
AAGT
Found at i:38592 original size:14 final size:14
Alignment explanation
Indices: 38573--38600 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
38563 TTAGTTGCCC
38573 TAGTGCGGCATTGT
1 TAGTGCGGCATTGT
38587 TAGTGCGGCATTGT
1 TAGTGCGGCATTGT
38601 CAGCGCGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.14, G:0.36, T:0.36
Consensus pattern (14 bp):
TAGTGCGGCATTGT
Found at i:39264 original size:28 final size:28
Alignment explanation
Indices: 39232--39290 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
39222 CATGTCTCTA
39232 GCATGGTTGTGTTTATGGAACTCTTAAT
1 GCATGGTTGTGTTTATGGAACTCTTAAT
39260 GCATGGTTGTGTTTATGGAACTCTTAAT
1 GCATGGTTGTGTTTATGGAACTCTTAAT
39288 GCA
1 GCA
39291 ATTCTAGATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.22, C:0.12, G:0.25, T:0.41
Consensus pattern (28 bp):
GCATGGTTGTGTTTATGGAACTCTTAAT
Found at i:39543 original size:20 final size:20
Alignment explanation
Indices: 39518--39561 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
39508 CAAATACTAG
* **
39518 ATAATTAAAGTTGCAAGTCC
1 ATAATTAAAATTAAAAGTCC
39538 ATAATTAAAATTAAAAGTCC
1 ATAATTAAAATTAAAAGTCC
39558 ATAA
1 ATAA
39562 AATAGTTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.50, C:0.11, G:0.09, T:0.30
Consensus pattern (20 bp):
ATAATTAAAATTAAAAGTCC
Found at i:43766 original size:7 final size:7
Alignment explanation
Indices: 43748--43777 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
43738 ATATATATAT
43748 AATTTT-
1 AATTTTA
43754 AATTTTA
1 AATTTTA
43761 AATTTTA
1 AATTTTA
43768 AATTTTA
1 AATTTTA
43775 AAT
1 AAT
43778 AATTTTTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 6 0.26
7 17 0.74
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
AATTTTA
Found at i:45577 original size:13 final size:12
Alignment explanation
Indices: 45534--45580 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
45524 TTGTATGGAC
45534 TTTGTTT-AATT
1 TTTGTTTCAATT
* *
45545 TTTGATTCGATT
1 TTTGTTTCAATT
*
45557 TTTATTTCAATT
1 TTTGTTTCAATT
45569 TCTTGTTTCAAT
1 T-TTGTTTCAAT
45581 CTATTTTTTC
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
11 6 0.21
12 13 0.46
13 9 0.32
ACGTcount: A:0.19, C:0.09, G:0.09, T:0.64
Consensus pattern (12 bp):
TTTGTTTCAATT
Found at i:56037 original size:16 final size:16
Alignment explanation
Indices: 56004--56046 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
55994 TATTTATTAA
*
56004 ATTTTCAAATTGTTATT
1 ATTTTCATATT-TTATT
*
56021 ATTTTGATATTTTATT
1 ATTTTCATATTTTATT
56037 ATTTTCATAT
1 ATTTTCATAT
56047 GATGTGAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
16 14 0.61
17 9 0.39
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.63
Consensus pattern (16 bp):
ATTTTCATATTTTATT
Found at i:56192 original size:17 final size:18
Alignment explanation
Indices: 56162--56198 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
56152 AATATTATTT
56162 TATTATTTATTTTAA-AA
1 TATTATTTATTTTAATAA
56179 TATT-TTTATATTTAATAA
1 TATTATTTAT-TTTAATAA
56197 TA
1 TA
56199 AAAAAGTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 5 0.28
17 9 0.50
18 4 0.22
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
TATTATTTATTTTAATAA
Found at i:60444 original size:185 final size:182
Alignment explanation
Indices: 60108--60477 Score: 609
Period size: 185 Copynumber: 2.0 Consensus size: 182
60098 GAATTAAATG
* *
60108 TTTTTTAATTCAAAAAAAGTTTATAATTAATTTAAATAATATATAATTATAAAATAAAAATTTCA
1 TTTTTTAATTAAAAAAAAGTTTACAATTAATTTAAATAATATATAATTATAAAATAAAAATTTCA
60173 GATAAATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTATTGAATCTTAAATTATTAAT
66 GATAAATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTATTGAATCTTAAATTATTAAT
*
60238 TGGATTTTAAATGGTTTGGGCTGAACTCATATGTTATATATAATATATATAATA
131 TGGATTTTAAATAGTTTGGGCTGAACTCATATG-T-TATATAATATATATAATA
*
60292 TTTTTTAATTAAAAAAACAGTTTACAATTAATTTAAATAATATATAATTATAAAATAAAAATTTT
1 TTTTTTAATTAAAAAAA-AGTTTACAATTAATTTAAATAATATATAATTATAAAATAAAAATTTC
* *
60357 ATATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATT-AGATCTTAAATTATTA
65 AGATAAATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTATTGA-ATCTTAAATTATTA
* *
60421 ATT-GAGTTTTAAATAGTTTGGGCTGAGCTCATATGTTATATAATATATTTAATA
129 ATTGGA-TTTTAAATAGTTTGGGCTGAACTCATATGTTATATAATATATATAATA
60475 TTT
1 TTT
60478 AAAATTTAAT
Statistics
Matches: 175, Mismatches: 8, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
183 20 0.11
184 20 0.11
185 135 0.77
ACGTcount: A:0.43, C:0.03, G:0.08, T:0.46
Consensus pattern (182 bp):
TTTTTTAATTAAAAAAAAGTTTACAATTAATTTAAATAATATATAATTATAAAATAAAAATTTCA
GATAAATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTATTGAATCTTAAATTATTAAT
TGGATTTTAAATAGTTTGGGCTGAACTCATATGTTATATAATATATATAATA
Found at i:62657 original size:20 final size:20
