Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01020254.1 Corchorus olitorius cultivar O-4 contig20287, 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: 98596
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Found at i:709 original size:24 final size:25
Alignment explanation
Indices: 676--732 Score: 82
Period size: 25 Copynumber: 2.4 Consensus size: 25
666 GTCAGCCTTG
*
676 AATTT-TTTAATGT-TTAATTCTTA
1 AATTTATTTAATGTCTTAATTATTA
*
699 AATTTATTTAATGTCTTAATTATTC
1 AATTTATTTAATGTCTTAATTATTA
724 AATTTATTT
1 AATTTATTT
733 TACAATCCAC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 5 0.17
24 8 0.27
25 17 0.57
ACGTcount: A:0.32, C:0.05, G:0.04, T:0.60
Consensus pattern (25 bp):
AATTTATTTAATGTCTTAATTATTA
Found at i:3822 original size:19 final size:19
Alignment explanation
Indices: 3798--3849 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 19
3788 AATGTTGAAG
*
3798 TTATAACCTTAGT-ATTTTT
1 TTATAACCTTA-TAAGTTTT
3817 TTATAACCTCTATAAGTTTT
1 TTATAACCT-TATAAGTTTT
3837 TTAGTAACCTTAT
1 TTA-TAACCTTAT
3850 TAGATGTGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
19 10 0.34
20 13 0.45
21 6 0.21
ACGTcount: A:0.29, C:0.13, G:0.06, T:0.52
Consensus pattern (19 bp):
TTATAACCTTATAAGTTTT
Found at i:5011 original size:22 final size:23
Alignment explanation
Indices: 4986--5028 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
4976 GTTGATAAGA
*
4986 GTATAGCATTTTCA-TAATCTGT
1 GTATAGCATTTTAAGTAATCTGT
*
5008 GTATAGCTTTTTAAGTAATCT
1 GTATAGCATTTTAAGTAATCT
5029 TATGTAAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.28, C:0.12, G:0.14, T:0.47
Consensus pattern (23 bp):
GTATAGCATTTTAAGTAATCTGT
Found at i:16728 original size:13 final size:13
Alignment explanation
Indices: 16710--16736 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
16700 TATTATTATC
16710 ATATAAAATGTGT
1 ATATAAAATGTGT
16723 ATATAAAATGTGT
1 ATATAAAATGTGT
16736 A
1 A
16737 ATGGTTGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.37
Consensus pattern (13 bp):
ATATAAAATGTGT
Found at i:17735 original size:2 final size:2
Alignment explanation
Indices: 17728--17768 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
17718 GAATTATTGG
*
17728 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
17769 GAGGTGGCTA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:18280 original size:12 final size:12
Alignment explanation
Indices: 18250--18280 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
18240 CCTGGTAATC
*
18250 CGTGTTCCGTGT
1 CGTGTTTCGTGT
18262 CGTGTTTCGTGT
1 CGTGTTTCGTGT
18274 CGTGTTT
1 CGTGTTT
18281 ACATAGGGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.19, G:0.32, T:0.48
Consensus pattern (12 bp):
CGTGTTTCGTGT
Found at i:18497 original size:2 final size:2
Alignment explanation
Indices: 18490--18519 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
18480 TTAACTAAAC
18490 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
18520 ATTAGAGCTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:18795 original size:20 final size:21
Alignment explanation
Indices: 18758--18800 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
18748 AACCCGTTAA
*
18758 TTAAAGCGTGTCACTCGTGTC
1 TTAAAGCGTGTCAATCGTGTC
*
18779 TTAAA-CGTGTTAATCGTGTC
1 TTAAAGCGTGTCAATCGTGTC
18799 TT
1 TT
18801 GACACGATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.40
Consensus pattern (21 bp):
TTAAAGCGTGTCAATCGTGTC
Found at i:18859 original size:42 final size:43
Alignment explanation
Indices: 18788--18870 Score: 116
Period size: 42 Copynumber: 2.0 Consensus size: 43
18778 CTTAAACGTG
* *
18788 TTAATCGTGTCTTGACACGATTAGGACACGAAACACGATAATC
1 TTAATCGTGTCTCGACACGATTAGAACACGAAACACGATAATC
*
18831 TTAATCGTGTC-CGACACGATTCA-AACACGAGACACGATAA
1 TTAATCGTGTCTCGACACGATT-AGAACACGAAACACGATAA
18871 GTCAAACACG
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
42 24 0.67
43 12 0.33
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.23
Consensus pattern (43 bp):
TTAATCGTGTCTCGACACGATTAGAACACGAAACACGATAATC
Found at i:18866 original size:18 final size:19
Alignment explanation
Indices: 18843--18887 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 19
18833 AATCGTGTCC
18843 GACACGAT-TCAAACACGA
1 GACACGATATCAAACACGA
18861 GACACGATAAGTCAAACACGA
1 GACACGAT-A-TCAAACACGA
18882 -ACACGA
1 GACACGA
18888 CTAAACATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.33
20 6 0.25
21 10 0.42
ACGTcount: A:0.47, C:0.27, G:0.18, T:0.09
Consensus pattern (19 bp):
GACACGATATCAAACACGA
Found at i:25510 original size:16 final size:15
Alignment explanation
Indices: 25485--25515 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
25475 GACCTGTTCA
25485 TGGGTCGGGCCGGGC
1 TGGGTCGGGCCGGGC
25500 TGGGTTCGGGCCGGGC
1 TGGG-TCGGGCCGGGC
25516 CTAGCCTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.00, C:0.26, G:0.58, T:0.16
Consensus pattern (15 bp):
TGGGTCGGGCCGGGC
Found at i:29102 original size:91 final size:91
Alignment explanation
Indices: 28947--29122 Score: 271
Period size: 91 Copynumber: 1.9 Consensus size: 91
28937 AGATTTATGT
* * *
28947 AGATTTAATTGATAACTAAATATGATGGCAGTTTTTAATTTCAATTTATATGTGTTTTAAATATT
1 AGATTTAATTGATAACTAAATATGATGACAGTTTGTAATTTCAATTTATATGTATTTTAAATATT
* *
29012 TTATTGTGAGTCACCGAGTTGTATAG
66 TAATTGTGAATCACCGAGTTGTATAG
* * *
29038 AGATTTAATTGATAATTAACTATGATGACAGTTTGTAATTTGAATTTATATGTATTTTAAATATT
1 AGATTTAATTGATAACTAAATATGATGACAGTTTGTAATTTCAATTTATATGTATTTTAAATATT
*
29103 TAATTGTGAATCATCGAGTT
66 TAATTGTGAATCACCGAGTT
29123 TGTGTCGCGA
Statistics
Matches: 76, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
91 76 1.00
ACGTcount: A:0.34, C:0.06, G:0.15, T:0.45
Consensus pattern (91 bp):
AGATTTAATTGATAACTAAATATGATGACAGTTTGTAATTTCAATTTATATGTATTTTAAATATT
TAATTGTGAATCACCGAGTTGTATAG
Found at i:29217 original size:18 final size:18
Alignment explanation
Indices: 29189--29239 Score: 68
Period size: 19 Copynumber: 2.8 Consensus size: 18
29179 TTTATTATAT
29189 CATTT-AAAAAAACTACC
1 CATTTAAAAAAAACTACC
*
29206 TATTTAAAAAAAAACTACC
1 CATTT-AAAAAAAACTACC
*
29225 CATTTAGAAAAAACT
1 CATTTAAAAAAAACT
29240 GCCATAAACT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
17 4 0.14
18 9 0.31
19 16 0.55
ACGTcount: A:0.55, C:0.18, G:0.02, T:0.25
Consensus pattern (18 bp):
CATTTAAAAAAAACTACC
Found at i:29218 original size:19 final size:20
Alignment explanation
Indices: 29194--29237 Score: 72
Period size: 19 Copynumber: 2.2 Consensus size: 20
29184 TATATCATTT
*
29194 AAAAAAACTACCTATTTA-A
1 AAAAAAACTACCCATTTAGA
29213 AAAAAAACTACCCATTTAGA
1 AAAAAAACTACCCATTTAGA
29233 AAAAA
1 AAAAA
29238 CTGCCATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 17 0.74
20 6 0.26
ACGTcount: A:0.61, C:0.16, G:0.02, T:0.20
Consensus pattern (20 bp):
AAAAAAACTACCCATTTAGA
Found at i:29281 original size:43 final size:43
Alignment explanation
Indices: 29232--29318 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
29222 ACCCATTTAG
29232 AAAAAACTGCCATAAACTACTATATTTTAATTATTTTATTTCC
1 AAAAAACTGCCATAAACTACTATATTTTAATTATTTTATTTCC
29275 AAAAAACTGCCATAAACTACTATATTTTAATTATTTTATTTCC
1 AAAAAACTGCCATAAACTACTATATTTTAATTATTTTATTTCC
29318 A
1 A
29319 TATATACTCA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.40, C:0.16, G:0.02, T:0.41
Consensus pattern (43 bp):
AAAAAACTGCCATAAACTACTATATTTTAATTATTTTATTTCC
Found at i:33698 original size:438 final size:437
Alignment explanation
Indices: 32538--33785 Score: 1861
Period size: 442 Copynumber: 2.8 Consensus size: 437
32528 ATGGGCCCAT
* * ** **
32538 TCTCCACAAAGAAATATTTTTTTATTGGATTATTTATTGAATGATCCTCATACTTTTATGCTTTA
1 TCTCCATAAACAAATATTTTTTTGCTGGATTATTTATCAAATGATCCTCATACTTTTATGCTTTA
* * *
32603 TGCTATTTGATCCTTTACAATTATGGGTTGAACAATTTAATGCGTT-GGCTTTTATTTTTGTATT
66 TGCTATTTAATCCTTTACAATTATGGGTTGGACGATTTAATGC-TTCGGCTTTTATTTTTGTATT
* * *
32667 TTTTGTTCTATTTGTCCGATTAAGCTGATTCAAGTTTCCT-TTAAAAGGTAATTTCATGATCTAC
130 TTTTGTTCTATTTGTCCGATTAAGCTGATTCAAGTAT-CTATTAAAATGTGATTTCATGATCTAC
* ** *
32731 AACTCTCATGAAAAACTCAGAAGCCAATTTTAATGTTTTGATTCTTGAAAATGCTTATAAAATTT
194 AACTTTCATGAAAAACTCAGAAGCCAATTTTAATGTTTTGATTCTAAAAAATGCTTATGAAATTT
*
32796 TGTGGTCTCGATTGCCGGTTTATCTAATATTGTATAATTTTCGGTCCACTTGTCCGATTGAGGTT
259 TGTGGTCTCGATTGCCGGTCTATCTAATATTGTATAATTTTCGGTCCACTTGTCCGATTGAGGTT
* * * * *
32861 GTTCAAGTGTCGGTTAAAAGGTTATTGTGTGCTCTACGACTTTCGTCAAGGGCCTGAAAGCTGAA
324 GTTCAAGTGTCGG-TAAAAAGTTATTGTATGATCTACGACTTTCATCAAGGGCCTCAAAGCTGAA
32926 TTTGATTAATGAGTTTCGTGGAGAGTTCAAGAGAGAATTTTTATGTTTGG
388 TTTGATTAATGAGTTTCGTGGAGAGTTCAAGAGAGAATTTTTATGTTTGG
* *
32976 TCTCCATAAACAAATATATTTTTTGCTGGATTATTTATCAAATGATCCTAATACTTTTATACTTT
1 TCTCCATAAACAAATAT-TTTTTTGCTGGATTATTTATCAAATGATCCTCATACTTTTATGCTTT
* * *
33041 ATGATATTTAATCCTTTACAATATTTATGGGTTTGACGATTTAACGCTTCGGCTTTTATTTTTGT
