Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 ID=Chr11-JGI_221_v2.0
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: 62681010
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1052928 characters in sequence are not A, C, G, or T
File 51 of 210
Found at i:15569671 original size:19 final size:20
Alignment explanation
Indices: 15569631--15569674 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
15569621 GTCTCTTTAG
* *
15569631 GCATT-CATTTCATGCATTT
1 GCATTACATTGCATGCATAT
15569650 GCATTACATTGCAT-CATAT
1 GCATTACATTGCATGCATAT
15569669 GCATTA
1 GCATTA
15569675 GATTTTCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.41
Consensus pattern (20 bp):
GCATTACATTGCATGCATAT
Found at i:15572371 original size:15 final size:14
Alignment explanation
Indices: 15572345--15572383 Score: 60
Period size: 15 Copynumber: 2.7 Consensus size: 14
15572335 GAGTTCCGAC
*
15572345 TCAAGAAAAAAAAA
1 TCAAAAAAAAAAAA
15572359 TCAAAATAAAAAAAA
1 TCAAAA-AAAAAAAA
15572374 TCAAAAAAAA
1 TCAAAAAAAA
15572384 TCAAAAAATC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 9 0.39
15 14 0.61
ACGTcount: A:0.79, C:0.08, G:0.03, T:0.10
Consensus pattern (14 bp):
TCAAAAAAAAAAAA
Found at i:15572379 original size:10 final size:10
Alignment explanation
Indices: 15572361--15572391 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
15572351 AAAAAAAATC
15572361 AAAAT-AAAA
1 AAAATCAAAA
15572370 AAAATCAAAA
1 AAAATCAAAA
15572380 AAAATCAAAA
1 AAAATCAAAA
15572390 AA
1 AA
15572392 TCAAAGTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 5 0.24
10 16 0.76
ACGTcount: A:0.84, C:0.06, G:0.00, T:0.10
Consensus pattern (10 bp):
AAAATCAAAA
Found at i:15573250 original size:12 final size:12
Alignment explanation
Indices: 15573233--15573292 Score: 59
Period size: 12 Copynumber: 5.1 Consensus size: 12
15573223 TGACTCAAAC
15573233 AAAAAATGAAAA
1 AAAAAATGAAAA
*
15573245 AAAAAA-GAGAA
1 AAAAAATGAAAA
*
15573256 GAAAAATGAAAA
1 AAAAAATGAAAA
**
15573268 AATGAATGAAAA
1 AAAAAATGAAAA
**
15573280 AAATGATGAAAA
1 AAAAAATGAAAA
15573292 A
1 A
15573293 TGAAAAAGTA
Statistics
Matches: 38, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
11 9 0.24
12 29 0.76
ACGTcount: A:0.75, C:0.00, G:0.15, T:0.10
Consensus pattern (12 bp):
AAAAAATGAAAA
Found at i:15573271 original size:31 final size:31
Alignment explanation
Indices: 15573233--15573299 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
15573223 TGACTCAAAC
15573233 AAAAAATGAA-AAAAAAAAGAGAAGAAAAATG
1 AAAAAATGAATAAAAAAAA-AGAAGAAAAATG
* * *
15573264 AAAAAATGAATGAAAAAAATGATGAAAAATG
1 AAAAAATGAATAAAAAAAAAGAAGAAAAATG
15573295 AAAAA
1 AAAAA
15573300 GTAAAAATGA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
31 25 0.78
32 7 0.22
ACGTcount: A:0.75, C:0.00, G:0.15, T:0.10
Consensus pattern (31 bp):
AAAAAATGAATAAAAAAAAAGAAGAAAAATG
Found at i:15574749 original size:86 final size:86
Alignment explanation
Indices: 15574527--15574741 Score: 263
Period size: 86 Copynumber: 2.5 Consensus size: 86
15574517 AATGAAGTTT
* *
15574527 CAAAGCCTTGCCTTCATTGGTTGTAGTGGAGCTGGTTAAAGACAAAAGATCTTGCCTTCCTGCAT
1 CAAAACCTTGCCTTCATTGGTT-CAGTGGAGCTGGTTAAAGACAAAAGATCTTGCCTTCCTGCAT
* * **
15574592 TGACAGCGAAGCAGGTCGAAGT
65 TAACAGCGAAGCAGATCGAAAA
* * ** * * *
15574614 C-AAACCTTACCTCTC-TCGGTTGTGATGGAGCTGGTTGAAGATAAAAGATCTTGCCTTCCTGCG
1 CAAAACCTTGCCT-TCATTGGTTCAG-TGGAGCTGGTTAAAGACAAAAGATCTTGCCTTCCTGCA
15574677 TTAACAGCGAAGCAGATCGAAAA
64 TTAACAGCGAAGCAGATCGAAAA
15574700 CAAAACCTTGCCTTCATTGGTTACAGTGGAGCTGGTTAAAGA
1 CAAAACCTTGCCTTCATTGGTT-CAGTGGAGCTGGTTAAAGA
15574742 AGCAGATCGA
Statistics
Matches: 106, Mismatches: 17, Indels: 10
0.80 0.13 0.08
Matches are distributed among these distances:
85 1 0.01
86 71 0.67
87 33 0.31
88 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.27
Consensus pattern (86 bp):
CAAAACCTTGCCTTCATTGGTTCAGTGGAGCTGGTTAAAGACAAAAGATCTTGCCTTCCTGCATT
AACAGCGAAGCAGATCGAAAA
Found at i:15574922 original size:86 final size:86
Alignment explanation
Indices: 15574740--15575276 Score: 802
Period size: 85 Copynumber: 6.3 Consensus size: 86
15574730 GCTGGTTAAA
* *
15574740 GAAGCAGATCG--AA-AAAGTCTTGCCTTCATTGGTTGCAGTGGAGCTGGTTAAAGAA--AGATC
1 GAAGCAGATCGAAAACAAAGCCTTGCCTTCATTGGTTACAGTGGAGCTGGTTAAAGAAGCAGATC
15574800 TTGCCTTCCTGCATTAACAGC
66 TTGCCTTCCTGCATTAACAGC
15574821 GAAGCAGATCGAAAACAAAGCCTTGCCTTCATTGGTTACAGTGGAGCTGGTTAAAGAAGCAGATC
1 GAAGCAGATCGAAAACAAAGCCTTGCCTTCATTGGTTACAGTGGAGCTGGTTAAAGAAGCAGATC
* * *
15574886 TTACCTTCCTGCATTTACAAC
66 TTGCCTTCCTGCATTAACAGC
15574907 GAAGCAGATCGAAAAC-AAGCCTTGCCTTCATTGGTTACAGTGGAGCTGGTTAAAGAAGCAGATC
1 GAAGCAGATCGAAAACAAAGCCTTGCCTTCATTGGTTACAGTGGAGCTGGTTAAAGAAGCAGATC
* *
15574971 TTGCCTTCCTGCATTTACAAC
66 TTGCCTTCCTGCATTAACAGC
15574992 GAAGCAGATCGAAAAC-AAGCCTTGCCTTCATTGGTTACAGTGGAGCTGGTTAAAGAAGCAGATC
1 GAAGCAGATCGAAAACAAAGCCTTGCCTTCATTGGTTACAGTGGAGCTGGTTAAAGAAGCAGATC
*
15575056 TTACCTTCCTGCATTAACAGC
66 TTGCCTTCCTGCATTAACAGC
* *
15575077 GAAGCAGATCGAAAACAAAGCCTTGCCTTCATTGGTTGCAGTGGAGCTGGTTAAAGAAGTAGATC
1 GAAGCAGATCGAAAACAAAGCCTTGCCTTCATTGGTTACAGTGGAGCTGGTTAAAGAAGCAGATC
* *
15575142 TTGCCTTCCTACATTAACAGT
66 TTGCCTTCCTGCATTAACAGC
* * * * * *
15575163 GAAGCAGATCAAAAACAAATCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTGAAGATAGCAGAT
1 GAAGCAGATCGAAAACAAAGCCTTGCCTTCATTGGTTACAGTGGAGCTGGTTAAAGA-AGCAGAT
* *
15575228 CTTGCCTTCCTGCGTTAACAGT
65 CTTGCCTTCCTGCATTAACAGC
* * *
15575250 GAAGTAGATCGAACACAAA-TCTTGCCT
1 GAAGCAGATCGAAAACAAAGCCTTGCCT
15575277 CTCTAGGTAG
Statistics
Matches: 423, Mismatches: 26, Indels: 9
0.92 0.06 0.02
Matches are distributed among these distances:
81 11 0.03
83 2 0.00
84 40 0.09
85 166 0.39
86 162 0.38
87 42 0.10
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.26
Consensus pattern (86 bp):
GAAGCAGATCGAAAACAAAGCCTTGCCTTCATTGGTTACAGTGGAGCTGGTTAAAGAAGCAGATC
TTGCCTTCCTGCATTAACAGC
Found at i:15574922 original size:222 final size:222
Alignment explanation
Indices: 15574528--15574970 Score: 642
Period size: 222 Copynumber: 2.0 Consensus size: 222
15574518 ATGAAGTTTC
*
15574528 AAAGCCTTGCCTTCATTGGTTGTAGTGGAGCTGGTTAAAGACAAAAGATCTTGCCTTCCTGCATT
1 AAAGCCTTGCCTTCATTGGTTGCAGTGGAGCTGGTTAAAG--AAAAGATCTTGCCTTCCTGCATT
* * ** ** *
15574593 GACAGCGAAGCAGGTCGAAGTCAAACCTTACCTCTCTCGGTTGTGATGGAGCTGGTTGAAGATAA
64 AACAGCGAAGCAGATCGAAAACAAACCTTACCTCTCTCGGTTCAGATGGAGCTGGTTAAAGATAA
* * *
15574658 AAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAACCTTGCCTTCATTGGTTA
129 AAGATCTTACCTTCCTGCATTAACAACGAAGCAGATCGAAAAC-AAACCTTGCCTTCATTGGTTA
15574723 CAGTGGAGCTGGTTAAAGAAGCAGATCGAA
193 CAGTGGAGCTGGTTAAAGAAGCAGATCGAA
*
15574753 AAAGTCTTGCCTTCATTGGTTGCAGTGGAGCTGGTTAAAG-AAAGATCTTGCCTTCCTGCATTAA
1 AAAGCCTTGCCTTCATTGGTTGCAGTGGAGCTGGTTAAAGAAAAGATCTTGCCTTCCTGCATTAA
* *
15574817 CAGCGAAGCAGATCGAAAACAAAGCCTTGCCT-TCATTGGTTACAG-TGGAGCTGGTTAAAGA-A
66 CAGCGAAGCAGATCGAAAACAAA-CCTTACCTCTC-TCGGTT-CAGATGGAGCTGGTTAAAGATA
** * *
15574879 GCAGATCTTACCTTCCTGCATTTACAACGAAGCAGATCGAAAACAAGCCTTGCCTTCATTGGTTA
128 AAAGATCTTACCTTCCTGCATTAACAACGAAGCAGATCGAAAACAAACCTTGCCTTCATTGGTTA
15574944 CAGTGGAGCTGGTTAAAGAAGCAGATC
193 CAGTGGAGCTGGTTAAAGAAGCAGATC
15574971 TTGCCTTCCT
Statistics
Matches: 197, Mismatches: 18, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
221 47 0.24
222 84 0.43
223 27 0.14
224 1 0.01
225 38 0.19
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (222 bp):
AAAGCCTTGCCTTCATTGGTTGCAGTGGAGCTGGTTAAAGAAAAGATCTTGCCTTCCTGCATTAA
CAGCGAAGCAGATCGAAAACAAACCTTACCTCTCTCGGTTCAGATGGAGCTGGTTAAAGATAAAA
GATCTTACCTTCCTGCATTAACAACGAAGCAGATCGAAAACAAACCTTGCCTTCATTGGTTACAG
TGGAGCTGGTTAAAGAAGCAGATCGAA
Found at i:15574935 original size:42 final size:42
Alignment explanation
Indices: 15574889--15575020 Score: 117
Period size: 42 Copynumber: 3.1 Consensus size: 42
15574879 GCAGATCTTA
15574889 CCTTCCTGCATTTACAACGAAGCAGATCGAAAACAAGCCTTG
1 CCTTCCTGCATTTACAACGAAGCAGATCGAAAACAAGCCTTG
* * ** * * * ** *
15574931 CCTTCATTG--GTTACAGTGGAGCTGGTTAAAGAAGC-AGATCTTG
1 CCTTC-CTGCATTTACAACGAAGCAGATCGAA-AA-CAAG-CCTTG
15574974 CCTTCCTGCATTTACAACGAAGCAGATCGAAAACAAGCCTTG
1 CCTTCCTGCATTTACAACGAAGCAGATCGAAAACAAGCCTTG
15575016 CCTTC
1 CCTTC
15575021 ATTGGTTACA
Statistics
Matches: 63, Mismatches: 20, Indels: 14
0.65 0.21 0.14
Matches are distributed among these distances:
41 13 0.21
42 21 0.33
43 16 0.25
44 13 0.21
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.25
Consensus pattern (42 bp):
CCTTCCTGCATTTACAACGAAGCAGATCGAAAACAAGCCTTG
Found at i:15575551 original size:129 final size:129
Alignment explanation
Indices: 15575316--15575757 Score: 609
Period size: 129 Copynumber: 3.4 Consensus size: 129
15575306 ATTTCAGATC
* * * *
15575316 TTATCTCCCTGAGATTACAGCGGAGCAGA-TCAAGGATAGTAATCCTATCTCCTTGAGATTACAG
1 TTATCTCCCTGAGATTACAGCGGAGCAGATTGAA-GCTAGAAATCCTATCTCCCTGAGATTACAG
* * * * *
15575380 TGGAGTGGATTAAAATGAAGGACCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCGTCAGGTT
65 TGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTT
* *
15575445 TTATTTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGAAATCCTATCTCCCTGATATTACAGT
1 TTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGAAATCCTATCTCCCTGAGATTACAGT
* * * *
15575510 GGAGCGGATTAAAATAAAGGATCTTATCTCTTTGAAGTTACAGTAGAGAAGATCGTATCAGGTC
66 GGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTT
*
15575574 TTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGT
1 TTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGAAATCCTATCTCCCTGAGATTACAGT
* * *
15575639 GCAGCAGATTAAAACAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTT
66 GGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTT
* * * * * * * *
15575703 TTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGC-CGATAATTCTATCTCCCTG
1 TTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGA-AATCCTATCTCCCTG
15575758 GTTGGCAGTG
Statistics
Matches: 277, Mismatches: 34, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
128 1 0.00
129 273 0.99
130 3 0.01
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (129 bp):
TTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGAAATCCTATCTCCCTGAGATTACAGT
GGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTT
Found at i:15575667 original size:44 final size:44
Alignment explanation
Indices: 15575312--15575691 Score: 174
Period size: 44 Copynumber: 8.8 Consensus size: 44
15575302 AAGAATTTCA
* * ** *
15575312 GATCTTATCTCCCTGAGATTACAGCGGAGCAGA-TCAAGGATAG
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAACAAAG
* * * ** * **
15575355 TAATCCTATCTCCTTGAGATTACAGTGGAGTGGATTAAAATGAAG
1 -GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAACAAAG
* * ** * * ***
15575400 GACCTTATCTCTCTGA-AGTTACAGCAGAGTAGATCGCGTC--AG
1 GATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAACAAAG
* * * *
15575442 G-TTTTATTTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGAA-
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAC-A-AAG