Alignment explanation
Indices: 62634--62843 Score: 366
Period size: 20 Copynumber: 10.5 Consensus size: 20
62624 CTGACTATCC
* *
62634 CAATGCGAATACATAAATCA
1 CAATGCGAATACGTAAATCG
* * *
62654 CAATGCGCATACATAAATCA
1 CAATGCGAATACGTAAATCG
62674 CAATGCGAATACGTAAATCG
1 CAATGCGAATACGTAAATCG
62694 CAATGCGAATACGTAAATCG
1 CAATGCGAATACGTAAATCG
62714 CAATGCGAATACGTAAATCG
1 CAATGCGAATACGTAAATCG
62734 CAATGCGAATACGTAAATCG
1 CAATGCGAATACGTAAATCG
62754 CAATGCGAATACGTAAATCG
1 CAATGCGAATACGTAAATCG
62774 CAATGCGAATACGTAAATCG
1 CAATGCGAATACGTAAATCG
62794 CAATGCGAATACGTAAATCG
1 CAATGCGAATACGTAAATCG
62814 CAATGCGAATACGTAAATCG
1 CAATGCGAATACGTAAATCG
*
62834 CAACGCGAAT
1 CAATGCGAAT
62844 CTGACTATCA
Statistics
Matches: 185, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 185 1.00
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.20
Consensus pattern (20 bp):
CAATGCGAATACGTAAATCG
Found at i:62893 original size:20 final size:20
Alignment explanation
Indices: 62830--62896 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
62820 GAATACGTAA
* *
62830 ATCGCAACGCGAATCTGACT
1 ATCGCAACGAGATTCTGACT
*
62850 ATCACAACGAGATTCTGACT
1 ATCGCAACGAGATTCTGACT
*
62870 ATCGCAACGAGATTTTGACT
1 ATCGCAACGAGATTCTGACT
62890 ATCGCAA
1 ATCGCAA
62897 TACTGAATTT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (20 bp):
ATCGCAACGAGATTCTGACT
Found at i:63760 original size:24 final size:24
Alignment explanation
Indices: 63733--63791 Score: 100
Period size: 24 Copynumber: 2.5 Consensus size: 24
63723 AGTCAGTATT
63733 CGGACTTTGATCTTGGTCAATACC
1 CGGACTTTGATCTTGGTCAATACC
*
63757 CGGACTTTGATCTTGGTCAATACT
1 CGGACTTTGATCTTGGTCAATACC
*
63781 CGGATTTTGAT
1 CGGACTTTGAT
63792 GATTTTTCAG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.37
Consensus pattern (24 bp):
CGGACTTTGATCTTGGTCAATACC
Found at i:66246 original size:20 final size:20
Alignment explanation
Indices: 66204--66297 Score: 127
Period size: 20 Copynumber: 4.7 Consensus size: 20
66194 GACATTCATT
* *
66204 TGACTATCACAACGC-AAATA
1 TGACTATCGCAACGCGGAA-A
*
66224 TGACTATCGCAACACGGAAA
1 TGACTATCGCAACGCGGAAA
* *
66244 TGACTATAGCAATGCGGAAA
1 TGACTATCGCAACGCGGAAA
66264 TGACTATCGCAACGCGGAAA
1 TGACTATCGCAACGCGGAAA
66284 TGACTATCGCAACG
1 TGACTATCGCAACG
66298 AGAGAATCGC
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
20 63 0.97
21 2 0.03
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.18
Consensus pattern (20 bp):
TGACTATCGCAACGCGGAAA
Found at i:66319 original size:33 final size:33
Alignment explanation
Indices: 66269--66358 Score: 117
Period size: 33 Copynumber: 2.7 Consensus size: 33
66259 GGAAATGACT
* ** *
66269 ATCGCAACGCGGAAATGACTATCGCAACGAGAGA
1 ATCGCAATGC-GAAATGAAAATCACAACGAGAGA
66303 ATCGCAATGCGAAATGAAAATCACAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCACAACGAGAGA
*
66336 ATCGCAATGCGAAAATAAAAATC
1 ATCGCAATGCG-AAATGAAAATC
66359 GCAATGTGAA
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
33 31 0.62
34 19 0.38
ACGTcount: A:0.46, C:0.20, G:0.21, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCACAACGAGAGA
Found at i:66436 original size:33 final size:33
Alignment explanation
Indices: 66379--66474 Score: 138
Period size: 33 Copynumber: 2.8 Consensus size: 33
66369 TTTAGTTTTG
66379 CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCA-TTTCGCATTGCGATTCTCT
*
66413 CGTTGTGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
** *
66446 CGTTGCGATAGTCATTTCCGCGTTGCGAT
1 CGTTGCGATTTTCATTT-CGCATTGCGAT
66475 AGTCTGTTTT
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
33 33 0.59
34 23 0.41
ACGTcount: A:0.12, C:0.23, G:0.21, T:0.44
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
Found at i:67573 original size:21 final size:22
Alignment explanation
Indices: 67523--67600 Score: 63
Period size: 21 Copynumber: 3.6 Consensus size: 22
67513 AATGTTGGGA
* *
67523 GGGACCTCTTCAAC-GATGACAG
1 GGGA-CTCTTGAACGGATGATAG
* * *
67545 TGGCCTCTTGAACGG-TGGTAG
1 GGGACTCTTGAACGGATGATAG
*
67566 GGGACTCTTG-AGGGATGATAG
1 GGGACTCTTGAACGGATGATAG
*
67587 GGGCCTCTTGAACG
1 GGGACTCTTGAACG
67601 AGATATACTG
Statistics
Matches: 42, Mismatches: 11, Indels: 6
0.71 0.19 0.10
Matches are distributed among these distances:
20 3 0.07
21 34 0.81
22 5 0.12
ACGTcount: A:0.21, C:0.21, G:0.36, T:0.23
Consensus pattern (22 bp):
GGGACTCTTGAACGGATGATAG
Found at i:67742 original size:20 final size:20
Alignment explanation
Indices: 67701--67771 Score: 81
Period size: 20 Copynumber: 3.5 Consensus size: 20
67691 GCTATGTAAA
* *
67701 TCGCATTGCGATAGT-CAGAT
1 TCGCATTGCGAT-TTACATAT
*
67721 TCGCGTTGCGATTTACATAT
1 TCGCATTGCGATTTACATAT
* *
67741 TCGCATTACGATTTACGTAT
1 TCGCATTGCGATTTACATAT
67761 TCGCATTGCGA
1 TCGCATTGCGA