65 ATGCTATTTAATCCTTTAC-A-A-TTATGGGTTGGACGATTTAATGCTTCGGCTTTTATTTTTGT
* * * *
33106 ATTTTTTGTTCTATTTGTCCGATTAAGGTGATTCAAGTGTCTATTAATATGTGATTTCATGATTT
127 ATTTTTTGTTCTATTTGTCCGATTAAGCTGATTCAAGTATCTATTAAAATGTGATTTCATGATCT
*
33171 ACAACTTTCATGAAAAACTCACAAGCCAATTTTAATGTTTTGATTCTAAAAAATGCTTATGAAAT
192 ACAACTTTCATGAAAAACTCAGAAGCCAATTTTAATGTTTTGATTCTAAAAAATGCTTATGAAAT
*
33236 TTTGTGGTCTCGATTGCCGGTCTATCTAATATTGTATAATTTTCGGTTCACTTGTCCGATTGAGG
257 TTTGTGGTCTCGATTGCCGGTCTATCTAATATTGTATAATTTTCGGTCCACTTGTCCGATTGAGG
*
33301 TTGTTCAAGTGTCGGTGAAAAAGTTATTGTTTGATCTACGACTTTCATCAAGGGCCTCAAAGCTG
322 TTGTTCAAGTGTCGGT-AAAAAGTTATTGTATGATCTACGACTTTCATCAAGGGCCTCAAAGCTG
* *
33366 AATTTGATTAATGAGTTTCGTGGAGAGTTCAAGAGGGAATTTTTATGTTTTG
386 AATTTGATTAATGAGTTTCGTGGAGAGTTCAAGAGAGAATTTTTATGTTTGG
* *
33418 TCTCCATAAACAAATATTTTTTTGCTGGATTATTTATCAAATGATCCTCATGCTTTAATGCTTTA
1 TCTCCATAAACAAATATTTTTTTGCTGGATTATTTATCAAATGATCCTCATACTTTTATGCTTTA
* *
33483 TGCTATTTAATCATTTACAATTATGGGTTGGACGATTTAATACTTCGGCTTTTATTTTTGTATTT
66 TGCTATTTAATCCTTTACAATTATGGGTTGGACGATTTAATGCTTCGGCTTTTATTTTTGTATTT
* * *
33548 TTTGTTTTATTTGTCTGACTAAGCTGATTCAAGTATCTATTAAAATGTGATTTCATGATCTACAA
131 TTTGTTCTATTTGTCCGATTAAGCTGATTCAAGTATCTATTAAAATGTGATTTCATGATCTACAA
* **
33613 CTTTCATGAAAAACTCAGAAGCCAATTTTAATGTTTTGGTTCTAAAAAATGCTTCCGAAATTTTG
196 CTTTCATGAAAAACTCAGAAGCCAATTTTAATGTTTTGATTCTAAAAAATGCTTATGAAATTTTG
* * * * * * * ** * *
33678 TGGTTTCGATTGACGGTCTATTTAATATCGTATAATTTTTGATCCACATGTCAAATTGAAGTTAT
261 TGGTCTCGATTGCCGGTCTATCTAATATTGTATAATTTTCGGTCCACTTGTCCGATTGAGGTTGT
* * * *
33743 ACAAGTGTCGGTTAAAAGTTATTGCATGATCTGCGACTTTCAT
326 TCAAGTGTCGGTAAAAAGTTATTGTATGATCTACGACTTTCAT
33786 GGAGGACTTG
Statistics
Matches: 732, Mismatches: 71, Indels: 15
0.89 0.09 0.02
Matches are distributed among these distances:
437 27 0.04
438 240 0.33
439 59 0.08
440 2 0.00
441 66 0.09
442 338 0.46
ACGTcount: A:0.27, C:0.13, G:0.17, T:0.43
Consensus pattern (437 bp):
TCTCCATAAACAAATATTTTTTTGCTGGATTATTTATCAAATGATCCTCATACTTTTATGCTTTA
TGCTATTTAATCCTTTACAATTATGGGTTGGACGATTTAATGCTTCGGCTTTTATTTTTGTATTT
TTTGTTCTATTTGTCCGATTAAGCTGATTCAAGTATCTATTAAAATGTGATTTCATGATCTACAA
CTTTCATGAAAAACTCAGAAGCCAATTTTAATGTTTTGATTCTAAAAAATGCTTATGAAATTTTG
TGGTCTCGATTGCCGGTCTATCTAATATTGTATAATTTTCGGTCCACTTGTCCGATTGAGGTTGT
TCAAGTGTCGGTAAAAAGTTATTGTATGATCTACGACTTTCATCAAGGGCCTCAAAGCTGAATTT
GATTAATGAGTTTCGTGGAGAGTTCAAGAGAGAATTTTTATGTTTGG
Found at i:34792 original size:27 final size:28
Alignment explanation
Indices: 34736--34809 Score: 123
Period size: 29 Copynumber: 2.6 Consensus size: 28
34726 TTATTCTACT
34736 AAAAACTCTATTTTTATTTGCTGTAAAAA
1 AAAAACTCTATTTTTATTTGCTGT-AAAA
*
34765 AAAAACGCTATTTTTATTTGCTGT-AAA
1 AAAAACTCTATTTTTATTTGCTGTAAAA
34792 AAAAACTCTATTTTTATT
1 AAAAACTCTATTTTTATT
34810 CAATTAATTC
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
27 20 0.47
29 23 0.53
ACGTcount: A:0.39, C:0.11, G:0.07, T:0.43
Consensus pattern (28 bp):
AAAAACTCTATTTTTATTTGCTGTAAAA
Found at i:38238 original size:144 final size:143
Alignment explanation
Indices: 37977--38256 Score: 463
Period size: 144 Copynumber: 2.0 Consensus size: 143
37967 ACTCTACAAA
*
37977 TAGAGGCTCGAATAGTGTCTTAACTTCACTGCAGTCCTTTAGTATTTTAGTAGTTTCTCGTATGC
1 TAGAGGCTCGAATAGTGTCTTAACTTCACTGCACTCCTTTAGTATTTTAGTAGTTTCTCGTATGC
*
38042 CCATGGATGCGGAAACAACAAATAGGCTTTTGGCAATTTCGGCAAAACTTCAGCAACTAGAAGCG
66 CCATGGATGCGGAAACAACAAATAGGCTTTTGGCAATTTCGGCAAAACTTCAGAAACTAGAAGCG
38107 GAACTTCAGCAAC
131 GAACTTCAGCAAC
*
38120 TAGAGGCTCGAATAGTGTCTTTAACTTCATTGCACTCCTTTAGTCA-TTTAGTAGTTTCTCGTAT
1 TAGAGGCTCGAATAGTGTC-TTAACTTCACTGCACTCCTTTAGT-ATTTTAGTAGTTTCTCGTAT
* * * *
38184 GCCCATGGATGTGGAAACAGCAAATAGGCTTTTGGCAATTTCGGCAGAATTTCAGAAACTAGAAG
64 GCCCATGGATGCGGAAACAACAAATAGGCTTTTGGCAATTTCGGCAAAACTTCAGAAACTAGAAG
*
38249 CTGAACTT
129 CGGAACTT
38257 TTTGGGCTTT
Statistics
Matches: 127, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
143 19 0.15
144 107 0.84
145 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.31
Consensus pattern (143 bp):
TAGAGGCTCGAATAGTGTCTTAACTTCACTGCACTCCTTTAGTATTTTAGTAGTTTCTCGTATGC
CCATGGATGCGGAAACAACAAATAGGCTTTTGGCAATTTCGGCAAAACTTCAGAAACTAGAAGCG
GAACTTCAGCAAC
Found at i:41726 original size:16 final size:16
Alignment explanation
Indices: 41705--41809 Score: 126
Period size: 16 Copynumber: 6.6 Consensus size: 16
41695 TGGGCTCGGG
41705 CGGGTTCGGGTATTTT
1 CGGGTTCGGGTATTTT
41721 CGGGTTCGGGTATTTT
1 CGGGTTCGGGTATTTT
**
41737 CGGGCTT-GGGTTAAGTT
1 CGGG-TTCGGG-TATTTT
41754 -GGGTTCGGGTATTTT
1 CGGGTTCGGGTATTTT
* *
41769 CGGGCTCGGGT-TATGT
1 CGGGTTCGGGTAT-TTT
41785 CGGGTTCGGGTATTTT
1 CGGGTTCGGGTATTTT
41801 CGGGTTCGG
1 CGGGTTCGG
41810 ACTCGGGTAG
Statistics
Matches: 75, Mismatches: 8, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
15 7 0.09
16 61 0.81
17 7 0.09
ACGTcount: A:0.07, C:0.13, G:0.41, T:0.39
Consensus pattern (16 bp):
CGGGTTCGGGTATTTT
Found at i:41759 original size:32 final size:32
Alignment explanation
Indices: 41720--41809 Score: 144
Period size: 32 Copynumber: 2.8 Consensus size: 32
41710 TCGGGTATTT
*
41720 TCGGGTTCGGGTATTTTCGGGCTTGGGTTAAG
1 TCGGGTTCGGGTATTTTCGGGCTCGGGTTAAG
* *
41752 TTGGGTTCGGGTATTTTCGGGCTCGGGTTATG
1 TCGGGTTCGGGTATTTTCGGGCTCGGGTTAAG
*
41784 TCGGGTTCGGGTATTTTCGGGTTCGG
1 TCGGGTTCGGGTATTTTCGGGCTCGG
41810 ACTCGGGTAG
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 53 1.00
ACGTcount: A:0.07, C:0.13, G:0.41, T:0.39
Consensus pattern (32 bp):
TCGGGTTCGGGTATTTTCGGGCTCGGGTTAAG
Found at i:41808 original size:6 final size:6
Alignment explanation
Indices: 41799--41857 Score: 52
Period size: 6 Copynumber: 10.3 Consensus size: 6
41789 TTCGGGTATT
* * * *
41799 TTCGGG TTCGGA CTCGGG -TAGGG TTCGGG CTCGGG -TCGGG -TCGGG
1 TTCGGG TTCGGG TTCGGG TTCGGG TTCGGG TTCGGG TTCGGG TTCGGG
*
41844 TTCGGG CTCGGG TT
1 TTCGGG TTCGGG TT
41858 TGATTTTGAT
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
5 14 0.33
6 29 0.67
ACGTcount: A:0.03, C:0.20, G:0.49, T:0.27
Consensus pattern (6 bp):
TTCGGG
Found at i:41837 original size:22 final size:22
Alignment explanation
Indices: 41812--41856 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
41802 GGGTTCGGAC
41812 TCGGGTAGGGTTCGGGCTCGGG
1 TCGGGTAGGGTTCGGGCTCGGG
*
41834 TCGGGTCGGGTTCGGGCTCGGG
1 TCGGGTAGGGTTCGGGCTCGGG
41856 T
1 T
41857 TTGATTTTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.02, C:0.20, G:0.53, T:0.24
Consensus pattern (22 bp):
TCGGGTAGGGTTCGGGCTCGGG
Found at i:41854 original size:17 final size:17
Alignment explanation
Indices: 41800--41857 Score: 73
Period size: 17 Copynumber: 3.4 Consensus size: 17
41790 TCGGGTATTT
*
41800 TCGGGTTCGGACTCGGG
1 TCGGGTTCGGGCTCGGG
*
41817 TAGGGTTCGGGCTCGGG
1 TCGGGTTCGGGCTCGGG
*
41834 TCGGG-TCGGGTTCGGG
1 TCGGGTTCGGGCTCGGG
41850 CTCGGGTT
1 -TCGGGTT
41858 TGATTTTGAT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
16 10 0.29
17 24 0.69
18 1 0.03
ACGTcount: A:0.03, C:0.21, G:0.50, T:0.26
Consensus pattern (17 bp):
TCGGGTTCGGGCTCGGG
Found at i:42177 original size:31 final size:31
Alignment explanation
Indices: 42142--42213 Score: 78
Period size: 31 Copynumber: 2.3 Consensus size: 31
42132 TAAATTATTG
*
42142 CAAATTAAAACAAAT-TAAG-CATTAAATTAAA
1 CAAATTAAAA-AAATGAAAGTC-TTAAATTAAA
*
42173 CAAA-TAATTAAAATGAAAGTCTTAAATTAAA
1 CAAATTAA-AAAAATGAAAGTCTTAAATTAAA
42204 CAAATTAAAA
1 CAAATTAAAA
42214 GCTGATAGAC
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
30 7 0.21
31 23 0.68
32 4 0.12
ACGTcount: A:0.61, C:0.08, G:0.04, T:0.26
Consensus pattern (31 bp):
CAAATTAAAAAAATGAAAGTCTTAAATTAAA
Found at i:42694 original size:22 final size:22
Alignment explanation
Indices: 42621--42696 Score: 57
Period size: 22 Copynumber: 3.5 Consensus size: 22
42611 CAAATTATTT
*
42621 CGGGTTCGGGCCCGGG-TCGGG
1 CGGGTTCGGGCTCGGGTTCGGG
* *
42642 CTCGGTCTCAGG-TCGGGTTCGGG
1 C-GGGT-TCGGGCTCGGGTTCGGG
****
42665 TATTTTCGGGCTCGGGTTCGGG
1 CGGGTTCGGGCTCGGGTTCGGG
42687 CGGGTTCGGG
1 CGGGTTCGGG
42697 ACGTTGACTT
Statistics
Matches: 39, Mismatches: 12, Indels: 7
0.67 0.21 0.12
Matches are distributed among these distances:
21 5 0.13
22 25 0.64
23 9 0.23
ACGTcount: A:0.03, C:0.24, G:0.49, T:0.25
Consensus pattern (22 bp):
CGGGTTCGGGCTCGGGTTCGGG
Found at i:49545 original size:30 final size:29
Alignment explanation
Indices: 49502--49562 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
49492 GTTCTAATTA
*
49502 ATGTATACATATAAAGTATTCAATTTTATT
1 ATGTATACATAT-AAGTATTCAATTATATT
* *
49532 ATGTATA-AGTATAATTATTTAATTATATT
1 ATGTATACA-TATAAGTATTCAATTATATT
49561 AT
1 AT
49563 ATTATTAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 17 0.63
30 10 0.37
ACGTcount: A:0.41, C:0.03, G:0.07, T:0.49
Consensus pattern (29 bp):
