Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01020023.1 Corchorus olitorius cultivar O-4 contig20056, 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: 134818
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Found at i:805 original size:35 final size:34
Alignment explanation
Indices: 757--827 Score: 124
Period size: 35 Copynumber: 2.1 Consensus size: 34
747 ACTAAAAGAA
757 TTGTATTTTTTCTTAGAGATATATAGTTACATAT
1 TTGTATTTTTTCTTAGAGATATATAGTTACATAT
*
791 TTGTAATTTTTTCTTATAGATATATAGTTACATAT
1 TTGT-ATTTTTTCTTAGAGATATATAGTTACATAT
826 TT
1 TT
828 TGACTTTTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
34 4 0.11
35 31 0.89
ACGTcount: A:0.30, C:0.06, G:0.10, T:0.55
Consensus pattern (34 bp):
TTGTATTTTTTCTTAGAGATATATAGTTACATAT
Found at i:2447 original size:17 final size:17
Alignment explanation
Indices: 2427--2463 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
2417 TGGTTTTCCA
*
2427 TATTTAGTTATTTTGTT
1 TATTTAGTTATTATGTT
*
2444 TATTTATTTATTATGTT
1 TATTTAGTTATTATGTT
2461 TAT
1 TAT
2464 AGTGTAAATG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.70
Consensus pattern (17 bp):
TATTTAGTTATTATGTT
Found at i:7152 original size:4 final size:4
Alignment explanation
Indices: 7143--7167 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
7133 TATTCTTACC
7143 TCTT TCTT TCTT TCTT TCTT TCTT T
1 TCTT TCTT TCTT TCTT TCTT TCTT T
7168 TCCTCCCTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TCTT
Found at i:16873 original size:6 final size:6
Alignment explanation
Indices: 16862--16895 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
16852 TTGATATGTC
* *
16862 TGAGGA TGAGGA TGAGGA TGAGAA TGAGAA TGAG
1 TGAGGA TGAGGA TGAGGA TGAGGA TGAGGA TGAG
16896 AATGGAACTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.44, T:0.18
Consensus pattern (6 bp):
TGAGGA
Found at i:16879 original size:12 final size:12
Alignment explanation
Indices: 16862--16899 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
16852 TTGATATGTC
*
16862 TGAGGATGAGGA
1 TGAGGATGAGAA
16874 TGAGGATGAGAA
1 TGAGGATGAGAA
*
16886 TGAGAATGAGAA
1 TGAGGATGAGAA
16898 TG
1 TG
16900 GAACTATTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.39, C:0.00, G:0.42, T:0.18
Consensus pattern (12 bp):
TGAGGATGAGAA
Found at i:28477 original size:20 final size:22
Alignment explanation
Indices: 28441--28481 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 22
28431 CTACTCGGGC
28441 TCGACTCGAGAAAAATTCGAGT
1 TCGACTCGAGAAAAATTCGAGT
28463 TCGACTCG-G-AAAATTCGAG
1 TCGACTCGAGAAAAATTCGAG
28482 CCGAGCTCGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.53
21 1 0.05
22 8 0.42
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.22
Consensus pattern (22 bp):
TCGACTCGAGAAAAATTCGAGT
Found at i:28490 original size:20 final size:20
Alignment explanation
Indices: 28442--28490 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
28432 TACTCGGGCT
*
28442 CGACTCGAGAAAAATTCGAGTT
1 CGACTCG-G-AAAATTCGAGTC
28464 CGACTCGGAAAATTCGAG-C
1 CGACTCGGAAAATTCGAGTC
28483 CGAGCTCG
1 CGA-CTCG
28491 AGCTCTAGTC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 3 0.12
20 14 0.56
21 1 0.04
22 7 0.28
ACGTcount: A:0.31, C:0.24, G:0.27, T:0.18
Consensus pattern (20 bp):
CGACTCGGAAAATTCGAGTC
Found at i:30275 original size:14 final size:14
Alignment explanation
Indices: 30256--30282 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
30246 ATTTAATTGA
30256 ATAATAATTATTTT
1 ATAATAATTATTTT
30270 ATAATAATTATTT
1 ATAATAATTATTT
30283 CAGTAAACAT
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
ATAATAATTATTTT
Found at i:35864 original size:3 final size:3
Alignment explanation
Indices: 35856--35927 Score: 144
Period size: 3 Copynumber: 24.0 Consensus size: 3