67772 ATTAGGAAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
19 1 0.02
20 42 0.98
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (20 bp):
TCGCATTGCGATTTACATAT
Found at i:67792 original size:21 final size:21
Alignment explanation
Indices: 67768--67813 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
67758 TATTCGCATT
*
67768 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATAGCAAC
* *
67789 GCGAATTTGGAAAATAGCAAT
1 GCGAATTAGGAAAATAGCAAC
67810 GCGA
1 GCGA
67814 TAGTTAGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.41, C:0.15, G:0.26, T:0.17
Consensus pattern (21 bp):
GCGAATTAGGAAAATAGCAAC
Found at i:68362 original size:15 final size:15
Alignment explanation
Indices: 68342--68376 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
68332 CTATTTTTAC
*
68342 AGTATCGATACTGCG
1 AGTATCAATACTGCG
*
68357 AGTATCAATACTGTG
1 AGTATCAATACTGCG
68372 AGTAT
1 AGTAT
68377 AGTACCAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.31
Consensus pattern (15 bp):
AGTATCAATACTGCG
Found at i:71085 original size:22 final size:22
Alignment explanation
Indices: 71039--71105 Score: 98
Period size: 22 Copynumber: 3.0 Consensus size: 22
71029 GAAAGTCAAC
* *
71039 GGTCAACGGTCAACGGTCGGATCG
1 GGTCAACGGTC--GGGTCGGGTCG
71063 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
71085 GGTCAACGGTCGGGTCGGGTC
1 GGTCAACGGTCGGGTCGGGTC
71106 AGACCGGTCA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
22 30 0.73
24 11 0.27
ACGTcount: A:0.13, C:0.24, G:0.45, T:0.18
Consensus pattern (22 bp):
GGTCAACGGTCGGGTCGGGTCG
Found at i:71095 original size:17 final size:17
Alignment explanation
Indices: 71046--71106 Score: 68
Period size: 17 Copynumber: 3.3 Consensus size: 17
71036 AACGGTCAAC
*
71046 GGTCAACGGTCGGATCG
1 GGTCAACGGTCGGGTCG
71063 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAA----C-GGTCGGGTCG
71085 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
71102 GGTCA
1 GGTCA
71107 GACCGGTCAA
Statistics
Matches: 38, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
17 21 0.55
18 1 0.03
21 1 0.03
22 15 0.39
ACGTcount: A:0.13, C:0.23, G:0.46, T:0.18
Consensus pattern (17 bp):
GGTCAACGGTCGGGTCG
Found at i:71120 original size:9 final size:9
Alignment explanation
Indices: 71102--71200 Score: 81
Period size: 9 Copynumber: 10.3 Consensus size: 9
71092 GGTCGGGTCG
*
71102 GGTCAGACC
1 GGTCAAACC
71111 GGTCAAACC
1 GGTCAAACC
*
71120 GGTTCAGACC
1 GG-TCAAACC
71130 GGTCAAACC
1 GGTCAAACC
*
71139 GGTTAGAACC
1 GGTCA-AACC
*
71149 GGTTGAAACC
1 GG-TCAAACC
71159 GGTCAAACC
1 GGTCAAACC
71168 GGTCAGAACC
1 GGTCA-AACC
* *
71178 TGTTGAAAACC
1 -GGT-CAAACC
*
71189 GGTTAAACC
1 GGTCAAACC
71198 GGT
1 GGT
71201 TTCCAGCAGC
Statistics
Matches: 74, Mismatches: 10, Indels: 12
0.77 0.10 0.12
Matches are distributed among these distances:
9 39 0.53
10 26 0.35
11 8 0.11
12 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.27, T:0.17
Consensus pattern (9 bp):
GGTCAAACC
Found at i:71126 original size:19 final size:19
Alignment explanation
Indices: 71104--71201 Score: 92
Period size: 19 Copynumber: 5.1 Consensus size: 19
71094 TCGGGTCGGG
71104 TCAGACCGGTCAAACCGGT
1 TCAGACCGGTCAAACCGGT
71123 TCAGACCGGTCAAACCGGT
1 TCAGACCGGTCAAACCGGT
*
71142 T-AGAACCGGTTGAAACCGG-
1 TCAG-ACCGG-TCAAACCGGT
* *
71161 TCAAACCGGTCAGAACCTGT
1 TCAGACCGGTCA-AACCGGT
* * *
71181 TGAAAACCGGTTAAACCGGT
1 T-CAGACCGGTCAAACCGGT
71201 T
1 T
71202 TCCAGCAGCC
Statistics
Matches: 66, Mismatches: 7, Indels: 11
0.79 0.08 0.13
Matches are distributed among these distances:
18 4 0.06
19 36 0.55
20 17 0.26
21 9 0.14
ACGTcount: A:0.30, C:0.27, G:0.26, T:0.18
Consensus pattern (19 bp):
TCAGACCGGTCAAACCGGT
Found at i:71159 original size:29 final size:30
Alignment explanation
Indices: 71103--71200 Score: 112
Period size: 29 Copynumber: 3.4 Consensus size: 30
71093 GTCGGGTCGG
*
71103 GTCAGACCGGTCA-AACCGGTTCAG-ACCG
1 GTCAAACCGGTCAGAACCGGTTCAGAACCG
* *
71131 GTCAAACCGGTTAGAACCGGTTGA-AACCG
1 GTCAAACCGGTCAGAACCGGTTCAGAACCG
* * *
71160 GTCAAACCGGTCAGAACCTGTTGAAAACCG
1 GTCAAACCGGTCAGAACCGGTTCAGAACCG
*
71190 GTTAAACCGGT
1 GTCAAACCGGT
71201 TTCCAGCAGC
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
28 11 0.18
29 35 0.57
30 15 0.25
ACGTcount: A:0.30, C:0.27, G:0.27, T:0.17
Consensus pattern (30 bp):
GTCAAACCGGTCAGAACCGGTTCAGAACCG
Found at i:77912 original size:22 final size:22
Alignment explanation
Indices: 77866--77935 Score: 90
Period size: 22 Copynumber: 3.2 Consensus size: 22
77856 GAAAGTCAAC
* *
77866 GGTCAACGGTCAACGGTCGGATCG
1 GGTCAACGGTC--GGGTCGGGTCG
77890 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
77912 GGTCAACGGTCGGGTC--GTCG
1 GGTCAACGGTCGGGTCGGGTCG
77932 GGTC
1 GGTC
77936 GGGTCAGACC
