Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002854.1 Hibiscus syriacus cultivar Beakdansim tig00005875_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: 158102
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
Found at i:4923 original size:46 final size:46
Alignment explanation
Indices: 4870--4961 Score: 157
Period size: 46 Copynumber: 2.0 Consensus size: 46
4860 TGTATCTTAA
* *
4870 ATAACTATCTGCAATGTCTTTTAGAAACTCATATGGGGTTGTTTCC
1 ATAACTATCTGCAATGTCTTTTAGAAACTCATATGGAGTTCTTTCC
*
4916 ATAACTATCTGCAATGTCTTTTAGAAACTCATTTGGAGTTCTTTCC
1 ATAACTATCTGCAATGTCTTTTAGAAACTCATATGGAGTTCTTTCC
4962 TTTGTGTTAA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.26, C:0.18, G:0.15, T:0.40
Consensus pattern (46 bp):
ATAACTATCTGCAATGTCTTTTAGAAACTCATATGGAGTTCTTTCC
Found at i:16325 original size:30 final size:30
Alignment explanation
Indices: 16280--16337 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
16270 GCTTTGGTGG
16280 CATTGGTGGCCAAGTCCCTGTACTATTTAA
1 CATTGGTGGCCAAGTCCCTGTACTATTTAA
* * *
16310 CATTTGTGGCTAAGTCCCTTTACTATTT
1 CATTGGTGGCCAAGTCCCTGTACTATTT
16338 GATGTTTAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.21, C:0.22, G:0.17, T:0.40
Consensus pattern (30 bp):
CATTGGTGGCCAAGTCCCTGTACTATTTAA
Found at i:16744 original size:25 final size:25
Alignment explanation
Indices: 16716--16819 Score: 97
Period size: 25 Copynumber: 4.2 Consensus size: 25
16706 AAATTTTTTT
* *
16716 ATGAAAGTATTTTGAAAAATGTTTG
1 ATGAAAGAATTTTGAAAAATATTTG
* * *
16741 ATGAAGGAATTTAGAGAAATATTTG
1 ATGAAAGAATTTTGAAAAATATTTG
*
16766 ATGAAAGAA-TTTGAAGAATATCTT-
1 ATGAAAGAATTTTGAAAAATAT-TTG
* * *
16790 ATG-AGGAATTTTGAAAAATGTTTT
1 ATGAAAGAATTTTGAAAAATATTTG
16814 ATGAAA
1 ATGAAA
16820 AAATGTTGTC
Statistics
Matches: 62, Mismatches: 13, Indels: 8
0.75 0.16 0.10
Matches are distributed among these distances:
23 6 0.10
24 25 0.40
25 31 0.50
ACGTcount: A:0.43, C:0.01, G:0.20, T:0.36
Consensus pattern (25 bp):
ATGAAAGAATTTTGAAAAATATTTG
Found at i:16793 original size:24 final size:23
Alignment explanation
Indices: 16713--16819 Score: 81
Period size: 24 Copynumber: 4.4 Consensus size: 23
16703 CTAAAATTTT
* *
16713 TTTATGAAAGTATTTTGAAAAATG
1 TTTATGAAAG-AATTTGAAAAATA
* *
16737 TTTGATGAAGGAATTTAGAGAAATA
1 TTT-ATGAAAGAATTT-GAAAAATA
*
16762 TTTGATGAAAGAATTTGAAGAATA
1 TTT-ATGAAAGAATTTGAAAAATA
* *
16786 TCTTATG-AGGAATTTTGAAAAATGT
1 T-TTATGAAAGAA-TTTGAAAAAT-A
16811 TTTATGAAA
1 TTTATGAAA
16820 AAATGTTGTC
Statistics
Matches: 66, Mismatches: 11, Indels: 11
0.75 0.12 0.12
Matches are distributed among these distances:
23 4 0.06
24 31 0.47
25 31 0.47
ACGTcount: A:0.42, C:0.01, G:0.20, T:0.37
Consensus pattern (23 bp):
TTTATGAAAGAATTTGAAAAATA
Found at i:17483 original size:107 final size:106
Alignment explanation
Indices: 17292--17490 Score: 276
Period size: 106 Copynumber: 1.9 Consensus size: 106
17282 ATTTTCTTTA
* * * *
17292 ATTTGCCTTTGTTAGGCTAACTGAAGAAATTTATCCATAAAGCCAGGGTTTTAACCAATTGCTTT
1 ATTTACCTTTATTAGGCTAACTGAAGAAATCTATCCATAAAGCCAGGCTTTTAACCAATTGCTTT
* *
17357 AGAGGAATAGCTCAGCTTTATTGTATATACACATATATATT
66 AGAGGAATAACTCAACTTTATTGTATATACACATATATATT
* * *
17398 ATTTACCTTTATTTGGCTAGCTGAA-AGAATCTATCCATAAAGCTAGGACTTTTAACCAA-TGAC
1 ATTTACCTTTATTAGGCTAACTGAAGA-AATCTATCCATAAAGCCAGG-CTTTTAACCAATTG-C
17461 TTTAGAGGAATAACTCAACTTTATTGTATA
63 TTTAGAGGAATAACTCAACTTTATTGTATA
17491 ATTATATTAA
Statistics
Matches: 81, Mismatches: 9, Indels: 5
0.85 0.09 0.05
Matches are distributed among these distances:
105 1 0.01
106 41 0.51
107 39 0.48
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.36
Consensus pattern (106 bp):
ATTTACCTTTATTAGGCTAACTGAAGAAATCTATCCATAAAGCCAGGCTTTTAACCAATTGCTTT
AGAGGAATAACTCAACTTTATTGTATATACACATATATATT
Found at i:20508 original size:154 final size:154
Alignment explanation
Indices: 20228--20533 Score: 567
Period size: 154 Copynumber: 2.0 Consensus size: 154
20218 CTCGAGCATT
*
20228 CTTTTATTAAATAACAATCTTACCCAAACATGTTTTCTACCTAGCATGGTTTATTTCGAGAAGTA
1 CTTTTATTAAATAACAATCTTACCCAAACATGTTTTCTACCTAGCATGGTTTATTTCAAGAAGTA
*
20293 AGTCCTAACCGCATGATATCTAGTTTGCATGTTTTCATTCAGAAGAAAAATTTATTTTATGAATT
66 AGTCCTAACCGCATGATATCTAGTTTGCATGTTTTCATTCAGAAGAAAAATTTATTCTATGAATT
20358 TAAAGCAAGAAGAAGGTTCAGATG
131 TAAAGCAAGAAGAAGGTTCAGATG
*
20382 CTTTTATTAAATATCAATCTTACCCAAACATGTTTTCTACCTAGCATGGTTTATTTCAAGAAGTA
1 CTTTTATTAAATAACAATCTTACCCAAACATGTTTTCTACCTAGCATGGTTTATTTCAAGAAGTA
* *
20447 AGTCCTAACCGCATGATATCTAGTTTGCATGTTTTCATTTAGAATAAAAATTTATTCTATGAATT
66 AGTCCTAACCGCATGATATCTAGTTTGCATGTTTTCATTCAGAAGAAAAATTTATTCTATGAATT
20512 TAAAGCAAGAAGAAGGTTCAGA
131 TAAAGCAAGAAGAAGGTTCAGA
20534 GTCATTCCTC
Statistics
Matches: 147, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
154 147 1.00
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.36
Consensus pattern (154 bp):
CTTTTATTAAATAACAATCTTACCCAAACATGTTTTCTACCTAGCATGGTTTATTTCAAGAAGTA
AGTCCTAACCGCATGATATCTAGTTTGCATGTTTTCATTCAGAAGAAAAATTTATTCTATGAATT
TAAAGCAAGAAGAAGGTTCAGATG
Found at i:21917 original size:14 final size:14
Alignment explanation
Indices: 21900--21936 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
21890 ATACATATAA
*
21900 ATATATATACAAGG
1 ATATATATAAAAGG
21914 ATATATATAAAAGG
1 ATATATATAAAAGG
21928 ATATATATA
1 ATATATATA
21937 TATATATAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.54, C:0.03, G:0.11, T:0.32
Consensus pattern (14 bp):
ATATATATAAAAGG
Found at i:32229 original size:29 final size:29
Alignment explanation
Indices: 32196--32260 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 29
32186 GAACATAATA
* *
32196 AATAGTCAGGTGATCATTTTGTAACTTCT
1 AATAGTCAGGTGACCATTTTGTAACTTAT
**
32225 AATAGTTGGGTGACCATTTTGTAACTTAT
1 AATAGTCAGGTGACCATTTTGTAACTTAT
32254 AATAGTC
1 AATAGTC
32261 GGGGACTCAA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.29, C:0.12, G:0.18, T:0.40
Consensus pattern (29 bp):
AATAGTCAGGTGACCATTTTGTAACTTAT
Found at i:38517 original size:3 final size:3
Alignment explanation
Indices: 38509--38537 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
38499 AGATGTTTAA
38509 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
38538 AAACTCAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:39813 original size:29 final size:30
Alignment explanation
Indices: 39780--39837 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 30
39770 TTTTTTAAAC
39780 TATATAATTTTCAAAAAT-GTTTTAAAAAT
1 TATATAATTTTCAAAAATAGTTTTAAAAAT
*
39809 TATATAATTTTCAAAAATATTTTTAAAAA
1 TATATAATTTTCAAAAATAGTTTTAAAAA
39838 AGTATATATT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 18 0.67
30 9 0.33
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (30 bp):
TATATAATTTTCAAAAATAGTTTTAAAAAT
Found at i:39843 original size:29 final size:28
Alignment explanation
Indices: 39771--39837 Score: 89
Period size: 29 Copynumber: 2.3 Consensus size: 28
39761 AAATGCCTCT
* *
39771 TTTTTAAACTATATAATTTTCAAAAATG
1 TTTTAAAAATATATAATTTTCAAAAATG
*
39799 TTTTAAAAATTATATAATTTTCAAAAATAT
1 TTTTAAAAA-TATATAATTTTCAAAAAT-G
39829 TTTTAAAAA
1 TTTTAAAAA
39838 AGTATATATT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
28 7 0.21
29 18 0.53
30 9 0.26
ACGTcount: A:0.48, C:0.04, G:0.01, T:0.46
Consensus pattern (28 bp):
TTTTAAAAATATATAATTTTCAAAAATG
Found at i:39844 original size:31 final size:29
Alignment explanation
Indices: 39780--39845 Score: 96
Period size: 29 Copynumber: 2.2 Consensus size: 29
39770 TTTTTTAAAC
*
39780 TATATAATTTTCAAAAATGTTTTAAAAAT
1 TATATAATTTTCAAAAATGTTTTAAAAAG
*
39809 TATATAATTTTCAAAAATATTTTTAAAAAAG
1 TATATAATTTTCAAAAAT-GTTTT-AAAAAG
39840 TATATA
1 TATATA
39846 TTACATATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
29 18 0.55
30 4 0.12
31 11 0.33
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (29 bp):
TATATAATTTTCAAAAATGTTTTAAAAAG
Found at i:39927 original size:38 final size:38
Alignment explanation
Indices: 39807--40047 Score: 251
Period size: 38 Copynumber: 6.2 Consensus size: 38
39797 TGTTTTAAAA
*
39807 ATTATATAATTTTCAAAAAT-ATTTTTAAAAAAGTATAT
1 ATTATATAATTTTCAAAAATGA-TTTTAAAAAACTATAT
*
39845 ATTACATATAAGTTTTCAAAAATGTTTTTTAAAAAAACTATAT
1 ATT--ATATAA-TTTTCAAAAATG-ATTTT-AAAAAACTATAT
*
39888 ATTATATAAGTTTTC-AAAATGATTTTAAAAAATTATAT
1 ATTATATAA-TTTTCAAAAATGATTTTAAAAAACTATAT
39926 ATTATATATATTTTCTAAAAATG-TTTT-AAAAACTATAT