35846 ACTATTTACT
35856 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
35904 ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA
35928 TTGTTTTGAG
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 69 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:39162 original size:2 final size:2
Alignment explanation
Indices: 39157--39192 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
39147 ATTGAATTCT
39157 TA TA TA TA -A 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
39193 TTTATCAGGA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:48905 original size:25 final size:24
Alignment explanation
Indices: 48877--48931 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
48867 GATGGCACAA
48877 GGCCT-ATGAAAGAAAAGTGGCGCAG
1 GGCCTAAT-AAAG-AAAGTGGCGCAG
*
48902 GGCCTGAATAAAGGAAGTGGCGCAG
1 GGCCT-AATAAAGAAAGTGGCGCAG
*
48927 AGCCT
1 GGCCT
48932 GAGGAAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
25 20 0.77
26 4 0.15
27 2 0.08
ACGTcount: A:0.33, C:0.18, G:0.36, T:0.13
Consensus pattern (24 bp):
GGCCTAATAAAGAAAGTGGCGCAG
Found at i:51903 original size:22 final size:22
Alignment explanation
Indices: 51877--52155 Score: 135
Period size: 22 Copynumber: 12.7 Consensus size: 22
51867 TGACTTCATG
51877 GAAATTTTGATAATCTTCCTAT
1 GAAATTTTGATAATCTTCCTAT
*
51899 GAAATTTTGATAATCTTCGTAT
1 GAAATTTTGATAATCTTCCTAT
* * * ** *
51921 AAAATTTTG-TAACCATATTAA
1 GAAATTTTGATAATCTTCCTAT
* *
51942 GAAATTTTGATAACCTTTCTAT
1 GAAATTTTGATAATCTTCCTAT
* * * ***
51964 GAAATGTTGGTAACCAAACTAT
1 GAAATTTTGATAATCTTCCTAT
* * * *
51986 GAAATTTTGATTACCATACTAT
1 GAAATTTTGATAATCTTCCTAT
* * * *
52008 GAAATTGTGATAA-CCTCACAAC
1 GAAATTTTGATAATCTTC-CTAT
* *
52030 AAAATTTTGATAATC-ACACTTAT
1 GAAATTTTGATAATCTTC-C-TAT
* *
52053 GAAGTTTTTGATAA-CCTCCGTAT
1 GAA-ATTTTGATAATCTTCC-TAT
* *
52076 GAAATTTT-AGCAAGC-TCCTTAT
1 GAAATTTTGA-TAATCTTCC-TAT
52098 GAAATTTTGATAA-CTTTCCTAT
1 GAAATTTTGATAATC-TTCCTAT
*
52120 G-ATTTTTGATAAT-TTCCTTAT
1 GAAATTTTGATAATCTTCC-TAT
*
52141 GAAATTTTAATAATC
1 GAAATTTTGATAATC
52156 ACATAATAAA
Statistics
Matches: 199, Mismatches: 43, Indels: 29
0.73 0.16 0.11
Matches are distributed among these distances:
20 4 0.02
21 33 0.17
22 135 0.68
23 17 0.09
24 10 0.05
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.40
Consensus pattern (22 bp):
GAAATTTTGATAATCTTCCTAT
Found at i:51991 original size:65 final size:66
Alignment explanation
Indices: 51877--52023 Score: 163
Period size: 65 Copynumber: 2.2 Consensus size: 66
51867 TGACTTCATG
* * * ** *
51877 GAAATTTTGATAATCTTCCTATGAAATTTTGATAATCTTCGTATAAAATTTTG-TAACCATATTA
1 GAAATTTTGATAACCTTCCTATGAAATGTTGATAACCAACGTATAAAATTTTGATAACCATACTA
51941 A
66 A
* * * *
51942 GAAATTTTGATAACCTTTCTATGAAATGTTGGTAACCAAAC-TATGAAATTTTGATTACCATACT
1 GAAATTTTGATAACCTTCCTATGAAATGTTGATAACC-AACGTATAAAATTTTGATAACCATACT
*
52006 AT
65 AA
*
52008 GAAATTGTGATAACCT
1 GAAATTTTGATAACCT
52024 CACAACAAAA
Statistics
Matches: 68, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
65 43 0.63
66 25 0.37
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.39
Consensus pattern (66 bp):
GAAATTTTGATAACCTTCCTATGAAATGTTGATAACCAACGTATAAAATTTTGATAACCATACTA
A
Found at i:52135 original size:20 final size:22
Alignment explanation
Indices: 52091--52142 Score: 72
Period size: 21 Copynumber: 2.4 Consensus size: 22
52081 TTTAGCAAGC
*
52091 TCCTTATGAAATTTTGATAACTT
1 TCCTTATG-ATTTTTGATAACTT
52114 TCC-TATGATTTTTGATAA-TT
1 TCCTTATGATTTTTGATAACTT
52134 TCCTTATGA
1 TCCTTATGA
52143 AATTTTAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
20 5 0.19
21 15 0.56
22 4 0.15
23 3 0.11
ACGTcount: A:0.27, C:0.13, G:0.10, T:0.50
Consensus pattern (22 bp):
TCCTTATGATTTTTGATAACTT