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
20 8 0.18
22 25 0.57
24 11 0.25
ACGTcount: A:0.13, C:0.24, G:0.44, T:0.19
Consensus pattern (22 bp):
GGTCAACGGTCGGGTCGGGTCG
Found at i:77928 original size:17 final size:17
Alignment explanation
Indices: 77873--77910 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
77863 AACGGTCAAC
77873 GGTCAACGGTCGGATCG
1 GGTCAACGGTCGGATCG
*
77890 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGATCG
77907 GGTC
1 GGTC
77911 GGGTCAACGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.13, C:0.24, G:0.45, T:0.18
Consensus pattern (17 bp):
GGTCAACGGTCGGATCG
Found at i:77937 original size:13 final size:13
Alignment explanation
Indices: 77903--77940 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
77893 CAACGGTCGG
77903 GTCGGGTCGGGTC
1 GTCGGGTCGGGTC
**
77916 AAC-GGTCGGGTC
1 GTCGGGTCGGGTC
77928 GTCGGGTCGGGTC
1 GTCGGGTCGGGTC
77941 AGACCGGTCA
Statistics
Matches: 20, Mismatches: 4, Indels: 2
0.77 0.15 0.08
Matches are distributed among these distances:
12 10 0.50
13 10 0.50
ACGTcount: A:0.05, C:0.24, G:0.50, T:0.21
Consensus pattern (13 bp):
GTCGGGTCGGGTC
Found at i:77949 original size:22 final size:22
Alignment explanation
Indices: 77879--77949 Score: 65
Period size: 22 Copynumber: 3.0 Consensus size: 22
77869 CAACGGTCAA
*
77879 CGGTCGGATCGGGTCAA-CGGT
1 CGGTCGGGTCGGGTCAACCGGT
77900 CGGGTCGGGTCGGGTCAA-CGGT
1 C-GGTCGGGTCGGGTCAACCGGT
77922 CGGGTCGTCGGGTCGGGTCAGACCGGT
1 C--G--GTCGGGTCGGGTCA-ACCGGT
77949 C
1 C
77950 AAACCGGTTC
Statistics
Matches: 43, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
21 1 0.02
22 20 0.47
23 2 0.05
25 14 0.33
26 1 0.02
27 5 0.12
ACGTcount: A:0.10, C:0.25, G:0.46, T:0.18
Consensus pattern (22 bp):
CGGTCGGGTCGGGTCAACCGGT
Found at i:77955 original size:9 final size:9
Alignment explanation
Indices: 77937--78024 Score: 95
Period size: 9 Copynumber: 9.3 Consensus size: 9
77927 CGTCGGGTCG
*
77937 GGTCAGACC
1 GGTCAAACC
77946 GGTCAAACC
1 GGTCAAACC
*
77955 GGTTCAGACC
1 GG-TCAAACC
77965 GGTCAAACC
1 GGTCAAACC
*
77974 GGTTCGAACC
1 GG-TCAAACC
*
77984 GGTTGAAACC
1 GG-TCAAACC
77994 GGTCAAACC
1 GGTCAAACC
78003 GGTCAGAACC
1 GGTCA-AACC
*
78013 GGTTAAACC
1 GGTCAAACC
78022 GGT
1 GGT
78025 TTCCAGCAGC
Statistics
Matches: 68, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
9 36 0.53
10 32 0.47
ACGTcount: A:0.27, C:0.28, G:0.28, T:0.16
Consensus pattern (9 bp):
GGTCAAACC
Found at i:77994 original size:29 final size:26
Alignment explanation
Indices: 77943--78025 Score: 58
Period size: 29 Copynumber: 3.0 Consensus size: 26
77933 GTCGGGTCAG
* *
77943 ACCGGTCAAACCGGTTCAGACCGGTCAA
1 ACCGGTCAAACCGG-TCAAACCGGT-TA
* * *
77971 ACCGGTTCGAACCGGTTGAAACCGGTCAA
1 ACCGG-TCAAACCGG-TCAAACCGGT-TA
*
78000 ACCGGTCAGAACCGGTTAAACCGGTT
1 ACCGGTCA-AACCGGTCAAACCGGTT
78026 TCCAGCAGCC
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
28 16 0.34
29 31 0.66
ACGTcount: A:0.28, C:0.29, G:0.27, T:0.17
Consensus pattern (26 bp):
ACCGGTCAAACCGGTCAAACCGGTTA
Found at i:78020 original size:19 final size:19
Alignment explanation
Indices: 77943--78024 Score: 105
Period size: 19 Copynumber: 4.3 Consensus size: 19
77933 GTCGGGTCAG
*
77943 ACCGGTCAAACCGGTTCAG
1 ACCGGTCAAACCGGTTCAA
*
77962 ACCGGTCAAACCGGTTCGA
1 ACCGGTCAAACCGGTTCAA
*
77981 ACCGGTTGAAACCGG-TCAA
1 ACCGG-TCAAACCGGTTCAA
78000 ACCGGTCAGAACCGGTT-AA
1 ACCGGTCA-AACCGGTTCAA
78019 ACCGGT
1 ACCGGT
78025 TTCCAGCAGC
Statistics
Matches: 55, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
18 2 0.04
19 44 0.80
20 9 0.16
ACGTcount: A:0.28, C:0.29, G:0.27, T:0.16
Consensus pattern (19 bp):
ACCGGTCAAACCGGTTCAA
Found at i:85201 original size:7 final size:7
Alignment explanation
Indices: 85189--85219 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
85179 GTCAAAGAAA
85189 GTCAACG
1 GTCAACG
85196 GTCAACG
1 GTCAACG
85203 GTCAACG
1 GTCAACG
85210 GTCAACG
1 GTCAACG
85217 GTC
1 GTC
85220 GGATCGGGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.26, C:0.29, G:0.29, T:0.16
Consensus pattern (7 bp):
GTCAACG
Found at i:85240 original size:12 final size:12
Alignment explanation
Indices: 85223--85264 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
85213 AACGGTCGGA
*
85223 TCGGGTCAACCG
1 TCGGGTCAACGG
**
85235 TCGGGTC-GGGG
1 TCGGGTCAACGG
85246 TCGGGTCAACGG
1 TCGGGTCAACGG
85258 TCGGGTC
1 TCGGGTC
85265 GGGTCAGATC
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
11 8 0.33
12 16 0.67
ACGTcount: A:0.10, C:0.26, G:0.45, T:0.19
Consensus pattern (12 bp):
TCGGGTCAACGG
Found at i:85252 original size:23 final size:23
Alignment explanation
Indices: 85223--85267 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
85213 AACGGTCGGA
85223 TCGGGTCAACCGTCGGGTCGGGG
1 TCGGGTCAACCGTCGGGTCGGGG
