Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
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: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 59 of 211
Found at i:15923952 original size:19 final size:19
Alignment explanation
Indices: 15923919--15923961 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
15923909 TGTTTTATGT
15923919 ATATATATAATATAATATA
1 ATATATATAATATAATATA
*
15923938 TTATAT-TAATAATAATATA
1 ATATATATAAT-ATAATATA
15923957 ATATA
1 ATATA
15923962 AAAACATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 4 0.19
19 17 0.81
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
ATATATATAATATAATATA
Found at i:15925958 original size:14 final size:14
Alignment explanation
Indices: 15925938--15925972 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
15925928 AATCAACCTT
15925938 CACCTCCACCAATC
1 CACCTCCACCAATC
* *
15925952 TACCTCCACCGATC
1 CACCTCCACCAATC
15925966 CACCTCC
1 CACCTCC
15925973 GGTCCTCCAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.23, C:0.57, G:0.03, T:0.17
Consensus pattern (14 bp):
CACCTCCACCAATC
Found at i:15927708 original size:24 final size:24
Alignment explanation
Indices: 15927681--15927728 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
15927671 GAATTTTTAA
15927681 GTTTTAAATTGTTTAAACTCAATT
1 GTTTTAAATTGTTTAAACTCAATT
*
15927705 GTTTTAAATTGTTTAAATTCAATT
1 GTTTTAAATTGTTTAAACTCAATT
15927729 TTTAAGTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.33, C:0.06, G:0.08, T:0.52
Consensus pattern (24 bp):
GTTTTAAATTGTTTAAACTCAATT
Found at i:15929360 original size:12 final size:12
Alignment explanation
Indices: 15929343--15929368 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
15929333 TATTTACTTA
15929343 TGATTATTGATG
1 TGATTATTGATG
15929355 TGATTATTGATG
1 TGATTATTGATG
15929367 TG
1 TG
15929369 GATTCAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.27, T:0.50
Consensus pattern (12 bp):
TGATTATTGATG
Found at i:15934766 original size:31 final size:30
Alignment explanation
Indices: 15934731--15934790 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
15934721 GGAGGTGGGA
*
15934731 TGGGAAGAGAATAAAATTTTTAAGGGAAAAG
1 TGGG-AGAGAATAAAAATTTTAAGGGAAAAG
* **
15934762 TGGGAGGGAATAAAAATTTTGGGGGAAAA
1 TGGGAGAGAATAAAAATTTTAAGGGAAAA
15934791 TAAAAGGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.45, C:0.00, G:0.33, T:0.22
Consensus pattern (30 bp):
TGGGAGAGAATAAAAATTTTAAGGGAAAAG
Found at i:15935662 original size:24 final size:24
Alignment explanation
Indices: 15935635--15935686 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
15935625 TTAGTAAGTC
*
15935635 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
15935659 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
15935683 AAAT
1 AAAT
15935687 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:15937818 original size:6 final size:6
Alignment explanation
Indices: 15937798--15937844 Score: 80
Period size: 6 Copynumber: 8.2 Consensus size: 6
15937788 CTTAAAACTG
15937798 ATCC-A ATCC-A ATCCAA ATCCAA ATCCAA ATCCAA ATCCAA ATCCAA
1 ATCCAA ATCCAA ATCCAA ATCCAA ATCCAA ATCCAA ATCCAA ATCCAA
15937844 A
1 A
15937845 AAACCCAAAG
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 9 0.22
6 32 0.78
ACGTcount: A:0.49, C:0.34, G:0.00, T:0.17
Consensus pattern (6 bp):
ATCCAA
Found at i:15941712 original size:5 final size:5
Alignment explanation
Indices: 15941702--15941726 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
15941692 CAATCGTTAA
15941702 CAAAT CAAAT CAAAT CAAAT CAAAT
1 CAAAT CAAAT CAAAT CAAAT CAAAT
15941727 ATATACATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.20, G:0.00, T:0.20
Consensus pattern (5 bp):
CAAAT
Found at i:15948308 original size:42 final size:42
Alignment explanation
Indices: 15948232--15948361 Score: 170
Period size: 42 Copynumber: 3.1 Consensus size: 42
15948222 TTTTAGAAAT
** * *
15948232 AAACGCCGCTATAGGTCGAGACCTTTAGAGACGCTTTTCCCAA
1 AAACGCCGCTATAGAAC-AAACCTTTAGCGACGCTTTTCCCAA
* *
15948275 AAACGCCGCTATAGAACAAACCTTTAGCGACGCTTTTTCCAT
1 AAACGCCGCTATAGAACAAACCTTTAGCGACGCTTTTCCCAA
* * *
15948317 AAACGCCGCTATAAAACAAACCTTTAGCGACGCTTCTCACAA
1 AAACGCCGCTATAGAACAAACCTTTAGCGACGCTTTTCCCAA
15948359 AAA
1 AAA
15948362 TGCCACTAAA
Statistics
Matches: 76, Mismatches: 11, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
42 61 0.80
43 15 0.20
ACGTcount: A:0.34, C:0.28, G:0.15, T:0.22
Consensus pattern (42 bp):
AAACGCCGCTATAGAACAAACCTTTAGCGACGCTTTTCCCAA
Found at i:15951391 original size:107 final size:107
Alignment explanation
Indices: 15951261--15951504 Score: 253
Period size: 108 Copynumber: 2.3 Consensus size: 107
15951251 ATTGCTTACC
* * * * * *
15951261 TTTTGTGGCGTTTTTTTAAAAAAAATCAC-AAAATATTATTTCATTTTG-ATCAATACGACGCCG
1 TTTTGTGGCG-TTTTTTATAAAAAAGC-CGAAAAAATTATTTCATTTGGAAT-AAAACGACACCG
* * * *
15951324 TTTTGCTTTGCTAAAAATGGCAC-CATTTTTTAAAGTAAAATT-GTT
63 TTTTGCTAT-AT-AAAATGGCACTAATTTTTTAAACTAAAATTAGTT
* * **
15951369 TTTTGTGGCGTTTTTTATAAAAACGCCGTAAAAAATTATTTTATTTGGAATAAAACGACATTGTT
1 TTTTGTGGCGTTTTTTATAAAAAAGCCG-AAAAAATTATTTCATTTGGAATAAAACGACACCGTT
* *
15951434 TTGCTATATAAAATGGCGCTAATTTTTTAAACTAAAATTATTT
65 TTGCTATATAAAATGGCACTAATTTTTTAAACTAAAATTAGTT
*
15951477 TTTTGTGGCGTTTTTTATAAAAACGCCG
1 TTTTGTGGCGTTTTTTATAAAAAAGCCG
15951505 CTATTGCTCA
Statistics
Matches: 115, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
106 10 0.09
107 31 0.27
108 72 0.63
109 2 0.02
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.42
Consensus pattern (107 bp):
TTTTGTGGCGTTTTTTATAAAAAAGCCGAAAAAATTATTTCATTTGGAATAAAACGACACCGTTT
TGCTATATAAAATGGCACTAATTTTTTAAACTAAAATTAGTT
Found at i:15951407 original size:108 final size:108
Alignment explanation
Indices: 15951290--15951504 Score: 265
Period size: 108 Copynumber: 2.0 Consensus size: 108
15951280 AAAAAATCAC
* * * * * * *
15951290 AAAATATTATTTCATTTTG-ATCAATACGACGCCGTTTTGCTTTGCTAAAAATGGCAC-CATTTT
1 AAAAAATTATTTCATTTGGAAT-AAAACGACACCGTTTTGCTAT-AT-AAAATGGCACTAATTTT
*
15951353 TTAAAGTAAAATT-GTTTTTTGTGGCGTTTTTTATAAAAACGCCGT
63 TTAAACTAAAATTAGTTTTTTGTGGCGTTTTTTATAAAAACGCCGT
* ** *
15951398 AAAAAATTATTTTATTTGGAATAAAACGACATTGTTTTGCTATATAAAATGGCGCTAATTTTTTA
1 AAAAAATTATTTCATTTGGAATAAAACGACACCGTTTTGCTATATAAAATGGCACTAATTTTTTA
*
15951463 AACTAAAATTATTTTTTTGTGGCGTTTTTTATAAAAACGCCG
66 AACTAAAATTAGTTTTTTGTGGCGTTTTTTATAAAAACGCCG
15951505 CTATTGCTCA
Statistics
Matches: 91, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
106 9 0.10
107 18 0.20
108 62 0.68
109 2 0.02
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.42
Consensus pattern (108 bp):
AAAAAATTATTTCATTTGGAATAAAACGACACCGTTTTGCTATATAAAATGGCACTAATTTTTTA
AACTAAAATTAGTTTTTTGTGGCGTTTTTTATAAAAACGCCGT
Found at i:15951547 original size:132 final size:133
Alignment explanation
Indices: 15951400--15951638 Score: 358
Period size: 132 Copynumber: 1.8 Consensus size: 133
15951390 AACGCCGTAA
* * * *
15951400 AAAATTATTTTATTTGGAATAAAACGACATTGTTTTGCTAT-AT-AAAATGGCGCTAATTTTTTA
1 AAAATTATTTCATTTGGAATAAAACGACACTATTTTGCTATGATAAAAATCGCGCT-ATTTTTTA
*
15951463 AACTAAAATTATTTTTTTGTGGCG-TTTTTTATAAAAACGCCGCTATTGCTCACCTTTTGCGGCG
65 AACTAAAATTA-TTTTTTGTGGCGTTTTTTTATAAAAACACCGCTATTGCTCACCTTTTGCGGCG
15951527 TTTTT
129 TTTTT
* *
15951532 AAAATTATTTCATTTGGAATAAAACGACACTATTTTGCTATGCTAAAAATCTCGCTATTTTTTAA
1 AAAATTATTTCATTTGGAATAAAACGACACTATTTTGCTATGATAAAAATCGCGCTATTTTTTAA
* *
15951597 AGTAAATTTATTTTTTGTGGCGTTTTTTTATAAAAACACCGC
66 ACTAAAATTATTTTTTGTGGCGTTTTTTTATAAAAACACCGC
15951639 AAAAAATTAT
Statistics
Matches: 95, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
132 50 0.53
133 36 0.38
134 9 0.09
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.43
Consensus pattern (133 bp):
AAAATTATTTCATTTGGAATAAAACGACACTATTTTGCTATGATAAAAATCGCGCTATTTTTTAA
ACTAAAATTATTTTTTGTGGCGTTTTTTTATAAAAACACCGCTATTGCTCACCTTTTGCGGCGTT
TTT
Found at i:15952254 original size:15 final size:15
Alignment explanation
Indices: 15952219--15952257 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
15952209 AACATTTAAA
15952219 CCATAAACC-ATAAC
1 CCATAAACCTATAAC
* *
15952233 CCCTAAACCTATAAT
1 CCATAAACCTATAAC
15952248 CCATAAACCT
1 CCATAAACCT
15952258 TAAAATGGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.44, C:0.36, G:0.00, T:0.21
Consensus pattern (15 bp):
CCATAAACCTATAAC
Found at i:15952261 original size:22 final size:21
Alignment explanation
Indices: 15952214--15952305 Score: 62
Period size: 22 Copynumber: 4.3 Consensus size: 21
15952204 ACACCAACAT
*
15952214 TTAAACCATAAACCATAACCC
1 TTAAACCATAAACCATAAACC
* *
15952235 CTAAACCTATAATCCATAAACC
1 TTAAACC-ATAAACCATAAACC
***
15952257 TTAAAATGGTAACACC-TAAACC
1 TT-AAACCATAA-ACCATAAACC
*
15952279 TTAAACTC-TAAACCATATACC
1 TTAAAC-CATAAACCATAAACC
*
15952300 CTAAAC
1 TTAAAC
15952306 TATAGTGATA
Statistics
Matches: 54, Mismatches: 12, Indels: 10
0.71 0.16 0.13
Matches are distributed among these distances:
20 3 0.06
21 22 0.41
22 24 0.44
23 5 0.09
ACGTcount: A:0.46, C:0.29, G:0.02, T:0.23
Consensus pattern (21 bp):
TTAAACCATAAACCATAAACC
Found at i:15952545 original size:41 final size:41
Alignment explanation
Indices: 15952488--15952566 Score: 133
Period size: 41 Copynumber: 1.9 Consensus size: 41
15952478 TTTTAAATCT
15952488 CTGAGCATTAGCGGCGCTTT-TCCAAAAACGCCGCTAAAGAC
1 CTGAGCATTAGCGGCGCTTTCT-CAAAAACGCCGCTAAAGAC
*
15952529 CTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAA
1 CTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAA
15952567 TCCCCGAAAG
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
41 35 0.97
42 1 0.03
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.22
Consensus pattern (41 bp):
CTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGAC
Found at i:15952766 original size:114 final size:114
Alignment explanation
Indices: 15952498--15953176 Score: 936
Period size: 114 Copynumber: 6.1 Consensus size: 114
15952488 CTGAGCATTA
**
15952498 GCGGCGCTTTTCCAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGC
1 GCGGCGCTTCCCCAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGC
* *
15952563 TAAATCCCCGAAAGCTCA-AAAACGGCGTCGTTGGGTTTAGG-TTTTTT
66 TAAATCCCCGAAAGCTCAGAAAACGGCATCGTTGGGCTTAGGTTTTTTT
*** * * * * *
15952610 GCGGCGCTTCTTTAAAAACACCGCTAAAGACCGGAGCATTAGCGGTGCTTTCTTAAAAACACCGT
1 GCGGCGCTTCCCCAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGC
*
15952675 TAAATCCCCGAAAGCTCAGAAAACGGTATCGTTGGGCTTAGGTTTTTTT
66 TAAATCCCCGAAAGCTCAGAAAACGGCATCGTTGGGCTTAGGTTTTTTT
*
15952724 GCGGTGCTTCCCCAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGC
1 GCGGCGCTTCCCCAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGC
* *
15952789 TAAATCACCGAAAGCT-A-AAAA----A----AGGGCTTAGGTTTTTTT
66 TAAATCCCCGAAAGCTCAGAAAACGGCATCGTTGGGCTTAGGTTTTTTT
* * * * *
15952828 GCGGCGCTTTCCCAAAAACGCCGCTAAATATCTGAACATTAGTGGCGCTTTCTTAAAAACGCCGC
1 GCGGCGCTTCCCCAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGC
* ** *
15952893 TAGATCCCCGAAAGCTCAGAAAACGGTGTCGTTGGGCTTAGGTTTTTTG
66 TAAATCCCCGAAAGCTCAGAAAACGGCATCGTTGGGCTTAGGTTTTTTT
* * * * *
15952942 GTGGCGCTT-CCCAAAAACGCCGCTAAAGACCTAAGCTTTAGCGGCGCTTCCTTAAAAACGTCGC
1 GCGGCGCTTCCCCAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGC
* * *
15953006 TAAATCCCCGAAAGCTCAGAAAACGACATCGTTGGGCCTAGATTTTTTT
66 TAAATCCCCGAAAGCTCAGAAAACGGCATCGTTGGGCTTAGGTTTTTTT
*
15953055 GCGGCGCTTCCCTAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGC
1 GCGGCGCTTCCCCAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGC
* *
15953120 TAAATCACCGAAAGCTCAGAAAACGACATCGTTGGGCTTAGG-TTTTTT
66 TAAATCCCCGAAAGCTCAGAAAACGGCATCGTTGGGCTTAGGTTTTTTT
15953168 GCGGCGCTT
1 GCGGCGCTT
15953177 TGTGGAAAAC
Statistics
Matches: 496, Mismatches: 58, Indels: 25
0.86 0.10 0.04
Matches are distributed among these distances:
104 89 0.18
105 1 0.00
106 4 0.01
108 1 0.00
112 79 0.16
113 133 0.27
114 189 0.38
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.25
Consensus pattern (114 bp):
GCGGCGCTTCCCCAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGC
TAAATCCCCGAAAGCTCAGAAAACGGCATCGTTGGGCTTAGGTTTTTTT
Found at i:15953013 original size:113 final size:113
Alignment explanation
Indices: 15952812--15953176 Score: 545
Period size: 113 Copynumber: 3.2 Consensus size: 113
15952802 GCTAAAAAAA
* * *