Found at i:54767 original size:3 final size:3
Alignment explanation
Indices: 54759--54808 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
54749 TCATGAGGTA
54759 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
54807 AT
1 AT
54809 ATATATATAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:60167 original size:47 final size:47
Alignment explanation
Indices: 60040--60209 Score: 272
Period size: 47 Copynumber: 3.7 Consensus size: 47
60030 TTTTGTGTGG
* * *
60040 CAACTTCTGATGTCAATTAAATTTACTA-AAGAAAATTTTGATTTGA
1 CAACTTCTGGTGTCAATTAAATTTACTAGAATAAAATTTTAATTTGA
* *
60086 TAACTTCTGGTG-CAATTAAATTTACTAAAATAAAATTTTAATTTGA
1 CAACTTCTGGTGTCAATTAAATTTACTAGAATAAAATTTTAATTTGA
*
60132 CAACTTCTGGTGTCAATTAAATTTACTAGAATAAAAATTTAATTTGA
1 CAACTTCTGGTGTCAATTAAATTTACTAGAATAAAATTTTAATTTGA
60179 CAACTTCTGGTGTCAATTAAATTTACTAGAA
1 CAACTTCTGGTGTCAATTAAATTTACTAGAA
60210 CTCTCGTTCT
Statistics
Matches: 115, Mismatches: 7, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
45 15 0.13
46 37 0.32
47 63 0.55
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (47 bp):
CAACTTCTGGTGTCAATTAAATTTACTAGAATAAAATTTTAATTTGA
Found at i:60660 original size:4 final size:4
Alignment explanation
Indices: 60651--60676 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
60641 TCATTAAATG
60651 ATTA ATTA ATTA ATTA ATTA ATTA AT
1 ATTA ATTA ATTA ATTA ATTA ATTA AT
60677 ATTAAAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
ATTA
Found at i:70264 original size:5 final size:5
Alignment explanation
Indices: 70254--70285 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
70244 AATAATATAG
70254 TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TT
1 TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TT
70286 ATTATTTTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTCT
Found at i:70303 original size:2 final size:2
Alignment explanation
Indices: 70296--70321 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
70286 ATTATTTTTC
70296 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
70322 TAATTTTTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:71387 original size:13 final size:13
Alignment explanation
Indices: 71353--71387 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
71343 TCGTATTACA
71353 AAAAGGAGAAAAG
1 AAAAGGAGAAAAG
*
71366 GAAAGGAGAAAAG
1 AAAAGGAGAAAAG
*
71379 AAAATGAGA
1 AAAAGGAGA
71388 CATTTTCTCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.66, C:0.00, G:0.31, T:0.03
Consensus pattern (13 bp):
AAAAGGAGAAAAG
Found at i:72279 original size:8 final size:8
Alignment explanation
Indices: 72268--72303 Score: 54
Period size: 8 Copynumber: 4.4 Consensus size: 8
72258 TATTTTAATC
72268 ATTTCATT
1 ATTTCATT
72276 ATTTCATT
1 ATTTCATT
*
72284 ATTTTAATT
1 A-TTTCATT
72293 ATTTCATT
1 ATTTCATT
72301 ATT
1 ATT
72304 AATATTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
8 18 0.72
9 7 0.28
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (8 bp):
ATTTCATT
Found at i:72313 original size:25 final size:26
Alignment explanation
Indices: 72245--72314 Score: 72
Period size: 25 Copynumber: 2.7 Consensus size: 26
72235 TCTAAATTGC
*
72245 CATTATTAAATAATATTTTAATCATTT
1 CATTATT-AATAATTTTTTAATCATTT
* *
72272 CATTATT--TCATTATTTTAATTATTT
1 CATTATTAATAATT-TTTTAATCATTT
*
72297 CATTATTAATATTTTTTT
1 CATTATTAATAATTTTTT
72315 CCGATTGTAC
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
24 3 0.09
25 18 0.51
26 4 0.11
27 10 0.29
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (26 bp):
CATTATTAATAATTTTTTAATCATTT
Found at i:73286 original size:23 final size:22
Alignment explanation
Indices: 73219--73300 Score: 80
Period size: 22 Copynumber: 3.8 Consensus size: 22
73209 TCTCACAGAG
*
73219 AGGTTATCAAAA--TCATAAGA
