Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168159.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_4, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 33012953
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 65000 characters in sequence are not A, C, G, or T
File 105 of 160
Found at i:19918758 original size:52 final size:51
Alignment explanation
Indices: 19918669--19918794 Score: 128
Period size: 52 Copynumber: 2.4 Consensus size: 51
19918659 GAAAGAGTCA
* * *
19918669 AAATATCAATCTTTCCTTAAAAAATAATTTTAAATTTT-TAAGAAAAAAGTTG
1 AAATATCAAT-TTTCCTTAAAAAATAATATCAAATTTTGGAA-AAAAAAGTTG
** * *
19918721 AAATATCAATTTTCCTTTTAAAATGATATCAAGATTTTGGAAAGAAAAGTTG
1 AAATATCAATTTTCCTTAAAAAATAATATCAA-ATTTTGGAAAAAAAAGTTG
* *
19918773 CAACATCAATTTTTCCTTAAAA
1 AAATATCAA-TTTTCCTTAAAA
19918795 CTAAATTTTT
Statistics
Matches: 60, Mismatches: 11, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
51 17 0.28
52 31 0.52
53 12 0.20
ACGTcount: A:0.44, C:0.10, G:0.08, T:0.37
Consensus pattern (51 bp):
AAATATCAATTTTCCTTAAAAAATAATATCAAATTTTGGAAAAAAAAGTTG
Found at i:19923521 original size:12 final size:12
Alignment explanation
Indices: 19923479--19923530 Score: 51
Period size: 12 Copynumber: 4.8 Consensus size: 12
19923469 TTTTTTATTT
* *
19923479 TTGATTTTGATT
1 TTGATTTTTATG
19923491 TTGA-TTTTAT-
1 TTGATTTTTATG
19923501 TT-A-TTTTATG
1 TTGATTTTTATG
19923511 TTGATTTTTATG
1 TTGATTTTTATG
19923523 TT-ATTTTT
1 TTGATTTTT
19923531 TATGATTTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
9 7 0.19
10 4 0.11
11 12 0.33
12 13 0.36
ACGTcount: A:0.17, C:0.00, G:0.12, T:0.71
Consensus pattern (12 bp):
TTGATTTTTATG
Found at i:19923542 original size:22 final size:21
Alignment explanation
Indices: 19923482--19923529 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 21
19923472 TTTATTTTTG
*
19923482 ATTTTGATTTTGA-TTTTATTT
1 ATTTT-ATGTTGATTTTTATTT
19923503 ATTTTATGTTGATTTTTATGTT
1 ATTTTATGTTGATTTTTAT-TT
19923525 ATTTT
1 ATTTT
19923530 TTATGATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 6 0.25
21 11 0.46
22 7 0.29
ACGTcount: A:0.19, C:0.00, G:0.10, T:0.71
Consensus pattern (21 bp):
ATTTTATGTTGATTTTTATTT
Found at i:19923571 original size:3 final size:3
Alignment explanation
Indices: 19923565--19923621 Score: 91
Period size: 3 Copynumber: 19.7 Consensus size: 3
19923555 ATATTATTGC
*
19923565 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TGT TAT T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
19923612 TA- TAT TAT TA
1 TAT TAT TAT TA
19923622 CTAGTAAAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
2 4 0.08
3 46 0.92
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:19924131 original size:16 final size:17
Alignment explanation
Indices: 19924083--19924143 Score: 52
Period size: 16 Copynumber: 3.4 Consensus size: 17
19924073 TAAATAATAT
* *
19924083 AATAAAAAAGATAAAAAC
1 AATAAAATA-ATAATAAC
19924101 AATAAACAGTAAATAATAAC
1 AATAAA-A-T-AATAATAAC
*
19924121 AA-AAAATAATAATCAC
1 AATAAAATAATAATAAC
19924137 AATAAAA
1 AATAAAA
19924144 ATTAATTAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
16 10 0.28
17 5 0.14
18 7 0.19
19 4 0.11
20 9 0.25
21 1 0.03
ACGTcount: A:0.72, C:0.08, G:0.03, T:0.16
Consensus pattern (17 bp):
AATAAAATAATAATAAC
Found at i:19936093 original size:34 final size:34
Alignment explanation
Indices: 19936055--19936247 Score: 163
Period size: 34 Copynumber: 5.3 Consensus size: 34
19936045 CATATTTTTA
19936055 ATTTAAAGTTTCATTACCTTTGGTCAAAAGAGCC
1 ATTTAAAGTTTCATTACCTTTGGTCAAAAGAGCC
* * *
19936089 ATTTAAAGTTTCATTGCCTTTGGTCAAAATAACC
1 ATTTAAAGTTTCATTACCTTTGGTCAAAAGAGCC
* * *
19936123 ATTTAAAGTTTCATTACCTCTGGTCAGAGGAGCC
1 ATTTAAAGTTTCATTACCTTTGGTCAAAAGAGCC
* *
19936157 TTTTAAATTTAAAGTTTCATTACCTTTGGTTAAAATAGCC
1 ------ATTTAAAGTTTCATTACCTTTGGTCAAAAGAGCC
* *
19936197 TTTTTAATTTAAAGTTTCATTGCCTTTAGTCAAATA-AGCC
1 ------ATTTAAAGTTTCATTACCTTTGGTCAAA-AGAGCC
*
19936237 ATCTAAAGTTT
1 ATTTAAAGTTT
19936248 GTTATTTCTG
Statistics
Matches: 133, Mismatches: 19, Indels: 14
0.80 0.11 0.08
Matches are distributed among these distances:
34 69 0.52
40 63 0.47
41 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.13, T:0.40
Consensus pattern (34 bp):
ATTTAAAGTTTCATTACCTTTGGTCAAAAGAGCC
Found at i:19936178 original size:40 final size:40
Alignment explanation
Indices: 19936123--19937242 Score: 510
Period size: 40 Copynumber: 28.4 Consensus size: 40
19936113 CAAAATAACC
* * * *
19936123 ATTTAAAGTTTCATTACCTCTGGTCAGAGGAGCCTTTTAA
1 ATTTAAAGTTTCATTGCCTCTAGTTAAAGGAGCCTTTTAA
* * * ** *
19936163 ATTTAAAGTTTCATTACCTTTGGTTAAAATAGCCTTTTTA
1 ATTTAAAGTTTCATTGCCTCTAGTTAAAGGAGCCTTTTAA
* * ** * *
19936203 ATTTAAAGTTTCATTGCCTTTAGTCAAATAAGCCATCTAA
1 ATTTAAAGTTTCATTGCCTCTAGTTAAAGGAGCCTTTTAA
** * *
19936243 AGTTTGTTA-TTTC--TG-ATC-AG--AAA--AGTCTTTTAA
1 A-TTT-AAAGTTTCATTGCCTCTAGTTAAAGGAGCCTTTTAA
* * * * ** * * *
19936276 CATTTAAA-ATTCTGTTACCTCTAGTCAAAATAACATTTTTAC
1 -ATTTAAAGTTTC-ATTGCCTCTAGTTAAAGGAGC-CTTTTAA
* ** * * *
19936318 ATTTAAAATTTTGTTGGCTCTCA-TTAGAGGAGCCTTTTGA
1 ATTTAAAGTTTCATTGCCTCT-AGTTAAAGGAGCCTTTTAA
* * * * * *
19936358 ATTTAAAGTTTTATTACTTCTTGTTAGAGGAGCCTTTTGA
1 ATTTAAAGTTTCATTGCCTCTAGTTAAAGGAGCCTTTTAA
* * * * *
19936398 ATTTAAAG-TTCATTGCCTTTGGTTAACGAAACCTTTTAA
1 ATTTAAAGTTTCATTGCCTCTAGTTAAAGGAGCCTTTTAA
*
19936437 CATTTAAAGTTT-ATTGCCTCT-GATTAAATGAGCCTTTTAA
1 -ATTTAAAGTTTCATTGCCTCTAG-TTAAAGGAGCCTTTTAA
** * * * * *** *
19936477 ATTTAAAGTTTTGTTACCTTTAGTCAGAGGATTTTTTTGA
1 ATTTAAAGTTTCATTGCCTCTAGTTAAAGGAGCCTTTTAA
* *
19936517 ATTTAAAGTTT-ATTACCTCTAGTTAAATGAGCCTTTTAA
1 ATTTAAAGTTTCATTGCCTCTAGTTAAAGGAGCCTTTTAA
* * * * *
19936556 CATTTAAAG-CTCATTACCTTTAGTTAGAGGAGCCTTTTGA
1 -ATTTAAAGTTTCATTGCCTCTAGTTAAAGGAGCCTTTTAA
* * * * *
19936596 ATTTAAAATTT-GTTGCCTCTGGTCAAAAGAGCCTTTTAA
1 ATTTAAAGTTTCATTGCCTCTAGTTAAAGGAGCCTTTTAA
* * * * *
19936635 CATTTAAAGTTTC-TTGCCTCTATTTAGATGAACCTTTCAA
1 -ATTTAAAGTTTCATTGCCTCTAGTTAAAGGAGCCTTTTAA
* * * *
19936675 CATTTAAAGTTT-GTTACCTCT-GCTTAAAAGAGCCTTTTGA
1 -ATTTAAAGTTTCATTGCCTCTAG-TTAAAGGAGCCTTTTAA
* * * ** *
19936715 ATTTAAAG-TTCGTTGTCTTTAGTTAAAAAAGTCTTTTAA
1 ATTTAAAGTTTCATTGCCTCTAGTTAAAGGAGCCTTTTAA
** * * * *
19936754 CATTTAAAGTTTTGTTTCCTCTACTTAAATGAGCCTTTTGA
1 -ATTTAAAGTTTCATTGCCTCTAGTTAAAGGAGCCTTTTAA
* * *
19936795 ATTTAATG-TTCATTGCCTTTAGTTAAAGAAGCCTTTTAA
1 ATTTAAAGTTTCATTGCCTCTAGTTAAAGGAGCCTTTTAA
** * * * *
19936834 CATTTAAAGTTTTGTTTCCTCTACTTAAAAGAGCCTTTTGA
1 -ATTTAAAGTTTCATTGCCTCTAGTTAAAGGAGCCTTTTAA
* * * * *
19936875 ATTTAAAG-TTCACTGCCTCTGGTCAAAAGAGCCCTTTAA
1 ATTTAAAGTTTCATTGCCTCTAGTTAAAGGAGCCTTTTAA
* * * *
19936914 CATTTAAAG-TTCATTGCCACTATTTAAAAGAGCCTTTTGA
1 -ATTTAAAGTTTCATTGCCTCTAGTTAAAGGAGCCTTTTAA
*
19936954 ATTTAAAGTTTCATTGCCTCTTA-TTAGAGGAGCCTTTTTAA
1 ATTTAAAGTTTCATTGCCTC-TAGTTAAAGGAGCC-TTTTAA
** * * * *
19936995 CATTTAAAGTTTTGTTGCCTTTGGTCAAAGAAGCC------
1 -ATTTAAAGTTTCATTGCCTCTAGTTAAAGGAGCCTTTTAA
* * * * * *
19937030 ATTTAAAATTT-GTTGCCTC-AGTCAAAGAAGCATTTTATC
1 ATTTAAAGTTTCATTGCCTCTAGTTAAAGGAGCCTTTTA-A
* * * * * *
19937069 ATTTAAAG-TTCTGTTGCCTCTGGTTAGAGAAACCTTTTGA
1 ATTTAAAGTTTC-ATTGCCTCTAGTTAAAGGAGCCTTTTAA
* * * * * *
19937109 ATTTAAAG-TTCATTACCTCTGGTCAGAGAAGCCTATTAA
1 ATTTAAAGTTTCATTGCCTCTAGTTAAAGGAGCCTTTTAA
* ** * * *
19937148 CATTTAAAGTTTTATTATCTCTAGTTAAAAGAGCCTTCTGA
1 -ATTTAAAGTTTCATTGCCTCTAGTTAAAGGAGCCTTTTAA
* * * * *
19937189 ATTTAAAGTTGCATTACCTTTAGTTAAAGAAGCTTTTTAA
1 ATTTAAAGTTTCATTGCCTCTAGTTAAAGGAGCCTTTTAA
19937229 ATTTAAAGTTTCAT
1 ATTTAAAGTTTCAT
19937243 AACCTTTATT
Statistics
Matches: 818, Mismatches: 210, Indels: 104
0.72 0.19 0.09
Matches are distributed among these distances:
32 15 0.02
33 17 0.02
34 11 0.01
35 4 0.00
36 2 0.00
37 4 0.00
38 5 0.01
39 195 0.24
40 415 0.51
41 116 0.14
42 34 0.04
ACGTcount: A:0.30, C:0.15, G:0.14, T:0.42
Consensus pattern (40 bp):
ATTTAAAGTTTCATTGCCTCTAGTTAAAGGAGCCTTTTAA
Found at i:19936294 original size:114 final size:115
Alignment explanation
Indices: 19936088--19936324 Score: 275
Period size: 114 Copynumber: 2.1 Consensus size: 115
19936078 TCAAAAGAGC
* * * **
19936088 CATTTAAAGTTTCATTGCCTTTGGTCAAAATAACCATTTAAAGTTTCATTACCTCTGGTCAGAGG
1 CATTTAAAGTTTCATTGCCTTTAGTCAAAATAACCATCTAAAGTTTCATTACCTCTGATCAGAAA
* * * * * *
19936153 AGCCTTTTAAATTTAAAGTTTCATTACCTTTGGTTAAAATAGCCTTTTTA
66 AGCCTTTTAAATTTAAAATTTCATTACCTCTAGTCAAAATAACATTTTTA
* **
19936203 -ATTTAAAGTTTCATTGCCTTTAGTC-AAATAAGCCATCTAAAGTTT-GTTATTTCTGATCAGAA
1 CATTTAAAGTTTCATTGCCTTTAGTCAAAATAA-CCATCTAAAGTTTCATTACCTCTGATCAGAA
* *
19936265 AAGTCTTTTAACATTTAAAA-TTCTGTTACCTCTAGTCAAAATAACATTTTTA
65 AAGCCTTTTAA-ATTTAAAATTTC-ATTACCTCTAGTCAAAATAACATTTTTA
19936317 CATTTAAA
1 CATTTAAA
19936325 ATTTTGTTGG
Statistics
Matches: 102, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
113 30 0.29
114 65 0.64
115 7 0.07
ACGTcount: A:0.32, C:0.16, G:0.11, T:0.41
Consensus pattern (115 bp):
CATTTAAAGTTTCATTGCCTTTAGTCAAAATAACCATCTAAAGTTTCATTACCTCTGATCAGAAA
AGCCTTTTAAATTTAAAATTTCATTACCTCTAGTCAAAATAACATTTTTA
Found at i:19936474 original size:119 final size:119
Alignment explanation
Indices: 19936347--19937238 Score: 534
Period size: 119 Copynumber: 7.5 Consensus size: 119
19936337 CTCATTAGAG
* * * * *
19936347 GAGCCTTTTGAATTTAAAGTTTTATTACTTCTTGTTAGAGGAGCCTTTTGAATTTAAAGTTCATT
1 GAGCCTTTTGAATTTAAAGTTTTGTTACCTCTAGTTAAAGGAGCCTTTTAAATTTAAAGTTCATT
* * *
19936412 GCCTTTGGTTAACGAAACCTTTTAACATTTAAAGTTTATTGCCTCTGA-TTAAAT
66 GCCTCTGGTTAATG-AACCTTTTAACATTTAAAGTTTATTGCCTCTGAGTTAAAA
* * * * *** * *
19936466 GAGCCTTTTAAATTTAAAGTTTTGTTACCTTTAGTCAGAGGATTTTTTTGAATTTAAAGTTTATT
1 GAGCCTTTTGAATTTAAAGTTTTGTTACCTCTAGTTAAAGGAGCCTTTTAAATTTAAAGTTCATT
* * * * * * * * *
19936531 ACCTCTAGTTAAATGAGCCTTTTAACATTTAAAGCTCATTACCT-TTAGTTAGAG
66 GCCTCTGGTT-AATGAACCTTTTAACATTTAAAGTTTATTGCCTCTGAGTTAAAA
* * * * *
19936585 GAGCCTTTTGAATTTAAA-ATTTGTTGCCTCTGGTCAAAAGAGCCTTTTAACATTTAAAGTTTC-
1 GAGCCTTTTGAATTTAAAGTTTTGTTACCTCTAGTTAAAGGAGCCTTTTAA-ATTTAAAG-TTCA
** * * * *
19936648 TTGCCTCTATTTAGATGAACCTTTCAACATTTAAAGTTTGTTACCTCTG-CTTAAAA
64 TTGCCTCTGGTTA-ATGAACCTTTTAACATTTAAAGTTTATTGCCTCTGAGTTAAAA
* ** * ** * **
19936704 GAGCCTTTTGAATTTAAAG-TTCGTTGTCTTTAGTTAAAAAAGTCTTTTAACATTTAAAGTTTTG
1 GAGCCTTTTGAATTTAAAGTTTTGTTACCTCTAGTTAAAGGAGCCTTTTAA-ATTTAAAG-TTCA
* ** * * * * *
19936768 TTTCCTCTACTTAAATGAGCCTTTTGA-ATTTAATGTTCATTGCCT-TTAGTT-AAA
64 TTGCCTCTGGTT-AATGAACCTTTTAACATTTAAAGTTTATTGCCTCTGAGTTAAAA
* * * * *
19936822 GAAGCCTTTTAACATTTAAAGTTTTGTTTCCTCTACTTAAAAGAGCCTTTTGAATTTAAAGTTCA
1 G-AGCCTTTTGA-ATTTAAAGTTTTGTTACCTCTAGTTAAAGGAGCCTTTTAAATTTAAAGTTCA
* * * * * * * *
19936887 CTGCCTCTGGTCAAAAGAGCCCTTTAACATTTAAAGTTCATTGCCACT-ATTTAAAA
64 TTGCCTCTGGT-TAATGAACCTTTTAACATTTAAAGTTTATTGCCTCTGAGTTAAAA
** * *
19936943 GAGCCTTTTGAATTTAAAGTTTCATTGCCTCTTA-TTAGAGGAGCCTTTTTAACATTTAAAGTTT
1 GAGCCTTTTGAATTTAAAGTTTTGTTACCTC-TAGTTAAAGGAGCC-TTTTAA-ATTTAAAG-TT
** * * * * * * *
19937007 TGTTGCCTTTGGTCAAAGAAGC------CATTTAAAATTTGTTGCCTC--AG-TCAAA
62 CATTGCCTCTGGTTAATGAACCTTTTAACATTTAAAGTTTATTGCCTCTGAGTTAAAA
* * * * * * * *
19937056 GAAGCATTTT-ATCATTTAAAGTTCTGTTGCCTCTGGTTAGAGAAACCTTTTGAATTTAAAGTTC
1 G-AGCCTTTTGA--ATTTAAAGTTTTGTTACCTCTAGTTAAAGGAGCCTTTTAAATTTAAAGTTC
* * * **
19937120 ATTACCTCTGGTCAGA-GAAGCCTATTAACATTTAAAGTTTTATTATCTCT-AGTTAAAA
63 ATTGCCTCTGGTTA-ATGAA-CCTTTTAACATTTAAAG-TTTATTGCCTCTGAGTTAAAA
* *** * * *
19937178 GAGCCTTCTGAATTTAAAGTTGCATTACCTTTAGTTAAAGAAGCTTTTTAAATTTAAAGTT
1 GAGCCTTTTGAATTTAAAGTTTTGTTACCTCTAGTTAAAGGAGCCTTTTAAATTTAAAGTT
19937239 TCATAACCTT
Statistics
Matches: 601, Mismatches: 135, Indels: 73
0.74 0.17 0.09
Matches are distributed among these distances:
112 16 0.03
113 16 0.03
114 14 0.02
115 42 0.07
118 30 0.05
119 290 0.48
120 125 0.21
121 51 0.08
122 17 0.03
ACGTcount: A:0.29, C:0.15, G:0.14, T:0.41
Consensus pattern (119 bp):
GAGCCTTTTGAATTTAAAGTTTTGTTACCTCTAGTTAAAGGAGCCTTTTAAATTTAAAGTTCATT
GCCTCTGGTTAATGAACCTTTTAACATTTAAAGTTTATTGCCTCTGAGTTAAAA
Found at i:19936710 original size:80 final size:79
Alignment explanation
Indices: 19936387--19937239 Score: 618
Period size: 80 Copynumber: 10.8 Consensus size: 79
19936377 CTTGTTAGAG
* * *
19936387 GAGCCTTTTGAATTTAAAGTTCATTGCCTTTGGTTA-ACGAAACCTTTTAACATTTAAAGTTTAT
1 GAGCCTTTTGAATTTAAAGTTCATTGCCTTTAGTTAGAAG-AACCTTTTAACATTTAAAGTTTGT
* *
19936451 TGCCTCTGATTAAAT
65 TGCCTCTGCTTAAAA
* ** * * * *** * *
19936466 GAGCCTTTTAAATTTAAAGTTTTGTTACCTTTAGTCAGAGGATTTTTTTGA-ATTTAAAGTTTAT
1 GAGCCTTTTGAATTTAAAG-TTCATTGCCTTTAGTTAGAAGAACCTTTTAACATTTAAAGTTTGT
* *
19936530 TACCTCTAG-TTAAAT
65 TGCCTCT-GCTTAAAA
* * * * * * *
19936545 GAGCCTTTTAACATTTAAAGCTCATTACCTTTAGTTAGAGGAGCCTTTTGA-ATTTAAAATTTGT