15952812 GGGCTTAGGTTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAATATCTGAA-CATTAGTGGCGC
1 GGGCTTAGGTTTTTTTGCGGCGC-TTCCCAAAAACGCCGCTAAAGACCT-AAGCATTAGCGGCGC
* ***
15952876 TTTCTTAAAAACGCCGCTAGATCCCCGAAAGCTCAGAAAACGGTGTCGTT
64 TTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGACATCGTT
* * *
15952926 GGGCTTAGGTTTTTTGGTGGCGCTTCCCAAAAACGCCGCTAAAGACCTAAGCTTTAGCGGCGCTT
1 GGGCTTAGGTTTTTTTGCGGCGCTTCCCAAAAACGCCGCTAAAGACCTAAGCATTAGCGGCGCTT
* *
15952991 CCTTAAAAACGTCGCTAAATCCCCGAAAGCTCAGAAAACGACATCGTT
66 TCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGACATCGTT
* * *
15953039 GGGCCTAGATTTTTTTGCGGCGCTTCCCTAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCT
1 GGGCTTAGGTTTTTTTGCGGCGCTTCCC-AAAAACGCCGCTAAAGACCTAAGCATTAGCGGCGCT
*
15953104 TTCTTAAAAACGCCGCTAAATCACCGAAAGCTCAGAAAACGACATCGTT
65 TTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGACATCGTT
15953153 GGGCTTAGG-TTTTTTGCGGCGCTT
1 GGGCTTAGGTTTTTTTGCGGCGCTT
15953177 TGTGGAAAAC
Statistics
Matches: 226, Mismatches: 23, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
112 2 0.01
113 116 0.51
114 108 0.48
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.26
Consensus pattern (113 bp):
GGGCTTAGGTTTTTTTGCGGCGCTTCCCAAAAACGCCGCTAAAGACCTAAGCATTAGCGGCGCTT
TCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGACATCGTT
Found at i:15953099 original size:331 final size:330
Alignment explanation
Indices: 15952498--15953135 Score: 1017
Period size: 331 Copynumber: 1.9 Consensus size: 330
15952488 CTGAGCATTA
* *
15952498 GCGGCGCTTTTCCAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGC
1 GCGGCGCTTTCCCAAAAACGCCGCTAAAGACCTGAACATTAGCGGCGCTTTCTTAAAAACGCCGC
* **
15952563 TAAATCCCCGAAAGCTCAAAAACGGCGTCGTTGGGTTTAGGTTTTTTGCGGCGCTTCTTTAAAAA
66 TAAATCCCCGAAAGCTCAAAAACGGCGTCGTTGGGCTTAGGTTTTTTGCGGCGCTTCTCCAAAAA
* * * *
15952628 CACCGCTAAAGACCGGAGCATTAGCGGTGCTTTCTTAAAAACACCGTTAAATCCCCGAAAGCTCA
131 CACCGCTAAAGACCGAAGCATTAGCGGCGCTTCCTTAAAAACACCGCTAAATCCCCGAAAGCTCA
** * * *
15952693 GAAAACGGTATCGTTGGGCTTAGGTTTTTTTGCGGTGCTTCCCCAAAAACGCCGCTAAAGACCTG
196 GAAAACGACATCGTTGGGCCTAGATTTTTTTGCGGCGCTTCCCCAAAAACGCCGCTAAAGACCTG
15952758 AGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCACCGAAAGCTAAAAAAAGGGCTTAGGTT
261 AGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCACCGAAAGCTAAAAAAAGGGCTTAGGTT
15952823 TTTTT
326 TTTTT
* * *
15952828 GCGGCGCTTTCCCAAAAACGCCGCTAAATATCTGAACATTAGTGGCGCTTTCTTAAAAACGCCGC
1 GCGGCGCTTTCCCAAAAACGCCGCTAAAGACCTGAACATTAGCGGCGCTTTCTTAAAAACGCCGC
* * *
15952893 TAGATCCCCGAAAGCTCAGAAAACGGTGTCGTTGGGCTTAGGTTTTTTGGTGGCGCTTC-CCAAA
66 TAAATCCCCGAAAGCTCA-AAAACGGCGTCGTTGGGCTTAGGTTTTTT-GCGGCGCTTCTCCAAA
* * * **
15952957 AACGCCGCTAAAGACCTAAGCTTTAGCGGCGCTTCCTTAAAAACGTCGCTAAATCCCCGAAAGCT
129 AACACCGCTAAAGACCGAAGCATTAGCGGCGCTTCCTTAAAAACACCGCTAAATCCCCGAAAGCT
*
15953022 CAGAAAACGACATCGTTGGGCCTAGATTTTTTTGCGGCGCTTCCCTAAAAACGCCGCTAAAGACC
194 CAGAAAACGACATCGTTGGGCCTAGATTTTTTTGCGGCGCTTCCCCAAAAACGCCGCTAAAGACC
15953087 TGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCACCGAAAGCT
259 TGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCACCGAAAGCT
15953136 CAGAAAACGA
Statistics
Matches: 280, Mismatches: 26, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
330 77 0.28
331 194 0.69
332 9 0.03
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (330 bp):
GCGGCGCTTTCCCAAAAACGCCGCTAAAGACCTGAACATTAGCGGCGCTTTCTTAAAAACGCCGC
TAAATCCCCGAAAGCTCAAAAACGGCGTCGTTGGGCTTAGGTTTTTTGCGGCGCTTCTCCAAAAA
CACCGCTAAAGACCGAAGCATTAGCGGCGCTTCCTTAAAAACACCGCTAAATCCCCGAAAGCTCA
GAAAACGACATCGTTGGGCCTAGATTTTTTTGCGGCGCTTCCCCAAAAACGCCGCTAAAGACCTG
AGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCACCGAAAGCTAAAAAAAGGGCTTAGGTT
TTTTT
Found at i:15955700 original size:21 final size:21
Alignment explanation
Indices: 15955674--15955729 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
15955664 AACAGCGGTG
*
15955674 GCGGTGAGATTAGTTACTATA
1 GCGGTGAGATTAGATACTATA
* *
15955695 GCGGTGAGATTGGATACTGTA
1 GCGGTGAGATTAGATACTATA
15955716 GCGGTGAGATTAGA
1 GCGGTGAGATTAGA
15955730 AACAGTGGTG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.27, C:0.09, G:0.36, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTATA
Found at i:15955852 original size:9 final size:9
Alignment explanation
Indices: 15955838--15955872 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
15955828 ATAGAAGTTT
15955838 TTTAAATTA
1 TTTAAATTA
15955847 TTTAAATTA
1 TTTAAATTA
15955856 TTTAAAATTA
1 TTT-AAATTA
*
15955866 TTAAAAT
1 TTTAAAT
15955873 ATGTGAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
9 16 0.67
10 8 0.33
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (9 bp):
TTTAAATTA
Found at i:15962255 original size:32 final size:32
Alignment explanation
Indices: 15962179--15962264 Score: 130
Period size: 26 Copynumber: 2.9 Consensus size: 32
15962169 TAAAAAATTC
15962179 AAGTATTAATCAATTGTTATCACCAGTTTAAT
1 AAGTATTAATCAATTGTTATCACCAGTTTAAT
15962211 AAG-A--AA-C-A-TGTTATCACCAGTTTAAT
1 AAGTATTAATCAATTGTTATCACCAGTTTAAT
15962237 AAGTATTAATCAATTGTTATCACCAGTT
1 AAGTATTAATCAATTGTTATCACCAGTT
15962265 GGATGGTGAA
Statistics
Matches: 48, Mismatches: 0, Indels: 12
0.80 0.00 0.20
Matches are distributed among these distances:
26 21 0.44
27 2 0.04
28 1 0.02
29 4 0.08
30 1 0.02
31 2 0.04
32 17 0.35
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.37
Consensus pattern (32 bp):
AAGTATTAATCAATTGTTATCACCAGTTTAAT
Found at i:15969959 original size:18 final size:18
Alignment explanation
Indices: 15969936--15969976 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
15969926 AAATCAAAGA
15969936 GCAAACTAGACCTTTCAG
1 GCAAACTAGACCTTTCAG
*
15969954 GCAAACTAGGCCTTTCAG
1 GCAAACTAGACCTTTCAG
*
15969972 TCAAA
1 GCAAA
15969977 ATTTTTCATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.22
Consensus pattern (18 bp):
GCAAACTAGACCTTTCAG
Found at i:15972198 original size:43 final size:43
Alignment explanation
Indices: 15972029--15972199 Score: 129
Period size: 43 Copynumber: 4.0 Consensus size: 43
15972019 CATAGGATTC
* * **
15972029 CGATATGTGATTACGTGTAAGACCACGTCTATGACGTTGGCAT
1 CGATATTTGATTTCGTGTAAGACCACGTCTGGGACGTTGGCAT
* * * * *
15972072 CGAT-TTGCGATTTACGTGTAAGACCATGTCT-GGACATCGACAT
1 CGATATT-TGATTT-CGTGTAAGACCACGTCTGGGACGTTGGCAT
** * *
15972115 CG-TATAGGAGTTT-GTGTAAGACC-CTGTCGGGGATAG-TGGCAT
1 CGATATTTGA-TTTCGTGTAAGACCAC-GTCTGGGA-CGTTGGCAT
*
15972157 CGATATTTGATTTCATGTAAGACCACGTCTGGGACGTTGGCAT
1 CGATATTTGATTTCGTGTAAGACCACGTCTGGGACGTTGGCAT
15972200 TGAATGAGCT
Statistics
Matches: 96, Mismatches: 21, Indels: 22
0.69 0.15 0.16
Matches are distributed among these distances:
41 13 0.14
42 17 0.18
43 49 0.51
44 17 0.18
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.30
Consensus pattern (43 bp):
CGATATTTGATTTCGTGTAAGACCACGTCTGGGACGTTGGCAT
Found at i:15974582 original size:54 final size:53
Alignment explanation
Indices: 15974496--15974610 Score: 203
Period size: 54 Copynumber: 2.1 Consensus size: 53
15974486 GTTGAGACTA
15974496 ATTCAGAATAGGTACAAAATCGATGACAACTCTACAGAGAGGTAGAACACCGAT
1 ATTC-GAATAGGTACAAAATCGATGACAACTCTACAGAGAGGTAGAACACCGAT
*
15974550 ATTCGAATAGGTTACAAAATCGATGACAACTCTACAGAGAGGTAGAAGACCGAT
1 ATTCGAATAGG-TACAAAATCGATGACAACTCTACAGAGAGGTAGAACACCGAT
15974604 ATTCGAA
1 ATTCGAA
15974611 AATAATGTTG
Statistics
Matches: 59, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
53 7 0.12
54 52 0.88
ACGTcount: A:0.42, C:0.17, G:0.21, T:0.20
Consensus pattern (53 bp):
ATTCGAATAGGTACAAAATCGATGACAACTCTACAGAGAGGTAGAACACCGAT
Found at i:15977511 original size:25 final size:25
Alignment explanation
Indices: 15977483--15977567 Score: 68
Period size: 25 Copynumber: 3.4 Consensus size: 25
15977473 AGATAAAAAT
15977483 TATAAAATATAAAAATATATATATG
1 TATAAAATATAAAAATATATATATG
* * *
15977508 TAT-ATATAAGAAAAATATATATGTG
1 TATAAAAT-ATAAAAATATATATATG
* * * *
15977533 TGTGAATTATAAAAA-ATA-ATATA
1 TATAAAATATAAAAATATATATATG
15977556 TATATAAATATA
1 TATA-AAATATA
15977568 CATATTTTAA
Statistics
Matches: 45, Mismatches: 12, Indels: 7
0.70 0.19 0.11
Matches are distributed among these distances:
23 5 0.11
24 12 0.27
25 26 0.58
26 2 0.04
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.36
Consensus pattern (25 bp):
TATAAAATATAAAAATATATATATG
Found at i:15977529 original size:23 final size:22
Alignment explanation
Indices: 15977489--15977531 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
15977479 AAATTATAAA
*
15977489 ATATAAAAATATATATATGTAT
1 ATATAAAAAAATATATATGTAT
15977511 ATATAAGAAAAATATATATGT
1 ATATAA-AAAAATATATATGT
15977532 GTGTGAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (22 bp):
ATATAAAAAAATATATATGTAT
Found at i:15978222 original size:23 final size:22
Alignment explanation
Indices: 15978194--15978238 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
15978184 AAATTAAATA
15978194 TCTAAGATTACAAAATCATATCT
1 TCTAAGATTAC-AAATCATATCT
* *
15978217 TCTAAGATTGCATATCATATCT
1 TCTAAGATTACAAATCATATCT
15978239 AAGATTGCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.38, C:0.18, G:0.07, T:0.38
Consensus pattern (22 bp):
TCTAAGATTACAAATCATATCT
Found at i:15978241 original size:19 final size:19
Alignment explanation
Indices: 15978217--15978270 Score: 108
Period size: 19 Copynumber: 2.8 Consensus size: 19
15978207 AATCATATCT
15978217 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
15978236 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
15978255 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
15978271 CTTGAAGATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 35 1.00
ACGTcount: A:0.35, C:0.17, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:15979450 original size:50 final size:49
Alignment explanation
Indices: 15979029--15979455 Score: 225
Period size: 50 Copynumber: 8.5 Consensus size: 49
15979019 TCTGCTTCGT
* * * * * *
15979029 TGCAATGCCAGGGAAACAAGATTCGCTACCTT-TAGCTTTAATCTGTTCTAC
1 TGCAATGCCAGGG-AATAAGATTCGC--CGTTGTGGCTTCAATCTATTCCAC
* * * ** * **
15979080 TGTAACGCCAAGGAGATAAGATTTACCGTTGTGGCTTTAATCTATTTAAC
1 TGCAATGCCAGGGA-ATAAGATTCGCCGTTGTGGCTTCAATCTATTCCAC
* * * * * * *
15979130 TGCAATGTCGGGGAA-ACCAGATTCGCCGTCGTAGCTTTAATCTGTTCCAT
1 TGCAATGCCAGGGAATA--AGATTCGCCGTTGTGGCTTCAATCTATTCCAC
* ** **
15979180 TACACCGCCAGGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTATTTAAC
1 TGCAATGCCAGGGAA-TAAGATTCGCCGTTGTGGCTTCAATCTATTCCAC
*** * * * * * * *
15979230 TGCAATGTTGGGGAAACAAGATCCACCGTCGTAGCTTCAATTTGTTCCAC
1 TGCAATGCCAGGG-AATAAGATTCGCCGTTGTGGCTTCAATCTATTCCAC
* * * **
15979280 TACACTGCCAAGGAAGTAAGATTTC-CCGTTGTGGCTTCAATCTATTTAAC
1 TGCAATGCCAGGGAA-TAAGA-TTCGCCGTTGTGGCTTCAATCTATTCCAC
** * * * *
15979330 TGCAATG-TTGGAGAAACAAGATTCGCCGTCGTAGCTTCAATCTGTTCCAC
1 TGCAATGCCAGG-G-AATAAGATTCGCCGTTGTGGCTTCAATCTATTCCAC
*
15979380 T-AAATCGCCAGGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTATTCCAC
1 TGCAAT-GCCAGGGAA-TAAGATTCGCCGTTGTGGCTTCAATCTATTCCAC
* **
15979430 TGTAATGCCAAAGAGATAAGATTCGC
1 TGCAATGCCAGGGA-ATAAGATTCGC
15979456 TGCCCACAGC
Statistics
Matches: 273, Mismatches: 86, Indels: 35
0.69 0.22 0.09
Matches are distributed among these distances:
48 1 0.00
49 15 0.05
50 226 0.83
51 30 0.11
52 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (49 bp):
TGCAATGCCAGGGAATAAGATTCGCCGTTGTGGCTTCAATCTATTCCAC
Found at i:15979453 original size:100 final size:99
Alignment explanation
Indices: 15979061--15980061 Score: 519
Period size: 100 Copynumber: 9.6 Consensus size: 99
15979051 TCGCTACCTT
* * * ** *
15979061 TAGCTTTAATCTGTTCTACTGTA-ACGCCAAGG-AGATAAGATTTACCGTTGTGGCTTTAATCTA
1 TAGCTTCAATCTGTTCCAC--TACACGCCAGGGAAG-TAAGATTCGCCGTTGTGGCTTCAATCTA
* * *
15979124 TTTAACTGCAATGTCGGGGAAACCAGATTCGCCGTCG
63 TTTAACTGCAATGTTGGAGAAACAAGATTCGCCGTCG
* *
15979161 TAGCTTTAATCTGTTCCATTACACCGCCAGGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTATT
1 TAGCTTCAATCTGTTCCACTACA-CGCCAGGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTATT
* * *
15979226 TAACTGCAATGTTGGGGAAACAAGATCCACCGTCG
65 TAACTGCAATGTTGGAGAAACAAGATTCGCCGTCG
* *
15979261 TAGCTTCAATTTGTTCCACTACACTGCCAAGGAAGTAAGATTTC-CCGTTGTGGCTTCAATCTAT
1 TAGCTTCAATCTGTTCCACTACAC-GCCAGGGAAGTAAGA-TTCGCCGTTGTGGCTTCAATCTAT
15979325 TTAACTGCAATGTTGGAGAAACAAGATTCGCCGTCG
64 TTAACTGCAATGTTGGAGAAACAAGATTCGCCGTCG
*