ATGTATACATATAAGTATTCAATTATATT
Found at i:50581 original size:99 final size:100
Alignment explanation
Indices: 50410--50730 Score: 412
Period size: 99 Copynumber: 3.1 Consensus size: 100
50400 AGAACAAAGA
* *
50410 AAATAA-AACAAATGAAGTGTTAAATCGAGTAAAATAGAATTTGGAAAGGACTAAGTAGCATAAA
1 AAATAAGAACAAATGAAGTGTTAAATCAAGTAAAATAGAATTTGAAAAGGACTAAGTAGCATAAA
* *
50474 ATAGAAAAGTATGAGGTTGATTTGACAACTAATTT
66 ATAGAAAAGTATGAGATTGATTTGACAACTAATTC
* *
50509 AAATAAGAA-AAATGAAGTGTTAAATCAAGTAAGATAGAATTTGAAAAGGACTAAGTAGTATAAA
1 AAATAAGAACAAATGAAGTGTTAAATCAAGTAAAATAGAATTTGAAAAGGACTAAGTAGCATAAA
50573 ATAGAAAAGTATGAGATTGATTTGACAACTAATTC
66 ATAGAAAAGTATGAGATTGATTTGACAACTAATTC
* * *
50608 AAATAAGAACAAAGAAAATAAAACAAATGAAGTGTTAAATCGAGTAAGATAGAATTTGGAAAGGA
1 AAAT-------AAG-------AACAAATGAAGTGTTAAATCAAGTAAAATAGAATTTGAAAAGGA
*
50673 CTAAGTAGCATAAAATAGAAAAGTATGAGGTTGATTTGACAACTAATTC
52 CTAAGTAGCATAAAATAGAAAAGTATGAGATTGATTTGACAACTAATTC
50722 AAATAAGAA
1 AAATAAGAA
50731 AATATTTGTT
Statistics
Matches: 196, Mismatches: 10, Indels: 31
0.83 0.04 0.13
Matches are distributed among these distances:
99 94 0.48
100 4 0.02
106 3 0.02
107 3 0.02
113 2 0.01
114 90 0.46
ACGTcount: A:0.51, C:0.06, G:0.19, T:0.25
Consensus pattern (100 bp):
AAATAAGAACAAATGAAGTGTTAAATCAAGTAAAATAGAATTTGAAAAGGACTAAGTAGCATAAA
ATAGAAAAGTATGAGATTGATTTGACAACTAATTC
Found at i:50709 original size:114 final size:114
Alignment explanation
Indices: 50509--50730 Score: 392
Period size: 114 Copynumber: 1.9 Consensus size: 114
50499 CAACTAATTT
*
50509 AAATAAGAAAAATGAAGTGTTAAATCAAGTAAGATAGAATTTGAAAAGGACTAAGTAGTATAAAA
1 AAATAAGAAAAATGAAGTGTTAAATCAAGTAAGATAGAATTTGAAAAGGACTAAGTAGCATAAAA
50574 TAGAAAAGTATGAGATTGATTTGACAACTAATTCAAATAAGAACAAAGA
66 TAGAAAAGTATGAGATTGATTTGACAACTAATTCAAATAAGAACAAAGA
* *
50623 AAATAA-AACAAATGAAGTGTTAAATCGAGTAAGATAGAATTTGGAAAGGACTAAGTAGCATAAA
1 AAATAAGAA-AAATGAAGTGTTAAATCAAGTAAGATAGAATTTGAAAAGGACTAAGTAGCATAAA
*
50687 ATAGAAAAGTATGAGGTTGATTTGACAACTAATTCAAATAAGAA
65 ATAGAAAAGTATGAGATTGATTTGACAACTAATTCAAATAAGAA
50731 AATATTTGTT
Statistics
Matches: 103, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
113 2 0.02
114 101 0.98
ACGTcount: A:0.52, C:0.06, G:0.18, T:0.24
Consensus pattern (114 bp):
AAATAAGAAAAATGAAGTGTTAAATCAAGTAAGATAGAATTTGAAAAGGACTAAGTAGCATAAAA
TAGAAAAGTATGAGATTGATTTGACAACTAATTCAAATAAGAACAAAGA
Found at i:51591 original size:441 final size:439
Alignment explanation
Indices: 50652--51604 Score: 1099
Period size: 441 Copynumber: 2.2 Consensus size: 439
50642 TTAAATCGAG
* * * * * * *
50652 TAAGATAGAATTTGGAAAGGACTAAGTAGCATAAAATAGAAAAGTATGAGGTTGATTTGACAACT
1 TAAGACAGAATTTGTAAAGGACTAAGTAGCATAAAGTAGAAAAGTATGAGGATCATTTGATAAAT
*
50717 AATTCAAATAAGAAAATATTTGTTAACGGAGATCTTGAAACATAAAAATTCCCTTTTGAACCCTT
66 AATCCAAATAAGAAAATATTTGTTAACGGAGATCTTGAAACATAAAAATTCCCTTTTGAACCCTT
* * * * * *
50782 CATGAAACTCGTAGATCAAATTAACTTTCGAGTTCTTCATGAAAGTCGTAGATTATATAGTAACC
131 CACGAAACTCGTAGATCAAATTAACTTTCGAGTCCTTCATGAAAGTCGTAAATCATACAATAACC
* * * * * * *
50847 TTTTAACTGACACTAGAATAACTTTAATTGGACATGTGGATCGAAAATTATATGGTATTAAATAG
196 TTTTAACCGACACTACAATAACTTCAATCGGACATGTGGATCAAAAATTATAAGATATTAAATAG
* ** * ***
50912 ACCAACAATCAAAACGAACAATTTAGGAATATTTATTTTTTTTGAATTGGAACAGAAAAATTTGC
261 ACCAACAATCAAAACGAAAAATTTAGGAATATGCATTTTTTTAGAATCCAAACAGAAAAATTTGC
* *
50977 TTTTGAGTCCTTCATGAAAGTTGTAGATCATGAATTACCTTTTAATAGACATATGAATCAACTTA
326 TTTTGAGTCCTTAATGAAAATTGTAGATCATGAATTACCTTTTAATAGACATATGAATCAACTTA
* * *
51042 ATCGGACAAATAGAACAAAGAATAAAAAAAATAAAGCTTAAATGTTAGAT
391 ATCGGACAAATAGAACAAAAAATAAAAAAAATAAAGC-TAAACGTTAAAT
* * * *
51092 TAAGACAGAATTTTTAAAGCACTAAGTAGTATAAAGTAGAAAAGTATGAGGGTCATTTGATAAAT
1 TAAGACAGAATTTGTAAAGGACTAAGTAGCATAAAGTAGAAAAGTATGAGGATCATTTGATAAAT
*
51157 AATCCAAATAAGAAAATATTTGTTAATGGAGATCTTGAAACATAAAAATTCCCTTTTGAACCCTT
66 AATCCAAATAAGAAAATATTTGTTAACGGAGATCTTGAAACATAAAAATTCCCTTTTGAACCCTT
* * *
51222 CACGAAACTCGTAGATCAAATTTAGCTTTCGGGTCCTTCATGAAAGTCGTAAATCATGCAATAAC
131 CACGAAACTCGTAGATCAAA-TTAACTTTCGAGTCCTTCATGAAAGTCGTAAATCATACAATAAC
* * *
51287 CTTTTAACCGACACTTCAATAACTTCGATCGGACATGTGGA-CAAAAAATTATAAGATGTTAAAT
195 CTTTTAACCGACACTACAATAACTTCAATCGGACATGTGGATC-AAAAATTATAAGATATTAAA-
** * **
51351 TAG-CCGGCAATCAAAAAC-ACAAAATTTCGG-A-A-GCA-TTTTTTAGAA-CCAAACCATTAAA
258 TAGACCAACAATC-AAAACGA-AAAATTTAGGAATATGCATTTTTTTAGAATCCAAA-CAGAAAA
* *
51409 A-TTGACTTTTGAGTTCTTAATGAAAATTGTAGATCGTGAAATTACCTTTTAATAGACACT-TGA
320 ATTTG-CTTTTGAGTCCTTAATGAAAATTGTAGATCATG-AATTACCTTTTAATAGACA-TATGA
* * *
51472 ATCACCTTAATCGGACAAATAGAA-AAATAAATACAAAAATAA-AAGGC-AACGCGTTAAAT
382 ATCAACTTAATCGGACAAATAGAACAAA-AAATA-AAAAA-AATAAAGCTAA-ACGTTAAAT
* ** * * *
51531 CGTCCA-AC-CTATATTGTAAAGGACTAAATAGCATAAAGCATAAAAGTATGAGGATCATTTGAT
1 --T-AAGACAGAAT-TTGTAAAGGACTAAGTAGCATAAAGTAGAAAAGTATGAGGATCATTTGAT
51594 AAATAATCCAA
62 AAATAATCCAA
51605 CAGAATAATA
Statistics
Matches: 433, Mismatches: 63, Indels: 33
0.82 0.12 0.06
Matches are distributed among these distances:
437 5 0.01
438 49 0.11
439 56 0.13
440 151 0.35
441 155 0.36
442 17 0.04
ACGTcount: A:0.42, C:0.14, G:0.15, T:0.30
Consensus pattern (439 bp):
TAAGACAGAATTTGTAAAGGACTAAGTAGCATAAAGTAGAAAAGTATGAGGATCATTTGATAAAT
AATCCAAATAAGAAAATATTTGTTAACGGAGATCTTGAAACATAAAAATTCCCTTTTGAACCCTT
CACGAAACTCGTAGATCAAATTAACTTTCGAGTCCTTCATGAAAGTCGTAAATCATACAATAACC
TTTTAACCGACACTACAATAACTTCAATCGGACATGTGGATCAAAAATTATAAGATATTAAATAG
ACCAACAATCAAAACGAAAAATTTAGGAATATGCATTTTTTTAGAATCCAAACAGAAAAATTTGC
TTTTGAGTCCTTAATGAAAATTGTAGATCATGAATTACCTTTTAATAGACATATGAATCAACTTA
ATCGGACAAATAGAACAAAAAATAAAAAAAATAAAGCTAAACGTTAAAT
Found at i:51775 original size:168 final size:167
Alignment explanation
Indices: 51498--51832 Score: 661
Period size: 168 Copynumber: 2.0 Consensus size: 167
51488 AAATAGAAAA
51498 ATAAATACAAAAATAAAAGGCAACGCGTTAAATCGTCCAACCTATATTGTAAAGGACTAAATAGC
1 ATAAATACAAAAATAAAAGGCAACGCGTTAAATCGTCCAACCTATATTGTAAAGGACTAAATAGC
51563 ATAAAGCATAAAAGTATGAGGATCATTTGATAAATAATCCAACAGAATAATATTAGTTTATGGAG
66 ATAAAGCATAAAAGTATGAGGATCATTTGATAAATAATCCAACAGAATAATATTAGTTTATGGAG
51628 AATGGGACCTACAAATAGTAACTTTCTCACAAAGTTC
131 AATGGGACCTACAAATAGTAACTTTCTCACAAAGTTC
51665 ATAAATACAAAAATAAAAGGCAACGCGTTAAATCGTCCAACCTATAATTGTAAAGGACTAAATAG
1 ATAAATACAAAAATAAAAGGCAACGCGTTAAATCGTCCAACCTAT-ATTGTAAAGGACTAAATAG
51730 CATAAAGCATAAAAGTATGAGGATCATTTGATAAATAATCCAACAGAATAATATTAGTTTATGGA
65 CATAAAGCATAAAAGTATGAGGATCATTTGATAAATAATCCAACAGAATAATATTAGTTTATGGA
51795 GAATGGGACCTACAAATAGTAACTTTCTCACAAAGTTC
130 GAATGGGACCTACAAATAGTAACTTTCTCACAAAGTTC
51833 CCAAAATAAC
Statistics
Matches: 167, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
167 45 0.27
168 122 0.73
ACGTcount: A:0.45, C:0.14, G:0.15, T:0.26
Consensus pattern (167 bp):
ATAAATACAAAAATAAAAGGCAACGCGTTAAATCGTCCAACCTATATTGTAAAGGACTAAATAGC
ATAAAGCATAAAAGTATGAGGATCATTTGATAAATAATCCAACAGAATAATATTAGTTTATGGAG
AATGGGACCTACAAATAGTAACTTTCTCACAAAGTTC
Found at i:56727 original size:42 final size:42
Alignment explanation
Indices: 56680--56763 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
56670 CTAAGCTTTC
56680 TGAGCTAATTCTAATCGATTGAAATGAACCACTGAAATTCCT
1 TGAGCTAATTCTAATCGATTGAAATGAACCACTGAAATTCCT
56722 TGAGCTAATTCTAATCGATTGAAATGAACCACTGAAATTCCT
1 TGAGCTAATTCTAATCGATTGAAATGAACCACTGAAATTCCT
56764 CGAATCCAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.31
Consensus pattern (42 bp):
TGAGCTAATTCTAATCGATTGAAATGAACCACTGAAATTCCT
Found at i:60742 original size:26 final size:26
Alignment explanation
Indices: 60706--60757 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
60696 AGGGAGATGA
60706 TCCTTCCCATTATTACCTGGATTGGG
1 TCCTTCCCATTATTACCTGGATTGGG
* *
60732 TCCTTCCCATTGTTACTTGGATTGGG
1 TCCTTCCCATTATTACCTGGATTGGG
60758 GTCCAGCTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.13, C:0.25, G:0.21, T:0.40
Consensus pattern (26 bp):
TCCTTCCCATTATTACCTGGATTGGG
Found at i:61137 original size:32 final size:32
Alignment explanation
Indices: 61101--61161 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
61091 AACCTTAATT
61101 TATTCAATTTCTTCAATATATATATATATATA
1 TATTCAATTTCTTCAATATATATATATATATA
*
61133 TATTCAATTTCTTCAATCTATATATATAT
1 TATTCAATTTCTTCAATATATATATATAT
61162 TTGGTACGTC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.38, C:0.11, G:0.00, T:0.51
Consensus pattern (32 bp):
TATTCAATTTCTTCAATATATATATATATATA
Found at i:63791 original size:27 final size:27
Alignment explanation
Indices: 63735--63793 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
63725 ATGCTGTGCC
* *
63735 TGATATTGTTTCTGATGGCCATGCTGT
1 TGATATTGTTTCTGATGACCATGCTAT
*
63762 TGATATTGTTTCTGATGAACC-TGTTAT
1 TGATATTGTTTCTGATG-ACCATGCTAT
63789 TGATA
1 TGATA
63794 CTCTAAAGCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 26 0.93
28 2 0.07