1 ATTATATA-ATTTTC-AAAAATGATTTTAAAAAACTATAT
* **
39964 ATTATATAGTTTTCAAAGGT-ATTTT-AAAAACTATAT
1 ATTATATAATTTTCAAAAATGATTTTAAAAAACTATAT
** * *
40000 ATTATATACATTTTCAAAATATTTTTTTTAAAAACCATAT
1 ATTATATA-ATTTTCAAAA-ATGATTTTAAAAAACTATAT
40040 ATTATATA
1 ATTATATA
40048 CTTATTTTCA
Statistics
Matches: 176, Mismatches: 13, Indels: 26
0.82 0.06 0.12
Matches are distributed among these distances:
36 27 0.15
37 13 0.07
38 46 0.26
39 13 0.07
40 36 0.20
41 23 0.13
42 4 0.02
43 14 0.08
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.45
Consensus pattern (38 bp):
ATTATATAATTTTCAAAAATGATTTTAAAAAACTATAT
Found at i:40103 original size:10 final size:10
Alignment explanation
Indices: 40073--40135 Score: 60
Period size: 10 Copynumber: 6.5 Consensus size: 10
40063 ATTTGTAGAC
40073 TATAT-AATA
1 TATATAAATA
*
40082 TA-ATAGATA
1 TATATAAATA
40091 TATATAAATA
1 TATATAAATA
40101 TATATATAA-A
1 TATATA-AATA
**
40111 TATATATGTA
1 TATATAAATA
*
40121 TATATAAAAA
1 TATATAAATA
40131 TATAT
1 TATAT
40136 GGACGAAAAT
Statistics
Matches: 43, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
8 2 0.05
9 7 0.16
10 32 0.74
11 2 0.05
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (10 bp):
TATATAAATA
Found at i:40122 original size:18 final size:18
Alignment explanation
Indices: 40101--40136 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
40091 TATATAAATA
*
40101 TATATATAAATATATATG
1 TATATATAAAAATATATG
40119 TATATATAAAAATATATG
1 TATATATAAAAATATATG
40137 GACGAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.42
Consensus pattern (18 bp):
TATATATAAAAATATATG
Found at i:40135 original size:2 final size:2
Alignment explanation
Indices: 40073--40126 Score: 58
Period size: 2 Copynumber: 28.0 Consensus size: 2
40063 ATTTGTAGAC
* * *
40073 TA TA TA -A TA TA -A TA GA TA TA TA TA AA TA TA TA TA TA AA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
40113 TA TA TG TA TA TA TA
1 TA TA TA TA TA TA TA
40127 AAAATATATG
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
1 2 0.05
2 40 0.95
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.43
Consensus pattern (2 bp):
TA
Found at i:42298 original size:36 final size:36
Alignment explanation
Indices: 42229--42299 Score: 90
Period size: 36 Copynumber: 2.0 Consensus size: 36
42219 CAACATGACG
* **
42229 CCTCGGACTGGGACAAACTGTCCGAAGTTTTCAGCA
1 CCTCGGACTGGAACAAACTGTCCGAAGCATTCAGCA
*
42265 CCTCGGACTGGAACAAACTGTTC-AACGCATTCAGC
1 CCTCGGACTGGAACAAACTGTCCGAA-GCATTCAGC
42300 GCCTAACAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
35 2 0.07
36 28 0.93
ACGTcount: A:0.27, C:0.30, G:0.23, T:0.21
Consensus pattern (36 bp):
CCTCGGACTGGAACAAACTGTCCGAAGCATTCAGCA
Found at i:46038 original size:174 final size:174
Alignment explanation
Indices: 45748--46101 Score: 681
Period size: 174 Copynumber: 2.0 Consensus size: 174
45738 CATTATTGAT
45748 TATCTTATAGATTACCATTCTTTTGTTACTTTCTTGAGCAATATATTATTGATAATGTTAGGCAT
1 TATCTTATAGATTACCATTCTTTTGTTACTTTCTTGAGCAATATATTATTGATAATGTTAGGCAT
45813 TCATGATGCCTTTTGTTATTAATTCCGTGTGCCTATCATTTTCAATGATGATAACTCCCCAATAT
66 TCATGATGCCTTTTGTTATTAATTCCGTGTGCCTATCATTTTCAATGATGATAACTCCCCAATAT
45878 CTTGATAGTTGATACTTGCTTTACTATTTAAATTTGTCTAATTA
131 CTTGATAGTTGATACTTGCTTTACTATTTAAATTTGTCTAATTA
* *
45922 TATCTTATATATTATCATTCTTTTGTTACTTTCTTGAGCAATATATTATTGATAATGTTAGGCAT
1 TATCTTATAGATTACCATTCTTTTGTTACTTTCTTGAGCAATATATTATTGATAATGTTAGGCAT
*
45987 TCATGATGCCTTTTGTTATTAATTCCGTGTGCCTATCATTTTCAGTGATGATAACTCCCCAATAT
66 TCATGATGCCTTTTGTTATTAATTCCGTGTGCCTATCATTTTCAATGATGATAACTCCCCAATAT
46052 CTTGATAGTTGATACTTGCTTTACTATTTAAATTTGTCTAATTA
131 CTTGATAGTTGATACTTGCTTTACTATTTAAATTTGTCTAATTA
46096 TATCTT
1 TATCTT
46102 GTTGTATTCT
Statistics
Matches: 177, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
174 177 1.00
ACGTcount: A:0.26, C:0.15, G:0.12, T:0.47
Consensus pattern (174 bp):
TATCTTATAGATTACCATTCTTTTGTTACTTTCTTGAGCAATATATTATTGATAATGTTAGGCAT
TCATGATGCCTTTTGTTATTAATTCCGTGTGCCTATCATTTTCAATGATGATAACTCCCCAATAT
CTTGATAGTTGATACTTGCTTTACTATTTAAATTTGTCTAATTA
Found at i:53524 original size:354 final size:352
Alignment explanation
Indices: 52851--53557 Score: 1136
Period size: 354 Copynumber: 2.0 Consensus size: 352
52841 TTGATAGATT
* * * *
52851 GTGTAAGTAATAAGGACTAAATATGTAATTATAGAAATTTTACTAATTGTCACGTCAGCTCTTAT
1 GTGTAAGTAATAAGGACTAAATATGTAATTATACAAATTTTACTAACTGTCACGTCAGCACTTAC
* * * *
52916 GTTAATTGTTTACAACGAATGGCTTGATTGAATGGATTTAAATAGTTCAGTAATCTGATTAGCAA
66 GTTAATTGTTTACAACGAATAGCTTGATTGAATGCATTTAAATACTTCAGTAATCTGATTAACAA
* *
52981 AATTTCAAAAATATTGGTCAAAATAAAAATGGGCAATAATTAGGTGATCACTGTTATAGTTTAGT
131 AATTTCAAAAATATTGGTCAAAATAAAAAGGGGCAATAATTAGATGATCACTGTTATA--TTAGT
53046 TTACCAAAAAAAGATTATGGAAAAAAATATAATAAATATTTTATTTTAACTAATTTACCTTTAAA
194 TTACCAAAAAAAGATTATGGAAAAAAATATAATAAATATTTTATTTTAACTAATTTACCTTTAAA
* *
53111 TTTTTAACTAATTTATAATTATACGTTGAGTCTTTTAAAATTTGAAATTTTTATAAATTAAATTA
259 TTTTTAACTAATTTATAATTATACGTTGAATCCTTTAAAATTTGAAATTTTTATAAATTAAATTA
*
53176 ATAGTGTTCATCGTCAGTGGTACTTAAAG
324 ATAGTATTCATCGTCAGTGGTACTTAAAG
* * * *
53205 GTGTAAGTAATAAGGACTCAATGTGTTATTATACAAATTTTACTAACTGTCATGTCAGCACTTAC
1 GTGTAAGTAATAAGGACTAAATATGTAATTATACAAATTTTACTAACTGTCACGTCAGCACTTAC
*
53270 GTTAATTGTTTACAAC-AAGTAGCTTGATTGAATGCATTTAAATACTTCTGTAATCTGATTAACA
66 GTTAATTGTTTACAACGAA-TAGCTTGATTGAATGCATTTAAATACTTCAGTAATCTGATTAACA
* * *
53334 AACTTTCAAAAATATTGGTCGAAATAAAAAGGGGCAATAGTTAGATGATCACTG-T-TA-TAGTT
130 AAATTTCAAAAATATTGGTCAAAATAAAAAGGGGCAATAATTAGATGATCACTGTTATATTAGTT
*
53396 TACC-AAAAAAGATTATGGAAAATAATATAATAAATATTTTATTTTAACTAATTTACCTTTAAAT
195 TACCAAAAAAAGATTATGGAAAAAAATATAATAAATATTTTATTTTAACTAATTTACCTTTAAAT
53460 TTTTAACTAATTTATAATTATACGTTGAATCCTTTAAAATTTGAAATTTTTTATAAATTAAATTA
260 TTTTAACTAATTTATAATTATACGTTGAATCCTTTAAAATTTGAAA-TTTTTATAAATTAAATTA
*
53525 ATAGTATTCATCGTCAGTGGTACTTAACG
324 ATAGTATTCATCGTCAGTGGTACTTAAAG
53554 GTGT
1 GTGT
53558 TCGTCGAGCA
Statistics
Matches: 328, Mismatches: 23, Indels: 9
0.91 0.06 0.03
Matches are distributed among these distances:
348 103 0.31
349 58 0.18
352 2 0.01
353 3 0.01
354 162 0.49
ACGTcount: A:0.39, C:0.10, G:0.13, T:0.39
Consensus pattern (352 bp):
GTGTAAGTAATAAGGACTAAATATGTAATTATACAAATTTTACTAACTGTCACGTCAGCACTTAC
GTTAATTGTTTACAACGAATAGCTTGATTGAATGCATTTAAATACTTCAGTAATCTGATTAACAA
AATTTCAAAAATATTGGTCAAAATAAAAAGGGGCAATAATTAGATGATCACTGTTATATTAGTTT
ACCAAAAAAAGATTATGGAAAAAAATATAATAAATATTTTATTTTAACTAATTTACCTTTAAATT
TTTAACTAATTTATAATTATACGTTGAATCCTTTAAAATTTGAAATTTTTATAAATTAAATTAAT
AGTATTCATCGTCAGTGGTACTTAAAG
Found at i:54431 original size:14 final size:14
Alignment explanation
Indices: 54412--54438 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
54402 AAGATTCTTT
54412 TTTTTAATCTTATG
1 TTTTTAATCTTATG
54426 TTTTTAATCTTAT
1 TTTTTAATCTTAT
54439 AAGATTATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.07, G:0.04, T:0.67
Consensus pattern (14 bp):
TTTTTAATCTTATG
Found at i:55964 original size:31 final size:31
Alignment explanation
Indices: 55899--55976 Score: 93
Period size: 31 Copynumber: 2.5 Consensus size: 31
55889 TTCAACATTC
* * * *
55899 AAGTGACAAAAACTTAATGAAATGATAGCAT
1 AAGTGACCAAAACTTAATAAAATAATAACAT
*
55930 AAGTGACCAAAACTTAATAAAATAATAACGT
1 AAGTGACCAAAACTTAATAAAATAATAACAT
* *
55961 AAGTTATCAAAACTTA
1 AAGTGACCAAAACTTA
55977 TGTTTTTTGA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.53, C:0.12, G:0.12, T:0.24
Consensus pattern (31 bp):
AAGTGACCAAAACTTAATAAAATAATAACAT
Found at i:80717 original size:32 final size:32
Alignment explanation
Indices: 80676--80740 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
80666 AGATTCTTTG
80676 GTCGTTTGTCTCACAAGATACAACAACTAGAT
1 GTCGTTTGTCTCACAAGATACAACAACTAGAT
*
80708 GTCGTTTGTCTCTCAAGATACAACAACTAGAT
1 GTCGTTTGTCTCACAAGATACAACAACTAGAT
80740 G
1 G
80741 ATCAGTTACA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (32 bp):
GTCGTTTGTCTCACAAGATACAACAACTAGAT
Found at i:81038 original size:27 final size:27
Alignment explanation
Indices: 81002--81065 Score: 128
Period size: 27 Copynumber: 2.4 Consensus size: 27
80992 TTTAATATTA
81002 TAAATTTAAATAAATAATAATATCTTT
1 TAAATTTAAATAAATAATAATATCTTT
81029 TAAATTTAAATAAATAATAATATCTTT
1 TAAATTTAAATAAATAATAATATCTTT
81056 TAAATTTAAA
1 TAAATTTAAA
81066 ATATTAAATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (27 bp):