*
85246 TCGGGTCAACGGTCGGGTCGGG
1 TCGGGTCAACCGTCGGGTCGGG
85268 TCAGATCGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.09, C:0.24, G:0.49, T:0.18
Consensus pattern (23 bp):
TCGGGTCAACCGTCGGGTCGGGG
Found at i:85263 original size:17 final size:17
Alignment explanation
Indices: 85209--85270 Score: 61
Period size: 17 Copynumber: 3.3 Consensus size: 17
85199 AACGGTCAAC
*
85209 GGTCAACGGTCGGATCG
1 GGTCAACGGTCGGGTCG
85226 GGTCAACCGTCGGGTCGGGGTCG
1 GGTCAA----C-GGTC-GGGTCG
85249 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
85266 GGTCA
1 GGTCA
85271 GATCGGTCAA
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
17 17 0.45
18 4 0.11
19 1 0.03
21 1 0.03
22 4 0.11
23 11 0.29
ACGTcount: A:0.13, C:0.24, G:0.45, T:0.18
Consensus pattern (17 bp):
GGTCAACGGTCGGGTCG
Found at i:85305 original size:9 final size:9
Alignment explanation
Indices: 85274--85364 Score: 65
Period size: 10 Copynumber: 9.4 Consensus size: 9
85264 CGGGTCAGAT
85274 CGGTCAAAC
1 CGGTCAAAC
* *
85283 TGGCTCAGAC
1 CGG-TCAAAC
85293 CGGTCAAAC
1 CGGTCAAAC
*
85302 CGGTTCGAAC
1 CGG-TCAAAC
*
85312 CGGTTGAAAC
1 CGG-TCAAAC
*
85322 CGTTCAAAC
1 CGGTCAAAC
85331 CGGTCAGAAC
1 CGGTCA-AAC
*
85341 CGGTTGAAAAC
1 CGG-T-CAAAC
*
85352 CGGTTAAAC
1 CGGTCAAAC
85361 CGGT
1 CGGT
85365 TTCCAGCAGC
Statistics
Matches: 65, Mismatches: 12, Indels: 10
0.75 0.14 0.11
Matches are distributed among these distances:
9 28 0.43
10 29 0.45
11 7 0.11
12 1 0.02
ACGTcount: A:0.29, C:0.27, G:0.26, T:0.18
Consensus pattern (9 bp):
CGGTCAAAC
Found at i:85328 original size:29 final size:31
Alignment explanation
Indices: 85291--85365 Score: 104
Period size: 29 Copynumber: 2.5 Consensus size: 31
85281 ACTGGCTCAG
*
85291 ACCGGTCAAACCGGTTC-GAACCGGTTG-AA
1 ACCGTTCAAACCGGTTCAGAACCGGTTGAAA
85320 ACCGTTCAAACCGG-TCAGAACCGGTTGAAA
1 ACCGTTCAAACCGGTTCAGAACCGGTTGAAA
85350 ACCGGTT-AAACCGGTT
1 ACC-GTTCAAACCGGTT
85366 TCCAGCAGCC
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
28 2 0.05
29 23 0.56
30 12 0.29
31 4 0.10
ACGTcount: A:0.29, C:0.27, G:0.25, T:0.19
Consensus pattern (31 bp):
ACCGTTCAAACCGGTTCAGAACCGGTTGAAA
Found at i:85365 original size:9 final size:10
Alignment explanation
Indices: 85277--85365 Score: 78
Period size: 9 Copynumber: 9.1 Consensus size: 10
85267 GTCAGATCGG
* *
85277 TCAAACTGGC
1 TCAAACCGGT
*
85287 TCAGACCGG-
1 TCAAACCGGT
85296 TCAAACCGGT
1 TCAAACCGGT
*
85306 TCGAACCGGT
1 TCAAACCGGT
*
85316 TGAAACC-GT
1 TCAAACCGGT
85325 TCAAACCGG-
1 TCAAACCGGT
85334 TCAGAACCGGT
1 TCA-AACCGGT
*
85345 TGAAAACCGGT
1 T-CAAACCGGT
85356 T-AAACCGGT
1 TCAAACCGGT
85365 T
1 T
85366 TCCAGCAGCC
Statistics
Matches: 66, Mismatches: 8, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
9 28 0.42
10 28 0.42
11 9 0.14
12 1 0.02
ACGTcount: A:0.29, C:0.27, G:0.25, T:0.19
Consensus pattern (10 bp):
TCAAACCGGT
Found at i:86381 original size:31 final size:31
Alignment explanation
Indices: 86343--86404 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
86333 CCATATACTA
*
86343 GTCAGGTTTGCATTTAGATAATGCACAACAT
1 GTCAGGTTCGCATTTAGATAATGCACAACAT
* *
86374 GTCAGGTTCGTATTTAGATAATGCATAACAT
1 GTCAGGTTCGCATTTAGATAATGCACAACAT
86405 ATTGGGTCGT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34
Consensus pattern (31 bp):
GTCAGGTTCGCATTTAGATAATGCACAACAT
Found at i:93168 original size:19 final size:19
Alignment explanation
Indices: 93111--93172 Score: 81
Period size: 19 Copynumber: 3.2 Consensus size: 19
93101 CATTATAATA
93111 TTAATTTTGATACATAAATT
1 TTAATTTTGAT-CATAAATT
* *
93131 TTAATATTGATCATTAATT
1 TTAATTTTGATCATAAATT
93150 TTAATTTTGATGC-TAAATT
1 TTAATTTTGAT-CATAAATT
93169 TTAA
1 TTAA
93173 CTTGATATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
19 26 0.70
20 11 0.30
ACGTcount: A:0.37, C:0.05, G:0.06, T:0.52
Consensus pattern (19 bp):
TTAATTTTGATCATAAATT
Found at i:93630 original size:44 final size:44
Alignment explanation
Indices: 93567--93654 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
93557 TTCATCCTTC
93567 AATGAACCATGATCTACACTTTTCTCTTTTGATCTATTGTTTGT
1 AATGAACCATGATCTACACTTTTCTCTTTTGATCTATTGTTTGT
93611 AATGAACCATGATCTACACTTTTCTCTTTTGATCTATTGTTTGT
1 AATGAACCATGATCTACACTTTTCTCTTTTGATCTATTGTTTGT
93655 TCTCTTTTCC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.23, C:0.18, G:0.11, T:0.48
Consensus pattern (44 bp):
AATGAACCATGATCTACACTTTTCTCTTTTGATCTATTGTTTGT
Found at i:94125 original size:76 final size:76
Alignment explanation
Indices: 93999--94146 Score: 242
Period size: 76 Copynumber: 1.9 Consensus size: 76
93989 ACACTAAACA
* * *
93999 TACATAACTCTTTCAATTAATCACAATGAATGTACCTCAATATTCATATTTTCTGAATTCATATA
1 TACATAAATCTTTCAACTAATCACAATGAATGTACCTCAACATTCATATTTTCTGAATTCATATA
94064 GAGATGCCACT
66 GAGATGCCACT
* * *
