Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168381.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_6, 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: 26551601
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 64000 characters in sequence are not A, C, G, or T
File 113 of 130
Found at i:22187286 original size:37 final size:36
Alignment explanation
Indices: 22187238--22187368 Score: 110
Period size: 37 Copynumber: 3.6 Consensus size: 36
22187228 TATGTATTTA
*
22187238 TTATTTATTTATTTATTATTACTATTTATTAATATAT
1 TTATATATTTATTTATTATTA-TATTTATTAATATAT
* * *
22187275 TTATATCTTTATTTATT-TT-TTTTCTGTTAATAT-T
1 TTATATATTTATTTATTATTATATT-TATTAATATAT
*
22187309 TATATATATTTTATTTATCTAGTTATATATTTATTATTATA-
1 T-TATATA-TTTATTTAT-TA--T-TATATTTATTAATATAT
22187350 TTATA-ATTTATTTATTATT
1 TTATATATTTATTTATTATT
22187369 TTTATTTTTT
Statistics
Matches: 76, Mismatches: 8, Indels: 23
0.71 0.07 0.21
Matches are distributed among these distances:
34 6 0.08
35 14 0.18
36 11 0.14
37 18 0.24
38 9 0.12
39 1 0.01
40 5 0.07
41 9 0.12
42 3 0.04
ACGTcount: A:0.30, C:0.03, G:0.02, T:0.66
Consensus pattern (36 bp):
TTATATATTTATTTATTATTATATTTATTAATATAT
Found at i:22187286 original size:56 final size:55
Alignment explanation
Indices: 22187226--22187368 Score: 125
Period size: 56 Copynumber: 2.6 Consensus size: 55
22187216 CCCTTTGTAT
* *
22187226 TTTATGTATTTATTATTTATTTATTTATTATTACTA-TTTATTAATATATTTATATC
1 TTTAT-TATTTATTATTTATTTATTTATTATTA-TATTTTATTAATATAGTTATATA
* * * *
22187282 TTTATTTATTT-TT-TTTCTGTTA-ATATTTATATATATTTTATTTATCTAGTTATATA
1 TTTA-TTATTTATTATTTAT-TTATTTA-TTAT-TATATTTTATTAATATAGTTATATA
*
22187338 TTTATTATTATATTA-TAATTTATTTATTATT
1 TTTATTATT-TATTATTTATTTATTTATTATT
22187369 TTTATTTTTT
Statistics
Matches: 69, Mismatches: 9, Indels: 19
0.71 0.09 0.20
Matches are distributed among these distances:
54 6 0.09
55 17 0.25
56 39 0.57
57 7 0.10
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.66
Consensus pattern (55 bp):
TTTATTATTTATTATTTATTTATTTATTATTATATTTTATTAATATAGTTATATA
Found at i:22187318 original size:27 final size:33
Alignment explanation
Indices: 22187300--22187413 Score: 85
Period size: 30 Copynumber: 3.8 Consensus size: 33
22187290 TTTTTTTTCT
22187300 GTTA-ATATTTA-TA-TATATTTTATTTATCTA
1 GTTATATATTTATTATTATATTTTATTTATCTA
*
22187330 GTTATATATTTATTATTATATTATAATTTA--T-
1 GTTATATATTTATTATTATATT-TTATTTATCTA
*
22187361 -TTAT-TATTT-TTATT-T-TTTTATTTATCTT
1 GTTATATATTTATTATTATATTTTATTTATCTA
* *
22187389 G-TA-ATATTTTTTATT-TATCTTATTT
1 GTTATATATTTATTATTATATTTTATTT
22187414 TTATTTTTAA
Statistics
Matches: 70, Mismatches: 3, Indels: 22
0.74 0.03 0.23
Matches are distributed among these distances:
25 6 0.09
26 2 0.03
27 2 0.03
28 12 0.17
29 11 0.16
30 15 0.21
31 7 0.10
32 3 0.04
33 6 0.09
34 6 0.09
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.67
Consensus pattern (33 bp):
GTTATATATTTATTATTATATTTTATTTATCTA
Found at i:22187402 original size:42 final size:39
Alignment explanation
Indices: 22187356--22187452 Score: 115
Period size: 42 Copynumber: 2.4 Consensus size: 39
22187346 TATATTATAA
*
22187356 TTTATTTATTATTTTTATTTTTTTATTTATCT-TGTAATATTT
1 TTTATTTATTATTTTTA--TTTTTAATTATCTGT-TAAT-TTT
22187398 TTTATTTATCTTATTTTTATTTTTAATTATCTGTTAATTTT
1 TTTATTTA--TTATTTTTATTTTTAATTATCTGTTAATTTT
*
22187439 TTTATTTTTTATTT
1 TTTATTTATTATTT
22187453 GTTTATCTGA
Statistics
Matches: 50, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
39 6 0.12
41 10 0.20
42 24 0.48
43 1 0.02
44 9 0.18
ACGTcount: A:0.21, C:0.03, G:0.02, T:0.74
Consensus pattern (39 bp):
TTTATTTATTATTTTTATTTTTAATTATCTGTTAATTTT
Found at i:22187427 original size:25 final size:24
Alignment explanation
Indices: 22187338--22187427 Score: 60
Period size: 25 Copynumber: 3.6 Consensus size: 24
22187328 TAGTTATATA
* *
22187338 TTTATTATTATATTA-TAATTTATT
1 TTTATTTTTA-ATTATTTATTTATT
* *
22187362 TATTATTTTTATTTTTTTATTTATCT
1 T-TTATTTTTAATTATTTATTTAT-T
*
22187388 TGTAATATTTT--TTATTTATCTTATT
1 T-TTAT-TTTTAATTATTTAT-TTATT
22187413 TTTATTTTTAATTAT
1 TTTATTTTTAATTAT
22187428 CTGTTAATTT
Statistics
Matches: 51, Mismatches: 8, Indels: 13
0.71 0.11 0.18
Matches are distributed among these distances:
23 4 0.08
24 6 0.12
25 28 0.55
26 9 0.18
27 4 0.08
ACGTcount: A:0.26, C:0.02, G:0.01, T:0.71
Consensus pattern (24 bp):
TTTATTTTTAATTATTTATTTATT
Found at i:22187441 original size:21 final size:20
Alignment explanation
Indices: 22187373--22187445 Score: 69
Period size: 21 Copynumber: 3.5 Consensus size: 20
22187363 ATTATTTTTA
22187373 TTTTTTTATTTATCTTGTAAT
1 TTTTTTTATTTATCTT-TAAT
* *
22187394 ATTTTTTATTTATC-TTATTT
1 TTTTTTTATTTATCTTTA-AT
*
22187414 TTATTTTTAATTATCTGTTAA-
1 TT-TTTTTATTTATCT-TTAAT
22187435 TTTTTTTATTT
1 TTTTTTTATTT
22187446 TTTATTTGTT
Statistics
Matches: 42, Mismatches: 6, Indels: 9
0.74 0.11 0.16
Matches are distributed among these distances:
19 2 0.05
20 11 0.26
21 26 0.62
23 3 0.07
ACGTcount: A:0.21, C:0.04, G:0.03, T:0.73
Consensus pattern (20 bp):
TTTTTTTATTTATCTTTAAT
Found at i:22187475 original size:19 final size:19
Alignment explanation
Indices: 22187442--22187490 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
22187432 TAATTTTTTT
*
22187442 ATTTTTTATTTGTTTATCTG
1 ATTTTTT-TTCGTTTATCTG
*
22187462 ATTTTTTTTCGTTTATCTT