* * * * *
15575486 -ATCCTATCTCCCTGATATTACAGTGGAGCGGATTAAAATAAAG
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAACAAAG
** * * * * *
15575529 GATCTTATCTCTTTGA-AGTTACAGTAGAGAAGATCGTATC--AG
1 GATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAACAAAG
* * *
15575571 G-TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGC-TAG
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAACAAAG
* * * *
15575613 TAATCCTATCTCCCTGAGATTACAGTGCAGCAGATTAAAACAAAG
1 -GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAACAAAG
* * *
15575658 GATCTTATCTCTCTGA-AGTTACAGTAGAGTAGAT
1 GATCTTATCTCCCTGAGA-TTACAGTGGAGCAGAT
15575692 CGCATCAGGT
Statistics
Matches: 243, Mismatches: 76, Indels: 34
0.69 0.22 0.10
Matches are distributed among these distances:
41 54 0.22
42 12 0.05
43 4 0.02
44 165 0.68
45 8 0.03
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.28
Consensus pattern (44 bp):
GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAACAAAG
Found at i:15575864 original size:95 final size:95
Alignment explanation
Indices: 15575701--15575878 Score: 277
Period size: 95 Copynumber: 1.9 Consensus size: 95
15575691 TCGCATCAGG
* * *
15575701 TTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGGTTGGCAG
1 TTTTACCTCCCTGTGATTACAGTGGAGTACAGTGAAGCCGATAATGCTATCTCCCTGGTTGGCAG
*
15575766 TGGAATAGATTGAAGATTGAAAATGGCAGA
66 TGGAATAGATTAAAGATTGAAAATGGCAGA
* * *
15575796 TTTTACTTCCCTGTGATTATAGTGGAGTATAGTGAAGCC-AGTAATGCTATCTCCCTGGTTGGCA
1 TTTTACCTCCCTGTGATTACAGTGGAGTACAGTGAAGCCGA-TAATGCTATCTCCCTGGTTGGCA
15575860 GTGGAATAGATTAAAGATT
65 GTGGAATAGATTAAAGATT
15575879 CTAGATTCTG
Statistics
Matches: 75, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
94 1 0.01
95 74 0.99
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.33
Consensus pattern (95 bp):
TTTTACCTCCCTGTGATTACAGTGGAGTACAGTGAAGCCGATAATGCTATCTCCCTGGTTGGCAG
TGGAATAGATTAAAGATTGAAAATGGCAGA
Found at i:15577325 original size:3 final size:3
Alignment explanation
Indices: 15577317--15577355 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
15577307 CTTAATAAAT
15577317 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
15577356 CATATCATTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:15577547 original size:16 final size:16
Alignment explanation
Indices: 15577526--15577561 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
15577516 ATACTTTTTT
15577526 TATATATGTATATCTA
1 TATATATGTATATCTA
*
15577542 TATATATGTATATGTA
1 TATATATGTATATCTA
15577558 TATA
1 TATA
15577562 CTTTCCATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.39, C:0.03, G:0.08, T:0.50
Consensus pattern (16 bp):
TATATATGTATATCTA
Found at i:15577718 original size:8 final size:10
Alignment explanation
Indices: 15577682--15577720 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
15577672 TGCACATTTT
*
15577682 TATATATTATA
1 TATATA-TATG
15577693 TATATATATG
1 TATATATATG
15577703 TATATATATG
1 TATATATATG
*
15577713 TTTATATA
1 TATATATA
15577721 ATATTTATAC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
10 20 0.77
11 6 0.23
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (10 bp):
TATATATATG
Found at i:15580231 original size:87 final size:87
Alignment explanation
Indices: 15580085--15580248 Score: 328
Period size: 87 Copynumber: 1.9 Consensus size: 87
15580075 TAAGGTACGC
15580085 TGTTGCAAGCCCAATTAATTTCTCCTCCCTTTCGACCCACCTTCAATTTTTGTCTTTAAGGCCCT
1 TGTTGCAAGCCCAATTAATTTCTCCTCCCTTTCGACCCACCTTCAATTTTTGTCTTTAAGGCCCT
15580150 TCACTAAATTTCCCTTGTACCT
66 TCACTAAATTTCCCTTGTACCT
15580172 TGTTGCAAGCCCAATTAATTTCTCCTCCCTTTCGACCCACCTTCAATTTTTGTCTTTAAGGCCCT
1 TGTTGCAAGCCCAATTAATTTCTCCTCCCTTTCGACCCACCTTCAATTTTTGTCTTTAAGGCCCT
15580237 TCACTAAATTTC
66 TCACTAAATTTC
15580249 TCTTCCTATG
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
87 77 1.00
ACGTcount: A:0.20, C:0.32, G:0.09, T:0.39
Consensus pattern (87 bp):
TGTTGCAAGCCCAATTAATTTCTCCTCCCTTTCGACCCACCTTCAATTTTTGTCTTTAAGGCCCT
TCACTAAATTTCCCTTGTACCT
Found at i:15581276 original size:14 final size:14
Alignment explanation
Indices: 15581257--15581293 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
15581247 TTATTTATCT
15581257 TTTTCTTTCTTTTA
1 TTTTCTTTCTTTTA
*
15581271 TTTTCTTTGTTTTA
1 TTTTCTTTCTTTTA
15581285 TTATTCTTT
1 TT-TTCTTT
15581294 TAATATTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.08, C:0.11, G:0.03, T:0.78
Consensus pattern (14 bp):
TTTTCTTTCTTTTA
Found at i:15586035 original size:41 final size:41
Alignment explanation
Indices: 15585978--15586061 Score: 152
Period size: 41 Copynumber: 2.0 Consensus size: 41
15585968 TTCGCATTGA
15585978 ATTAATAAATTTTTAATTAAATTATAAAGT-AAATCTTTTGG
1 ATTAATAAATTTTTAATTAAATTATAAAGTAAAAT-TTTTGG
15586019 ATTAATAAATTTTTAATTAAATTATAAAGTAAAATTTTTGG
1 ATTAATAAATTTTTAATTAAATTATAAAGTAAAATTTTTGG
15586060 AT
1 AT
15586062 GAATGGGATT
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
41 38 0.90
42 4 0.10
ACGTcount: A:0.45, C:0.01, G:0.07, T:0.46
Consensus pattern (41 bp):
ATTAATAAATTTTTAATTAAATTATAAAGTAAAATTTTTGG
Found at i:15587532 original size:23 final size:23
Alignment explanation
Indices: 15587506--15587559 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 23
15587496 TCAAGCCATC
15587506 AAATATA-GTTGACCAATCTTTTT
1 AAATATATGTTGACCAAT-TTTTT
15587529 AAATATATTGTTGACCAATTTTTT
1 AAATATA-TGTTGACCAATTTTTT
15587553 AAATATA
1 AAATATA
15587560 AATAAGTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
23 7 0.24
24 12 0.41
25 10 0.34
ACGTcount: A:0.39, C:0.09, G:0.07, T:0.44
Consensus pattern (23 bp):
AAATATATGTTGACCAATTTTTT
Found at i:15587556 original size:24 final size:25
Alignment explanation
Indices: 15587508--15587559 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
15587498 AAGCCATCAA
15587508 ATATAGTTGACCAATCTTTTTAAAT
1 ATATAGTTGACCAATCTTTTTAAAT
*
15587533 ATATTGTTGACCAAT-TTTTTAAAT
1 ATATAGTTGACCAATCTTTTTAAAT
15587557 ATA
1 ATA
15587560 AATAAGTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
24 12 0.46
25 14 0.54
ACGTcount: A:0.37, C:0.10, G:0.08, T:0.46
Consensus pattern (25 bp):
ATATAGTTGACCAATCTTTTTAAAT
Found at i:15591962 original size:44 final size:45
Alignment explanation
Indices: 15591883--15592370 Score: 178
Period size: 44 Copynumber: 11.1 Consensus size: 45
15591873 GAATAAAATT
* * * * *
15591883 TGCTATCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-C
1 TGCTAGCTTCAATCTACTCCACTGTAACCTCAGGGAGATAAGATC
* * * *
15591927 TGCTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATC
1 TGCTAGCTTCAATCTACTCCACTGTAACCTCAGGGAGATAAGATC
* * * *
15591972 TTCTATCTTCGATCTACTCCACTACT-ACCT-AGGGAGATAAGATC
1 TGCTAGCTTCAATCTACTCCACT-GTAACCTCAGGGAGATAAGATC
* * **
15592016 TG-TAATCTTCAATCTATTCCACTGTTGCC-CAGGGAGAT-AGAAT-
1 TGCT-AGCTTCAATCTACTCCACTGTAACCTCAGGGAGATAAG-ATC
** * * * *
15592059 TATTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATC
1 TGCTAGCTTCAATCTACTCCACTGTAACCTCAGGGAGATAAGATC
* * * * * * *
15592104 CGCCATCTTCGATCTGCTCCAC--T-ACTGCTTAGGGAGATAAGATT
1 TGCTAGCTTCAATCTACTCCACTGTAAC--CTCAGGGAGATAAGATC
* * * * *
15592148 TG-TAATCTTTAATCTA-TCCCACTGCT--GCACAGGAAGAT-AGAGT-
1 TGCT-AGCTTCAATCTACT-CCACTG-TAACCTCAGGGAGATAAGA-TC
* * * *
15592191 TACTAGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATC
1 TGCTAGCTTCAATCTACTCCACTGTAACCTCAGGGAGATAAGATC
** * * ** * *
15592236 CACCATCTTTGATCTGCTCCAC--T-ACTGCTTAGGGAGATAAGATC
1 TGCTAGCTTCAATCTACTCCACTGTAAC--CTCAGGGAGATAAGATC
* * * *
15592280 T-ATAATCTTCAATCTATTCCACTGCT-GCC-CAGGGAGAT-AGAAT-
1 TGCT-AGCTTCAATCTACTCCACTG-TAACCTCAGGGAGATAAG-ATC
* * * * *
15592323 TACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATC
1 TGCTAGCTTCAATCTACTCCACTGTAACCTCAGGGAGATAAGATC
15592368 TGC
1 TGC
15592371 CATCTTCGAT
Statistics
Matches: 318, Mismatches: 90, Indels: 71
0.66 0.19 0.15
Matches are distributed among these distances:
42 6 0.02
43 67 0.21
44 183 0.58
45 58 0.18
46 1 0.00
47 3 0.01
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (45 bp):
TGCTAGCTTCAATCTACTCCACTGTAACCTCAGGGAGATAAGATC
Found at i:15592152 original size:132 final size:132
Alignment explanation
Indices: 15591929--15592385 Score: 743
Period size: 132 Copynumber: 3.5 Consensus size: 132
15591919 GATAAGACTG
** * *
15591929 CTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTTCTATCTTCGATCTACTCCAC
1 CTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCAC
* * *
15591994 TACTACCTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCCCAGGGAGATAGAAT
66 TACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAAT
15592059 TA
131 TA
*
15592061 TTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCAC
1 CTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCAC
* * * * * *
15592126 TACTGCTTAGGGAGATAAGATTTGTAATCTTTAATCTATCCCACTGCTGCACAGGAAGATAGAGT
66 TACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAAT
15592191 TA
131 TA
* * *
15592193 CTAGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATCTTTGATCTGCTCCAC
1 CTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCAC
*
15592258 TACTGCTTAGGGAGATAAGATCTATAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAAT
66 TACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAAT
15592323 TA
131 TA
*
15592325 CTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCT
1 CTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTCGATCTGCT
15592386 TCGCCACCAG
Statistics
Matches: 296, Mismatches: 29, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
132 296 1.00
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (132 bp):
CTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCAC
TACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAAT
TA
Found at i:15592526 original size:89 final size:89
Alignment explanation
Indices: 15592373--15592902 Score: 796
Period size: 89 Copynumber: 6.0 Consensus size: 89
15592363 AAATCTGCCA
* *
15592373 TCTTCGATCTGCTTCGCCACCAGTATGGGAAGACAAGATCTGGTATCTTTGATCTGCTTCACGCC
1 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGGTATCTTTGATCTACTTCACGCC
*
15592438 AGTACATGAAGACAAGATCTACTT
66 AGTACATGAAGACAAGATCTGCTT
* * * *
15592462 TCTTCGATCTGCTTCACCACCAGTATGGGAAGGCAAGATCTGTTATCTTTGATCTAC-TCTACGC
1 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGGTATCTTTGATCTACTTC-ACGC
15592526 CAGTACATGAAGACAAGATCTGCTT
65 CAGTACATGAAGACAAGATCTGCTT
* * * *
15592551 TCTCCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATATACTCCACGCC
1 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGGTATCTTTGATCTACTTCACGCC
* *
15592616 AGTAAATGAAGACAAGATCTACTT
66 AGTACATGAAGACAAGATCTGCTT
*
15592640 TCTCCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGGTATCTTTGATCTACTTCACGCC
1 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGGTATCTTTGATCTACTTCACGCC
* * *
15592705 ATTACATGAAGACAAGATATGTTT
66 AGTACATGAAGACAAGATCTGCTT
*
15592729 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGGTATTTTTGATCTACTTCACGCC