TAAATTTAAATAAATAATAATATCTTT
Found at i:81806 original size:30 final size:30
Alignment explanation
Indices: 81771--81828 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
81761 ATTTATTTAT
* *
81771 TGACCAAATTATAAA-TTTAGTAAAGTTTGG
1 TGACCAAAGTATAAACTTTA-AAAAGTTTGG
81801 TGACCAAAGTATAAACTTTAAAAAGTTT
1 TGACCAAAGTATAAACTTTAAAAAGTTT
81829 AAAGACCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.43, C:0.09, G:0.14, T:0.34
Consensus pattern (30 bp):
TGACCAAAGTATAAACTTTAAAAAGTTTGG
Found at i:82848 original size:31 final size:31
Alignment explanation
Indices: 82776--82849 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 31
82766 TTTCACAAGC
* * *
82776 TTTGGAAAAA-TTTAGGGATCATTTTGTAAT
1 TTTGGAAAAAGTTGAGGGACCAATTTGTAAT
*
82806 TTT-TAAAAAGTTGAGGGACCAATTTGTAAT
1 TTTGGAAAAAGTTGAGGGACCAATTTGTAAT
82836 TTTGGAAAAAGTTG
1 TTTGGAAAAAGTTG
82850 GGAATGGTTG
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
29 5 0.14
30 23 0.62
31 9 0.24
ACGTcount: A:0.35, C:0.04, G:0.22, T:0.39
Consensus pattern (31 bp):
TTTGGAAAAAGTTGAGGGACCAATTTGTAAT
Found at i:83069 original size:9 final size:9
Alignment explanation
Indices: 83052--83096 Score: 63
Period size: 9 Copynumber: 5.0 Consensus size: 9
83042 AATTTCATTA
83052 CTGGAATTT
1 CTGGAATTT
*
83061 CTTGAATTT
1 CTGGAATTT
*
83070 ATGGAATTT
1 CTGGAATTT
*
83079 CTGGAATTA
1 CTGGAATTT
83088 CTGGAATTT
1 CTGGAATTT
83097 ATGGTATTTG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 30 1.00
ACGTcount: A:0.27, C:0.09, G:0.20, T:0.44
Consensus pattern (9 bp):
CTGGAATTT
Found at i:83076 original size:18 final size:18
Alignment explanation
Indices: 83048--83096 Score: 73
Period size: 18 Copynumber: 2.7 Consensus size: 18
83038 TAATAATTTC
*
83048 ATTACTGGAATTTCTTGA
1 ATTACTGGAATTTCTGGA
83066 ATTTA-TGGAATTTCTGGA
1 A-TTACTGGAATTTCTGGA
83084 ATTACTGGAATTT
1 ATTACTGGAATTT
83097 ATGGTATTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 3 0.11
18 22 0.79
19 3 0.11
ACGTcount: A:0.29, C:0.08, G:0.18, T:0.45
Consensus pattern (18 bp):
ATTACTGGAATTTCTGGA
Found at i:83082 original size:27 final size:27
Alignment explanation
Indices: 83052--83105 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
83042 AATTTCATTA
* *
83052 CTGGAATTTCTTGAATTTATGGAATTT
1 CTGGAATTACTGGAATTTATGGAATTT
*
83079 CTGGAATTACTGGAATTTATGGTATTT
1 CTGGAATTACTGGAATTTATGGAATTT
83106 GAAATTTAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.26, C:0.07, G:0.20, T:0.46
Consensus pattern (27 bp):
CTGGAATTACTGGAATTTATGGAATTT
Found at i:83105 original size:9 final size:9
Alignment explanation
Indices: 83053--83105 Score: 54
Period size: 9 Copynumber: 5.9 Consensus size: 9
83043 ATTTCATTAC
*
83053 TGGAATTTC
1 TGGAATTTA
*
83062 TTGAATTTA
1 TGGAATTTA
*
83071 TGGAATTTC
1 TGGAATTTA
83080 TGGAA-TTA
1 TGGAATTTA
83088 CTGGAATTTA
1 -TGGAATTTA
*
83098 TGGTATTT
1 TGGAATTT
83106 GAAATTTAAG
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
8 2 0.06
9 31 0.86
10 3 0.08
ACGTcount: A:0.26, C:0.06, G:0.21, T:0.47
Consensus pattern (9 bp):
TGGAATTTA
Found at i:84042 original size:33 final size:36
Alignment explanation
Indices: 83995--84096 Score: 138
Period size: 36 Copynumber: 2.9 Consensus size: 36
83985 AGATGGGTTA
*
83995 TATGAAAATGGATCTATGAGATCATACAAGAATG-T-
1 TATGACAA-GGATCTATGAGATCATACAAGAATGTTG
*
84030 TAT-ACAAGGATCTATGAGATCAAACAAGAATGTTG
1 TATGACAAGGATCTATGAGATCATACAAGAATGTTG
**
84065 TATGACATTGATCTATGAGATCATACAAGAAT
1 TATGACAAGGATCTATGAGATCATACAAGAAT
84097 AATACAAGTG
Statistics
Matches: 59, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
33 24 0.41
34 4 0.07
35 6 0.10
36 25 0.42
ACGTcount: A:0.42, C:0.11, G:0.19, T:0.28
Consensus pattern (36 bp):
TATGACAAGGATCTATGAGATCATACAAGAATGTTG
Found at i:84371 original size:21 final size:21
Alignment explanation
Indices: 84331--84433 Score: 91
Period size: 21 Copynumber: 4.9 Consensus size: 21
84321 GGGATGATAA
* *
84331 GTCATTCGGGACATACATGTG
1 GTCATTCGGAACATATATGTG
* *
84352 GTCATTCGGAATATATATGTA
1 GTCATTCGGAACATATATGTG
* * *
84373 ATCCTTTGGAACATATATGTG
1 GTCATTCGGAACATATATGTG
* *
84394 GTTC-TTCGAAACATATATTTG
1 G-TCATTCGGAACATATATGTG
* *
84415 GTCATTTGGAATATATATG
1 GTCATTCGGAACATATATG
84434 CGATTCTTAA
Statistics
Matches: 63, Mismatches: 17, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
20 2 0.03
21 59 0.94
22 2 0.03
ACGTcount: A:0.29, C:0.13, G:0.20, T:0.38
Consensus pattern (21 bp):
GTCATTCGGAACATATATGTG
Found at i:88435 original size:24 final size:23
Alignment explanation
Indices: 88391--88435 Score: 54
Period size: 24 Copynumber: 1.9 Consensus size: 23
88381 ATCATATACT
* *
88391 CATATATTCATTCATTTAAGCCA
1 CATATATTCATTCAATCAAGCCA
*
88414 CATATGATTCATTTAATCAAGC
1 CATAT-ATTCATTCAATCAAGC
88436 AATATACACA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 5 0.28
24 13 0.72
ACGTcount: A:0.36, C:0.20, G:0.07, T:0.38
Consensus pattern (23 bp):
CATATATTCATTCAATCAAGCCA
Found at i:88937 original size:14 final size:14
Alignment explanation
Indices: 88920--88947 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
88910 ATAACTTGTA
88920 TCACATATACACAT
1 TCACATATACACAT
88934 TCACATATACACAT
1 TCACATATACACAT
88948 AGACACATGG
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:0.43, C:0.29, G:0.00, T:0.29
Consensus pattern (14 bp):
TCACATATACACAT
Found at i:90260 original size:64 final size:62
Alignment explanation
Indices: 90173--90334 Score: 166
Period size: 64 Copynumber: 2.5 Consensus size: 62
90163 CCCTTAACAT
* *
90173 GTGCATCGATGCACTACCCATGCATCGATACACAAAT-CACTTTCGATGTTT-TAATCTTAAGGG
1 GTGCATCGATGCACT-CCTATGCATCGATACACAAATGCA-TTT-GATGTTTCCAATCTTAA-GG
90236 G
62 G
* * * * *
90237 GTGTATCGATGCACTCCTTATGCATCGATGCACTAATTGCATTTGATGTTTCCATTTTTAAGGG
1 GTGCATCGATGCACTCC-TATGCATCGATACAC-AAATGCATTTGATGTTTCCAATCTTAAGGG
* *
90301 GTGCATCGATGCACTTCCTGTGCATCAATACACA
1 GTGCATCGATGCAC-TCCTATGCATCGATACACA
90335 CTGAACAATT
Statistics
Matches: 82, Mismatches: 11, Indels: 11
0.79 0.11 0.11
Matches are distributed among these distances:
63 3 0.04
64 62 0.76
65 15 0.18
66 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (62 bp):
GTGCATCGATGCACTCCTATGCATCGATACACAAATGCATTTGATGTTTCCAATCTTAAGGG
Found at i:94223 original size:14 final size:15
Alignment explanation
Indices: 94127--94229 Score: 109
Period size: 15 Copynumber: 6.5 Consensus size: 15
94117 TAATAAGGTT
94127 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
94142 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
94157 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
* *
94172 AATTATTATAAAATATGGA
1 ATTTATT-TTAAA-AT--A
94191 TTGATTTATTTTAAAATA
1 ---ATTTATTTTAAAATA
94209 ATTTATTTT-AAATA
1 ATTTATTTTAAAATA
94223 ATTTATT
1 ATTTATT
94230 AGTATAGATT
Statistics
Matches: 75, Mismatches: 6, Indels: 15
0.78 0.06 0.16
Matches are distributed among these distances:
14 12 0.16
15 43 0.57
16 4 0.05
17 2 0.03
18 1 0.01
19 1 0.01
20 2 0.03
21 4 0.05
22 6 0.08
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (15 bp):
ATTTATTTTAAAATA
Found at i:94247 original size:32 final size:31
Alignment explanation
Indices: 94209--94702 Score: 260
Period size: 32 Copynumber: 15.4 Consensus size: 31
94199 TTTTAAAATA
94209 ATTTATTTTAAATAATTTATTAGTATAGATTG
1 ATTTATTTTAAATAATTTATTAGTAT-GATTG
94241 ATTTATTTT-AA-AA--TA-T-G---GATTG
1 ATTTATTTTAAATAATTTATTAGTATGATTG
*
94263 ATTTATTTTAAATAATTTATTAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTAT-GATTG
94295 ATTTATTTT-AA-AA--TA-T-G---GATTG
1 ATTTATTTTAAATAATTTATTAGTATGATTG
94317 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTAT-GATTG
* *
94349 ATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTG
1 ATTTATTTT-AAATA---ATTTA-TTAGTA-TG-A-TTG
**
94388 TATGGATTTATTTATTTTAAATAATTTATTAGTATGGATTG
1 -ATTTA-TT-------TTAAATAATTTATTAGTAT-GATTG
94429 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTAT-GATTG
*
94461 ATTTATTTTAAATAATTTATTTGTATAGATTG
1 ATTTATTTTAAATAATTTATTAGTAT-GATTG
* *
94493 ATTTATTTTAAAATATGGATTGATT--TATTATTG
1 ATTTATTTT-AAATA---ATTTATTAGTATGATTG
* * * ** * * * * *
94526 TAGTTGTATGGATTGATTTATT--T-TAAATA
1 -ATTTATTTTAAATAATTTATTAGTATGATTG
* * *
94555 ATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTG
1 ATTTATT--T-T-AAATAATTTA--TT--AGTAT-GATTG
94595 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTAT-GATTG