1 ATTTTTTTTCGTTTATCTG
22187481 ATTTCTTTTT
1 ATTT-TTTTT
22187491 TTTCCTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 14 0.54
20 12 0.46
ACGTcount: A:0.12, C:0.08, G:0.06, T:0.73
Consensus pattern (19 bp):
ATTTTTTTTCGTTTATCTG
Found at i:22188355 original size:4 final size:4
Alignment explanation
Indices: 22188346--22188383 Score: 51
Period size: 4 Copynumber: 9.5 Consensus size: 4
22188336 CGCTGCAGGT
*
22188346 TTTA TTTA TTTA TTTA TTTG TTT- TTTA TTTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA -TTTA TTTA TT
22188384 AAGTTAGGAT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
3 3 0.10
4 24 0.77
5 4 0.13
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (4 bp):
TTTA
Found at i:22188445 original size:36 final size:36
Alignment explanation
Indices: 22188404--22188483 Score: 90
Period size: 36 Copynumber: 2.2 Consensus size: 36
22188394 TATTTAATGT
*
22188404 TCTTTTATCTTCATTTT-ATTTTTATTTTTGTTTTAC
1 TCTTTTATCTTCATTTTCACTTTTA-TTTTGTTTTAC
* * * *
22188440 TCTTTTTTTTTTATTTTCACTTTTATTTTGTTTTAT
1 TCTTTTATCTTCATTTTCACTTTTATTTTGTTTTAC
*
22188476 TATTTTAT
1 TCTTTTAT
22188484 TTTCTTTAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
36 30 0.83
37 6 0.17
ACGTcount: A:0.14, C:0.09, G:0.03, T:0.75
Consensus pattern (36 bp):
TCTTTTATCTTCATTTTCACTTTTATTTTGTTTTAC
Found at i:22188625 original size:117 final size:116
Alignment explanation
Indices: 22188504--22189007 Score: 757
Period size: 117 Copynumber: 4.3 Consensus size: 116
22188494 TAAAATCCAA
*
22188504 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCTTTAAAAATAAAATTTCAAAAAAAG
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCAAAAAAAG
*
22188569 ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAGTTTCC
66 ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTT-C
* * * *
22188621 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTCTCCTTGAAAATCAAAGTTTCCAAAAAA
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAAATTTCAAAAAAA
* *
22188686 TATTTTTGAAGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTAC
65 GATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTT-C
* * *
22188739 AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTTAAAATAAAATTTCAAAAAAA-
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCAAAAAAAG
*
22188803 AGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTTGAAAATCAAAGTTTTC
66 A-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAG-TTTC
* * *
22188856 AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCCATTTTCCTTAAAAAT-AAATTTCAAAAAAAG
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCAAAAAAAG
* *
22188920 --TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCG-AAATTAAAGTTTC
66 ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTC
*
22188968 AAAAGAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTT
1 AAAA-AATATTTTTGGGGAAAAGTTGAAAGTATCAATTTT
22189008 TCCTGTACAA
Statistics
Matches: 356, Mismatches: 26, Indels: 14
0.90 0.07 0.04
Matches are distributed among these distances:
112 8 0.02
113 39 0.11
114 33 0.09
116 15 0.04
117 151 0.42
118 110 0.31
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.34
Consensus pattern (116 bp):
AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCAAAAAAAG
ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTC
Found at i:22188654 original size:59 final size:58
Alignment explanation
Indices: 22188504--22189007 Score: 698
Period size: 59 Copynumber: 8.7 Consensus size: 58
22188494 TAAAATCCAA
* * *
22188504 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCTTTAAAAAT-AAAATTTC
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAGTTTC
*
22188561 AAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAGTTTCC
1 -AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAGTTT-C
* * *
22188621 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTCTCCTTGAAAATCAAAGTTTCC
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAGTTT-C
* *
22188680 AAAAAATATTTTTGAAGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTAC
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAGTTT-C
* * *
22188739 AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTTAAAAT-AAAATTTC
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAGTTTC
* * *
22188796 AAAAAAAAGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTTGAAAATCAAAGTTTTC
1 AAAAAATA-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAG-TTTC
* *
22188856 AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCCATTTTCCTTAAAAAT-AAA-TTTC
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAGTTTC
* ** *
22188912 AAAAAA-AGTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC-TCGAAATTAAAGTTTC
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAGTTTC
22188968 AAAAGAATATTTTT-AGGGAAAAGTTGAAAGTATCAATTTT
1 AAAA-AATATTTTTGA-GGAAAAGTTGAAAGTATCAATTTT
22189008 TCCTGTACAA
Statistics
Matches: 404, Mismatches: 32, Indels: 20
0.89 0.07 0.04
Matches are distributed among these distances:
54 5 0.01
55 34 0.08
56 18 0.04
57 11 0.03
58 122 0.30
59 202 0.50
60 12 0.03
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.34
Consensus pattern (58 bp):
AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAGTTTC
Found at i:22188675 original size:32 final size:31
Alignment explanation