1 GAGCCTTTTGA-ATTTAAAGTTCATTGCCTTTAGTTAGAAGAACCTTTTAACATTTAAAGTTTGT
* *
19936609 TGCCTCTGGTCAAAA
65 TGCCTCTGCTTAAAA
* * * * *
19936624 GAGCCTTTTAACATTTAAAGTTTC-TTGCCTCTATTTAGATGAACCTTTCAACATTTAAAGTTTG
1 GAGCCTTTTGA-ATTTAAAG-TTCATTGCCTTTAGTTAGAAGAACCTTTTAACATTTAAAGTTTG
*
19936688 TTACCTCTGCTTAAAA
64 TTGCCTCTGCTTAAAA
* * * *
19936704 GAGCCTTTTGAATTTAAAGTTCGTTGTCTTTAGTTA-AAAAAGTCTTTTAACATTTAAAGTTTTG
1 GAGCCTTTTGAATTTAAAGTTCATTGCCTTTAGTTAGAAGAA-CCTTTTAACATTTAAAG-TTTG
* * *
19936768 TTTCCTCTACTTAAAT
64 TTGCCTCTGCTTAAAA
*
19936784 GAGCCTTTTGAATTTAATGTTCATTGCCTTTAGTTA-AAGAAGCCTTTTAACATTTAAAGTTTTG
1 GAGCCTTTTGAATTTAAAGTTCATTGCCTTTAGTTAGAAGAA-CCTTTTAACATTTAAAG-TTTG
* *
19936848 TTTCCTCTACTTAAAA
64 TTGCCTCTGCTTAAAA
* * * * * * * **
19936864 GAGCCTTTTGAATTTAAAGTTCACTGCCTCTGGTCAAAAGAGCCCTTTAACATTTAAAGTTCATT
1 GAGCCTTTTGAATTTAAAGTTCATTGCCTTTAGTTAGAAGAACCTTTTAACATTTAAAGTTTGTT
* **
19936929 GCCACTATTTAAAA
66 GCCTCTGCTTAAAA
* *
19936943 GAGCCTTTTGAATTTAAAGTTTCATTGCCTCTTA-TTAGAGGAGCCTTTTTAACATTTAAAGTTT
1 GAGCCTTTTGAATTTAAAG-TTCATTGCCT-TTAGTTAGAAGAACC-TTTTAACATTTAAAG-TT
* * *
19937007 TGTTGCCTTTG-GTCAAA
62 TGTTGCCTCTGCTTAAAA
* ** * * * *
19937024 GAAGCC------ATTTAAAATTTGTTGCC-TCAGTCA-AAGAAGCATTTTATCATTTAAAGTTCT
1 G-AGCCTTTTGAATTTAAAGTTCATTGCCTTTAGTTAGAAGAA-CCTTTTAACATTTAAAGTT-T
*
19937081 GTTGCCTCTGGTTAGAGAA
63 GTTGCCTCTGCTTA-A-AA
* * * * * *
19937100 -A-CCTTTTGAATTTAAAGTTCATTACCTCTGGTCAG-AGAAGCCTATTAACATTTAAAGTTTTA
1 GAGCCTTTTGAATTTAAAGTTCATTGCCTTTAGTTAGAAGAA-CCTTTTAACATTTAAAG-TTTG
**
19937162 TTATCTCTAG-TTAAAA
64 TTGCCTCT-GCTTAAAA
* * *
19937178 GAGCCTTCTGAATTTAAAGTTGCATTACCTTTAGTTA-AAGAAGCTTTTTAA-ATTTAAAGTTT
1 GAGCCTTTTGAATTTAAAGTT-CATTGCCTTTAGTTAGAAGAA-CCTTTTAACATTTAAAGTTT
19937240 CATAACCTTT
Statistics
Matches: 628, Mismatches: 110, Indels: 72
0.78 0.14 0.09
Matches are distributed among these distances:
72 2 0.00
73 31 0.05
74 5 0.01
75 8 0.01
76 9 0.01
78 9 0.01
79 224 0.36
80 276 0.44
81 52 0.08
82 12 0.02
ACGTcount: A:0.30, C:0.15, G:0.14, T:0.41
Consensus pattern (79 bp):
GAGCCTTTTGAATTTAAAGTTCATTGCCTTTAGTTAGAAGAACCTTTTAACATTTAAAGTTTGTT
GCCTCTGCTTAAAA
Found at i:19937059 original size:32 final size:33
Alignment explanation
Indices: 19936995--19937064 Score: 90
Period size: 32 Copynumber: 2.2 Consensus size: 33
19936985 GCCTTTTTAA
* **
19936995 CATTTAAAGTTTTGTTGCCTTTGGTCAAAGAAG
1 CATTTAAAGATTTGTTGCCTTCAGTCAAAGAAG
19937028 CCATTTAAA-ATTTGTTGCC-TCAGTCAAAGAAG
1 -CATTTAAAGATTTGTTGCCTTCAGTCAAAGAAG
19937060 CATTT
1 CATTT
19937065 TATCATTTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
31 5 0.15
32 11 0.33
33 9 0.27
34 8 0.24
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.37
Consensus pattern (33 bp):
CATTTAAAGATTTGTTGCCTTCAGTCAAAGAAG
Found at i:19937131 original size:234 final size:233
Alignment explanation
Indices: 19936673--19937239 Score: 580
Period size: 234 Copynumber: 2.4 Consensus size: 233
19936663 TGAACCTTTC
* * * * **
19936673 AACATTTAAAGTTT-GTTACCTCT-GCTTAAAAGAGCCTTTTGAATTTAAAGTT-CGTTGTCTTT
1 AACATTTAAAGTTTCATTACCACTAG-TTAAAAGAGCCTTCTGAATTTAAAGTTGCATTACCTTT
* * * ** * *
19936735 AGTTAAAAAAG-TCTTTTAACATTTAAAGTTTTGTTTCCTCTACTTAAATG-AGCCTTTTGAATT
65 AGTTAAAGAAGCT-TTTTAA-ATTTAAAGTTTTGTTGCCTTTGGTCAAA-GAAGCCATTT-AA--
* * * * * *
19936798 TAATGTTCATTGCCTTTAGTTAAAGAAGCCTTTTAACATTTAAAGTTTTGTTTCCTCTACTTAAA
124 -AAT-TT-GTTGCC-TCAGTCAAAGAAGCATTTTAACATTTAAAGTTCTGTTGCCTCTACTTAAA
*
19936863 AGAGCCTTTTGAATTTAAAGTTCACTGCCTCTGGTCAAA-AGAGCCCT-TT
185 AGAGCCTTTTGAATTTAAAGTTCACTACCTCTGGTCAAAGA-AG-CCTATT
* * * * *
19936912 AACATTTAAAG-TTCATTGCCACTATTTAAAAGAGCCTTTTGAATTTAAAGTTTCATTGCCTCTT
1 AACATTTAAAGTTTCATTACCACTAGTTAAAAGAGCCTTCTGAATTTAAAGTTGCATTACCT-TT
* *
19936976 A-TTAGAGGAGCCTTTTTAACATTTAAAGTTTTGTTGCCTTTGGTCAAAGAAGCCATTTAAAATT
65 AGTTAAAGAAG-CTTTTTAA-ATTTAAAGTTTTGTTGCCTTTGGTCAAAGAAGCCATTTAAAATT
* **
19937040 TGTTGCCTCAGTCAAAGAAGCATTTTATCATTTAAAGTTCTGTTGCCTCTGGTTAGAGAA-A-CC
128 TGTTGCCTCAGTCAAAGAAGCATTTTAACATTTAAAGTTCTGTTGCCTCTACTTA-A-AAGAGCC
* *
19937103 TTTTGAATTTAAAGTTCATTACCTCTGGTCAGAGAAGCCTATT
191 TTTTGAATTTAAAGTTCACTACCTCTGGTCAAAGAAGCCTATT
* * *
19937146 AACATTTAAAGTTTTATTATCTCTAGTTAAAAGAGCCTTCTGAATTTAAAGTTGCATTACCTTTA
1 AACATTTAAAGTTTCATTACCACTAGTTAAAAGAGCCTTCTGAATTTAAAGTTGCATTACCTTTA
19937211 GTTAAAGAAGCTTTTTAAATTTAAAGTTT
66 GTTAAAGAAGCTTTTTAAATTTAAAGTTT
19937240 CATAACCTTT
Statistics
Matches: 278, Mismatches: 37, Indels: 32
0.80 0.11 0.09
Matches are distributed among these distances:
233 14 0.05
234 98 0.35
235 57 0.21
236 4 0.01
237 3 0.01
238 2 0.01
239 44 0.16
240 15 0.05
241 40 0.14
242 1 0.00
ACGTcount: A:0.30, C:0.15, G:0.14, T:0.41
Consensus pattern (233 bp):
AACATTTAAAGTTTCATTACCACTAGTTAAAAGAGCCTTCTGAATTTAAAGTTGCATTACCTTTA
GTTAAAGAAGCTTTTTAAATTTAAAGTTTTGTTGCCTTTGGTCAAAGAAGCCATTTAAAATTTGT
TGCCTCAGTCAAAGAAGCATTTTAACATTTAAAGTTCTGTTGCCTCTACTTAAAAGAGCCTTTTG
AATTTAAAGTTCACTACCTCTGGTCAAAGAAGCCTATT
Found at i:19937271 original size:40 final size:40
Alignment explanation
Indices: 19937188--19937272 Score: 100
Period size: 40 Copynumber: 2.1 Consensus size: 40
19937178 GAGCCTTCTG
* * *
19937188 AATTTAAAGTTGCATTACCTTTAGTTAAAGAAGCTTTTTA
1 AATTTAAAGTTGCATAACCTTTAGTTAAAGAAGCCTTTCA
* * *
19937228 AATTTAAAGTTTCATAACCTTTATTTGGAAG-AGCCTTTCA
1 AATTTAAAGTTGCATAACCTTTAGTT-AAAGAAGCCTTTCA
19937268 AATTT
1 AATTT
19937273 TCTTTCAAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
40 35 0.92
41 3 0.08
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.42
Consensus pattern (40 bp):
AATTTAAAGTTGCATAACCTTTAGTTAAAGAAGCCTTTCA
Found at i:19937437 original size:3 final size:3
Alignment explanation
Indices: 19937422--19937468 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
19937412 ATTTTGTTTA
*
19937422 TAT TAT TAC TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
19937469 ATAAAAAGAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:19938472 original size:11 final size:11
Alignment explanation
Indices: 19938424--19938485 Score: 67
Period size: 11 Copynumber: 5.7 Consensus size: 11
19938414 TTTTTATTTT
*
19938424 TTATTTTGATG
1 TTATTTTTATG
19938435 TT-TATTTTAT-
1 TTAT-TTTTATG
19938445 TTA-TTTTATG
1 TTATTTTTATG
19938455 TTGATTTTTATG
1 TT-ATTTTTATG
*
19938467 TTATTTTTATA
1 TTATTTTTATG
19938478 TTATTTTT
1 TTATTTTT
19938486 TAGTTTTTAC
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
9 6 0.14
10 5 0.11
11 24 0.55
12 9 0.20
ACGTcount: A:0.19, C:0.00, G:0.08, T:0.73
Consensus pattern (11 bp):
TTATTTTTATG
Found at i:19938574 original size:17 final size:18
Alignment explanation
Indices: 19938541--19938580 Score: 64
Period size: 17 Copynumber: 2.3 Consensus size: 18
19938531 ATTCTTTTAG
19938541 AAATAAATAAATAAAATA
1 AAATAAATAAATAAAATA
*
19938559 AAATAAA-AACTAAAATA
1 AAATAAATAAATAAAATA
19938576 AAATA
1 AAATA
19938581 TGGATATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.20
Consensus pattern (18 bp):
AAATAAATAAATAAAATA
Found at i:19938632 original size:3 final size:3
Alignment explanation
Indices: 19938624--19938661 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
19938614 TAATATGCAA
19938624 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
19938662 CTATTTAAGG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:19939034 original size:16 final size:17
Alignment explanation
Indices: 19938987--19939046 Score: 52
Period size: 17 Copynumber: 3.4 Consensus size: 17
19938977 TAAATAATAT
*
19938987 AATAAAA-AGATAAAAAC
1 AATAAAATA-ATAATAAC
19939004 AATAAACAGTAAATAATAAC
1 AATAAA-A-T-AATAATAAC
*
19939024 AA-AAAATAATAATCAC
1 AATAAAATAATAATAAC
19939040 AATAAAA
1 AATAAAA
19939047 GGTAATTAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
16 10 0.28
17 11 0.31
18 2 0.06
19 3 0.08
20 9 0.25
21 1 0.03
ACGTcount: A:0.72, C:0.08, G:0.03, T:0.17
Consensus pattern (17 bp):
AATAAAATAATAATAAC
Found at i:19941881 original size:6 final size:6
Alignment explanation
Indices: 19941870--19941899 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
19941860 TTTTATTAAT
19941870 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
19941900 AAAAAGTGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTTA
Found at i:19950267 original size:18 final size:17
Alignment explanation
Indices: 19950239--19950288 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
19950229 ATTATGTTTG
*
19950239 TATTTAAAATTTAAACA
1 TATTTATAATTTAAACA
*
19950256 TATTTTATAATTTATATCA
1 TA-TTTATAATTTA-AACA
*
19950275 TATTTATATTTTAA
1 TATTTATAATTTAA
19950289 TAATTTATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
17 3 0.11
18 20 0.71
19 5 0.18
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (17 bp):
TATTTATAATTTAAACA
Found at i:19950316 original size:26 final size:25
Alignment explanation
Indices: 19950255--19950306 Score: 74
Period size: 26 Copynumber: 2.2 Consensus size: 25
19950245 AAATTTAAAC
19950255 ATATTTT-ATAATTTATATCATATTT
1 ATATTTTAATAATTTATAT-ATATTT
19950280 ATATTTTAATAATTTATAT-TA-TT
1 ATATTTTAATAATTTATATATATTT
19950303 ATAT
1 ATAT
19950307 GTATTAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
23 6 0.23
24 2 0.08
25 7 0.27
26 11 0.42
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (25 bp):
ATATTTTAATAATTTATATATATTT
Found at i:19953541 original size:35 final size:34
Alignment explanation
Indices: 19953502--19953567 Score: 89
Period size: 35 Copynumber: 1.9 Consensus size: 34
19953492 ACATCTAATG
* *
19953502 TTTTTATATTTTATATT-TAAAATATAAATTTTTTA
1 TTTTTATA-TTAAAATTATAAAATAT-AATTTTTTA
19953537 TTTTTATATTAAAATTATAAAATATAATTTT
1 TTTTTATATTAAAATTATAAAATATAATTTT
19953568 AAGAAAAAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 12 0.43
35 16 0.57
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (34 bp):
TTTTTATATTAAAATTATAAAATATAATTTTTTA
Found at i:19953548 original size:27 final size:30
Alignment explanation
Indices: 19953502--19953557 Score: 91
Period size: 28 Copynumber: 2.0 Consensus size: 30
19953492 ACATCTAATG
19953502 TTTTTATATTTTATATTTAAAA-TATAAAT
1 TTTTTATATTTTATATTTAAAATTATAAAT
19953531 TTTTTAT-TTTTATA-TTAAAATTATAAA
1 TTTTTATATTTTATATTTAAAATTATAAA
19953558 ATATAATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
27 6 0.23
28 13 0.50
29 7 0.27
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (30 bp):
TTTTTATATTTTATATTTAAAATTATAAAT
Found at i:19953566 original size:27 final size:28
Alignment explanation
Indices: 19953510--19953567 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 28
19953500 TGTTTTTATA
* * *
19953510 TTTTATATTTAAAATATAAATTTTTTAT
1 TTTTATATTTAAAATATAAATATATAAT
19953538 TTTTATA-TTAAAATTATAAA-ATATAAT
1 TTTTATATTTAAAA-TATAAATATATAAT
19953565 TTT
1 TTT
19953568 AAGAAAAAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
27 13 0.50
28 13 0.50
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (28 bp):
TTTTATATTTAAAATATAAATATATAAT
Found at i:19959262 original size:36 final size:35
Alignment explanation
Indices: 19959222--19959303 Score: 94
Period size: 37 Copynumber: 2.3 Consensus size: 35
19959212 TTTCAAAATT
19959222 TTTATTTTTCTT-TTTTGAAATTTTTATAAAAAAAAA
1 TTTATTTTTCTTGTTTTGAAATTTTT-T-AAAAAAAA
* * *
19959258 TTTATTTTTATTTTGTTTTTAGATTTTTTAAAAAAAA
1 TTTA-TTTT-TCTTGTTTTGAAATTTTTTAAAAAAAA
19959295 TTTATTTTT
1 TTTATTTTT
19959304 TTAAAATTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
35 1 0.03
36 8 0.20
37 16 0.40
38 4 0.10
39 11 0.28
ACGTcount: A:0.33, C:0.01, G:0.04, T:0.62
Consensus pattern (35 bp):
TTTATTTTTCTTGTTTTGAAATTTTTTAAAAAAAA
Found at i:19959314 original size:37 final size:39
Alignment explanation
Indices: 19959241--19959314 Score: 91
Period size: 37 Copynumber: 1.9 Consensus size: 39
19959231 CTTTTTTGAA
***
19959241 ATTTTTATAAAAAAAAATTTATTTTTATTTTGTTTTTAG
1 ATTTTTATAAAAAAAAATTTATTTTTATTAAATTTTTAG
19959280 ATTTTT-T-AAAAAAAATTTATTTTT-TTAAAATTTTT
1 ATTTTTATAAAAAAAAATTTATTTTTATT-AAATTTTT
19959315 TCTCTTAATG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
36 2 0.06
37 22 0.71
38 1 0.03
39 6 0.19
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (39 bp):
ATTTTTATAAAAAAAAATTTATTTTTATTAAATTTTTAG
Found at i:19960197 original size:31 final size:32
Alignment explanation
Indices: 19960148--19960272 Score: 123
Period size: 31 Copynumber: 3.8 Consensus size: 32
19960138 ATATTTTTAT
*
19960148 TAAATAAAATT-TATTTATTAATATA-ATTAA
1 TAAATAATATTATATTTATTAATATATATTAA
19960178 TAAATAATATTATATTTATTATATATAATATTATA
1 TAAATAATATTATATTTATTA-ATAT-ATATTA-A
*
19960213 TTAATAAATAATATATTATTTATTAAT-TATATTAA
1 TAAAT-AAT-AT-TA-TATTTATTAATATATATTAA
* *
19960248 TAAATATTATTGTATTTATT-ATATA
1 TAAATAATATTATATTTATTAATATA
19960273 AATAATGTGT
Statistics
Matches: 80, Mismatches: 5, Indels: 19