1 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGGTATCTTTGATCTACTTCACGCC
15592794 AGTACATGAAGACAAGATCTGCTT
66 AGTACATGAAGACAAGATCTGCTT
* * *
15592818 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTATTGTA-C-TCGATCTACTTCATG
1 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATC--TGGTATCTTTGATCTACTTCACG
* * *
15592881 TCAATACATAAAGACAAGATCT
64 CCAGTACATGAAGACAAGATCT
15592903 ACTGCTTTTC
Statistics
Matches: 404, Mismatches: 33, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
88 2 0.00
89 397 0.98
90 1 0.00
91 4 0.01
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (89 bp):
TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGGTATCTTTGATCTACTTCACGCC
AGTACATGAAGACAAGATCTGCTT
Found at i:15593801 original size:13 final size:13
Alignment explanation
Indices: 15593783--15593807 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15593773 AAATTGTCGA
15593783 GGATAATAAAGAT
1 GGATAATAAAGAT
15593796 GGATAATAAAGA
1 GGATAATAAAGA
15593808 AATTGATTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.00, G:0.24, T:0.20
Consensus pattern (13 bp):
GGATAATAAAGAT
Found at i:15595178 original size:18 final size:18
Alignment explanation
Indices: 15595152--15595193 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
15595142 TAGTTTGGCA
*
15595152 GAAAAAATCCAAAAGAAT
1 GAAAGAATCCAAAAGAAT
**
15595170 GAAAGAATCGTAAAGAAT
1 GAAAGAATCCAAAAGAAT
15595188 GAAAGA
1 GAAAGA
15595194 GCATTTGCTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.62, C:0.07, G:0.19, T:0.12
Consensus pattern (18 bp):
GAAAGAATCCAAAAGAAT
Found at i:15597098 original size:19 final size:19
Alignment explanation
Indices: 15597058--15597099 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
15597048 ATAATCCTTG
* *
15597058 ATGCATATGATGTAATGTA
1 ATGCAAATGATGAAATGTA
15597077 ATGCAAATGCATGAAATG-A
1 ATGCAAATG-ATGAAATGTA
15597096 ATGC
1 ATGC
15597100 GAAAAGAGAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.40, C:0.10, G:0.21, T:0.29
Consensus pattern (19 bp):
ATGCAAATGATGAAATGTA
Found at i:15597147 original size:13 final size:13
Alignment explanation
Indices: 15597129--15597154 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15597119 TGTTCAATTT
15597129 TTTACTAGAAAAC
1 TTTACTAGAAAAC
15597142 TTTACTAGAAAAC
1 TTTACTAGAAAAC
15597155 AAATCTCTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (13 bp):
TTTACTAGAAAAC
Found at i:15599144 original size:57 final size:60
Alignment explanation
Indices: 15599010--15599144 Score: 131
Period size: 61 Copynumber: 2.3 Consensus size: 60
15599000 AAATTATTAA
* *
15599010 ATATATATA-AAAA-AATATGAAAATATGTATATACAAAAAAAATGTATGTATATAGGTAT
1 ATATATTTACAAAATAATATGAAAATAAGTATATACAAAAAAAATGTATGTATATA-GTAT
** *
15599069 ATATATATGTACGTAATAATTATGAAAATAAG-ATA-A-AAAATAAAA-GTATGTATAT-GTGT
1 ATATAT-T-TACAAAATAA-TATGAAAATAAGTATATACAAAA-AAAATGTATGTATATAGTAT
15599128 ATATATTTACAAAATAA
1 ATATATTTACAAAATAA
15599145 AAGATGTATA
Statistics
Matches: 63, Mismatches: 7, Indels: 14
0.75 0.08 0.17
Matches are distributed among these distances:
57 8 0.13
58 1 0.02
59 15 0.24
61 16 0.25
62 7 0.11
63 5 0.08
64 11 0.17
ACGTcount: A:0.54, C:0.02, G:0.10, T:0.33
Consensus pattern (60 bp):
ATATATTTACAAAATAATATGAAAATAAGTATATACAAAAAAAATGTATGTATATAGTAT
Found at i:15608260 original size:62 final size:59
Alignment explanation
Indices: 15608188--15608304 Score: 162
Period size: 62 Copynumber: 1.9 Consensus size: 59
15608178 AATGATTATC
* * * *
15608188 TTAATATTAAAATTAATTTAATGTTTATCTTGTAGATAAATATTCTATTATTTTAATAAGAT
1 TTAATATTAAAATTAATTTAATATTTA--TT-AAGATAAATATTATATTAATTTAATAAGAT
*
15608250 TTAATATTAAATTTAATTTAATATTTATTAAGATAAATATTATATTAATTTAATA
1 TTAATATTAAAATTAATTTAATATTTATTAAGATAAATATTATATTAATTTAATA
15608305 TTAAAGTGAT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
59 23 0.46
60 2 0.04
62 25 0.50
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (59 bp):
TTAATATTAAAATTAATTTAATATTTATTAAGATAAATATTATATTAATTTAATAAGAT
Found at i:15614394 original size:12 final size:12
Alignment explanation
Indices: 15614377--15614413 Score: 74
Period size: 12 Copynumber: 3.1 Consensus size: 12
15614367 TTTTAATAAG
15614377 ATTTAATATTAA
1 ATTTAATATTAA
15614389 ATTTAATATTAA
1 ATTTAATATTAA
15614401 ATTTAATATTAA
1 ATTTAATATTAA
15614413 A
1 A
15614414 GTGATTAAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (12 bp):
ATTTAATATTAA
Found at i:15615394 original size:14 final size:15
Alignment explanation
Indices: 15615375--15615407 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
15615365 TTTACTTTGT
15615375 TTTTTATTT-GTTTA
1 TTTTTATTTAGTTTA
15615389 TTTTTATTTAGTTTA
1 TTTTTATTTAGTTTA
15615404 TTTT
1 TTTT
15615408 AATTCCTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.15, C:0.00, G:0.06, T:0.79
Consensus pattern (15 bp):
TTTTTATTTAGTTTA
Found at i:15621373 original size:29 final size:29
Alignment explanation
Indices: 15621323--15621382 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
15621313 TAGTAATAGG
* *
15621323 AAATTCCATTAGGATTTCTTAGGTTAGTT
1 AAATTCCACTAGGATTTCTTAGGTTAATT
*
15621352 AAATTCCACTAGG-TTATTTTAGGTTAATT
1 AAATTCCACTAGGATT-TCTTAGGTTAATT
15621381 AA
1 AA
15621383 TTTAATTAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 2 0.07
29 25 0.93
ACGTcount: A:0.32, C:0.10, G:0.15, T:0.43
Consensus pattern (29 bp):
AAATTCCACTAGGATTTCTTAGGTTAATT
Found at i:15624515 original size:18 final size:18
Alignment explanation
Indices: 15624492--15624541 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
15624482 TCATCTGCTC
15624492 TTCATCTTCCTCATCACA
1 TTCATCTTCCTCATCACA
* *
15624510 TTCATCCTCCTC--CTCA
1 TTCATCTTCCTCATCACA
*
15624526 -TCCTCTTCCTCATCAC
1 TTCATCTTCCTCATCAC
15624542 TTGAACCTGC
Statistics
Matches: 25, Mismatches: 5, Indels: 5
0.71 0.14 0.14
Matches are distributed among these distances:
15 9 0.36
16 3 0.12
17 2 0.08
18 11 0.44
ACGTcount: A:0.16, C:0.46, G:0.00, T:0.38
Consensus pattern (18 bp):
TTCATCTTCCTCATCACA
Found at i:15638439 original size:59 final size:59
Alignment explanation
Indices: 15638337--15638457 Score: 163
Period size: 59 Copynumber: 2.1 Consensus size: 59
15638327 ATTGATTTAT
* *
15638337 TTTTGAATATTTTTGTACAAATTATTTTTATATTGCTTCATTTAATAAAATA-GAAGTTA
1 TTTTGAATATGTTTGTACAAATTATTTTTAAATTGCTTCATTTAATAAAATATG-AGTTA
* * * * *
15638396 TTTTGAATATGTTTGTTCAATTTATTTTTAAATTGTTTTATTTAATAAATTATGAGTTA
1 TTTTGAATATGTTTGTACAAATTATTTTTAAATTGCTTCATTTAATAAAATATGAGTTA
15638455 TTT
1 TTT
15638458 CGATGTGGAC
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
59 53 0.98
60 1 0.02
ACGTcount: A:0.32, C:0.03, G:0.09, T:0.55
Consensus pattern (59 bp):
TTTTGAATATGTTTGTACAAATTATTTTTAAATTGCTTCATTTAATAAAATATGAGTTA
Found at i:15639686 original size:30 final size:30
Alignment explanation
Indices: 15639646--15639706 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
15639636 CAGATTTTAG
*
15639646 GAGCCACATGGGCTGGGCACACGCCCATGT
1 GAGCCACATGGGCTGAGCACACGCCCATGT
* *
15639676 GAGCCTCATGGGCTGAGCACATGCCCATGT
1 GAGCCACATGGGCTGAGCACACGCCCATGT
15639706 G
1 G
15639707 CCAACCCTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.20, C:0.31, G:0.33, T:0.16
Consensus pattern (30 bp):
GAGCCACATGGGCTGAGCACACGCCCATGT
Found at i:15645540 original size:6 final size:6
Alignment explanation
Indices: 15645525--15645578 Score: 81
Period size: 6 Copynumber: 9.0 Consensus size: 6
15645515 AGTTTATTTC
* * *
15645525 TTTTCT TTTTAG TTTTAT TTTTCT TTTTAT TTTTAT TTTTAT TTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
15645573 TTTTAT
1 TTTTAT
15645579 GTTCTTAAAC
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 43 1.00
ACGTcount: A:0.13, C:0.04, G:0.02, T:0.81
Consensus pattern (6 bp):
TTTTAT
Found at i:15645548 original size:18 final size:18
Alignment explanation
Indices: 15645525--15645578 Score: 90
Period size: 18 Copynumber: 3.0 Consensus size: 18
15645515 AGTTTATTTC
*
15645525 TTTTCTTTTTAGTTTTAT
1 TTTTCTTTTTATTTTTAT
15645543 TTTTCTTTTTATTTTTAT
1 TTTTCTTTTTATTTTTAT
*
15645561 TTTTATTTTTATTTTTAT
1 TTTTCTTTTTATTTTTAT
15645579 GTTCTTAAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.13, C:0.04, G:0.02, T:0.81
Consensus pattern (18 bp):
TTTTCTTTTTATTTTTAT
Found at i:15646558 original size:9 final size:9
Alignment explanation
Indices: 15646544--15646568 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
15646534 TTGTTCAGAA
15646544 AAAAAAATC
1 AAAAAAATC
15646553 AAAAAAATC
1 AAAAAAATC
15646562 AAAAAAA
1 AAAAAAA
15646569 AATGTTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.84, C:0.08, G:0.00, T:0.08
Consensus pattern (9 bp):
AAAAAAATC
Found at i:15647432 original size:30 final size:30
Alignment explanation
Indices: 15647392--15647449 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
15647382 TTTCAGGAGC
* *
15647392 CACACGGGCTGGGCACATGCCCATGTGAGA
1 CACACAGGCTGGACACATGCCCATGTGAGA
15647422 CACACAGGCTGGACACATGCCCATGTGA
1 CACACAGGCTGGACACATGCCCATGTGA
15647450 TAGCCAGTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.26, C:0.31, G:0.29, T:0.14
Consensus pattern (30 bp):
CACACAGGCTGGACACATGCCCATGTGAGA
Found at i:15653458 original size:41 final size:41
Alignment explanation
Indices: 15653410--15653487 Score: 111
Period size: 41 Copynumber: 1.9 Consensus size: 41
15653400 CTGTCTAACC
* *
15653410 TAATTGACAAATTCTATTATTTAACTTTTGTTTTACACCCA
1 TAATTGACAAATTCTATTATTCAACTTCTGTTTTACACCCA
* * *
15653451 TAATTGACGAATTTTGTTATTCAACTTCTGTTTTACA
1 TAATTGACAAATTCTATTATTCAACTTCTGTTTTACA
15653488 TGATAAATAC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.29, C:0.15, G:0.08, T:0.47
Consensus pattern (41 bp):
TAATTGACAAATTCTATTATTCAACTTCTGTTTTACACCCA
Found at i:15656954 original size:19 final size:19
Alignment explanation
Indices: 15656930--15656968 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
15656920 TTTAGCTCTA
*
15656930 TTTAATTTATTTTTTAATT
1 TTTAATATATTTTTTAATT
15656949 TTTAATATATTTTTTAATT
1 TTTAATATATTTTTTAATT
15656968 T
1 T
15656969 ATATTATATG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTAATATATTTTTTAATT
Found at i:15656976 original size:19 final size:19
Alignment explanation
Indices: 15656929--15656977 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 19
15656919 CTTTAGCTCT
15656929 ATTTA-ATT-TATTTTTTA
1 ATTTATATTATATTTTTTA
* *
15656946 ATTTTTAATATATTTTTTA
1 ATTTATATTATATTTTTTA
15656965 ATTTATATTATAT
1 ATTTATATTATAT
15656978 GAAAATTAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
17 4 0.15
18 2 0.08
19 20 0.77
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
ATTTATATTATATTTTTTA
Found at i:15664369 original size:58 final size:59
Alignment explanation
Indices: 15664307--15664423 Score: 200
Period size: 58 Copynumber: 2.0 Consensus size: 59
15664297 GTAAGTTTCT
*
15664307 TTATAATTGAATAACAGAAAAAATTTACCAATAATTAGATGACTACC-AAAAAAGAAAG
1 TTATAATTGAATAACAGAAAAAAATTACCAATAATTAGATGACTACCAAAAAAAGAAAG
* *
15664365 TTATAATTGAGTAACAGAAAAAAATTATCAATAATTAGATGACTACCAAAAAAAGAAAG