Indices: 22188639--22188735 Score: 80
Period size: 32 Copynumber: 3.2 Consensus size: 31
22188629 TTTTTGGGGA
22188639 AAAGTTGAAAGTATCAATTCTCCTTGAAAATC
1 AAAGTTGAAAGTATCAATT-TCCTTGAAAATC
* ** *
22188671 AAAGTTTCCAAAAAAT--ATTT--TTGAAGA--
1 AAAG-TT-GAAAGTATCAATTTCCTTGAAAATC
22188698 AAAGTTGAAAGTATCAATTTTCCTTGAAAATC
1 AAAGTTGAAAGTATCAA-TTTCCTTGAAAATC
22188730 AAAGTT
1 AAAGTT
22188736 TACAAAAAAT
Statistics
Matches: 48, Mismatches: 8, Indels: 18
0.65 0.11 0.24
Matches are distributed among these distances:
25 5 0.10
26 2 0.04
27 5 0.10
28 3 0.06
29 6 0.12
30 6 0.12
31 1 0.02
32 13 0.27
33 2 0.04
34 5 0.10
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.33
Consensus pattern (31 bp):
AAAGTTGAAAGTATCAATTTCCTTGAAAATC
Found at i:22189058 original size:14 final size:14
Alignment explanation
Indices: 22189039--22189070 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
22189029 CTTTTCTTCC
22189039 TTTTTATTTTTATT
1 TTTTTATTTTTATT
22189053 TTTTTATTTTTATT
1 TTTTTATTTTTATT
22189067 TTTT
1 TTTT
22189071 CTTTAAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (14 bp):
TTTTTATTTTTATT
Found at i:22196627 original size:39 final size:39
Alignment explanation
Indices: 22196573--22196679 Score: 180
Period size: 39 Copynumber: 2.7 Consensus size: 39
22196563 ATATCAAGTA
22196573 ATCATGCAATAAATATTAAATCATACCATGCAAAAAATT
1 ATCATGCAATAAATATTAAATCATACCATGCAAAAAATT
22196612 ATCATGCAATAAATATTAAATCATACCATGCAAAAAATT
1 ATCATGCAATAAATATTAAATCATACCATGCAAAAAATT
*
22196651 ATCATGCAA-ATATATTATAAATCATACCA
1 ATCATGCAATAAATA-T-TAAATCATACCA
22196680 AATATCATGT
Statistics
Matches: 65, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
38 4 0.06
39 49 0.75
40 12 0.18
ACGTcount: A:0.50, C:0.16, G:0.05, T:0.29
Consensus pattern (39 bp):
ATCATGCAATAAATATTAAATCATACCATGCAAAAAATT
Found at i:22197021 original size:32 final size:32
Alignment explanation
Indices: 22196985--22197096 Score: 91
Period size: 32 Copynumber: 3.2 Consensus size: 32
22196975 AATTAATTAA
22196985 TAATCATGCAAATAGACACGTAATTAAATATC
1 TAATCATGCAAATAGACACGTAATTAAATATC
* * * *
22197017 TAATCATACAATTA-ACAATGTAAAACATGCAAATAAATATA
1 TAATCATGCAAATAGAC-ACGT---A-AT-----TAAATATC
22197058 TAATCATGCAAATAGACACGTAATTAAATATC
1 TAATCATGCAAATAGACACGTAATTAAATATC
22197090 TAATCAT
1 TAATCAT
22197097 ACAATTAACA
Statistics
Matches: 61, Mismatches: 8, Indels: 22
0.67 0.09 0.24
Matches are distributed among these distances:
31 2 0.03
32 29 0.48
35 1 0.02
36 2 0.03
37 2 0.03
38 1 0.02
41 22 0.36
42 2 0.03
ACGTcount: A:0.50, C:0.14, G:0.07, T:0.29
Consensus pattern (32 bp):
TAATCATGCAAATAGACACGTAATTAAATATC
Found at i:22197061 original size:73 final size:73
Alignment explanation
Indices: 22196984--22197141 Score: 316
Period size: 73 Copynumber: 2.2 Consensus size: 73
22196974 AAATTAATTA
22196984 ATAATCATGCAAATAGACACGTAATTAAATATCTAATCATACAATTAACAATGTAAAACATGCAA
1 ATAATCATGCAAATAGACACGTAATTAAATATCTAATCATACAATTAACAATGTAAAACATGCAA
22197049 ATAAATAT
66 ATAAATAT
22197057 ATAATCATGCAAATAGACACGTAATTAAATATCTAATCATACAATTAACAATGTAAAACATGCAA
1 ATAATCATGCAAATAGACACGTAATTAAATATCTAATCATACAATTAACAATGTAAAACATGCAA
22197122 ATAAATAT
66 ATAAATAT
22197130 ATAATCATGCAA
1 ATAATCATGCAA
22197142 TTAACAATAT
Statistics
Matches: 85, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 85 1.00
ACGTcount: A:0.52, C:0.14, G:0.07, T:0.27
Consensus pattern (73 bp):
ATAATCATGCAAATAGACACGTAATTAAATATCTAATCATACAATTAACAATGTAAAACATGCAA
ATAAATAT
Found at i:22197063 original size:41 final size:41
Alignment explanation
Indices: 22197009--22197386 Score: 390
Period size: 41 Copynumber: 9.5 Consensus size: 41
22196999 GACACGTAAT
* * *
22197009 TAAATATCTAATCATACAATTAACAATGTAAAACATGCAAA
1 TAAATATATAATCATGCAATTAACAATGTAAAACATGCAAC
* *
22197050 TAAATATATAATCATGCAAATAGAC-ACGT---A-AT-----
1 TAAATATATAATCATGCAATTA-ACAATGTAAAACATGCAAC
* * *
22197082 TAAATATCTAATCATACAATTAACAATGTAAAACATGCAAA
1 TAAATATATAATCATGCAATTAACAATGTAAAACATGCAAC
*
22197123 TAAATATATAATCATGCAATTAACAATATAAAACATGCAA-
1 TAAATATATAATCATGCAATTAACAATGTAAAACATGCAAC
* * * *
22197163 -AAATATATTATCATGTAATTAACAATATAAAACATGCAAT
1 TAAATATATAATCATGCAATTAACAATGTAAAACATGCAAC
* * *
22197203 TAAACATGTAATCATGCAATTAACAATATAAAACATGCAAC
1 TAAATATATAATCATGCAATTAACAATGTAAAACATGCAAC
* * * *
22197244 TAAACATATTATTATGCAATTAACAATAG-AAAACCTGCAAC
1 TAAATATATAATCATGCAATTAACAAT-GTAAAACATGCAAC
* *
22197285 TAAATATATAATCATGCAATTAACAATATAAAACGTGCAAC
1 TAAATATATAATCATGCAATTAACAATGTAAAACATGCAAC
* * *
22197326 TAAATATATAATCAAGCAATTAAC-A-GTACAAAGCATACCAC
1 TAAATATATAATCATGCAATTAACAATGTA-AAA-CATGCAAC
22197367 TAAATATATAATCATGCAAT
1 TAAATATATAATCATGCAAT
22197387 CACACAAATA
Statistics
Matches: 286, Mismatches: 34, Indels: 34
0.81 0.10 0.10
Matches are distributed among these distances:
31 2 0.01
32 22 0.08
35 1 0.00
36 2 0.01
37 2 0.01
38 1 0.00
39 39 0.14
40 4 0.01
41 211 0.74
42 2 0.01
ACGTcount: A:0.52, C:0.15, G:0.06, T:0.27
Consensus pattern (41 bp):
TAAATATATAATCATGCAATTAACAATGTAAAACATGCAAC
Found at i:22197104 original size:20 final size:20
Alignment explanation
Indices: 22197079--22197386 Score: 166
Period size: 20 Copynumber: 15.2 Consensus size: 20
22197069 ATAGACACGT
* *
22197079 AATTAAATATCTAATCATAC
1 AATTAAATATATAATCATGC
* *
22197099 AATTAACA-ATGTAAAACATGC
1 AATTAA-ATATAT-AATCATGC