15979361 TAGCTTCAATCTGTTCCACTAAATCGCCAGGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTATT
1 TAGCTTCAATCTGTTCCACTACA-CGCCAGGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTATT
** * **** * * * * *
15979426 CCACTGTAATGCCAAAGAGATAAGATTCGCTGCCCA
65 TAACTGCAATGTTGGAGAAACAAGATTCGCCG-TCG
* * * * * * * ** * ** * * **
15979462 CAGCTTTAATCCGCTCCACTTCA-TCTA---ATTTAAGTCTTAACGCCAGGGAGATAAGATTCGC
1 TAGCTTCAATCTGTTCCACTACACGCCAGGGAAGTAAG-ATT--CGCC--GTTG-T-GGCTTCAA
* ** * *** * **
15979523 TGCCCCCAGCTTTAATCTGCTCTGCTATAACGTCAGGGAAGTGAGATTAGCCGTTT
59 T----CTA--TTTAA-CTGCAATG-T-T---G---GAGAAACAAGATTCGCCGTCG
* * ** * * ** * * *****
15979579 TGGCTTCAATCTATTTGACTGCAATGCCAAAG-AGATAGGATTCGCTGCCCACAGCTTCAATCCG
1 TAGCTTCAATCTGTTCCACTAC-ACGCCAGGGAAG-TAAGATTCGCCG-TTGTGGCTTCAAT---
* * * ** * ** * * *
15979643 CTCCACTTCAGCTATTTCAA-GTCTTAACGCTAAGGAGATAAGATTCGCTGCCC
60 CT--A-TTTA---ACTGCAATGT-TGGA-G--AA--ACAAG--ATTCGCCGTCG
* * * ** * * *
15979696 TCAGCTTTAATCTGTTCCACTATAACGTCAGAAAAGTAAGATTCGCCGTTTTGCCTTCAATATAT
1 T-AGCTTCAATCTGTTCCACTA-CACGCCAGGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTAT
* * * *
15979761 TTGACTGCAATGTCGGGGAACCAAGATTCGCCGTCG
64 TTAACTGCAATGTTGGAGAAACAAGATTCGCCGTCG
*
15979797 TAGCTTCAATTTGTTCCACTACACTGCCAGGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTATT
1 TAGCTTCAATCTGTTCCACTACAC-GCCAGGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTATT
* * * *
15979862 TAACTGCAATGTTGGGGAAACAAGATCCACCGTAG
65 TAACTGCAATGTTGGAGAAACAAGATTCGCCGTCG
*
15979897 TAGCTTCAATCTGTTCCACTACACTGCCAAGGAAGTAAGATTTC-CCGTTGTGGCTTCAATCTAT
1 TAGCTTCAATCTGTTCCACTACAC-GCCAGGGAAGTAAGA-TTCGCCGTTGTGGCTTCAATCTAT
15979961 TTAACTGCAATGTTGGAGAAACAAGATTCGCCGTCG
64 TTAACTGCAATGTTGGAGAAACAAGATTCGCCGTCG
* *
15979997 TAGCTTCAATCTGTTCCACTATACCGCCAGGGAAATAAGATTCGCCGTTGTGGCTTCAATCTATT
1 TAGCTTCAATCTGTTCCACTACA-CGCCAGGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTATT
15980062 CCACTGTAAT
Statistics
Matches: 673, Mismatches: 171, Indels: 114
0.70 0.18 0.12
Matches are distributed among these distances:
96 5 0.01
97 2 0.00
98 2 0.00
99 16 0.02
100 474 0.70
101 39 0.06
102 1 0.00
103 6 0.01
105 2 0.00
107 3 0.00
108 5 0.01
109 5 0.01
110 5 0.01
111 3 0.00
112 1 0.00
113 2 0.00
114 1 0.00
115 3 0.00
116 12 0.02
117 30 0.04
118 43 0.06
119 8 0.01
121 2 0.00
122 3 0.00
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (99 bp):
TAGCTTCAATCTGTTCCACTACACGCCAGGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTATTT
AACTGCAATGTTGGAGAAACAAGATTCGCCGTCG
Found at i:15979791 original size:168 final size:168
Alignment explanation
Indices: 15979362--15979772 Score: 601
Period size: 168 Copynumber: 2.4 Consensus size: 168
15979352 TCGCCGTCGT
* * *
15979362 AGCTTCAATCTGTTCCACTA-AATCGCCAGGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTATT
1 AGCTTTAATCTGTTCCACTATAA-CGTCAGGGAAGTAAGATTCGCCGTTTTGGCTTCAATCTATT
** * * *
15979426 CCACTGTAATGCCAAAGAGATAAGATTCGCTGCCCACAGCTTTAATCCGCTCCACTTCATCTAAT
65 TGACTGCAATGCCAAAGAGATAAGATTCGCTGCCCACAGCTTCAATCCGCTCCACTTCAGCTAAT
*
15979491 TTAAGTCTTAACGCCAGGGAGATAAGATTCGCTGCCCCC
130 TTAAGTCTTAACGCCAAGGAGATAAGATTCGCTGCCCCC
* ** * *
15979530 AGCTTTAATCTGCTCTGCTATAACGTCAGGGAAGTGAGATTAGCCGTTTTGGCTTCAATCTATTT
1 AGCTTTAATCTGTTCCACTATAACGTCAGGGAAGTAAGATTCGCCGTTTTGGCTTCAATCTATTT
*
15979595 GACTGCAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTCAATCCGCTCCACTTCAGCT-ATT
66 GACTGCAATGCCAAAGAGATAAGATTCGCTGCCCACAGCTTCAATCCGCTCCACTTCAGCTAATT
* *
15979659 TCAAGTCTTAACGCTAAGGAGATAAGATTCGCTGCCCTC
131 T-AAGTCTTAACGCCAAGGAGATAAGATTCGCTGCCCCC
** * *
15979698 AGCTTTAATCTGTTCCACTATAACGTCAGAAAAGTAAGATTCGCCGTTTTGCCTTCAATATATTT
1 AGCTTTAATCTGTTCCACTATAACGTCAGGGAAGTAAGATTCGCCGTTTTGGCTTCAATCTATTT
15979763 GACTGCAATG
66 GACTGCAATG
15979773 TCGGGGAACC
Statistics
Matches: 215, Mismatches: 26, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
167 4 0.02
168 209 0.97
169 2 0.01
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (168 bp):
AGCTTTAATCTGTTCCACTATAACGTCAGGGAAGTAAGATTCGCCGTTTTGGCTTCAATCTATTT
GACTGCAATGCCAAAGAGATAAGATTCGCTGCCCACAGCTTCAATCCGCTCCACTTCAGCTAATT
TAAGTCTTAACGCCAAGGAGATAAGATTCGCTGCCCCC
Found at i:15980085 original size:50 final size:50
Alignment explanation
Indices: 15979732--15980091 Score: 249
Period size: 50 Copynumber: 7.2 Consensus size: 50
15979722 GTCAGAAAAG
* * ** * * * *
15979732 TAAGATTCGCCGTT-TTGCCTTCAATATATTTGACTGCAATGTCGGGGAAC
1 TAAGATTCGCCGTTGTAG-CTTCAATCTATTCCACTACAATGCCAGGGAAA
* * * * * *
15979782 CAAGATTCGCCGTCGTAGCTTCAATTTGTTCCACTACACTGCCAGGGAAG
1 TAAGATTCGCCGTTGTAGCTTCAATCTATTCCACTACAATGCCAGGGAAA
* ** * ***
15979832 TAAGATTCGCCGTTGTGGCTTCAATCTATTTAACTGCAATGTTGGGGAAA
1 TAAGATTCGCCGTTGTAGCTTCAATCTATTCCACTACAATGCCAGGGAAA
* * * * * * * *
15979882 CAAGATCCACCGTAGTAGCTTCAATCTGTTCCACTACACTGCCAAGGAAG
1 TAAGATTCGCCGTTGTAGCTTCAATCTATTCCACTACAATGCCAGGGAAA
* ** * **
15979932 TAAGATTTC-CCGTTGTGGCTTCAATCTATTTAACTGCAATG-TTGGAGAAA
1 TAAGA-TTCGCCGTTGTAGCTTCAATCTATTCCACTACAATGCCAGG-GAAA
* * * * **
15979982 CAAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTATACCGCCAGGGAAA
1 TAAGATTCGCCGTTGTAGCTTCAATCTATTCCACTACAATGCCAGGGAAA
* ** ** *
15980032 TAAGATTCGCCGTTGTGGCTTCAATCTATTCCACTGTAATGCCAAAGAGA
1 TAAGATTCGCCGTTGTAGCTTCAATCTATTCCACTACAATGCCAGGGAAA
15980082 TAAGATTCGC
1 TAAGATTCGC
15980092 TGCCACAGCT
Statistics
Matches: 230, Mismatches: 75, Indels: 10
0.73 0.24 0.03
Matches are distributed among these distances:
49 4 0.02
50 220 0.96
51 6 0.03
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (50 bp):
TAAGATTCGCCGTTGTAGCTTCAATCTATTCCACTACAATGCCAGGGAAA
Found at i:15981642 original size:12 final size:12
Alignment explanation
Indices: 15981625--15981669 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
15981615 CACCTTGGCC
15981625 TTTCTTTTTTCT
1 TTTCTTTTTTCT
*
15981637 TTTCTTTTCTCT
1 TTTCTTTTTTCT
* **
15981649 TTTTTTTTTTGA
1 TTTCTTTTTTCT
15981661 TTTCTTTTT
1 TTTCTTTTT
15981670 GAAATATTTT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.02, C:0.13, G:0.02, T:0.82
Consensus pattern (12 bp):
TTTCTTTTTTCT
Found at i:15981664 original size:19 final size:19
Alignment explanation
Indices: 15981627--15981669 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
15981617 CCTTGGCCTT
*
15981627 TCTTTTTTCTTTTCTTTTC
1 TCTTTTTTCTTTTCATTTC
* *
15981646 TCTTTTTTTTTTTGATTTC
1 TCTTTTTTCTTTTCATTTC
15981665 T-TTTT
1 TCTTTT
15981670 GAAATATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 4 0.19
19 17 0.81
ACGTcount: A:0.02, C:0.14, G:0.02, T:0.81
Consensus pattern (19 bp):
TCTTTTTTCTTTTCATTTC
Found at i:15987262 original size:44 final size:45
Alignment explanation
Indices: 15987164--15987263 Score: 114
Period size: 45 Copynumber: 2.2 Consensus size: 45
15987154 CAACCTACTT
* * **
15987164 CACTGCAACTTCAGGGAGATAAGATTCGTCATTTTCAGTCTACTT
1 CACTGCAACTTCAGGGAGATAAGATTCGTCACTTTCAATCTACCC
* * *
15987209 CATTGCAACTTCAGGGAGATAATACTT-GT-ACTTTCAATCTGCCC
1 CACTGCAACTTCAGGGAGATAAGA-TTCGTCACTTTCAATCTACCC
15987253 CACTGCAACTT
1 CACTGCAACTT
15987264 AAGATTCGTA
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
44 20 0.43
45 24 0.52
46 2 0.04
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.32
Consensus pattern (45 bp):
CACTGCAACTTCAGGGAGATAAGATTCGTCACTTTCAATCTACCC
Found at i:15987426 original size:44 final size:44
Alignment explanation
Indices: 15987377--15987577 Score: 124
Period size: 44 Copynumber: 4.6 Consensus size: 44
15987367 CTTCGATATG
*
15987377 CTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTA
1 CTCCACTACTGCTTAGGGAGATAGGATCTACAATCTTCAACCTA
* * * ***** * * *
15987421 CTCCACTGCTGCTCAGAGAGATAGGAT-TGGTGGCTTAAATCTG
1 CTCCACTACTGCTTAGGGAGATAGGATCTACAATCTTCAACCTA
* * * * * * *
15987464 CTTCC-CTACTACTT-GGGAGGATAAGATTTATC-GTCTTCGATCTG
1 C-TCCACTACTGCTTAGGGA-GATAGGATCTA-CAATCTTCAACCTA
* * * *
15987508 CTCCAC-ACTGCTTGGGGAGACAAGATCTACAATCTTCAACTTA
1 CTCCACTACTGCTTAGGGAGATAGGATCTACAATCTTCAACCTA
*
15987551 CTCCACTGCTGCTTAGGGAGATAGGAT
1 CTCCACTACTGCTTAGGGAGATAGGAT
15987578 TGGTGGCTTA
Statistics
Matches: 115, Mismatches: 34, Indels: 16
0.70 0.21 0.10
Matches are distributed among these distances:
42 4 0.03
43 53 0.46
44 58 0.50
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.28
Consensus pattern (44 bp):
CTCCACTACTGCTTAGGGAGATAGGATCTACAATCTTCAACCTA
Found at i:15987591 original size:130 final size:132
Alignment explanation
Indices: 15987367--15987713 Score: 572
Period size: 130 Copynumber: 2.6 Consensus size: 132
15987357 GATTTGCTGC
* * *
15987367 CTTCGATATGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTGCTG
1 CTTCGATCTGCTCCACTACTGCTTGGGGAGACAAGATCTACAATCTTCAACCTACTCCACTGCTG
* * *
15987432 CTCAGAGAGATAGGATTGGTGGCTTAAATCTGCTTCCCTACTAC-TTGGGAGGATAAGATTTATC
66 CTCAGGGAGATAGGATTGGTGGCTTAAATCTGCTTCCCTACTACATTGGGAGGATAAGATTCACC
15987496 GT
131 GT
*
15987498 CTTCGATCTGCTCCAC-ACTGCTTGGGGAGACAAGATCTACAATCTTCAACTTACTCCACTGCTG
1 CTTCGATCTGCTCCACTACTGCTTGGGGAGACAAGATCTACAATCTTCAACCTACTCCACTGCTG
* * *
15987562 CTTAGGGAGATAGGATTGGTGGCTTAAATCTGTTTCCCTACTACATTGGGAGGATAAGATTCGCC
66 CTCAGGGAGATAGGATTGGTGGCTTAAATCTGCTTCCCTACTACATTGGGAGGATAAGATTCACC
15987627 GT
131 GT
* *
15987629 CTTCGATCTGCTCCACTATTGCTTGGGGAGACAAGATCTACAATCTTCAACCTACTCCGCTGCTG
1 CTTCGATCTGCTCCACTACTGCTTGGGGAGACAAGATCTACAATCTTCAACCTACTCCACTGCTG
15987694 CTCAGGGAGATAGGATTGGT
66 CTCAGGGAGATAGGATTGGT
15987714 AATTCGTAAC
Statistics
Matches: 200, Mismatches: 14, Indels: 3
0.92 0.06 0.01
Matches are distributed among these distances:
130 86 0.43
131 50 0.25
132 64 0.32
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.29
Consensus pattern (132 bp):
CTTCGATCTGCTCCACTACTGCTTGGGGAGACAAGATCTACAATCTTCAACCTACTCCACTGCTG
CTCAGGGAGATAGGATTGGTGGCTTAAATCTGCTTCCCTACTACATTGGGAGGATAAGATTCACC
GT
Found at i:15987823 original size:50 final size:50
Alignment explanation
Indices: 15987756--15987931 Score: 172
Period size: 50 Copynumber: 3.5 Consensus size: 50
15987746 TCGAGGAAAC
* * * * * *
15987756 AAGATTTGCTGTTGTAGCTTCAATTTGTTCCACTATACCGCCAGGAAAGT
1 AAGATTCGCTATTGTAGCTTCAATCTGTTCCACTACACCGTCAGGGAAGT
* ** * ** * **
15987806 AAGATTCGCTATTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAACC
1 AAGATTCGCTATTGTAGCTTCAATCTGTTCCACTACACCGTCAGGGAAGT
* ** *
15987856 AAGATTCACCGTCGTAGCTTCAATCTGTTCCACTACACCGTCAGGGAAGT
1 AAGATTCGCTATTGTAGCTTCAATCTGTTCCACTACACCGTCAGGGAAGT
*
15987906 AAGATTTGCTATTGTAGCTTCAATCT
1 AAGATTCGCTATTGTAGCTTCAATCT
15987932 ATTTAACTGC
Statistics
Matches: 93, Mismatches: 33, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
50 93 1.00
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (50 bp):
AAGATTCGCTATTGTAGCTTCAATCTGTTCCACTACACCGTCAGGGAAGT
Found at i:15987848 original size:100 final size:100
Alignment explanation
Indices: 15987727--15987945 Score: 330
Period size: 100 Copynumber: 2.2 Consensus size: 100
15987717 TCGTAACTTT
* ** * * * *
15987727 AATCTGTTTAACTGCAATGTCGAGGAAACAAGATTTGCTGTTGTAGCTTCAATTTGTTCCACTAT
1 AATCTATTTAACTGCAATGTCGAGGAAACAAGATTCACCGTCGTAGCTTCAATCTGTTCCACTAC
15987792 ACCGCCAGGAAAGTAAGATTCGCTATTGTAGCTTC
66 ACCGCCAGGAAAGTAAGATTCGCTATTGTAGCTTC
* *
15987827 AATCTATTTAACTGCAATGTCGGGGAACCAAGATTCACCGTCGTAGCTTCAATCTGTTCCACTAC
1 AATCTATTTAACTGCAATGTCGAGGAAACAAGATTCACCGTCGTAGCTTCAATCTGTTCCACTAC
* * *
15987892 ACCGTCAGGGAAGTAAGATTTGCTATTGTAGCTTC
66 ACCGCCAGGAAAGTAAGATTCGCTATTGTAGCTTC
15987927 AATCTATTTAACTGCAATG
1 AATCTATTTAACTGCAATG
15987946 CCAAAGAGAT
Statistics
Matches: 107, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
100 107 1.00
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (100 bp):
AATCTATTTAACTGCAATGTCGAGGAAACAAGATTCACCGTCGTAGCTTCAATCTGTTCCACTAC
ACCGCCAGGAAAGTAAGATTCGCTATTGTAGCTTC
Found at i:15988276 original size:50 final size:50
Alignment explanation
Indices: 15988178--15988277 Score: 155
Period size: 50 Copynumber: 2.0 Consensus size: 50
15988168 GATTCGCTAT
* * *
15988178 TGTAGCTTCAATCTATTTAACTGCAATGCCAAAGAGATAGGATTCGCTGC
1 TGTAGCTTCAACCTATTCAACTGCAATGCCAAAGAGATAGGACTCGCTGC
* *
15988228 TGTAGCTTCAACCTATTCCACTGTAATGCCAAAGAGATAGGACTCGCTGC
1 TGTAGCTTCAACCTATTCAACTGCAATGCCAAAGAGATAGGACTCGCTGC
15988278 CCACAGCTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 45 1.00
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (50 bp):
TGTAGCTTCAACCTATTCAACTGCAATGCCAAAGAGATAGGACTCGCTGC