1 TTATAATTGAATAACAGAAAAAAATTACCAATAATTAGATGACTACCAAAAAAAGAAAG
15664424 AATTTAAAGG
Statistics
Matches: 55, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
58 44 0.80
59 11 0.20
ACGTcount: A:0.56, C:0.09, G:0.11, T:0.24
Consensus pattern (59 bp):
TTATAATTGAATAACAGAAAAAAATTACCAATAATTAGATGACTACCAAAAAAAGAAAG
Found at i:15664371 original size:30 final size:32
Alignment explanation
Indices: 15664336--15664423 Score: 82
Period size: 26 Copynumber: 2.9 Consensus size: 32
15664326 AAAATTTACC
15664336 AATAATTAGATGACTACCAAAAAAGAAAGT-T
1 AATAATTAGATGACTACCAAAAAAGAAAGTAT
* * *
15664367 -ATAATT-GA-G--TAACAGAAAA-AAATTAT
1 AATAATTAGATGACTACCAAAAAAGAAAGTAT
15664393 CAATAATTAGATGACTACCAAAAAAAGAAAG
1 -AATAATTAGATGACTACC-AAAAAAGAAAG
15664424 AATTTAAAGG
Statistics
Matches: 42, Mismatches: 6, Indels: 15
0.67 0.10 0.24
Matches are distributed among these distances:
25 4 0.10
26 9 0.21
28 7 0.17
29 4 0.10
30 7 0.17
32 3 0.07
33 5 0.12
34 3 0.07
ACGTcount: A:0.57, C:0.09, G:0.12, T:0.22
Consensus pattern (32 bp):
AATAATTAGATGACTACCAAAAAAGAAAGTAT
Found at i:15667918 original size:61 final size:61
Alignment explanation
Indices: 15667844--15667974 Score: 147
Period size: 61 Copynumber: 2.1 Consensus size: 61
15667834 ACTTTTAAGA
* * * * * ** *
15667844 GCTTAATGGGAA-TTTCTAAAAATTTTGGAAATCTAATTAGAATTTTTAAAAATTTTGAAAG
1 GCTTAATGAGAATTTTCTAAAAA-TTTAGAAACCTAATTAAAATTATTAAAAAAATTAAAAG
* **
15667905 GCTTAATGAGAATTTTTTAAAAATTTAGAGCCCTAATTAAAATTATTAAAAAAATTAAAAG
1 GCTTAATGAGAATTTTCTAAAAATTTAGAAACCTAATTAAAATTATTAAAAAAATTAAAAG
15667966 GCTTAATGA
1 GCTTAATGA
15667975 CAAATTTCCA
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
61 49 0.84
62 9 0.16
ACGTcount: A:0.44, C:0.06, G:0.13, T:0.37
Consensus pattern (61 bp):
GCTTAATGAGAATTTTCTAAAAATTTAGAAACCTAATTAAAATTATTAAAAAAATTAAAAG
Found at i:15667920 original size:31 final size:31
Alignment explanation
Indices: 15667843--15667930 Score: 108
Period size: 30 Copynumber: 2.8 Consensus size: 31
15667833 AACTTTTAAG
* *
15667843 AGCTTAATGGGAATTTCTAAAAATTTTGGAA
1 AGCTTAATGAGAATTTTTAAAAATTTTGGAA
* *
15667874 ATC-TAATTAGAATTTTTAAAAATTTT-GAA
1 AGCTTAATGAGAATTTTTAAAAATTTTGGAA
15667903 AGGCTTAATGAGAATTTTTTAAAAATTT
1 A-GCTTAATGAGAA-TTTTTAAAAATTT
15667931 AGAGCCCTAA
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
29 4 0.08
30 21 0.44
31 10 0.21
32 13 0.27
ACGTcount: A:0.41, C:0.05, G:0.14, T:0.41
Consensus pattern (31 bp):
AGCTTAATGAGAATTTTTAAAAATTTTGGAA
Found at i:15670321 original size:24 final size:25
Alignment explanation
Indices: 15670294--15670347 Score: 85
Period size: 24 Copynumber: 2.2 Consensus size: 25
15670284 TTTAATTAGC
15670294 AAATATA-TATTTTAAAAA-TTTTAA
1 AAATATATTA-TTTAAAAATTTTTAA
15670318 AAATATATTATTTAAAAATTTTTAA
1 AAATATATTATTTAAAAATTTTTAA
15670343 AAATA
1 AAATA
15670348 AATACGTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
24 15 0.54
25 13 0.46
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (25 bp):
AAATATATTATTTAAAAATTTTTAA
Found at i:15670335 original size:25 final size:24
Alignment explanation
Indices: 15670294--15670347 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 24
15670284 TTTAATTAGC
*
15670294 AAATATATATTTTAAAAATTTTAA
1 AAATATATATTTAAAAAATTTTAA
*
15670318 AAATATATTATTTAAAAATTTTTAA
1 AAATATA-TATTTAAAAAATTTTAA
15670343 AAATA
1 AAATA
15670348 AATACGTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
24 7 0.26
25 20 0.74
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (24 bp):
AAATATATATTTAAAAAATTTTAA
Found at i:15670357 original size:24 final size:24
Alignment explanation
Indices: 15670306--15670358 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
15670296 ATATATATTT
* **
15670306 TAAAAATTTTAAAAATATATTATT
1 TAAAAATTTTAAAAATATAATACG
15670330 TAAAAATTTTTAAAAATA-AATACG
1 TAAAAA-TTTTAAAAATATAATACG
15670354 TAAAA
1 TAAAA
15670359 TTGCATGCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 14 0.56
25 11 0.44
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (24 bp):
TAAAAATTTTAAAAATATAATACG
Found at i:15671065 original size:12 final size:12
Alignment explanation
Indices: 15671048--15671077 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
15671038 AGTGCACTAG
15671048 AAATAAATATTA
1 AAATAAATATTA
15671060 AAATAAATATTA
1 AAATAAATATTA
15671072 AAATAA
1 AAATAA
15671078 TTGTAACAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (12 bp):
AAATAAATATTA
Found at i:15673291 original size:46 final size:46
Alignment explanation
Indices: 15673224--15673405 Score: 289
Period size: 46 Copynumber: 4.0 Consensus size: 46
15673214 NNNNNNNNNC
* * *
15673224 GGTAGCTTTAGCTACACTTATCTGATCCAGTGACAAAGTGATAAGT
1 GGTAGCCTTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
*
15673270 GGTAGCCTCAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GGTAGCCTTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
15673316 GGTAGCCTTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GGTAGCCTTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
15673362 GGTAGCC-TAACTACACTTATCTGATCAAG-G-ATAAGTGATAAGT
1 GGTAGCCTTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
15673405 G
1 G
15673406 ATCATACGTA
Statistics
Matches: 129, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
43 13 0.10
44 1 0.01
45 21 0.16
46 94 0.73
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28
Consensus pattern (46 bp):
GGTAGCCTTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
Found at i:15675929 original size:18 final size:17
Alignment explanation
Indices: 15675897--15675943 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 17
15675887 TTTTTTCAAT
15675897 ATAAAAACAGAAAATAA
1 ATAAAAACAGAAAATAA
*
15675914 ATAAAACACCGAAAATAAA
1 ATAAAA-ACAGAAAAT-AA
*
15675933 AAAAAAACAGA
1 ATAAAAACAGA
15675944 GATGCAATTC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
17 6 0.24
18 12 0.48
19 7 0.28
ACGTcount: A:0.74, C:0.11, G:0.06, T:0.09
Consensus pattern (17 bp):
ATAAAAACAGAAAATAA
Found at i:15678775 original size:38 final size:38
Alignment explanation
Indices: 15678732--15678857 Score: 132
Period size: 38 Copynumber: 3.2 Consensus size: 38
15678722 AATTACTATA
15678732 AGAAATAATAATTTAAATTGAATTCTTTTGCAAAATAT
1 AGAAATAATAATTTAAATTGAATTCTTTTGCAAAATAT
* * * *
15678770 AGAAATAA-AA-CTAAGGTTTATAGCTCTTTTG-AAATTACTAT
1 AGAAATAATAATTTAA-ATTGA-A-TTCTTTTGCAAA--A-TAT
15678811 AAGAAATAATAATTTAAATTGAATTCTTTTGCAAAATAT
1 -AGAAATAATAATTTAAATTGAATTCTTTTGCAAAATAT
15678850 AGAAATAA
1 AGAAATAA
15678858 AACTAAGGTT
Statistics
Matches: 70, Mismatches: 8, Indels: 20
0.71 0.08 0.20
Matches are distributed among these distances:
36 3 0.04
37 5 0.07
38 20 0.29
39 10 0.14
40 2 0.03
41 10 0.14
42 12 0.17
43 5 0.07
44 3 0.04
ACGTcount: A:0.48, C:0.06, G:0.10, T:0.37
Consensus pattern (38 bp):
AGAAATAATAATTTAAATTGAATTCTTTTGCAAAATAT
Found at i:15678803 original size:80 final size:80
Alignment explanation
Indices: 15678709--15678869 Score: 313
Period size: 80 Copynumber: 2.0 Consensus size: 80
15678699 AATAAAAAAG
15678709 ATAGCTCTCTTGAAATTACTATAAGAAATAATAATTTAAATTGAATTCTTTTGCAAAATATAGAA
1 ATAGCTCTCTTGAAATTACTATAAGAAATAATAATTTAAATTGAATTCTTTTGCAAAATATAGAA
15678774 ATAAAACTAAGGTTT
66 ATAAAACTAAGGTTT
*
15678789 ATAGCTCTTTTGAAATTACTATAAGAAATAATAATTTAAATTGAATTCTTTTGCAAAATATAGAA
1 ATAGCTCTCTTGAAATTACTATAAGAAATAATAATTTAAATTGAATTCTTTTGCAAAATATAGAA
15678854 ATAAAACTAAGGTTT
66 ATAAAACTAAGGTTT
15678869 A
1 A
15678870 ATTCATAAAT
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 80 1.00
ACGTcount: A:0.45, C:0.08, G:0.10, T:0.37
Consensus pattern (80 bp):
ATAGCTCTCTTGAAATTACTATAAGAAATAATAATTTAAATTGAATTCTTTTGCAAAATATAGAA
ATAAAACTAAGGTTT
Found at i:15679322 original size:27 final size:27
Alignment explanation
Indices: 15679271--15679323 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
15679261 AAACTTTAAA
* **
15679271 ATAATTTGTTATATGAAATTTTTTTTG
1 ATAATTTGTTATATAAAATAATTTTTG
*
15679298 ATAATTTTTTATATAAAATAATTTTT
1 ATAATTTGTTATATAAAATAATTTTT
15679324 CTTATATGAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (27 bp):
ATAATTTGTTATATAAAATAATTTTTG
Found at i:15690904 original size:25 final size:23
Alignment explanation
Indices: 15690875--15690921 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
15690865 AGCATAAATT
*
15690875 TTATAAAATTATGATATAATTAAAA
1 TTATAAAA-TATAAT-TAATTAAAA
15690900 TTATAAAATATAATTAATTAAA
1 TTATAAAATATAATTAATTAAA
15690922 TAAAAGAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 8 0.38
24 5 0.24
25 8 0.38
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (23 bp):
TTATAAAATATAATTAATTAAAA
Found at i:15694308 original size:50 final size:50
Alignment explanation
Indices: 15694240--15694486 Score: 246
Period size: 50 Copynumber: 4.9 Consensus size: 50
15694230 AAAGTGATTG
* * *
15694240 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCGGAATGAAAGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGAATGA
* * * * * **
15694290 TCGCATGTGTAGTACTATGTCCAAGCTACTATGTGTACC-GAATAGCTTCGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAAT-GAAT-GA
* * * * *
15694341 TCACGTGTGTAGCACTATATGCAGGCTACTACGTGTATCGGATATTAATGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGA-ATGAATGA
* * * * **
15694392 TCATGTGTGTAGTACTATGTGCAGGCTACTACGTGAACTGGAAAGTTTGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGAATGA
* *
15694442 TCACGTGTGTAGTACTATGTGAAGGCTACTACATGTA-CGGAATGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGA
15694487 TAATAGTTAA
Statistics
Matches: 153, Mismatches: 40, Indels: 9
0.76 0.20 0.04
Matches are distributed among these distances:
49 9 0.06
50 70 0.46
51 69 0.45
52 3 0.02
53 2 0.01
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.30
Consensus pattern (50 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGAATGA
Found at i:15694369 original size:51 final size:50
Alignment explanation
Indices: 15694240--15694484 Score: 226
Period size: 51 Copynumber: 4.9 Consensus size: 50
15694230 AAAGTGATTG
* *** *
15694240 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCGGAAT-GAAAGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACC-GAATAGTTTGA
* * * * * *
15694290 TCGCATGTGTAGTACTATGTCCAAGCTACTATGTGTACCGAATAGCTTCGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATAG-TTTGA
* * * * *
15694341 TCACGTGTGTAGCACTATATGCAGGCTACTACGTGTATCGGATA-TTAATGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATAGTT--TGA
* * *
15694392 TCATGTGTGTAGTACTATGTGCAGGCTACTACGTGAACTGGAA-AGTTTGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTAC-CGAATAGTTTGA
* * *
15694442 TCACGTGTGTAGTACTATGTGAAGGCTACTACATGTACGGAAT
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAAT
15694485 GATAATAGTT
Statistics
Matches: 155, Mismatches: 33, Indels: 14
0.77 0.16 0.07
Matches are distributed among these distances:
49 10 0.06
50 70 0.45
51 71 0.46
52 4 0.03
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (50 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATAGTTTGA
Found at i:15694508 original size:101 final size:103
Alignment explanation
Indices: 15694240--15694516 Score: 307
Period size: 101 Copynumber: 2.7 Consensus size: 103
15694230 AAAGTGATTG
* **
15694240 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCGGAATGA-AA-GGTCGCATGTGTAGT
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGGAATGATAATGGTCAAATGTGTAGT
* * *
15694303 ACTATGTCCAAGCTACTATGTGTACCGAATAGCTTCGA
66 ACTATGTGCAAGCTACTACGTGAACCGAATAGCTTCGA
* * * * **
15694341 TCACGTGTGTAGCACTATATGCAGGCTACTACGTGTATCGG-AT-ATTAATGGTCATGTGTGTAG
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGGAATGA-TAATGGTCAAATGTGTAG
* * *
15694404 TACTATGTGCAGGCTACTACGTGAACTGGAA-AG-TTTGA
65 TACTATGTGCAAGCTACTACGTGAAC-CGAATAGCTTCGA
* * * * *
15694442 TCACGTGTGTAGTACTATGTGAAGGCTACTACATGTA-CGGAATGATAATAGTTAAATGAGTGGT
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGGAATGATAATGGTCAAATGTGTAGT
15694506 ACTATGTGCAA
66 ACTATGTGCAA
15694517 ACCACCGAAT
Statistics
Matches: 146, Mismatches: 24, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
99 1 0.01
100 5 0.03
101 101 0.69
102 36 0.25
103 3 0.02
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (103 bp):
TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGGAATGATAATGGTCAAATGTGTAGT
ACTATGTGCAAGCTACTACGTGAACCGAATAGCTTCGA
Found at i:15696710 original size:21 final size:21
Alignment explanation
Indices: 15696671--15696710 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
15696661 TTTCTAAATC
*
15696671 GAGTTGAGTTATATTAAATAT
1 GAGTTGAGTTATATCAAATAT
15696692 GAGTTGAGTTGA-ATCAAAT
1 GAGTTGAGTT-ATATCAAAT
15696711 CCAAACTCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 16 0.94
22 1 0.06
ACGTcount: A:0.38, C:0.03, G:0.23, T:0.38
Consensus pattern (21 bp):
GAGTTGAGTTATATCAAATAT
Found at i:15699437 original size:109 final size:109
Alignment explanation
Indices: 15699246--15699519 Score: 548
Period size: 109 Copynumber: 2.5 Consensus size: 109
15699236 ATAGGTGTCC
15699246 TAGATGCTTTCAACCATACTGAAATAGGTACTTCCAAAGACATGAAAGTATTTCACAGTTGGTTT
1 TAGATGCTTTCAACCATACTGAAATAGGTACTTCCAAAGACATGAAAGTATTTCACAGTTGGTTT
15699311 TTTTCCCTTCTACAACTCATAGAGGTGACATGAGTCTTTGGCCT
66 TTTTCCCTTCTACAACTCATAGAGGTGACATGAGTCTTTGGCCT
15699355 TAGATGCTTTCAACCATACTGAAATAGGTACTTCCAAAGACATGAAAGTATTTCACAGTTGGTTT
1 TAGATGCTTTCAACCATACTGAAATAGGTACTTCCAAAGACATGAAAGTATTTCACAGTTGGTTT
15699420 TTTTCCCTTCTACAACTCATAGAGGTGACATGAGTCTTTGGCCT
66 TTTTCCCTTCTACAACTCATAGAGGTGACATGAGTCTTTGGCCT
15699464 TAGATGCTTTCAACCATACTGAAATAGGTACTTCCAAAGACATGAAAGTATTTCAC
1 TAGATGCTTTCAACCATACTGAAATAGGTACTTCCAAAGACATGAAAGTATTTCAC
15699520 CTTATTGATC
Statistics
Matches: 165, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
109 165 1.00
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (109 bp):
TAGATGCTTTCAACCATACTGAAATAGGTACTTCCAAAGACATGAAAGTATTTCACAGTTGGTTT
TTTTCCCTTCTACAACTCATAGAGGTGACATGAGTCTTTGGCCT
Found at i:15703351 original size:27 final size:28
Alignment explanation
Indices: 15703321--15703377 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
15703311 CAGGAATGAT
15703321 TATGCTTT-TTTCCAAAATGGAAAAATG
1 TATGCTTTGTTTCCAAAATGGAAAAATG
15703348 TATGCTTTGTTTCCAAAATGGAAAAATG
1 TATGCTTTGTTTCCAAAATGGAAAAATG
15703376 TA
1 TA
15703378 ATCATTTGGA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 8 0.28
28 21 0.72
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.37
Consensus pattern (28 bp):
TATGCTTTGTTTCCAAAATGGAAAAATG
Found at i:15703417 original size:6 final size:6
Alignment explanation
Indices: 15703406--15703457 Score: 86
Period size: 6 Copynumber: 8.7 Consensus size: 6
15703396 TAGGTTTCCA
* *
15703406 AAATGG AAATGG AAATAG AAATAG AAATAG AAATAG AAATAG AAATAG
1 AAATAG AAATAG AAATAG AAATAG AAATAG AAATAG AAATAG AAATAG
15703454 AAAT
1 AAAT
15703458 GATTCATTTG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 45 1.00
ACGTcount: A:0.63, C:0.00, G:0.19, T:0.17
Consensus pattern (6 bp):
AAATAG
Found at i:15728822 original size:19 final size:21
Alignment explanation
Indices: 15728784--15728822 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
15728774 CTGGATAAAA
15728784 GTATCAATACTATGGACCAAT
1 GTATCAATACTATGGACCAAT
*
15728805 GTATCGATACT-T-GACCAA
1 GTATCAATACTATGGACCAA
15728823 ATGAACAGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 1 0.06
21 10 0.59
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.28
Consensus pattern (21 bp):
GTATCAATACTATGGACCAAT
Found at i:15735015 original size:26 final size:26
Alignment explanation
Indices: 15734978--15735029 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
15734968 GAAGCAAGCT
15734978 AATCACCAGTGCTTAAAATTGATTAA
1 AATCACCAGTGCTTAAAATTGATTAA
*
15735004 AATCACCCGTGCTTAAAATTGATTAA
1 AATCACCAGTGCTTAAAATTGATTAA
15735030 GTTTATAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.40, C:0.17, G:0.12, T:0.31
Consensus pattern (26 bp):
AATCACCAGTGCTTAAAATTGATTAA
Found at i:15750567 original size:25 final size:25
Alignment explanation
Indices: 15750523--15750571 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
15750513 GTCGCCGCAA
* *
15750523 GCCACACACTTTATCCACCCAAACC
1 GCCACACACCTTAGCCACCCAAACC
*
15750548 GCCACACACCTTAGCTACCCAAAC
1 GCCACACACCTTAGCCACCCAAAC
15750572 TGCCGCAAGC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.33, C:0.47, G:0.06, T:0.14
Consensus pattern (25 bp):
GCCACACACCTTAGCCACCCAAACC
Found at i:15753237 original size:52 final size:52
Alignment explanation
Indices: 15753137--15753279 Score: 243
Period size: 52 Copynumber: 2.8 Consensus size: 52
15753127 TGAACTTAGA
* *
15753137 AATTGTGTATAAGGTAACCCATAAAAAA-TAATTTCTTAGAAAAATTAAATT
1 AATTGTGTATAAGTTAACCCATAAAAAATTAATTTCTTAGAAAAATTAAAGT
*
15753188 AATTGTGTATAAGTTAACCCATAAAAAATTGATTTCTTAGAAAAATTAAAGT
1 AATTGTGTATAAGTTAACCCATAAAAAATTAATTTCTTAGAAAAATTAAAGT
*
15753240 AACTGTGTATAAGTTAACCCATAAAAAATTAATTTCTTAG
1 AATTGTGTATAAGTTAACCCATAAAAAATTAATTTCTTAG
15753280 GGTTTAGTGT
Statistics
Matches: 86, Mismatches: 5, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
51 27 0.31
52 59 0.69
ACGTcount: A:0.46, C:0.09, G:0.10, T:0.34
Consensus pattern (52 bp):
AATTGTGTATAAGTTAACCCATAAAAAATTAATTTCTTAGAAAAATTAAAGT
Found at i:15754943 original size:8 final size:8
Alignment explanation
Indices: 15754930--15754955 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
15754920 TGTTTTCCTA
15754930 TCCCATTT
1 TCCCATTT
15754938 TCCCATTT
1 TCCCATTT
15754946 TCCCATTT
1 TCCCATTT
15754954 TC
1 TC
15754956 AAGTGAGTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.12, C:0.38, G:0.00, T:0.50
Consensus pattern (8 bp):
TCCCATTT
Found at i:15756461 original size:14 final size:14
Alignment explanation
Indices: 15756416--15756462 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 14
15756406 TTTTAGATTT
15756416 TTAAATTAAATATTA
1 TTAAATTAAATA-TA
15756431 TTAACAATTTAAA-ATA
1 TT-A-AA-TTAAATATA
15756447 TTAAATTAAATATA
1 TTAAATTAAATATA
15756461 TT
1 TT
15756463 TTAATATAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
13 5 0.18
14 7 0.25
15 3 0.11
16 5 0.18
17 3 0.11
18 5 0.18
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (14 bp):
TTAAATTAAATATA
Found at i:15757736 original size:40 final size:40
Alignment explanation
Indices: 15757692--15758107 Score: 498
Period size: 40 Copynumber: 10.4 Consensus size: 40
15757682 AATTATTGAA
* * * *
15757692 TGATTACACTTATGTGCCCATGTTTGTACTTCGGTACTCC
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCC
* * *
15757732 TGATTGCACTTATGTGCCCCTATTTGTACTTCAGTACCCC
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCC
15757772 TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCC
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCC
* *
15757812 TGATTGCACTTGCGTGCCCCTGTTTGTACTTTGGTACCCC
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCC
* *
15757852 TGATTGCACCTACGTGCCCTTGTTTGTACTTCGGTACCCC
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCC
* *
15757892 TAATTGCACTTACGTGCCCCTGTTTGTACTTTGGTACCCC
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCC
* * * *
15757932 TAATTGCACTTACGTGCCCTTATTT-TACTTCGGTACCAC
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCC
* * **
15757971 TGATTGCACTTACATGTCCCTGTTTGTACTTCGGTACTGC
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCC
* * *
15758011 TGATTACACTTACGTGCCCCTGTTTGTACTTTGGCACCCC
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCC
* ** * * *
15758051 TAAAAGCACATCTA--TGCCCATGTTTGCACTTCGGTGCCCC
1 TGATTGCAC-T-TACGTGCCCCTGTTTGTACTTCGGTACCCC
*
15758091 TGATCGCACATT-CGTGC
1 TGATTGCAC-TTACGTGC
15758108 TTCTGATTGC
Statistics
Matches: 323, Mismatches: 48, Indels: 10
0.85 0.13 0.03
Matches are distributed among these distances:
39 33 0.10
40 287 0.89
41 1 0.00
42 2 0.01
ACGTcount: A:0.16, C:0.30, G:0.18, T:0.36
Consensus pattern (40 bp):
TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCC
Found at i:15757771 original size:20 final size:20
Alignment explanation
Indices: 15757748--15757968 Score: 73
Period size: 20 Copynumber: 11.1 Consensus size: 20
15757738 CACTTATGTG
15757748 CCCCTATTTGTACTTCAGTA
1 CCCCTATTTGTACTTCAGTA
* *
15757768 CCCCTGA-TTGCACTT-ACGTG
1 CCCCT-ATTTGTACTTCA-GTA
* *
15757788 CCCCTGTTTGTACTTCGGTA
1 CCCCTATTTGTACTTCAGTA
* *
15757808 CCCCTGA-TTGCACTTGC-GTG
1 CCCCT-ATTTGTACTT-CAGTA
* **
15757828 CCCCTGTTTGTACTTTGGTA
1 CCCCTATTTGTACTTCAGTA
* * *
15757848 CCCCTGA-TTGCACCT-ACGTG
1 CCCCT-ATTTGTACTTCA-GTA
* * *
15757868 CCCTTGTTTGTACTTCGGTA
1 CCCCTATTTGTACTTCAGTA
* * *
15757888 CCCCTAATTGCACTT-ACGTG
1 CCCCTATTTGTACTTCA-GTA
* **
15757908 CCCCTGTTTGTACTTTGGTA
1 CCCCTATTTGTACTTCAGTA
* * *
15757928 CCCCTAATTGCACTT-ACGTG
1 CCCCTATTTGTACTTCA-GTA
* *
15757948 CCCTTATTT-TACTTCGGTA
1 CCCCTATTTGTACTTCAGTA
15757967 CC
1 CC
15757969 ACTGATTGCA
Statistics
Matches: 140, Mismatches: 45, Indels: 33
0.64 0.21 0.15
Matches are distributed among these distances:
19 9 0.06
20 129 0.92
21 2 0.01
ACGTcount: A:0.14, C:0.32, G:0.18, T:0.37
Consensus pattern (20 bp):
CCCCTATTTGTACTTCAGTA
Found at i:15758099 original size:20 final size:20
Alignment explanation
Indices: 15758076--15758131 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
15758066 GCCCATGTTT
15758076 GCACTTCGGTGCCCCTGATC
1 GCACTTCGGTGCCCCTGATC
** *
15758096 GCACATTC-GTGCTTCTGATT
1 GCAC-TTCGGTGCCCCTGATC
15758116 GCACTT-GGTGCCCCTG
1 GCACTTCGGTGCCCCTG
15758132 TTATGCATCT
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
19 9 0.31
20 17 0.59
21 3 0.10
ACGTcount: A:0.11, C:0.34, G:0.25, T:0.30
Consensus pattern (20 bp):
GCACTTCGGTGCCCCTGATC
Found at i:15775660 original size:23 final size:23
Alignment explanation
Indices: 15775618--15775661 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
15775608 TATGCGTTTG
*
15775618 TATTTTTTAATAAAAGTTTAATA
1 TATTTTTTAATAAAAATTTAATA
15775641 TATTTTTTAA-AATAAATTTAA
1 TATTTTTTAATAA-AAATTTAA
15775662 AAATTTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (23 bp):