0.77 0.05 0.18
Matches are distributed among these distances:
30 12 0.15
31 19 0.24
32 5 0.06
33 3 0.04
34 6 0.08
35 10 0.12
36 9 0.11
37 3 0.04
38 4 0.05
39 9 0.11
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (32 bp):
TAAATAATATTATATTTATTAATATATATTAA
Found at i:19960222 original size:15 final size:15
Alignment explanation
Indices: 19960189--19960257 Score: 68
Period size: 15 Copynumber: 4.5 Consensus size: 15
19960179 AAATAATATT
19960189 ATATT-TATTATATATA
1 ATATTATATTA-ATA-A
19960205 ATATTATATTAATAA
1 ATATTATATTAATAA
* * *
19960220 ATAATATATTATTTA
1 ATATTATATTAATAA
*
19960235 TTAATTATATTAATAA
1 AT-ATTATATTAATAA
19960251 ATATTAT
1 ATATTAT
19960258 TGTATTTATT
Statistics
Matches: 43, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
15 19 0.44
16 19 0.44
17 5 0.12
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
ATATTATATTAATAA
Found at i:19960242 original size:43 final size:44
Alignment explanation
Indices: 19960120--19960249 Score: 123
Period size: 43 Copynumber: 3.0 Consensus size: 44
19960110 TTGCTACAAT
* * *
19960120 TATTATATTAAT-AA-AATAATATT-TTTATTAAATA-AAAT-T
1 TATTATATTAATAAATAATAATATTATTTATTAATTATATATAA
* *
19960159 TATT-TATTAATATAATTAATAAATAATATTATATTTATTATATATAA
1 TATTATATTAATA-AA-TAAT-AATATTATT-TATTAATTATATATAA
19960206 TATTATATTAATAAATAAT-ATATTATTTATTAATTATAT-TAA
1 TATTATATTAATAAATAATAATATTATTTATTAATTATATATAA
19960248 TA
1 TA
19960250 AATATTATTG
Statistics
Matches: 74, Mismatches: 7, Indels: 17
0.76 0.07 0.17
Matches are distributed among these distances:
38 7 0.09
39 4 0.05
40 2 0.03
42 8 0.11
43 16 0.22
44 9 0.12
45 7 0.09
46 7 0.09
47 6 0.08
48 8 0.11
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (44 bp):
TATTATATTAATAAATAATAATATTATTTATTAATTATATATAA
Found at i:19960251 original size:70 final size:68
Alignment explanation
Indices: 19960135--19960437 Score: 267
Period size: 70 Copynumber: 4.4 Consensus size: 68
19960125 TATTAATAAA
* *
19960135 ATAATATTT-TTATTAAATAAAAT-TTATTTATTAATATAATTAATAAATAATAT-TATATTTAT
1 ATAATATTTATTAATAAATAATATATTATTTATTAATAT-ATTAATAAATAATATAT-TATTTAT
19960197 TATAT
64 TATAT
*
19960202 ATAATATTATATTAATAAATAATATATTATTTATTAATTATATTAATAAATATTAT-TGTATTTA
1 ATAATATT-TATTAATAAATAATATATTATTTATTAA-TATATTAATAAATAATATAT-TATTTA
19960266 TTATAT
63 TTATAT
* * * *
19960272 AAATAATGTGTTATGTTATTAATATAATATATGATATTTA-TAATATATTATTAATATAATACAT
1 --ATAATAT-TTA--TTAATAA-ATAATATAT--TATTTATTAATATATTAATAA-ATAATATAT
19960336 TATTTA-T-TA-
57 TATTTATTATAT
* * *
19960345 ATAATATTTTATTAAT--ATAATATAATATACTACTAATATATTAATAAATAATATATTATTTAT
1 ATAATA-TTTATTAATAAATAATATATTAT-TTATTAATATATTAATAAATAATATATTATTTAT
19960408 TA-AT
64 TATAT
19960412 ATAA-ATTTATT--TAAATAA-ATATTATT
1 ATAATATTTATTAATAAATAATATATTATT
19960438 ACATTATTAA
Statistics
Matches: 197, Mismatches: 17, Indels: 48
0.75 0.06 0.18
Matches are distributed among these distances:
63 1 0.01
64 9 0.05
65 26 0.13
66 24 0.12
67 12 0.06
68 1 0.01
69 16 0.08
70 38 0.19
71 11 0.06
72 9 0.05
73 1 0.01
74 8 0.04
75 20 0.10
76 14 0.07
77 7 0.04
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.50
Consensus pattern (68 bp):
ATAATATTTATTAATAAATAATATATTATTTATTAATATATTAATAAATAATATATTATTTATTA
TAT
Found at i:19960268 original size:27 final size:27
Alignment explanation
Indices: 19960206--19960343 Score: 99
Period size: 27 Copynumber: 5.1 Consensus size: 27
19960196 TTATATATAA
19960206 TATTATATTA-ATAAATAATATATTATT
1 TATT-TATTATATAAATAATATATTATT
* *
19960233 TATTAATTATATTAATAA-ATATTATT
1 TATTTATTATATAAATAATATATTATT
* *
19960259 GTATTTATTATATAAATAATGTGTTATGT
1 -TATTTATTATATAAATAATATATTAT-T
* * *
19960288 TA-TTAATATAATATATGATAT-TTA-T
1 TATTTATTAT-ATAAATAATATATTATT
* * *
19960313 AATATATTAT-TAATATAATACATTATT
1 TATTTATTATATAA-ATAATATATTATT
19960340 TATT
1 TATT
19960344 AATAATATTT
Statistics
Matches: 84, Mismatches: 18, Indels: 18
0.70 0.15 0.15
Matches are distributed among these distances:
24 2 0.02
25 7 0.08
26 20 0.24
27 39 0.46
28 15 0.18
29 1 0.01
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (27 bp):
TATTTATTATATAAATAATATATTATT
Found at i:19960329 original size:16 final size:16
Alignment explanation
Indices: 19960123--19960414 Score: 135
Period size: 16 Copynumber: 18.2 Consensus size: 16
19960113 CTACAATTAT
* *
19960123 TATATTAATAAAATAA
1 TATATTATTAATATAA
* *
19960139 TATTTTTATTAAATAAAA
1 TA-TATTATT-AATATAA
*
19960157 TTTATTTATTAATATAA
1 TATA-TTATTAATATAA
* * *
19960174 T-TAATAAATAATATTA
1 TAT-ATTATTAATATAA
19960190 TAT-TTATTATATATAA
1 TATATTATTA-ATATAA
19960206 TAT-TATATTAATAAATAA
1 TATAT-TATTAAT--ATAA
*
19960224 TATATTATTTAT-TAA
1 TATATTATTAATATAA
19960239 T-TA-TATT-A-ATAA
1 TATATTATTAATATAA
* * *
19960251 -ATATTATTGTATTTAT
1 TATATTATT-AATATAA
* * * **
19960267 TATATAAATAATGTGT
1 TATATTATTAATATAA
*
19960283 TATGTTATTAATATAA
1 TATATTATTAATATAA
19960299 TATATGATATT--TATAA
1 TATAT--TATTAATATAA
19960315 TATATTATTAATATAA
1 TATATTATTAATATAA
* *
19960331 TACATTATTTATTAATAA
1 TATATTA-TTAAT-ATAA
*
19960349 TATTTTATTAATATAA
1 TATATTATTAATATAA
* *
19960365 TATAATA-TACTACTAA
1 TATATTATTAATA-TAA
*
19960381 TATATTAATAA-ATAA
1 TATATTATTAATATAA
*
19960396 TATATTATTTAT-TAA
1 TATATTATTAATATAA
19960411 TATA
1 TATA
19960415 AATTTATTTA
Statistics
Matches: 210, Mismatches: 40, Indels: 53
0.69 0.13 0.17
Matches are distributed among these distances:
12 6 0.03
13 8 0.04
14 6 0.03
15 32 0.15
16 84 0.40
17 36 0.17
18 37 0.18
19 1 0.00
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.50
Consensus pattern (16 bp):
TATATTATTAATATAA
Found at i:19960364 original size:66 final size:65
Alignment explanation
Indices: 19960287--19960412 Score: 184
Period size: 66 Copynumber: 1.9 Consensus size: 65
19960277 ATGTGTTATG
* *
19960287 TTATTAATATAATAT-ATGATATTTA-TAATATATTATTAATATAATACATTATTTATTAATAAT
1 TTATTAATATAATATAAT-ATA-CTACTAATATATTAATAA-ATAATACATTATTTATTAATAAT
19960350 ATT
63 ATT
*
19960353 TTATTAATATAATATAATATACTACTAATATATTAATAAATAATATATTATTTATTAATA
1 TTATTAATATAATATAATATACTACTAATATATTAATAAATAATACATTATTTATTAATA
19960413 TAAATTTATT
Statistics
Matches: 55, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
65 22 0.40
66 31 0.56
67 2 0.04
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.49
Consensus pattern (65 bp):
TTATTAATATAATATAATATACTACTAATATATTAATAAATAATACATTATTTATTAATAATATT
Found at i:19960612 original size:14 final size:15
Alignment explanation
Indices: 19960595--19960643 Score: 59
Period size: 14 Copynumber: 3.4 Consensus size: 15
19960585 AATATATTAT
19960595 TTATTAATATAAAT-
1 TTATTAATATAAATA
*
19960609 TTATCAATAT-AATA
1 TTATTAATATAAATA
19960623 TTATTTAA-ATAAATA
1 TTA-TTAATATAAATA
19960638 TTATTA
1 TTATTA
19960644 CATTATTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
13 3 0.10
14 17 0.57
15 10 0.33
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (15 bp):
TTATTAATATAAATA
Found at i:19960624 original size:29 final size:29
Alignment explanation
Indices: 19960585--19960641 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
19960575 ATTAATAAAT
*
19960585 AATATATTATT-TATTAATATAAAT-TTATC
1 AATATAATATTAT-TTAA-ATAAATATTATC
19960614 AATATAATATTATTTAAATAAATATTAT
1 AATATAATATTATTTAAATAAATATTAT
19960642 TACATTATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 6 0.24
29 18 0.72
30 1 0.04
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (29 bp):
AATATAATATTATTTAAATAAATATTATC
Found at i:19960631 original size:205 final size:206
Alignment explanation
Indices: 19960378--19960750 Score: 633
Period size: 205 Copynumber: 1.8 Consensus size: 206
19960368 AATATACTAC
* *
19960378 TAATATATTAATAAATAATATATTATTTATTAATATAAATTTATTTAAATAAATATTATTACATT
1 TAATATATTAATAAATAATATATAATTTATCAATATAAATTTATTTAAATAAATATTATTACATT
*
19960443 ATTAATAACAAATGGAGCCTAAAAACTCCAACAACTTTCTCTTACATGTTTTTGTTTTCACATTT
66 ATTAATAACAAATGGAGCATAAAAACTCCAACAACTTTCTCTTACATGTTTTTGTTTTCACATTT
19960508 CTAAAATAAAAACATTTTATCCAAACGTATTTTTAAATACATATAATAAATTATATTCTAATACT
131 CTAAAATAAAAACATTTTATCCAAACGTATTTTTAAATACATATAATAAATTATATTCTAATACT
19960573 ATATTAATAAA
196 ATATTAATAAA
* * *
19960584 TAATATATTATTTATTAATATA-AATTTATCAATAT-AATATTATTTAAATAAATATTATTACAT
1 TAATATATTAATAAATAATATATAATTTATCAATATAAAT-TTATTTAAATAAATATTATTACAT
* *
19960647 TATTAATAACAAATGGAGCATAAAAAGTCTAACAACTTTCTCTTACATGTTTTTGTTTTCACATT
65 TATTAATAACAAATGGAGCATAAAAACTCCAACAACTTTCTCTTACATGTTTTTGTTTTCACATT
* *
19960712 TCTAAAATAAAAACATTTTATCCAAATGTGTTTTTAAAT
130 TCTAAAATAAAAACATTTTATCCAAACGTATTTTTAAAT
19960751 TCAGTAAATT
Statistics
Matches: 156, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
204 3 0.02
205 134 0.86
206 19 0.12
ACGTcount: A:0.43, C:0.10, G:0.04, T:0.43
Consensus pattern (206 bp):
TAATATATTAATAAATAATATATAATTTATCAATATAAATTTATTTAAATAAATATTATTACATT
ATTAATAACAAATGGAGCATAAAAACTCCAACAACTTTCTCTTACATGTTTTTGTTTTCACATTT
CTAAAATAAAAACATTTTATCCAAACGTATTTTTAAATACATATAATAAATTATATTCTAATACT
ATATTAATAAA
Found at i:19962096 original size:62 final size:62
Alignment explanation
Indices: 19961960--19962233 Score: 166
Period size: 62 Copynumber: 4.4 Consensus size: 62
19961950 TTTTTGACTA
* * * * * * * * *
19961960 AAAATGCCTTAAATAAACATATTTAATTTTTTTAGAGAATTATTTAAGACGTTTTCTAG-C-C
1 AAAATGCCTTAAATAATCCTATTCAATATTTTTAAAGGATTATTTAAGATGTTTT-TGGTCAG
* * *
19962021 AAAAT-CATATTAAATAATCCTTTTCAATATTTTTAAAGGATTATTTAATATGTTTTTGGTCAG
1 AAAATGC--CTTAAATAATCCTATTCAATATTTTTAAAGGATTATTTAAGATGTTTTTGGTCAG
* * ** * * * *
19962084 AAAATGCCTTAAATAAT-CTCTTCAAAAAATTGAATAGGATTATTCAAGATATTTTCT-GACA-
1 AAAATGCCTTAAATAATCCTATTCAATATTTTTAA-AGGATTATTTAAGATGTTTT-TGGTCAG
* * * * **
19962145 AAAATACCTTAAATAATCATCATACAAATTTTTTGTAAAGGATTATTTAAGGCGATTTTTGGGT-
1 AAAATGCCTTAAATAATCCT-ATTC-AATATTTT-TAAAGGATTATTTAAGATG-TTTTT-GGTC
19962209 AG
61 AG
*
19962211 AAAACGCCTTAAATAATCCTATT
1 AAAATGCCTTAAATAATCCTATT
19962234 AAAAAATTGA
Statistics
Matches: 158, Mismatches: 40, Indels: 26
0.71 0.18 0.12
Matches are distributed among these distances:
60 1 0.01
61 35 0.22
62 69 0.44
63 8 0.05
64 18 0.11
65 9 0.06
66 18 0.11
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (62 bp):
AAAATGCCTTAAATAATCCTATTCAATATTTTTAAAGGATTATTTAAGATGTTTTTGGTCAG
Found at i:19962224 original size:127 final size:126
Alignment explanation
Indices: 19962045--19962329 Score: 323
Period size: 127 Copynumber: 2.3 Consensus size: 126
19962035 TAATCCTTTT
* *** *
19962045 CAATATTTTTAAAGGATTATTTAATATGTTTTT-GGTCAGAAAATGCCTTAAATAATCTCT-TCA
1 CAATTTTTTTAAAGGATTATTTAAGGCGTTTTTGGGTCAGAAAACGCCTTAAATAATC-CTATCA
* * * *
19962108 AAAAATTGAATAG-GATTATTCAA-G-ATATTTTCTGA-CAAAAATACCTTAAATAATCATCATA
65 AAAAATTGAAT-GCGATTATTCAATGCA-ATTTT-GGACCAAAAACACCTTAAATAAGCACCATA
19962169 CAAATTTTTTGTAAAGGATTATTTAAGGCGATTTTTGGGT-AGAAAACGCCTTAAATAATCCTAT
1 C-AATTTTTT-TAAAGGATTATTTAAGGCG-TTTTTGGGTCAGAAAACGCCTTAAATAATCCTAT
* * * * *
19962233 TAAAAAATTGAATGCTATTATTCAATGCAATTTTGGACCAAAAACGCCTTATATAAGCCCCATA
63 CAAAAAATTGAATGCGATTATTCAATGCAATTTTGGACCAAAAACACCTTAAATAAGCACCATA
*
19962297 CAATTTTTTTAAAAGATTATTTAAGGCGTTTTT
1 CAATTTTTTTAAAGGATTATTTAAGGCGTTTTT
19962330 TGACAAAAAA
Statistics
Matches: 137, Mismatches: 15, Indels: 17
0.81 0.09 0.10
Matches are distributed among these distances:
124 1 0.01
125 12 0.09
126 37 0.27
127 56 0.41
128 30 0.22
129 1 0.01
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (126 bp):
CAATTTTTTTAAAGGATTATTTAAGGCGTTTTTGGGTCAGAAAACGCCTTAAATAATCCTATCAA
AAAATTGAATGCGATTATTCAATGCAATTTTGGACCAAAAACACCTTAAATAAGCACCATA
Found at i:19962361 original size:13 final size:13
Alignment explanation
Indices: 19962343--19962369 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
19962333 CAAAAAATAC
19962343 CTTGAATAATCCT
1 CTTGAATAATCCT
19962356 CTTGAATAATCCT
1 CTTGAATAATCCT
19962369 C
1 C
19962370 GTACAAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.26, G:0.07, T:0.37
Consensus pattern (13 bp):
CTTGAATAATCCT
Found at i:19962516 original size:204 final size:204
Alignment explanation
Indices: 19962156--19962533 Score: 476
Period size: 204 Copynumber: 1.9 Consensus size: 204
19962146 AAATACCTTA
* * * *
19962156 AATAATCATCATACAAATTTTTTGTAAAGGATTATTTAAGGCGATTTTTGGGTAGAAAACGCCTT
1 AATAATCATCATACAAATTTTTTATAAAGGATTATTTAAGACGATTTTTGAGTAGAAAACACCTT
* * * * *
19962221 AAATAATCCTATTAAAAAATTGAATGCTATTATTCAATGCAATTTTGGACCAAAAACGCCTTATA
66 AAATAATCCTATTAAAAAATCGAATGATATTATTCAAGGCAATTTTGGACAAAAAACGCCTTAAA
* *
19962286 TAAGCCCCATACAATTTTTTTAAAAGATTATTTAAGGCGTTTTTTGACAAAAAATACCTTGAATA
131 TAAGCCCCATACAATTTTTTTAAAAGATTATTTAAAGCATTTTTTGACAAAAAATACCTTGAATA
19962351 ATCCTCTTG
196 ATCCTCTTG
* * *
19962360 AATAATCCTCGTACAAATTTTTTTATAAAGGATTATTTAAGAC-ATTTTTGAGT-GAAAAACATC