94627 ATTTATTTTAAATAATTTATTAGTATAGATTG
1 ATTTATTTTAAATAATTTATTAGTAT-GATTG
*
94659 ATTTATTTTAAATAATTTATTTGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTAT-GATTG
*
94691 ATATATTTTAAA
1 ATTTATTTTAAA
94703 ATATAGATTG
Statistics
Matches: 367, Mismatches: 40, Indels: 110
0.71 0.08 0.21
Matches are distributed among these distances:
22 28 0.08
23 4 0.01
24 4 0.01
26 5 0.01
27 4 0.01
28 9 0.02
29 3 0.01
30 12 0.03
31 4 0.01
32 192 0.52
33 16 0.04
34 12 0.03
36 18 0.05
37 7 0.02
38 4 0.01
39 6 0.02
40 15 0.04
41 5 0.01
42 2 0.01
43 6 0.02
44 4 0.01
47 5 0.01
48 2 0.01
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (31 bp):
ATTTATTTTAAATAATTTATTAGTATGATTG
Found at i:94248 original size:22 final size:22
Alignment explanation
Indices: 94232--94274 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
94222 AATTTATTAG
94232 TATAGATTGATTTATTTTAAAA
1 TATAGATTGATTTATTTTAAAA
*
94254 TATGGATTGATTTATTTTAAA
1 TATAGATTGATTTATTTTAAA
94275 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (22 bp):
TATAGATTGATTTATTTTAAAA
Found at i:94265 original size:69 final size:67
Alignment explanation
Indices: 94127--94284 Score: 221
Period size: 69 Copynumber: 2.3 Consensus size: 67
94117 TAATAAGGTT
94127 ATTTATTTTAAAATAATTTATTATAAAATAATTTATTTTAAAATAAATTATTATAAAATATGGAT
1 ATTTATTTTAAAATAATTTATTATAAAATAATTTATTTTAAAATAAATTATTATAAAATATGGAT
94192 TG
66 TG
* * * * * *
94194 ATTTATTTTAAAATAATTTATT-TTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATG
1 ATTTATTTTAAAATAATTTATTATAAAATAATTTATT--T-TAAAATAAATTATTATAAAATATG
94258 GATTG
63 GATTG
94263 ATTTATTTT-AAATAATTTATTA
1 ATTTATTTTAAAATAATTTATTA
94285 ATATGGATTG
Statistics
Matches: 81, Mismatches: 6, Indels: 6
0.87 0.06 0.06
Matches are distributed among these distances:
66 13 0.16
67 22 0.27
68 13 0.16
69 33 0.41
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (67 bp):
ATTTATTTTAAAATAATTTATTATAAAATAATTTATTTTAAAATAAATTATTATAAAATATGGAT
TG
Found at i:94274 original size:54 final size:54
Alignment explanation
Indices: 94209--94719 Score: 515
Period size: 54 Copynumber: 9.1 Consensus size: 54
94199 TTTTAAAATA
*
94209 ATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
*
94263 ATTTATTTTAAATAATTTATTAATATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
94317 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* *
94371 ATTTA--TT--AT--TGTAGTT-GTATGGATTTATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTA-TTT---TAA---A--A-TATGGATTG
*
94429 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AAATA---ATTT
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* * * * * ***
94479 ATTT-GTATAGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATGGATTG
1 ATTTATTTTA-AATAATTTA--TT--AGTATGGATTGATTTA-T-TT-TA-AAATATGGATTG
*
94541 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
94595 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AA-AA--TA-T-G----GATTG
* * *
94659 ATTTATTTTAAATAATTTATTTGTATGGATTGATATATTTTAAAATATAGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
94713 ATTTATT
1 ATTTATT
94720 ATTGTAGTTG
Statistics
Matches: 385, Mismatches: 30, Indels: 84
0.77 0.06 0.17
Matches are distributed among these distances:
48 17 0.04
49 8 0.02
50 16 0.04
52 7 0.02
53 2 0.01
54 187 0.49
55 6 0.02
56 7 0.02
57 3 0.01
58 30 0.08
59 5 0.01
60 8 0.02
62 18 0.05
63 10 0.03
64 61 0.16
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (54 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
Found at i:94309 original size:22 final size:22
Alignment explanation
Indices: 94284--94328 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
94274 ATAATTTATT
94284 AATATGGATTGATTTATTTTAA
1 AATATGGATTGATTTATTTTAA
94306 AATATGGATTGATTTATTTTAA
1 AATATGGATTGATTTATTTTAA
94328 A
1 A
94329 TAATTTATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (22 bp):
AATATGGATTGATTTATTTTAA
Found at i:94432 original size:18 final size:18
Alignment explanation
Indices: 94411--94467 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 18
94401 ATTTTAAATA
94411 ATTTATTAGTATGGATTG
1 ATTTATTAGTATGGATTG
* * *
94429 ATTTATT--T-T-AAATA
1 ATTTATTAGTATGGATTG
94443 ATTTATTAGTATGGATTG
1 ATTTATTAGTATGGATTG
94461 ATTTATT
1 ATTTATT
94468 TTAAATAATT
Statistics
Matches: 29, Mismatches: 6, Indels: 8
0.67 0.14 0.19
Matches are distributed among these distances:
14 9 0.31
15 1 0.03
16 2 0.07
17 1 0.03
18 16 0.55
ACGTcount: A:0.32, C:0.00, G:0.14, T:0.54
Consensus pattern (18 bp):
ATTTATTAGTATGGATTG
Found at i:94465 original size:64 final size:64
Alignment explanation
Indices: 94387--94702 Score: 337
Period size: 64 Copynumber: 4.8 Consensus size: 64
94377 TATTGTAGTT
*
94387 GTATGGATTTATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTA
* *
94451 GTATGGATTGATTTATTTTAAATAATTTATTTGTATAGATTGATTTATTTTAAAATATGGATTGA
1 GTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT--AA-AT--A---A
94516 TTTATTA
58 TTTATTA
* * *
94523 TTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTA-TTT---TAA
1 --GTA--TGGATTGATT----TATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAA
94584 ---A--A
58 TTTATTA
94586 -TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTA
* * *
94649 GTATAGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATATATTTTAAA
1 GTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAA
94703 ATATAGATTG
Statistics
Matches: 212, Mismatches: 14, Indels: 52
0.76 0.05 0.19
Matches are distributed among these distances:
54 33 0.16
55 3 0.01
58 11 0.05
60 2 0.01
61 1 0.00
63 2 0.01
64 98 0.46
65 1 0.00
66 2 0.01
67 2 0.01
68 1 0.00
69 1 0.00
71 1 0.00
72 8 0.04
73 1 0.00
74 3 0.01
76 8 0.04
79 3 0.01
80 31 0.15
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (64 bp):
GTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTA
Found at i:94468 original size:144 final size:134
Alignment explanation
Indices: 94254--94719 Score: 640
Period size: 144 Copynumber: 3.5 Consensus size: 134
94244 TATTTTAAAA
* *
94254 TATGGATTGATTTATTTTAAATAATTTATTAATATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGAT
94319 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTA
66 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTA
94384 GTTG
131 GTTG
* *
94388 TATGGATTTATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAGT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTA-TTT---TAA---A--A-T
* *
94453 ATGGATTGATTTATTTTAAATAATTTATTTGTATAGATTGATTTATTTTAAAATATGGATTGATT
56 ATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATT
94518 TATTATTGTAGTTG
121 TATTATTGTAGTTG
94532 TATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGAT
94597 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT--AA-AT--A---ATTTATTA--GTA
66 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTA
94652 ----
131 GTTG
* * * *
94652 TA--GATTGATTTATTTTAAATAATTTATTTGTATGGATTGATATATTTTAAAATATAGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGAT
94715 TTATT
66 TTATT
94720 ATTGTAGTTG
Statistics
Matches: 310, Mismatches: 12, Indels: 36
0.87 0.03 0.10
Matches are distributed among these distances:
118 62 0.20
120 2 0.01
124 3 0.01
126 8 0.03
129 1 0.00
131 2 0.01
132 2 0.01
134 92 0.30
135 4 0.01
137 1 0.00
138 3 0.01
140 3 0.01
141 1 0.00
143 4 0.01
144 122 0.39
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (134 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGAT
TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTA
GTTG
Found at i:94500 original size:198 final size:199
Alignment explanation
Indices: 94209--94814 Score: 815
Period size: 198 Copynumber: 3.1 Consensus size: 199
94199 TTTTAAAATA
*
94209 ATTTATTTTAAATAATTTATTAGTATAGATTGATTTA-TTT---TAA---A--A-TATGGATTGA
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGA
**
94264 TTTATTTTAAATAATTTATTAATATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAA
66 TTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTT--A
* * *
94329 TAATTTA-TTAGTATGGATTGATTTATTTT-AA-AA-TATG-G-ATTG-ATTTA-TTATTGTAGT
129 T--TGTAGTT-GTATGGATTGATTTATTTTAAATAATTATGAGTA-TGAATTGATTTATTGTA-A
** *
94386 TGTATGGATTT
189 AATATGGATTG
94397 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGA
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGA
*
94462 TTTATTTTAAATAATTTATTTGTATAGATTGATTTATTTTAAAATATGGATTGATTTA--TTATT