TATTTTTTAATAAAAATTTAATA
Found at i:15776965 original size:16 final size:16
Alignment explanation
Indices: 15776944--15776981 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
15776934 TTTGGTTCGC
15776944 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
15776960 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
*
15776976 CGTAAT
1 TGTAAT
15776982 AGTAATTCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.37, C:0.03, G:0.34, T:0.26
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:15777335 original size:120 final size:120
Alignment explanation
Indices: 15777194--15777672 Score: 881
Period size: 120 Copynumber: 4.0 Consensus size: 120
15777184 TTAATCATAT
*
15777194 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
*
15777259 AAATATTCTTATATGAATTTACTAAAATCATAATATGTAATACTATAAAATATAA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
15777314 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
* *
15777379 AAATATTCTTATATGAATTTACTAAAATCTTAATGTATAATACTATAAAATATAA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
15777434 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
*
15777499 AAATATTCTTGTATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
*
15777554 TTTAAAATAATTATTATTAAACATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATA-T
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
*
15777618 AATTATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAA-ATAA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
15777672 T
1 T
15777673 ATTTTTATTT
Statistics
Matches: 349, Mismatches: 10, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
118 5 0.01
119 49 0.14
120 295 0.85
ACGTcount: A:0.51, C:0.05, G:0.01, T:0.43
Consensus pattern (120 bp):
TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
Found at i:15778393 original size:30 final size:30
Alignment explanation
Indices: 15778359--15778417 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
15778349 CTCAGTCTTA
*
15778359 AGCCAAGATAAAGTAGGCAATACCTGAATT
1 AGCCAAGATAAAGTAGGCAATAACTGAATT
15778389 AGCCAAGATAAAGTAGGCAATAACTGAAT
1 AGCCAAGATAAAGTAGGCAATAACTGAAT
15778418 AGTGATGAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.46, C:0.15, G:0.20, T:0.19
Consensus pattern (30 bp):
AGCCAAGATAAAGTAGGCAATAACTGAATT
Found at i:15783612 original size:50 final size:49
Alignment explanation
Indices: 15783525--15783661 Score: 152
Period size: 50 Copynumber: 2.7 Consensus size: 49
15783515 GGTAAAGAGA
* * *
15783525 TCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACC-ATGATGAGAGGTC
1 TCCCA-GTAAGACCATGTCTGGGACATGGCATTGGCACCAAT-ATGAGA--AC
* *
15783577 TTCC-GTAAGACCATGTCTGGGACATGGCATGGGCACCAATATGAGAAC
1 TCCCAGTAAGACCATGTCTGGGACATGGCATTGGCACCAATATGAGAAC
* *
15783625 TCCCATGTAAGACCATATCTGGGATATGGCATTGGCA
1 TCCCA-GTAAGACCATGTCTGGGACATGGCATTGGCA
15783662 GTACAGGAAA
Statistics
Matches: 73, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
48 4 0.05
50 64 0.88
51 2 0.03
52 3 0.04
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (49 bp):
TCCCAGTAAGACCATGTCTGGGACATGGCATTGGCACCAATATGAGAAC
Found at i:15789081 original size:37 final size:37
Alignment explanation
Indices: 15789040--15789120 Score: 117
Period size: 37 Copynumber: 2.2 Consensus size: 37
15789030 ATCTAATCGA
* * *
15789040 AACACGCTAAACTCTTATGAGAGCTAATCCAACCGAT
1 AACACGCTAAACGCTCATAAGAGCTAATCCAACCGAT
* *
15789077 AACACGCTAAACGCTCATAAGAGTTAATCCAATCGAT
1 AACACGCTAAACGCTCATAAGAGCTAATCCAACCGAT
15789114 AACACGC
1 AACACGC
15789121 CTCGGCACTA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.40, C:0.27, G:0.14, T:0.20
Consensus pattern (37 bp):
AACACGCTAAACGCTCATAAGAGCTAATCCAACCGAT
Found at i:15803038 original size:42 final size:42
Alignment explanation
Indices: 15802959--15803177 Score: 150
Period size: 48 Copynumber: 4.8 Consensus size: 42
15802949 TGGAAATATT
* * * * *
15802959 ATATCGATCCCAATAGCCCAGCTATGGTCTTACACAAAGTCTC
1 ATATCGATGCC-ATATCCCAGATATGGTCTTATACAAAATCTC
* *
15803002 ATATCGATGCCATATCCCAGATATAGCCTTATACAAAATCTC
1 ATATCGATGCCATATCCCAGATATGGTCTTATACAAAATCTC
***
15803044 ATACAATGCCGATGCCATATCCCAGATATGGTCTTATACGGGATCTC
1 AT---AT--CGATGCCATATCCCAGATATGGTCTTATACAAAATCTC
* *
15803091 AAATCGATGCTGATGCCATATCCCAGATATGGTCTTATACGAGATCTC
1 --AT--AT-C-GATGCCATATCCCAGATATGGTCTTATACAAAATCTC
* *
15803139 AAATCGACGCCGATGCCATATCCCAGGTATGGTCTTATA
1 --AT--A--TCGATGCCATATCCCAGATATGGTCTTATA
15803178 TGGGATTCAA
Statistics
Matches: 149, Mismatches: 17, Indels: 15
0.82 0.09 0.08
Matches are distributed among these distances:
42 27 0.18
43 10 0.07
45 2 0.01
47 34 0.23
48 73 0.49
49 3 0.02
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.27
Consensus pattern (42 bp):
ATATCGATGCCATATCCCAGATATGGTCTTATACAAAATCTC
Found at i:15803119 original size:48 final size:48
Alignment explanation
Indices: 15803006--15803190 Score: 248
Period size: 48 Copynumber: 3.9 Consensus size: 48
15802996 AGTCTCATAT
* * * * * *
15803006 CGATGCCATATCCCAGATATAGCCTTATACAAAATCTCATA-CAATGC
1 CGATGCCATATCCCAGATATGGTCTTATACGAGATCTCAAATCGATGC
*
15803053 CGATGCCATATCCCAGATATGGTCTTATACGGGATCTCAAATCGATGC
1 CGATGCCATATCCCAGATATGGTCTTATACGAGATCTCAAATCGATGC
* *
15803101 TGATGCCATATCCCAGATATGGTCTTATACGAGATCTCAAATCGACGC
1 CGATGCCATATCCCAGATATGGTCTTATACGAGATCTCAAATCGATGC
* * *
15803149 CGATGCCATATCCCAGGTATGGTCTTATATGGGAT-TCAAATC
1 CGATGCCATATCCCAGATATGGTCTTATACGAGATCTCAAATC
15803191 AATTCGGTAA
Statistics
Matches: 123, Mismatches: 14, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
47 42 0.34
48 81 0.66
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.28
Consensus pattern (48 bp):
CGATGCCATATCCCAGATATGGTCTTATACGAGATCTCAAATCGATGC
Found at i:15803138 original size:95 final size:95
Alignment explanation
Indices: 15803007--15803190 Score: 271
Period size: 95 Copynumber: 1.9 Consensus size: 95
15802997 GTCTCATATC
* *
15803007 GATGCCATATCCCAGATATAGCCTTATACAAAATCTCATA-CAATGCCGATGCCATATCCCAGAT
1 GATGCCATATCCCAGATATAGCCTTATACAAAATCTCAAATCAACGCCGATGCCATATCCCAGAT
15803071 ATGGTCTTATACGGGATCTCAAATCGATGCT
66 ATGGTCTTATACGGGAT-TCAAATCGATGCT
* * * * * *
15803102 GATGCCATATCCCAGATATGGTCTTATACGAGATCTCAAATCGACGCCGATGCCATATCCCAGGT
1 GATGCCATATCCCAGATATAGCCTTATACAAAATCTCAAATCAACGCCGATGCCATATCCCAGAT
*
15803167 ATGGTCTTATATGGGATTCAAATC
66 ATGGTCTTATACGGGATTCAAATC
15803191 AATTCGGTAA
Statistics
Matches: 79, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
95 42 0.53
96 37 0.47
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (95 bp):
GATGCCATATCCCAGATATAGCCTTATACAAAATCTCAAATCAACGCCGATGCCATATCCCAGAT
ATGGTCTTATACGGGATTCAAATCGATGCT
Found at i:15803219 original size:30 final size:30
Alignment explanation
Indices: 15803185--15803279 Score: 100
Period size: 30 Copynumber: 3.1 Consensus size: 30
15803175 ATATGGGATT
*
15803185 CAAATCAATTCGGTAATATATATACATATA
1 CAAATCAATTCGGCAATATATATACATATA
* *
15803215 CAAATCAATTCGGCAATGTATATATCTACATA
1 CAAATCAATTCGGCAATATATATA-C-ATATA
* * * *
15803247 TAAATCAATTTGACAATATATAAAACATATA
1 CAAATCAATTCGGCAATATAT-ATACATATA
15803278 CA
1 CA
15803280 TTTTAATTCA
Statistics
Matches: 52, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
30 22 0.42
31 6 0.12
32 22 0.42
33 2 0.04
ACGTcount: A:0.47, C:0.15, G:0.06, T:0.32
Consensus pattern (30 bp):
CAAATCAATTCGGCAATATATATACATATA
Found at i:15810499 original size:20 final size:20
Alignment explanation
Indices: 15810474--15810512 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
15810464 TGGCACACAG
*
15810474 CTTGGCACACGGGCTTGTGA
1 CTTGGCACACGGGCATGTGA
15810494 CTTGGCACACGGGCATGTG
1 CTTGGCACACGGGCATGTG
15810513 CCCCCTACAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.15, C:0.26, G:0.36, T:0.23
Consensus pattern (20 bp):
CTTGGCACACGGGCATGTGA
Found at i:15817127 original size:18 final size:18
Alignment explanation
Indices: 15817101--15817140 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
15817091 AGGATTGCAA
* * *
15817101 ATTTTCATTTTCATTTTT
1 ATTTCCATTTCCATTTCT
15817119 ATTTCCATTTCCATTTCT
1 ATTTCCATTTCCATTTCT
15817137 ATTT
1 ATTT
15817141 TTGAAAACCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.17, C:0.17, G:0.00, T:0.65
Consensus pattern (18 bp):
ATTTCCATTTCCATTTCT
Found at i:15820509 original size:19 final size:19
Alignment explanation
Indices: 15820487--15820575 Score: 70
Period size: 19 Copynumber: 4.7 Consensus size: 19
15820477 CTGGCACATG
**
15820487 AAGTGCATCCTAGCGTACA
1 AAGTGCATCCTAGCACACA
** *
15820506 AAGTGCATTTTAGCACACG
1 AAGTGCATCCTAGCACACA
*
15820525 AAGTGCATCCTATCACACA
1 AAGTGCATCCTAGCACACA
* * * * *
15820544 AAATACATCCCAACACACG
1 AAGTGCATCCTAGCACACA
*
15820563 AAGTGTATCCTAG
1 AAGTGCATCCTAG
15820576 TGTATAAGCG
Statistics
Matches: 51, Mismatches: 19, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
19 51 1.00
ACGTcount: A:0.36, C:0.27, G:0.16, T:0.21
Consensus pattern (19 bp):
AAGTGCATCCTAGCACACA
Found at i:15830916 original size:20 final size:20
Alignment explanation
Indices: 15830878--15830929 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
15830868 TGGTAAAGTC
* *
15830878 AATATTGATAGATCCTTAGA
1 AATATTGGTAAATCCTTAGA
*
15830898 AATATTGGTAAATCGTTAGA
1 AATATTGGTAAATCCTTAGA
* *
15830918 TATTTTGGTAAA
1 AATATTGGTAAA
15830930 AGCTTTTTCT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.38, C:0.06, G:0.17, T:0.38
Consensus pattern (20 bp):
AATATTGGTAAATCCTTAGA
Found at i:15839255 original size:183 final size:183
Alignment explanation
Indices: 15838947--15839315 Score: 738
Period size: 183 Copynumber: 2.0 Consensus size: 183
15838937 TATTTCAAAA
15838947 TCTGAAGTGTTAGTACGAGCCAATTGGAGAAATATTTTGTAGAATTTAAACCTGAAGTTTGTAGC
1 TCTGAAGTGTTAGTACGAGCCAATTGGAGAAATATTTTGTAGAATTTAAACCTGAAGTTTGTAGC
15839012 AAGTTTCCTTTGGTTGCATTGTTGATCAATAAGCACTCCCACAATACTTAATGTGGCACTTTGAT
66 AAGTTTCCTTTGGTTGCATTGTTGATCAATAAGCACTCCCACAATACTTAATGTGGCACTTTGAT
15839077 TTCATTTTGCTTCTTTTTTTTTTTTTTTTAAATTTCCATGCTTTAGGATATTG
131 TTCATTTTGCTTCTTTTTTTTTTTTTTTTAAATTTCCATGCTTTAGGATATTG
15839130 TCTGAAGTGTTAGTACGAGCCAATTGGAGAAATATTTTGTAGAATTTAAACCTGAAGTTTGTAGC
1 TCTGAAGTGTTAGTACGAGCCAATTGGAGAAATATTTTGTAGAATTTAAACCTGAAGTTTGTAGC
15839195 AAGTTTCCTTTGGTTGCATTGTTGATCAATAAGCACTCCCACAATACTTAATGTGGCACTTTGAT
66 AAGTTTCCTTTGGTTGCATTGTTGATCAATAAGCACTCCCACAATACTTAATGTGGCACTTTGAT
15839260 TTCATTTTGCTTCTTTTTTTTTTTTTTTTAAATTTCCATGCTTTAGGATATTG
131 TTCATTTTGCTTCTTTTTTTTTTTTTTTTAAATTTCCATGCTTTAGGATATTG
15839313 TCT
1 TCT
15839316 TCTACCAGTA
Statistics
Matches: 186, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
183 186 1.00
ACGTcount: A:0.25, C:0.14, G:0.17, T:0.44
Consensus pattern (183 bp):
TCTGAAGTGTTAGTACGAGCCAATTGGAGAAATATTTTGTAGAATTTAAACCTGAAGTTTGTAGC
AAGTTTCCTTTGGTTGCATTGTTGATCAATAAGCACTCCCACAATACTTAATGTGGCACTTTGAT
TTCATTTTGCTTCTTTTTTTTTTTTTTTTAAATTTCCATGCTTTAGGATATTG
Found at i:15843159 original size:16 final size:16
Alignment explanation