ACGTcount: A:0.20, C:0.12, G:0.22, T:0.46
Consensus pattern (27 bp):
TGATATTGTTTCTGATGACCATGCTAT
Found at i:67270 original size:21 final size:22
Alignment explanation
Indices: 67246--67302 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
67236 GGCACCAACA
*
67246 ATGATGACGA-TTTTAGGACTT
1 ATGATGACAACTTTTAGGACTT
**
67267 ATGATTCCAACTTTTAGGACTT
1 ATGATGACAACTTTTAGGACTT
**
67289 ATGATTCCAACTTT
1 ATGATGACAACTTT
67303 AAATATGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
21 7 0.22
22 25 0.78
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.40
Consensus pattern (22 bp):
ATGATGACAACTTTTAGGACTT
Found at i:67282 original size:22 final size:22
Alignment explanation
Indices: 67256--67302 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
67246 ATGATGACGA
67256 TTTTAGGACTTATGATTCCAAC
1 TTTTAGGACTTATGATTCCAAC
67278 TTTTAGGACTTATGATTCCAAC
1 TTTTAGGACTTATGATTCCAAC
67300 TTT
1 TTT
67303 AAATATGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.26, C:0.17, G:0.13, T:0.45
Consensus pattern (22 bp):
TTTTAGGACTTATGATTCCAAC
Found at i:70076 original size:163 final size:164
Alignment explanation
Indices: 69811--70151 Score: 553
Period size: 162 Copynumber: 2.1 Consensus size: 164
69801 TGATAGAAAG
* *
69811 ACGCCGCCATATTAATATATAGAGGGAGAGATTTTTTTTTCTCCTTTTTTGGAGGGAAAAATTCC
1 ACGCCGCTATTTTAATATATAGAGGGAGAGATTTTTTTTTCTCCTTTTTTGGAGGGAAAAATTCC
*
69876 CTCCCCACTAAAACAAAGAAATTTTACAACCCTACACCTATAAATATATAGCGGCGTTTGGACAT
66 CTCCCCACTAAAACAAAGAAATTTTAAAACCCTACACCTAT-AATATATAGCGGCGTTTGGACAT
* * *
69941 CAGACGCCGCTAATTAGTGGCGTC-AAGAAAAGGAA
130 CAGAAGCCGCTAATTAGTGGCATCTAA-AAAAGCAA
* *
69976 ACGCCGCTATTTTAATATATGGAGGGATAGA-TTTTTTTTC-CCTTTTTTGGAGGGAAAAATTCC
1 ACGCCGCTATTTTAATATATAGAGGGAGAGATTTTTTTTTCTCCTTTTTTGGAGGGAAAAATTCC
*
70039 CTCCCCACTAAAACAAAGAAATTTTAAAACTCTACACCTATAATATATAGCGGCGTTTGGACATC
66 CTCCCCACTAAAACAAAGAAATTTTAAAACCCTACACCTATAATATATAGCGGCGTTTGGACATC
70104 AGAAGCCGCTAATTAGTGGCATCTAAAAAAGCAA
131 AGAAGCCGCTAATTAGTGGCATCTAAAAAAGCAA
*
70138 ACGCCGCTAATTTA
1 ACGCCGCTATTTTA
70152 GTGGCGTTTA
Statistics
Matches: 165, Mismatches: 10, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
162 65 0.39
163 64 0.39
164 9 0.05
165 27 0.16
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.28
Consensus pattern (164 bp):
ACGCCGCTATTTTAATATATAGAGGGAGAGATTTTTTTTTCTCCTTTTTTGGAGGGAAAAATTCC
CTCCCCACTAAAACAAAGAAATTTTAAAACCCTACACCTATAATATATAGCGGCGTTTGGACATC
AGAAGCCGCTAATTAGTGGCATCTAAAAAAGCAA
Found at i:73242 original size:32 final size:32
Alignment explanation
Indices: 73206--73319 Score: 174
Period size: 32 Copynumber: 3.5 Consensus size: 32
73196 GTGTGAAAAG
* *
73206 AAAACGCCCTTACTTAGCGGCGTCTATAGAAC
1 AAAACGCCCTTATTTAGCGGCGTCTACAGAAC
73238 AAAACGCCCTTATTTAGCGGCGTCTACAGAAC
1 AAAACGCCCTTATTTAGCGGCGTCTACAGAAC
**
73270 AAAACGCCCTTATTTAGCGGCGTCTACATTAC
1 AAAACGCCCTTATTTAGCGGCGTCTACAGAAC
73302 AAAACGCCGCTATATTTA
1 AAAACGCC-CT-TATTTA
73320 ATTGCTTTTA
Statistics
Matches: 76, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
32 68 0.89
33 2 0.03
34 6 0.08
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.25
Consensus pattern (32 bp):
AAAACGCCCTTATTTAGCGGCGTCTACAGAAC
Found at i:73564 original size:24 final size:24
Alignment explanation
Indices: 73532--73578 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
73522 AAAAATTGTA
*
73532 TGACGGCGTCTAAACGCCTTTATC
1 TGACGGCGTCTAAACGCCGTTATC
*
73556 TGACGGCGTTTAAACGCCGTTAT
1 TGACGGCGTCTAAACGCCGTTAT
73579 TCAGTTAGCG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.21, C:0.26, G:0.23, T:0.30
Consensus pattern (24 bp):
TGACGGCGTCTAAACGCCGTTATC
Found at i:75237 original size:2 final size:2
Alignment explanation
Indices: 75230--75266 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
75220 ATTCGAGAAC
75230 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
75267 CTAACTAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:76970 original size:335 final size:333
Alignment explanation
Indices: 75607--77595 Score: 1850
Period size: 335 Copynumber: 6.1 Consensus size: 333
75597 TCGTGTCAGT
* * * * * **
75607 TTTTAGCTGAAATCGTGTATTAACCATCACTGTTTTTGGCTAAAAACGCG-TTCTGAGGCCTCCA
1 TTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTTCGGAGTCC-CGG
* * * * * *
75671 CTCAGTTTTACATGGTTTTTGGCATACAA-AATCCTTGAAATATCTAGACTCATGTAACCAAATC
65 CTCAGTTTTACATGATTTTTGGCAGA-AAGACTCCTTGAAATATCTATATTCATCTAACCAAATC
* * * *
75735 TCAGCTACATTAGATTTAA-AGATTTGTTTTTACGAGCATCTGAATCTTGTTTTGATTTTATTAG
129 TCAGCCACATTGGATTTAAGA-ATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAG
* * * *
75799 AAATAAATTCAGG------AAA--AAAAACGATATTAAAAGTGTG-AAAATCCTTCAATTTTTTC
193 AAATAAATTC-GGAAAAAAAAAGGAAAAACGATATTAGAAGCGTGAAAAACCCTTCAATTTTTTT
* * * *
75855 GGCCTTGAATTATAAATTTTTTCTGAGTACTGTGGCAAAAAATTGAGGAAAAAATTTTCGGGTCA
257 GGCATTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGAAAAAAATTTTCGGGTCA
*
75920 ATTCTTTTACAAAA
322 A-T-TTTTGCAAAA
* * * * *
75934 TTTTAGCCGAAATCGTGTAATAACTATCACGGTTTTTGGCTAAAAACGTGTTCCGGAGTCACGGC
1 TTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTTCGGAGTCCCGGC
* * * * *
75999 TCAATTTTATATGATTTTTGGC-GCAAAGTCTCCTTGAAATATCTATATTAATCAAACCAAATCT
66 TCAGTTTTACATGATTTTTGGCAG-AAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCT
* * * * * * *
76063 CAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCTTCTGAATTTTGTGTCGACTTAAGTAAAA
130 CAGCCACATTGGATTTAAGAATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAA
* * * * * ** * * *
76128 ATTAATTTGGAAAAAAAATGGAGAACCGATATTAGAAGCCCGAAAAGCCCATCAATCTTTTTGGC
195 ATAAATTCGGAAAAAAAAAGGAAAAACGATATTAGAAGCGTGAAAAACCCTTCAATTTTTTTGGC
* * *
76193 ATTGAATTATATAATTTTTATGAGTATTGTGGCAAAAAATTGAGAAAAAATTTTTCGGG------
260 ATTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGAAAAAAATTTTCGGGTCAATT
*
76252 -TT---AGA
325 TTTGCAAAA
* * * * *
76257 TTTTAGCCTAAATCGTGTAC--A-CATTACGGTTTTTGGCTAAAAACGCGTTTCGCAGCCCCGGT
1 TTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTTCGGAGTCCCGGC
* * * *
76319 TCAGTTTTGCATAATTTTTGACAGAAAGAATCCTTGAAATATCTATATTCATCTAACCAAATCTC
66 TCAGTTTTACATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTC
* * * * * * * *
76384 AGCTACATTAGATTCACGAATTTGTTTTTACGAGCGTCTAAATCTTGTTTAGATTTAATTAAAAA
131 AGCCACATTGGATTTAAGAATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAA
* * * * **
76449 TAAATTGTGGAAAAAAAATGGAAAAATGATATTAGAAGCGTGAAAAATCCTTCAATTTTTTTTTC
196 TAAATT-CGGAAAAAAAAAGGAAAAACGATATTAGAAGCGTGAAAAACCCTTCAATTTTTTTGGC
* * * * * * *
76514 GTTGAGTTATATATTTTTTC--AGTATCT-TGGCAAAAAATTGAGGAAAAATTTTTTGTGTCAGT
260 ATTGAATTATATATTTTTTCTGAGTAT-TGTGGCAAAAAATTGAGAAAAAAATTTTCGGGTCAAT
*
76576 TTTT-CGAAA
324 TTTTGCAAAA
* * * * * ** * * *
76585 TTTTAACTGAAATTGTGCAGTATTCATCACAGTTTTTTTTTGACTAAAAACGCGTTTCGGGGTCC
1 TTTTAGCCGAAATCGTGTACTAACCATCAC-G---GTTTTTGGCTAAAAACGCGTTTCGGAGTCC
* * ** * * **
76650 CAGCTCAGTTTTGCATGATTTTAAGCAGAAAGACTCCATGAAATATCTATATTCATTTAATTAAA
62 CGGCTCAGTTTTACATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAACCAAA
* * *
76715 TTTCAGCCACATTGGATCTAAGAATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTCAATTA
127 TCTCAGCCACATTGGATTTAAGAATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTA
*
76780 GAAATAAATTCGGGAAAAAAAAAAAGAAAAACGATATTAGAAGCGTGAAAAACCCTTCAATTTTT
192 GAAATAAATTC-GG-AAAAAAAAAGGAAAAACGATATTAGAAGCGTGAAAAACCCTTCAATTTTT
** * * * * *
76845 TTGGTGTTGAATTATATATTTTTTCTGAATATTCTGGCATAAAATTGAGGAAAAACTTTTCGGGT
255 TTGGCATTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGAAAAAAATTTTCGGGT
76910 CAATTTTTGCAAAA
320 CAATTTTTGCAAAA
** * * *
76924 TTTTAGCCGAAATCGTGTACTAACCATCACAATTTTTGGTTAAAAACGCGTTCCGGAGTGCCGGC
1 TTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTTCGGAGTCCCGGC
* * * * *
76989 TCAATTTTGCAGGATTTTTGGCACAAAGACTCCTTGAAATATCTATATTCAT-TGAACCAAATGT
66 TCAGTTTTACATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCT-AACCAAATCT
* * * * ** ** *
77053 CAACCACATTGGATATAAGGATTTGTTATTATTAGCATCTCG-ATCGTACTTT-GATTTAATTGG
130 CAGCCACATTGGATTTAAGAATTTGTTTTTACGAGCATCT-GAATC-TTGTTTCGATTTAATTAG
* * * * * * * *
77116 AAATTAATTC-GAGAACAAATGGAAAAACGATATTAGATGGGTGAAAAACCCGTCAATCTTTTTG
193 AAATAAATTCGGAAAAAAAAAGGAAAAACGATATTAGAAGCGTGAAAAACCCTTCAATTTTTTTG
** * * * *** *
77180 TTATTGAATTATATTTTTTTTCTAAATATT-TCATAAAAAAATTGAGAAAAAAATCTTT-GTGTC
258 GCATTGAATTATATATTTTTTCTGAGTATTGT-GGCAAAAAATTGAGAAAAAAAT-TTTCGGGTC
*
77243 -A-----G----T
321 AATTTTTGCAAAA
* * * *
77246 TTTTAGCCAAAATCGTGTACGT---TATCACGATTTTTGACTAAAAACGCGTTTCGGA-TCCCGG
1 TTTTAGCCGAAATCGTGTAC-TAACCATCACGGTTTTTGGCTAAAAACGCGTTTCGGAGTCCCGG
* * * *
77307 CTCAGTTTTAAATGATTCTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAACAAAATTT
65 CTCAGTTTTACATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCT
* * **