66 TTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTATT
* *
94525 GTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATG
131 GTAGTTGTATGGATTGATTTATTTTAAATAA-TTATGAGTATGAATTGATTTATTGTAAAATATG
94590 GATTG
195 GATTG
*
94595 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGA
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGA
* *
94660 TTTATTTTAAATAATTTATTTGTATGGATTGATATATTTTAAAATATAGATTGATTTA--TTATT
66 TTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTATT
* * *
94723 GTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATTAATTGATTTATTTTAAAATATG
131 GTAGTTGTATGGATTGATTTATTTTAAATAA-TTATGAGTATGAATTGATTTATTGTAAAATATG
94788 GATTG
195 GATTG
94793 ATTTATTTTAAATAATTTATTA
1 ATTTATTTTAAATAATTTATTA
94815 TTGTAGTTGT
Statistics
Matches: 382, Mismatches: 17, Indels: 28
0.89 0.04 0.07
Matches are distributed among these distances:
188 36 0.09
189 3 0.01
192 25 0.07
193 4 0.01
194 4 0.01
195 1 0.00
196 5 0.01
197 4 0.01
198 293 0.77
199 7 0.02
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (199 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGA
TTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTATT
GTAGTTGTATGGATTGATTTATTTTAAATAATTATGAGTATGAATTGATTTATTGTAAAATATGG
ATTG
Found at i:94589 original size:22 final size:22
Alignment explanation
Indices: 94564--94606 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
94554 AATTTATTAG
94564 TATGAATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
*
94586 TATGGATTGATTTATTTTAAA
1 TATGAATTGATTTATTTTAAA
94607 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (22 bp):
TATGAATTGATTTATTTTAAAA
Found at i:94801 original size:54 final size:55
Alignment explanation
Indices: 94452--94814 Score: 205
Period size: 54 Copynumber: 6.6 Consensus size: 55
94442 AATTTATTAG
*
94452 TATGGATTGATTTATTTTAAATAATTTATTTGTATAGATTGATTTATTTTA-AAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTATAAA
* * * * * * *
94506 TATGGATTGATTTATTATT--GTAGTTGTA-T-GGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATT-TTAAATAATT-TATTAGTATAGATTGA-TTT--AT--TTTATAAA
* ** * * * ** * * *
94564 TATGAATTGATTTATTTTAAA-ATATGGATT-GATTTA-TTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATA-ATTTATTAG-TATAGATTGATTTATTTTATAAA
94618 TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTA-TTT-TAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTATAAA
** ** * * * * * * **
94671 TAATTTATTTGTATGGA-TTGATATATTTTA-AAATATAGATTGATTTATTATTGTAGTTG
1 T-ATGGA-TTG-ATTTATTTTAAATAATTTATTAGTATAGATTGATTTATT-TTATA--AA
94730 TATGGATTGATTTATTTTAAATAATTTATTAGTATTA-ATTGATTTATTTTA-AAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTA-TAGATTGATTTATTTTATAAA
94784 TATGGATTGATTTATTTTAAATAATTTATTA
1 TATGGATTGATTTATTTTAAATAATTTATTA
94815 TTGTAGTTGT
Statistics
Matches: 230, Mismatches: 52, Indels: 54
0.68 0.15 0.16
Matches are distributed among these distances:
52 8 0.03
53 11 0.05
54 106 0.46
55 25 0.11
56 10 0.04
57 23 0.10
58 36 0.16
59 10 0.04
60 1 0.00
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.53
Consensus pattern (55 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTATAAA
Found at i:95021 original size:37 final size:37
Alignment explanation
Indices: 94970--95051 Score: 146
Period size: 37 Copynumber: 2.2 Consensus size: 37
94960 CAGTCTTCTT
94970 CTTGCAGACATTTGGTCCACCTCTTCTGCTGCAGATG
1 CTTGCAGACATTTGGTCCACCTCTTCTGCTGCAGATG
* *
95007 CTTGCAGACTTTTGGTCTACCTCTTCTGCTGCAGATG
1 CTTGCAGACATTTGGTCCACCTCTTCTGCTGCAGATG
95044 CTTGCAGA
1 CTTGCAGA
95052 TATGGTCCGC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 43 1.00
ACGTcount: A:0.16, C:0.28, G:0.22, T:0.34
Consensus pattern (37 bp):
CTTGCAGACATTTGGTCCACCTCTTCTGCTGCAGATG
Found at i:98196 original size:67 final size:67
Alignment explanation
Indices: 98097--98244 Score: 217
Period size: 67 Copynumber: 2.2 Consensus size: 67
98087 CATTCAAGGC
* *
98097 GAACCGATACCCCTTCAACGAATATGATTTCCAGAATGCTAGAGGGGAATCGATACCCCCA-GGG
1 GAACCGATACCCCCTCAACGAATATGAATTCCAGAATGCTAGAGGGGAATCGATACCCCCAGGGG
98161 GG
66 GG
* * * *
98163 GAACCGATACCCCCTCATCGTATATGAAATTCCAGATTGCTTGAGGGGAATCGATACCCCCAGGG
1 GAACCGATACCCCCTCAACGAATATG-AATTCCAGAATGCTAGAGGGGAATCGATACCCCCAGGG
98228 GGG
65 GGG
*
98231 GAACCGATTCCCCC
1 GAACCGATACCCCC
98245 ATGAGAAAAG
Statistics
Matches: 73, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
66 23 0.32
67 32 0.44
68 18 0.25
ACGTcount: A:0.28, C:0.28, G:0.25, T:0.19
Consensus pattern (67 bp):
GAACCGATACCCCCTCAACGAATATGAATTCCAGAATGCTAGAGGGGAATCGATACCCCCAGGGG
GG
Found at i:98270 original size:17 final size:17
Alignment explanation
Indices: 98248--98280 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
98238 TTCCCCCATG
98248 AGAAAAGAAAGAAAGAA
1 AGAAAAGAAAGAAAGAA
*
98265 AGAAAAGAAAGCAAGA
1 AGAAAAGAAAGAAAGA
98281 CTAAGCTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.73, C:0.03, G:0.24, T:0.00
Consensus pattern (17 bp):
AGAAAAGAAAGAAAGAA
Found at i:98587 original size:34 final size:29
Alignment explanation
Indices: 98548--98619 Score: 126
Period size: 29 Copynumber: 2.5 Consensus size: 29
98538 CATATTATGA
*
98548 TACATGACATGAATTTATATTAAATGTAT
1 TACATGACATGAATTCATATTAAATGTAT
*
98577 TACATGACATGAATTCATATTATATGTAT
1 TACATGACATGAATTCATATTAAATGTAT
98606 TACATGACATGAAT
1 TACATGACATGAAT
98620 ATGCAGGAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.40, C:0.10, G:0.11, T:0.39
Consensus pattern (29 bp):
TACATGACATGAATTCATATTAAATGTAT
Found at i:99058 original size:149 final size:149
Alignment explanation
Indices: 98788--99091 Score: 590
Period size: 149 Copynumber: 2.0 Consensus size: 149
98778 GGGTAGAGGG
98788 TCTACGCGGTTCTTTAGGACATATGTATATCCTTTGGAACCTGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTTCTTTAGGACATATGTATATCCTTTGGAACCTGTGTGAAGTCTTGAAAGACACAT
98853 ACTTGATCCATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
66 ACTTGATCCATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
98918 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
*
98937 TCTACGTGGTTCTTTAGGACATATGTATATCCTTTGGAACCTGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTTCTTTAGGACATATGTATATCCTTTGGAACCTGTGTGAAGTCTTGAAAGACACAT
*
99002 ACTTGATCCATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
99067 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
99086 TCTACG
1 TCTACG
99092 GGGCACTTCG
Statistics
Matches: 153, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
149 153 1.00
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.36
Consensus pattern (149 bp):
TCTACGCGGTTCTTTAGGACATATGTATATCCTTTGGAACCTGTGTGAAGTCTTGAAAGACACAT
ACTTGATCCATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
TATGGCACTACGGTGCAAT
Found at i:99114 original size:23 final size:23
Alignment explanation
Indices: 99070--99114 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
99060 ATTATTATAT
*
99070 GGCACTACGGTGCAATTCTACGG
1 GGCACTACGGTGCAATTATACGG
* *
99093 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
99115 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGG
Found at i:99945 original size:22 final size:23
Alignment explanation
Indices: 99889--99954 Score: 80
Period size: 23 Copynumber: 2.9 Consensus size: 23
99879 TAAATAAATT
* * *
99889 TATCTTTATGACATATTTTTATT
1 TATCTTTATAATATATTTTTATC
*
99912 TATCTTTATAATATATTTTTCTC
1 TATCTTTATAATATATTTTTATC
*
99935 TATCTTT-TAATATGTTTTTA
1 TATCTTTATAATATATTTTTA
99955 GTCATTTGGC
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
22 11 0.30
23 26 0.70
ACGTcount: A:0.26, C:0.09, G:0.03, T:0.62
Consensus pattern (23 bp):
TATCTTTATAATATATTTTTATC
Found at i:106446 original size:19 final size:19
Alignment explanation
Indices: 106402--106448 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
106392 TAGAAGGTAA
106402 AATTA-TTATTTTTATTAT
1 AATTATTTATTTTTATTAT
*
106420 ATTATATTTATTTTATATT-T
1 AAT-TATTTATTTT-TATTAT
106440 AATTATTTA
1 AATTATTTA
106449 ACCAATTTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
18 2 0.08
19 8 0.33
20 10 0.42
21 4 0.17
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (19 bp):
AATTATTTATTTTTATTAT
Found at i:110444 original size:58 final size:59
Alignment explanation
Indices: 110319--110487 Score: 225
Period size: 58 Copynumber: 2.9 Consensus size: 59
110309 CTGCGTCTTT
* **
110319 TGCCAGCTCGGACATAACCCTGCGAAGACACACTTCATGATCCGCGCCTTTTCACTATAG