Found at i:15988371 original size:310 final size:312
Alignment explanation
Indices: 15987918--15988545 Score: 884
Period size: 310 Copynumber: 2.0 Consensus size: 312
15987908 GATTTGCTAT
* * * *
15987918 TGTAGCTTCAATCTATTTAACTGCAATGCCAAAGAGATATGATTCCCTGCCCACAGCTTCAATCC
1 TGTAGCTTCAACCTATTCAACTGCAATGCCAAAGAGATAGGACTCCCTGCCCACAGCTTCAATCC
15987983 GCTCCACTTCAGCTATTTCAAGTCTTAACGCCAGGGAGATAAGATTCACTGCCCTCAGCTTTAAT
66 GCTCCACTTCAGCTATTTCAAGTCTTAACGCCAGGGAGATAAGATTCACTGCCCTCAGCTTTAAT
* * * *
15988048 CTGCTCTGCTATAACGTCAGGGAAGTAAGATTCATCGTTTTGGCTTTAA-T-CTGCAATGTC-AG
131 CTGCTCCGCTATAACGTCAGGGAAGTAAGATTCACCATTTTGGCTTCAATTACTGCAATGTCGAG
* * * *
15988110 AAATCCAAGATTCACCGTCGTAGCTTCAATTTGTTCCACTACACCGTCAGGGAAGTAAGATTCGC
196 AAA-CCAAGATTCACCATCGTAGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAGATTCAC
* * *
15988175 TATTGTAGCTTCAATCTATTTAACTGCAATGCCAAAGAGATAGGATTCGCTGC
260 CATTGTAGCTTCAATCTATTCAACTACAATGCCAAAGAGATAGGATTCGCTGC
* * * * *
15988228 TGTAGCTTCAACCTATTCCACTGTAATGCCAAAGAGATAGGACTCGCTGCCCACAGCTTTAATCT
1 TGTAGCTTCAACCTATTCAACTGCAATGCCAAAGAGATAGGACTCCCTGCCCACAGCTTCAATCC
* *
15988293 GCTCCACTTCAGCTATTTCAAGTCTTAACGCCATGGAGATAAGATTCACTGTCCTCAGCTTTAAT
66 GCTCCACTTCAGCTATTTCAAGTCTTAACGCCAGGGAGATAAGATTCACTGCCCTCAGCTTTAAT
15988358 CTGCTCCGCTATAACGTCAGGGAAGTAAGATTCACCATTTTGGCTTCAATCTCTTTAACTGCAAT
131 CTGCTCCGCTATAACGTCAGGGAAGTAAGATTCACCATTTTGGCTTCAA-----TT-ACTGCAAT
* * * * * *
15988423 GTCGGGGAACCAAGATTCGCTATCGTAGCTTCAATCTGTTCCACTACACTGCCAGGGAGGTAAGA
190 GTCGAGAAACCAAGATTCACCATCGTAGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAGA
* * * *
15988488 TTCACCGTTGTAGCTTCAATCTATTCCACTATAATGCCAAAGTGATAGGATTCGCTGC
255 TTCACCATTGTAGCTTCAATCTATTCAACTACAATGCCAAAGAGATAGGATTCGCTGC
15988546 CCACAGCTTT
Statistics
Matches: 277, Mismatches: 32, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
310 164 0.59
316 1 0.00
318 109 0.39
319 3 0.01
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (312 bp):
TGTAGCTTCAACCTATTCAACTGCAATGCCAAAGAGATAGGACTCCCTGCCCACAGCTTCAATCC
GCTCCACTTCAGCTATTTCAAGTCTTAACGCCAGGGAGATAAGATTCACTGCCCTCAGCTTTAAT
CTGCTCCGCTATAACGTCAGGGAAGTAAGATTCACCATTTTGGCTTCAATTACTGCAATGTCGAG
AAACCAAGATTCACCATCGTAGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAGATTCACC
ATTGTAGCTTCAATCTATTCAACTACAATGCCAAAGAGATAGGATTCGCTGC
Found at i:15988760 original size:44 final size:44
Alignment explanation
Indices: 15988711--15988796 Score: 120
Period size: 44 Copynumber: 2.0 Consensus size: 44
15988701 AGACAGGATC
* *
15988711 TACAATCTTCCACTTATTCCATTGCTATTCA-AGGAGCTAGGACT
1 TACAATCTTCCACCTATTCCACTGCTATTCAGA-GAGCTAGGACT
* *
15988755 TACAATCTTTCACCTATTCCACTGCTGTTCAGAGAGCTAGGA
1 TACAATCTTCCACCTATTCCACTGCTATTCAGAGAGCTAGGA
15988797 TTTGTGGTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
44 36 0.97
45 1 0.03
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.33
Consensus pattern (44 bp):
TACAATCTTCCACCTATTCCACTGCTATTCAGAGAGCTAGGACT
Found at i:15990894 original size:8 final size:9
Alignment explanation
Indices: 15990863--15990893 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
15990853 TTTTCCATCA
15990863 TTTTTATTT
1 TTTTTATTT
15990872 TTTTTATTT
1 TTTTTATTT
15990881 TTTTTATTT
1 TTTTTATTT
15990890 TTTT
1 TTTT
15990894 AAACTCATAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (9 bp):
TTTTTATTT
Found at i:15995206 original size:36 final size:36
Alignment explanation
Indices: 15995166--15995241 Score: 84
Period size: 36 Copynumber: 2.1 Consensus size: 36
15995156 TGAAACATAG
*
15995166 AAAATATATAAAAGTATGT-GTATATATATAT-TTATA
1 AAAAT-TA-AAAAATATGTAGTATATATATATGTTATA
* *
15995202 AAAATTAAAAAATGTGTACGTATATGTATATGTTATA
1 AAAATTAAAAAATATGTA-GTATATATATATGTTATA
15995239 AAA
1 AAA
15995242 CGTATGCATG
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
34 8 0.24
35 2 0.06
36 16 0.47
37 8 0.24
ACGTcount: A:0.50, C:0.01, G:0.11, T:0.38
Consensus pattern (36 bp):
AAAATTAAAAAATATGTAGTATATATATATGTTATA
Found at i:15995825 original size:19 final size:19
Alignment explanation
Indices: 15995795--15995848 Score: 90
Period size: 19 Copynumber: 2.8 Consensus size: 19
15995785 AATCATATCT
*
15995795 TCTAAGACTGCATATCATA
1 TCTAAGATTGCATATCATA
*
15995814 TTTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
15995833 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
15995849 CTTGAAGATT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.35, C:0.17, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:15999433 original size:26 final size:25
Alignment explanation
Indices: 15999404--15999471 Score: 75
Period size: 25 Copynumber: 2.7 Consensus size: 25
15999394 ACGGATACTC
*
15999404 CACAACTCGTGTGAGCAGCCCAT-ATT
1 CACAGCTCGTGTGAGCA-CCC-TGATT
* **
15999430 CACAGCTTGTGTGAGCATTCTGATT
1 CACAGCTCGTGTGAGCACCCTGATT
15999455 CACAGCTCGTGTGAGCA
1 CACAGCTCGTGTGAGCA
15999472 TACATGTATA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
24 1 0.03
25 20 0.56
26 15 0.42
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (25 bp):
CACAGCTCGTGTGAGCACCCTGATT
Found at i:16010269 original size:43 final size:43
Alignment explanation
Indices: 16010222--16010304 Score: 132
Period size: 43 Copynumber: 1.9 Consensus size: 43
16010212 TTATGTGATT
16010222 GATATTGAAATGGTAAA-GATGAGAAATAAATATGAGATGAGAA
1 GATATTGAAATGG-AAATGATGAGAAATAAATATGAGATGAGAA
* *
16010265 GATATTGAAATGGAAATGATGAGAAATGATTATGAGATGA
1 GATATTGAAATGGAAATGATGAGAAATAAATATGAGATGA
16010305 AATATGAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
42 3 0.08
43 34 0.92
ACGTcount: A:0.48, C:0.00, G:0.27, T:0.25
Consensus pattern (43 bp):
GATATTGAAATGGAAATGATGAGAAATAAATATGAGATGAGAA
Found at i:16010311 original size:7 final size:7
Alignment explanation
Indices: 16010301--16010334 Score: 59
Period size: 7 Copynumber: 4.7 Consensus size: 7
16010291 TGATTATGAG
16010301 ATGAAAT
1 ATGAAAT
16010308 ATGAAAT
1 ATGAAAT
16010315 ATGAAAT
1 ATGAAAT
16010322 ATGAAAT
1 ATGAAAT
16010329 GATGAA
1 -ATGAA
16010335 TTGAGATGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 21 0.81
8 5 0.19
ACGTcount: A:0.56, C:0.00, G:0.18, T:0.26
Consensus pattern (7 bp):
ATGAAAT
Found at i:16010771 original size:14 final size:14
Alignment explanation
Indices: 16010752--16010786 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
16010742 TTTGTTGATA
*
16010752 TTGTTATTAAGGTG
1 TTGTTATTAAGGCG
16010766 TTGTTATTAAGGCG
1 TTGTTATTAAGGCG
16010780 TTGTTAT
1 TTGTTAT
16010787 CTTTGACATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.20, C:0.03, G:0.26, T:0.51
Consensus pattern (14 bp):
TTGTTATTAAGGCG
Found at i:16016706 original size:20 final size:20
Alignment explanation
Indices: 16016681--16016722 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
16016671 AAATAGATAC
16016681 AAAGAAACAAACAAAGAAAT
1 AAAGAAACAAACAAAGAAAT
16016701 AAAGAAACAAACAAAGAAAT
1 AAAGAAACAAACAAAGAAAT
16016721 AA
1 AA
16016723 TCCTTAAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.76, C:0.10, G:0.10, T:0.05
Consensus pattern (20 bp):
AAAGAAACAAACAAAGAAAT
Found at i:16019790 original size:16 final size:16
Alignment explanation
Indices: 16019771--16019813 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
16019761 AATTAACTTT
16019771 TTTTAAAATTATAAAA
1 TTTTAAAATTATAAAA
* * *
16019787 TTTTCAAACTATATAA
1 TTTTAAAATTATAAAA
*
16019803 TTTAAAAATTA
1 TTTTAAAATTA
16019814 AAAGAAATAT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (16 bp):
TTTTAAAATTATAAAA
Found at i:16022559 original size:12 final size:12
Alignment explanation
Indices: 16022524--16022563 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
16022514 TTATTTTATA
16022524 TATATATGTATG
1 TATATATGTATG
**
16022536 TATGCATGTATG
1 TATATATGTATG
*
16022548 TATATATATATG
1 TATATATGTATG
16022560 TATA
1 TATA
16022564 GTTTTGGGTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.35, C:0.03, G:0.15, T:0.47
Consensus pattern (12 bp):
TATATATGTATG
Found at i:16033561 original size:25 final size:27
Alignment explanation
Indices: 16033518--16033569 Score: 90
Period size: 25 Copynumber: 2.0 Consensus size: 27
16033508 ATATACAACC
16033518 TTTTTATTTCTTTTTTGAGATCCATTA
1 TTTTTATTTCTTTTTTGAGATCCATTA
16033545 TTTTT-TTT-TTTTTTGAGATCCATTA
1 TTTTTATTTCTTTTTTGAGATCCATTA
16033570 GAGTTGTGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 17 0.68
26 3 0.12
27 5 0.20
ACGTcount: A:0.17, C:0.10, G:0.08, T:0.65
Consensus pattern (27 bp):
TTTTTATTTCTTTTTTGAGATCCATTA
Found at i:16042172 original size:27 final size:27
Alignment explanation
Indices: 16042134--16042189 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
16042124 ACGCTTTGCC
16042134 CAACAGTTTCCTACTAATCAGGAACCA
1 CAACAGTTTCCTACTAATCAGGAACCA
16042161 CAACAGTTTCCTACTAATCAGGAACCA
1 CAACAGTTTCCTACTAATCAGGAACCA
16042188 CA
1 CA
16042190 CACGAGAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.38, C:0.30, G:0.11, T:0.21
Consensus pattern (27 bp):
CAACAGTTTCCTACTAATCAGGAACCA
Found at i:16046664 original size:9 final size:9
Alignment explanation
Indices: 16046650--16046680 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
16046640 CTGCAAATGT
16046650 TTGTGATTG
1 TTGTGATTG
16046659 TTGTGATTG
1 TTGTGATTG
16046668 TTGTGATTG
1 TTGTGATTG
16046677 TTGT
1 TTGT
16046681 TGACCAGATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.10, C:0.00, G:0.32, T:0.58
Consensus pattern (9 bp):
TTGTGATTG
Found at i:16046922 original size:20 final size:20
Alignment explanation
Indices: 16046893--16046930 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
16046883 GTCTTACACC
*
16046893 AATAATAATTTATTTTTATA
1 AATAACAATTTATTTTTATA
16046913 AATAACAATTTATTTTTA
1 AATAACAATTTATTTTTA
16046931 ACATGATAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (20 bp):
AATAACAATTTATTTTTATA
Found at i:16050878 original size:14 final size:14
Alignment explanation
Indices: 16050859--16050897 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
16050849 TATTCAGTAA
16050859 TATTATTATTAATC
1 TATTATTATTAATC
*
16050873 TATTATTATTAATT
1 TATTATTATTAATC
16050887 TATTATTATTA
1 TATTATTATTA
16050898 TCACCATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (14 bp):
TATTATTATTAATC
Found at i:16050881 original size:17 final size:17
Alignment explanation
Indices: 16050859--16050898 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
16050849 TATTCAGTAA
16050859 TATTATT-ATTAATCTAT
1 TATTATTAATTAAT-TAT
*
16050876 TATTATTAATTTATTAT
1 TATTATTAATTAATTAT
16050893 TATTAT
1 TATTAT
16050899 CACCATTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 16 0.76
18 5 0.24
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (17 bp):
TATTATTAATTAATTAT
Found at i:16057540 original size:26 final size:26
Alignment explanation
Indices: 16057517--16057567 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
16057507 CCTCTTCCTC
16057517 TTCCCAATCCCTAATTCCCTTTCCCT
1 TTCCCAATCCCTAATTCCCTTTCCCT
16057543 TTCCCAATCCCTAATTCCCTTTCCC
1 TTCCCAATCCCTAATTCCCTTTCCC
16057568 CCTAAATGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.16, C:0.47, G:0.00, T:0.37
Consensus pattern (26 bp):
TTCCCAATCCCTAATTCCCTTTCCCT
Found at i:16065517 original size:9 final size:9
Alignment explanation
Indices: 16065497--16065532 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
16065487 TTTGATTTAG
16065497 AAAATAATAA
1 AAAATAA-AA
*
16065507 AAAGTAAAA
1 AAAATAAAA
16065516 AAAATAAAA
1 AAAATAAAA
16065525 AAAATAAA
1 AAAATAAA
16065533 GGATAAGTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
9 18 0.75
10 6 0.25
ACGTcount: A:0.83, C:0.00, G:0.03, T:0.14
Consensus pattern (9 bp):
AAAATAAAA
Found at i:16068487 original size:85 final size:85
Alignment explanation
Indices: 16068386--16068681 Score: 344
Period size: 87 Copynumber: 3.4 Consensus size: 85
16068376 TTTTTGCACC
* ** * *
16068386 CAATTGGATACTTGAACTTTCAAAATATATCAAAAAGACCTTTAAACTTTTTCAAAAAAAGCAAT
1 CAATTGGGTACTTGAACTTTCAAAATGCATCAAAAAGACCCTCAAACTTTTTCAAAAAAAGCAAT
*
16068451 TAAGCCCCTGTTTTCCCATT
66 TAAGCCCCTGTTTTCCCACT
* *
16068471 CAATTGGGTACTTGAACTTTCAAAATGCATCAAAAA-ACCCTCAAACTTTTCCAAAAAAAAAAAC
1 CAATTGGGTACTTGAACTTTCAAAATGCATCAAAAAGACCCTCAAACTTTTTC---AAAAAAAGC
* * **
16068535 AATTAATCCCCTTTTTTTTCACT
63 AATTAAGCCCCTGTTTTCCCACT
* * * *
16068558 CAATTGGGTGCTTGAACTTTCAAAATGCACCAAAATGCCCCTCAAACTTTTTCAAAAAAAGCAAT