1 AGGTTATCAAAATTTCATAGGA
*
73239 AGGTTA-CATAATTTCATAGGA
1 AGGTTATCAAAATTTCATAGGA
* **
73260 AGGTTTATTAAAATTTCATAGTT
1 AGG-TTATCAAAATTTCATAGGA
*
73283 AGGTTATCAAAGTTTCAT
1 AGGTTATCAAAATTTCAT
73301 GTTTCATAGG
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
19 4 0.08
20 6 0.12
21 10 0.20
22 16 0.32
23 14 0.28
ACGTcount: A:0.39, C:0.09, G:0.16, T:0.37
Consensus pattern (22 bp):
AGGTTATCAAAATTTCATAGGA
Found at i:79789 original size:22 final size:22
Alignment explanation
Indices: 79734--79794 Score: 77
Period size: 22 Copynumber: 2.8 Consensus size: 22
79724 CATAGGTAAA
** *
79734 TTATCAAAATTCGATAACGTGG
1 TTATCAAAATTTAATAACGTAG
*
79756 TTATCAAAATTTAATAAGGTAG
1 TTATCAAAATTTAATAACGTAG
*
79778 TTATCAAAATTTCATAA
1 TTATCAAAATTTAATAA
79795 AAATATTCAA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.43, C:0.10, G:0.11, T:0.36
Consensus pattern (22 bp):
TTATCAAAATTTAATAACGTAG
Found at i:79888 original size:29 final size:30
Alignment explanation
Indices: 79846--79910 Score: 105
Period size: 31 Copynumber: 2.2 Consensus size: 30
79836 TGAAAGGTAA
79846 AACTAGTG-TATATATATATATACATATTG
1 AACTAGTGATATATATATATATACATATTG
*
79875 AACTAGTGTATATATATATATATATATATTG
1 AACTAGTG-ATATATATATATATACATATTG
79906 AACTA
1 AACTA
79911 AATCTGCAAG
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
29 8 0.24
31 25 0.76
ACGTcount: A:0.43, C:0.06, G:0.09, T:0.42
Consensus pattern (30 bp):
AACTAGTGATATATATATATATACATATTG
Found at i:81952 original size:15 final size:16
Alignment explanation
Indices: 81934--81978 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 16
81924 TTTTCACTTA
*
81934 TTTTTTTCTTTTC-TT
1 TTTTTTTCATTTCATT
81949 TTTTTTTCATTTCAATTT
1 TTTTTTTCATTTC-A-TT
81967 TTTTTTTCATTT
1 TTTTTTTCATTT
81979 ACCAGAGGGA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 12 0.46
18 14 0.54
ACGTcount: A:0.09, C:0.11, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTTTTCATTTCATT
Found at i:82739 original size:20 final size:20
Alignment explanation
Indices: 82711--82753 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
82701 TGCATGCAAA
82711 CAAAAAAAAA-GAAAAATATG
1 CAAAAAAAAATGAAAAA-ATG
* *
82731 CAAACAAAAATGTAAAAATG
1 CAAAAAAAAATGAAAAAATG
82751 CAA
1 CAA
82754 TTTTTTTTAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.70, C:0.09, G:0.09, T:0.12
Consensus pattern (20 bp):
CAAAAAAAAATGAAAAAATG
Found at i:87199 original size:22 final size:22
Alignment explanation
Indices: 87170--87273 Score: 104
Period size: 22 Copynumber: 4.8 Consensus size: 22
87160 TGAATATTTT
87170 TATGAAATTTTGATAACTACCC
1 TATGAAATTTTGATAACTACCC
* * *
87192 TATTAAATTTTGATAACCACGC
1 TATGAAATTTTGATAACTACCC
* * *
87214 GAAGAAATTTTGATAATTA-CC
1 TATGAAATTTTGATAACTACCC
* *
87235 TATGAAATTGTGATAAACT-CCA
1 TATGAAATTTTGAT-AACTACCC
*
87257 TATGAAACTTTGATAAC
1 TATGAAATTTTGATAAC
87274 CTTAATATGA
Statistics
Matches: 64, Mismatches: 16, Indels: 5
0.75 0.19 0.06
Matches are distributed among these distances:
21 15 0.23
22 49 0.77
ACGTcount: A:0.39, C:0.14, G:0.12, T:0.35
Consensus pattern (22 bp):
TATGAAATTTTGATAACTACCC
Found at i:87367 original size:21 final size:22
Alignment explanation
Indices: 87342--87401 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 22
87332 TTCAATTGAG
87342 CCTATGA-TTTTTGATAACCTC
1 CCTATGAGTTTTTGATAACCTC
* * *
87363 CCTATGAGATTTTGTTAATCTC
1 CCTATGAGTTTTTGATAACCTC
* *
87385 CCTATAATTTTTTGATA
1 CCTATGAGTTTTTGATA
87402 TTATATTATG
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
21 7 0.23
22 24 0.77
ACGTcount: A:0.25, C:0.18, G:0.10, T:0.47
Consensus pattern (22 bp):
CCTATGAGTTTTTGATAACCTC
Found at i:92170 original size:13 final size:13
Alignment explanation