1 TGCCAGCTCGGACAGAACCCCACGAAG-CACACTTCATGATCCGCGCCTTTTCACTATAG
* * *
110379 TGCCAGCTCGGACAGAACCCCACGAAG-ACACTTCATGATCCGTGCCTTTTCACTGTGG
1 TGCCAGCTCGGACAGAACCCCACGAAGCACACTTCATGATCCGCGCCTTTTCACTATAG
* * *
110437 TGTCAGCTCGGACAGAACCCCACGAAGGCACGCTTCATGATCTGC-CCTTTT
1 TGCCAGCTCGGACAGAACCCCACGAA-GCACACTTCATGATCCGCGCCTTTT
110488 TTCAGAAAGA
Statistics
Matches: 97, Mismatches: 10, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
58 53 0.55
59 7 0.07
60 37 0.38
ACGTcount: A:0.23, C:0.33, G:0.21, T:0.23
Consensus pattern (59 bp):
TGCCAGCTCGGACAGAACCCCACGAAGCACACTTCATGATCCGCGCCTTTTCACTATAG
Found at i:111770 original size:59 final size:60
Alignment explanation
Indices: 111634--111770 Score: 140
Period size: 59 Copynumber: 2.3 Consensus size: 60
111624 TAAAGTATAT
* *
111634 AAATGATCTCTCGACTATAAGGTGTTACTTTGTTGAGTCTCCAAACTATCAAAAGTTACA
1 AAATGATCTCACGACTATAAGGTGTTACTTTATTGAGTCTCCAAACTATCAAAAGTTACA
* * * *
111694 AAATGTTTCTTTA--ACTAT-AGGTGTTGCTTTATTGAGTC-CTCTAACTA-CTAAAAGTTACA
1 AAATG-ATC-TCACGACTATAAGGTGTTACTTTATTGAGTCTC-CAAACTATC-AAAAGTTACA
*
111753 AAATGATCACACGACTAT
1 AAATGATCTCACGACTAT
111771 TTATTATGTT
Statistics
Matches: 62, Mismatches: 9, Indels: 13
0.74 0.11 0.15
Matches are distributed among these distances:
57 1 0.02
58 4 0.06
59 44 0.71
60 10 0.16
61 2 0.03
62 1 0.02
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.35
Consensus pattern (60 bp):
AAATGATCTCACGACTATAAGGTGTTACTTTATTGAGTCTCCAAACTATCAAAAGTTACA
Found at i:116738 original size:23 final size:23
Alignment explanation
Indices: 116712--116767 Score: 103
Period size: 23 Copynumber: 2.4 Consensus size: 23
116702 GCTGTTAATA
*
116712 TCAGGAGTTACAATGATTAATTT
1 TCAGGAGTTACAACGATTAATTT
116735 TCAGGAGTTACAACGATTAATTT
1 TCAGGAGTTACAACGATTAATTT
116758 TCAGGAGTTA
1 TCAGGAGTTA
116768 TAACAGCTGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.34, C:0.11, G:0.20, T:0.36
Consensus pattern (23 bp):
TCAGGAGTTACAACGATTAATTT
Found at i:120090 original size:21 final size:20
Alignment explanation
Indices: 120004--120161 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
119994 AAATGACCAA
**
120004 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
120023 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
120043 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
120063 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
120084 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
120105 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
120125 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
120146 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
120162 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:120152 original size:20 final size:20
Alignment explanation
Indices: 120128--120437 Score: 343
Period size: 20 Copynumber: 15.5 Consensus size: 20
120118 CGATTTTCCA
* ** *
120128 AAATCGCAACGCGAATATGA
1 AAATCGCAACGAGAATCCGT
* *
120148 AAATCGCAACGCGAA-CACAT
1 AAATCGCAACGAGAATC-CGT
* *
120168 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGAGAATCCGT
* *
120188 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGAGAATCCGT
* * *
120208 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGAGAATCCGT
* * *
120228 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGAGAATCCGT
* * *
120248 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGAGAATCCGT
*
120268 AAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCCGT
*
120288 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGAGAATCCGT
* *
120308 AAATCGCAACGATAATCTGT
1 AAATCGCAACGAGAATCCGT
*
120328 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGAGAATCCGT
*
120348 AAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCCGT
*
120368 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGAGAATCCGT
*
120388 AAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCCGT
*
120408 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGAGAATCCGT
*
120428 AAATCACAAC
1 AAATCGCAAC
120438 ACTGAAATTT
Statistics
Matches: 258, Mismatches: 30, Indels: 4
0.88 0.10 0.01
Matches are distributed among these distances:
20 257 1.00
21 1 0.00
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGAGAATCCGT
Found at i:121159 original size:24 final size:24
Alignment explanation
Indices: 121120--121166 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
121110 AAATTTGGTC
121120 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
121144 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
121167 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:123679 original size:19 final size:19
Alignment explanation
Indices: 123610--123817 Score: 257
Period size: 19 Copynumber: 11.7 Consensus size: 19
123600 GCAACGAGAG
123610 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
123629 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
123643 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
123663 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
123682 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
123701 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
123715 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
123734 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
123753 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
123772 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
*
123786 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
*
123805 AATCGCATTGCGA
1 AATCGCAATGCGA
123818 TTCTCCCGTT
Statistics
Matches: 165, Mismatches: 8, Indels: 32
0.80 0.04 0.16
Matches are distributed among these distances:
14 32 0.19
15 2 0.01
16 5 0.03
17 5 0.03
18 2 0.01
19 103 0.62
20 16 0.10
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:123809 original size:33 final size:34
Alignment explanation
Indices: 123596--123811 Score: 278
Period size: 33 Copynumber: 6.2 Consensus size: 34
123586 CGGAAATTAC
*
123596 AATCGCAACGA-GAGAATCGCAATGCGAAATGAA
1 AATCGCAACGATGAAAATCGCAATGCGAAATGAA
*
123629 AATCCCAAC-ATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAACGATGAAAATCGCAATGC-GAAATGAA
123663 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAA--CG--ATGAAAATCGCAATGCGAAATGAA
*
123701 AATCGCAACGA-GAGAATCGCAATGCGAAATGAA
1 AATCGCAACGATGAAAATCGCAATGCGAAATGAA
123734 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAA--CG--ATGAAAATCGCAATGCGAAATGAA
* *
123772 AATCGCAACGA-GAGAATCGCAATGCGAAATTAA
1 AATCGCAACGATGAAAATCGCAATGCGAAATGAA
123805 AATCGCA
1 AATCGCA
123812 TTGCGATTCT
Statistics
Matches: 164, Mismatches: 7, Indels: 24
0.84 0.04 0.12
Matches are distributed among these distances:
32 1 0.01
33 77 0.47
34 17 0.10
35 2 0.01
36 5 0.03
37 1 0.01
38 45 0.27
39 16 0.10
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.14
Consensus pattern (34 bp):
AATCGCAACGATGAAAATCGCAATGCGAAATGAA
Found at i:123817 original size:52 final size:51
Alignment explanation
Indices: 123638--123817 Score: 184
Period size: 52 Copynumber: 3.4 Consensus size: 51
123628 AAATCCCAAC
123638 ATGAAAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAA--CG--A-G-AAATCGCAATGCGAA
* * * * *
123696 ATGAAAATCGCAACGAGAGAATCG-CAATGCGAAATGA-AAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGA-AAT-GAAAAT-CGCAACGAGAAATCGCAATGCGAA
123748 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGA-AATCGCAATGCGAA
* *
123800 ATTAAAATCGCATTGCGA
1 ATGAAAATCGCAATGCGA
123818 TTCTCCCGTT
Statistics
Matches: 104, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
50 7 0.07
51 7 0.07
52 61 0.59
55 1 0.01
57 3 0.03
58 20 0.19
59 5 0.05
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.16
Consensus pattern (51 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAAATCGCAATGCGAA
Found at i:123832 original size:71 final size:71
Alignment explanation
Indices: 123610--123817 Score: 355
Period size: 71 Copynumber: 2.9 Consensus size: 71
123600 GCAACGAGAG
* *
123610 AATCGCAATGCGAAATGAAAATCCCAAC-ATGAAAATCGCAATGCGGAAATGAAAATCGCAATGC
1 AATCGCAATGCGAAATGAAAATCGCAACGA-GAGAATCGCAATGC-GAAATGAAAATCGCAATGC
123674 GAAATGAA
64 GAAATGAA
123682 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGA
123747 AATGAA
66 AATGAA
* *
123753 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATTAAAATCGCATTGCGA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGA
123818 TTCTCCCGTT
Statistics
Matches: 131, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
71 90 0.69
72 40 0.31
73 1 0.01
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.15
Consensus pattern (71 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGA
AATGAA
Found at i:123866 original size:19 final size:20
Alignment explanation
Indices: 123826--123871 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
123816 GATTCTCCCG
*
123826 TTGCAATTTTCATTTCCGCA
1 TTGCGATTTTCATTTCCGCA
123846 TTGCGATTTTCATTT-CGCA
1 TTGCGATTTTCATTTCCGCA
123865 TTGCGAT
1 TTGCGAT
123872 AGTCAATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 11 0.44
20 14 0.56
ACGTcount: A:0.17, C:0.22, G:0.15, T:0.46
Consensus pattern (20 bp):
TTGCGATTTTCATTTCCGCA
Found at i:123880 original size:20 final size:20
Alignment explanation
Indices: 123835--123876 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
123825 GTTGCAATTT
**
123835 TCATTTCCGCATTGCGATTT
1 TCATTTCCGCATTGCGATAG
123855 TCATTT-CGCATTGCGATAG
1 TCATTTCCGCATTGCGATAG
123874 TCA
1 TCA
123877 ATTTTGCCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.19, C:0.24, G:0.17, T:0.40
Consensus pattern (20 bp):
TCATTTCCGCATTGCGATAG
Found at i:124005 original size:13 final size:14
Alignment explanation
Indices: 123978--124013 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
123968 CATCAATTAC
123978 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
123992 ACAAATCATC-TTT
1 ACAAATCAACTTTT
124005 ACAAATCAA
1 ACAAATCAA
124014 TTAAACAATC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 11 0.55
14 9 0.45
ACGTcount: A:0.47, C:0.22, G:0.00, T:0.31
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:125814 original size:20 final size:19
Alignment explanation
Indices: 125757--125822 Score: 89
Period size: 19 Copynumber: 3.4 Consensus size: 19
125747 GCGATTCTGT
125757 CGTTGCGATTTTCA-TTTCG
1 CGTTGCGATTTT-AGTTTCG
*
125776 CGTTGCGATTTTGGTTTCG
1 CGTTGCGATTTTAGTTTCG
125795 CGTTGCGATTTTAAGTTTCG
1 CGTTGCGATTTT-AGTTTCG
*
125815 TGTTGCGA
1 CGTTGCGA
125823 AAGTAAACTA
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
19 29 0.69
20 13 0.31
ACGTcount: A:0.11, C:0.17, G:0.27, T:0.45
Consensus pattern (19 bp):
CGTTGCGATTTTAGTTTCG
Found at i:125986 original size:93 final size:93
Alignment explanation
Indices: 125870--126338 Score: 904
Period size: 93 Copynumber: 5.1 Consensus size: 93
125860 ATGGATTGCA
*
125870 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACGGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
125934 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
125962 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
126027 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
126055 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
126120 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
126148 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
126213 TAGCAGAATTGGCAACAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
126241 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
126306 TAGCAGAATTGGCAGCAACCGAATAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
126334 TTACT
1 TTACT
126339 AAGCAATCTA
Statistics
Matches: 372, Mismatches: 4, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
92 4 0.01
93 368 0.99
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:128063 original size:14 final size:14
Alignment explanation
Indices: 128044--128133 Score: 63
Period size: 14 Copynumber: 5.7 Consensus size: 14
128034 TTGAAATGAA
128044 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
128058 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
*
128077 AATCGCAACTAGAG
1 AATCGCAACGAGAG
*
128091 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
128110 AATCGCAACGAGAG
1 AATCGCAACGAGAG
128124 AATCGCAACG
1 AATCGCAACG
128134 CGAAATGAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 20
0.70 0.07 0.23
Matches are distributed among these distances:
14 30 0.50
15 2 0.03
16 3 0.05
17 3 0.05
18 2 0.03
19 20 0.33
ACGTcount: A:0.44, C:0.22, G:0.23, T:0.10
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:128076 original size:33 final size:33
Alignment explanation
Indices: 128036--128150 Score: 221
Period size: 33 Copynumber: 3.5 Consensus size: 33
128026 TCTTTTGGTT
128036 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
128069 GAAATGAAAATCGCAACTAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
128102 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
128135 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
128151 TGCGATTTTG
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 80 1.00
ACGTcount: A:0.47, C:0.20, G:0.23, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:128082 original size:19 final size:19
Alignment explanation
Indices: 128058--128155 Score: 90
Period size: 19 Copynumber: 5.7 Consensus size: 19
128048 GCAACGAGAG
128058 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
* *
128077 AATCGCAA--C--TA-GAG
1 AATCGCAACGCGAAATGAA
128091 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
128110 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
128124 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
128143 AATCGCAATGCGA
1 AATCGCAACGCGA
128156 TTTTGGTTTC
Statistics
Matches: 62, Mismatches: 7, Indels: 20
0.70 0.08 0.22
Matches are distributed among these distances:
14 20 0.32
15 2 0.03
16 3 0.05
17 3 0.05
18 2 0.03
19 32 0.52
ACGTcount: A:0.45, C:0.21, G:0.22, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:128186 original size:14 final size:14
Alignment explanation
Indices: 128167--128223 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
128157 TTTGGTTTCG
128167 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
128181 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
128200 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
128214 CGTTGCGATT
1 CGTTGCGATT
128224 TTCATTTCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:128199 original size:33 final size:33
Alignment explanation
Indices: 128151--128231 Score: 144
Period size: 33 Copynumber: 2.5 Consensus size: 33
128141 AAAATCGCAA
**
128151 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
128184 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
128217 TGCGATTTTCATTTC
1 TGCGATTTTCATTTC
128232 TCTCGTTGCG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.09, C:0.22, G:0.22, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:128234 original size:21 final size:21
Alignment explanation
Indices: 128208--128283 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
128198 CGCGTTGCGA
128208 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
128229 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
128249 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
*
128270 TTATCTCGTTGCGA
1 TTCTCTCGTTGCGA
128284 CTCTTCTGCA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 17 0.36
21 30 0.64
ACGTcount: A:0.12, C:0.25, G:0.17, T:0.46
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:128264 original size:41 final size:41
Alignment explanation
Indices: 128207--128284 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
128197 TCGCGTTGCG
*
128207 ATTCTCTCGTTGCGATTTTCATTTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
128248 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
128285 TCTTCTGCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.13, C:0.26, G:0.17, T:0.45
Consensus pattern (41 bp):
ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
Found at i:128405 original size:33 final size:33
Alignment explanation
Indices: 128363--128433 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
128353 AATACTAACT
*
128363 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
128396 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
128429 TGAAA
1 TGAAA
128434 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:128667 original size:22 final size:22
Alignment explanation
Indices: 128615--128669 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
128605 TGGTTGTGAG
**
128615 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
128637 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
128659 GGATTTCTTCG
1 GGATTTCTTCG