1 CAATTGGGTACTTGAACTTTCAAAATGCATCAAAAAGACCCTCAAACTTTTTCAAAAAAAGCAAT
*
16068623 TAAGCCCCAGTTTTCCCCCCACT
66 TAAGCCCCTGTTTT---CCCACT
* *
16068646 AAATTGGGTACTTGAA-TTGCCAAAATGCATCAAAAA
1 CAATTGGGTACTTGAACTT-TCAAAATGCATCAAAAA
16068682 AGCCCTTTGA
Statistics
Matches: 175, Mismatches: 28, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
84 13 0.07
85 55 0.31
87 61 0.35
88 46 0.26
ACGTcount: A:0.38, C:0.23, G:0.09, T:0.29
Consensus pattern (85 bp):
CAATTGGGTACTTGAACTTTCAAAATGCATCAAAAAGACCCTCAAACTTTTTCAAAAAAAGCAAT
TAAGCCCCTGTTTTCCCACT
Found at i:16068572 original size:87 final size:87
Alignment explanation
Indices: 16068349--16068687 Score: 296
Period size: 87 Copynumber: 3.9 Consensus size: 87
16068339 TCTCAAATTT
** * * **
16068349 AAAAAAAAACAATTAAGCTCATGTTTTTTTTTGCACCCAATTGGATACTTGAACTTTCAAAATAT
1 AAAAAAAAACAATTAAGC-C--CCTTTTTTTT-CACTCAATTGGGTACTTGAACTTTCAAAATGC
* *
16068414 ATCAAAAAGACCTTTAAACTTTTTC--
62 ATCAAAAA-ACCCTCAAACTTTTTCAA
* * ** *
16068439 -AAAAAAAGCAATTAAGCCCCTGTTTTCCCATTCAATTGGGTACTTGAACTTTCAAAATGCATCA
1 AAAAAAAAACAATTAAGCCCCTTTTTTTTCACTCAATTGGGTACTTGAACTTTCAAAATGCATCA
*
16068503 AAAAACCCTCAAACTTTTCCAA
66 AAAAACCCTCAAACTTTTTCAA
* * *
16068525 AAAAAAAAACAATTAATCCCCTTTTTTTTCACTCAATTGGGTGCTTGAACTTTCAAAATGCACCA
1 AAAAAAAAACAATTAAGCCCCTTTTTTTTCACTCAATTGGGTACTTGAACTTTCAAAATGCATCA
**
16068590 AAATGCCCCTCAAACTTTTTC--
66 AAA-AACCCTCAAACTTTTTCAA
* **** * *
16068611 -AAAAAAAGCAATTAAGCCCCAGTTTTCCCCCCACTAAATTGGGTACTTGAA-TTGCCAAAATGC
1 AAAAAAAAACAATTAAGCCCC--TTTT-TTTTCACTCAATTGGGTACTTGAACTT-TCAAAATGC
16068674 ATCAAAAAAGCCCT
62 ATCAAAAAA-CCCT
16068688 TTGATCATTA
Statistics
Matches: 203, Mismatches: 37, Indels: 20
0.78 0.14 0.08
Matches are distributed among these distances:
84 13 0.06
85 53 0.26
86 5 0.02
87 65 0.32
88 51 0.25
89 16 0.08
ACGTcount: A:0.38, C:0.23, G:0.09, T:0.30
Consensus pattern (87 bp):
AAAAAAAAACAATTAAGCCCCTTTTTTTTCACTCAATTGGGTACTTGAACTTTCAAAATGCATCA
AAAAACCCTCAAACTTTTTCAA
Found at i:16068638 original size:172 final size:175
Alignment explanation
Indices: 16068373--16068687 Score: 449
Period size: 172 Copynumber: 1.8 Consensus size: 175
16068363 AAGCTCATGT
* * * *
16068373 TTTTTTTTGCACCCAATTGGATACTTGAACTTTCAAAATATATCAAAAAGACCTTTAAACTTTTT
1 TTTTTTTTGCACCCAATTGGATACTTGAACTTTCAAAATACACCAAAAAGACCCTCAAACTTTTT
* * * *
16068438 CAAAAAAAGCAATTAAGCCCCTGTTTT-CCCATTCAATTGGGTACTTGAACTT-TCAAAATGCAT
66 CAAAAAAAGCAATTAAGCCCCAGTTTTCCCCACTAAATTGGGTACTTGAA-TTGCCAAAATGCAT
16068501 CAAAAAA-CCCTCAAACTTTTCCAAAAAAAAAAACAATTAATCCCC
130 CAAAAAAGCCCTCAAACTTTTCCAAAAAAAAAAACAATTAATCCCC
* * * * * *
16068546 TTTTTTTT-CACTCAATTGGGTGCTTGAACTTTCAAAATGCACCAAAATGCCCCTCAAACTTTTT
1 TTTTTTTTGCACCCAATTGGATACTTGAACTTTCAAAATACACCAAAAAGACCCTCAAACTTTTT
16068610 CAAAAAAAGCAATTAAGCCCCAGTTTTCCCCCCACTAAATTGGGTACTTGAATTGCCAAAATGCA
66 CAAAAAAAGCAATTAAGCCCCAGTTTT--CCCCACTAAATTGGGTACTTGAATTGCCAAAATGCA
16068675 TCAAAAAAGCCCT
129 TCAAAAAAGCCCT
16068688 TTGATCATTA
Statistics
Matches: 123, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
172 72 0.59
173 8 0.07
174 2 0.02
175 37 0.30
176 4 0.03
ACGTcount: A:0.37, C:0.23, G:0.10, T:0.30
Consensus pattern (175 bp):
TTTTTTTTGCACCCAATTGGATACTTGAACTTTCAAAATACACCAAAAAGACCCTCAAACTTTTT
CAAAAAAAGCAATTAAGCCCCAGTTTTCCCCACTAAATTGGGTACTTGAATTGCCAAAATGCATC
AAAAAAGCCCTCAAACTTTTCCAAAAAAAAAAACAATTAATCCCC
Found at i:16068841 original size:20 final size:20
Alignment explanation
Indices: 16068816--16068863 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
16068806 AATAAAAGTT
*
16068816 ATAAAAATGA-TTATATTTTA
1 ATAAAAAT-ATTTAAATTTTA
16068836 ATAAAAATATTTAAATTTTA
1 ATAAAAATATTTAAATTTTA
*
16068856 TTAAAAAT
1 ATAAAAAT
16068864 TAGAAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 1 0.04
20 24 0.96
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (20 bp):
ATAAAAATATTTAAATTTTA
Found at i:16068882 original size:10 final size:9
Alignment explanation
Indices: 16068869--16068939 Score: 61
Period size: 9 Copynumber: 7.4 Consensus size: 9
16068859 AAAATTAGAA
16068869 AAAAATTTAT
1 AAAAA-TTAT
*
16068879 AAAAATTGT
1 AAAAATTAT
*
16068888 AAAAAATAT
1 AAAAATTAT
*
16068897 AAAAAATAT
1 AAAAATTAT
*
16068906 AAAATTTTAT
1 AAAA-ATTAT
*
16068916 AAAAATCATAA
1 AAAAAT--TAT
16068927 AAAAATTAT
1 AAAAATTAT
16068936 AAAA
1 AAAA
16068940 TATATAGAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
9 30 0.60
10 12 0.24
11 8 0.16
ACGTcount: A:0.68, C:0.01, G:0.01, T:0.30
Consensus pattern (9 bp):
AAAAATTAT
Found at i:16068918 original size:37 final size:39
Alignment explanation
Indices: 16068869--16068950 Score: 105
Period size: 37 Copynumber: 2.1 Consensus size: 39
16068859 AAAATTAGAA
* **
16068869 AAAAATTTATAAAAATTGT-AAAAAA-TATAAAAAATAT
1 AAAATTTTATAAAAATCATAAAAAAATTATAAAAAATAT
*
16068906 AAAATTTTATAAAAATCATAAAAAAATTATAAAATATAT
1 AAAATTTTATAAAAATCATAAAAAAATTATAAAAAATAT
16068945 AGAAAT
1 A-AAAT
16068951 ATAGAAAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
37 16 0.42
38 6 0.16
39 12 0.32
40 4 0.11
ACGTcount: A:0.66, C:0.01, G:0.02, T:0.30
Consensus pattern (39 bp):
AAAATTTTATAAAAATCATAAAAAAATTATAAAAAATAT
Found at i:16068945 original size:9 final size:9
Alignment explanation
Indices: 16068876--16068959 Score: 55
Period size: 9 Copynumber: 9.0 Consensus size: 9
16068866 GAAAAAAATT
*
16068876 TATAAAAAT
1 TATAAAAAA
*
16068885 TGTAAAAAA
1 TATAAAAAA
16068894 TATAAAAAA
1 TATAAAAAA
*
16068903 TAT-AAAAT
1 TATAAAAAA
*
16068911 TTTATAAAAA
1 TATA-AAAAA
16068921 TCATAAAAAA
1 T-ATAAAAAA
*
16068931 -ATTATAAAA
1 TA-TAAAAAA
*
16068940 TATATAGAAA
1 TATA-AAAAA
16068950 TATAGAAAAA
1 TATA-AAAAA
16068960 AATTATCAAA
Statistics
Matches: 57, Mismatches: 12, Indels: 11
0.71 0.15 0.14
Matches are distributed among these distances:
8 7 0.12
9 26 0.46
10 22 0.39
11 2 0.04
ACGTcount: A:0.67, C:0.01, G:0.04, T:0.29
Consensus pattern (9 bp):
TATAAAAAA
Found at i:16068960 original size:59 final size:57
Alignment explanation
Indices: 16068838--16068999 Score: 166
Period size: 59 Copynumber: 2.8 Consensus size: 57
16068828 ATATTTTAAT
* * * * *
16068838 AAAAATATTTAAATTTTATTAAAAATTAGAAAAAAATTTATAAAAATTGTAAAAAATATA
1 AAAAATA-TAAAATTTTA-TAAAAATCATAAAAAAA-TTATAAAAATTATAAAAAATAAA
*
16068898 AAAAATATAAAATTTTATAAAAATCATAAAAAAATTAT-AAAATATATAGAAATATAGAA
1 AAAAATATAAAATTTTATAAAAATCATAAAAAAATTATAAAAAT-TATA-AAAAATA-AA
* * *
16068957 AAAAATTATCAAATTTTAT-AAAGTCATAAGAAAATTATAAAAA
1 AAAAA-TATAAAATTTTATAAAAATCATAAAAAAATTATAAAAA
16069000 ATGTAAAGAA
Statistics
Matches: 88, Mismatches: 9, Indels: 10
0.82 0.08 0.09
Matches are distributed among these distances:
56 5 0.06
57 7 0.08
58 21 0.24
59 32 0.36
60 23 0.26
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (57 bp):
AAAAATATAAAATTTTATAAAAATCATAAAAAAATTATAAAAATTATAAAAAATAAA
Found at i:16069017 original size:20 final size:21
Alignment explanation
Indices: 16068984--16069040 Score: 66
Period size: 20 Copynumber: 2.8 Consensus size: 21
16068974 ATAAAGTCAT
16068984 AAGAAAATTATAAAAAAT-GTA
1 AAGAAAA-TATAAAAAATCGTA
*
16069005 AAGAAAATAT-AAAATTCGTA
1 AAGAAAATATAAAAAATCGTA
*
16069025 AA-AAAGTATAAAAAAT
1 AAGAAAATATAAAAAAT
16069041 ATCGTACTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
19 11 0.35
20 13 0.42
21 7 0.23
ACGTcount: A:0.67, C:0.02, G:0.09, T:0.23
Consensus pattern (21 bp):
AAGAAAATATAAAAAATCGTA
Found at i:16069018 original size:28 final size:28
Alignment explanation
Indices: 16068987--16069042 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
16068977 AAGTCATAAG
16068987 AAAATT-ATAAAAAATGTA-AAGAAAATAT
1 AAAATTCATAAAAAA-GTATAA-AAAATAT
*
16069015 AAAATTCGTAAAAAAGTATAAAAAATAT
1 AAAATTCATAAAAAAGTATAAAAAATAT
16069043 CGTACTAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 16 0.64
29 9 0.36
ACGTcount: A:0.66, C:0.02, G:0.07, T:0.25
Consensus pattern (28 bp):
AAAATTCATAAAAAAGTATAAAAAATAT
Found at i:16069598 original size:91 final size:90
Alignment explanation
Indices: 16069437--16069614 Score: 243
Period size: 91 Copynumber: 2.0 Consensus size: 90
16069427 TGAAAGGGTC
* * * *
16069437 TTTTTAATACATTTTTACAGTTCAAGTATCCAATTAAGTGCAAAAAAAAAGCAGGGGCTTAATTA
1 TTTTTAATACATTTTGAAAGTTCAAGTACCCAATTAAGTGCAAAAAAAAAGCAAGGGCTTAATTA
16069502 CTTTTTTTGAAAAAGTTTGAGGGCAT
66 -TTTTTTTGAAAAAGTTTGAGGGCAT
* * *
16069528 TTTTTTATGCATTTTGAAAGTTCAAGTACCCAATTGAA-TGCAATAAAAAAAAGCAAGGGTTTAA
1 TTTTTAATACATTTTGAAAGTTCAAGTACCCAATT-AAGTGC-A-AAAAAAAAGCAAGGGCTTAA
16069592 TT-TTTTTTTGAAAAAGTTTGAGG
63 TTATTTTTTTGAAAAAGTTTGAGG
16069615 ACTTTTTACA
Statistics
Matches: 77, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
91 54 0.70
92 3 0.04
93 20 0.26
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.37
Consensus pattern (90 bp):
TTTTTAATACATTTTGAAAGTTCAAGTACCCAATTAAGTGCAAAAAAAAAGCAAGGGCTTAATTA
TTTTTTTGAAAAAGTTTGAGGGCAT
Found at i:16073640 original size:43 final size:43
Alignment explanation
Indices: 16073579--16073677 Score: 144
Period size: 43 Copynumber: 2.3 Consensus size: 43
16073569 TGTCCCAGAC
* ** *
16073579 ATGGTCTTACATGGAAATCTCGTATCGATGCCAATAGCCTAGCT
1 ATGGTCTTACA-CGAAATCTCAAATCGATGCCAATAGCCCAGCT
*
16073623 ATGGTCTTACACGAAATCTCAAATCGATGCCAATAGCCCATCT
1 ATGGTCTTACACGAAATCTCAAATCGATGCCAATAGCCCAGCT
16073666 ATGGTCTTACAC
1 ATGGTCTTACAC
16073678 ATAAACACTG
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
43 39 0.78
44 11 0.22
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.28
Consensus pattern (43 bp):
ATGGTCTTACACGAAATCTCAAATCGATGCCAATAGCCCAGCT
Found at i:16074107 original size:57 final size:57
Alignment explanation
Indices: 16074043--16074156 Score: 228
Period size: 57 Copynumber: 2.0 Consensus size: 57
16074033 GTTCAAGAAG
16074043 AAAGAAAAAAGATAATAGCTTTTAAATTTTGTCTTATTATACCATTATTAACTTAAT
1 AAAGAAAAAAGATAATAGCTTTTAAATTTTGTCTTATTATACCATTATTAACTTAAT
16074100 AAAGAAAAAAGATAATAGCTTTTAAATTTTGTCTTATTATACCATTATTAACTTAAT
1 AAAGAAAAAAGATAATAGCTTTTAAATTTTGTCTTATTATACCATTATTAACTTAAT
16074157 TACCAATTTT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.44, C:0.09, G:0.07, T:0.40
Consensus pattern (57 bp):
AAAGAAAAAAGATAATAGCTTTTAAATTTTGTCTTATTATACCATTATTAACTTAAT
Found at i:16077098 original size:26 final size:26
Alignment explanation
Indices: 16077069--16077284 Score: 207
Period size: 26 Copynumber: 8.3 Consensus size: 26
16077059 CGTAATGTAC
**
16077069 TTTATTTAATAGGCTTTGAGCCGGTG
1 TTTATTTAGCAGGCTTTGAGCCGGTG
* * *
16077095 TTTATTTAGCAGGTTTTGAGCCAGTT
1 TTTATTTAGCAGGCTTTGAGCCGGTG
* *
16077121 TTTATTTATCAAGCTTTGAGCCGGTG
1 TTTATTTAGCAGGCTTTGAGCCGGTG
* **
16077147 TTTATTTAGTAGGCTTTGAGCCAATG
1 TTTATTTAGCAGGCTTTGAGCCGGTG
* * **
16077173 ATTATTTAGCAGGCCTTGAGCTAGTG
1 TTTATTTAGCAGGCTTTGAGCCGGTG
* *
16077199 TGTATTTAGCAGGCCTTGAGCCGGTG
1 TTTATTTAGCAGGCTTTGAGCCGGTG
* * ** *
16077225 TGTATTTAGCAGGCCTTGAGTTGATG
1 TTTATTTAGCAGGCTTTGAGCCGGTG
* * *
16077251 TTTATCTAGTAGGCTTTGAGTCGGTG
1 TTTATTTAGCAGGCTTTGAGCCGGTG
*
16077277 ATTATTTA
1 TTTATTTA
16077285 ACATGTACTA
Statistics
Matches: 155, Mismatches: 35, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 155 1.00
ACGTcount: A:0.20, C:0.13, G:0.26, T:0.41
Consensus pattern (26 bp):
TTTATTTAGCAGGCTTTGAGCCGGTG
Found at i:16083888 original size:29 final size:30
Alignment explanation
Indices: 16083811--16083889 Score: 76
Period size: 29 Copynumber: 2.8 Consensus size: 30
16083801 GTATAACATG
*
16083811 GATAAATT--AAAGGTTAAAATAAACTTGA
1 GATAAATTAAAAACGTTAAAATAAACTTGA
* * * *
16083839 -ATAGATTAACAACATTGAAATAAA-TTGA
1 GATAAATTAAAAACGTTAAAATAAACTTGA
*
16083867 GATAAATTAAAAATGTTAAAATA
1 GATAAATTAAAAACGTTAAAATA
16083890 TTAAAAAGAG
Statistics
Matches: 38, Mismatches: 10, Indels: 5
0.72 0.19 0.09
Matches are distributed among these distances:
27 6 0.16
28 4 0.11
29 28 0.74
ACGTcount: A:0.56, C:0.04, G:0.11, T:0.29
Consensus pattern (30 bp):
GATAAATTAAAAACGTTAAAATAAACTTGA
Found at i:16085912 original size:44 final size:43
Alignment explanation
Indices: 16085806--16086271 Score: 150
Period size: 44 Copynumber: 10.2 Consensus size: 43
16085796 TTCGGTCTAT
* ** * * *
16085806 TCCACTGTAATCTCATGGAGATAAGA--CCTGATTTGATCTAC
1 TCCACTGTAATCTCAGGGAGATAAGATTTTTGTTTTAATCTGC
* *
16085847 TCTACTGTAA-CTTCAGCGAGATAAGATCTTTTGTTTTAATCTGC
1 TCCACTGTAATC-TCAGGGAGATAAGAT-TTTTGTTTTAATCTGC
* * * * * *
16085891 TCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAACCTGC
1 TCCACTGTAATCTCAGGGAGATAAGATT-TTTGTTTTAATCTGC
* * * * *
16085935 TCCGCTCTAATCTCAGAGAGATAAGATTTCTGGCTTCAATCTGATGTGATCTAC
1 TCCACTGTAATCTCAGGGAGATAAGATTT-TTG-TT---T-T-A----ATCTGC
* * * *
16085989 TCTACTGTAA-CTTCAGAGAGATAAGATCCTTTATTTTAATCTGC
1 TCCACTGTAATC-TCAGGGAGATAAGAT-TTTTGTTTTAATCTGC
* * * * * *
16086033 TCCACTGTAATATCAGGGAGATAGGATTACTAGCTTCAATCTGC
1 TCCACTGTAATCTCAGGGAGATAAGATT-TTTGTTTTAATCTGC
* * * * *
16086077 TCCGCTGTAATCTCAAGGAGATAAGATTTCTGGCTTCAATCTGATGTGGTC
1 TCCACTGTAATCTCAGGGAGATAAGATTT-TTG-TT---T-TAATCT-G-C
* * * *
16086128 TACTCTACTGTAA-CTTCAGAGAGATAAGATCCTTTATTTTAATCCGC
1 T-C-C-ACTGTAATC-TCAGGGAGATAAGAT-TTTTGTTTTAATCTGC
* * * * * *
16086175 TCTACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGC
1 TCCACTGTAATCTCAGGGAGATAAGATT-TTTGTTTTAATCTGC
* * * * *
16086219 TCCTGCTGTAATCTCAAGGAGATAAGATTTCTAGCTTCAATCTGC
1 TCC-ACTGTAATCTCAGGGAGATAAGATTT-TTGTTTTAATCTGC
*
16086264 TCCGCTGT
1 TCCACTGT
16086272 TGCTTAGGGA
Statistics
Matches: 310, Mismatches: 77, Indels: 73
0.67 0.17 0.16
Matches are distributed among these distances:
40 1 0.00
41 21 0.07
43 1 0.00
44 167 0.54
45 43 0.14
46 1 0.00
47 2 0.01
48 4 0.01
49 7 0.02
50 4 0.01
51 2 0.01
52 1 0.00
53 7 0.02
54 47 0.15
55 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (43 bp):
TCCACTGTAATCTCAGGGAGATAAGATTTTTGTTTTAATCTGC
Found at i:16086089 original size:142 final size:142
Alignment explanation
Indices: 16085833--16086262 Score: 736
Period size: 142 Copynumber: 3.0 Consensus size: 142
16085823 GAGATAAGAC
* * * *
16085833 CTGATTTGATCTACTCTACTGTAACTTCAGCGAGATAAGATCTTTTGTTTTAATCTGCTCCACTG
1 CTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCTGCTCCACTG
* *
16085898 TAATCTCAGGGAGATAGGATTACTAGCTTCAACCTGCTCCGCTCTAATCTC-AGAGAGATAAGAT
66 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAAG-GAGATAAGAT
16085962 TTCTGGCTTCAAT
130 TTCTGGCTTCAAT
16085975 CTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCTGCTCCACTG
1 CTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCTGCTCCACTG
*
16086040 TAATATCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAAGGAGATAAGATT
66 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAAGGAGATAAGATT
16086105 TCTGGCTTCAAT
131 TCTGGCTTCAAT
* * *
16086117 CTGATGTGGTCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCTACTG
1 CTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCTGCTCCACTG
16086182 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCTGCTGTAATCTCAAGGAGATAAGAT
66 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCC-GCTGTAATCTCAAGGAGATAAGAT
*
16086247 TTCTAGCTTCAAT
130 TTCTGGCTTCAAT
16086260 CTG
1 CTG
16086263 CTCCGCTGTT
Statistics
Matches: 274, Mismatches: 12, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
142 233 0.85
143 41 0.15
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (142 bp):
CTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCTGCTCCACTG
TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAAGGAGATAAGATT
TCTGGCTTCAAT
Found at i:16086229 original size:45 final size:44
Alignment explanation
Indices: 16086179--16086271 Score: 150
Period size: 45 Copynumber: 2.1 Consensus size: 44
16086169 ATCCGCTCTA
* *
16086179 CTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCTG
1 CTGTAATCTCAAGGAGATAAGATTACTAGCTTCAATCTGCTCC-G
*
16086224 CTGTAATCTCAAGGAGATAAGATTTCTAGCTTCAATCTGCTCCG
1 CTGTAATCTCAAGGAGATAAGATTACTAGCTTCAATCTGCTCCG
16086268 CTGT
1 CTGT
16086272 TGCTTAGGGA
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
44 5 0.11
45 40 0.89
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (44 bp):
CTGTAATCTCAAGGAGATAAGATTACTAGCTTCAATCTGCTCCG
Found at i:16101499 original size:32 final size:29
Alignment explanation
Indices: 16101441--16101499 Score: 73
Period size: 32 Copynumber: 1.9 Consensus size: 29
16101431 TTAATTAATT
*
16101441 ATAAAAAAAATTCAATTTAGGCACCTAAA
1 ATAAAAAAAATTCAATTTAAGCACCTAAA
*
16101470 ATAAAAAAAAGTTTGCAATTTAAGTACCTA
1 ATAAAAAAAA--TT-CAATTTAAGCACCTA
16101500 CATTACATAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 10 0.40
31 2 0.08
32 13 0.52
ACGTcount: A:0.53, C:0.12, G:0.08, T:0.27
Consensus pattern (29 bp):
ATAAAAAAAATTCAATTTAAGCACCTAAA
Found at i:16101756 original size:18 final size:20
Alignment explanation
Indices: 16101721--16101758 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
16101711 AATATAATTT
*
16101721 TTTTCAAAAAATATTATAAA
1 TTTTCAAAAAAGATTATAAA
16101741 TTTT-AAAAAAGA-TATAAA
1 TTTTCAAAAAAGATTATAAA
16101759 ATAAAAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 7 0.41
20 4 0.24
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.37
Consensus pattern (20 bp):
TTTTCAAAAAAGATTATAAA
Found at i:16102435 original size:29 final size:29
Alignment explanation
Indices: 16102375--16102435 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
16102365 TTATATAATG
* * * *
16102375 TAAGTGCTTAAATTGCAAACTTTTTATTT
1 TAAGTGCCTAAAATGCAAAATTTTTATGT
16102404 TAAGTGCCTAAAATG-AAAATTTTTATAGT
1 TAAGTGCCTAAAATGCAAAATTTTTAT-GT
16102433 TAA
1 TAA
16102436 TTAACTATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 10 0.37
29 17 0.63
ACGTcount: A:0.38, C:0.08, G:0.11, T:0.43
Consensus pattern (29 bp):
TAAGTGCCTAAAATGCAAAATTTTTATGT
Found at i:16110301 original size:32 final size:31
Alignment explanation
Indices: 16110255--16110321 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 31
16110245 ACCTAAAATT
* *
16110255 ATTAATTCTAATTATTCTAA-TATTTTATTTA
1 ATTAATTCTAATTATT-TAATTATATAATTTA
*
16110286 ATTAATTTTTAATTATTTAATTATATAATTTA
1 ATTAA-TTCTAATTATTTAATTATATAATTTA
16110318 ATTA
1 ATTA
16110322 TGATTTCCAG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
31 8 0.26
32 23 0.74
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (31 bp):
ATTAATTCTAATTATTTAATTATATAATTTA
Found at i:16110305 original size:15 final size:15
Alignment explanation
Indices: 16110251--16110307 Score: 55
Period size: 15 Copynumber: 3.8 Consensus size: 15
16110241 TCCTACCTAA
*
16110251 AATTA-TTAA-TTCT
1 AATTATTTAATTTTT
16110264 AATTATTCTAATATTTT
1 AATTATT-TAAT-TTTT
* *
16110281 ATTTAATTAATTTTT
1 AATTATTTAATTTTT
16110296 AATTATTTAATT
1 AATTATTTAATT
16110308 ATATAATTTA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
13 5 0.14
14 1 0.03
15 17 0.49
16 4 0.11
17 8 0.23
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.60
Consensus pattern (15 bp):
AATTATTTAATTTTT
Found at i:16117823 original size:4 final size:4
Alignment explanation
Indices: 16117801--16117840 Score: 62
Period size: 4 Copynumber: 9.8 Consensus size: 4
16117791 AATGGTATAG
*
16117801 AAAT AATAT AAAC AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AA-AT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
16117841 AATCAATAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
4 29 0.88
5 4 0.12
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:16118119 original size:23 final size:24
Alignment explanation
Indices: 16118091--16118139 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
16118081 AAAATTAATT
16118091 AATTTA-GAAAAATATATATAA-AA
1 AATTTATGAAAAATA-ATATAAGAA
*
16118114 AATTTATGAAGAATAATATAAGAA
1 AATTTATGAAAAATAATATAAGAA
16118138 AA
1 AA
16118140 CATACGTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 12 0.52
24 11 0.48
ACGTcount: A:0.63, C:0.00, G:0.08, T:0.29
Consensus pattern (24 bp):
AATTTATGAAAAATAATATAAGAA
Found at i:16118235 original size:17 final size:17
Alignment explanation
Indices: 16118215--16118258 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
16118205 AGGGAATAAA
16118215 AAAATGTATATGTATAT
1 AAAATGTATATGTATAT
*
16118232 AAAATGTAAATGTATAT
1 AAAATGTATATGTATAT
*
16118249 -ATATGTATAT
1 AAAATGTATAT
16118259 AAAAGTTATG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 8 0.33
17 16 0.67
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (17 bp):
AAAATGTATATGTATAT
Found at i:16118241 original size:27 final size:27
Alignment explanation
Indices: 16118211--16118262 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
16118201 AGTTAGGGAA
*
16118211 TAAAAAAATGTATATGTATATAAAATG
1 TAAAAAAATATATATGTATATAAAATG
***
16118238 TAAATGTATATATATGTATATAAAA
1 TAAAAAAATATATATGTATATAAAA
16118263 GTTATGCAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.54, C:0.00, G:0.10, T:0.37
Consensus pattern (27 bp):
TAAAAAAATATATATGTATATAAAATG
Found at i:16118483 original size:26 final size:26
Alignment explanation
Indices: 16118458--16118507 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
16118448 TTCTAAATTA
*
16118458 ATTAATT-TTAATATATGTAATTATT
1 ATTAATTGTTAATATATATAATTATT
* *
16118483 ATTATTTGTTTATATATATAATTAT
1 ATTAATTGTTAATATATATAATTAT
16118508 CTTTTTCATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 6 0.29
26 15 0.71
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (26 bp):
ATTAATTGTTAATATATATAATTATT
Found at i:16123801 original size:44 final size:43
Alignment explanation
Indices: 16123728--16124618 Score: 666
Period size: 44 Copynumber: 20.2 Consensus size: 43
16123718 TAGTAGGTCC
*
16123728 TGTCTTCCTATATTGGTAGGA-AGTGGATCGAAGATGCAGATCT
1 TGTCTTCCTATATTGGT-GGAGAGTAGATCGAAGATGCAGATCT
* * *
16123771 TGTTTTCCCATATTGGTGGCAGAGTAGATCGAAGAAAGCAGATCT
1 TGTCTTCCTATATTGGTGG-AGAGTAGATCGAAG-ATGCAGATCT
* * * * * *
16123816 TGTTTTCATGTATTGGCGTGA-AATAGATCGAAGATAGCAGGT-T
1 TGTCTTCCTATATTGGTG-GAGAGTAGATCGAAGAT-GCAGATCT
* * * *
16123859 ATGTCTTCCTATATTGGTAGAAAGTGGATCGAATATGCAGATCT
1 -TGTCTTCCTATATTGGTGGAGAGTAGATCGAAGATGCAGATCT
* * *
16123903 TGTCTTCCCATATTGGTGGCGGAGTAGATCGAAGAAAGCAGATCT
1 TGTCTTCCTATATTGGTGG-AGAGTAGATCGAAG-ATGCAGATCT
* * * * *
16123948 TGTCTTCATGTATTGGCAT-GA-AGTAGATTGAAGATAGCAGGTCC
1 TGTCTTCCTATATTGG--TGGAGAGTAGATCGAAGAT-GCAGATCT
* *
16123992 TATCTTCCTATATTGGTAGGA-AGTGGATCGAAGATGCAGATCT
1 TGTCTTCCTATATTGGT-GGAGAGTAGATCGAAGATGCAGATCT
* * * *
16124035 TGTCTTCCCATATTGGTGGCGAAGTAGATCAAAGAAAGCAGATCT
1 TGTCTTCCTATATTGGTGGAG-AGTAGATCGAAG-ATGCAGATCT
* * *
16124080 TGTCTTCATGTATTAGCGT-GA-AGTAGATCGAAGATAGCAGATCC
1 TGTCTTCCTATATT-G-GTGGAGAGTAGATCGAAGAT-GCAGATCT
*
16124124 TGTCTTCCTATATTGGTAGTGA-AGTGGATCGAAGATGCAGATCT
1 TGTCTTCCTATATTGGT-G-GAGAGTAGATCGAAGATGCAGATCT
* * *
16124168 TGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAT-CAGATCT
1 TGTCTTCCTATATTGGTGGAG-AGTAGATCGAAG--ATGCAGATCT
* * * * * *
16124213 TGTCTTCATGTATTGGCGTGA-AGTAGATCGAAGATAACAGGTCC
1 TGTCTTCCTATATTGGTG-GAGAGTAGATCGAAGAT-GCAGATCT
16124257 TGTCTTCCTATATTGGTAGGA-AGT-GAATCGAAGATGCAGATCT
1 TGTCTTCCTATATTGGT-GGAGAGTAG-ATCGAAGATGCAGATCT
* * *
16124300 TGTCTTCCCATATTGGTGGCGGAGTAGATCGAAGAAAGCAGATCT
1 TGTCTTCCTATATTGGTGG-AGAGTAGATCGAAG-ATGCAGATCT
* * *
16124345 TGTCTTCATGTATTAGCGT-GA-AATAGATCGAAGATAGCAGATCT
1 TGTCTTCCTATATT-G-GTGGAGAGTAGATCGAAGAT-GCAGATCT
*
16124389 TGTCTTCCTATATTGGTAGCGA-AGTGGATCGAAGATGCAGATCT
1 TGTCTTCCTATATTGGT-G-GAGAGTAGATCGAAGATGCAGATCT
* * * * *
16124433 TGTCTTCCCATACTGGTGGCGAAGTAGGTCGAAGAAAGCAGATCT
1 TGTCTTCCTATATTGGTGGAG-AGTAGATCGAAG-ATGCAGATCT
* * * * * *
16124478 TGTCTTCATGTATTGGCGTGA-AGTAGATTGAAGATAGCAGGTCC
1 TGTCTTCCTATATTGGTG-GAGAGTAGATCGAAGAT-GCAGATCT
* * **
16124522 TGTCTTTCTATATTGGTAGGAG-GCAGATCGAAGATATAGATCT
1 TGTCTTCCTATATTGGT-GGAGAGTAGATCGAAGATGCAGATCT
* * ** * *
16124565 TATCTTCCCATACAGGTGGCGAAGTAGATCGAAGAAAGCAGATCT
1 TGTCTTCCTATATTGGTGGAG-AGTAGATCGAAG-ATGCAGATCT
*
16124610 TGCCTTCCT
1 TGTCTTCCT
16124619 GCACCGACAG
Statistics
Matches: 665, Mismatches: 130, Indels: 104
0.74 0.14 0.12
Matches are distributed among these distances:
42 18 0.03
43 109 0.16
44 350 0.53
45 173 0.26
46 10 0.02
47 5 0.01
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (43 bp):
TGTCTTCCTATATTGGTGGAGAGTAGATCGAAGATGCAGATCT
Found at i:16123950 original size:132 final size:132
Alignment explanation
Indices: 16123713--16124616 Score: 1441
Period size: 132 Copynumber: 6.8 Consensus size: 132
16123703 GCAGATCAGT
* *
16123713 GAAGATAGTAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTTTTC
1 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTC
* *
16123778 CCATATTGGTGGC-AGAGTAGATCGAAGAAAGCAGATCTTGTTTTCATGTATTGGCGTGAAATAG
66 CCATATTGGTGGCGA-AGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAG
16123842 ATC
130 ATC
** * *
16123845 GAAGATAGCAGGTTATGTCTTCCTATATTGGTAGAAAGTGGATCGAATATGCAGATCTTGTCTTC