1 AATAATCATCATACAAA-TTTTTTATAAAGGATTATTTAAGACGATTTTTGAGTAG-AAAACACC
* * * * ** *
19962423 TTAAATAATCCTA-TAAAAAATCGAAT-ATGATTATTCAAGGTATTTTTTGATAAAAAATTCTTT
64 TTAAATAATCCTATTAAAAAATCGAATGAT-ATTATTCAAGGCAATTTTGGACAAAAAACGCCTT
* * *
19962486 AAATAATCCTCGTACAATTTTTTGTAAAAGATTATTTAAAGCATTTTT
128 AAATAAGCCCCATACAATTTTTT-TAAAAGATTATTTAAAGCATTTTT
19962534 AGGTGAAAAA
Statistics
Matches: 146, Mismatches: 24, Indels: 8
0.82 0.13 0.04
Matches are distributed among these distances:
202 1 0.01
203 57 0.39
204 65 0.45
205 23 0.16
ACGTcount: A:0.39, C:0.12, G:0.11, T:0.38
Consensus pattern (204 bp):
AATAATCATCATACAAATTTTTTATAAAGGATTATTTAAGACGATTTTTGAGTAGAAAACACCTT
AAATAATCCTATTAAAAAATCGAATGATATTATTCAAGGCAATTTTGGACAAAAAACGCCTTAAA
TAAGCCCCATACAATTTTTTTAAAAGATTATTTAAAGCATTTTTTGACAAAAAATACCTTGAATA
ATCCTCTTG
Found at i:19962604 original size:125 final size:127
Alignment explanation
Indices: 19962360--19962627 Score: 295
Period size: 126 Copynumber: 2.1 Consensus size: 127
19962350 AATCCTCTTG
19962360 AATAATCCTCGTACAAATTTTTTTATAAAGGATTATTTAAGACATTTTTGAGTGAAAAACATCTT
1 AATAATCCTCGTAC-AATTTTTTTATAAAGGATTATTTAAGACATTTTTGAGTGAAAAACATCTT
* * * * *
19962425 AAATAATCCTATAAAAAATCGAATATGATTATTCAAGGTATTTTTTGA-TAAAAAATTCTTTA
65 AAATAATCCTATAAAAAATCGAATATAATTATTCAAGGTATTTTCTGAGAAAAAAATACCTTA
19962487 AATAATCCTCGTACAATTTTTTGTA-AAA-GATTATTTAA-AGCATTTTT-AGGTG-AAAA-ATG
1 AATAATCCTCGTACAATTTTTT-TATAAAGGATTATTTAAGA-CATTTTTGA-GTGAAAAACAT-
* * * * *
19962546 CTTTAAATAATGCTGGTAAAAAATTGAATGA-AATTATTTAAGGTATTTTCTG-GCAAAAAATAC
62 C-TTAAATAATCCT-ATAAAAAATCGAAT-ATAATTATTCAAGGTATTTTCTGAGAAAAAAATAC
19962609 CTTA
124 CTTA
*
19962613 AATAAT-CTTGTACAA
1 AATAATCCTCGTACAA
19962628 AAAATTGACT
Statistics
Matches: 123, Mismatches: 10, Indels: 18
0.81 0.07 0.12
Matches are distributed among these distances:
123 2 0.02
124 7 0.06
125 39 0.32
126 58 0.47
127 17 0.14
ACGTcount: A:0.41, C:0.09, G:0.11, T:0.38
Consensus pattern (127 bp):
AATAATCCTCGTACAATTTTTTTATAAAGGATTATTTAAGACATTTTTGAGTGAAAAACATCTTA
AATAATCCTATAAAAAATCGAATATAATTATTCAAGGTATTTTCTGAGAAAAAAATACCTTA
Found at i:19962605 original size:62 final size:62
Alignment explanation
Indices: 19962516--19962683 Score: 173
Period size: 63 Copynumber: 2.7 Consensus size: 62
19962506 TTTGTAAAAG
* * *
19962516 ATTATTTAAAGCATTTTTAGG-TGAAAAATGCTTTAAATAATGCTGGT-AAAAAATTGAAT-GAA
1 ATTATTTAAGGCATTTTT-GGCTAAAAAATGCCTTAAATAAT-CTGGTAAAAAAATTGAATAG-A
* * * * *
19962578 ATTATTTAAGGTATTTTCTGGC-AAAAAATACCTTAAATAATCTTGTACAAAAAATTGACTAGT
1 ATTATTTAAGGCATTTT-TGGCTAAAAAATGCCTTAAATAATCTGGTA-AAAAAATTGAATAGA
* *
19962641 ATTATTTAAGGCATTTTTGTCTAGAAAATGCCTTAAATAATCT
1 ATTATTTAAGGCATTTTTGGCTAAAAAATGCCTTAAATAATCT
19962684 TCATTAATTT
Statistics
Matches: 88, Mismatches: 12, Indels: 11
0.79 0.11 0.10
Matches are distributed among these distances:
61 4 0.05
62 36 0.41
63 47 0.53
64 1 0.01
ACGTcount: A:0.40, C:0.09, G:0.13, T:0.38
Consensus pattern (62 bp):
ATTATTTAAGGCATTTTTGGCTAAAAAATGCCTTAAATAATCTGGTAAAAAAATTGAATAGA
Found at i:19966557 original size:20 final size:20
Alignment explanation
Indices: 19966532--19966573 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
19966522 AATGTAGCAC
19966532 GATCTACATGTGTTCAGGAG
1 GATCTACATGTGTTCAGGAG
*
19966552 GATCTACATGTTTTCAGGAG
1 GATCTACATGTGTTCAGGAG
19966572 GA
1 GA
19966574 GGAAAATCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (20 bp):
GATCTACATGTGTTCAGGAG
Found at i:19968746 original size:6 final size:6
Alignment explanation
Indices: 19968735--19968759 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
19968725 TTTTTTGGTA
19968735 TGGGTT TGGGTT TGGGTT TGGGTT T
1 TGGGTT TGGGTT TGGGTT TGGGTT T
19968760 TTTAAACAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (6 bp):
TGGGTT
Found at i:19969941 original size:108 final size:108
Alignment explanation
Indices: 19969752--19969968 Score: 353
Period size: 108 Copynumber: 2.0 Consensus size: 108
19969742 GATGTTAGAA
* * * * *
19969752 TGTTCATATTGTTAGAACACAATCATTTAGAGGGAAAATAAAATTTTAATATAAGACAATTAAGG
1 TGTTCATATTGTCAAAACACAATCATTGAGAAGGAAAACAAAATTTTAATATAAGACAATTAAGG
*
19969817 CGATTGCAAGAAGAAATGCCTCTATTGATAACCAATTAAGGCG
66 CGATTGCAAGAAGAAATGCCTCCATTGATAACCAATTAAGGCG
19969860 TGTTCATATTGTCAAAACACAATCATTGAGAAGGAAAACAAAATTTTAATATAAGACAATTAAGG
1 TGTTCATATTGTCAAAACACAATCATTGAGAAGGAAAACAAAATTTTAATATAAGACAATTAAGG
* * *
19969925 TGGTTGTAAGAAGAAATGCCTCCATTGATAACCAATTAAGGCG
66 CGATTGCAAGAAGAAATGCCTCCATTGATAACCAATTAAGGCG
19969968 T
1 T
19969969 TTTTCCATAC
Statistics
Matches: 100, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
108 100 1.00
ACGTcount: A:0.42, C:0.12, G:0.18, T:0.28
Consensus pattern (108 bp):
TGTTCATATTGTCAAAACACAATCATTGAGAAGGAAAACAAAATTTTAATATAAGACAATTAAGG
CGATTGCAAGAAGAAATGCCTCCATTGATAACCAATTAAGGCG
Found at i:19970294 original size:62 final size:61
Alignment explanation
Indices: 19970223--19970449 Score: 156
Period size: 64 Copynumber: 3.7 Consensus size: 61
19970213 TTTTTTAAAG
*
19970223 ATTATTTAAGATATTTTTGGTCAGAAAACGTCTTAAATAATCTTTTAAATAAATTAACCAGC
1 ATTATTTAAGATATTTTT-ATCAGAAAACGTCTTAAATAATCTTTTAAATAAATTAACCAGC
* ** * ** * **
19970285 ATTATTTAAGGTATTTTCTCATCA-AAAACACCTTAAATGATCATCTTTTTAAT-TTTTTACGTG
1 ATTATTTAAGATATTTT-T-ATCAGAAAACGTCTTAAAT-A--ATCTTTTAAATAAATTAACCAG
*
19970348 G
61 C
* * * * * * ** *
19970349 ATTATTTAAGGTATTTTTTACCAAAAAAGGTCTTAAATAA--TTATAAAAAAATTAAATAGT
1 ATTATTTAAGATA-TTTTTATCAGAAAACGTCTTAAATAATCTTTTAAATAAATTAACCAGC
* * *
19970409 ATTATTTAAAACATTTTTGTCAGAAAACGTCTTAAATAATC
1 ATTATTTAAGATATTTTTATCAGAAAACGTCTTAAATAATC
19970450 CTAAAAATAA
Statistics
Matches: 123, Mismatches: 33, Indels: 19
0.70 0.19 0.11
Matches are distributed among these distances:
59 27 0.22
60 14 0.11
61 1 0.01
62 28 0.23
63 9 0.07
64 30 0.24
65 14 0.11
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.41
Consensus pattern (61 bp):
ATTATTTAAGATATTTTTATCAGAAAACGTCTTAAATAATCTTTTAAATAAATTAACCAGC
Found at i:19970817 original size:190 final size:189
Alignment explanation
Indices: 19970458--19971009 Score: 822
Period size: 190 Copynumber: 2.9 Consensus size: 189
19970448 TCCTAAAAAT
** * * * *
19970458 AATTTTTTTTTAGGATTATTTAAGGTGTTTTTACCAGAAAAAACCTTAAATAGTGCT-GATCAAT
1 AATTTTTTTTTA-GATTATTTAAGGCATTTTGACTAGAAAACACCTTAAATAATGCTAG-TCAAT
* * * * * * *
19970522 TTATCTAAGAGATTATTTAAGGTGTTTTCTAGCAAAAAAGACATTAAATAA-TTTAAAAAATTGA
64 TTATTTAGGAGATTATTTAAGGCGTTTTCTAGCCAAAAATACCTTAAATAATTTTAAAAAATTAA
*
19970586 ACATG-ATTATTTAAGGCATTTTTGGTCAGAAAATGCCTTAAATATCCAAAAAAAAATCCTA
129 ACA-GCATTATTTAAGGCATTTTTGGTCAGAAAATACCTTAAATATCCAAAAAAAAATCCTA
19970647 AATTTTTTTTTAGATTATTTAAGGCATTTTGACTAGAAAACACCTTAAATAATGCTAGTCAATTT
1 AATTTTTTTTTAGATTATTTAAGGCATTTTGACTAGAAAACACCTTAAATAATGCTAGTCAATTT
*
19970712 ATTTAGGAGATTATTTAAGGCGTTTTCTGGCCAAAAATACCTTAAATAATCTTTAAAAAATTAAA
66 ATTTAGGAGATTATTTAAGGCGTTTTCTAGCCAAAAATACCTTAAATAAT-TTTAAAAAATTAAA
*
19970777 CAGCATTATTTAAGGCATTTTTGGTCAGAAAATACCTTAAATATCCCAAAAAAAATCCTA
130 CAGCATTATTTAAGGCATTTTTGGTCAGAAAATACCTTAAATATCCAAAAAAAAATCCTA
* *
19970837 ATTTTTTTTTTAGATTATTTAAGGCATTTTGATTAGAAAACACCTTAAATAATGCTAGTCAATTT
1 AATTTTTTTTTAGATTATTTAAGGCATTTTGACTAGAAAACACCTTAAATAATGCTAGTCAATTT
* *
19970902 ATTTAGGAGATTATTTAAGGCGTTTTCTAACCAAAAATATCTTAAATAATTTTAAAAAAATTAAA
66 ATTTAGGAGATTATTTAAGGCGTTTTCTAGCCAAAAATACCTTAAATAATTTT-AAAAAATTAAA
* * * *
19970967 CAGCATTATTTAAGGCTTTTTTTGTTAGAAAATATCTTAAATA
130 CAGCATTATTTAAGGCATTTTTGGTCAGAAAATACCTTAAATA
19971010 ATCCCAACAA
Statistics
Matches: 333, Mismatches: 25, Indels: 9
0.91 0.07 0.02
Matches are distributed among these distances:
188 87 0.26
189 17 0.05
190 229 0.69
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.38
Consensus pattern (189 bp):
AATTTTTTTTTAGATTATTTAAGGCATTTTGACTAGAAAACACCTTAAATAATGCTAGTCAATTT
ATTTAGGAGATTATTTAAGGCGTTTTCTAGCCAAAAATACCTTAAATAATTTTAAAAAATTAAAC
AGCATTATTTAAGGCATTTTTGGTCAGAAAATACCTTAAATATCCAAAAAAAAATCCTA
Found at i:19972677 original size:17 final size:18
Alignment explanation
Indices: 19972637--19972677 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
19972627 AAGATAGAAT
19972637 AATTTATTTATTGATCAA
1 AATTTATTTATTGATCAA
**
19972655 AA-TTATTT-TTTCTCAA
1 AATTTATTTATTGATCAA
19972671 AATTTAT
1 AATTTAT
19972678 ATAATTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 8 0.40
17 10 0.50
18 2 0.10
ACGTcount: A:0.37, C:0.07, G:0.02, T:0.54
Consensus pattern (18 bp):
AATTTATTTATTGATCAA
Found at i:19985650 original size:21 final size:20
Alignment explanation
Indices: 19985624--19985664 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
19985614 ACTCTACCCC
19985624 AATATTATTATATTAATTTAA
1 AATATTATTAT-TTAATTTAA
* *
19985645 AATATTTTTATTTACTTTAA
1 AATATTATTATTTAATTTAA
19985665 TTCAAAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (20 bp):
AATATTATTATTTAATTTAA
Found at i:19985895 original size:28 final size:29
Alignment explanation
Indices: 19985809--19985917 Score: 71
Period size: 28 Copynumber: 3.8 Consensus size: 29
19985799 ATATTTTTAA
** * *
19985809 TATTTTAATGGTAAATAGTAATATATAAC
1 TATTTTAATAATAAATATTGATATATAAC
* ** *
19985838 T-CTTTAATAATAAAAATATTTTTATTTAA-
1 TATTTTAATAAT--AAATATTGATATATAAC
*
19985867 TATTTTAATAATAAATATTGATATATAAT
1 TATTTTAATAATAAATATTGATATATAAC
* * *
19985896 TATTTAAAAAATTAATA-TGATA
1 TATTTTAATAATAAATATTGATA
19985918 AATAGTAATT
Statistics
Matches: 62, Mismatches: 14, Indels: 9
0.73 0.16 0.11
Matches are distributed among these distances:
28 25 0.40
29 16 0.26
30 21 0.34
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.46
Consensus pattern (29 bp):
TATTTTAATAATAAATATTGATATATAAC
Found at i:19986410 original size:47 final size:47
Alignment explanation
Indices: 19986356--19986462 Score: 137
Period size: 47 Copynumber: 2.3 Consensus size: 47
19986346 GCAAACTGTT
*
19986356 AATATTTTAATATA-AAATATTTTTAATATTTCAATAATAAACA-ATTC
1 AATATTTTAATA-ACAAAT-TTTTAAATATTTCAATAATAAACATATTC
* * * *
19986403 AATATTTTAATAACAAGTTTTTAAATATTTTAATAATAAATATTTTC
1 AATATTTTAATAACAAATTTTTAAATATTTCAATAATAAACATATTC
19986450 AATATTTTAATAA
1 AATATTTTAATAA
19986463 TTATGTCAAT
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
46 22 0.42
47 31 0.58
ACGTcount: A:0.48, C:0.05, G:0.01, T:0.47
Consensus pattern (47 bp):
AATATTTTAATAACAAATTTTTAAATATTTCAATAATAAACATATTC
Found at i:19986442 original size:15 final size:16
Alignment explanation
Indices: 19986424--19986453 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
19986414 AACAAGTTTT
19986424 TAAATATTTT-AATAA
1 TAAATATTTTCAATAA
19986439 TAAATATTTTCAATA
1 TAAATATTTTCAATA
19986454 TTTTAATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (16 bp):
TAAATATTTTCAATAA
Found at i:19986462 original size:24 final size:24
Alignment explanation
Indices: 19986356--19986463 Score: 123
Period size: 23 Copynumber: 4.6 Consensus size: 24
19986346 GCAAACTGTT
*
19986356 AATATTTTAAT-ATAAAATATTTTT
1 AATATTTTAATAAT-AAATATTTTC
* * *
19986380 AATATTTCAATAATAAACA-ATTC
1 AATATTTTAATAATAAATATTTTC
* * *
19986403 AATATTTTAATAACAAGT-TTTTA
1 AATATTTTAATAATAAATATTTTC
19986426 AATATTTTAATAATAAATATTTTC
1 AATATTTTAATAATAAATATTTTC
19986450 AATATTTTAATAAT
1 AATATTTTAATAAT
19986464 TATGTCAATA
Statistics
Matches: 68, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
23 34 0.50
24 32 0.47
25 2 0.03
ACGTcount: A:0.47, C:0.05, G:0.01, T:0.47
Consensus pattern (24 bp):
AATATTTTAATAATAAATATTTTC
Found at i:19986654 original size:98 final size:97
Alignment explanation
Indices: 19986478--19986653 Score: 214
Period size: 98 Copynumber: 1.8 Consensus size: 97
19986468 TCAATAATAT
* ** * * *
19986478 AAAAAGTTTTAAAAAATAATAAAAAATAATTTTTTTTTGTTAAGTCATATAAACAATAAAACATC
1 AAAAAGTTTTAAAAAATAATAAAAAAAAAAATATTTTTATTAAGTCATACAAACAATAAAACATC
*
19986543 TCTATTTAGAAAAATAAAAACTACATTTAAAA
66 TCTATTTAAAAAAATAAAAACTACATTTAAAA
* * *
19986575 AAAAAGTATTT-AAAAATAATAAAAATAAAAAATATTTTTATTAAGTCATCCAAATAATTAAACA
1 AAAAAGT-TTTAAAAAATAATAAAAA-AAAAAATATTTTTATTAAGTCATACAAACAATAAAACA
19986639 T-T-TATTTTAAAAAAA
64 TCTCTA-TTTAAAAAAA
19986654 AGTCATTATT
Statistics
Matches: 66, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
96 2 0.03
97 31 0.47
98 33 0.50
ACGTcount: A:0.56, C:0.06, G:0.03, T:0.34
Consensus pattern (97 bp):
AAAAAGTTTTAAAAAATAATAAAAAAAAAAATATTTTTATTAAGTCATACAAACAATAAAACATC
TCTATTTAAAAAAATAAAAACTACATTTAAAA
Found at i:19986952 original size:21 final size:20
Alignment explanation
Indices: 19986928--19986967 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
19986918 GTAAAAGTGT
19986928 TTTAATCGATTAAATTAAATA
1 TTTAATCGATTAAA-TAAATA
* *
19986949 TTTAATTGGTTAAATAAAT
1 TTTAATCGATTAAATAAAT
19986968 TAATTCGAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.45