Indices: 15843138--15843176 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
15843128 ATCCCTAAAA
*
15843138 TCTAAATCCTTACCAT
1 TCTAAATCCCTACCAT
*
15843154 TCTAAATCCCTACGAT
1 TCTAAATCCCTACCAT
15843170 T-TAAATC
1 TCTAAATC
15843177 AAACCCCCCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 6 0.29
16 15 0.71
ACGTcount: A:0.33, C:0.28, G:0.03, T:0.36
Consensus pattern (16 bp):
TCTAAATCCCTACCAT
Found at i:15863522 original size:45 final size:45
Alignment explanation
Indices: 15863465--15863704 Score: 284
Period size: 45 Copynumber: 5.4 Consensus size: 45
15863455 TTATAGTGGA
* * * * * *
15863465 AACGTGTAAGACCACAGCCGAAAGGTGTTATAGCATCATGATTTT
1 AACGAGTAAGACCATAGCTGAAAGATGTTATGGCATCACGATTTT
* ** * ** *
15863510 AACGATTAAGACCATAGCTGAAAGACATTATGGCAGCATAATTTA
1 AACGAGTAAGACCATAGCTGAAAGATGTTATGGCATCACGATTTT
*
15863555 AACGAGTAAGACCATAGCTGAAAGATGTTGTGGCATCACGATTTT
1 AACGAGTAAGACCATAGCTGAAAGATGTTATGGCATCACGATTTT
* *
15863600 AAC-AGTAAGACCATAGCTGAAAGATGTTATTGTATCACGATTTT
1 AACGAGTAAGACCATAGCTGAAAGATGTTATGGCATCACGATTTT
* * ** *
15863644 AACAAGTAAGACCATAGCTAAAAGACATTATGGCATCACGATTCT
1 AACGAGTAAGACCATAGCTGAAAGATGTTATGGCATCACGATTTT
15863689 AACGAGTAAGACCATA
1 AACGAGTAAGACCATA
15863705 TCTAAAAGGC
Statistics
Matches: 165, Mismatches: 29, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
44 41 0.25
45 124 0.75
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.25
Consensus pattern (45 bp):
AACGAGTAAGACCATAGCTGAAAGATGTTATGGCATCACGATTTT
Found at i:15863543 original size:90 final size:89
Alignment explanation
Indices: 15863433--15863623 Score: 229
Period size: 90 Copynumber: 2.1 Consensus size: 89
15863423 GAATAAAACT
* ** * * *
15863433 ATAGTTGAAAGAAACTATGGCATTATAGTGGAAACGTGTAAGACCACAGCCGAAAGGTGTTATAG
1 ATAGCTGAAAGAAACTATGGCAGCATAATGGAAACGAGTAAGACCACAGCCGAAAGATGTTATAG
* *
15863498 CATCATGATTTTAACGATTAAGACC
66 CATCACGATTTTAAC-AGTAAGACC
* * ** * * * *
15863523 ATAGCTGAAAGACATTATGGCAGCATAATTTAAACGAGTAAGACCATAGCTGAAAGATGTTGTGG
1 ATAGCTGAAAGAAACTATGGCAGCATAATGGAAACGAGTAAGACCACAGCCGAAAGATGTTATAG
15863588 CATCACGATTTTAACAGTAAGACC
66 CATCACGATTTTAACAGTAAGACC
15863612 ATAGCTGAAAGA
1 ATAGCTGAAAGA
15863624 TGTTATTGTA
Statistics
Matches: 85, Mismatches: 16, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
89 20 0.24
90 65 0.76
ACGTcount: A:0.39, C:0.15, G:0.22, T:0.25
Consensus pattern (89 bp):
ATAGCTGAAAGAAACTATGGCAGCATAATGGAAACGAGTAAGACCACAGCCGAAAGATGTTATAG
CATCACGATTTTAACAGTAAGACC
Found at i:15863658 original size:89 final size:90
Alignment explanation
Indices: 15863470--15863704 Score: 283
Period size: 89 Copynumber: 2.6 Consensus size: 90
15863460 GTGGAAACGT
* * * * * *
15863470 GTAAGACCACAGCCGAAAGGTGTTATAGCATCATGATTTTAACGATTAAGACCATAGCTGAAAGA
1 GTAAGACCATAGCTGAAAGATGTTATGGCATCACGATTTTAACGAGTAAGACCATAGCTGAAAGA
* *
15863535 CATTATGGCAGCATAATTTAAACGA
66 CATTATGGCAGCACAATTTAAACAA
*
15863560 GTAAGACCATAGCTGAAAGATGTTGTGGCATCACGATTTTAAC-AGTAAGACCATAGCTGAAAGA
1 GTAAGACCATAGCTGAAAGATGTTATGGCATCACGATTTTAACGAGTAAGACCATAGCTGAAAGA
** * * * * *
15863624 TGTTATTGTATCACGATTTTAACAA
66 CATTATGGCAGCACAATTTAAACAA
* ** *
15863649 GTAAGACCATAGCTAAAAGACATTATGGCATCACGATTCTAACGAGTAAGACCATA
1 GTAAGACCATAGCTGAAAGATGTTATGGCATCACGATTTTAACGAGTAAGACCATA
15863705 TCTAAAAGGC
Statistics
Matches: 123, Mismatches: 21, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
89 74 0.60
90 49 0.40
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.26
Consensus pattern (90 bp):
GTAAGACCATAGCTGAAAGATGTTATGGCATCACGATTTTAACGAGTAAGACCATAGCTGAAAGA
CATTATGGCAGCACAATTTAAACAA
Found at i:15863725 original size:134 final size:134
Alignment explanation
Indices: 15863470--15863726 Score: 327
Period size: 134 Copynumber: 1.9 Consensus size: 134
15863460 GTGGAAACGT
* * * * *
15863470 GTAAGACCACAGCCGAAAGGTGTTATAGCATCATGATTTTAACGATTAAGACCATAGCTGAAAGA
1 GTAAGACCACAGCCGAAAGATGTTATAGCATCACGATTTTAACAAGTAAGACCATAGCTAAAAGA
* * * * * *
15863535 CATTATGGCAGCATAATTTAAACGAGTAAGACCATAGCTGAAAGATGTTGTGGCATCACGATTTT
66 CATTATGGCAGCACAATTTAAACGAGTAAGACCATAGCTAAAAGACGCTATAGCATCACGATTTT
15863600 AACA
131 AACA
* * * *
15863604 GTAAGACCATAGCTGAAAGATGTTATTGTATCACGATTTTAACAAGTAAGACCATAGCTAAAAGA
1 GTAAGACCACAGCCGAAAGATGTTATAGCATCACGATTTTAACAAGTAAGACCATAGCTAAAAGA
* * * *
15863669 CATTATGGCATCACGATTCT-AACGAGTAAGACCATATCTAAAAGGCGCTATAGCATCA
66 CATTATGGCAGCACAATT-TAAACGAGTAAGACCATAGCTAAAAGACGCTATAGCATCA
15863727 TAAATCAGAC
Statistics
Matches: 103, Mismatches: 19, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
134 102 0.99
135 1 0.01
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.25
Consensus pattern (134 bp):
GTAAGACCACAGCCGAAAGATGTTATAGCATCACGATTTTAACAAGTAAGACCATAGCTAAAAGA
CATTATGGCAGCACAATTTAAACGAGTAAGACCATAGCTAAAAGACGCTATAGCATCACGATTTT
AACA
Found at i:15863770 original size:45 final size:45
Alignment explanation
Indices: 15863650--15863770 Score: 120
Period size: 45 Copynumber: 2.7 Consensus size: 45
15863640 TTTTAACAAG
* * * * *
15863650 TAAGACCATAGCTAAAAGACATTATGGCATCACGATTCTAACGAG
1 TAAGACCATATCTAAAAGACACTATGGCATCACAAATCTAACGAA
* * * *
15863695 TAAGACCATATCTAAAAGGCGCTATAGCATCATAAATC-AGACGAA
1 TAAGACCATATCTAAAAGACACTATGGCATCACAAATCTA-ACGAA
*
15863740 TAAGACCATGAT-TGAAAGACACTATGGCATC
1 TAAGACCAT-ATCTAAAAGACACTATGGCATC
15863771 CTTCAACCAT
Statistics
Matches: 61, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
44 1 0.02
45 58 0.95
46 2 0.03
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.21
Consensus pattern (45 bp):
TAAGACCATATCTAAAAGACACTATGGCATCACAAATCTAACGAA
Found at i:15875029 original size:50 final size:50
Alignment explanation
Indices: 15874954--15875048 Score: 163
Period size: 50 Copynumber: 1.9 Consensus size: 50
15874944 TGATAGTTGT
*
15874954 TAAATTCGGTTTTAGAGTTCATCTTAGGTAGGATTTGTACGAATATTGAC
1 TAAATTCGGTTTTAGAATTCATCTTAGGTAGGATTTGTACGAATATTGAC
* *
15875004 TAAATTTGGTTTTAGAATTCATCTTAGGTAGGATTTGTATGAATA
1 TAAATTCGGTTTTAGAATTCATCTTAGGTAGGATTTGTACGAATA
15875049 CTAACTTAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 42 1.00
ACGTcount: A:0.29, C:0.07, G:0.21, T:0.42
Consensus pattern (50 bp):
TAAATTCGGTTTTAGAATTCATCTTAGGTAGGATTTGTACGAATATTGAC
Found at i:15876157 original size:19 final size:19
Alignment explanation
Indices: 15876135--15876173 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
15876125 CCCACGCGTG
* *
15876135 ATCCGGCCTGTCTGGGAGA
1 ATCCGACCTGCCTGGGAGA
15876154 ATCCGACCTGCCTGGGAGA
1 ATCCGACCTGCCTGGGAGA
15876173 A
1 A
15876174 CCCGTGTGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.21, C:0.28, G:0.33, T:0.18
Consensus pattern (19 bp):
ATCCGACCTGCCTGGGAGA
Found at i:15876675 original size:3 final size:3
Alignment explanation
Indices: 15876667--15876740 Score: 94
Period size: 3 Copynumber: 24.7 Consensus size: 3
15876657 AAACTTTAGG
* *
15876667 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TCA TCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* ** *
15876715 TCA CCA TTA TTA TTA ATA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
15876741 CTTAAATTGT
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:15889731 original size:26 final size:26
Alignment explanation
Indices: 15889702--15889760 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
15889692 TATTTTCTCG
**
15889702 AAATTTT-TTCAAGGATAAAATTGTCA
1 AAATTTTATT-AAGGATAAAATCATCA
*
15889728 AAATTTTATTAGGGATAAAATCATCA
1 AAATTTTATTAAGGATAAAATCATCA
15889754 AAATTTT
1 AAATTTT
15889761 GTTTGGGGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 27 0.93
27 2 0.07
ACGTcount: A:0.44, C:0.07, G:0.10, T:0.39
Consensus pattern (26 bp):
AAATTTTATTAAGGATAAAATCATCA
Found at i:15899660 original size:17 final size:18
Alignment explanation
Indices: 15899618--15899664 Score: 60
Period size: 17 Copynumber: 2.6 Consensus size: 18
15899608 ATTTAATTAA
*
15899618 TTAAATATAATTTTTATAT
1 TTAAATATGA-TTTTATAT
*
15899637 ATAAATATGATTTTAT-T
1 TTAAATATGATTTTATAT
15899654 TTAAATATGAT
1 TTAAATATGAT
15899665 AGTAATTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 11 0.44
18 6 0.24
19 8 0.32
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (18 bp):
TTAAATATGATTTTATAT
Found at i:15900052 original size:13 final size:13
Alignment explanation
Indices: 15900036--15900060 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15900026 TATTTGAAAG
15900036 TTTTATTATTATA
1 TTTTATTATTATA
15900049 TTTTATTATTAT
1 TTTTATTATTAT
15900061 TTATATAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTTATTATTATA
Found at i:15900750 original size:32 final size:32
Alignment explanation
Indices: 15900686--15900752 Score: 84
Period size: 32 Copynumber: 2.1 Consensus size: 32
15900676 AGCAATTTAA
* *
15900686 TTTTTTTTCTTTTATGTTCTTTGTACTTTCCT
1 TTTTTTTTCTTTTATGTTCATTCTACTTTCCT
15900718 TTTTTTTTCTTTATAT-TTCATTCT-CTTCTCCT
1 TTTTTTTTCTTT-TATGTTCATTCTACTT-TCCT
15900750 TTT
1 TTT
15900753 ACCTCTGCTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
31 3 0.10
32 25 0.81
33 3 0.10
ACGTcount: A:0.07, C:0.18, G:0.03, T:0.72
Consensus pattern (32 bp):
TTTTTTTTCTTTTATGTTCATTCTACTTTCCT
Found at i:15900883 original size:19 final size:21
Alignment explanation
Indices: 15900861--15900900 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
15900851 TATTTATTTG
15900861 TTTTCA-TTTTCT-TCTTCCC
1 TTTTCATTTTTCTCTCTTCCC
*
15900880 TTTTTATTTTTCTCTCTTCCC
1 TTTTCATTTTTCTCTCTTCCC
15900901 ATATTTTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 6 0.33
21 7 0.39
ACGTcount: A:0.05, C:0.30, G:0.00, T:0.65
Consensus pattern (21 bp):
TTTTCATTTTTCTCTCTTCCC
Found at i:15904881 original size:2 final size:2
Alignment explanation
Indices: 15904874--15904908 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
15904864 ACTAGACTTC
15904874 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
15904909 CCACACTTGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:15914901 original size:25 final size:24
Alignment explanation
Indices: 15914853--15915008 Score: 181
Period size: 25 Copynumber: 6.4 Consensus size: 24
15914843 TCATTAGGGG
*
15914853 TTACCGATTTCAGCTTGTGA-GAGC
1 TTACCGATTTCAGCTCGT-ATGAGC
15914877 TTACCGATTCTCAGCTCGTATGAGC
1 TTACCGATT-TCAGCTCGTATGAGC
*
15914902 TTATCGATTTCAGCTCGTATGAGC
1 TTACCGATTTCAGCTCGTATGAGC
* *
15914926 TTACCGATTTCAACTCGTAAGAGC
1 TTACCGATTTCAGCTCGTATGAGC
* *
15914950 TTACCAATTCTCAGCTCATATGAGC
1 TTACCGATT-TCAGCTCGTATGAGC
*
15914975 TTACCGATTTATAGCTCGTGA-GAGC
1 TTACCGATTT-CAGCTCGT-ATGAGC
*
15915000 ATACCGATT
1 TTACCGATT
15915009 CATAGCTCAT
Statistics
Matches: 114, Mismatches: 13, Indels: 9
0.84 0.10 0.07
Matches are distributed among these distances:
24 55 0.48
25 58 0.51
26 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.33
Consensus pattern (24 bp):
TTACCGATTTCAGCTCGTATGAGC
Found at i:15914929 original size:49 final size:48
Alignment explanation
Indices: 15914853--15915008 Score: 181
Period size: 49 Copynumber: 3.2 Consensus size: 48
15914843 TCATTAGGGG