*
22197120 AAATAAATATATAATCATGC
1 AATTAAATATATAATCATGC
*
22197140 AATTAACA-ATATAAAACATGC
1 AATTAA-ATATAT-AATCATGC
* *
22197161 AA--AAATATATTATCATGT
1 AATTAAATATATAATCATGC
*
22197179 AATTAACA-ATATAAAACATGC
1 AATTAA-ATATAT-AATCATGC
* *
22197200 AATTAAACATGTAATCATGC
1 AATTAAATATATAATCATGC
*
22197220 AATTAACA-ATATAAAACATGC
1 AATTAA-ATATAT-AATCATGC
* * * *
22197241 AACTAAACATATTATTATGC
1 AATTAAATATATAATCATGC
* * *
22197261 AATTAACA-ATAGAAAACCTGC
1 AATTAA-ATATA-TAATCATGC
*
22197282 AACTAAATATATAATCATGC
1 AATTAAATATATAATCATGC
* *
22197302 AATTAACA-ATATAAAACGTGC
1 AATTAA-ATATAT-AATCATGC
* *
22197323 AACTAAATATATAATCAAGC
1 AATTAAATATATAATCATGC
* * *
22197343 AATTAACAGTACA-AAGCATAC
1 AATTAA-A-TATATAATCATGC
* *
22197364 CACTAAATATATAATCATGC
1 AATTAAATATATAATCATGC
22197384 AAT
1 AAT
22197387 CACACAAATA
Statistics
Matches: 214, Mismatches: 51, Indels: 46
0.69 0.16 0.15
Matches are distributed among these distances:
18 8 0.04
19 9 0.04
20 98 0.46
21 96 0.45
22 3 0.01
ACGTcount: A:0.52, C:0.15, G:0.06, T:0.27
Consensus pattern (20 bp):
AATTAAATATATAATCATGC
Found at i:22197453 original size:20 final size:20
Alignment explanation
Indices: 22197396--22197488 Score: 87
Period size: 20 Copynumber: 4.6 Consensus size: 20
22197386 TCACACAAAT
* *
22197396 AAATAAATTGACAATCATGC
1 AAATAAATTAATAATCATGC
**
22197416 AAATAAATTGTTAATCATGC
1 AAATAAATTAATAATCATGC
* *
22197436 AAATAAATTAATAGTCATGT
1 AAATAAATTAATAATCATGC
* **
22197456 AAATATATTAATAAATCACAC
1 AAATAAATTAAT-AATCATGC
*
22197477 AAATATATTAAT
1 AAATAAATTAAT
22197489 CATATAAATA
Statistics
Matches: 61, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
20 45 0.74
21 16 0.26
ACGTcount: A:0.52, C:0.10, G:0.06, T:0.32
Consensus pattern (20 bp):
AAATAAATTAATAATCATGC
Found at i:22206375 original size:17 final size:17
Alignment explanation
Indices: 22206350--22206385 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
22206340 GGATCCTGTA
* *
22206350 AGGTGACCTAGATTTAC
1 AGGTCACCTAGATATAC
22206367 AGGTCACCTAGATATAC
1 AGGTCACCTAGATATAC
22206384 AG
1 AG
22206386 TGCAGCGTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.25
Consensus pattern (17 bp):
AGGTCACCTAGATATAC
Found at i:22211063 original size:18 final size:18
Alignment explanation
Indices: 22211040--22211076 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
22211030 TCTAGGAATG
22211040 TGAAAATCTTGTGATATA
1 TGAAAATCTTGTGATATA
22211058 TGAAAATCTTGTGATATA
1 TGAAAATCTTGTGATATA
22211076 T
1 T
22211077 CTGTAAGCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.05, G:0.16, T:0.41
Consensus pattern (18 bp):
TGAAAATCTTGTGATATA
Found at i:22217153 original size:2 final size:2
Alignment explanation
Indices: 22217146--22217184 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
22217136 ACAACACTAA
22217146 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
22217185 ATATATATAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:22217575 original size:14 final size:14
Alignment explanation
Indices: 22217538--22217571 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
22217528 AGTGGATTAA
22217538 AATTTTTA-AAATT
1 AATTTTTATAAATT
22217551 AATTTTTATAAATT
1 AATTTTTATAAATT
22217565 -ATTTTTA
1 AATTTTTA
22217572 ATAACTATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 15 0.75
14 5 0.25
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
AATTTTTATAAATT
Found at i:22219077 original size:10 final size:10
Alignment explanation
Indices: 22219052--22219094 Score: 52
Period size: 10 Copynumber: 4.1 Consensus size: 10
22219042 ATAATTATTT
22219052 TATATTTAAAA
1 TATA-TTAAAA
22219063 T-TATTAAAA
1 TATATTAAAA
22219072 TATATTAAAA
1 TATATTAAAA
22219082 TAATATATAAAA
1 T-ATAT-TAAAA
22219094 T
1 T
22219095 TTAAAAATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
9 7 0.24
10 11 0.38
11 5 0.17
12 6 0.21
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (10 bp):
TATATTAAAA
Found at i:22219098 original size:19 final size:18
Alignment explanation
Indices: 22219053--22219100 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
22219043 TAATTATTTT
*
22219053 ATATTTAAAATTATTAAA
1 ATATTTAAAATAATTAAA
22219071 ATATATTAAAATAATATATAA
1 ATAT-TTAAAATAAT-TA-AA
22219092 A-ATTTAAAA
1 ATATTTAAAA
22219101 ATTAAAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 4 0.15
19 15 0.58
20 4 0.15
21 3 0.12
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
ATATTTAAAATAATTAAA
Found at i:22223806 original size:21 final size:21
Alignment explanation
Indices: 22223782--22223826 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
22223772 GAAGAAGTTA
22223782 AAAATTTTCTTCAGCTTCGTC
1 AAAATTTTCTTCAGCTTCGTC
22223803 AAAATTTTCTTCAGCTTCGTC
1 AAAATTTTCTTCAGCTTCGTC
22223824 AAA
1 AAA
22223827 GGGAAGGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.40
Consensus pattern (21 bp):
AAAATTTTCTTCAGCTTCGTC
Found at i:22224425 original size:30 final size:31
Alignment explanation
Indices: 22224391--22224453 Score: 74
Period size: 31 Copynumber: 2.1 Consensus size: 31
22224381 AATATTTTTT
* * *
22224391 AATTTCTT-TAAAATTTAAAGTATAACGGTA
1 AATTTCTTCCAAAATTAAAAATATAACGGTA
* *
22224421 AATTTGTTCCAAAATTAAAAATATAATGGTA
1 AATTTCTTCCAAAATTAAAAATATAACGGTA
22224452 AA
1 AA
22224454 ACTGCATCAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