Indices: 92148--92182 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
92138 AAAATTCTAT
92148 TTGACCCTCCAAA
1 TTGACCCTCCAAA
* *
92161 TTGTCCCTCCAAC
1 TTGACCCTCCAAA
92174 TTGACCCTC
1 TTGACCCTC
92183 ATAATAATTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.20, C:0.43, G:0.09, T:0.29
Consensus pattern (13 bp):
TTGACCCTCCAAA
Found at i:93049 original size:12 final size:12
Alignment explanation
Indices: 93027--93055 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
93017 TTTTAGTGGT
93027 TAATC-TCATTA
1 TAATCATCATTA
93038 TAATCATCATTA
1 TAATCATCATTA
93050 TAATCA
1 TAATCA
93056 AAATAAATCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.41, C:0.17, G:0.00, T:0.41
Consensus pattern (12 bp):
TAATCATCATTA
Found at i:93980 original size:21 final size:24
Alignment explanation
Indices: 93951--94001 Score: 72
Period size: 22 Copynumber: 2.2 Consensus size: 24
93941 TTTTGAACTC
93951 ATTATT-TATTATTTAA-AATATAT
1 ATTATTAT-TTATTTAATAATATAT
93974 -TTATTATTTATTTAATAATATAT
1 ATTATTATTTATTTAATAATATAT
93997 ATTAT
1 ATTAT
94002 ATCTAAGATA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
22 13 0.52
23 8 0.32
24 4 0.16
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (24 bp):
ATTATTATTTATTTAATAATATAT
Found at i:93996 original size:25 final size:25
Alignment explanation
Indices: 93951--93999 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
93941 TTTTGAACTC
*
93951 ATTATTTATTATTTAAAATATATTT
1 ATTATTTATTATATAAAATATATTT
*
93976 ATTATTTATT-TAATAATATATATT
1 ATTATTTATTAT-ATAAAATATATT
94000 ATATCTAAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 1 0.05
25 20 0.95
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (25 bp):
ATTATTTATTATATAAAATATATTT
Found at i:94810 original size:25 final size:26
Alignment explanation
Indices: 94765--94817 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 26
94755 TTTTGAACTC
*
94765 ATTATTTATTATTTAAAATATA-TAT
1 ATTATTTATTATATAAAATATATTAT
*
94790 ATTATTTATT-TAATAATATATATTAT
1 ATTATTTATTAT-ATAAAATATATTAT
94816 AT
1 AT
94818 CTAAGATAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 1 0.04
25 18 0.75
26 5 0.21
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (26 bp):
ATTATTTATTATATAAAATATATTAT
Found at i:94815 original size:21 final size:22
Alignment explanation
Indices: 94735--94812 Score: 72
Period size: 22 Copynumber: 3.5 Consensus size: 22
94725 TTTAGTAATT
*
94735 AAATATATATTATTTATTTATTTTG
1 AAATATATA-TA-TTATTTA-TTTA
*
94760 AACTCAT-TAT-TTA-TTATTTA
1 AAAT-ATATATATTATTTATTTA
94780 AAATATATATATTATTTATTTA
1 AAATATATATATTATTTATTTA
94802 ATAATATATAT
1 A-AATATATAT
94813 TATATCTAAG
Statistics
Matches: 45, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
19 2 0.04
20 9 0.20
21 6 0.13
22 11 0.24
23 9 0.20
24 1 0.02
25 5 0.11
26 2 0.04
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.55
Consensus pattern (22 bp):
AAATATATATATTATTTATTTA
Found at i:104244 original size:15 final size:15
Alignment explanation
Indices: 104224--104267 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 15
104214 GATGATTTTC
104224 TTTCTTTTCTTGTT-T
1 TTTCTTTTCTT-TTAT
104239 TTTCTTTCTCTTTTAT
1 TTTCTTT-TCTTTTAT
104255 TTTCTTCTTCTTT
1 TTTCTT-TTCTTT
104268 CCTTTTTCTG
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
15 9 0.35
16 16 0.62
17 1 0.04
ACGTcount: A:0.02, C:0.18, G:0.02, T:0.77
Consensus pattern (15 bp):
TTTCTTTTCTTTTAT
Found at i:104260 original size:10 final size:10
Alignment explanation
Indices: 104219--104273 Score: 51
Period size: 11 Copynumber: 5.4 Consensus size: 10
104209 TTTTAGATGA
104219 TTTTC-TTTC
1 TTTTCTTTTC
104228 TTTTCTTGTT-
1 TTTTCTT-TTC
104238 TTTTCTTTCTC
1 TTTTCTTT-TC
*
104249 TTTTATTTTC
1 TTTTCTTTTC
*
104259 TTCTTCTTTCC
1 TT-TTCTTTTC
104270 TTTT
1 TTTT