77372 TAGCCACAATGGATTTAAGAATTTGTTTTTACGAGCATCCCAATCTTTGTTTCGATTTAATTAGA
130 CAGCCACATTGGATTTAAGAATTTGTTTTTACGAGCATCTGAATC-TTGTTTCGATTTAATTAGA
* *
77437 AATAAATTC--AGAAAAAAAGGAAAAACGATATTAGAAACGTGAAAAACCCTTCAATTTTTTTGG
194 AATAAATTCGGAAAAAAAAAGGAAAAACGATATTAGAAGCGTGAAAAACCCTTCAATTTTTTTGG
* * * * *
77500 CATTAAATTATATATTTTTTCTGAGTATTGTGACAAAAAATTGAGAAAAAACTTTTCGTGTCAGT
259 CATTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGAAAAAAATTTTCGGGTCAAT
*
77565 TTTTGTAAAA
324 TTTTGCAAAA
77575 TTTTAGCCGAAATCGTGTACT
1 TTTTAGCCGAAATCGTGTACT
77596 TCTTTTTTGC
Statistics
Matches: 1341, Mismatches: 262, Indels: 117
0.78 0.15 0.07
Matches are distributed among these distances:
318 3 0.00
319 223 0.17
320 195 0.15
321 65 0.05
322 19 0.01
323 21 0.02
325 1 0.00
326 9 0.01
327 155 0.12
328 23 0.02
329 19 0.01
331 7 0.01
332 94 0.07
333 4 0.00
334 16 0.01
335 349 0.26
336 72 0.05
337 1 0.00
338 38 0.03
339 27 0.02
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (333 bp):
TTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTTCGGAGTCCCGGC
TCAGTTTTACATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTC
AGCCACATTGGATTTAAGAATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAA
TAAATTCGGAAAAAAAAAGGAAAAACGATATTAGAAGCGTGAAAAACCCTTCAATTTTTTTGGCA
TTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGAAAAAAATTTTCGGGTCAATTT
TTGCAAAA
Found at i:77579 original size:990 final size:982
Alignment explanation
Indices: 75706--77568 Score: 2341
Period size: 989 Copynumber: 1.9 Consensus size: 982
75696 ACAAAATCCT
* *
75706 TGAAATATCTAGACTCATGTAACCAAATCTCAGCTACATTAGATTTAAAGATTTGTTTTTACGAG
1 TGAAATATCTAGACTCATGTAACCAAATCTCAGCCACATTAGATCTAAAGATTTGTTTTTACGAG
* ** *
75771 CATCTGAATCTTGTTTTGATTTTATTAGAAATAAATTCAGGAAAAAAAACGATATTAAAAGTGTG
66 CATCTGAATCTTGTTTCGATTCAATTAGAAATAAATTCAGGAAAAAAAACGATATTAAAAGCGTG
* * *
75836 AAAATCCTTCAATTTTTTCGGCCTTGAATTATAAATTTTTTCTGAGTACTGTGGCAAAAAATTGA
131 AAAACCCTTCAATTTTTTCGGCCTTGAATTATAAATTTTTTCTGAATACTCTGGCAAAAAATTGA
* **
75901 GGAAAAAATTTTCGGGTCAATTCTTTTACAAAATTTTAGCCGAAATCGTGTAATAACTATCACGG
196 GGAAAAAATTTTCGGGTCAATTCTTTTACAAAATTTTAGCCGAAATCGTGTAATAACCATCACAA
* * * * *
75966 TTTTTGGCTAAAAACGTGTTCCGGAGTCACGGCTCAATTTTATATGATTTTTGGCGCAAAGTCTC
261 TTTTTGGCTAAAAACGCGTTCCGGAGTCACGGCTCAATTTTACAGGATTTTTGGCACAAAGACTC
* * *
76031 CTTGAAATATCTATATTAATCAAACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACG
326 CTTGAAATATCTATATTAATCAAACCAAATCTCAACCACATTGGATATAAGGATTTGTTATTACG
* * ** * * *
76096 AGCTTCTGAATTTTGTGTCGACTTAAGTAAAAATTAATTTGGAAAAAAAATGGAGAACCGATATT
391 AGCATCTGAATGTACTGTCGACTTAAGTAAAAATTAATTTCGAAAAAAAATGGAAAAACGATATT
* * * * *
76161 AGAAGCCCGAAAAGCCCATCAATCTTTTTGGCATTGAATTATATAATTTTTATGAGTATTGTGGC
456 AGAAGCCCGAAAAACCCATCAATCTTTTTGGCATTGAATTATATAATTTTTATAAATATTGTAGA
* * * * *
76226 AAAAAATTGAGAAAAAATTTTTCGGGTTAGATTTTAGCCTAAATCGTGTACACATTACGGTTTTT
521 AAAAAATTGAGAAAAAATCTTTCGGGTCAGATTTTAGCCAAAATCGTGTACACATCACGATTTTT
* * ** *
76291 GGCTAAAAACGCGTTTCGCAGCCCCGGTTCAGTTTTGCATAATTTTTGACAGAAAGAATCCTTGA
586 GACTAAAAACGCGTTTCGCAGCCCCGGCTCAGTTTTAAATAATTCTTGACAGAAAGAATCCTTGA
* * * * *
76356 AATATCTATATTCATCTAACCAAATCTCAGCTACATTAGATTCACGAATTTGTTTTTACGAGCGT
651 AATATCTATATTCATCTAACAAAATCTCAGCCACAATAGATTCAAGAATTTGTTTTTACGAGCAT
* ** *
76421 CTAAATCTTGTTTAGATTTAATTAAAAATAAATTGTGGAAAAAAAATGGAAAAATGATATTAGAA
716 CCAAATCTTGTTTAGATTTAATTAAAAATAAATTGCAGAAAAAAAATGGAAAAACGATATTAGAA
* * ** * * * *
76486 GCGTGAAAAATCCTTCAATTTTTTTTTCGTTGAGTTATATATTTTTTCAGTATCTTGGCAAAAAA
781 ACGTGAAAAACCCTTCAATTTTTTTGGCATTAAATTATATATTTTTTCAGTATCTTGACAAAAAA
* * *
76551 TTGAGGAAAAATTTTTTGTGTCAGTTTTTCGAAATTTTAACTGAAATTGTGCAGTATTCATCACA
846 TTGAGAAAAAACTTTTCGTGTCAGTTTTTCGAAATTTTAACTGAAATTGTGCAGTATTCATCACA
76616 GTTTTTTTTTGACTAAAAACGCGTTTCGGGGTCCCAGCTCAGTTTTGCATGATTTTAAGCAGAAA
911 GTTTTTTTTTGACTAAAAACGCGTTTCGGGGTCCCAGCTCAGTTTTGCATGATTTTAAGCAGAAA
76681 GACTCCA
976 GACTCCA
* * * ** * *
76688 TGAAATATCTATATTCATTTAATTAAATTTCAGCCACATTGGATCT-AAGAATTTGTTTTTACGA
1 TGAAATATCTAGACTCATGTAACCAAATCTCAGCCACATTAGATCTAAAG-ATTTGTTTTTACGA
*
76752 GCATCTGAATCTTGTTTCGATTCAATTAGAAATAAATTCGGGAAAAAAAAAAAGAAAAACGATAT
65 GCATCTGAATCTTGTTTCGATTCAATTAGAAATAAATTCAGG--------AAA-AAAAACGATAT
* * ** * *
76817 TAGAAGCGTGAAAAACCCTTCAATTTTTTTGGTGTTGAATTATATATTTTTTCTGAATATTCTGG
121 TAAAAGCGTG-AAAACCCTTCAATTTTTTCGGCCTTGAATTATAAATTTTTTCTGAATACTCTGG
* * * *
76882 CATAAAATTGAGGAAAAACTTTTCGGGTCAA-T-TTTTGCAAAATTTTAGCCGAAATCGTGTACT
185 CAAAAAATTGAGGAAAAAATTTTCGGGTCAATTCTTTTACAAAATTTTAGCCGAAATCGTGTAAT
* *
76945 AACCATCACAATTTTTGGTTAAAAACGCGTTCCGGAGTGC-CGGCTCAATTTTGCAGGATTTTTG
250 AACCATCACAATTTTTGGCTAAAAACGCGTTCCGGAGT-CACGGCTCAATTTTACAGGATTTTTG
* ** *
77009 GCACAAAGACTCCTTGAAATATCTATATTCATTGAACCAAATGTCAACCACATTGGATATAAGGA
314 GCACAAAGACTCCTTGAAATATCTATATTAATCAAACCAAATCTCAACCACATTGGATATAAGGA
** * * * ** * *
77074 TTTGTTATTATTAGCATCTCG-ATCGTACT-TTGATTTAATTGGAAATTAA-TTCGAGAACAAAT
379 TTTGTTATTACGAGCATCT-GAAT-GTACTGTCGACTTAAGTAAAAATTAATTTCGAAAAAAAAT
* *** * ** **
77136 GGAAAAACGATATTAGATGGGTGAAAAACCCGTCAATCTTTTTGTTATTGAATTATATTTTTTTT
442 GGAAAAACGATATTAGAAGCCCGAAAAACCCATCAATCTTTTTGGCATTGAATTATATAATTTTT
* * * *
77201 CTAAATATT-TCATAAAAAAATTGAGAAAAAAATCTTT-GTGTCAGTTTTTAGCCAAAATCGTGT
507 ATAAATATTGT-AGAAAAAAATTGAG-AAAAAATCTTTCGGGTCAGATTTTAGCCAAAATCGTGT
** * * *
77264 ACGTTATCACGATTTTTGACTAAAAACGCGTTTCGGA-TCCCGGCTCAGTTTTAAATGATTCTTG
570 AC-ACATCACGATTTTTGACTAAAAACGCGTTTCGCAGCCCCGGCTCAGTTTTAAATAATTCTTG
* * * * * *
77328 GCAGAAAGACTCCTTGAAATATCTATATTCATCTAACAAAATTTTAGCCACAATGGATTTAAGAA
634 ACAGAAAGAATCCTTGAAATATCTATATTCATCTAACAAAATCTCAGCCACAATAGATTCAAGAA
* * *
77393 TTTGTTTTTACGAGCATCCCAATCTTTGTTTCGATTTAATTAGAAATAAATT-CAG-AAAAAAA-
699 TTTGTTTTTACGAGCATCCAAATC-TTGTTTAGATTTAATTAAAAATAAATTGCAGAAAAAAAAT
77455 GGAAAAACGATATTAGAAACGTGAAAAACCCTTCAATTTTTTTGGCATTAAATTATATATTTTTT
763 GGAAAAACGATATTAGAAACGTGAAAAACCCTTCAATTTTTTTGGCATTAAATTATATATTTTTT
77520 CTGAGTAT-TGTGACAAAAAATTGAGAAAAAACTTTTCGTGTCAGTTTTT
828 C--AGTATCT-TGACAAAAAATTGAGAAAAAACTTTTCGTGTCAGTTTTT
77569 GTAAAATTTT
Statistics
Matches: 738, Mismatches: 122, Indels: 35
0.82 0.14 0.04
Matches are distributed among these distances:
981 3 0.00
982 89 0.12
987 58 0.08
988 9 0.01
989 242 0.33
990 238 0.32
991 24 0.03
992 75 0.10
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (982 bp):
TGAAATATCTAGACTCATGTAACCAAATCTCAGCCACATTAGATCTAAAGATTTGTTTTTACGAG
CATCTGAATCTTGTTTCGATTCAATTAGAAATAAATTCAGGAAAAAAAACGATATTAAAAGCGTG
AAAACCCTTCAATTTTTTCGGCCTTGAATTATAAATTTTTTCTGAATACTCTGGCAAAAAATTGA
GGAAAAAATTTTCGGGTCAATTCTTTTACAAAATTTTAGCCGAAATCGTGTAATAACCATCACAA
TTTTTGGCTAAAAACGCGTTCCGGAGTCACGGCTCAATTTTACAGGATTTTTGGCACAAAGACTC
CTTGAAATATCTATATTAATCAAACCAAATCTCAACCACATTGGATATAAGGATTTGTTATTACG
AGCATCTGAATGTACTGTCGACTTAAGTAAAAATTAATTTCGAAAAAAAATGGAAAAACGATATT
AGAAGCCCGAAAAACCCATCAATCTTTTTGGCATTGAATTATATAATTTTTATAAATATTGTAGA
AAAAAATTGAGAAAAAATCTTTCGGGTCAGATTTTAGCCAAAATCGTGTACACATCACGATTTTT
GACTAAAAACGCGTTTCGCAGCCCCGGCTCAGTTTTAAATAATTCTTGACAGAAAGAATCCTTGA
AATATCTATATTCATCTAACAAAATCTCAGCCACAATAGATTCAAGAATTTGTTTTTACGAGCAT
CCAAATCTTGTTTAGATTTAATTAAAAATAAATTGCAGAAAAAAAATGGAAAAACGATATTAGAA
ACGTGAAAAACCCTTCAATTTTTTTGGCATTAAATTATATATTTTTTCAGTATCTTGACAAAAAA
TTGAGAAAAAACTTTTCGTGTCAGTTTTTCGAAATTTTAACTGAAATTGTGCAGTATTCATCACA
GTTTTTTTTTGACTAAAAACGCGTTTCGGGGTCCCAGCTCAGTTTTGCATGATTTTAAGCAGAAA
GACTCCA
Found at i:79250 original size:12 final size:13
Alignment explanation
Indices: 79232--79261 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
79222 GTTTTCTTTA
79232 ATTTTCTTGATTG
1 ATTTTCTTGATTG
79245 -TTTTCTTGATTG
1 ATTTTCTTGATTG
79257 ATTTT
1 ATTTT
79262 AATTGCTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.13, C:0.07, G:0.13, T:0.67
Consensus pattern (13 bp):
ATTTTCTTGATTG
Found at i:80479 original size:324 final size:321
Alignment explanation
Indices: 79453--80687 Score: 1315
Period size: 324 Copynumber: 3.8 Consensus size: 321
79443 CCCAATTCAA
* * *
79453 TTTTGCATGATTTTTAGCGTAAAGACTCCTTCAAATATCTATATTCAT-TGAATCAAATCTCAGC
1 TTTTGCATGATTTTTGGCGTAAAGACTCCTTGAAATATCTATATTCATCT-AACCAAATCTCAGC
* *
79517 CACATTGTATATAACGAA-TTGTTTTTATGAGCAT-TCGAATCTTGTTTCGATTTAATTAGAAAT
65 CACATTGGATATAA-GAATTTGTTTTTACGAGCATCT-GAATCTTGTTTCGATTTAATTAGAAAT
* * *
79580 TAATTTGGAAAAAAAATGGAAAAACGATATTAGAAGCGCGAAAAGCCCGTCAATCTTTTTGGCAT
128 TAATTCGGAAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAGCCC-TCAATCTTTTTGGCGT
* *
79645 TGAATTATATATTTTTTCTGAATATT-TTGCAAAAAAATGGAGAAAAACTTTTCGGGTTAGTTTT
192 TGAATTATATATTTTTTCTGAATATTGTGGCAAAAAAAT-GAGAAAAACTTTTCGGGTCAGTTTT
* * * * * ** *
79709 TTGCCGAAATCGTGTACTAACCATTACGATTTTTGGCTAAAAACGCGTTTC-GGATCTCGACTCA
256 TAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAAAGCGTTCCGGGGCCACGACTCA