94075 TACATAAATCTTTCAACTAATCACAATGAATTTACCTCAACATTGATATTTTCTGAATTCATATG
1 TACATAAATCTTTCAACTAATCACAATGAATGTACCTCAACATTCATATTTTCTGAATTCATATA
94140 GAGATGC
66 GAGATGC
94147 TGCTTTCACT
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
76 66 1.00
ACGTcount: A:0.36, C:0.19, G:0.09, T:0.36
Consensus pattern (76 bp):
TACATAAATCTTTCAACTAATCACAATGAATGTACCTCAACATTCATATTTTCTGAATTCATATA
GAGATGCCACT
Found at i:96861 original size:23 final size:23
Alignment explanation
Indices: 96835--96879 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
96825 TGTTGTAAAT
* *
96835 TTATGTTCGTTTATTGTGTTTGC
1 TTATGTTCATTTATTATGTTTGC
96858 TTATGTTCATTTATTATGTTTG
1 TTATGTTCATTTATTATGTTTG
96880 TTCGTTTGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.13, C:0.07, G:0.18, T:0.62
Consensus pattern (23 bp):
TTATGTTCATTTATTATGTTTGC
Found at i:97518 original size:20 final size:20
Alignment explanation
Indices: 97493--97530 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
97483 ATACACATTC
*
97493 AACTTTTAAGTATTAAAAAA
1 AACTTTGAAGTATTAAAAAA
97513 AACTTTGAAGTATTAAAA
1 AACTTTGAAGTATTAAAA
97531 TCCATTAGAA
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:0.53, C:0.05, G:0.08, T:0.34
Consensus pattern (20 bp):
AACTTTGAAGTATTAAAAAA
Found at i:98179 original size:24 final size:24
Alignment explanation
Indices: 98169--98219 Score: 88
Period size: 23 Copynumber: 2.2 Consensus size: 24
98159 TATTTATAGT
98169 TTAAAATATAAAAATATTCAAAAA
1 TTAAAATATAAAAATATTCAAAAA
98193 TT-AAATATAAAAATA-TCAAAAA
1 TTAAAATATAAAAATATTCAAAAA
98215 TTAAA
1 TTAAA
98220 TTAAATTGCT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
22 9 0.35
23 15 0.58
24 2 0.08
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (24 bp):
TTAAAATATAAAAATATTCAAAAA
Found at i:98211 original size:22 final size:23
Alignment explanation
Indices: 98172--98224 Score: 92
Period size: 22 Copynumber: 2.4 Consensus size: 23
98162 TTATAGTTTA
98172 AAATATAAAAATATTCAAAAATT
1 AAATATAAAAATATTCAAAAATT
98195 AAATATAAAAATA-TCAAAAATT
1 AAATATAAAAATATTCAAAAATT
98217 AAAT-TAAA
1 AAATATAAA
98225 TTGCTAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 4 0.13
22 13 0.43
23 13 0.43
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (23 bp):
AAATATAAAAATATTCAAAAATT
Found at i:99046 original size:21 final size:21
Alignment explanation
Indices: 99013--99055 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
99003 GTCATTTTTC
* *
99013 ACCGTGAATTGTCATATCAGT
1 ACCGTAAAATGTCATATCAGT
*
99034 ACCGTAAAATGTCATGTCAGT
1 ACCGTAAAATGTCATATCAGT
99055 A
1 A
99056 TCATAACAGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.30
Consensus pattern (21 bp):
ACCGTAAAATGTCATATCAGT
Found at i:103851 original size:2 final size:2
Alignment explanation
Indices: 103838--103891 Score: 92
Period size: 2 Copynumber: 27.5 Consensus size: 2
103828 CTGGTTGATT
*
103838 TA TA TT TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
103880 TA TA TA TA -A TA T
1 TA TA TA TA TA TA T
103892 TTTAAGAATT
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 48 0.98
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:103918 original size:28 final size:27
Alignment explanation
Indices: 103887--103943 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 27
103877 ATATATATAT
103887 AATAT-TTTAAGAATTTTTATATTATTAA
1 AATATATTT-AGAATTTTTA-ATTATTAA
**
103915 AATATATTTTTAATTTTTAATTATTAA
1 AATATATTTAGAATTTTTAATTATTAA
103942 AA
1 AA
103944 ATAGAAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
27 10 0.38
28 13 0.50
29 3 0.12
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (27 bp):
AATATATTTAGAATTTTTAATTATTAA
Found at i:103922 original size:30 final size:27
Alignment explanation
Indices: 103888--103943 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
103878 TATATATATA
103888 ATATTTTAAGAATTTTTATATTATTAAAAT
1 ATATTTT--GAATTTTTA-ATTATTAAAAT
*
103918 ATATTTTTAATTTTTAATTATTAAAA
1 ATATTTTGAATTTTTAATTATTAAAA
103944 ATAGAAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
27 10 0.40
28 8 0.32
30 7 0.28
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (27 bp):
ATATTTTGAATTTTTAATTATTAAAAT
Found at i:104400 original size:53 final size:57
Alignment explanation
Indices: 104343--104460 Score: 154
Period size: 57 Copynumber: 2.1 Consensus size: 57
104333 ATATTATTTA
* *
104343 ATAATAAAAA-TATAAA-A-ATTATTGTCAAATATATTATTTTAACCA-TTTAAAAT
1 ATAATAAAAATTATAAACATATTATTATAAAATATATTATTTTAACCATTTTAAAAT
**
104396 ATAATAAAAATTTATAAACATATTATTATAAAATATATTATTTTAATTATTTTAAAAT
1 ATAATAAAAA-TTATAAACATATTATTATAAAATATATTATTTTAACCATTTTAAAAT
104454 ATTAATA
1 A-TAATA
104461 TATTTAGATT
Statistics
Matches: 55, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
53 10 0.18