Consensus pattern (20 bp):
TTTAATCGATTAAATAAATA
Found at i:19994549 original size:45 final size:45
Alignment explanation
Indices: 19994443--19994551 Score: 157
Period size: 45 Copynumber: 2.4 Consensus size: 45
19994433 CTTATATGTT
* *
19994443 TTAATTTTTTTGACCTATACTGATGGTTATGTTTGTTAGTATAAAC
1 TTAATTTTTTT-ACCTATACTAATGGTTATGTCTGTTAGTATAAAC
* *
19994489 TT-ATAATTTTGACCTATACTAATGGTTATGTCTGTTAGTATAAAC
1 TTAAT-TTTTTTACCTATACTAATGGTTATGTCTGTTAGTATAAAC
19994534 TTAATTTTTTTACCTATA
1 TTAATTTTTTTACCTATA
19994552 TCGATGCTTA
Statistics
Matches: 55, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
45 47 0.85
46 8 0.15
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (45 bp):
TTAATTTTTTTACCTATACTAATGGTTATGTCTGTTAGTATAAAC
Found at i:19994627 original size:54 final size:55
Alignment explanation
Indices: 19994534--19994705 Score: 161
Period size: 55 Copynumber: 3.1 Consensus size: 55
19994524 TAGTATAAAC
* * * * * * *
19994534 TTAATTTTTTTACCTATATCGA-TGCTTAGCA-CCTATCAGTATA-ACTTGTATTCT
1 TTAATTTTCTTACCTATATCGACAG-TTAG-AGACTGTCAGTATAGAATTATATGCT
19994588 TTAATTTTCTTACCTATATCGACAGTTAGAGACTGTCAGTATAGAATTATATGCT
1 TTAATTTTCTTACCTATATCGACAGTTAGAGACTGTCAGTATAGAATTATATGCT
* * * * * * * **
19994643 TTAATTTTCTTACTTTTACCAACGGTTAGAGATTGTCAGTATAGATTTATATATT
1 TTAATTTTCTTACCTATATCGACAGTTAGAGACTGTCAGTATAGAATTATATGCT
19994698 TTAATTTT
1 TTAATTTT
19994706 TTTATTATAT
Statistics
Matches: 99, Mismatches: 16, Indels: 5
0.82 0.13 0.04
Matches are distributed among these distances:
53 1 0.01
54 35 0.35
55 63 0.64
ACGTcount: A:0.28, C:0.14, G:0.12, T:0.46
Consensus pattern (55 bp):
TTAATTTTCTTACCTATATCGACAGTTAGAGACTGTCAGTATAGAATTATATGCT
Found at i:20007136 original size:14 final size:14
Alignment explanation
Indices: 20007117--20007143 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
20007107 AAAAAATTGA
20007117 ATATTTATATGAAT
1 ATATTTATATGAAT
20007131 ATATTTATATGAA
1 ATATTTATATGAA
20007144 CATAGAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.48
Consensus pattern (14 bp):
ATATTTATATGAAT
Found at i:20007713 original size:13 final size:13
Alignment explanation
Indices: 20007697--20007729 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
20007687 GTTAAGGAAA
20007697 TTATTGAAGGCAT
1 TTATTGAAGGCAT
20007710 TTATTGAAGGCAT
1 TTATTGAAGGCAT
20007723 TT-TTGAA
1 TTATTGAA
20007730 CAAAAAGGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 5 0.25
13 15 0.75
ACGTcount: A:0.30, C:0.06, G:0.21, T:0.42
Consensus pattern (13 bp):
TTATTGAAGGCAT
Found at i:20007986 original size:76 final size:76
Alignment explanation
Indices: 20007861--20008011 Score: 284
Period size: 76 Copynumber: 2.0 Consensus size: 76
20007851 TTTTTGGTAA
* *
20007861 AAAATGCCTTCAATAATCCCATTCATTTTTTGGTAAGCCAATGCCTTTTTGTTTTCATTCTATAC
1 AAAATGCCTTCAATAATCCCATTCATATTTTGGTAAGCCAATGCCTTTTTGTTTTCATCCTATAC
20007926 TGACGGTTACT
66 TGACGGTTACT
20007937 AAAATGCCTTCAATAATCCCATTCATATTTTGGTAAGCCAATGCCTTTTTGTTTTCATCCTATAC
1 AAAATGCCTTCAATAATCCCATTCATATTTTGGTAAGCCAATGCCTTTTTGTTTTCATCCTATAC
20008002 TGACGGTTAC
66 TGACGGTTAC
20008012 GTTAATAACC
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
76 73 1.00
ACGTcount: A:0.26, C:0.22, G:0.12, T:0.40
Consensus pattern (76 bp):
AAAATGCCTTCAATAATCCCATTCATATTTTGGTAAGCCAATGCCTTTTTGTTTTCATCCTATAC
TGACGGTTACT
Found at i:20011501 original size:108 final size:107
Alignment explanation
Indices: 20011310--20011504 Score: 241
Period size: 108 Copynumber: 1.8 Consensus size: 107
20011300 CAGAAATCAT
* * * * * * *
20011310 AGAAAAGGTAGAAGGTGATCAACAATGAGATACTCTGCTAGTCCACTGAGTGGTGCAAAGGTTAG
1 AGAAAAGGTAGAAGGTGATCAACAATGACACACCCCGCTAGTCCACTAAGTGGTGCAAAGGTAAA
*
20011375 AGAATAATCGATCTCGAATGGTGACATTGAGTCAGAAACCGA
66 AGAATAATCAATCTCGAATGGTGACATTGAGTCAGAAACCGA
* * *
20011417 AGAAGAGGTAG-AGGTTGATCAACAAGTGACACACCCCGCTAGTCCATTAAGTTGTGCAAAAGGT
1 AGAAAAGGTAGAAGG-TGATCAACAA-TGACACACCCCGCTAGTCCACTAAGTGGTGC-AAAGGT
*
20011481 AAAAG-ATGATCAATCTCGAATGGT
63 AAAAGAATAATCAATCTCGAATGGT
20011505 AATACATCTT
Statistics
Matches: 73, Mismatches: 12, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
106 3 0.04
107 20 0.27
108 41 0.56
109 9 0.12
ACGTcount: A:0.36, C:0.16, G:0.26, T:0.22
Consensus pattern (107 bp):
AGAAAAGGTAGAAGGTGATCAACAATGACACACCCCGCTAGTCCACTAAGTGGTGCAAAGGTAAA
AGAATAATCAATCTCGAATGGTGACATTGAGTCAGAAACCGA
Found at i:20027889 original size:69 final size:69
Alignment explanation
Indices: 20027720--20027986 Score: 247
Period size: 69 Copynumber: 3.9 Consensus size: 69
20027710 TTTCAAGTCT
* * * * ** *
20027720 TTTAGGCATAATCACCAAGTCCT-TCGAACAAGATTCGTAAATTTTCTAAG-CAAATTTGTTATA
1 TTTAGGCATAATCACCAAGTCCTCTAG-ACAAGATTCATAAATTTTTTGAGTTGAATCTGTTATA
*
20027783 AG-TC
65 AGACC
* *
20027787 TTTCACGCATAATCACCAAGTCCTCTA-AGTAAGATTCATAAATTTTTTGAGTTGAATCTGTTAT
1 TTT-AGGCATAATCACCAAGTCCTCTAGA-CAAGATTCATAAATTTTTTGAGTTGAATCTGTTAT
20027851 AAGACC
64 AAGACC
* * * * *
20027857 TTTAGGCATAATCACCAAGTCATCTAGATAAGATTCGTAAGTTTTTTGAGCTGAATCTGTTATAA
1 TTTAGGCATAATCACCAAGTCCTCTAGACAAGATTCATAAATTTTTTGAGTTGAATCTGTTATAA
*
20027922 AACC
66 GACC
* * * ** * * *
20027926 TAT-GAGTATAATCACCGAGTCCTCCGGGCAAGATTCATAAGTCTTTTGAGTTGAATCTGTT
1 TTTAG-GCATAATCACCAAGTCCTCTAGACAAGATTCATAAATTTTTTGAGTTGAATCTGTT
20027987 TTAGAATTAA
Statistics
Matches: 166, Mismatches: 27, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
67 4 0.02
68 38 0.23
69 119 0.72
70 5 0.03
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.35
Consensus pattern (69 bp):
TTTAGGCATAATCACCAAGTCCTCTAGACAAGATTCATAAATTTTTTGAGTTGAATCTGTTATAA
GACC
Found at i:20028253 original size:15 final size:17
Alignment explanation
Indices: 20028235--20028277 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
20028225 GCTTAATGTA
*
20028235 AAAAACAATAA-TA-AT
1 AAAAACAAAAAGTATAT
20028250 AAAAACAAAAAGTATAT
1 AAAAACAAAAAGTATAT
20028267 AAAAACAAAAA
1 AAAAACAAAAA
20028278 AAAAAAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 10 0.40
16 2 0.08
17 13 0.52
ACGTcount: A:0.77, C:0.07, G:0.02, T:0.14
Consensus pattern (17 bp):
AAAAACAAAAAGTATAT
Found at i:20028268 original size:17 final size:15
Alignment explanation
Indices: 20028235--20028288 Score: 60
Period size: 17 Copynumber: 3.7 Consensus size: 15
20028225 GCTTAATGTA
*
20028235 AAAAACAATAATAAT
1 AAAAACAAAAATAAT
20028250 AAAAACAAAAAGTATAT
1 AAAAACAAAAA-TA-AT
20028267 AAAAACAAAAA-AA-
1 AAAAACAAAAATAAT
20028280 AAAAA-AAAA
1 AAAAACAAAA
20028289 GGGGTGAATA
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
12 4 0.11
13 5 0.14
14 1 0.03
15 11 0.31
16 2 0.06
17 13 0.36
ACGTcount: A:0.81, C:0.06, G:0.02, T:0.11
Consensus pattern (15 bp):
AAAAACAAAAATAAT
Found at i:20028592 original size:19 final size:20
Alignment explanation
Indices: 20028570--20028609 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
20028560 ATTTCCTTAT
20028570 ATTTATCTAATT-TTTTAAA
1 ATTTATCTAATTATTTTAAA
*
20028589 ATTTATCTGATTATTTTAAA
1 ATTTATCTAATTATTTTAAA
20028609 A
1 A
20028610 AAAGATAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.55
Consensus pattern (20 bp):
ATTTATCTAATTATTTTAAA
Found at i:20029084 original size:4 final size:4
Alignment explanation
Indices: 20029075--20029127 Score: 61
Period size: 4 Copynumber: 12.2 Consensus size: 4
20029065 TTTTCTCCAT
*
20029075 TTTA TTTA TTTA TTTA TTTA TTATGA GTTCTA TTTA TTTA TTTA ATTA
1 TTTA TTTA TTTA TTTA TTTA TT-T-A -TT-TA TTTA TTTA TTTA TTTA
20029123 TTTA T
1 TTTA T
20029128 GATATATTTC
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
4 35 0.81
5 3 0.07
6 2 0.05
7 3 0.07
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.68
Consensus pattern (4 bp):
TTTA
Found at i:20029141 original size:28 final size:27
Alignment explanation
Indices: 20029077--20029142 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 27
20029067 TTCTCCATTT
* *
20029077 TATTTATTTATTTATTTATTATGAGTTC
1 TATTTATTTATTTAATTATTATGAG-TA
20029105 TATTTATTTATTTAATTATTTATGA-TA
1 TATTTATTTATTTAATTA-TTATGAGTA
20029132 TATTTCATTTA
1 TATTT-ATTTA
20029143 ATTTTTTAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 6 0.18
28 22 0.65
29 6 0.18
ACGTcount: A:0.29, C:0.03, G:0.05, T:0.64
Consensus pattern (27 bp):
TATTTATTTATTTAATTATTATGAGTA
Found at i:20029411 original size:33 final size:35
Alignment explanation
Indices: 20029332--20029414 Score: 86
Period size: 33 Copynumber: 2.5 Consensus size: 35
20029322 AAATGTAGAA
*
20029332 AAATTTAGATAAAATTTTAATAACAATAATTAATAT
1 AAATTTA-ATAAAATTTAAATAACAATAATTAATAT
**
20029368 TTATTT--TAAAATTTAAATAA-AA-AATCTAA-AT
1 AAATTTAATAAAATTTAAATAACAATAAT-TAATAT
20029399 AAATTTAATAAAATTT
1 AAATTTAATAAAATTT
20029415 TTGGAAATGA
Statistics
Matches: 39, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
31 9 0.23
32 5 0.13
33 21 0.54
36 4 0.10
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.41
Consensus pattern (35 bp):
AAATTTAATAAAATTTAAATAACAATAATTAATAT
Found at i:20031691 original size:17 final size:18
Alignment explanation
Indices: 20031659--20031692 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
20031649 TTAGACTTTT
20031659 AAATATCTTGCTTGAAAA
1 AAATATCTTGCTTGAAAA
*
20031677 AAATAT-TTTCTTGAAA
1 AAATATCTTGCTTGAAA
20031693 TATTTATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.44, C:0.09, G:0.09, T:0.38
Consensus pattern (18 bp):
AAATATCTTGCTTGAAAA
Found at i:20036128 original size:18 final size:19
Alignment explanation
Indices: 20036105--20036140 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
20036095 TTATTATCCA
*
20036105 TAATTTTTTAAA-AAAATT
1 TAATTTTGTAAAGAAAATT
20036123 TAATTTTGTAAAGAAAAT
1 TAATTTTGTAAAGAAAAT
20036141 GTATGTGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (19 bp):
TAATTTTGTAAAGAAAATT
Found at i:20039267 original size:51 final size:51
Alignment explanation
Indices: 20039136--20039294 Score: 189
Period size: 50 Copynumber: 3.1 Consensus size: 51
20039126 TAATTTTAAG
* *
20039136 GAAAAATTGATATTTCAACTTTTTCCTTACAAAT-C-TAGAAAATATTTAAATA
1 GAAAAATTGATATTTCAACTTTTT-CTT--AAATCCTTTGAAATTATTTAAATA
* *
20039188 GAAAAATTGATATTTCAA-ATTTTCTTAAATCCTTTGAAATTATTTGAATA
1 GAAAAATTGATATTTCAACTTTTTCTTAAATCCTTTGAAATTATTTAAATA
* * *
20039238 GGAAAATTGATATTTTAACTTTTTCTTAAATCTTTTGAAATTATTTTAAAATA
1 GAAAAATTGATATTTCAACTTTTTCTTAAATCCTTTGAAATTA-TTT-AAATA
20039291 GAAA
1 GAAA
20039295 TTTGAAAATT
Statistics
Matches: 92, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
48 4 0.04
49 1 0.01
50 33 0.36
51 26 0.28
52 21 0.23
53 7 0.08
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.43
Consensus pattern (51 bp):
GAAAAATTGATATTTCAACTTTTTCTTAAATCCTTTGAAATTATTTAAATA
Found at i:20039312 original size:51 final size:51
Alignment explanation
Indices: 20039173--20039306 Score: 139
Period size: 51 Copynumber: 2.6 Consensus size: 51
20039163 TACAAATCTA
* * * *
20039173 GAAAATATTTAAATAGAAAAATTG-ATATTTCAA-ATTTTCTTAAATCCTTT
1 GAAATTATTTAAATAGGAAAATTGAAAATTT-AACTTTTTCTTAAATCCTTT
* * * *
20039223 GAAATTATTTGAATAGGAAAATTGATATTTTAACTTTTTCTTAAATCTTTT
1 GAAATTATTTAAATAGGAAAATTGAAAATTTAACTTTTTCTTAAATCCTTT
*
20039274 GAAATTATTTTAAAATA-GAAATTTGAAAATTTA
1 GAAATTA-TTT-AAATAGGAAAATTGAAAATTTA
20039307 TTTTTTTTCC
Statistics
Matches: 68, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
50 23 0.34
51 25 0.37
52 16 0.24
53 4 0.06
ACGTcount: A:0.43, C:0.05, G:0.08, T:0.44
Consensus pattern (51 bp):
GAAATTATTTAAATAGGAAAATTGAAAATTTAACTTTTTCTTAAATCCTTT
Found at i:20042272 original size:2 final size:2
Alignment explanation
Indices: 20042260--20042298 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
20042250 ATTAAAGTGG
20042260 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
20042299 TAAGTATGTA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:20049449 original size:20 final size:20
Alignment explanation
Indices: 20049426--20049463 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
20049416 AATAAATGCA
20049426 TTTT-ATTTATTTAAAATATT
1 TTTTAATTT-TTTAAAATATT
*
20049446 TTTTAATTTTTTAGAATA
1 TTTTAATTTTTTAAAATA
20049464 ACATATTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (20 bp):
TTTTAATTTTTTAAAATATT
Found at i:20051153 original size:81 final size:81
Alignment explanation
Indices: 20051018--20051176 Score: 264
Period size: 81 Copynumber: 2.0 Consensus size: 81
20051008 AAGGCTATGC
* *
20051018 ATTGGTTGGGAGCCAAATCATAAAGATTCTCAAATTTTGTATTATAAGCTAAATCGACCTAAAAT
1 ATTGGTCGGGAGCCAAATCATAAAGATTCTCAAATATTGTATTATAAGCTAAATCGACCTAAAAT
20051083 GATATAGTTGATTTGA
66 GATATAGTTGATTTGA
* * * *
20051099 ATTGGTCGGGAGCCAAATCATAAGGATTTTTAGATATTGTATTATAAGCTAAATCGACCTAAAAT
1 ATTGGTCGGGAGCCAAATCATAAAGATTCTCAAATATTGTATTATAAGCTAAATCGACCTAAAAT
20051164 GATATAGTTGATT