*
79773 G
321 C
** *
79774 TTTTAAATGATTTTTGGCAG-AAAGACTCCTTGAAATATCTATATTCATCTAACAAAATCTCAGC
1 TTTTGCATGATTTTTGGC-GTAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGC
* * * * *
79838 CACAATGGATTTAAGAATTTGTTTTTACGAGCATCTCAATCTTTGTTTCGATTTAATTAAAAATA
65 CACATTGGATATAAGAATTTGTTTTTACGAGCATCTGAATC-TTGTTTCGATTTAATTAGAAATT
* * * *
79903 AATTCGGAAAAAAAAAAGGAAAAACGATATTAGAAGTGTGAAAAACCCTTCAAT-TTTTTGTGTG
129 AATTCGG-AAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAGCCC-TCAATCTTTTTG-GCG
* **
79967 TTAAATTATATATTTTTTCTGAATATTGTGGC-AAAACTTGAGGAAAAACTTTTCGGGTCAGTTT
191 TTGAATTATATATTTTTTCTGAATATTGTGGCAAAAAAATGA-GAAAAACTTTTCGGGTCAG---
*
80031 TTTCAAAATTTTAGCTGAAATCGTGTACTAACCATCACAGG-TTTTGGCTAAAAACA-CGTTCCG
252 --T-----TTTTAGCCGAAATCGTGTACTAACCATCAC-GGTTTTTGGCTAAAAA-AGCGTTCCG
* * *
80094 GAGCCCCGGCTCAAC
308 GGGCCACGACTC-AC
*
80109 TTTT-CATGATTTTTGGCGTAAAGACTCCTTGAAATAT-TCATATTCATCTAACCAAATGTCAGC
1 TTTTGCATGATTTTTGGCGTAAAGACTCCTTGAAATATCT-ATATTCATCTAACCAAATCTCAGC
*
80172 CACATTGGATATAAGGATTTG-TTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTA
65 CACATTGGATATAAGAATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTA
* * * * *
80236 GTTTGG-AAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAAGCCATCAATATTTTTTGCGTTG
130 ATTCGGAAAAAAAATGGAAAAACGATATTAGAAGCGTG-AAAAGCCCTCAATCTTTTTGGCGTTG
* * * * * *
80300 AATTATATTTTTTTTGTTTTGAGTATTGTGGCAAAAAAGTGAGAATAAACATTTCGGGGCAGTTT
194 AATTATA--TATTTT-TTCTGAATATTGTGGCAAAAAAATGAGAA-AAACTTTTCGGGTCAGTTT
* * *
80365 TTAGCCGAAATTGTGTACTAACTATCACGGTTTTTGACTAAAAAAGCGTTCCGGGGCCACGACTC
255 TTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAAAGCGTTCCGGGGCCACGACTC
80430 TA-
320 -AC
*** * * *
80432 TTTTGCATGATTTTTGGCGCCGAGACTCCTTGAAATATCTTTATTCATTTAATCAAATCTCAGCC
1 TTTTGCATGATTTTTGGCGTAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGCC
* * *
80497 ACATTGGATTTAAAAATTT-TCTTTTAC-ATGCATCTGAATTTTGTTTCGATTTAATTAGAAATT
66 ACATTGGATATAAGAATTTGT-TTTTACGA-GCATCTGAATCTTGTTTCGATTTAATTAGAAATT
* * * *
80560 AATTCAGAAAAAATATGTG--AAACGATATTAAAAGCGTGAAAAGTCCTCCAATCTTTTTGGCGT
129 AATTCGGAAAAAAAATG-GAAAAACGATATTAGAAGCGTGAAAAGCCCT-CAATCTTTTTGGCGT
* * * * * * * * *
80623 TGAATTATATA-TATTTATGAGTTTTTTTGCAAAAAATTGATTAAAAATTTTTCGGGTCA-TTTT
192 TGAATTATATATTTTTTCTGAATATTGTGGCAAAAAAATGA-GAAAAACTTTTCGGGTCAGTTTT
80686 TA
256 TA
80688 CCATCATGGT
Statistics
Matches: 769, Mismatches: 102, Indels: 87
0.80 0.11 0.09
Matches are distributed among these distances:
320 9 0.01
321 117 0.15
322 42 0.05
323 99 0.13
324 134 0.17
325 84 0.11
326 8 0.01
327 1 0.00
328 1 0.00
329 1 0.00
330 45 0.06
331 11 0.01
332 31 0.04
333 82 0.11
334 99 0.13
335 5 0.01
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (321 bp):
TTTTGCATGATTTTTGGCGTAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGCC
ACATTGGATATAAGAATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAA
TTCGGAAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAGCCCTCAATCTTTTTGGCGTTGAA
TTATATATTTTTTCTGAATATTGTGGCAAAAAAATGAGAAAAACTTTTCGGGTCAGTTTTTAGCC
GAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAAAGCGTTCCGGGGCCACGACTCAC
Found at i:81966 original size:16 final size:16
Alignment explanation
Indices: 81945--81977 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
81935 ATATTATTAA
81945 AATTTAGTATAATTTT
1 AATTTAGTATAATTTT
81961 AATTTAGTATAATTTT
1 AATTTAGTATAATTTT
81977 A
1 A
81978 TTATTTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (16 bp):
AATTTAGTATAATTTT
Found at i:82105 original size:19 final size:20
Alignment explanation
Indices: 82078--82115 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
82068 TACTATTATT
82078 TTTTGAATTT-AATATTTTAC
1 TTTTGAATTTCAAT-TTTTAC
82098 TTTT-AATTTCAATTTTTA
1 TTTTGAATTTCAATTTTTA
82116 AATGTCAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.29, C:0.05, G:0.03, T:0.63
Consensus pattern (20 bp):
TTTTGAATTTCAATTTTTAC
Found at i:82309 original size:22 final size:22
Alignment explanation
Indices: 82281--82469 Score: 159
Period size: 22 Copynumber: 8.5 Consensus size: 22
82271 TGTCTCTGTG
*
82281 TGGTTATCAAAATTTCATAAGA
1 TGGTTATCAAAATTTCATAGGA
* *
82303 TGGTTATTATAATTTCATGAGGA
1 TGGTTATCAAAATTTCAT-AGGA
*
82326 -GGTTATCAAAATTTCATGGGA
1 TGGTTATCAAAATTTCATAGGA
*
82347 AGGTTATCAAAATTTCATAGTG-
1 TGGTTATCAAAATTTCATAG-GA
*
82369 TGGTTACCAAAATTTCATAGGA
1 TGGTTATCAAAATTTCATAGGA
**
82391 TCAGGTTATCAAAATTTTTTAGGA
1 T--GGTTATCAAAATTTCATAGGA
* **
82415 AGGTTATTGAAATTTCATAGTG-
1 TGGTTATCAAAATTTCATAG-GA
* * * * *
82437 TGCTTTTCACAATTTTATAGAA
1 TGGTTATCAAAATTTCATAGGA
*
82459 AGGTTATCAAA
1 TGGTTATCAAA
82470 GGGATTATCA
Statistics
Matches: 130, Mismatches: 29, Indels: 16
0.74 0.17 0.09
Matches are distributed among these distances:
21 4 0.03
22 103 0.79
23 5 0.04
24 18 0.14
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.38
Consensus pattern (22 bp):
TGGTTATCAAAATTTCATAGGA
Found at i:82352 original size:44 final size:44
Alignment explanation
Indices: 82282--83420 Score: 200
Period size: 44 Copynumber: 26.5 Consensus size: 44
82272 GTCTCTGTGT
* * *
82282 GGTTATCAAAATTTCATAAGATGGTTATTATAATTTCATGAG-GA
1 GGTTATCAAAATTTCATAAGAAGGTTATCAAAATTTCAT-AGTGA
** *
82326 GGTTATCAAAATTTCATGGGAAGGTTATCAAAATTTCATAGTGT
1 GGTTATCAAAATTTCATAAGAAGGTTATCAAAATTTCATAGTGA
* * **
82370 GGTTACCAAAATTTCATAGGATCAGGTTATCAAAATTTTTTAG-GAA
1 GGTTATCAAAATTTCATAAGA--AGGTTATCAAAATTTCATAGTG-A
** * * * * **
82416 GGTTATTGAAATTTCAT-AG-TGTGCTTTTCACAATTTTATAGAAA
1 GGTTATCAAAATTTCATAAGAAG-G-TTATCAAAATTTCATAGTGA
* *
82460 GG-T-T----A--TCA-AAG--GGATTATCAAAATGTCATAGCGA
1 GGTTATCAAAATTTCATAAGAAGG-TTATCAAAATTTCATAGTGA
* ** * *
82494 GGTTAT-AAGAGTTTCAT-AGTGTGGTTAACAAACTTTCATAAGGAGGTGGGGA
1 GGTTATCAA-AATTTCATAAG-AAGGTTATCAAAATTTCAT----A-GT---GA
* ** * ** *
82546 GGTTATCAAATTTTCAT-AGTGTGGTTATTAAAATTTTTTAGTGT
1 GGTTATCAAAATTTCATAAG-AAGGTTATCAAAATTTCATAGTGA
* * *
82590 GATTATCAAAATTTCATATGAAGGTTATAAAAGCCTTAATTTCATAAG-GA
1 GGTTATCAAAATTTCATAAGAAGGTTAT-CAA-----AATTTCAT-AGTGA
* * * * * *
82640 -G-TACCAAAATTTGAT-AGAAGGTAATC-AAATCTCATAGAGT
1 GGTTATCAAAATTTCATAAGAAGGTTATCAAAATTTCATAGTGA
* * * *
82680 GATTATCGAAATTTCATAGAGATCGGATTAT-AGAAATTT-ATAGGGA
1 GGTTATCAAAATTTCATA-AGA-AGG-TTATCA-AAATTTCATAGTGA
* ** * **
82726 GATTATCAAAATTTCATAATG-TTGTTATCAAAATTTCAAAGCAA
1 GGTTATCAAAATTTCATAA-GAAGGTTATCAAAATTTCATAGTGA
* * ** * *
82770 GGTTATCCAAATTACATAATGAA-AATATCAAAATTTCATAGAGG
1 GGTTATCAAAATTTCATAA-GAAGGTTATCAAAATTTCATAGTGA
* * * * **
82814 GGTCAACAAAATTTTATAGAGAA-GTTATCGAAATTTCATAAAGA
1 GGTTATCAAAATTTCATA-AGAAGGTTATCAAAATTTCATAGTGA
* * *
82858 GGTTATCAAATTTTCA-AA-ATGTGATTACCAAAATTTCATAGT--
1 GGTTATCAAAATTTCATAAGAAG-G-TTATCAAAATTTCATAGTGA
**
82900 GG---T----ATTT-ATGGGGAA-GTTATCAAAATTTCATAGT-A
1 GGTTATCAAAATTTCAT-AAGAAGGTTATCAAAATTTCATAGTGA
* * * * *
82935 TGGTTA-CCAAA--T--TAGGAAGGTTATTAAACTTTTACTA-TG-
1 -GGTTATCAAAATTTCATAAGAAGGTTATCAAAATTTCA-TAGTGA
* * * *
82974 GAGTAATCAAAATTTC--AGGGAGGATATCAAAATTTCATA-TGAA
1 G-GTTATCAAAATTTCATAAGAAGGTTATCAAAATTTCATAGTG-A
83017 GGTTATCAAAATTTCAT----A-G---TCAAAATTTCATAGT-A
1 GGTTATCAAAATTTCATAAGAAGGTTATCAAAATTTCATAGTGA
* * * ** * *
83052 TGTAGATCAAAATTTCATAGGGGGGTTAACAAAATTTCATAATGA
1 GGT-TATCAAAATTTCATAAGAAGGTTATCAAAATTTCATAGTGA
** * *
83097 GGTTATCAAAAAATCATAGGGAGGTTATCAAAA-TT--T-GT-A
1 GGTTATCAAAATTTCATAAGAAGGTTATCAAAATTTCATAGTGA
* * * *
83136 -GTTATTAAGATTTCATAAGGAGGTTATCAAAATTTTATAAG-GA
1 GGTTATCAAAATTTCATAAGAAGGTTATCAAAATTTCAT-AGTGA
* * *
83179 GGTTTATCAAAATTTTAT-AGCAAGGTTATCACAATTTCATAGTGT
1 GG-TTATCAAAATTTCATAAG-AAGGTTATCAAAATTTCATAGTGA
* * * *
83224 GATTATCAAAATTTCA-GAG-TGTGATTA-CTAATAA-TTCA-AATGGA
1 GGTTATCAAAATTTCATAAGAAG-G-TTATC-AA-AATTTCATAGT-GA
* * * * * *
83268 GGTTCTTAAATTTTCATAACG-TGGTTATCAATATATCATA-TGGA
1 GGTTATCAAAATTTCATAA-GAAGGTTATCAAAATTTCATAGT-GA
* * * ** ***
83312 GGTTATCAACATCTCATAGTGTTGGTTATCAAAATTTCATTCAGA
1 GGTTATCAAAATTTCATA-AGAAGGTTATCAAAATTTCATAGTGA
* * * * * *
83357 AGTTATCAAAATTTCAT-AGTGAGGTTTTCAAAATTCCTTAGGGA
1 GGTTATCAAAATTTCATAAG-AAGGTTATCAAAATTTCATAGTGA
83401 GGTTATCAAAATTTCATAAG
1 GGTTATCAAAATTTCATAAG
83421 GAGATTAAAA
Statistics
Matches: 803, Mismatches: 177, Indels: 229
0.66 0.15 0.19
Matches are distributed among these distances:
34 35 0.04
35 9 0.01
36 34 0.04
37 2 0.00
38 33 0.04
39 24 0.03
40 17 0.02
41 8 0.01
42 53 0.07
43 27 0.03
44 342 0.43
45 85 0.11
46 61 0.08
47 15 0.02
48 14 0.02
49 1 0.00
50 7 0.01
51 2 0.00
52 32 0.04
53 2 0.00
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.35
Consensus pattern (44 bp):
GGTTATCAAAATTTCATAAGAAGGTTATCAAAATTTCATAGTGA
Found at i:82451 original size:68 final size:66
Alignment explanation
Indices: 82282--82469 Score: 175
Period size: 68 Copynumber: 2.8 Consensus size: 66