30 7 0.26
31 20 0.74
ACGTcount: A:0.48, C:0.06, G:0.10, T:0.37
Consensus pattern (31 bp):
AATTTCTTCCAAAATTAAAAATATAACGGTA
Found at i:22226884 original size:60 final size:58
Alignment explanation
Indices: 22226812--22226992 Score: 229
Period size: 60 Copynumber: 3.0 Consensus size: 58
22226802 CATTTGAGAA
* *
22226812 TTTAAGAAAAATTGATACTTTCAACTTTTTCTTAAAATGTTTTTGTTGATAATTTTTATT
1 TTTAAGAAAAATTGATACTTTCAACTTTTCCTTAAAATATTTTT-TTGA-AATTTTTATT
* * * *
22226872 TTTAAGGAAAATTGGTACTTCCAACTTTTCCTCAAAATATTTTTTT-AAATCTTTTTATT
1 TTTAAGAAAAATTGATACTTTCAACTTTTCCTTAAAATATTTTTTTGAAA--TTTTTATT
* *
22226931 TTCAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTTTGAAAATTTTATT
1 TTTAAGAAAAATTGATACTTTCAACTTTTCCTT-AAAATA-TTTTTTTGAAATTTTTATT
22226991 TT
1 TT
22226993 AGAACTTTTA
Statistics
Matches: 104, Mismatches: 12, Indels: 10
0.83 0.10 0.08
Matches are distributed among these distances:
57 2 0.02
58 1 0.01
59 38 0.37
60 53 0.51
61 7 0.07
62 3 0.03
ACGTcount: A:0.33, C:0.10, G:0.07, T:0.51
Consensus pattern (58 bp):
TTTAAGAAAAATTGATACTTTCAACTTTTCCTTAAAATATTTTTTTGAAATTTTTATT
Found at i:22227075 original size:80 final size:74
Alignment explanation
Indices: 22226924--22227131 Score: 308
Period size: 80 Copynumber: 2.7 Consensus size: 74
22226914 TTTTAAATCT
* *
22226924 TTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTTTGAAAATTTTA
1 TTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTTTGAAAATTTCA
22226989 TTTTAGAAC
66 TTTTAGAAC
* *
22226998 TTTTATTTTTAAGAAAAATTGATATTTTCAACTTTCCCTTAAAAATACTCTTTCTTTTTTTGAAA
1 TTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATA-----T-TTTTTTTGAAA
22227063 ATTTCATTTTAGAAC
60 ATTTCATTTTAGAAC
* *
22227078 TTTTATTTTTAAGGAAAGTTGATACTTTCAACTTTTCCTTAAAAATATTTTTTT
1 TTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTT
22227132 CTCAAAAATA
Statistics
Matches: 120, Mismatches: 8, Indels: 12
0.86 0.06 0.09
Matches are distributed among these distances:
74 50 0.42
75 1 0.01
79 1 0.01
80 68 0.57
ACGTcount: A:0.33, C:0.11, G:0.06, T:0.51
Consensus pattern (74 bp):
TTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTTTGAAAATTTCA
TTTTAGAAC
Found at i:22227249 original size:3 final size:3
Alignment explanation
Indices: 22227236--22227302 Score: 82
Period size: 3 Copynumber: 22.0 Consensus size: 3
22227226 AATTCTAATC
22227236 TAA TAAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -AA
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
22227281 AAA AAA GAAA TAA TAA TAA TAA
1 TAA TAA -TAA TAA TAA TAA TAA
22227303 AAAAAATATA
Statistics
Matches: 60, Mismatches: 1, Indels: 6
0.90 0.01 0.09
Matches are distributed among these distances:
2 2 0.03
3 52 0.87
4 6 0.10
ACGTcount: A:0.72, C:0.00, G:0.01, T:0.27
Consensus pattern (3 bp):
TAA
Found at i:22227292 original size:24 final size:23
Alignment explanation
Indices: 22227240--22227308 Score: 93
Period size: 24 Copynumber: 2.9 Consensus size: 23
22227230 CTAATCTAAT
* *
22227240 AAATAATAATAATAATAATAATAA
1 AAATAATAATAATAA-AAAAAAAA
*
22227264 TAATAATAATAATAAAAAAAAAA
1 AAATAATAATAATAAAAAAAAAA
22227287 GAAATAATAATAATAAAAAAAA
1 -AAATAATAATAATAAAAAAAA
22227309 TATATAAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
23 6 0.15
24 34 0.85
ACGTcount: A:0.75, C:0.00, G:0.01, T:0.23
Consensus pattern (23 bp):
AAATAATAATAATAAAAAAAAAA
Found at i:22227604 original size:11 final size:12
Alignment explanation
Indices: 22227587--22227620 Score: 54
Period size: 10 Copynumber: 3.0 Consensus size: 12
22227577 TTCTTCCCTC
22227587 TCTTTTTTCTCT
1 TCTTTTTTCTCT
22227599 TCTTTTTT-TC-
1 TCTTTTTTCTCT
22227609 TCTTTTTTCTCT
1 TCTTTTTTCTCT
22227621 CTAAAAATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
10 8 0.40
11 4 0.20
12 8 0.40
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (12 bp):
TCTTTTTTCTCT
Found at i:22227621 original size:11 final size:11
Alignment explanation
Indices: 22227584--22227622 Score: 62
Period size: 11 Copynumber: 3.5 Consensus size: 11
22227574 GCTTTCTTCC
22227584 CTCTCTTTTTT
1 CTCTCTTTTTT
22227595 CTCTTCTTTTTT
1 CTC-TCTTTTTT
22227607 -TCTCTTTTTT
1 CTCTCTTTTTT
22227617 CTCTCT
1 CTCTCT
22227623 AAAAATACCT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 8 0.31
11 10 0.38
12 8 0.31
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (11 bp):
CTCTCTTTTTT
Found at i:22228056 original size:3 final size:3
Alignment explanation
Indices: 22228039--22228142 Score: 77
Period size: 3 Copynumber: 33.7 Consensus size: 3
22228029 ATAAAAAAAG
* * *
22228039 ATA AAA ATA AAA ATA ATA GATAA ATA ATA A-A AT- ATA ATA AAA ATA
1 ATA ATA ATA ATA ATA ATA -AT-A ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
22228084 TTA ATA GATAA ATA ATA ATA ATA GTA ATA ATC ATA ATC ATA ATA ATA
1 ATA ATA -AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
22228131 ATGA AAA ATA AT
1 AT-A ATA ATA AT
22228143 TAAATTAAAT
Statistics
Matches: 78, Mismatches: 16, Indels: 14
0.72 0.15 0.13
Matches are distributed among these distances:
2 4 0.05
3 62 0.79
4 10 0.13
5 2 0.03
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:22228059 original size:19 final size:21
Alignment explanation
Indices: 22228037--22228077 Score: 68
Period size: 19 Copynumber: 2.0 Consensus size: 21
22228027 TGATAAAAAA
22228037 AGATAAA-AATAAAA-ATAAT