* * *
15914853 TTACCGATTTCAGCTTGTGA-GAGCTTACCGATTCTCAGCTCGTATGAGC
1 TTACCGATTTCAGCTCGT-ATGAGCTTACCGATT-TCAACTCGTAAGAGC
*
15914902 TTATCGATTTCAGCTCGTATGAGCTTACCGATTTCAACTCGTAAGAGC
1 TTACCGATTTCAGCTCGTATGAGCTTACCGATTTCAACTCGTAAGAGC
* * *
15914950 TTACCAATTCTCAGCTCATATGAGCTTACCGATTT-ATAGCTCGTGAGAGC
1 TTACCGATT-TCAGCTCGTATGAGCTTACCGATTTCA-A-CTCGTAAGAGC
*
15915000 ATACCGATT
1 TTACCGATT
15915009 CATAGCTCAT
Statistics
Matches: 93, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
48 22 0.24
49 54 0.58
50 17 0.18
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.33
Consensus pattern (48 bp):
TTACCGATTTCAGCTCGTATGAGCTTACCGATTTCAACTCGTAAGAGC
Found at i:15914972 original size:73 final size:74
Alignment explanation
Indices: 15914853--15915008 Score: 217
Period size: 73 Copynumber: 2.1 Consensus size: 74
15914843 TCATTAGGGG
* * * * * *
15914853 TTACCGATTTCAGCTTGTGAGAGCTTACCGATTCTCAGCTCGTATGAGCTTATCGATTT-CAGCT
1 TTACCGATTTCAACTCGTAAGAGCTTACCAATTCTCAGCTCATATGAGCTTACCGATTTACAGCT
15914917 CGT-ATGAGC
66 CGTGA-GAGC
*
15914926 TTACCGATTTCAACTCGTAAGAGCTTACCAATTCTCAGCTCATATGAGCTTACCGATTTATAGCT
1 TTACCGATTTCAACTCGTAAGAGCTTACCAATTCTCAGCTCATATGAGCTTACCGATTTACAGCT
15914991 CGTGAGAGC
66 CGTGAGAGC
*
15915000 ATACCGATT
1 TTACCGATT
15915009 CATAGCTCAT
Statistics
Matches: 73, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
73 53 0.73
74 19 0.26
75 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.33
Consensus pattern (74 bp):
TTACCGATTTCAACTCGTAAGAGCTTACCAATTCTCAGCTCATATGAGCTTACCGATTTACAGCT
CGTGAGAGC
Found at i:15915016 original size:50 final size:49
Alignment explanation
Indices: 15914873--15915024 Score: 166
Period size: 49 Copynumber: 3.1 Consensus size: 49
15914863 CAGCTTGTGA
* * * * * *
15914873 GAGCTTACCGATTCTCAGCTCGTATGAGCTTATCGATT-TCAGCTCGTAT
1 GAGCTTACCGATT-TCAACTCGTAAGAGCATACCAATTCTCAGCTCATAT
*
15914922 GAGCTTACCGATTTCAACTCGTAAGAGCTTACCAATTCTCAGCTCATAT
1 GAGCTTACCGATTTCAACTCGTAAGAGCATACCAATTCTCAGCTCATAT
* *
15914971 GAGCTTACCGATTT-ATAGCTCGTGAGAGCATACCGATTCAT-AGCTCATAT
1 GAGCTTACCGATTTCA-A-CTCGTAAGAGCATACCAATTC-TCAGCTCATAT
15915021 GAGC
1 GAGC
15915025 ATACATGTAC
Statistics
Matches: 91, Mismatches: 8, Indels: 7
0.86 0.08 0.07
Matches are distributed among these distances:
48 21 0.23
49 38 0.42
50 31 0.34
51 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (49 bp):
GAGCTTACCGATTTCAACTCGTAAGAGCATACCAATTCTCAGCTCATAT
Found at i:15915698 original size:20 final size:20
Alignment explanation
Indices: 15915665--15915708 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
15915655 TAATGAGAGT
*
15915665 AAATGCAATAGAAAGTAACA
1 AAATGCAATAGAAAATAACA
*
15915685 AAATGCAA-ATGAAAATAAGA
1 AAATGCAATA-GAAAATAACA
15915705 AAAT
1 AAAT
15915709 TTGAAAGGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 1 0.05
20 20 0.95
ACGTcount: A:0.64, C:0.07, G:0.14, T:0.16
Consensus pattern (20 bp):
AAATGCAATAGAAAATAACA
Found at i:15917239 original size:20 final size:21
Alignment explanation
Indices: 15917214--15917252 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
15917204 CTACATTTTG
*
15917214 AAAATTTTTATAT-TTTCCCT
1 AAAATTTCTATATGTTTCCCT
15917234 AAAATTTCTATATGTTTCC
1 AAAATTTCTATATGTTTCC
15917253 GATTTAGTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.31, C:0.15, G:0.03, T:0.51
Consensus pattern (21 bp):
AAAATTTCTATATGTTTCCCT
Found at i:15918266 original size:20 final size:21
Alignment explanation
Indices: 15918229--15918270 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
15918219 TTCCTCAGCA
*
15918229 TCGAACACGATCGTCCACCAC
1 TCGAACACGATCGACCACCAC
15918250 TCGAACAC-ATCGACCACCAC
1 TCGAACACGATCGACCACCAC
15918270 T
1 T
15918271 TGATGAACCT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.31, C:0.43, G:0.12, T:0.14
Consensus pattern (21 bp):
TCGAACACGATCGACCACCAC
Found at i:15920833 original size:40 final size:39
Alignment explanation
Indices: 15920786--15920926 Score: 194
Period size: 40 Copynumber: 3.5 Consensus size: 39
15920776 GGCGTTTGGA
15920786 CAAAAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTT
1 CAAAAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTT
* *
15920825 ACATAAAACGCCGCTAAAGATCGAGCATTAGCGGCGCTTT
1 -CAAAAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTT
* *
15920865 CAGAAAAGCGCCGCTAAAAAT-GAGCATTAGCGGCGTTTTTT
1 CA-AAAAACGCCGCTAAAAATCGAGCATTAGCGGCG--CTTT
*
15920906 GAAAAAACGCCGCTAAAAATC
1 CAAAAAACGCCGCTAAAAATC
15920927 TAAGCCCACA
Statistics
Matches: 89, Mismatches: 8, Indels: 7
0.86 0.08 0.07
Matches are distributed among these distances:
39 16 0.18
40 69 0.78
41 4 0.04
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.19
Consensus pattern (39 bp):
CAAAAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTT
Found at i:15921027 original size:41 final size:41
Alignment explanation
Indices: 15920965--15921157 Score: 196
Period size: 41 Copynumber: 4.7 Consensus size: 41
15920955 CCTTTCGGGG
* * *
15920965 CTTTAGCGGCGTTTTTTAAAAAGCGTCGCTGATGCTCAGAT
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGAT
15921006 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGAT
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGAT
**
15921047 CTTTAGCGGCGTTTTAT-CTAAAGCGCCGCTAATGCTC-GAT
1 CTTTAGCGGCGTTTT-TGAAAAAGCGCCGCTAATGCTCAGAT
* * **** * *
15921087 TTTTAGGCGGCATCCCCGAAAAAGCGCCGCTAATGCTTAG-G
1 CTTTA-GCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGAT
*
15921128 CTTTTAGCGGCGTTTAT-AGAAAAGCGCCGC
1 C-TTTAGCGGCGTTTTTGA-AAAAGCGCCGC
15921158 AAAAATATTT
Statistics
Matches: 125, Mismatches: 21, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
40 8 0.06
41 111 0.89
42 6 0.05
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.29
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGAT
Found at i:15921444 original size:14 final size:14
Alignment explanation
Indices: 15921425--15921457 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
15921415 GTATCGGATC
*
15921425 TGGTTTAGGGTATA
1 TGGTTTAAGGTATA
15921439 TGGTTTAAGGTATA
1 TGGTTTAAGGTATA
15921453 TGGTT
1 TGGTT
15921458 AATTTAGGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.21, C:0.00, G:0.33, T:0.45
Consensus pattern (14 bp):
TGGTTTAAGGTATA
Found at i:15921575 original size:14 final size:14
Alignment explanation
Indices: 15921558--15921589 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
15921548 GGGTTGGGAT
15921558 TTAGGGGTTAGGGG
1 TTAGGGGTTAGGGG
*
15921572 TTAGTGGTTAGGGG
1 TTAGGGGTTAGGGG
15921586 TTAG
1 TTAG
15921590 AGATTAAGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.16, C:0.00, G:0.50, T:0.34
Consensus pattern (14 bp):
TTAGGGGTTAGGGG
Found at i:15921772 original size:81 final size:81
Alignment explanation
Indices: 15921644--15921807 Score: 242
Period size: 81 Copynumber: 2.0 Consensus size: 81
15921634 TTAAGGTTTA
* *
15921644 AGGTTTAGATTAATTAGTGTGTTTTAATTTATATTAAATAAGGTTTAGGGGTTAGGGGTTAGGGA
1 AGGTTTAGATTAATTAGTATGTTTTAATTTATATTAAATAAGGTTTAGGGGTTAGGAGTTAGGGA
*
15921709 TT-TGGGTTA-GGGTT
66 TTAGGGGTTAGGGGTT
* *
15921723 AGGTTTAGATTAATTAGTATTTTTTAATTTATATATTAAATAAGGTTTAGGGGTTAGTAGTTAGG
1 AGGTTTAGATTAATTAGTATGTTTTAA-TT-TATATTAAATAAGGTTTAGGGGTTAGGAGTTAGG
*
15921788 GGTTAGGGGTTAGGGGTT
64 GATTAGGGGTTAGGGGTT
15921806 AG
1 AG
15921808 AGGTTAAGAG
Statistics
Matches: 75, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
79 25 0.33
80 2 0.03
81 35 0.47
82 6 0.08
83 7 0.09
ACGTcount: A:0.27, C:0.00, G:0.30, T:0.43
Consensus pattern (81 bp):
AGGTTTAGATTAATTAGTATGTTTTAATTTATATTAAATAAGGTTTAGGGGTTAGGAGTTAGGGA
TTAGGGGTTAGGGGTT
Found at i:15921792 original size:7 final size:7
Alignment explanation
Indices: 15921769--15921813 Score: 63
Period size: 7 Copynumber: 6.4 Consensus size: 7
15921759 TAAATAAGGT
15921769 TTAGGGG
1 TTAGGGG
**
15921776 TTAGTAG
1 TTAGGGG
15921783 TTAGGGG
1 TTAGGGG
15921790 TTAGGGG
1 TTAGGGG
15921797 TTAGGGG
1 TTAGGGG
*
15921804 TTAGAGG
1 TTAGGGG
15921811 TTA
1 TTA
15921814 AGAGTTAGTG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.20, C:0.00, G:0.47, T:0.33
Consensus pattern (7 bp):
TTAGGGG
Found at i:15921820 original size:21 final size:21
Alignment explanation
Indices: 15921782--15921821 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
15921772 GGGGTTAGTA
* * *
15921782 GTTAGGGGTTAGGGGTTAGGG
1 GTTAGAGGTTAAGAGTTAGGG
15921803 GTTAGAGGTTAAGAGTTAG
1 GTTAGAGGTTAAGAGTTAG
15921822 TGATTTAAGG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.23, C:0.00, G:0.47, T:0.30
Consensus pattern (21 bp):
GTTAGAGGTTAAGAGTTAGGG
Found at i:15921949 original size:14 final size:14
Alignment explanation
Indices: 15921930--15921961 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
15921920 GTAAAAGAGG
15921930 GGTTAGGAGTTAGA
1 GGTTAGGAGTTAGA
*
15921944 GGTTAGGGGTTAGA
1 GGTTAGGAGTTAGA
15921958 GGTT
1 GGTT
15921962 TAGGGTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.22, C:0.00, G:0.47, T:0.31
Consensus pattern (14 bp):
GGTTAGGAGTTAGA
Found at i:15921967 original size:14 final size:13
Alignment explanation
Indices: 15921930--15921968 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
15921920 GTAAAAGAGG
15921930 GGTTAGGAGTTAGA
1 GGTTAGG-GTTAGA
15921944 GGTTAGGGGTTAGA
1 GGTTA-GGGTTAGA
15921958 GGTTTAGGGTT
1 GG-TTAGGGTT
15921969 TATGTTTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 18 0.78
15 5 0.22
ACGTcount: A:0.21, C:0.00, G:0.46, T:0.33
Consensus pattern (13 bp):
GGTTAGGGTTAGA
Found at i:15926579 original size:41 final size:41
Alignment explanation
Indices: 15926517--15926605 Score: 124
Period size: 41 Copynumber: 2.2 Consensus size: 41
15926507 TTTTATTATT
* * * *
15926517 AGCGACGCTTTTTTAAAAACGCCGCTAAAGGCACGAGCATA
1 AGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCACGAGCATA
* *
15926558 AGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCCGAGCATT
1 AGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCACGAGCATA
15926599 AGCGGCG
1 AGCGGCG
15926606 TTTTTGAAGG
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.29, C:0.29, G:0.25, T:0.17
Consensus pattern (41 bp):
AGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCACGAGCATA
Found at i:15926672 original size:69 final size:68
Alignment explanation
Indices: 15926544--15926674 Score: 226
Period size: 69 Copynumber: 1.9 Consensus size: 68
15926534 AACGCCGCTA
*
15926544 AAGGCACGAGCATAAGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCCGAGCATTAGCGGCGTTT
1 AAGGCACGAGCATAAGCGGCGCTTTCTCAAAAACACCGCTAAAGCCCCGAGCATTAGCGGCGTTT
15926609 TTG
66 TTG
* *
15926612 AAGGCCCGAGCATTAGCGGCGCTTTCTCAAAAAACACCGCTAAAGCCCCGAGCATTAGCGGCG
1 AAGGCACGAGCATAAGCGGCGCTTTCTC-AAAAACACCGCTAAAGCCCCGAGCATTAGCGGCG
15926675 CTTTCTCAAA
Statistics
Matches: 59, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
68 26 0.44
69 33 0.56
ACGTcount: A:0.27, C:0.30, G:0.26, T:0.17
Consensus pattern (68 bp):
AAGGCACGAGCATAAGCGGCGCTTTCTCAAAAACACCGCTAAAGCCCCGAGCATTAGCGGCGTTT
TTG
Done.