66 GATATAGTTGATT
20051177 ATGATCTAGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
81 72 1.00
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.35
Consensus pattern (81 bp):
ATTGGTCGGGAGCCAAATCATAAAGATTCTCAAATATTGTATTATAAGCTAAATCGACCTAAAAT
GATATAGTTGATTTGA
Found at i:20051940 original size:5 final size:5
Alignment explanation
Indices: 20051930--20051956 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
20051920 TGTGTAGCCC
20051930 ATTTT ATTTT ATTTT ATTTT ATTTT AT
1 ATTTT ATTTT ATTTT ATTTT ATTTT AT
20051957 ATTTTGTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (5 bp):
ATTTT
Found at i:20051961 original size:7 final size:7
Alignment explanation
Indices: 20051949--20052010 Score: 106
Period size: 7 Copynumber: 8.9 Consensus size: 7
20051939 TATTTTATTT
*
20051949 TATTTTA
1 TATTTTG
20051956 TATTTTG
1 TATTTTG
20051963 TATTTTG
1 TATTTTG
20051970 TATTTTG
1 TATTTTG
*
20051977 TATTTTA
1 TATTTTG
20051984 TATTTTG
1 TATTTTG
20051991 TATTTTG
1 TATTTTG
20051998 TATTTTG
1 TATTTTG
20052005 TATTTT
1 TATTTT
20052011 TATATTATTT
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
7 52 1.00
ACGTcount: A:0.18, C:0.00, G:0.10, T:0.73
Consensus pattern (7 bp):
TATTTTG
Found at i:20051968 original size:14 final size:14
Alignment explanation
Indices: 20051934--20052016 Score: 112
Period size: 14 Copynumber: 5.8 Consensus size: 14
20051924 TAGCCCATTT
* *
20051934 TATTTTATTTTATTT
1 TATTTTATATT-TTG
20051949 TATTTTATATTTTG
1 TATTTTATATTTTG
*
20051963 TATTTTGTATTTTG
1 TATTTTATATTTTG
20051977 TATTTTATATTTTG
1 TATTTTATATTTTG
*
20051991 TATTTTGTATTTTG
1 TATTTTATATTTTG
20052005 TATTTTTATATT
1 TA-TTTTATATT
20052017 ATTTGTTTAT
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
14 43 0.70
15 18 0.30
ACGTcount: A:0.19, C:0.00, G:0.07, T:0.73
Consensus pattern (14 bp):
TATTTTATATTTTG
Found at i:20051982 original size:28 final size:28
Alignment explanation
Indices: 20051949--20052016 Score: 127
Period size: 28 Copynumber: 2.4 Consensus size: 28
20051939 TATTTTATTT
20051949 TATTTTATATTTTGTATTTTGTATTTTG
1 TATTTTATATTTTGTATTTTGTATTTTG
20051977 TATTTTATATTTTGTATTTTGTATTTTG
1 TATTTTATATTTTGTATTTTGTATTTTG
20052005 TATTTTTATATT
1 TA-TTTTATATT
20052017 ATTTGTTTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
28 30 0.77
29 9 0.23
ACGTcount: A:0.19, C:0.00, G:0.09, T:0.72
Consensus pattern (28 bp):
TATTTTATATTTTGTATTTTGTATTTTG
Found at i:20052029 original size:17 final size:16
Alignment explanation
Indices: 20051931--20052061 Score: 57
Period size: 14 Copynumber: 8.4 Consensus size: 16
20051921 GTGTAGCCCA
20051931 TTTTATTT-TATT-TT
1 TTTTATTTATATTATT
20051945 ATTTTATTT-TA-TATT
1 -TTTTATTTATATTATT
* *
20051960 TTGTATTT-T-GTATT
1 TTTTATTTATATTATT
*
20051974 TTGTATTT-TA-TATT
1 TTTTATTTATATTATT
* *
20051988 TTGTATTT-T-GTATT
1 TTTTATTTATATTATT
*
20052002 TTGTATTTTTATATTATT
1 TT-T-TATTTATATTATT
*
20052020 TGTTTATTTATTATTACT
1 T-TTTATTTA-TATTATT
* *
20052038 ATTTATTAATATATATT
1 TTTTATTTATAT-TATT
20052055 TTTTATT
1 TTTTATT
20052062 ATTTATCTGT
Statistics
Matches: 95, Mismatches: 10, Indels: 20
0.76 0.08 0.16
Matches are distributed among these distances:
14 41 0.43
15 12 0.13
16 7 0.07
17 22 0.23
18 12 0.13
19 1 0.01
ACGTcount: A:0.22, C:0.01, G:0.05, T:0.72
Consensus pattern (16 bp):
TTTTATTTATATTATT
Found at i:20052033 original size:3 final size:3
Alignment explanation
Indices: 20052027--20052146 Score: 70
Period size: 3 Copynumber: 38.3 Consensus size: 3
20052017 ATTTGTTTAT
* * *
20052027 TTA TTA TTA CTA TTTA TTA ATA TATA TT- TT- TTA TTA TTTA TCTG TTA
1 TTA TTA TTA TTA -TTA TTA TTA T-TA TTA TTA TTA TTA -TTA T-TA TTA
*
20052074 ATA -TA TATA TT- TTA TTA TTA TTTA TCTA TTA TTA TTA TTA TTA TTA
1 TTA TTA T-TA TTA TTA TTA TTA -TTA T-TA TTA TTA TTA TTA TTA TTA
*
20052120 TTA TTTA TCTA TTAA TTA ATA -TA TTA T
1 TTA -TTA T-TA TT-A TTA TTA TTA TTA T
20052147 CTTTTTTTTT
Statistics
Matches: 95, Mismatches: 8, Indels: 28
0.73 0.06 0.21
Matches are distributed among these distances:
2 10 0.11
3 57 0.60
4 28 0.29
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:20052135 original size:60 final size:58
Alignment explanation
Indices: 20052026--20052144 Score: 152
Period size: 60 Copynumber: 2.0 Consensus size: 58
20052016 TATTTGTTTA
* *
20052026 TTTATTATTACTATTTATTAATATATATTTTTTATTATTTATCTGTTAA-TATATATAT
1 TTTATTATTACTATCTATTAATATATATTTTTTATTATTTATCTATTAATTA-ATATAT
* *
20052084 TTTATTATTATTTATCTATTATTAT-TATTATTATTATTATTTATCTATTAATTAATATAT
1 TTTATTATTA-CTATCTATTAATATATATT-TT-TTATTATTTATCTATTAATTAATATAT
20052144 T
1 T
20052145 ATCTTTTTTT
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
58 14 0.26
59 13 0.25
60 24 0.45
61 2 0.04
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (58 bp):
TTTATTATTACTATCTATTAATATATATTTTTTATTATTTATCTATTAATTAATATAT
Found at i:20053071 original size:6 final size:6
Alignment explanation
Indices: 20053046--20053100 Score: 60
Period size: 6 Copynumber: 9.0 Consensus size: 6
20053036 AATTATTTAG
*
20053046 TATTTCT TA-TTT TA-TTT TATTTT TATCTT TATTTT TATTTT TAATTTTT
1 TATTT-T TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT T-A-TTTT
20053095 TATTTT
1 TATTTT
20053101 CTTTAAATAA
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
5 8 0.19
6 26 0.60
7 4 0.09
8 5 0.12
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.78
Consensus pattern (6 bp):
TATTTT
Found at i:20053087 original size:29 final size:29
Alignment explanation
Indices: 20053046--20053105 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
20053036 AATTATTTAG
20053046 TATTTCTTATTTT-ATTTTATT-TTTATCTT
1 TATTTCTTATTTTAATTTT-TTATTT-TCTT
20053075 TATTT-TTATTTTTAATTTTTTATTTTCTT
1 TATTTCTTA-TTTTAATTTTTTATTTTCTT
20053104 TA
1 TA
20053106 AATAAAATTC
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
28 3 0.11
29 17 0.61
30 8 0.29
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (29 bp):
TATTTCTTATTTTAATTTTTTATTTTCTT
Found at i:20053181 original size:59 final size:58
Alignment explanation
Indices: 20053117--20053333 Score: 267
Period size: 58 Copynumber: 3.7 Consensus size: 58
20053107 ATAAAATTCC
* * *
20053117 AAAAAAAAGTATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGTCTT
1 AAAAAAAAATATTTTTAAGAAAAAATTGAAAGTATCAATTTTTCTTGAAAATAAGT-TT
* * *
20053176 CAAAAAAAATATTTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAGTTT
1 AAAAAAAAATATTTTTAAGAAAAAATTGAAAGTATCAATTTTTCTTGAAAATAAGTTT
* * * ** *
20053234 TATAAAAACTATTTTCGAGGAAAAATTGAAAGTATCAA-TTTTCTTTGAAAATAA-TTT
1 AAAAAAAAATATTTTTAAGAAAAAATTGAAAGTATCAATTTTTC-TTGAAAATAAGTTT
* *
20053291 AAAAAAAAATTTTTTTTTAGAAAAAATTGAAAGTATCAATTTT
1 AAAAAAAAA-TATTTTTAAGAAAAAATTGAAAGTATCAATTTT
20053334 CTTTATACGA
Statistics
Matches: 136, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
57 14 0.10
58 67 0.49
59 55 0.40
ACGTcount: A:0.47, C:0.05, G:0.10, T:0.37
Consensus pattern (58 bp):
AAAAAAAAATATTTTTAAGAAAAAATTGAAAGTATCAATTTTTCTTGAAAATAAGTTT
Found at i:20053241 original size:117 final size:116
Alignment explanation
Indices: 20053120--20053333 Score: 315
Period size: 117 Copynumber: 1.8 Consensus size: 116
20053110 AAATTCCAAA
* * * *
20053120 AAAAAGTATTTTTAAGGAAAAGTTGAAAGTATCAATTTT-TCTTGAAAATAAGTCTTCAAAAAAA
1 AAAAACTATTTTCAAGGAAAAATTGAAAGTATCAATTTTCT-TTGAAAATAA-T-TTAAAAAAAA
*
20053184 A-TATTTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAGTTTTAT
63 ATTATTTTTAAGAAAAAATTGAAAGTATCAATTTTTCTTAAAAATAAGTTTTAT
*
20053237 AAAAACTATTTTCGAGGAAAAATTGAAAGTATCAATTTTCTTTGAAAATAATTTAAAAAAAAATT
1 AAAAACTATTTTCAAGGAAAAATTGAAAGTATCAATTTTCTTTGAAAATAATTTAAAAAAAAATT
* *
20053302 TTTTTTTAGAAAAAATTGAAAGTATCAATTTT
66 ATTTTTAAGAAAAAATTGAAAGTATCAATTTT
20053334 CTTTATACGA
Statistics
Matches: 87, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
115 10 0.11
116 31 0.36
117 45 0.52
118 1 0.01
ACGTcount: A:0.47, C:0.05, G:0.10, T:0.38
Consensus pattern (116 bp):
AAAAACTATTTTCAAGGAAAAATTGAAAGTATCAATTTTCTTTGAAAATAATTTAAAAAAAAATT
ATTTTTAAGAAAAAATTGAAAGTATCAATTTTTCTTAAAAATAAGTTTTAT
Found at i:20053338 original size:29 final size:29
Alignment explanation
Indices: 20053254--20053338 Score: 93
Period size: 29 Copynumber: 2.9 Consensus size: 29
20053244 ATTTTCGAGG
20053254 AAAAATTGAAAGTATCAATTTTCTTT-GA
1 AAAAATTGAAAGTATCAATTTTCTTTAGA
* * ** *
20053282 AAATAATTTAAA-AAAAAATTTTTTTTTAGA
1 AAA-AATTGAAAGTATCAA-TTTTCTTTAGA
20053312 AAAAATTGAAAGTATCAATTTTCTTTA
1 AAAAATTGAAAGTATCAATTTTCTTTA
20053339 TACGAAAGCA
Statistics
Matches: 43, Mismatches: 10, Indels: 7
0.72 0.17 0.12
Matches are distributed among these distances:
28 6 0.14
29 29 0.67
30 8 0.19
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.41
Consensus pattern (29 bp):
AAAAATTGAAAGTATCAATTTTCTTTAGA
Found at i:20056375 original size:15 final size:15
Alignment explanation
Indices: 20056355--20056394 Score: 80
Period size: 15 Copynumber: 2.7 Consensus size: 15
20056345 CATTAAAATC
20056355 TATATTAAAATTGTG
1 TATATTAAAATTGTG
20056370 TATATTAAAATTGTG
1 TATATTAAAATTGTG
20056385 TATATTAAAA
1 TATATTAAAA
20056395 GAGAGCTAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.45, C:0.00, G:0.10, T:0.45
Consensus pattern (15 bp):
TATATTAAAATTGTG
Found at i:20057548 original size:160 final size:161
Alignment explanation
Indices: 20057318--20057634 Score: 433
Period size: 160 Copynumber: 2.0 Consensus size: 161
20057308 TACATTTTCA
* * * * * * * *
20057318 ATTGACTTATCTTATATATATGTGTGTGTATTTTACTTTTACAAGTACGAGTTTCTATAAATTCT
1 ATTGACTTACCTTATATATATATATGTGTATTGTACTATTACAAATAAGAGTTTCTATAAACTCT
** * *
20057383 AAAAACTATGTTTGAAGGCAATTTTCTTATATTTATGATTATATCTCCATAAATTAATATAAATT
66 AAAAACTAAATTTGAAGGCAATTTTCTTATATTTATAATCATATCTCCATAAATTAATATAAATT
20057448 ATTTAATTTCATATTGAAAGACCAAATAAGTT
131 ATTTAATTTCATA-TGAAAGACCAAATAAGTT
*
20057480 ATTGGCTTACCTTATATATATATATGT-T-TTGTACTATTACAAATAAGAGTTTCTATAAAC-CT
1 ATTGACTTACCTTATATATATATATGTGTATTGTACTATTACAAATAAGAGTTTCTATAAACTC-
* * * *
20057542 TAAAAACTAAATTTTAAGGTAATTTTCTTATATTTATAATCATATGTCTATAAATTAATATAAAT
65 TAAAAACTAAATTTGAAGGCAATTTTCTTATATTTATAATCATATCTCCATAAATTAATATAAAT
*
20057607 TATTTAATTTCGTATGAAAGACCAAATA
130 TATTTAATTTCATATGAAAGACCAAATA
20057635 TATTAGAGAA
Statistics
Matches: 136, Mismatches: 18, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
159 15 0.11
160 97 0.71
161 1 0.01
162 23 0.17
ACGTcount: A:0.38, C:0.10, G:0.09, T:0.44
Consensus pattern (161 bp):
ATTGACTTACCTTATATATATATATGTGTATTGTACTATTACAAATAAGAGTTTCTATAAACTCT
AAAAACTAAATTTGAAGGCAATTTTCTTATATTTATAATCATATCTCCATAAATTAATATAAATT
ATTTAATTTCATATGAAAGACCAAATAAGTT
Found at i:20058758 original size:23 final size:23
Alignment explanation
Indices: 20058732--20058778 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
20058722 TTTGCATGAT
20058732 TTCTTTTCTTTTCTTTATTTTGC
1 TTCTTTTCTTTTCTTTATTTTGC
20058755 TTCTTTTCTTTTCTTTATTTTGC
1 TTCTTTTCTTTTCTTTATTTTGC
20058778 T
1 T
20058779 ACTATATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.04, C:0.17, G:0.04, T:0.74
Consensus pattern (23 bp):
TTCTTTTCTTTTCTTTATTTTGC
Found at i:20058789 original size:23 final size:23
Alignment explanation
Indices: 20058738--20058789 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
20058728 TGATTTCTTT
* *
20058738 TCTTTTCTTTATTTTGCTTCTTT
1 TCTTTTCTTTATTTTGCTACTTA
20058761 TCTTTTCTTTATTTTGCTACTATA
1 TCTTTTCTTTATTTTGCTACT-TA
20058785 T-TTTT
1 TCTTTT
20058790 GTGCATTAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 24 0.92
24 2 0.08
ACGTcount: A:0.10, C:0.15, G:0.04, T:0.71
Consensus pattern (23 bp):
TCTTTTCTTTATTTTGCTACTTA
Found at i:20058872 original size:13 final size:14
Alignment explanation
Indices: 20058845--20058873 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
20058835 AATTAAAATA
20058845 ATATTTATACTTAT
1 ATATTTATACTTAT
20058859 ATATTTAT-CTTAT
1 ATATTTATACTTAT
20058872 AT
1 AT
20058874 GTTCCCTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (14 bp):
ATATTTATACTTAT
Found at i:20059493 original size:2 final size:2
Alignment explanation
Indices: 20059486--20059551 Score: 73
Period size: 2 Copynumber: 33.0 Consensus size: 2
20059476 AAAGCATTTC
* * *
20059486 AT AT AT AT GT AT AT GT GT AT AT AT AT AT AT AT AT AT AT AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
20059527 ACT AT AT AT AT AT AT -T ACT AT AT AT
1 A-T AT AT AT AT AT AT AT A-T AT AT AT
20059552 TTATTAACCG
Statistics
Matches: 56, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
1 2 0.04
2 50 0.89
3 4 0.07
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (2 bp):
AT
Found at i:20059532 original size:14 final size:14
Alignment explanation
Indices: 20059503--20059557 Score: 69