128670 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:128841 original size:20 final size:20
Alignment explanation
Indices: 128816--128969 Score: 168
Period size: 20 Copynumber: 7.7 Consensus size: 20
128806 CTTTAAATAT
128816 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
128836 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
128858 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
128877 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
*
128897 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
128917 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
128937 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
128957 CGCGTTGCGATTT
1 CGCGTTGCGATTT
128970 TGGAAAATCG
Statistics
Matches: 113, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
19 2 0.02
20 94 0.83
21 15 0.13
22 2 0.02
ACGTcount: A:0.18, C:0.18, G:0.27, T:0.37
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:128943 original size:40 final size:40
Alignment explanation
Indices: 128815--128969 Score: 186
Period size: 40 Copynumber: 3.9 Consensus size: 40
128805 GCTTTAAATA
*
128815 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTAT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTGT
** * *
128856 TATCGTTGCGATTTACGGATACGCGTTGCGATATACG-GAT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTG-T
* *
128896 ACACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTGT
* ** *
128936 TCGCGTTGCGATTTTCATATTCGCGTTGCGATTT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTT
128970 TGGAAAATCG
Statistics
Matches: 96, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
40 66 0.69
41 30 0.31
ACGTcount: A:0.18, C:0.18, G:0.26, T:0.37
Consensus pattern (40 bp):
TCGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTGT
Found at i:128986 original size:21 final size:21
Alignment explanation
Indices: 128956--129038 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
128946 ATTTTCATAT
*
128956 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
128977 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
128998 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
129019 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
129039 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:129029 original size:42 final size:43
Alignment explanation
Indices: 128936--129034 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
128926 ATTTATGTGT
* *
128936 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
128977 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
129019 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
129035 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:136049 original size:16 final size:16
Alignment explanation
Indices: 136028--136065 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
136018 TGTGCAAATC
* *
136028 CGGGTACCCGGGTTTT
1 CGGGTACCCGGATCTT
136044 CGGGTACCCGGATCTT
1 CGGGTACCCGGATCTT
136060 CGGGTA
1 CGGGTA
136066 ATTGATTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.11, C:0.26, G:0.37, T:0.26
Consensus pattern (16 bp):
CGGGTACCCGGATCTT
Found at i:137230 original size:5 final size:5
Alignment explanation
Indices: 137220--137246 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
137210 TTATACATCA
137220 AAATC AAATC AAATC AAATC AAATC AA
1 AAATC AAATC AAATC AAATC AAATC AA
137247 TCCTGTCAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.63, C:0.19, G:0.00, T:0.19
Consensus pattern (5 bp):
AAATC
Found at i:145820 original size:44 final size:44
Alignment explanation
Indices: 145759--145849 Score: 148
Period size: 44 Copynumber: 2.1 Consensus size: 44
145749 AATTGTTCGT
* *
145759 GTTCGTTCGGTTAAAGTTAAACGAACGAACGTGAATATACTC-TC
1 GTTCGTACGGTTAAAGTTAAACGAACGAACATGAATATA-TCATC
145803 GTTCGTACGGTTAAAGTTAAACGAACGAACATGAATATATCATC
1 GTTCGTACGGTTAAAGTTAAACGAACGAACATGAATATATCATC
145847 GTT
1 GTT
145850 TTCTTTTTAA
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
43 2 0.05
44 42 0.95
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (44 bp):
GTTCGTACGGTTAAAGTTAAACGAACGAACATGAATATATCATC
Found at i:147374 original size:2 final size:2
Alignment explanation
Indices: 147367--147395 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
147357 ATTAAATCCC
147367 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
147396 CCTTGTTGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:150216 original size:39 final size:39
Alignment explanation
Indices: 150160--150288 Score: 213
Period size: 39 Copynumber: 3.3 Consensus size: 39
150150 TATTGTCCCT
* *
150160 ACAATTATCCAACCAAAATATCACCATGTAGCGCTTTCC
1 ACAATTATCCAACCAAAATATCACCATGTTGCACTTTCC
*
150199 AAAATTATCCAACCAAAATATCACCATGTTGCACTTTCC
1 ACAATTATCCAACCAAAATATCACCATGTTGCACTTTCC
* *
150238 GCAATTATCCAACCAAAATATCACCATGTTGCAATTTCC
1 ACAATTATCCAACCAAAATATCACCATGTTGCACTTTCC
150277 ACAATTATCCAA
1 ACAATTATCCAA
150289 AAAAACTACG
Statistics
Matches: 83, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 83 1.00
ACGTcount: A:0.38, C:0.29, G:0.06, T:0.27
Consensus pattern (39 bp):
ACAATTATCCAACCAAAATATCACCATGTTGCACTTTCC
Found at i:153050 original size:13 final size:12
Alignment explanation
Indices: 153016--153058 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 12
153006 CAGCAGCCGC
153016 CTTTTTCTCTTTTT
1 CTTTTTC-C-TTTT
*
153030 CCTTTTCCTTCTT
1 CTTTTTCCTT-TT
153043 CTTTTTCCTTTT
1 CTTTTTCCTTTT
153055 CTTT
1 CTTT
153059 GCAGCAGCAG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
12 8 0.31
13 12 0.46
14 6 0.23
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCCTTTT
Found at i:153275 original size:12 final size:12
Alignment explanation
Indices: 153255--153289 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
153245 GTCCTTTCAC
153255 TCTTGTTCTTCT
1 TCTTGTTCTTCT
*
153267 TCTTATTCTTCT
1 TCTTGTTCTTCT
153279 TCTTGTTCTTC
1 TCTTGTTCTTC
153290 GAAGTTTCAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.03, C:0.26, G:0.06, T:0.66
Consensus pattern (12 bp):
TCTTGTTCTTCT
Found at i:153784 original size:126 final size:126
Alignment explanation
Indices: 153636--153881 Score: 332
Period size: 126 Copynumber: 2.0 Consensus size: 126
153626 TGATAAAGAC
* * * * * * *
153636 AATGAACGAACATCTTCTTCCTCATCTTCTTTTACA-CTCTCTTCATTTTCTAGTTCGTCATCTA
1 AATGAACGAACATCTTCTTCCTCATCTTCTTTCACAGC-ATCTTCATTTTCAAGCTCATCACCCA
* * *
153700 AGGCTGCAAATGTAGCACTGTTTTTCTTCTTAGATGACTTCTTCTTATGACCTGAAGATCCA
65 AGGCTGCAAATGCAGCAATGCTTTTCTTCTTAGATGACTTCTTCTTATGACCTGAAGATCCA
* * *
153762 AATGAAGGAGCATCTTCTTCCTCATCTTCTTTCACAGCATCTTCGTTTTCAAGCTCATCACCCAA
1 AATGAACGAACATCTTCTTCCTCATCTTCTTTCACAGCATCTTCATTTTCAAGCTCATCACCCAA
* * *
153827 GGCTGCAAATGCAGCAATGCTTTTCTTCTTAGATGTCTTCTTCTTCTTACCTGAA
66 GGCTGCAAATGCAGCAATGCTTTTCTTCTTAGATGACTTCTTCTTATGACCTGAA
153882 AATGCAATCA
Statistics
Matches: 103, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
126 102 0.99
127 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.13, T:0.39
Consensus pattern (126 bp):
AATGAACGAACATCTTCTTCCTCATCTTCTTTCACAGCATCTTCATTTTCAAGCTCATCACCCAA
GGCTGCAAATGCAGCAATGCTTTTCTTCTTAGATGACTTCTTCTTATGACCTGAAGATCCA
Found at i:153907 original size:126 final size:126
Alignment explanation
Indices: 153647--153910 Score: 309
Period size: 126 Copynumber: 2.1 Consensus size: 126
153637 ATGAACGAAC
* * * * * * *
153647 ATCTTCTTCCTCATCTTCTTTTACACTCTCTTCATTTTCTAGTTCGTCATCTAAGGCTGCAAATG
1 ATCTTCTTCCTCATCTTCTTTCACACTATCTTCATTTTCAAGCTCATCACCCAAGGCTGCAAATG
* * * * * *
153712 TAGCACTGTTTTTCTTCTTAGATGACTTCTTCTTATGACCTGAAGATCCAAATGAAGGAGC
66 CAGCAATGCTTTTCTTCTTAGATGACTTCTTCTTATGACCTGAAAATCCAAATCAAGGAGA
*
153773 ATCTTCTTCCTCATCTTCTTTCACAGC-ATCTTCGTTTTCAAGCTCATCACCCAAGGCTGCAAAT
1 ATCTTCTTCCTCATCTTCTTTCACA-CTATCTTCATTTTCAAGCTCATCACCCAAGGCTGCAAAT
* * * * *
153837 GCAGCAATGCTTTTCTTCTTAGATGTCTTCTTCTTCTTACCTGAAAATGC-AATCATGGCAGA
65 GCAGCAATGCTTTTCTTCTTAGATGACTTCTTCTTATGACCTGAAAATCCAAATCAAGG-AGA
153899 AT-TATCTTCCTC
1 ATCT-TCTTCCTC
153911 GTCATCAACA
Statistics
Matches: 116, Mismatches: 19, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
125 7 0.06
126 108 0.93
127 1 0.01
ACGTcount: A:0.22, C:0.26, G:0.12, T:0.39
Consensus pattern (126 bp):
ATCTTCTTCCTCATCTTCTTTCACACTATCTTCATTTTCAAGCTCATCACCCAAGGCTGCAAATG
CAGCAATGCTTTTCTTCTTAGATGACTTCTTCTTATGACCTGAAAATCCAAATCAAGGAGA
Done.