1 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTC
* *
16123910 CCATATTGGTGGCGGAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGA
66 CCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGA
*
16123975 TT
131 TC
*
16123977 GAAGATAGCAGGTCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTC
1 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTC
* *
16124042 CCATATTGGTGGCGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTATTAGCGTGAAGTAGA
66 CCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGA
16124107 TC
131 TC
*
16124109 GAAGATAGCAGATCCTGTCTTCCTATATTGGTAGTGAAGTGGATCGAAGATGCAGATCTTGTCTT
1 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAG-GAAGTGGATCGAAGATGCAGATCTTGTCTT
* *
16124174 CCCATACTGGTGGCGAAGTAGATCGAAGAAATCAGATCTTGTCTTCATGTATTGGCGTGAAGTAG
65 CCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAG
16124239 ATC
130 ATC
* *
16124242 GAAGATAACAGGTCCTGTCTTCCTATATTGGTAGGAAGTGAATCGAAGATGCAGATCTTGTCTTC
1 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTC
* * *
16124307 CCATATTGGTGGCGGAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTAGCGTGAAATAGA
66 CCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGA
16124372 TC
131 TC
* *
16124374 GAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTT
1 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAG-GAAGTGGATCGAAGATGCAGATCTTGTCTT
* *
16124439 CCCATACTGGTGGCGAAGTAGGTCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAG
65 CCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAG
*
16124504 ATT
130 ATC
* * ** ** *
16124507 GAAGATAGCAGGTCCTGTCTTTCTATATTGGTAGGAGGCAGATCGAAGATATAGATCTTATCTTC
1 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTC
** *
16124572 CCATACAGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGCCTTC
66 CCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTC
16124617 CTGCACCGAC
Statistics
Matches: 712, Mismatches: 57, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
132 464 0.65
133 248 0.35
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (132 bp):
GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTC
CCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGA
TC
Found at i:16124291 original size:265 final size:264
Alignment explanation
Indices: 16123712--16124616 Score: 1474
Period size: 265 Copynumber: 3.4 Consensus size: 264
16123702 AGCAGATCAG
* * *
16123712 TGAAGATAGTAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTTTT
1 TGAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGAATCGAAGATGCAGATCTTGTCTT
* *
16123777 CCCATATTGGTGGC-AGAGTAGATCGAAGAAAGCAGATCTTGTTTTCATGTATTGGCGTGAAATA
66 CCCATATTGGTGGCGA-AGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTAGCGTGAAATA
* * * *
16123841 GATCGAAGATAGCAGGTTATGTCTTCCTATATTGGTAGAAAGTGGATCGAATATGCAGATCTTGT
130 GATCGAAGATAGCAGATCATGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGT
* * *
16123906 CTTCCCATATTGGTGGCGGAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCATGAAG
195 CTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAG
16123971 TAGAT
260 TAGAT
* *
16123976 TGAAGATAGCAGGTCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTT
1 TGAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGAATCGAAGATGCAGATCTTGTCTT
* *
16124041 CCCATATTGGTGGCGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTATTAGCGTGAAGTAG
66 CCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTAGCGTGAAATAG
*
16124106 ATCGAAGATAGCAGATCCTGTCTTCCTATATTGGTAGTGAAGTGGATCGAAGATGCAGATCTTGT
131 ATCGAAGATAGCAGATCATGTCTTCCTATATTGGTAG-GAAGTGGATCGAAGATGCAGATCTTGT
*
16124171 CTTCCCATACTGGTGGCGAAGTAGATCGAAGAAATCAGATCTTGTCTTCATGTATTGGCGTGAAG
195 CTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAG
16124236 TAGAT
260 TAGAT
* *
16124241 CGAAGATAACAGGTCCTGTCTTCCTATATTGGTAGGAAGTGAATCGAAGATGCAGATCTTGTCTT
1 TGAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGAATCGAAGATGCAGATCTTGTCTT
*
16124306 CCCATATTGGTGGCGGAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTAGCGTGAAATAG
66 CCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTAGCGTGAAATAG
*
16124371 ATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGT
131 ATCGAAGATAGCAGATCATGTCTTCCTATATTGGTAG-GAAGTGGATCGAAGATGCAGATCTTGT
*
16124436 CTTCCCATACTGGTGGCGAAGTAGGTCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAG
195 CTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAG
16124501 TAGAT
260 TAGAT
* ** *
16124506 TGAAGATAGCAGGTCCTGTCTTTCTATATTGGTAGG-AG-GCAGATCGAAGATATAGATCTTATC
1 TGAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTG-A-ATCGAAGATGCAGATCTTGTC
** *
16124569 TTCCCATACAGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGCCTTC
64 TTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTC
16124617 CTGCACCGAC
Statistics
Matches: 600, Mismatches: 37, Indels: 7
0.93 0.06 0.01
Matches are distributed among these distances:
263 1 0.00
264 158 0.26
265 441 0.74
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (264 bp):
TGAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGAATCGAAGATGCAGATCTTGTCTT
CCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTAGCGTGAAATAG
ATCGAAGATAGCAGATCATGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTC
TTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGT
AGAT
Found at i:16124804 original size:88 final size:88
Alignment explanation
Indices: 16124601--16124914 Score: 506
Period size: 88 Copynumber: 3.6 Consensus size: 88
16124591 GATCGAAGAA
* *
16124601 AGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT-ATC-TG
1 AGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCACCGGG
16124664 TTGCAGCGGAGCAGGCTAAAAAT
66 TTGCAGCGGAGCAGGCTAAAAAT
* *
16124687 AGCAGATCTTGCCTTCCTGCACCGACAGCGAATCAGATCGAAGACACCAGCCTTGCCTCCCCGGG
1 AGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCACCGGG
*
16124752 TTGCAGTGGAGCAGGCTAAAAAT
66 TTGCAGCGGAGCAGGCTAAAAAT
*
16124775 AGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCACTGGG
1 AGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCACCGGG
* *
16124840 TTGCAACGGAGCAGGTTAAAAAT
66 TTGCAGCGGAGCAGGCTAAAAAT
* * * *
16124863 AGCAGATCTTGCCTTCCTGCACCGACAGTGAAGCAGACCGATGACCCCAGCC
1 AGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCC
16124915 CTATCTCCCT
Statistics
Matches: 211, Mismatches: 15, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
86 57 0.27
87 1 0.00
88 153 0.73
ACGTcount: A:0.27, C:0.31, G:0.25, T:0.18
Consensus pattern (88 bp):
AGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCACCGGG
TTGCAGCGGAGCAGGCTAAAAAT
Found at i:16125035 original size:68 final size:68
Alignment explanation
Indices: 16124916--16125042 Score: 168
Period size: 68 Copynumber: 1.9 Consensus size: 68
16124906 ACCCCAGCCC
* *
16124916 TATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAATCCTACCTCCCTGGTCAGTAGGAA
1 TATCTCCCTGGTCAGCAGTGGAATAGATTAAAGATTGTGAATACTACCTCCCTGGTCAGTAGGAA
16124981 TTT
66 TTT
* * * *
16124984 TATCTCCCTGAG-CAGTAGTGGAATAGATTGAAGATTGT-AGGTACTATCTCCCTGGTCAG
1 TATCTCCCTG-GTCAGCAGTGGAATAGATTAAAGATTGTGA-ATACTACCTCCCTGGTCAG
16125043 CAGTGGAATA
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
67 1 0.02
68 49 0.96
69 1 0.02
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (68 bp):
TATCTCCCTGGTCAGCAGTGGAATAGATTAAAGATTGTGAATACTACCTCCCTGGTCAGTAGGAA
TTT
Found at i:16125099 original size:44 final size:44
Alignment explanation
Indices: 16124984--16125102 Score: 152
Period size: 44 Copynumber: 2.7 Consensus size: 44
16124974 GTAGGAATTT
* * *
16124984 TATCTCCCTGAGCAGTAGTGGAATAGATTGAAGATTGTAGGTAC
1 TATCTCCCTGAGCAGCAGTGGAATAGGTTGAAGATTGTAGATAC
*
16125028 TATCTCCCTG-GTCAGCAGTGGAATAGGTTGAAGATTGT-GAATCC
1 TATCTCCCTGAG-CAGCAGTGGAATAGGTTGAAGATTGTAG-ATAC
* *
16125072 TATCTCCCTGAGCAGCAGTAGAGTAGGTTGA
1 TATCTCCCTGAGCAGCAGTGGAATAGGTTGA
16125103 GAATAGCAGA
Statistics
Matches: 66, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
43 2 0.03
44 63 0.95
45 1 0.02
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.29
Consensus pattern (44 bp):
TATCTCCCTGAGCAGCAGTGGAATAGGTTGAAGATTGTAGATAC
Found at i:16125814 original size:21 final size:21
Alignment explanation
Indices: 16125769--16125845 Score: 88
Period size: 19 Copynumber: 3.7 Consensus size: 21
16125759 TCTTCAAGGA
*
16125769 TATGTAATCTTAGATATGA--
1 TATGCAATCTTAGATATGATT
16125788 TATGCAATCTTAGATATGATT
1 TATGCAATCTTAGATATGATT
16125809 TATGCAATCTTAGAAGATATGATT
1 TATGCAATCTT---AGATATGATT
*
16125833 T-TGTAATCTTAGA
1 TATGCAATCTTAGA
16125846 GATTTAATTT
Statistics
Matches: 51, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
19 18 0.35
20 3 0.06
21 11 0.22
23 8 0.16
24 11 0.22
ACGTcount: A:0.35, C:0.08, G:0.16, T:0.42
Consensus pattern (21 bp):
TATGCAATCTTAGATATGATT
Found at i:16125844 original size:23 final size:24
Alignment explanation
Indices: 16125780--16125845 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 24
16125770 ATGTAATCTT
16125780 AGATATGA--TATGCAATCTT---
1 AGATATGATTTATGCAATCTTAGA
16125799 AGATATGATTTATGCAATCTTAGA
1 AGATATGATTTATGCAATCTTAGA
*
16125823 AGATATGATTT-TGTAATCTTAGA
1 AGATATGATTTATGCAATCTTAGA
16125846 GATTTAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
19 8 0.20
21 11 0.27
23 11 0.27
24 11 0.27
ACGTcount: A:0.36, C:0.08, G:0.17, T:0.39
Consensus pattern (24 bp):
AGATATGATTTATGCAATCTTAGA
Found at i:16126170 original size:3 final size:3
Alignment explanation
Indices: 16126162--16126203 Score: 57
Period size: 3 Copynumber: 14.0 Consensus size: 3
16126152 TGTTATTAAG
* * *
16126162 TTA TTA TTA TTG TTA TTA TTA TCA TCA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
16126204 CTATATATAC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:16126176 original size:20 final size:20
Alignment explanation
Indices: 16126120--16126179 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 20
16126110 CTTTTTTTAT
* *
16126120 TTATTATTTATTTTTATTAAAT
1 TTATTA-TTATTGTTATT-AAG
*
16126142 TTGATT-TTCTTGTTATTAAG
1 TT-ATTATTATTGTTATTAAG
16126162 TTATTATTATTGTTATTA
1 TTATTATTATTGTTATTA
16126180 TTATCATCAT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
19 3 0.09
20 15 0.47
21 9 0.28
22 2 0.06
23 3 0.09
ACGTcount: A:0.27, C:0.02, G:0.07, T:0.65
Consensus pattern (20 bp):
TTATTATTATTGTTATTAAG
Found at i:16126359 original size:17 final size:18
Alignment explanation
Indices: 16126337--16126372 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
16126327 TATATACATA
*
16126337 TATATACATTTAC-ATTT
1 TATATACATATACAATTT
16126354 TATATACATATACAATTT
1 TATATACATATACAATTT
16126372 T
1 T
16126373 TTATTTCCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.50
Consensus pattern (18 bp):
TATATACATATACAATTT
Found at i:16128670 original size:17 final size:17
Alignment explanation
Indices: 16128650--16128684 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
16128640 TGGAAATAAA
*
16128650 AAAATATATATGTATAT
1 AAAATATAAATGTATAT
*
16128667 AAAATGTAAATGTATAT
1 AAAATATAAATGTATAT
16128684 A
1 A
16128685 TATGTATATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.09, T:0.37
Consensus pattern (17 bp):
AAAATATAAATGTATAT
Found at i:16128823 original size:3 final size:3
Alignment explanation
Indices: 16128808--16128869 Score: 70
Period size: 3 Copynumber: 20.0 Consensus size: 3
16128798 GTATATATAG
* * *
16128808 TAA TAA TAC TAA TAA TAA TAA TAA TGA TAA TAA TAA GAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
16128856 CTTAA TAA CAA TAA
1 --TAA TAA TAA TAA
16128870 AATCAAATTT
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
3 46 0.94
5 3 0.06
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:16129202 original size:23 final size:24
Alignment explanation
Indices: 16129172--16129218 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
16129162 AAATTAAATC
16129172 TCTAAGATTACA-AAATCATATCT
1 TCTAAGATTACATAAATCATATCT
*
16129195 TCTAAGATTGCATAAATCATATCT
1 TCTAAGATTACATAAATCATATCT
16129219 AAGATTGCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 11 0.50
24 11 0.50
ACGTcount: A:0.40, C:0.17, G:0.06, T:0.36
Consensus pattern (24 bp):
TCTAAGATTACATAAATCATATCT
Found at i:16129216 original size:24 final size:24
Alignment explanation
Indices: 16129172--16129237 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 24
16129162 AAATTAAATC
*