55 6 0.11
56 1 0.02
57 24 0.44
58 9 0.16
59 5 0.09
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (57 bp):
ATAATAAAAATTATAAACATATTATTATAAAATATATTATTTTAACCATTTTAAAAT
Found at i:108788 original size:3 final size:3
Alignment explanation
Indices: 108782--108833 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
108772 AATTATTATT
108782 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
108830 TAA T
1 TAA T
108834 CGGGACGAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:109260 original size:42 final size:41
Alignment explanation
Indices: 109158--109264 Score: 126
Period size: 42 Copynumber: 2.6 Consensus size: 41
109148 ACCCGGAGGT
* *
109158 CTTACGGATGACCCAAAGGACTTATCATCTTGCTCGAAAGA
1 CTTACTGATGACCCAAAGGACTTATCATCATGCTCGAAAGA
* * *
109199 CTTA-TAGATGACCCGAAGGATTTAATCTTCATGCTCGAAAGA
1 CTTACT-GATGACCCAAAGGACTT-ATCATCATGCTCGAAAGA
* *
109241 TTTACTGATGGCCCAAAGGACTTA
1 CTTACTGATGACCCAAAGGACTTA
109265 CCAATTTCGA
Statistics
Matches: 54, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
41 20 0.37
42 33 0.61
43 1 0.02
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (41 bp):
CTTACTGATGACCCAAAGGACTTATCATCATGCTCGAAAGA
Found at i:109462 original size:41 final size:42
Alignment explanation
Indices: 109399--109501 Score: 118
Period size: 42 Copynumber: 2.5 Consensus size: 42
109389 ACATCCTACC
* * * *
109399 CGAAGGACTTACGGATGGCCCGAAGGACTT-ATCATCTTGCT
1 CGAAAGACTTACAGATGACCCGAAGGACTTAATCATCATGCT
* * * *
109440 CGAAAGACTTATAGATGACCCGAATGATTTAATCATCATGTT
1 CGAAAGACTTACAGATGACCCGAAGGACTTAATCATCATGCT
*
109482 CGAAAGACTTACCGATGACC
1 CGAAAGACTTACAGATGACC
109502 AAGACTTATT
Statistics
Matches: 51, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
41 24 0.47
42 27 0.53
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.25
Consensus pattern (42 bp):
CGAAAGACTTACAGATGACCCGAAGGACTTAATCATCATGCT
Found at i:109774 original size:42 final size:41
Alignment explanation
Indices: 109672--109774 Score: 127
Period size: 42 Copynumber: 2.5 Consensus size: 41
109662 ACCCGAAGGT
* *
109672 CTTACGGATGGCCCGAAGGATATATCATCTTGCTCGAAAGA
1 CTTACAGATGGCCCGAAGGATATATCATCATGCTCGAAAGA
* ** *
109713 CTTACAGATGACCTAAAGGATTTAATCATCATGCTCGAAAGA
1 CTTACAGATGGCCCGAAGGATAT-ATCATCATGCTCGAAAGA
109755 CTTACTA-ATGGCCCGAAGGA
1 CTTAC-AGATGGCCCGAAGGA
109775 CTTACCAATT
Statistics
Matches: 51, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
41 18 0.35
42 32 0.63
43 1 0.02
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.24
Consensus pattern (41 bp):
CTTACAGATGGCCCGAAGGATATATCATCATGCTCGAAAGA
Found at i:110026 original size:42 final size:41
Alignment explanation
Indices: 109920--110026 Score: 101
Period size: 42 Copynumber: 2.6 Consensus size: 41
109910 ACCCGAAGGT
* * * *
109920 CTTACGGATGGCCCGAAGGACTT-ATCATCTTGCTCGAAAGA
1 CTTACTGATGG-CCGAAAGATTTAATCATCATGCTCGAAAGA
* *
109961 CTTA-TAGATGACCCAAAGAATTTAATCATCATGCTCGAAAGA
1 CTTACT-GATGGCCGAAAG-ATTTAATCATCATGCTCGAAAGA
*
110003 CTTACTGATGGCTCGAATGATTTA
1 CTTACTGATGGC-CGAAAGATTTA
110027 CCAATTTGGG
Statistics
Matches: 52, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
40 5 0.10
41 11 0.21
42 31 0.60
43 5 0.10
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.28
Consensus pattern (41 bp):
CTTACTGATGGCCGAAAGATTTAATCATCATGCTCGAAAGA
Found at i:110453 original size:249 final size:248
Alignment explanation
Indices: 109018--110877 Score: 2522
Period size: 248 Copynumber: 7.5 Consensus size: 248
109008 GTAGTTAGAT
* * * *
109018 CAATTTTGGAAATAGTTTACTGGATAAGAAACTTTTGAAATCGCTTTCTTACTTTTCAAAAATTT
1 CAATTTGGGAAATAGTTTACTGGGTAAGAAACTTTGGTAATCGCTTTCTTACTTTTCAAAAATTT
* * *
109083 CATTTTCTAAAAACATT-AACTGAGAAACTTTGGAAATTGCTTTCTCATTCATGTGAAAATATCC
66 CATTTTCTGAAAACATTAAAC-GAGAAACTTTGGAAATCGCTTTCTCATTCATGTGAAAACATCC
* * *
109147 TACCCGGAGGTCTTACGGATGACCCAAAGGACTTATCATCTTGCTCGAAAGACTTATAGATGACC
130 TACCCGAAGGTCTTACGGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTTATAGATGACC
* * *
109212 CGAAGGATTTAATCTTCATGCTCGAAAGATTTACTGATGGCCCAAAGGACTTAC
195 CGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTAC
* * * *
109266 CAATTTCGAAAATAGTTTACTGGGTAAGAAACTTTGGTAATCGCTTTCTCACTTTTCAAAATTTT
1 CAATTTGGGAAATAGTTTACTGGGTAAGAAACTTTGGTAATCGCTTTCTTACTTTTCAAAAATTT
* * *
109331 CATTTTTTGAAAACATTAAACGAGAAACTTTAGAAATTGCTTTCTCATTCATGTGAAAACATCCT
66 CATTTTCTGAAAACATTAAACGAGAAACTTTGGAAATCGCTTTCTCATTCATGTGAAAACATCCT
*
109396 ACCCGAAGGACTTACGGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTTATAGATGACCC
131 ACCCGAAGGTCTTACGGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTTATAGATGACCC
* * *
109461 GAATGATTTAATCATCATGTTCGAAAGACTTACCGATGACCAAGACTTATTGATGGCCCGGAGGA
196 GAAGGATTTAATCATCA---T-----G-C-T--C---GA--AAGACTTACTGATGGCCCGAAGGA