104274 TCTGGGCCTA
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
9 6 0.16
10 15 0.39
11 17 0.45
ACGTcount: A:0.02, C:0.20, G:0.02, T:0.76
Consensus pattern (10 bp):
TTTTCTTTTC
Found at i:104262 original size:19 final size:19
Alignment explanation
Indices: 104219--104263 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
104209 TTTTAGATGA
* *
104219 TTTTCTTTCTTTTCTTGTT
1 TTTTCTTTCTCTTCTTATT
104238 TTTTCTTTCTCTT-TTATT
1 TTTTCTTTCTCTTCTTATT
104256 TTCTTCTT
1 TT-TTCTT
104264 CTTTCCTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 6 0.26
19 17 0.74
ACGTcount: A:0.02, C:0.18, G:0.02, T:0.78
Consensus pattern (19 bp):
TTTTCTTTCTCTTCTTATT
Found at i:104267 original size:16 final size:14
Alignment explanation
Indices: 104219--104267 Score: 53
Period size: 16 Copynumber: 3.2 Consensus size: 14
104209 TTTTAGATGA
*
104219 TTTTCTTTCTTTTC
1 TTTTTTTTCTTTTC
104233 TTGTTTTTTCTTTCTC
1 TT-TTTTTTCTTT-TC
104249 TTTTATTTTCTTCTTC
1 TTTT-TTTTCTT-TTC
104265 TTT
1 TTT
104268 CCTTTTTCTG
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
14 2 0.07
15 11 0.37
16 16 0.53
17 1 0.03
ACGTcount: A:0.02, C:0.18, G:0.02, T:0.78
Consensus pattern (14 bp):
TTTTTTTTCTTTTC
Found at i:107696 original size:14 final size:14
Alignment explanation
Indices: 107677--107704 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
107667 GAAAGCAAAG
107677 GCAACTAACAATTA
1 GCAACTAACAATTA
107691 GCAACTAACAATTA
1 GCAACTAACAATTA
107705 TAGTAAAACT
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:0.50, C:0.21, G:0.07, T:0.21
Consensus pattern (14 bp):
GCAACTAACAATTA
Found at i:108008 original size:29 final size:30
Alignment explanation
Indices: 107966--108033 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 30
107956 CCTGAGCCAT
* *
107966 ATTTGCACCATAAACTTTAATTT-TGGACA
1 ATTTGCACCATAAACTATAATTTACGGACA
107995 ATTTGCACTC-TAAACTATAATTTACGGACA
1 ATTTGCAC-CATAAACTATAATTTACGGACA
*
108025 ATATGCACC
1 ATTTGCACC
108034 CAATTGGACG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
29 21 0.62
30 13 0.38
ACGTcount: A:0.35, C:0.21, G:0.10, T:0.34
Consensus pattern (30 bp):
ATTTGCACCATAAACTATAATTTACGGACA
Found at i:108285 original size:2 final size:2
Alignment explanation
Indices: 108278--108321 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
108268 GCTATTATGT
108278 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
108320 TA
1 TA
108322 CTAATTATGG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:121941 original size:74 final size:74
Alignment explanation
Indices: 121827--121966 Score: 190
Period size: 74 Copynumber: 1.9 Consensus size: 74
121817 CCTACCAATC
* * * * * *
121827 TGCCAAGGATTCTTTTATATACATGCACTTCAAATGAAAAAAATGGAAAATTTATAATTTGGCCC
1 TGCCAAGAATTCTTTCATATACATGCACTTCAAATGAAAAAAATAGAAAAATTATAACTTAGCCC
121892 CTCCCAAAT
66 CTCCCAAAT
* * * *
121901 TGCCAAGAATTCTTTCATATATATGCATTTCAACTGAAAAAACTAGAAAAATTATAACTTAGCCC
1 TGCCAAGAATTCTTTCATATACATGCACTTCAAATGAAAAAAATAGAAAAATTATAACTTAGCCC
121966 C
66 C
121967 CTAAAAATTT
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
74 56 1.00
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.31
Consensus pattern (74 bp):
TGCCAAGAATTCTTTCATATACATGCACTTCAAATGAAAAAAATAGAAAAATTATAACTTAGCCC
CTCCCAAAT
Found at i:122170 original size:31 final size:31
Alignment explanation
Indices: 122134--122192 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
122124 TTTCGTTGAA
122134 TTTTTCTTTTTAACTCCTTAAAATAATTCTT
1 TTTTTCTTTTTAACTCCTTAAAATAATTCTT
* *
122165 TTTTTCTTTTTAGCTTCTTAAAATAATT
1 TTTTTCTTTTTAACTCCTTAAAATAATT
122193 TATCTTTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.25, C:0.14, G:0.02, T:0.59
Consensus pattern (31 bp):
TTTTTCTTTTTAACTCCTTAAAATAATTCTT