Period size: 16 Copynumber: 3.9 Consensus size: 14
20059493 TGTATATGTG
20059503 TATATATATA-TA-
1 TATATATATATTAC
20059515 TATATATATATTAC
1 TATATATATATTAC
20059529 TATATATATATATTAC
1 --TATATATATATTAC
*
20059545 TATATATTTATTA
1 TATATATATATTA
20059558 ACCGTAAAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
12 10 0.26
13 2 0.05
14 12 0.32
16 14 0.37
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.53
Consensus pattern (14 bp):
TATATATATATTAC
Found at i:20059532 original size:16 final size:16
Alignment explanation
Indices: 20059503--20059551 Score: 84
Period size: 16 Copynumber: 3.2 Consensus size: 16
20059493 TGTATATGTG
20059503 TATATATA-TA-TATA
1 TATATATATTACTATA
20059517 TATATATATTACTATA
1 TATATATATTACTATA
20059533 TATATATATTACTATA
1 TATATATATTACTATA
20059549 TAT
1 TAT
20059552 TTATTAACCG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.24
15 2 0.06
16 23 0.70
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (16 bp):
TATATATATTACTATA
Found at i:20060261 original size:2 final size:2
Alignment explanation
Indices: 20060256--20060282 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
20060246 TGTATGTATG
20060256 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
20060283 GGGAGAGATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:20064020 original size:103 final size:103
Alignment explanation
Indices: 20063838--20064043 Score: 277
Period size: 103 Copynumber: 2.0 Consensus size: 103
20063828 ACCTAAGAAG
* *
20063838 GCAATTGACTGTCAAATAAAATTGTACATTCTACTGATGTTTTGCCTAAAGTAGTCGAATGCCTT
1 GCAATTGACTGTCAAATAAAATTGTACATTCTACTGATATTTTGCCTAAAGTAGTCGAATGCCCT
*
20063903 CAAAGGATAATCAACTTCAATTTAGAATTTTACTTTCT
66 CAAAGGATAATCAACTTCAATTTAAAATTTTACTTTCT
* * * * * ** * *
20063941 GCAATTGATTGTTAAATAGAATTTTACATTTTGTTGATATTTTGTCTAAAGTAGTCTAATGCCCT
1 GCAATTGACTGTCAAATAAAATTGTACATTCTACTGATATTTTGCCTAAAGTAGTCGAATGCCCT
* * *
20064006 GAAAGGATAGTCAACTTCAATTTAAAATTTTTCTTTCT
66 CAAAGGATAATCAACTTCAATTTAAAATTTTACTTTCT
20064044 ATGTATAAAT
Statistics
Matches: 88, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
103 88 1.00
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.40
Consensus pattern (103 bp):
GCAATTGACTGTCAAATAAAATTGTACATTCTACTGATATTTTGCCTAAAGTAGTCGAATGCCCT
CAAAGGATAATCAACTTCAATTTAAAATTTTACTTTCT
Found at i:20065605 original size:21 final size:21
Alignment explanation
Indices: 20065579--20065618 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
20065569 ATAAATGTTT
20065579 TAAAGGAAAAAATCGATCCCC
1 TAAAGGAAAAAATCGATCCCC
**
20065600 TAAAGGAAAGGATCGATCC
1 TAAAGGAAAAAATCGATCC
20065619 TTTTGTGCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.45, C:0.20, G:0.20, T:0.15
Consensus pattern (21 bp):
TAAAGGAAAAAATCGATCCCC
Found at i:20071924 original size:18 final size:18
Alignment explanation
Indices: 20071879--20071926 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
20071869 TGTTATTAAA
*
20071879 TATTTTTACCTTTTTGTG
1 TATTTTTACTTTTTTGTG
20071897 TATTTTTACTTTTTTGTG
1 TATTTTTACTTTTTTGTG
20071915 TATTTTTACTTT
1 TATTTTTACTTT
20071927 ATATGAAACC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.12, C:0.08, G:0.08, T:0.71
Consensus pattern (18 bp):
TATTTTTACTTTTTTGTG
Found at i:20076554 original size:23 final size:23
Alignment explanation
Indices: 20076510--20076572 Score: 85
Period size: 23 Copynumber: 2.8 Consensus size: 23
20076500 TTTCGAAAAG
*
20076510 AGGGG-TTCCAGAGGGATG-TTGA
1 AGGGGATTCCAGAGAGA-GATTGA
*
20076532 AGGGGATTCGAGAGAGAGATTGA
1 AGGGGATTCCAGAGAGAGATTGA
20076555 AGGGGATTCCAGAGAGAG
1 AGGGGATTCCAGAGAGAG
20076573 GTTTGGGAAG
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
22 6 0.17
23 30 0.83
ACGTcount: A:0.30, C:0.08, G:0.44, T:0.17
Consensus pattern (23 bp):
AGGGGATTCCAGAGAGAGATTGA
Found at i:20076781 original size:18 final size:18
Alignment explanation
Indices: 20076758--20076835 Score: 72
Period size: 18 Copynumber: 4.4 Consensus size: 18
20076748 TTTTTTTAAT
20076758 TAATTAAT-TTATTTATTA
1 TAATTAATATTA-TTATTA
*
20076776 TAATTAATAATTATT-TTT
1 TAATTAAT-ATTATTATTA
* *
20076794 TAA-AAAAATTATTATTA
1 TAATTAATATTATTATTA
*
20076811 TTATTAATATTATTATTA
1 TAATTAATATTATTATTA
*
20076829 AAATTAA
1 TAATTAA
20076836 AATAGTAGAC
Statistics
Matches: 47, Mismatches: 9, Indels: 8
0.73 0.14 0.12
Matches are distributed among these distances:
16 6 0.13
17 6 0.13
18 30 0.64
19 2 0.04
20 3 0.06
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TAATTAATATTATTATTA
Found at i:20076821 original size:12 final size:12
Alignment explanation
Indices: 20076801--20076834 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
20076791 TTTTAAAAAA
*
20076801 ATTATTATTATT
1 ATTAATATTATT
20076813 ATTAATATTATT
1 ATTAATATTATT
*
20076825 ATTAAAATTA
1 ATTAATATTA
20076835 AAATAGTAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
ATTAATATTATT
Found at i:20077258 original size:111 final size:109
Alignment explanation
Indices: 20076968--20077282 Score: 312
Period size: 111 Copynumber: 2.9 Consensus size: 109
20076958 TTTGTAAAAC
* * * * * * *
20076968 ACAAAAT-GATTGGGATGACACCGTAAGTTGAAAAATAATGAATCGATTGTGATAATATCGTGAA
1 ACAAAATCGATTGGGATAACACCGTAAGTAGAAAAA-AA-GAATCGATCGGGATAACACCGCGAA
** * * *
20077032 TGGAATTTATGCCCGTAGGTTTTACA-AATCATACCCGAAGGTTTT
64 TCAAATTTATGCCCGGAGGTCTTACAGAATCATACCCGAAGGTCTT
* * * *
20077077 ACAGAATCGATTGGGATAACACTGCAAGTTAGAAAAAAAGAATCGATCAGGATAACACCGC-ACA
1 ACAAAATCGATTGGGATAACACCGTAAG-TAGAAAAAAAGAATCGATCGGGATAACACCGCGA-A
* ***
20077141 TCAAATTTATGCCCGGAGGTCTTACAGAATTATGTTCGAAGGTCTT
64 TCAAATTTATGCCCGGAGGTCTTACAGAATCATACCCGAAGGTCTT
* * *
20077187 ACAAAATCGATTGAGATAACACCATAAGTCGAAAGAGAAAGAATCGATCGGGATAACACCGCGAA
1 ACAAAATCGATTGGGATAACACCGTAAGTAGAAA-A-AAAGAATCGATCGGGATAACACCGCGAA
* ** *
20077252 TTAAATTTATGCCTAGAGGTCTTATAGAATC
64 TCAAATTTATGCCCGGAGGTCTTACAGAATC
20077283 GACTGAGATA
Statistics
Matches: 167, Mismatches: 32, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
108 1 0.01
109 50 0.30
110 57 0.34
111 58 0.35
112 1 0.01
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.25
Consensus pattern (109 bp):
ACAAAATCGATTGGGATAACACCGTAAGTAGAAAAAAAGAATCGATCGGGATAACACCGCGAATC
AAATTTATGCCCGGAGGTCTTACAGAATCATACCCGAAGGTCTT
Found at i:20077310 original size:88 final size:88
Alignment explanation
Indices: 20077180--20077537 Score: 375
Period size: 87 Copynumber: 4.1 Consensus size: 88
20077170 TTATGTTCGA
* * * *
20077180 AGGTCTTACAAAATCGATTGAGATAACACCATAAGTCGAAAGAGAAAGAATCGATCGGGATAACA
1 AGGTCTTATAGAATCGACTGAGATAACACCATAAGTCGAAAGATAAAGAATCGATCGGGATAACA
*
20077245 CCGCGAATTAAATTTATGCCTAG
66 CCGCGAATCAAATTTATGCCTAG
*
20077268 AGGTCTTATAGAATCGACTGAGATAACACAATAAGTCGAAAGATAAAGAATCGATCGGGATAACA
1 AGGTCTTATAGAATCGACTGAGATAACACCATAAGTCGAAAGATAAAGAATCGATCGGGATAACA
* *
20077333 CCGCGAATCAAATTTATGCTTGG
66 CCGCGAATCAAATTTATGCCTAG
* * * * * * ** *
20077356 AGGTCTTAGA-AATCAATTG-GAATAGCATCACAAGTTAAAAAATAAAGAATCGATCGGGATAAC
1 AGGTCTTATAGAATCGACTGAG-ATAACACCATAAGTCGAAAGATAAAGAATCGATCGGGATAAC
* ** *
20077419 ACTGCGAATTGAATTTATG-CTCGG
65 ACCGCGAATCAAATTTATGCCT-AG
* * * * * *
20077443 AGGTCTTATAGAATTGACTGGGATAACACCGTATGTCAGAAA-A-AAAGAATCGATCGGGACAAT
1 AGGTCTTATAGAATCGACTGAGATAACACCATAAGTC-GAAAGATAAAGAATCGATCGGGATAAC
* * * *
20077506 ACCACGAATCAAAATTATACCCAG
65 ACCGCGAATCAAATTTATGCCTAG
20077530 AGGTCTTA
1 AGGTCTTA
20077538 GAAATCATGC
Statistics
Matches: 221, Mismatches: 43, Indels: 13
0.80 0.16 0.05
Matches are distributed among these distances:
86 2 0.01
87 109 0.49
88 106 0.48
89 4 0.02
ACGTcount: A:0.40, C:0.16, G:0.21, T:0.23
Consensus pattern (88 bp):
AGGTCTTATAGAATCGACTGAGATAACACCATAAGTCGAAAGATAAAGAATCGATCGGGATAACA
CCGCGAATCAAATTTATGCCTAG
Found at i:20077434 original size:87 final size:88
Alignment explanation
Indices: 20077180--20077501 Score: 310
Period size: 88 Copynumber: 3.7 Consensus size: 88
20077170 TTATGTTCGA
* * * * * * * * *
20077180 AGGTCTTACAAAATCGATTGAGATAACACCATAAGTCGAAAGAGAAAGAATCGATCGGGATAACA
1 AGGTCTTAGAGAATCAACTGAGATAACACAACAAGTCAAAAAATAAAGAATCGATCGGGATAACA
* *
20077245 CCGCGAATTAAATTTATGCCTAG
66 CCGCGAATTAAATTTATGCTTGG
* * * * *
20077268 AGGTCTTATAGAATCGACTGAGATAACACAATAAGTCGAAAGATAAAGAATCGATCGGGATAACA
1 AGGTCTTAGAGAATCAACTGAGATAACACAACAAGTCAAAAAATAAAGAATCGATCGGGATAACA
*
20077333 CCGCGAATCAAATTTATGCTTGG
66 CCGCGAATTAAATTTATGCTTGG
* * *
20077356 AGGTCTTAGA-AATCAATTG-GAATAGCATC-ACAAGTTAAAAAATAAAGAATCGATCGGGATAA
1 AGGTCTTAGAGAATCAACTGAG-ATAACA-CAACAAGTCAAAAAATAAAGAATCGATCGGGATAA
* * *
20077418 CACTGCGAATTGAATTTATGCTCGG
64 CACCGCGAATTAAATTTATGCTTGG
* ** * *** * *
20077443 AGGTCTTATAGAATTGACTGGGATAACACCGTATGTCAGAAAA-AAAGAATCGATCGGGA
1 AGGTCTTAGAGAATCAACTGAGATAACACAACAAGTCAAAAAATAAAGAATCGATCGGGA
20077502 CAATACCACG
Statistics
Matches: 199, Mismatches: 30, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
86 1 0.01
87 88 0.44
88 109 0.55
89 1 0.01
ACGTcount: A:0.40, C:0.15, G:0.22, T:0.23
Consensus pattern (88 bp):
AGGTCTTAGAGAATCAACTGAGATAACACAACAAGTCAAAAAATAAAGAATCGATCGGGATAACA
CCGCGAATTAAATTTATGCTTGG
Found at i:20077665 original size:22 final size:24
Alignment explanation
Indices: 20077640--20077699 Score: 83
Period size: 23 Copynumber: 2.7 Consensus size: 24
20077630 TTACGCCTGG
20077640 AGGTCTTAG-A-AATCATGCCCGA
1 AGGTCTTAGCAGAATCATGCCCGA
20077662 AGGTCTT-GCAGAATCATGCCCGA
1 AGGTCTTAGCAGAATCATGCCCGA
*
20077685 AAGTCTTA-CAGAATC
1 AGGTCTTAGCAGAATC
20077700 GACTGAAGTA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
21 1 0.03
22 8 0.24
23 25 0.74
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.23
Consensus pattern (24 bp):
AGGTCTTAGCAGAATCATGCCCGA
Found at i:20077778 original size:133 final size:133
Alignment explanation
Indices: 20077525--20077832 Score: 433
Period size: 133 Copynumber: 2.3 Consensus size: 133
20077515 CAAAATTATA
* * * * *
20077525 CCCAGAGGTCTTAGA-AATCATGCCCGGAGGTCTTACAAAATCGATTAGAATAATACCACAAGTC
1 CCCAGAGGTCTTACAGAATCATGCCCGGAGGTCTTACAGAATCGACTAGAATAACACCACAAGCC
* * * *
20077589 AAAAGATAAAGAATCGATCGGGATAACATCGTGAATCAAATTTACGCCTGGAGGTCTTAGAAATC
66 AAAAGATAAAGAATCGATCGAGATAACATCGTAAATCAAATTTACGCCCGAAGGTCTTAGAAATC
20077654 ATG
131 ATG
* * * *
20077657 CCC-GAAGGTCTTGCAGAATCATGCCCGAAAGTCTTACAGAATCGACT-GAAGTAACACCATAAG
1 CCCAG-AGGTCTTACAGAATCATGCCCGGAGGTCTTACAGAATCGACTAGAA-TAACACCACAAG
* *
20077720 CCAAAAGATAAAGAATCGATCGAGATAACATCGTAAATCGAATTTATGCCCGAAGGTCTTAGAAA
64 CCAAAAGATAAAGAATCGATCGAGATAACATCGTAAATCAAATTTACGCCCGAAGGTCTTAGAAA
20077785 TCATG
129 TCATG
*
20077790 CCCAGAGGTCTTACAGAATCATGCCCGGAGGTCTTATAGAATC
1 CCCAGAGGTCTTACAGAATCATGCCCGGAGGTCTTACAGAATC
20077833 ATGCCCGAAG
Statistics
Matches: 153, Mismatches: 19, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
131 1 0.01
132 14 0.09
133 137 0.90
134 1 0.01
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.22
Consensus pattern (133 bp):
CCCAGAGGTCTTACAGAATCATGCCCGGAGGTCTTACAGAATCGACTAGAATAACACCACAAGCC
AAAAGATAAAGAATCGATCGAGATAACATCGTAAATCAAATTTACGCCCGAAGGTCTTAGAAATC
ATG
Found at i:20077813 original size:23 final size:23
Alignment explanation
Indices: 20077765--20077855 Score: 132
Period size: 23 Copynumber: 4.0 Consensus size: 23
20077755 AATCGAATTT
*
20077765 ATGCCCGAAGGTCTTAGA-AATC
1 ATGCCCGAAGGTCTTACAGAATC
20077787 ATGCCC-AGAGGTCTTACAGAATC
1 ATGCCCGA-AGGTCTTACAGAATC
* *
20077810 ATGCCCGGAGGTCTTATAGAATC
1 ATGCCCGAAGGTCTTACAGAATC
20077833 ATGCCCGAAGGTCTTACAGAATC
1 ATGCCCGAAGGTCTTACAGAATC
20077856 GATTGGAATA
Statistics
Matches: 61, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
21 1 0.02
22 15 0.25
23 45 0.74
ACGTcount: A:0.30, C:0.24, G:0.23, T:0.23
Consensus pattern (23 bp):
ATGCCCGAAGGTCTTACAGAATC
Found at i:20077889 original size:289 final size:288
Alignment explanation
Indices: 20077529--20078093 Score: 790
Period size: 289 Copynumber: 2.0 Consensus size: 288
20077519 ATTATACCCA
* *
20077529 GAGGTCTTAGAAATCATGCCCGGAGGTCTTACAAAATCGATTAGAATAATACCACAAGTCAAAAG
1 GAGGTCTTAGAAATCATGCCCGAAGGTCTTACAAAATCGATTAGAATAATACCACAAGTCAAAAA
* * * * * * *
20077594 ATAAAGAATCGATCGGGATAACATCGTGAATCAAATTTACGCCTGGAGGTCTTAGAAATCATGCC
66 ATAAAGAATCGATCGAGATAACACCGCGAATCAAATTTACACCCGAAAGTCTTAGAAATCATGCC
* *
20077659 CGAAGGTCTTGCAGAATCATGCCCGAAAGTCTTACAGAATCGACT-GAAGTAACACCATAAGCCA
131 CGAAGATCTTACAGAATCATGCCCGAAAGTCTTACAGAATCGACTGGAA-TAACACCATAAGCCA
* * * * * *
20077723 AAAGATAAAGAATCGATCGAGATAACATCGTAAATCGAATTTATGCCCGAAGGTCTTAGAAATCA
195 AAAGATAAAGAATCGATCGAAATAACACCGCAAATCAAATTTATGCCCAAAGGTATTAGAAATCA
20077788 TGCCCAGAGGTCTTACAGAATCATGCCCG
260 TGCCCAGAGGTCTTACAGAATCATGCCCG
* * *
20077817 GAGGTCTTATAGAATCATGCCCGAAGGTCTTACAGAATCGATTGGAATAATACCACAAGTCAAAA
1 GAGGTCTTAGA-AATCATGCCCGAAGGTCTTACAAAATCGATTAGAATAATACCACAAGTCAAAA