16129172 TCTAAGATTACA-AAATCATATCT
1 TCTAAGATTGCATAAATCATATCT
16129195 TCTAAGATTGCATAAATCATA---
1 TCTAAGATTGCATAAATCATATCT
16129216 TCTAAGATTGCAT--ATCATATCT
1 TCTAAGATTGCATAAATCATATCT
16129238 AAGATTACAT
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
19 6 0.16
21 13 0.34
23 11 0.29
24 8 0.21
ACGTcount: A:0.39, C:0.17, G:0.08, T:0.36
Consensus pattern (24 bp):
TCTAAGATTGCATAAATCATATCT
Found at i:16129221 original size:21 final size:21
Alignment explanation
Indices: 16129172--16129248 Score: 88
Period size: 19 Copynumber: 3.7 Consensus size: 21
16129162 AAATTAAATC
16129172 TCTAAGATTACA-AAATCATA
1 TCTAAGATTACATAAATCATA
*
16129192 TCTTCTAAGATTGCATAAATCATA
1 ---TCTAAGATTACATAAATCATA
*
16129216 TCTAAGATTGCAT--ATCATA
1 TCTAAGATTACATAAATCATA
16129235 TCTAAGATTACATA
1 TCTAAGATTACATA
16129249 TCCTTGAAGA
Statistics
Matches: 50, Mismatches: 2, Indels: 7
0.85 0.03 0.12
Matches are distributed among these distances:
19 18 0.36
21 13 0.26
23 11 0.22
24 8 0.16
ACGTcount: A:0.42, C:0.16, G:0.08, T:0.35
Consensus pattern (21 bp):
TCTAAGATTACATAAATCATA
Found at i:16130022 original size:40 final size:40
Alignment explanation
Indices: 16129965--16130050 Score: 154
Period size: 40 Copynumber: 2.1 Consensus size: 40
16129955 AATTATTGAA
**
16129965 TGTTTGCACATTTGTGCCCCTATTTGTACTTCGGTACCCT
1 TGTTTGCACATACGTGCCCCTATTTGTACTTCGGTACCCT
16130005 TGTTTGCACATACGTGCCCCTATTTGTACTTCGGTACCCT
1 TGTTTGCACATACGTGCCCCTATTTGTACTTCGGTACCCT
16130045 TGTTTG
1 TGTTTG
16130051 TATTTTAATA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.13, C:0.27, G:0.19, T:0.42
Consensus pattern (40 bp):
TGTTTGCACATACGTGCCCCTATTTGTACTTCGGTACCCT
Found at i:16130052 original size:20 final size:20
Alignment explanation
Indices: 16129987--16130052 Score: 71
Period size: 20 Copynumber: 3.3 Consensus size: 20
16129977 TGTGCCCCTA
16129987 TTTGTACTTCGGTACCCTTG
1 TTTGTACTTCGGTACCCTTG
* * * * *
16130007 TTTGCACATAC-GTGCCCCTA
1 TTTGTAC-TTCGGTACCCTTG
16130027 TTTGTACTTCGGTACCCTTG
1 TTTGTACTTCGGTACCCTTG
16130047 TTTGTA
1 TTTGTA
16130053 TTTTAATACC
Statistics
Matches: 34, Mismatches: 10, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
19 2 0.06
20 30 0.88
21 2 0.06
ACGTcount: A:0.14, C:0.26, G:0.18, T:0.42
Consensus pattern (20 bp):
TTTGTACTTCGGTACCCTTG
Found at i:16132995 original size:41 final size:41
Alignment explanation
Indices: 16132937--16133044 Score: 137
Period size: 41 Copynumber: 2.6 Consensus size: 41
16132927 GATGTGTGAA
* * * *
16132937 ATCAGG-CTTTGAGCCTAGTAGGTTTTGCGCCGGTGTAATGT
1 ATCAGGTC-TTGAACCTAGTAGGCTTCGCGCCAGTGTAATGT
* *
16132978 ATCAGGTCTTGAACCTAGCAGGCTTCGTGCCAGTGTAATGT
1 ATCAGGTCTTGAACCTAGTAGGCTTCGCGCCAGTGTAATGT
*
16133019 ATCAAGTCTTGAACCTAGTAGGCTTC
1 ATCAGGTCTTGAACCTAGTAGGCTTC
16133045 ATGCTGGTGT
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
41 57 0.98
42 1 0.02
ACGTcount: A:0.21, C:0.20, G:0.27, T:0.31
Consensus pattern (41 bp):
ATCAGGTCTTGAACCTAGTAGGCTTCGCGCCAGTGTAATGT
Found at i:16133055 original size:41 final size:41
Alignment explanation
Indices: 16132965--16133104 Score: 181
Period size: 41 Copynumber: 3.4 Consensus size: 41
16132955 TAGGTTTTGC
* *
16132965 GCCGGTGTAATGTATCAGGTCTTGAACCTAGCAGGCTTCGT
1 GCCGGTGTAATGTATCAAGTCTTGAACCTAGCAGGCTTCAT
* *
16133006 GCCAGTGTAATGTATCAAGTCTTGAACCTAGTAGGCTTCAT
1 GCCGGTGTAATGTATCAAGTCTTGAACCTAGCAGGCTTCAT
* * * * *
16133047 GCTGGTGTAATATATCAAGCCTTGAGCCTAGCAAGCTTCAT
1 GCCGGTGTAATGTATCAAGTCTTGAACCTAGCAGGCTTCAT
**
16133088 GCCGGTGTGTTGTATCA
1 GCCGGTGTAATGTATCA
16133105 TGTAACTTGT
Statistics
Matches: 84, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 84 1.00
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.31
Consensus pattern (41 bp):
GCCGGTGTAATGTATCAAGTCTTGAACCTAGCAGGCTTCAT
Found at i:16136528 original size:5 final size:5
Alignment explanation
Indices: 16136499--16136571 Score: 58
Period size: 5 Copynumber: 13.8 Consensus size: 5
16136489 TGGGGGTAAT
* * * *
16136499 ATATG ATCTG TTATG ATATGAG ATATG ATATG ATACG ATATG -TAATCCA
1 ATATG ATATG ATATG ATAT--G ATATG ATATG ATATG ATATG AT-AT--G
16136548 ATATG ATATG ATATG ATATG ATAT
1 ATATG ATATG ATATG ATATG ATAT
16136572 AAGATATACT
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
4 1 0.02
5 45 0.83
7 7 0.13
8 1 0.02
ACGTcount: A:0.38, C:0.05, G:0.18, T:0.38
Consensus pattern (5 bp):
ATATG
Found at i:16136538 original size:22 final size:22
Alignment explanation
Indices: 16136499--16136540 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
16136489 TGGGGGTAAT
* * *
16136499 ATATGATCTGTTATGATATGAG
1 ATATGATATGATACGATATGAG
16136521 ATATGATATGATACGATATG
1 ATATGATATGATACGATATG
16136541 TAATCCAATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.36, C:0.05, G:0.21, T:0.38
Consensus pattern (22 bp):
ATATGATATGATACGATATGAG
Found at i:16136540 original size:27 final size:27
Alignment explanation
Indices: 16136510--16136578 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
16136500 TATGATCTGT
*
16136510 TATGATATGAGATATGATATGATACGA
1 TATGATATAAGATATGATATGATACGA
* *
16136537 TATG-TAATCCA-ATATGATATGATATGA
1 TATGAT-AT-AAGATATGATATGATACGA
16136564 TATGATATAAGATAT
1 TATGATATAAGATAT
16136579 ACTTCGATAA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
26 2 0.06
27 31 0.89
28 2 0.06
ACGTcount: A:0.42, C:0.04, G:0.17, T:0.36
Consensus pattern (27 bp):
TATGATATAAGATATGATATGATACGA
Found at i:16138564 original size:25 final size:25
Alignment explanation
Indices: 16138531--16138586 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
16138521 CTCTCTCGAT
**
16138531 CCATATAATAGGAACCTCATGTGAG
1 CCATATAATAGGAACCTCATAAGAG
* * *
16138556 CCATGTAATGGGAAGCTCATAAGAG
1 CCATATAATAGGAACCTCATAAGAG
16138581 CCATAT
1 CCATAT
16138587 TCAGAAAACT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (25 bp):
CCATATAATAGGAACCTCATAAGAG
Found at i:16138818 original size:24 final size:24
Alignment explanation
Indices: 16138791--16138843 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
16138781 CCCAACCAAT
* *
16138791 CGGGATGCTCCGA-AGAGCTATTAA
1 CGGGAAGCT-CGAGAGAGCTAATAA
*
16138815 CGGGAAGCTCGAGAGGGCTAATAA
1 CGGGAAGCTCGAGAGAGCTAATAA
16138839 CGGGA
1 CGGGA
16138844 CGCACTTTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 3 0.12
24 22 0.88
ACGTcount: A:0.30, C:0.19, G:0.36, T:0.15
Consensus pattern (24 bp):
CGGGAAGCTCGAGAGAGCTAATAA
Found at i:16139191 original size:21 final size:21
Alignment explanation
Indices: 16139165--16139205 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
16139155 AATCTAACTA
16139165 AATTTAATACAATTCATATTC
1 AATTTAATACAATTCATATTC
* *
16139186 AATTTAGTCCAATTCATATT
1 AATTTAATACAATTCATATT
16139206 TTAGGCAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.39, C:0.15, G:0.02, T:0.44
Consensus pattern (21 bp):
AATTTAATACAATTCATATTC
Found at i:16142758 original size:17 final size:18
Alignment explanation
Indices: 16142723--16142759 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
16142713 ATAGCATAGT
16142723 ATGGTTCGCATATACAAC
1 ATGGTTCGCATATACAAC
16142741 ATGGTTCGCATA-ACAAC
1 ATGGTTCGCATATACAAC
16142758 AT
1 AT
16142760 AGCAGGGTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.27
Consensus pattern (18 bp):
ATGGTTCGCATATACAAC
Found at i:16142844 original size:53 final size:52
Alignment explanation
Indices: 16142763--16143047 Score: 213
Period size: 53 Copynumber: 5.4 Consensus size: 52
16142753 ACAACATAGC
* * * * * *
16142763 AGGGTTCACACATAAGGTAGGCTTCACACTTTTGGTTAGGCTCACACATTGGGT
1 AGGGTTCGCACATTA-GTAGG-TTCACACTTTAGGTTAGGTTCGCACATTAGGT
16142817 AGGGTTCGCACATTAGTAGAGTTCACACTTTAGGTT-GGATTCGCACATTAGGT
1 AGGGTTCGCACATTAGTAG-GTTCACACTTTAGGTTAGG-TTCGCACATTAGGT
** *
16142870 AGGGTTCGCACATTAGTAGGGTTTGCACTTTAGG-AAGGGTTCGCACATTAGGT
1 AGGGTTCGCACATTAGTA-GGTTCACACTTTAGGTTA-GGTTCGCACATTAGGT
* ** * *
16142923 AGGGTTTGCACATTAGTAGGGTTTGCACTTTAGG-AAGGGTTCACACATTA-GT
1 AGGGTTCGCACATTAGTA-GGTTCACACTTTAGGTTA-GGTTCGCACATTAGGT
* * * * ** * *
16142975 AAGGTTTGCACTTTAGGAAGGGTTCACACAATA-G-TAGGGTTCACACTTTAGGT
1 AGGGTTCGCACATTA-GTA-GGTTCACACTTTAGGTTA-GGTTCGCACATTAGGT
* *
16143028 AGGGCTCGCACATTGGTAGG
1 AGGGTTCGCACATTAGTAGG
16143048 GTTTGCATGT
Statistics
Matches: 198, Mismatches: 26, Indels: 17
0.82 0.11 0.07
Matches are distributed among these distances:
51 2 0.01
52 34 0.17
53 145 0.73
54 17 0.09
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.30
Consensus pattern (52 bp):
AGGGTTCGCACATTAGTAGGTTCACACTTTAGGTTAGGTTCGCACATTAGGT
Found at i:16142860 original size:35 final size:35
Alignment explanation
Indices: 16142814--16143087 Score: 282
Period size: 35 Copynumber: 7.8 Consensus size: 35
16142804 TCACACATTG
* *
16142814 GGTAGGGTTCGCACATTAGTAGAGTTCACACTTTA
1 GGTAGGGTTCGCACATTAGTAGGGTTCGCACTTTA
* * *
16142849 GGTTGGATTCGCACATTAGGTAGGGTTCGCACATTA
1 GGTAGGGTTCGCACATTA-GTAGGGTTCGCACTTTA
* * * *
16142885 -GTAGGGTTTGCACTTTAGGAAGGGTTCGCACATTA
1 GGTAGGGTTCGCACATTA-GTAGGGTTCGCACTTTA
* *
16142920 GGTAGGGTTTGCACATTAGTAGGGTTTGCACTTTA
1 GGTAGGGTTCGCACATTAGTAGGGTTCGCACTTTA
* * * *
16142955 GGAAGGGTTCACACATTAGTAAGGTTTGCACTTTA
1 GGTAGGGTTCGCACATTAGTAGGGTTCGCACTTTA
* * * *
16142990 GGAAGGGTTCACACAATAGTAGGGTTCACACTTTA
1 GGTAGGGTTCGCACATTAGTAGGGTTCGCACTTTA
* * * *
16143025 GGTAGGGCTCGCACATTGGTAGGGTTTGCA-TGTAA
1 GGTAGGGTTCGCACATTAGTAGGGTTCGCACT-TTA
* *
16143060 GGTAGGGTTTGCACATTAGTAGAGTTCG
1 GGTAGGGTTCGCACATTAGTAGGGTTCG
16143088 TACATCACAT
Statistics
Matches: 201, Mismatches: 35, Indels: 6
0.83 0.14 0.02
Matches are distributed among these distances:
34 1 0.00
35 170 0.85
36 30 0.15
ACGTcount: A:0.24, C:0.15, G:0.30, T:0.31
Consensus pattern (35 bp):
GGTAGGGTTCGCACATTAGTAGGGTTCGCACTTTA
Found at i:16142917 original size:88 final size:88
Alignment explanation
Indices: 16142817--16143078 Score: 321
Period size: 88 Copynumber: 3.0 Consensus size: 88
16142807 CACATTGGGT
* * *
16142817 AGGGTTCGCACATTAGTAGAGTTCACACTTTAGGTTGGATTCGCACATTAGGTAGGGTTCGCACA
1 AGGGTTCGCACATTAGTAGGGTTCACACTTTAGGTAGGGTTCGCACATTAGGTAGGGTTCGCACA
16142882 TTAGTAGGGTTTGCACTTTAGGA
66 TTAGTAGGGTTTGCACTTTAGGA
** * * * * *
16142905 AGGGTTCGCACATTAGGTAGGGTTTGCACATTA-GTAGGGTTTGCACTTTAGGAAGGGTTCACAC
1 AGGGTTCGCACATTA-GTAGGGTTCACACTTTAGGTAGGGTTCGCACATTAGGTAGGGTTCGCAC
*
16142969 ATTAGTAAGGTTTGCACTTTAGGA
65 ATTAGTAGGGTTTGCACTTTAGGA
* * * * **
16142993 AGGGTTCACACAATAGTAGGGTTCACACTTTAGGTAGGGCTCGCACATT-GGTAGGGTTTGCATG
1 AGGGTTCGCACATTAGTAGGGTTCACACTTTAGGTAGGGTTCGCACATTAGGTAGGGTTCGCACA
* *
16143057 TAAGGTAGGGTTTGCACATTAG
66 TTA-GTAGGGTTTGCACTTTAG
16143079 TAGAGTTCGT
Statistics
Matches: 144, Mismatches: 27, Indels: 6
0.81 0.15 0.03
Matches are distributed among these distances:
87 26 0.18
88 105 0.73
89 13 0.09
ACGTcount: A:0.24, C:0.15, G:0.30, T:0.31
Consensus pattern (88 bp):
AGGGTTCGCACATTAGTAGGGTTCACACTTTAGGTAGGGTTCGCACATTAGGTAGGGTTCGCACA
TTAGTAGGGTTTGCACTTTAGGA
Found at i:16143126 original size:33 final size:33
Alignment explanation
Indices: 16143089--16143193 Score: 140
Period size: 33 Copynumber: 3.2 Consensus size: 33
16143079 TAGAGTTCGT
* *
16143089 ACATCACATAGAAGTCACATAGCATAGGTTCAC
1 ACATCACATAGAAGTCACACAACATAGGTTCAC
*
16143122 ACATCACATAGTAGTCACACAACATAGGTTCGA-
1 ACATCACATAGAAGTCACACAACATAGGTTC-AC
* * *
16143155 AAATTACATAGCAGTCACACAACATAGGTTCAC
1 ACATCACATAGAAGTCACACAACATAGGTTCAC
16143188 ACATCA
1 ACATCA
16143194 TAATAGGGTT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
32 1 0.02
33 60 0.97
34 1 0.02
ACGTcount: A:0.41, C:0.25, G:0.13, T:0.21
Consensus pattern (33 bp):
ACATCACATAGAAGTCACACAACATAGGTTCAC
Found at i:16143131 original size:17 final size:16
Alignment explanation
Indices: 16143104--16143195 Score: 61
Period size: 17 Copynumber: 5.6 Consensus size: 16
16143094 ACATAGAAGT
16143104 CACATAGCATAGGTTCA
1 CACATA-CATAGGTTCA
16143121 CACATCACATA-GTAGTCA
1 CACAT-ACATAGGT--TCA
16143139 CACA-ACATAGGTTCGA
1 CACATACATAGGTTC-A
*
16143155 -AAATTACATAGCAG-TCA
1 CACA-TACATAG--GTTCA
16143172 CACA-ACATAGGTTCA
1 CACATACATAGGTTCA
16143187 CACAT-CATA
1 CACATACATA
16143196 ATAGGGTTCA
Statistics
Matches: 61, Mismatches: 2, Indels: 26
0.69 0.02 0.29
Matches are distributed among these distances:
14 1 0.02
15 15 0.25
16 14 0.23
17 18 0.30
18 12 0.20
19 1 0.02
ACGTcount: A:0.40, C:0.25, G:0.13, T:0.22
Consensus pattern (16 bp):
CACATACATAGGTTCA
Done.