Found at i:124473 original size:21 final size:22
Alignment explanation
Indices: 124403--124483 Score: 101
Period size: 22 Copynumber: 3.6 Consensus size: 22
124393 TCCAATGTAG
124403 AAATATTGATAACCACACTATGA
1 AAAT-TTGATAACCACACTATGA
* *
124426 AAATTTGATAACCTCTCTATGA
1 AAATTTGATAACCACACTATGA
* *
124448 AAATTTGATAATCACACTGT-A
1 AAATTTGATAACCACACTATGA
124469 AAATTTTGATAACCA
1 AAA-TTTGATAACCA
124484 TAATCTTTGA
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
21 4 0.08
22 42 0.84
23 4 0.08
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.32
Consensus pattern (22 bp):
AAATTTGATAACCACACTATGA
Found at i:124537 original size:22 final size:22
Alignment explanation
Indices: 124511--124588 Score: 61
Period size: 22 Copynumber: 3.4 Consensus size: 22
124501 AAACAAATTG
124511 ATAACCTTCCTTTGAAATTTTA
1 ATAACCTTCCTTTGAAATTTTA
*
124533 ATAACCTAATCC-TTGTAATTTTGCA
1 ATAACCT--TCCTTTGAAATTTT--A
* * *
124558 ATAACC-ACTCTATGAAATTTTG
1 ATAACCTTC-CTTTGAAATTTTA
124580 ATAACCTTC
1 ATAACCTTC
124589 ATATAAAATT
Statistics
Matches: 43, Mismatches: 6, Indels: 13
0.69 0.10 0.21
Matches are distributed among these distances:
22 14 0.33
23 11 0.26
24 11 0.26
25 7 0.16
ACGTcount: A:0.33, C:0.21, G:0.06, T:0.40
Consensus pattern (22 bp):
ATAACCTTCCTTTGAAATTTTA
Found at i:124671 original size:22 final size:22
Alignment explanation
Indices: 124523--124715 Score: 85
Period size: 22 Copynumber: 8.6 Consensus size: 22
124513 AACCTTCCTT
* *
124523 TGAAATTTTAATAACCTAATCCT-
1 TGAAATTTTGATAACC-AA-CTTA
*
124546 TGTAATTTTGCAATAACC-ACTCTA
1 TGAAATTTTG--ATAACCAACT-TA
** *
124570 TGAAATTTTGATAACCTTCATA
1 TGAAATTTTGATAACCAACTTA
* * *
124592 TAAAATTTTGGTAACC-ACAATA
1 TGAAATTTTGATAACCAAC-TTA
* ** *
124614 TG-AATTTCTTATAACCTCCCTA
1 TGAAATTT-TGATAACCAACTTA
* *
124636 T-AAAATTTGGTAACCAGACTT-
1 TGAAATTTTGATAACCA-ACTTA
124657 TGAAATTTTGATAA-CAATCTTA
1 TGAAATTTTGATAACCAA-CTTA
* **
124679 TGAAATTTTTTATAACCTCCTTA
1 TGAAA-TTTTGATAACCAACTTA
124702 TGAAATTTTGATAA
1 TGAAATTTTGATAA
124716 TCTCATTATG
Statistics
Matches: 129, Mismatches: 26, Indels: 31
0.69 0.14 0.17
Matches are distributed among these distances:
20 1 0.01
21 18 0.14
22 65 0.50
23 29 0.22
24 10 0.08
25 6 0.05
ACGTcount: A:0.37, C:0.16, G:0.08, T:0.39
Consensus pattern (22 bp):
TGAAATTTTGATAACCAACTTA
Found at i:124671 original size:43 final size:44
Alignment explanation
Indices: 124559--124671 Score: 131
Period size: 44 Copynumber: 2.6 Consensus size: 44
124549 AATTTTGCAA
** *
124559 TAACCACTCTATGAAATTTTGATAACCTTCATATAAAATTTTGG
1 TAACCACAATATGAAATTTTGATAACCTCCATATAAAATTTTGG
* *
124603 TAACCACAATATG-AATTTCTTATAACCTCCCTATAAAA-TTTGG
1 TAACCACAATATGAAATTT-TGATAACCTCCATATAAAATTTTGG
* * *
124646 TAACCAGACTTTGAAATTTTGATAAC
1 TAACCACAATATGAAATTTTGATAAC
124672 AATCTTATGA
Statistics
Matches: 58, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
43 26 0.45
44 32 0.55
ACGTcount: A:0.37, C:0.18, G:0.09, T:0.36
Consensus pattern (44 bp):
TAACCACAATATGAAATTTTGATAACCTCCATATAAAATTTTGG
Found at i:124693 original size:23 final size:23
Alignment explanation
Indices: 124657--124735 Score: 78
Period size: 22 Copynumber: 3.6 Consensus size: 23
124647 AACCAGACTT
124657 TGAAA-TTTTGATAACAAT-CTTA
1 TGAAATTTTTGATAAC-ATCCTTA
* *
124679 TGAAATTTTTTATAACCTCCTTA
1 TGAAATTTTTGATAACATCCTTA
*
124702 TGAAA-TTTTGATAATC-TCATTA
1 TGAAATTTTTGATAA-CATCCTTA
124724 TG-AATTTTTGAT
1 TGAAATTTTTGAT
124736 TACTAAACAA
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
21 2 0.04
22 28 0.57
23 19 0.39
ACGTcount: A:0.34, C:0.10, G:0.09, T:0.47
Consensus pattern (23 bp):
TGAAATTTTTGATAACATCCTTA
Found at i:124856 original size:22 final size:22
Alignment explanation
Indices: 124807--124858 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