* *
20077882 AATAAAGAATCTATTGAGATAACACCGCGAATCAAATTTACACCCGAAAGTCTTAGAAATCATGC
65 AATAAAGAATCGATCGAGATAACACCGCGAATCAAATTTACACCCGAAAGTCTTAGAAATCATGC
* * ** * * * *
20077947 TCGGAGATCTTACAGAATCATGTTCGGAGGTCTTACAGAATCGATTGGAATAACACCATAAGTCA
130 CCGAAGATCTTACAGAATCATGCCCGAAAGTCTTACAGAATCGACTGGAATAACACCATAAGCCA
* * * *
20078012 AAAGATAAAGAATTGATCGAAATAACACCGCGAATCAAATTTATGTCTAAAGGTATTAGAAATCA
195 AAAGATAAAGAATCGATCGAAATAACACCGCAAATCAAATTTATGCCCAAAGGTATTAGAAATCA
*
20078077 TGCCCGGAGGTCTTACA
260 TGCCCAGAGGTCTTACA
20078094 AAATTGATTG
Statistics
Matches: 240, Mismatches: 35, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
288 10 0.04
289 227 0.95
290 3 0.01
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (288 bp):
GAGGTCTTAGAAATCATGCCCGAAGGTCTTACAAAATCGATTAGAATAATACCACAAGTCAAAAA
ATAAAGAATCGATCGAGATAACACCGCGAATCAAATTTACACCCGAAAGTCTTAGAAATCATGCC
CGAAGATCTTACAGAATCATGCCCGAAAGTCTTACAGAATCGACTGGAATAACACCATAAGCCAA
AAGATAAAGAATCGATCGAAATAACACCGCAAATCAAATTTATGCCCAAAGGTATTAGAAATCAT
GCCCAGAGGTCTTACAGAATCATGCCCG
Found at i:20077935 original size:156 final size:156
Alignment explanation
Indices: 20077639--20077988 Score: 461
Period size: 156 Copynumber: 2.2 Consensus size: 156
20077629 TTTACGCCTG
* * *
20077639 GAGGTCTTAGA-AATCATGCCCGAAGGTCTTGCAGAATCATGCCCGAAAGTCTTACAGAATCGAC
1 GAGGTCTTACAGAATCATGCCCGGAGGTCTTACAGAATCATGCCCGAAAGTCTTACAGAATCGAC
* * * * * **
20077703 TGAAGTAACACCATAAGCCAAAAGATAAAGAATCGATCGAGATAACATCGTAAATCGAATTTATG
66 TGAAGTAACACCACAAGCCAAAAAATAAAGAATCGATCGAGATAACACCGCAAATCAAATTTACA
*
20077768 CCCGAAGGTCTTAGAAATCATGCCCA
131 CCCGAAAGTCTTAGAAATCATGCCCA
* * *
20077794 GAGGTCTTACAGAATCATGCCCGGAGGTCTTATAGAATCATGCCCGAAGGTCTTACAGAATCGAT
1 GAGGTCTTACAGAATCATGCCCGGAGGTCTTACAGAATCATGCCCGAAAGTCTTACAGAATCGAC
* * * * *
20077859 TGGAA-TAATACCACAAGTCAAAAAATAAAGAATCTATTGAGATAACACCGCGAATCAAATTTAC
66 T-GAAGTAACACCACAAGCCAAAAAATAAAGAATCGATCGAGATAACACCGCAAATCAAATTTAC
* *
20077923 ACCCGAAAGTCTTAGAAATCATGCTCG
130 ACCCGAAAGTCTTAGAAATCATGCCCA
* **
20077950 GAGATCTTACAGAATCATGTTCGGAGGTCTTACAGAATC
1 GAGGTCTTACAGAATCATGCCCGGAGGTCTTACAGAATC
20077989 GATTGGAATA
Statistics
Matches: 168, Mismatches: 25, Indels: 3
0.86 0.13 0.02
Matches are distributed among these distances:
155 10 0.06
156 155 0.92
157 3 0.02
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.23
Consensus pattern (156 bp):
GAGGTCTTACAGAATCATGCCCGGAGGTCTTACAGAATCATGCCCGAAAGTCTTACAGAATCGAC
TGAAGTAACACCACAAGCCAAAAAATAAAGAATCGATCGAGATAACACCGCAAATCAAATTTACA
CCCGAAAGTCTTAGAAATCATGCCCA
Found at i:20077966 original size:23 final size:23
Alignment explanation
Indices: 20077939--20077988 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
20077929 AAGTCTTAGA
20077939 AATCATGCTCGGAGATCTTACAG
1 AATCATGCTCGGAGATCTTACAG
* *
20077962 AATCATGTTCGGAGGTCTTACAG
1 AATCATGCTCGGAGATCTTACAG
20077985 AATC
1 AATC
20077989 GATTGGAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (23 bp):
AATCATGCTCGGAGATCTTACAG
Found at i:20078071 original size:133 final size:133
Alignment explanation
Indices: 20077806--20078093 Score: 400
Period size: 133 Copynumber: 2.2 Consensus size: 133
20077796 GGTCTTACAG
* *
20077806 AATCATGCCCGGAGGTCTTATAGAATCATGCCCGAAGGTCTTACAGAATCGATTGGAATAATACC
1 AATCATGCCCGGAGGTCTTACAGAATCATGCCCGAAGGTCTTACAGAATCGATTGGAATAACACC
* * *
20077871 ACAAGTCAAAAAATAAAGAATCTATTGAGATAACACCGCGAATCAAATTTACACCCGAAAGTCTT
66 ACAAGTCAAAAAATAAAGAATCTATCGAAATAACACCGCGAATCAAATTTACACCCGAAAGTATT
20077936 AGA
131 AGA
* * ** *
20077939 AATCATGCTCGGAGATCTTACAGAATCATGTTCGGAGGTCTTACAGAATCGATTGGAATAACACC
1 AATCATGCCCGGAGGTCTTACAGAATCATGCCCGAAGGTCTTACAGAATCGATTGGAATAACACC
* * *** *
20078004 ATAAGTCAAAAGATAAAGAAT-TGATCGAAATAACACCGCGAATCAAATTTA-TGTCTAAAGGTA
66 ACAAGTCAAAAAATAAAGAATCT-ATCGAAATAACACCGCGAATCAAATTTACACCCGAAA-GTA
20078067 TTAGA
129 TTAGA
20078072 AATCATGCCCGGAGGTCTTACA
1 AATCATGCCCGGAGGTCTTACA
20078094 AAATTGATTG
Statistics
Matches: 135, Mismatches: 18, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
132 5 0.04
133 130 0.96
ACGTcount: A:0.39, C:0.19, G:0.18, T:0.24
Consensus pattern (133 bp):
AATCATGCCCGGAGGTCTTACAGAATCATGCCCGAAGGTCTTACAGAATCGATTGGAATAACACC
ACAAGTCAAAAAATAAAGAATCTATCGAAATAACACCGCGAATCAAATTTACACCCGAAAGTATT
AGA
Found at i:20078156 original size:110 final size:109
Alignment explanation
Indices: 20077962--20078315 Score: 440
Period size: 110 Copynumber: 3.2 Consensus size: 109
20077952 GATCTTACAG
** * *
20077962 AATCATGTTCGGAGGTCTTACAGAATCGATTGGAATAACACCATAAGTCAAAAGATAAAGAATTG
1 AATCATGCCCGGAGGTCTTACAGAATCGATTGGAATAACACCACAAGTCAAAAGATAAAGAATCG
* * *
20078027 ATCGAAATAACACCGCGAATCAAATTTATGTCTAAAGGTATTAGA
66 ATCGAGATAACACCGCGAATCGAATTTATG-CTAAAGGTCTTAGA
* * * * *
20078072 AATCATGCCCGGAGGTCTTACAAAATTGATTGGAATAATACCACAAGTTAAAAGATAAAGAATCA
1 AATCATGCCCGGAGGTCTTACAGAATCGATTGGAATAACACCACAAGTCAAAAGATAAAGAATCG
* * *
20078137 ATCGAGATAACATCACGAATCGAATTTATGCTTGAAGGTCTTAGA
66 ATCGAGATAACACCGCGAATCGAATTTATGC-TAAAGGTCTTAGA
* * * *
20078182 AATCATGTCCGGAGGTCTTACAGAATCAACT-GAGATAACACCACAACTCAAAAGATAAAGAATC
1 AATCATGCCCGGAGGTCTTACAGAATCGATTGGA-ATAACACCACAAGTCAAAAGATAAAGAATC
* * * *
20078246 GATCGAGATAACACCGTGAATCGAATTTATACCCAGAGGTCTTAGA
65 GATCGAGATAACACCGCGAATCGAATTTAT-GCTAAAGGTCTTAGA
**
20078292 AATCATGCTTGGAGGTCTTACAGA
1 AATCATGCCCGGAGGTCTTACAGA
20078316 TTCATGCCCG
Statistics
Matches: 207, Mismatches: 34, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
109 3 0.01
110 203 0.98
111 1 0.00
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.24
Consensus pattern (109 bp):
AATCATGCCCGGAGGTCTTACAGAATCGATTGGAATAACACCACAAGTCAAAAGATAAAGAATCG
ATCGAGATAACACCGCGAATCGAATTTATGCTAAAGGTCTTAGA
Found at i:20078309 original size:22 final size:23
Alignment explanation
Indices: 20078281--20078341 Score: 79
Period size: 23 Copynumber: 2.7 Consensus size: 23
20078271 TTTATACCCA
* **
20078281 GAGGTCTTAGA-AATCATGCTTG
1 GAGGTCTTACAGAATCATGCCCG
*
20078303 GAGGTCTTACAGATTCATGCCCG
1 GAGGTCTTACAGAATCATGCCCG
20078326 GAGGTCTTACAGAATC
1 GAGGTCTTACAGAATC
20078342 GACTGAGATA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
22 10 0.30
23 23 0.70
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (23 bp):
GAGGTCTTACAGAATCATGCCCG
Found at i:20078335 original size:133 final size:133
Alignment explanation
Indices: 20078164--20078472 Score: 439
Period size: 133 Copynumber: 2.3 Consensus size: 133
20078154 AATCGAATTT
*
20078164 ATGCTTGAAGGTCTTAGA-AATCATGTCCGGAGGTCTTACAGAATCAACTGAGATAACACCACAA
1 ATGCTTGAAGGTCTTAGAGATTCATGTCCGGAGGTCTTACAGAATCAACTGAGATAACACCACAA
**
20078228 CTCAAAAGATAAAGAATCGATCGAGATAACACCGTGAATCGAA-TTTATACCCAGAGGTCTTAGA
66 CTCAAAAGATAAAGAATCGATCGAGATAACACCACGAATC-AATTTTATACCCAGAGGTCTTAGA
20078292 AATC
130 AATC
* * * *
20078296 ATGCTTGGAGGTCTTACAGATTCATGCCCGGAGGTCTTACAGAATCGACTGAGATAACACCACAA
1 ATGCTTGAAGGTCTTAGAGATTCATGTCCGGAGGTCTTACAGAATCAACTGAGATAACACCACAA
* * * * *
20078361 GTCAAAAGATAAAGAATCGATCGGGATAACACCACGAATCAATTTTATGCCCGGAGGTCTTAGAG
66 CTCAAAAGATAAAGAATCGATCGAGATAACACCACGAATCAATTTTATACCCAGAGGTCTTAGAA
*
20078426 ATT
131 ATC
*
20078429 ATG-TCCGAAGGTCTTAGAGATT-ATGTCCGGAGGTCTTACA-AATC
1 ATGCT-TGAAGGTCTTAGAGATTCATGTCCGGAGGTCTTACAGAATC
20078473 TCAAAATCTT
Statistics
Matches: 157, Mismatches: 17, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
131 4 0.03
132 36 0.23
133 117 0.75
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (133 bp):
ATGCTTGAAGGTCTTAGAGATTCATGTCCGGAGGTCTTACAGAATCAACTGAGATAACACCACAA
CTCAAAAGATAAAGAATCGATCGAGATAACACCACGAATCAATTTTATACCCAGAGGTCTTAGAA
ATC
Found at i:20078440 original size:22 final size:22
Alignment explanation
Indices: 20078405--20078466 Score: 106
Period size: 22 Copynumber: 2.8 Consensus size: 22
20078395 CGAATCAATT
*
20078405 TTATGCCCGGAGGTCTTAGAGA
1 TTATGTCCGGAGGTCTTAGAGA
*
20078427 TTATGTCCGAAGGTCTTAGAGA
1 TTATGTCCGGAGGTCTTAGAGA
20078449 TTATGTCCGGAGGTCTTA
1 TTATGTCCGGAGGTCTTA
20078467 CAAATCTCAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.32
Consensus pattern (22 bp):
TTATGTCCGGAGGTCTTAGAGA
Found at i:20078836 original size:121 final size:121
Alignment explanation
Indices: 20078442--20078901 Score: 706
Period size: 121 Copynumber: 3.8 Consensus size: 121
20078432 TCCGAAGGTC
* * * *
20078442 TTAGAGATTATGTCCGGAGGTCTTACAAATCTCAAAATCTTTTAATGCTCCTCATAATAAGAGGT
1 TTAGAGATTATGCCCGGAGGTCTTACAAATCTCAAAATCTTTGAATGCTCCTCATAATCAGAGGC
* * *
20078507 AATGAAACTTTAAATTTTAAAAATCTTTTAAACTTGAAAGTCGTGCGCATAGGCTT
66 AATGAAACTTTAAAATTTAAAAATCTTTTAATCTTGAAAGTCGTGCGCAAAGGCTT
* * *
20078563 TTAGAGATTATGCCCGGAGGTCTTACAAATATCAAAATCTTTGAATGCTCTTCATAATCAGAGGT
1 TTAGAGATTATGCCCGGAGGTCTTACAAATCTCAAAATCTTTGAATGCTCCTCATAATCAGAGGC
* * * *
20078628 AATGAAACTTTAAGAATTTGAAAATCTTTTAATCTTGAAAGTCATGCGTAGAGGCTT
66 AATGAAACTTTAA-AATTTAAAAATCTTTTAATCTTGAAAGTCGTGCGCAAAGGCTT
* *
20078685 TT-GAAGATTATGCCCGGAGGTCTTACAAATCTCAAAATCTTTTATTGCTCCTCATAATCAGAGG
1 TTAG-AGATTATGCCCGGAGGTCTTACAAATCTCAAAATCTTTGAATGCTCCTCATAATCAGAGG
* * *
20078749 CAATGAAACTTTAAAATTTAAAAATCTTTTAATCTTAAAAGTCGTACGCAAAGACTT
65 CAATGAAACTTTAAAATTTAAAAATCTTTTAATCTTGAAAGTCGTGCGCAAAGGCTT
*
20078806 TTAGAGATTATGCCTGGAGGTCTTACAAATCTCAAAATCTTTGAATGCTCCTCATAATCAGAGGC
1 TTAGAGATTATGCCCGGAGGTCTTACAAATCTCAAAATCTTTGAATGCTCCTCATAATCAGAGGC
*
20078871 AATGAAACTTTAAAATTTGAAAATCTTTTAA
66 AATGAAACTTTAAAATTTAAAAATCTTTTAA
20078902 AACATAATTT
Statistics
Matches: 309, Mismatches: 27, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
121 200 0.65
122 109 0.35
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Consensus pattern (121 bp):
TTAGAGATTATGCCCGGAGGTCTTACAAATCTCAAAATCTTTGAATGCTCCTCATAATCAGAGGC
AATGAAACTTTAAAATTTAAAAATCTTTTAATCTTGAAAGTCGTGCGCAAAGGCTT
Found at i:20078877 original size:243 final size:242
Alignment explanation
Indices: 20078446--20078901 Score: 777
Period size: 243 Copynumber: 1.9 Consensus size: 242
20078436 AAGGTCTTAG
* *
20078446 AGATTATGTCCGGAGGTCTTACAAATCTCAAAATCTTTTAATGCTCCTCATAATAAGAGGTAATG
1 AGATTATGCCCGGAGGTCTTACAAATCTCAAAATCTTTTAATGCTCCTCATAATAAGAGGCAATG
* * * * *
20078511 AAACTTTAAATTTTAAAAATCTTTTAAACTTGAAAGTCGTGCGCATAGGCTTTTAGAGATTATGC
66 AAACTTTAAAATTTAAAAATCTTTTAAACTTAAAAGTCGTACGCAAAGACTTTTAGAGATTATGC
* *
20078576 CCGGAGGTCTTACAAATATCAAAATCTTTGAATGCTCTTCATAATCAGAGGTAATGAAACTTTAA
131 CCGGAGGTCTTACAAATATCAAAATCTTTGAATGCTCCTCATAATCAGAGGCAATGAAACTTTAA
20078641 GAATTTGAAAATCTTTTAATCTTGAAAGTCATGCGTAGAGGCTTTTGA
196 -AATTTGAAAATCTTTTAATCTTGAAAGTCATGCGTAGAGGCTTTTGA
* *
20078689 AGATTATGCCCGGAGGTCTTACAAATCTCAAAATCTTTTATTGCTCCTCATAATCAGAGGCAATG
1 AGATTATGCCCGGAGGTCTTACAAATCTCAAAATCTTTTAATGCTCCTCATAATAAGAGGCAATG
*
20078754 AAACTTTAAAATTTAAAAATCTTTTAATCTTAAAAGTCGTACGCAAAGACTTTTAGAGATTATGC
66 AAACTTTAAAATTTAAAAATCTTTTAAACTTAAAAGTCGTACGCAAAGACTTTTAGAGATTATGC
* *
20078819 CTGGAGGTCTTACAAATCTCAAAATCTTTGAATGCTCCTCATAATCAGAGGCAATGAAACTTTAA
131 CCGGAGGTCTTACAAATATCAAAATCTTTGAATGCTCCTCATAATCAGAGGCAATGAAACTTTAA
20078884 AATTTGAAAATCTTTTAA
196 AATTTGAAAATCTTTTAA
20078902 AACATAATTT
Statistics
Matches: 199, Mismatches: 14, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
242 18 0.09
243 181 0.91
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.34
Consensus pattern (242 bp):
AGATTATGCCCGGAGGTCTTACAAATCTCAAAATCTTTTAATGCTCCTCATAATAAGAGGCAATG
AAACTTTAAAATTTAAAAATCTTTTAAACTTAAAAGTCGTACGCAAAGACTTTTAGAGATTATGC
CCGGAGGTCTTACAAATATCAAAATCTTTGAATGCTCCTCATAATCAGAGGCAATGAAACTTTAA
AATTTGAAAATCTTTTAATCTTGAAAGTCATGCGTAGAGGCTTTTGA
Found at i:20079033 original size:41 final size:41
Alignment explanation
Indices: 20078960--20079062 Score: 131
Period size: 41 Copynumber: 2.5 Consensus size: 41
20078950 TCTGAGGAAA
*
20078960 GTTCCT-TCTAAATAGAGGC-TTGAAATCTTGATTGA-AATTG
1 GTTCCTCT-TAAACAGAGGCTTTGAAATCTTGATTGAGAA-TG
20079000 GTTCCTCTTAAACAGAGGCTTTGAAATCTTGATTGAGAATG
1 GTTCCTCTTAAACAGAGGCTTTGAAATCTTGATTGAGAATG
* * *
20079041 ATTCTTCTTAAACAGAGACTTT
1 GTTCCTCTTAAACAGAGGCTTT
20079063 AGAACTTTAA
Statistics
Matches: 56, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
40 16 0.29
41 38 0.68
42 2 0.04
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.37
Consensus pattern (41 bp):
GTTCCTCTTAAACAGAGGCTTTGAAATCTTGATTGAGAATG
Found at i:20085287 original size:22 final size:22
Alignment explanation
Indices: 20085262--20085308 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
20085252 GGTTTTGATT
*
20085262 TTTGAGTTTGGAGATTTTAGGG
1 TTTGAGTTTGAAGATTTTAGGG
* * *
20085284 TTTGGGTTTTAAGGTTTTAGGG
1 TTTGAGTTTGAAGATTTTAGGG
20085306 TTT
1 TTT
20085309 TGATTTAAGG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.34, T:0.51
Consensus pattern (22 bp):
TTTGAGTTTGAAGATTTTAGGG
Done.