1 AGATAAATAATAAAATATAAT
22228056 AGATAAATAATAAAATATAAT
1 AGATAAATAATAAAATATAAT
22228077 A
1 A
22228078 AAAATATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 7 0.35
20 7 0.35
21 6 0.30
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (21 bp):
AGATAAATAATAAAATATAAT
Found at i:22228063 original size:17 final size:17
Alignment explanation
Indices: 22228043--22228107 Score: 64
Period size: 17 Copynumber: 3.9 Consensus size: 17
22228033 AAAAAGATAA
22228043 AAATAAAAATAATAGAT
1 AAATAAAAATAATAGAT
22228060 AAATAATAAA-ATATA-AT
1 AAATAA-AAATA-ATAGAT
* *
22228077 AAA-AATATTAATAGAT
1 AAATAAAAATAATAGAT
*
22228093 AAATAATAATAATAG
1 AAATAAAAATAATAG
22228108 TAATAATCAT
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
15 4 0.10
16 8 0.20
17 22 0.55
18 6 0.15
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.28
Consensus pattern (17 bp):
AAATAAAAATAATAGAT
Found at i:22228080 original size:29 final size:34
Alignment explanation
Indices: 22228044--22228113 Score: 103
Period size: 33 Copynumber: 2.1 Consensus size: 34
22228034 AAAAGATAAA
22228044 AATAAAA-A-TAATAGATAAATAATAA-AATA-T
1 AATAAAATATTAATAGATAAATAATAATAATAGT
22228074 AATAAAAATATTAATAGATAAATAATAATAATAGT
1 AAT-AAAATATTAATAGATAAATAATAATAATAGT
22228109 AATAA
1 AATAA
22228114 TCATAATCAT
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
30 3 0.09
31 4 0.11
32 1 0.03
33 17 0.49
34 6 0.17
35 4 0.11
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (34 bp):
AATAAAATATTAATAGATAAATAATAATAATAGT
Found at i:22228150 original size:5 final size:5
Alignment explanation
Indices: 22228140--22228171 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
22228130 AATGAAAAAT
22228140 AATTA AATTA AATTA AATTA AATTA AATTA AA
1 AATTA AATTA AATTA AATTA AATTA AATTA AA
22228172 AAAATGAGCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
AATTA
Found at i:22228425 original size:45 final size:43
Alignment explanation
Indices: 22228370--22228516 Score: 122
Period size: 44 Copynumber: 3.3 Consensus size: 43
22228360 AAATTTTGAT
* *
22228370 CAAAACTCCTCTAAGTAAAGGCTTAACGATTTTGAGTGAAATAAA
1 CAAAGCTCCTCTAAG-AAAGGCTTAACGATTTTGAG-AAAATAAA
* *
22228415 CAAAGCTCCTCT-AGACAGAGGCTCAATGATTTTTGA-AAAATAAA
1 CAAAGCTCCTCTAAGA-A-AGGCTTAACGA-TTTTGAGAAAATAAA
* * *
22228459 TAAAGCTCCTCTAA-ACAGAGGTTTAACGACTTTG-GAAAAATAAA
1 CAAAGCTCCTCTAAGA-A-AGGCTTAACGATTTTGAG-AAAATAAA
*
22228503 TAAAGCTCCTCTAA
1 CAAAGCTCCTCTAA
22228517 ACAGAGGCAT
Statistics
Matches: 87, Mismatches: 9, Indels: 13
0.80 0.08 0.12
Matches are distributed among these distances:
43 5 0.06
44 55 0.63
45 21 0.24
46 6 0.07
ACGTcount: A:0.41, C:0.18, G:0.15, T:0.26
Consensus pattern (43 bp):
CAAAGCTCCTCTAAGAAAGGCTTAACGATTTTGAGAAAATAAA
Found at i:22228471 original size:44 final size:44
Alignment explanation
Indices: 22228408--22228885 Score: 302
Period size: 44 Copynumber: 11.2 Consensus size: 44
22228398 ATTTTGAGTG
* * *
22228408 AAATAAACAAAGCTCCTCTAGACAGAGGCTCAATGATTTTTGAA
1 AAATAAATAAAGCTCCTCTAAACAGAGGCTCAATGACTTTTGAA
* * * *
22228452 AAATAAATAAAGCTCCTCTAAACAGAGGTTTAACGACTTTGGAA
1 AAATAAATAAAGCTCCTCTAAACAGAGGCTCAATGACTTTTGAA
*
22228496 AAATAAATAAAGCTCCTCTAAACAGAGGCATC-ATAACTTTT-AA
1 AAATAAATAAAGCTCCTCTAAACAGAGGC-TCAATGACTTTTGAA
* * * * *
22228539 AAGTAAAT--TGTTCATCTAAACAGAGGCAGCACA--AC-TTTGAA
1 AAATAAATAAAGCTCCTCTAAACAGAGGC-TCA-ATGACTTTTGAA
* * *
22228580 AAATAAATAAAGCTTCTCTAGACAGAGG--CAATACAACTTTTG-A
1 AAATAAATAAAGCTCCTCTAAACAGAGGCTCAAT--GACTTTTGAA
* * * * *
22228623 AAGTAAAT-TA-CTCCTCTAAACAGAGGCTCCATAACTTTTAAAA
1 AAATAAATAAAGCTCCTCTAAACAGAGGCTCAATGACTTTT-GAA
* * ** * *
22228666 AAATAAACAAAGCTTCTCTAATTAGAGGTTCAACGA-TTTTGGAA
1 AAATAAATAAAGCTCCTCTAAACAGAGGCTCAATGACTTTT-GAA
* * *
22228710 AAAAAAATAAAGCTCCTCTAAACAGAGGTTCGATGACTTTT--A
1 AAATAAATAAAGCTCCTCTAAACAGAGGCTCAATGACTTTTGAA
* ** *
22228752 AAATAAAT--TGCTCCTCTAAACAGAAGTTTCACA--ACTTTTAAA
1 AAATAAATAAAGCTCCTCTAAACAG-AGGCTCA-ATGACTTTTGAA
* * * * **
22228794 AAATAAATAAAGCTCTTTTAAGCAGAGGGCTTAACAACTTTTGAA
1 AAATAAATAAAGCTCCTCTAAACAGA-GGCTCAATGACTTTTGAA
* * *
22228839 GAATAAAT-AA-CTCCTCTAAAAAGAGG--CAATGAATTTT-AA
1 AAATAAATAAAGCTCCTCTAAACAGAGGCTCAATGACTTTTGAA
*
22228878 AAGTAAAT
1 AAATAAAT
22228886 GGCTCCTCGA
Statistics
Matches: 336, Mismatches: 71, Indels: 59
0.72 0.15 0.13
Matches are distributed among these distances:
39 9 0.03
40 32 0.10
41 55 0.16
42 21 0.06
43 55 0.16
44 127 0.38
45 37 0.11
ACGTcount: A:0.44, C:0.16, G:0.13, T:0.27
Consensus pattern (44 bp):
AAATAAATAAAGCTCCTCTAAACAGAGGCTCAATGACTTTTGAA
Found at i:22228575 original size:41 final size:40
Alignment explanation
Indices: 22228511--22228665 Score: 139
Period size: 41 Copynumber: 3.8 Consensus size: 40
22228501 AATAAAGCTC
* *
22228511 CTCTAAACAGAGGCATCATAACTTTTAAAAGTAAATTGTT
1 CTCTAAACAGAGGCAACACAACTTTTAAAAGTAAATTGTT
* * * *
22228551 CATCTAAACAGAGGCAGCACAACTTTGAAAAATAAATAAAGCTT
1 C-TCTAAACAGAGGCAACACAACTTTTAAAAGTAAAT--TG-TT
* * * * *
22228595 CTCTAGACAGAGGCAATACAACTTTTGAAAGTAAATTACTC
1 CTCTAAACAGAGGCAACACAACTTTTAAAAGTAAATT-GTT
** *
22228636 CTCTAAACAGAGGCTCCATAACTTTTAAAA
1 CTCTAAACAGAGGCAACACAACTTTTAAAA
22228666 AAATAAACAA
Statistics
Matches: 90, Mismatches: 20, Indels: 9
0.76 0.17 0.08
Matches are distributed among these distances:
40 1 0.01
41 56 0.62
43 30 0.33