124797 AATAATTTTC
*
124807 CTATGAAAGCTTGATAATCTCG
1 CTATGAAAGCTTGATAATCTCA
* * *
124829 CCATGAAAGTTTGATAATGTCA
1 CTATGAAAGCTTGATAATCTCA
124851 CTATGAAA
1 CTATGAAA
124859 TTTTTTGATA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (22 bp):
CTATGAAAGCTTGATAATCTCA
Found at i:125432 original size:19 final size:20
Alignment explanation
Indices: 125408--125462 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
125398 ATATAAAAAT
125408 ATAGTGTGATTATCAA-TTG
1 ATAGTGTGATTATCAATTTG
* * * *
125427 ATAGTGCGGTTACCAATTTT
1 ATAGTGTGATTATCAATTTG
*
125447 ATGGTGTGATTATCAA
1 ATAGTGTGATTATCAA
125463 AATTTCACAC
Statistics
Matches: 27, Mismatches: 8, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
19 13 0.48
20 14 0.52
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.40
Consensus pattern (20 bp):
ATAGTGTGATTATCAATTTG
Found at i:125483 original size:22 final size:22
Alignment explanation
Indices: 125458--125511 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 22
125448 TGGTGTGATT
*
125458 ATCAAAATTTCACACTGAGGTA
1 ATCAAAATTTCAAACTGAGGTA
* *
125480 ATCAAAATTTCAAAGTGTGGTA
1 ATCAAAATTTCAAACTGAGGTA
125502 ATCAAAATTT
1 ATCAAAATTT
125512 TATCTAACCC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.31
Consensus pattern (22 bp):
ATCAAAATTTCAAACTGAGGTA
Found at i:126119 original size:17 final size:17
Alignment explanation
Indices: 126097--126136 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
126087 ATCACCCCCC
*
126097 AGATCACTAGTGAT-CTA
1 AGATCACCAGTGATGC-A
126114 AGATCACCAGTGATGCA
1 AGATCACCAGTGATGCA
126131 AGATCA
1 AGATCA
126137 ATGGTAATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 20 0.95
18 1 0.05
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.23
Consensus pattern (17 bp):
AGATCACCAGTGATGCA
Found at i:126558 original size:18 final size:18
Alignment explanation
Indices: 126535--126574 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
126525 CATGAGAAAG
*
126535 AAAAAATGAGATGCTGGA
1 AAAAAATGAGATGCAGGA
*
126553 AAAAAATGGGATGCAGGA
1 AAAAAATGAGATGCAGGA
126571 AAAA
1 AAAA
126575 GAAATTAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.55, C:0.05, G:0.28, T:0.12
Consensus pattern (18 bp):
AAAAAATGAGATGCAGGA
Found at i:127052 original size:28 final size:27
Alignment explanation
Indices: 127010--127064 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 27
127000 TTTTTATTTG
*
127010 AGTTTGTTTTTGAGTCGGTTT-GAGTC
1 AGTTTGTTTTTGAGTCAGTTTCGAGTC
127036 AGTTTGTTTTTTCGAGTCAGTTTCGAGTC
1 AGTTTG-TTTTT-GAGTCAGTTTCGAGTC
127065 TAGTCTCAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
26 6 0.24
27 5 0.20
28 9 0.36
29 5 0.20
ACGTcount: A:0.13, C:0.11, G:0.27, T:0.49
Consensus pattern (27 bp):
AGTTTGTTTTTGAGTCAGTTTCGAGTC
Found at i:128612 original size:5 final size:5
Alignment explanation
Indices: 128602--128654 Score: 106
Period size: 5 Copynumber: 10.6 Consensus size: 5
128592 TATATAGTAG
128602 TAAGA TAAGA TAAGA TAAGA TAAGA TAAGA TAAGA TAAGA TAAGA TAAGA
1 TAAGA TAAGA TAAGA TAAGA TAAGA TAAGA TAAGA TAAGA TAAGA TAAGA
128652 TAA
1 TAA
128655 TAAGATTATG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 48 1.00
ACGTcount: A:0.60, C:0.00, G:0.19, T:0.21
Consensus pattern (5 bp):
TAAGA
Found at i:133354 original size:21 final size:21
Alignment explanation
Indices: 133330--133379 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
133320 TTCTTTTTAT
133330 TAAGTTTACCCTTAATTTCAC
1 TAAGTTTACCCTTAATTTCAC
*
133351 TAAGTTTAGCCTTAATTTCAC
1 TAAGTTTACCCTTAATTTCAC
133372 TAAGTTTA
1 TAAGTTTA
133380 ACCCCAAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.30, C:0.18, G:0.08, T:0.44
Consensus pattern (21 bp):
TAAGTTTACCCTTAATTTCAC
Done.