82272 GTCTCTGTGT
** * * *
82282 GGTTATCAAAATTTCATAAGATG-G-TTATTATAATTTCAT-GAGGAGGTTATCAAAATTTCATG
1 GGTTATCAAAATTTCAT-AG-TGTGCTTACCAAAATTTCATAGA-AAGGTTATCAAAATTTCATA
82344 GGAA
63 GGAA
* * **
82348 GGTTATCAAAATTTCATAGTGTGGTTACCAAAATTTCATAGGATCAGGTTATCAAAATTTTTTAG
1 GGTTATCAAAATTTCATAGTGTGCTTACCAAAATTTCATA-GA-AAGGTTATCAAAATTTCATAG
82413 GAA
64 GAA
** ** * *
82416 GGTTATTGAAATTTCATAGTGTGCTTTTCACAATTTTATAGAAAGGTTATCAAA
1 GGTTATCAAAATTTCATAGTGTGCTTACCAAAATTTCATAGAAAGGTTATCAAA
82470 GGGATTATCA
Statistics
Matches: 102, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
64 2 0.02
65 3 0.03
66 40 0.39
67 2 0.02
68 55 0.54
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.38
Consensus pattern (66 bp):
GGTTATCAAAATTTCATAGTGTGCTTACCAAAATTTCATAGAAAGGTTATCAAAATTTCATAGGA
A
Found at i:82587 original size:22 final size:23
Alignment explanation
Indices: 82548--82607 Score: 72
Period size: 22 Copynumber: 2.7 Consensus size: 23
82538 GGTGGGGAGG
*
82548 TTATC-AAATTTTCATAGTGTGG
1 TTATCAAAATTTTCATAGTGTGA
* *
82570 TTATTAAAATTTT-TTAGTGTGA
1 TTATCAAAATTTTCATAGTGTGA
82592 TTATCAAAA-TTTCATA
1 TTATCAAAATTTTCATA
82608 TGAAGGTTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
21 3 0.10
22 21 0.68
23 7 0.23
ACGTcount: A:0.33, C:0.07, G:0.12, T:0.48
Consensus pattern (23 bp):
TTATCAAAATTTTCATAGTGTGA
Found at i:82696 original size:22 final size:22
Alignment explanation
Indices: 82666--82743 Score: 77
Period size: 22 Copynumber: 3.5 Consensus size: 22
82656 GAAGGTAATC
*
82666 AAATCTCATAGAGTGATTATCG
1 AAATTTCATAGAGTGATTATCG
*
82688 AAATTTCATAGAGATCGGATTATAG
1 AAATTTCATAGAG-T--GATTATCG
* * *
82713 AAATTT-ATAGGGAGATTATCA
1 AAATTTCATAGAGTGATTATCG
82734 AAATTTCATA
1 AAATTTCATA
82744 ATGTTGTTAT
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
21 12 0.26
22 15 0.33
23 1 0.02
24 5 0.11
25 13 0.28
ACGTcount: A:0.41, C:0.09, G:0.17, T:0.33
Consensus pattern (22 bp):
AAATTTCATAGAGTGATTATCG
Found at i:82872 original size:22 final size:23
Alignment explanation
Indices: 82795--82873 Score: 76
Period size: 22 Copynumber: 3.6 Consensus size: 23
82785 ATAATGAAAA
*
82795 TATCAAAA-TTTCATAGAGGGGT
1 TATCAAAATTTTCATAGAGAGGT
* * *
82817 CAACAAAATTTT-ATAGAGAAGT
1 TATCAAAATTTTCATAGAGAGGT
* *
82839 TATCGAAA-TTTCATAAAGAGGT
1 TATCAAAATTTTCATAGAGAGGT
82861 TATC-AAATTTTCA
1 TATCAAAATTTTCA
82874 AAATGTGATT
Statistics
Matches: 45, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
21 6 0.13
22 36 0.80
23 3 0.07
ACGTcount: A:0.42, C:0.10, G:0.15, T:0.33
Consensus pattern (23 bp):
TATCAAAATTTTCATAGAGAGGT
Found at i:83041 original size:14 final size:14
Alignment explanation
Indices: 83022--83050 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
83012 ATGAAGGTTA
83022 TCAAAATTTCATAG
1 TCAAAATTTCATAG
83036 TCAAAATTTCATAG
1 TCAAAATTTCATAG
83050 T
1 T
83051 ATGTAGATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.14, G:0.07, T:0.38
Consensus pattern (14 bp):
TCAAAATTTCATAG
Found at i:83047 original size:36 final size:36
Alignment explanation
Indices: 83000--83071 Score: 101
Period size: 36 Copynumber: 2.0 Consensus size: 36
82990 AGGGAGGATA
*
83000 TCAAAATTTCATATGAAGGT-TATCAAAATTTCATAG
1 TCAAAATTTCATA-GAAGGTAGATCAAAATTTCATAG
* *
83036 TCAAAATTTCATAGTATGTAGATCAAAATTTCATAG
1 TCAAAATTTCATAGAAGGTAGATCAAAATTTCATAG
83072 GGGGGTTAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
35 4 0.12
36 28 0.88
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.36
Consensus pattern (36 bp):
TCAAAATTTCATAGAAGGTAGATCAAAATTTCATAG
Found at i:83084 original size:22 final size:22
Alignment explanation
Indices: 83057--83423 Score: 219
Period size: 22 Copynumber: 16.9 Consensus size: 22
83047 TAGTATGTAG
*
83057 ATCAAAATTTCATAGGGGGGTT
1 ATCAAAATTTCATAGGGAGGTT
* **
83079 AACAAAATTTCATAATGAGGTT
1 ATCAAAATTTCATAGGGAGGTT
**
83101 ATCAAAAAATCATAGGGAGGTT
1 ATCAAAATTTCATAGGGAGGTT
*
83123 ATCAAAA-TT--T--GTA-GTT
1 ATCAAAATTTCATAGGGAGGTT
* * *
83139 ATTAAGATTTCATAAGGAGGTT
1 ATCAAAATTTCATAGGGAGGTT
* *
83161 ATCAAAATTTTATAAGGAGGTTT
1 ATCAAAATTTCATAGGGAGG-TT
* **
83184 ATCAAAATTTTATAGCAAGGTT
1 ATCAAAATTTCATAGGGAGGTT
* * * *
83206 ATCACAATTTCATAGTGTGATT
1 ATCAAAATTTCATAGGGAGGTT
* * * *
83228 ATCAAAATTTCAGAGTGTGATT
1 ATCAAAATTTCATAGGGAGGTT
* *
83250 A-CTAATAA-TTCAAATGGAGGTT
1 ATC-AA-AATTTCATAGGGAGGTT
* * * ** *
83272 CTTAAATTTTCATAACGTGGTT
1 ATCAAAATTTCATAGGGAGGTT
* * *
83294 ATCAATATATCATATGGAGGTT
1 ATCAAAATTTCATAGGGAGGTT
* * **
83316 ATCAACATCTCATAGTGTTGGTT
1 ATCAAAATTTCATAG-GGAGGTT
*** *
83339 ATCAAAATTTCATTCAGAAGTT
1 ATCAAAATTTCATAGGGAGGTT
*
83361 ATCAAAATTTCATAGTGAGGTT
1 ATCAAAATTTCATAGGGAGGTT
* * *
83383 TTCAAAATTCCTTAGGGAGGTT
1 ATCAAAATTTCATAGGGAGGTT
*
83405 ATCAAAATTTCATAAGGAG
1 ATCAAAATTTCATAGGGAG
83424 ATTAAAAAAA
Statistics
Matches: 260, Mismatches: 73, Indels: 24
0.73 0.20 0.07
Matches are distributed among these distances:
16 8 0.03
17 4 0.02
19 2 0.01
21 5 0.02
22 204 0.78
23 37 0.14
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.36
Consensus pattern (22 bp):
ATCAAAATTTCATAGGGAGGTT
Found at i:83362 original size:67 final size:66
Alignment explanation
Indices: 83291--83417 Score: 150
Period size: 67 Copynumber: 1.9 Consensus size: 66
83281 TCATAACGTG
* * **
83291 GTTATCAATATATCATA-TGGAGGTTATCAACA-TCTCATAGTGTTGGTTATCAAAATTTCATTC
1 GTTATCAAAATATCATAGT-GAGGTTATCAAAATTC-CATAG-GGAGGTTATCAAAATTTCATTC
83354 AGAA
63 AGAA
* * *
83358 GTTATCAAAATTTCATAGTGAGGTTTTCAAAATTCCTTAGGGAGGTTATCAAAATTTCAT
1 GTTATCAAAATATCATAGTGAGGTTATCAAAATTCCATAGGGAGGTTATCAAAATTTCAT
83418 AAGGAGATTA
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
66 18 0.35
67 30 0.59
68 3 0.06
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.38
Consensus pattern (66 bp):
GTTATCAAAATATCATAGTGAGGTTATCAAAATTCCATAGGGAGGTTATCAAAATTTCATTCAGA
A
Found at i:84830 original size:132 final size:132
Alignment explanation
Indices: 84593--85155 Score: 761
Period size: 132 Copynumber: 4.3 Consensus size: 132
84583 GACTTCTATC
* * * * * * * * * *
84593 AGTCGTTGCGAATTCATAGTCTTTTCACAATGACTTCTGTCACTCGTTGTTTAATATATTTCACA
1 AGTCGTTGCGAAATCTTACTCTTTTCGCAACGACTTTTGTTAGTCGTTGCTTAATATATTTTACA
* * * * *
84658 AATTGATTTTTGAAGCGACCTTAAAAGTCGCTACAAAAAACATGATTACTTTTGAAACGACAGAT
66 AATTGATTTTCGCAGCGACCTTGAAAGTCGCTACAAAAAACATAATTACTTTTGAAACGACAAAT
84723 TA
131 TA
* *
84725 AGTCGTTGCGAAATCTTA-TACTTTTAGCAACGACTTTTGTTGGTCGTTGCTTAATATATTTTAC
1 AGTCGTTGCGAAATCTTACT-CTTTTCGCAACGACTTTTGTTAGTCGTTGCTTAATATATTTTAC
* * *
84789 AAATTGGTTTTCGCAGCGACCTTGAAAGTCGCTACAAAAAACATAATTACTTTTGAAGCCACAAA
65 AAATTGATTTTCGCAGCGACCTTGAAAGTCGCTACAAAAAACATAATTACTTTTGAAACGACAAA
84854 TTA
130 TTA
* * * * *
84857 AGTCGCTGTGAAATCTTACTCTTTTCGCAACAACTATTGTTAGTCGTTGCTTTATATATTTTACA
1 AGTCGTTGCGAAATCTTACTCTTTTCGCAACGACTTTTGTTAGTCGTTGCTTAATATATTTTACA
* * * * *
84922 AATTGATTTTCGCAGCGACCTTGAAAGTCACTTCAAAAAACATGATTTCTTTTGAAACGACAGAT
66 AATTGATTTTCGCAGCGACCTTGAAAGTCGCTACAAAAAACATAATTACTTTTGAAACGACAAAT
84987 TA
131 TA
* *
84989 AGTCGTTGCGAAATCTTACTCTTTTCGCAACGACTTATATTAGTCGTTGCTTAATATATTTTACA
1 AGTCGTTGCGAAATCTTACTCTTTTCGCAACGACTTTTGTTAGTCGTTGCTTAATATATTTTACA
* * *
85054 AATTAATTTTCGCAGCGACCTTGAAAGTCGCTGCCAAAAAA-ATAATTACTTTTGAAACAACAAA
66 AATTGATTTTCGCAGCGACCTTGAAAGTCGCT-ACAAAAAACATAATTACTTTTGAAACGACAAA
85118 TTA
130 TTA
* *
85121 AGTTGTTGTGAAATCTTACTCTTTTCGCAACGACT
1 AGTCGTTGCGAAATCTTACTCTTTTCGCAACGACT
85156 AATTTAGGTT
Statistics
Matches: 378, Mismatches: 50, Indels: 6
0.87 0.12 0.01
Matches are distributed among these distances:
131 1 0.00
132 369 0.98
133 8 0.02
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (132 bp):
AGTCGTTGCGAAATCTTACTCTTTTCGCAACGACTTTTGTTAGTCGTTGCTTAATATATTTTACA
AATTGATTTTCGCAGCGACCTTGAAAGTCGCTACAAAAAACATAATTACTTTTGAAACGACAAAT
TA
Found at i:85940 original size:201 final size:201
Alignment explanation
Indices: 85594--85993 Score: 649
Period size: 201 Copynumber: 2.0 Consensus size: 201
85584 AGCTTAGAAG
* * * **
85594 ATTTCACAACCAATCAAATGTTGCTACGTTAAAGATTTTACAACCAAAACAACGTCCCTGTGTAA
1 ATTTCACAACCAATCAAATGTTGCAACGTAAAAGATTTCACAACCAAAACAACGTCCCTGCATAA
*
85659 GGGTTTTCACAACGACATTTAATCGTTTTTAAATTATTTTGACAACTACCTAGAGGTTGTTATGT
66 GGGTTTTCACAACGACATTTAATCGTTTTTAAATTATTTTGACAACTACCTAGAGGTTGTTACGT
* *
85724 AAGTGTTTTGGAAACGACATTTAATCATTTTTAAAAGTTATTCGTAACCAATTAAAAGTGGTTGC
131 AAGTCTTTTGGAAACGACATTAAATCATTTTTAAAAGTTATTCGTAACCAATT-AAAGTGGTTGC
85789 AAAAATT
195 AAAAATT
* **
85796 ATTTCACAACCAATTAAATGTTGCAACGTAAAAGATTTCACAACC-AAACAACGTCGTTGCATAA
1 ATTTCACAACCAATCAAATGTTGCAACGTAAAAGATTTCACAACCAAAACAACGTCCCTGCATAA
* * *
85860 GGGTTTTCGCAACGACATTTAATCGTTTTTAAATTATTTTGGCAACTACCTAGATGTTGTTACGT
66 GGGTTTTCACAACGACATTTAATCGTTTTTAAATTATTTTGACAACTACCTAGAGGTTGTTACGT
*