44 3 0.03
ACGTcount: A:0.42, C:0.19, G:0.13, T:0.26
Consensus pattern (40 bp):
CTCTAAACAGAGGCAACACAACTTTTAAAAGTAAATTGTT
Found at i:22228605 original size:84 final size:85
Alignment explanation
Indices: 22228487--22228686 Score: 251
Period size: 84 Copynumber: 2.4 Consensus size: 85
22228477 AGGTTTAACG
* * * **
22228487 ACTTTGGAAAAATAAATAAAGCTCCTCTAAACAGAGGC-ATCATAACTTTTAAAAGTAAATTGTT
1 ACTTTAGAAAAATAAATAAAGCTTCTCTAAACAGAGGCAAT-ACAACTTTTAAAAGTAAATTACT
*
22228551 CATCTAAACAGAGGCAGCACA
65 CATCTAAACAGAGGCACCACA
* *
22228572 ACTTT-GAAAAATAAATAAAGCTTCTCTAGACAGAGGCAATACAACTTTTGAAAGTAAATTACTC
1 ACTTTAGAAAAATAAATAAAGCTTCTCTAAACAGAGGCAATACAACTTTTAAAAGTAAATTACTC
* * *
22228636 CTCTAAACAGAGGCTCCATA
66 ATCTAAACAGAGGCACCACA
* *
22228656 ACTTTTAAAAAAATAAACAAAGCTTCTCTAA
1 AC-TTTAGAAAAATAAATAAAGCTTCTCTAA
22228687 TTAGAGGTTC
Statistics
Matches: 99, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
84 68 0.69
85 10 0.10
86 21 0.21
ACGTcount: A:0.44, C:0.18, G:0.12, T:0.26
Consensus pattern (85 bp):
ACTTTAGAAAAATAAATAAAGCTTCTCTAAACAGAGGCAATACAACTTTTAAAAGTAAATTACTC
ATCTAAACAGAGGCACCACA
Found at i:22228789 original size:40 final size:38
Alignment explanation
Indices: 22228713--22228794 Score: 103
Period size: 40 Copynumber: 2.1 Consensus size: 38
22228703 TTTGGAAAAA
**
22228713 AAAATAAAGCTCCTCTAAACAGAGGTTCGATGACTTTT
1 AAAATAAAGCTCCTCTAAACAGAGGTTCGACAACTTTT
*
22228751 AAAATAAATTGCTCCTCTAAACAGAAGTTTC-ACAACTTTT
1 AAAATAAA--GCTCCTCTAAACAG-AGGTTCGACAACTTTT
22228791 AAAA
1 AAAA
22228795 AATAAATAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
38 8 0.21
40 25 0.66
41 5 0.13
ACGTcount: A:0.41, C:0.18, G:0.11, T:0.29
Consensus pattern (38 bp):
AAAATAAAGCTCCTCTAAACAGAGGTTCGACAACTTTT
Found at i:22228798 original size:214 final size:215
Alignment explanation
Indices: 22228420--22228879 Score: 560
Period size: 214 Copynumber: 2.1 Consensus size: 215
22228410 ATAAACAAAG
* * ** * *
22228420 CTCCTCTAGACAGAGGCTCAATGATTTTTGAAAAATAAATAAAGCTCCTCTAAACAGAGGTTTAA
1 CTCCTCTAAACAGAGGCTCAATAATTTTAAAAAAATAAACAAAGCTCCTCTAAACAGAGGTTCAA
* *
22228485 CGACTTTGGAAAAATAAATAAAGCTCCTCTAAACAGAGGCATCATAACTTTTAAAAGTAAATTGT
66 CGACTTTGGAAAAAAAAATAAAGCTCCTCTAAACAGAGGCATCATAACTTTTAAAAGTAAATTGC
* *
22228550 TCATCTAAACAGAGGCAGCACAACTTTGAAAAATAAATAAAGCT-TCTCT-AGACAGA-GGCA-A
131 TCATCTAAACAGAAGCAGCACAACTTTAAAAAATAAATAAAGCTCT-TCTAAG-CAGAGGGCATA
* *
22228611 TACAACTTTTGAA-AGTAAATTA
194 -ACAACTTTTGAAGAATAAATAA
* * **
22228633 CTCCTCTAAACAGAGGCTCCATAACTTTTAAAAAAATAAACAAAGCTTCTCTAATTAGAGGTTCA
1 CTCCTCTAAACAGAGGCTCAATAA-TTTTAAAAAAATAAACAAAGCTCCTCTAAACAGAGGTTCA
* * *
22228698 ACGATTTTGGAAAAAAAAATAAAGCTCCTCTAAACAGAGG-TTCGATGACTTTTAAAA-TAAATT
65 ACGACTTTGGAAAAAAAAATAAAGCTCCTCTAAACAGAGGCATC-ATAACTTTTAAAAGTAAATT
* *** * *
22228761 GCTCCTCTAAACAGAAGTTTCACAACTTTTAAAAAATAAATAAAGCTCTTTTAAGCAGAGGGCTT
129 GCTCATCTAAACAGAAGCAGCACAAC-TTTAAAAAATAAATAAAGCTCTTCTAAGCAGAGGGCAT
22228826 AACAACTTTTGAAGAATAAATAA
193 AACAACTTTTGAAGAATAAATAA
*
22228849 CTCCTCTAAAAAGAGG--CAATGAATTTTAAAA
1 CTCCTCTAAACAGAGGCTCAAT-AATTTTAAAA
22228880 GTAAATGGCT
Statistics
Matches: 211, Mismatches: 27, Indels: 17
0.83 0.11 0.07
Matches are distributed among these distances:
213 49 0.23
214 119 0.56
215 20 0.09
216 23 0.11
ACGTcount: A:0.43, C:0.17, G:0.13, T:0.27
Consensus pattern (215 bp):
CTCCTCTAAACAGAGGCTCAATAATTTTAAAAAAATAAACAAAGCTCCTCTAAACAGAGGTTCAA
CGACTTTGGAAAAAAAAATAAAGCTCCTCTAAACAGAGGCATCATAACTTTTAAAAGTAAATTGC
TCATCTAAACAGAAGCAGCACAACTTTAAAAAATAAATAAAGCTCTTCTAAGCAGAGGGCATAAC
AACTTTTGAAGAATAAATAA
Found at i:22241049 original size:3 final size:3
Alignment explanation
Indices: 22241032--22241129 Score: 83
Period size: 3 Copynumber: 31.7 Consensus size: 3
22241022 GAAAAAAAAG
* * *
22241032 ATA AAA ATA AAA ATA ATA GATAA ATA ATA A-A AT- ATA ATA AAA ATA
1 ATA ATA ATA ATA ATA ATA -AT-A ATA ATA ATA ATA ATA ATA ATA ATA
* * *
22241077 TTA ATA GATAA ATA ATA ATA ATA ATA ATA ATC ATA ATA ATA ATGA AAA
1 ATA ATA -AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA
22241125 ATA AT
1 ATA AT
22241130 TAAATTAAAA
Statistics
Matches: 76, Mismatches: 12, Indels: 14
0.75 0.12 0.14
Matches are distributed among these distances:
2 4 0.05
3 60 0.79
4 10 0.13
5 2 0.03
ACGTcount: A:0.67, C:0.01, G:0.03, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:22241070 original size:21 final size:19
Alignment explanation
Indices: 22241030--22241106 Score: 69
Period size: 19 Copynumber: 4.3 Consensus size: 19
22241020 AAGAAAAAAA
22241030 AGATAAAAATAAAAATAAT
1 AGATAAAAATAAAAATAAT
22241049 AGATAAATAAT-AAAAT-AT
1 AGATAAA-AATAAAAATAAT
*
22241067 A-ATAAAAAT---ATTAAT
1 AGATAAAAATAAAAATAAT
*
22241082 AGATAAATAATAATAATAAT
1 AGATAAA-AATAAAAATAAT
22241102 A-ATAA
1 AGATAA
22241107 TCATAATAAT
Statistics
Matches: 49, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
14 2 0.04
15 3 0.06
16 8 0.16
17 8 0.16
18 3 0.06
19 16 0.33
20 9 0.18
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (19 bp):
AGATAAAAATAAAAATAAT
Found at i:22241712 original size:22 final size:23
Alignment explanation
Indices: 22241687--22241737 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
22241677 AAAATTTGTG
* *
22241687 ATTTAGTTTAAT-AAAATTGATT
1 ATTTAATTTAATAAAAATGGATT
**
22241709 ATTTAATTTCTTAAAAATGGATT