109526 CTTAC
244 CTTAC
* * * *
109531 CAATTCGAGAAATAATTTACTGTGTAAGAAACTTTGGTAATCGCTTTCTTACTTTTCAAAAATTT
1 CAATTTGGGAAATAGTTTACTGGGTAAGAAACTTTGGTAATCGCTTTCTTACTTTTCAAAAATTT
* * * *
109596 CATTTTTTTGAAAACATTAAACAAGAAACTTTAGAAATCGCTTTCTAATTCATGTGAAAACATCC
66 CA-TTTTCTGAAAACATTAAACGAGAAACTTTGGAAATCGCTTTCTCATTCATGTGAAAACATCC
*
109661 TACCCGAAGGTCTTACGGATGGCCCGAAGGA-TATATCATCTTGCTCGAAAGACTTACAGATGAC
130 TACCCGAAGGTCTTACGGATGGCCCGAAGGACT-TATCATCTTGCTCGAAAGACTTATAGATGAC
** *
109725 CTAAAGGATTTAATCATCATGCTCGAAAGACTTACTAATGGCCCGAAGGACTTAC
194 CCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTAC
* * *
109780 CAATTTGGGACATAGTTTACTAGGTAAGAAACTTTTGTAATCGCTTTCTTACTTTTCAAAAATTT
1 CAATTTGGGAAATAGTTTACTGGGTAAGAAACTTTGGTAATCGCTTTCTTACTTTTCAAAAATTT
**
109845 CATTTTCTGAAAACATTAAACGAGAAACTTTGGAAATTTCTTTCTCATTCATGTGAAAACATCCT
66 CATTTTCTGAAAACATTAAACGAGAAACTTTGGAAATCGCTTTCTCATTCATGTGAAAACATCCT
109910 ACCCGAAGGTCTTACGGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTTATAGATGACCC
131 ACCCGAAGGTCTTACGGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTTATAGATGACCC
* * * * *
109975 AAAGAATTTAATCATCATGCTCGAAAGACTTACTGATGGCTCGAATGATTTAC
196 GAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTAC
*
110028 CAATTTGGGAAATAGTTTACTGGGTAAGAAACTTTGGTAATCACTTT-TTACTTTTCAAAAATTT
1 CAATTTGGGAAATAGTTTACTGGGTAAGAAACTTTGGTAATCGCTTTCTTACTTTTCAAAAATTT
*
110092 CATTTTCTGAAAACATTAAACGAGAAACTTTGGAAATCGCTTTCTCATTAATGTGAAAACATCCT
66 CATTTTCTGAAAACATTAAACGAGAAACTTTGGAAATCGCTTTCTCATTCATGTGAAAACATCCT
* * * * * *
110157 ACCCGAAGGTCTTACGAATGGACCGAATGACTTATCATCTTGCTCGAAAGATTTATAAATGACCT
131 ACCCGAAGGTCTTACGGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTTATAGATGACCC
* *
110222 GAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCTGAATGACTTAC
196 GAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTAC
* *
110275 TAATTTGGGAAATAGTTTACTGGGTAAGAAACTTTTGTAATCGCTTTCTTACTTTTCAAAAAATT
1 CAATTTGGGAAATAGTTTACTGGGTAAGAAACTTTGGTAATCGCTTTCTTACTTTTC-AAAAATT
* * * *
110340 TCATTTTCTGAAAACATTAAACGAGAAACTTTGGACATCACTTTCTCGTTCATGTGAAAACATTC
65 TCATTTTCTGAAAACATTAAACGAGAAACTTTGGAAATCGCTTTCTCATTCATGTGAAAACATCC
* * *
110405 TACCCAAAGGTCTTACGGATGACCCGAAGGACTTATCATCTTGCTCGAAAGACTTACAGATGACC
130 TACCCGAAGGTCTTACGGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTTATAGATGACC
* * * * *
110470 CAAAGGATTTTATAATCATGCTCGAAAGACTTAGTGATGGCCCGAAGAACTTAC
195 CGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTAC
* * *
110524 CAATTTGGTAAATAATTTACTCGGTAAGAAACTTTGGTAATCGCTTTCTTACTTTTCAAAAA---
1 CAATTTGGGAAATAGTTTACTGGGTAAGAAACTTTGGTAATCGCTTTCTTACTTTTCAAAAATTT
*** * ** *
110586 -AAAATCTG-AAACATTAAATGAGAAACTTTGGACTTCGTTTTCTCATTCATGTGAAAACATCCT
66 CATTTTCTGAAAACATTAAACGAGAAACTTTGGAAATCGCTTTCTCATTCATGTGAAAACATCCT
* * * * * *
110649 ACCTGAAGG---TACGGATGGCCCAAACGACTTATCATCTTGGTCGAAAGACTTACAGATGATCC
131 ACCCGAAGGTCTTACGGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTTATAGATGACCC
* * * *
110711 GAATGATTTAATCATCATGCTGGAAAGACTTATTTATGGCCCGAAGGACTTAC
196 GAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTAC
*** * * *
110764 CAATTTCAAAAATAGTTTACTGGGTAAGAAACTTTAG-AACTTGCTTTATTACTTTTCAAAAAAT
1 CAATTTGGGAAATAGTTTACTGGGTAAGAAACTTTGGTAA-TCGCTTTCTTACTTTTC-AAAAAT
* * * *
110828 TT-ATTTTCTGAAAATATTAAATGAGAAACTTTGGAAATCACTTTTTCATT
64 TTCATTTTCTGAAAACATTAAACGAGAAACTTTGGAAATCGCTTTCTCATT
110878 TTTCGAAACA
Statistics
Matches: 1435, Mismatches: 148, Indels: 61
0.87 0.09 0.04
Matches are distributed among these distances:
239 2 0.00
240 139 0.10
241 5 0.00
243 56 0.04
244 10 0.01
245 33 0.02
247 230 0.16
248 414 0.29
249 312 0.22
251 3 0.00
254 1 0.00
256 2 0.00
257 2 0.00
258 2 0.00
260 1 0.00
263 3 0.00
265 85 0.06
266 135 0.09
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.32
Consensus pattern (248 bp):
CAATTTGGGAAATAGTTTACTGGGTAAGAAACTTTGGTAATCGCTTTCTTACTTTTCAAAAATTT
CATTTTCTGAAAACATTAAACGAGAAACTTTGGAAATCGCTTTCTCATTCATGTGAAAACATCCT
ACCCGAAGGTCTTACGGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTTATAGATGACCC
GAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTAC
Found at i:110476 original size:41 final size:42
Alignment explanation
Indices: 110416--110502 Score: 122
Period size: 42 Copynumber: 2.1 Consensus size: 42
110406 ACCCAAAGGT
* * * *
110416 CTTACGGATGACCCGAAGGA-CTTATCATCTTGCTCGAAAGA
1 CTTACAGATGACCCAAAGGATCTTATAATCATGCTCGAAAGA
*
110457 CTTACAGATGACCCAAAGGATTTTATAATCATGCTCGAAAGA
1 CTTACAGATGACCCAAAGGATCTTATAATCATGCTCGAAAGA
110499 CTTA
1 CTTA
110503 GTGATGGCCC
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
41 18 0.45
42 22 0.55
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.26
Consensus pattern (42 bp):
CTTACAGATGACCCAAAGGATCTTATAATCATGCTCGAAAGA
Done.