85925 AAGTCTTTTGGAAACGACATTAAATCATTTTTAAAAGTTATTCGTAACCAATTAAAGTGGTTGTA
131 AAGTCTTTTGGAAACGACATTAAATCATTTTTAAAAGTTATTCGTAACCAATTAAAGTGGTTGCA
85990 AAAA
196 AAAA
85994 ACTCTTCGCA
Statistics
Matches: 183, Mismatches: 15, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
200 15 0.08
201 127 0.69
202 41 0.22
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.34
Consensus pattern (201 bp):
ATTTCACAACCAATCAAATGTTGCAACGTAAAAGATTTCACAACCAAAACAACGTCCCTGCATAA
GGGTTTTCACAACGACATTTAATCGTTTTTAAATTATTTTGACAACTACCTAGAGGTTGTTACGT
AAGTCTTTTGGAAACGACATTAAATCATTTTTAAAAGTTATTCGTAACCAATTAAAGTGGTTGCA
AAAATT
Found at i:86836 original size:22 final size:22
Alignment explanation
Indices: 86810--86853 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
86800 GCAATAGTAT
86810 TCACAACTATGTCTTGCAATTA
1 TCACAACTATGTCTTGCAATTA
86832 TCACAACTATGTCTTGCAATTA
1 TCACAACTATGTCTTGCAATTA
86854 AAACATCAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.23, G:0.09, T:0.36
Consensus pattern (22 bp):
TCACAACTATGTCTTGCAATTA
Found at i:89202 original size:29 final size:31
Alignment explanation
Indices: 89144--89220 Score: 113
Period size: 29 Copynumber: 2.5 Consensus size: 31
89134 ATACCGTACA
*
89144 GGTCCCTCTACTTACAAAAAGGGATCAATTT
1 GGTCCCTCTACTTACAAAAACGGATCAATTT
* *
89175 GGTCCCCCTAC-TACAAAAACTG-TCAATTT
1 GGTCCCTCTACTTACAAAAACGGATCAATTT
89204 GGTCCCTCTACTTACAA
1 GGTCCCTCTACTTACAA
89221 TTTGGTGTCA
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
29 17 0.41
30 14 0.34
31 10 0.24
ACGTcount: A:0.30, C:0.29, G:0.13, T:0.29
Consensus pattern (31 bp):
GGTCCCTCTACTTACAAAAACGGATCAATTT
Found at i:89233 original size:31 final size:30
Alignment explanation
Indices: 89144--89248 Score: 99
Period size: 31 Copynumber: 3.5 Consensus size: 30
89134 ATACCGTACA
89144 GGTCCCTCTACTTACAAAAAGG-GATCAATTT
1 GGTCCCTCTACTTAC-AAAAGGTG-TCAATTT
* **
89175 GGTCCCCCTAC-TACAAAAACTGTCAATTT
1 GGTCCCTCTACTTACAAAAGGTGTCAATTT
**
89204 GGTCCCTCTACTTACAATTTGGTGTCAA-TT
1 GGTCCCTCTACTTACAA-AAGGTGTCAATTT
*
89234 GAGTCCCTCTGCTTA
1 G-GTCCCTCTACTTA
89249 ATAGAATCTG
Statistics
Matches: 61, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
29 21 0.34
30 12 0.20
31 28 0.46
ACGTcount: A:0.26, C:0.27, G:0.15, T:0.32
Consensus pattern (30 bp):
GGTCCCTCTACTTACAAAAGGTGTCAATTT
Found at i:89572 original size:29 final size:29
Alignment explanation
Indices: 89516--89587 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
89506 TACCAAATTG
89516 TAAGTAGAGGGACCAAATTGACAG-TTTT
1 TAAGTAGAGGGACCAAATTGACAGTTTTT
* ***
89544 TATAGTAGAGTGACCAAATTGATTTTTTTT
1 TA-AGTAGAGGGACCAAATTGACAGTTTTT
89574 TAAGTAGAGGGACC
1 TAAGTAGAGGGACC
89588 TGTACGGTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
28 2 0.05
29 29 0.78
30 6 0.16
ACGTcount: A:0.33, C:0.10, G:0.24, T:0.33
Consensus pattern (29 bp):
TAAGTAGAGGGACCAAATTGACAGTTTTT
Found at i:89867 original size:21 final size:22
Alignment explanation
Indices: 89807--89867 Score: 54
Period size: 25 Copynumber: 2.7 Consensus size: 22
89797 AGACTCGTAA
89807 CAAATTTGCATAA-ATATCAAT
1 CAAATTTGCATAATATATCAAT
* *
89828 CAGATTGAAAGCATTAATAT-TCAAT
1 CAAATT---TGCA-TAATATATCAAT
89853 CAAATTTGCATAATA
1 CAAATTTGCATAATA
89868 ATGTGCTTGA
Statistics
Matches: 31, Mismatches: 4, Indels: 10
0.69 0.09 0.22
Matches are distributed among these distances:
21 10 0.32
22 3 0.10
24 3 0.10
25 13 0.42
26 2 0.06
ACGTcount: A:0.46, C:0.13, G:0.08, T:0.33
Consensus pattern (22 bp):
CAAATTTGCATAATATATCAAT
Found at i:91557 original size:351 final size:351
Alignment explanation
Indices: 90884--91586 Score: 976
Period size: 351 Copynumber: 2.0 Consensus size: 351
90874 TCCAAAACAT
** * * *
90884 TCTCCAAGTTGGTTTTGAAGAAGATCAATTCTGTCCAGAAATTTCAAGGGCAAAATCATCCACCG
1 TCTCCAAGCCGGTTTAGAAGAAGATCAATTCTGTCCAGAAATTTCAAAGGCAAAATCAGCCACCG
* * * *
90949 AAACTGCAGAATTAGGTCTTGAGGTAAACATAAAAGTTCTAGATCTTGAAATCCTCTTTCGAACG
66 AAACTACAAAATTAGGTCTCGAGGTAAACATAAAAGTTCTAGATCTTGAAATCCTCTTTCCAACG
* * * * *
91014 ATACCTCATTTGCATTTTTCTGAGCTCTAGATCAAAATTTATGAATTTTCTTCCAAAACTACTCT
131 ATACCTCATTTGCATTTTTCTGAGCTCCAGATAAAAAATTATGAATTTTCTTCAAAAAATACTCT
* * * * *
91079 TGTGAAGTCCACTTTTAAATAGGATTTAACAATGTTGCATCAGGGCTGAACCATTATTGCATCAT
196 TGTGAAGTCCACCTTCAAATAGGATTTAACAATGCTGCATCAGGGCTGAACCATTACTGCATCAC
** * * * * * * *
91144 AATTACTGATTGGACTTGAACTCCTTCTTTGTGTTTCCATATTAACGAATTGGGTTTAAGAATAT
261 AAAAACTGATTGGACTTGAACTCCTTCTTTGGGCTTCCACAGTAACAAACTGGGTCTAAGAATAT
*
91209 CATATTTAGACTTAAAGACATCTGAC
326 CAGATTTAGACTTAAAGACATCTGAC
* *
91235 TCTCCAAGCCGGTTTAGGAGAAGATCAATTCTGTCTAGAAATTTCAAAGGCAAAATCAGCCACCG
1 TCTCCAAGCCGGTTTAGAAGAAGATCAATTCTGTCCAGAAATTTCAAAGGCAAAATCAGCCACCG
* * * * *
91300 GAACTACAAAATTAGGTCTCGAGGTAAACATAAAAGTTGTAGATCTTGGAATTCTCTTTCCAATG
66 AAACTACAAAATTAGGTCTCGAGGTAAACATAAAAGTTCTAGATCTTGAAATCCTCTTTCCAACG
* * * * *
91365 GTACCTCATTTTCATTTTTCTGAGTTCCGGATAAAAAATTATGAATTTTCTTCAAAAAATGCTCT
131 ATACCTCATTTGCATTTTTCTGAGCTCCAGATAAAAAATTATGAATTTTCTTCAAAAAATACTCT
* * *
91430 TGTGAAGTCCTCCTTCGAATAGGATTTAACAATGCTGCATCAGGGCTGAATCATTACTGCATCAC
196 TGTGAAGTCCACCTTCAAATAGGATTTAACAATGCTGCATCAGGGCTGAACCATTACTGCATCAC
*
91495 AAAAACTGATTGGACTT-AGACTCCTTCTTTGGGCTTCCACAGTAACAAACTGTGTCTAAGAATA
261 AAAAACTGATTGGACTTGA-ACTCCTTCTTTGGGCTTCCACAGTAACAAACTGGGTCTAAGAATA
*
91559 TCAGATTTAGACTTCAAGACATCTGAC
325 TCAGATTTAGACTTAAAGACATCTGAC
91586 T
1 T
91587 TGGTAATTTG
Statistics
Matches: 305, Mismatches: 46, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
350 1 0.00
351 304 1.00
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (351 bp):
TCTCCAAGCCGGTTTAGAAGAAGATCAATTCTGTCCAGAAATTTCAAAGGCAAAATCAGCCACCG
AAACTACAAAATTAGGTCTCGAGGTAAACATAAAAGTTCTAGATCTTGAAATCCTCTTTCCAACG
ATACCTCATTTGCATTTTTCTGAGCTCCAGATAAAAAATTATGAATTTTCTTCAAAAAATACTCT
TGTGAAGTCCACCTTCAAATAGGATTTAACAATGCTGCATCAGGGCTGAACCATTACTGCATCAC
AAAAACTGATTGGACTTGAACTCCTTCTTTGGGCTTCCACAGTAACAAACTGGGTCTAAGAATAT
CAGATTTAGACTTAAAGACATCTGAC
Found at i:92781 original size:8 final size:8
Alignment explanation
Indices: 92768--92793 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
92758 TCGTATTTTC
92768 ATTACATA
1 ATTACATA
92776 ATTACATA
1 ATTACATA
92784 ATTACATA
1 ATTACATA
92792 AT
1 AT
92794 AATAAATAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (8 bp):
ATTACATA
Found at i:95455 original size:105 final size:105
Alignment explanation
Indices: 95273--95578 Score: 594
Period size: 105 Copynumber: 2.9 Consensus size: 105
95263 ATTGTTTTCT
*
95273 TGAGCATGTTATATGATCAGTTGCTCCAATATTCAGAACCCAATCAGTATGATGTGCAGAATTAT
1 TGAGCATGTTATATGATCAGTTGCTCCAATATCCAGAACCCAATCAGTATGATGTGCAGAATTAT
95338 TAAAAACACTAAGAGATATATCAGCATCTATAACATCTAA
66 TAAAAACACTAAGAGATATATCAGCATCTATAACATCTAA
95378 TGAGCATGTTATATGATCAGTTGCTCCAATATCCAGAACCCAATCAGTATGATGTGCAGAATTAT
1 TGAGCATGTTATATGATCAGTTGCTCCAATATCCAGAACCCAATCAGTATGATGTGCAGAATTAT
95443 TAAAAACACTAAGAGATATATCAGCATCTATAACATCTAA
66 TAAAAACACTAAGAGATATATCAGCATCTATAACATCTAA
*
95483 TGAGCATGTTATATGATCAGTTGCTCCAATATCCAGAACCGAATCAGTATGATGTGCAGAATTAT
1 TGAGCATGTTATATGATCAGTTGCTCCAATATCCAGAACCCAATCAGTATGATGTGCAGAATTAT
95548 TAAAAACACTAAGAGATATATCAGCATCTAT
66 TAAAAACACTAAGAGATATATCAGCATCTAT
95579 TTCACAGTTA
Statistics
Matches: 199, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
105 199 1.00
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.29
Consensus pattern (105 bp):
TGAGCATGTTATATGATCAGTTGCTCCAATATCCAGAACCCAATCAGTATGATGTGCAGAATTAT
TAAAAACACTAAGAGATATATCAGCATCTATAACATCTAA
Found at i:95757 original size:21 final size:21
Alignment explanation
Indices: 95731--95784 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
95721 TATGCAGGGG
95731 TCTGATATGCAGCAACTGGAT
1 TCTGATATGCAGCAACTGGAT
95752 TCTGATATGCAGCAACTGGAT
1 TCTGATATGCAGCAACTGGAT
95773 T-TGGATATGCAG
1 TCT-GATATGCAG
95785 GTGCTTGAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 1 0.03
21 31 0.97
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.30
Consensus pattern (21 bp):
TCTGATATGCAGCAACTGGAT
Found at i:97645 original size:2 final size:2
Alignment explanation
Indices: 97638--97674 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
97628 TGCTTTTTAT
97638 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
97675 AGTCTAAACT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:98075 original size:21 final size:21
Alignment explanation
Indices: 98030--98076 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
98020 AAGTCCTTTT
*
98030 TTTTCATTTTATTTAATTTCT
1 TTTTCATTTTATTTAATTTCC
*
98051 TTTTCATTTT-TCTTATTTTCC
1 TTTTCATTTTAT-TTAATTTCC
98072 TTTTC
1 TTTTC
98077 TTATTTGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 1 0.04
21 22 0.96
ACGTcount: A:0.13, C:0.15, G:0.00, T:0.72
Consensus pattern (21 bp):
TTTTCATTTTATTTAATTTCC
Done.