1 ATTTAATTTAATAAAAATGGATT
22241732 ATTTAA
1 ATTTAA
22241738 CTTATATTTC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 9 0.38
23 15 0.62
ACGTcount: A:0.41, C:0.02, G:0.08, T:0.49
Consensus pattern (23 bp):
ATTTAATTTAATAAAAATGGATT
Found at i:22246412 original size:22 final size:22
Alignment explanation
Indices: 22246364--22246405 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
22246354 AATTGAAAAT
*
22246364 AAAAAAAATCTAAAATTTTTCC
1 AAAAAAAATCTAAAAATTTTCC
*
22246386 AAAAAAAATTTAAAAATTTT
1 AAAAAAAATCTAAAAATTTT
22246406 GGAAAAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (22 bp):
AAAAAAAATCTAAAAATTTTCC
Found at i:22246412 original size:23 final size:22
Alignment explanation
Indices: 22246364--22246412 Score: 53
Period size: 23 Copynumber: 2.2 Consensus size: 22
22246354 AATTGAAAAT
* *
22246364 AAAAAAAATCTAAAATTTTTCC
1 AAAAAAAATCTAAAATTTTGCA
* *
22246386 AAAAAAAATTTAAAAATTTTGGA
1 AAAAAAAATCT-AAAATTTTGCA
22246409 AAAA
1 AAAA
22246413 TTAAAAAATT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
22 10 0.45
23 12 0.55
ACGTcount: A:0.61, C:0.06, G:0.04, T:0.29
Consensus pattern (22 bp):
AAAAAAAATCTAAAATTTTGCA
Found at i:22246413 original size:19 final size:17
Alignment explanation
Indices: 22246389--22246443 Score: 65
Period size: 19 Copynumber: 3.0 Consensus size: 17
22246379 TTTTTCCAAA
22246389 AAAAATTTAAAAATTTT
1 AAAAATTTAAAAATTTT
*
22246406 GGAAAAATTAAAAAATTTT
1 --AAAAATTTAAAAATTTT
22246425 AAAAATTATGAAAAATTTT
1 AAAAATT-T-AAAAATTTT
22246444 CATTTTTTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
17 7 0.22
19 25 0.78
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.36
Consensus pattern (17 bp):
AAAAATTTAAAAATTTT
Found at i:22246428 original size:27 final size:27
Alignment explanation
Indices: 22246388--22246441 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
22246378 ATTTTTCCAA
*
22246388 AAAAAATTT-AAAAATTTTGGAAAAATT
1 AAAAAATTTAAAAAATTAT-GAAAAATT
*
22246415 AAAAAATTTTAAAAATTATGAAAAATT
1 AAAAAATTTAAAAAATTATGAAAAATT
22246442 TTCATTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 17 0.68
28 8 0.32
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (27 bp):
AAAAAATTTAAAAAATTATGAAAAATT
Found at i:22246591 original size:10 final size:9
Alignment explanation
Indices: 22246571--22246642 Score: 56
Period size: 10 Copynumber: 7.7 Consensus size: 9
22246561 AATATTTGAG
*
22246571 ATTTTTGAA
1 ATTTTTAAA
22246580 ATATTTTAAA
1 AT-TTTTAAA
*
22246590 A-TTTTAGA
1 ATTTTTAAA
*
22246598 ATTTTGGAAA
1 ATTTT-TAAA
*
22246608 AATTTTAAGA
1 ATTTTTAA-A
22246618 ATTTTTATAA
1 ATTTTTA-AA
*
22246628 ATTTTCAAA
1 ATTTTTAAA
22246637 ATTTTT
1 ATTTTT
22246643 TAATTTTCAA
Statistics
Matches: 49, Mismatches: 9, Indels: 10
0.72 0.13 0.15
Matches are distributed among these distances:
8 7 0.14
9 14 0.29
10 27 0.55
11 1 0.02
ACGTcount: A:0.40, C:0.01, G:0.07, T:0.51
Consensus pattern (9 bp):
ATTTTTAAA
Found at i:22246629 original size:19 final size:18
Alignment explanation
Indices: 22246583--22246642 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 18
22246573 TTTTGAAATA
22246583 TTTTAAAATTTT-AGAAT
1 TTTTAAAATTTTAAGAAT
*
22246600 TTTGGAAAAATTTTAAGAAT
1 TTT--TAAAATTTTAAGAAT
22246620 TTTTATAAATTTTCAA-AAT
1 TTTTA-AAATTTT-AAGAAT
22246639 TTTT
1 TTTT
22246643 TAATTTTCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
17 3 0.08
18 1 0.03
19 22 0.61
20 10 0.28
ACGTcount: A:0.40, C:0.02, G:0.07, T:0.52
Consensus pattern (18 bp):
TTTTAAAATTTTAAGAAT
Found at i:22246649 original size:17 final size:19
Alignment explanation
Indices: 22246607--22246654 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
22246597 AATTTTGGAA
22246607 AAATTTT-AAGAATTTTTAT
1 AAATTTTCAA-AATTTTTAT
22246626 AAATTTTCAAAATTTTT-T
1 AAATTTTCAAAATTTTTAT
22246644 -AATTTTCAAAA
1 AAATTTTCAAAA
22246655 AATTAGTGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.39
18 1 0.04
19 14 0.50
20 2 0.07
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (19 bp):
AAATTTTCAAAATTTTTAT
Found at i:22250869 original size:11 final size:11
Alignment explanation
Indices: 22250850--22250884 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
22250840 ATTCACTTGT
*
22250850 TAATGATATTC
1 TAATAATATTC
22250861 TAATAATATTC
1 TAATAATATTC
*
22250872 TGATAATATTC
1 TAATAATATTC
22250883 TA
1 TA
22250885 GATTGATAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.40, C:0.09, G:0.06, T:0.46
Consensus pattern (11 bp):
TAATAATATTC
Found at i:22250916 original size:11 final size:11
Alignment explanation
Indices: 22250897--22250926 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
22250887 TTGATAATAT
*
22250897 TATTTTAGTAA
1 TATTCTAGTAA
22250908 TATTCTAGTAA
1 TATTCTAGTAA
22250919 TATTCTAG
1 TATTCTAG
22250927 ATTGATTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.33, C:0.07, G:0.10, T:0.50
Consensus pattern (11 bp):
TATTCTAGTAA
Found at i:22250991 original size:11 final size:12
Alignment explanation
Indices: 22250927--22250989 Score: 80
Period size: 11 Copynumber: 5.6 Consensus size: 12
22250917 AATATTCTAG
22250927 ATTGATTT-GAT
1 ATTGATTTAGAT
*
22250938 ATTGATTTAGAG
1 ATTGATTTAGAT
*
22250950 AAT-A-TTAGAT
1 ATTGATTTAGAT
22250960 ATTGATTTA-AT
1 ATTGATTTAGAT
22250971 ATTGATTTAGAT
1 ATTGATTTAGAT
22250983 ATTGATT
1 ATTGATT
22250990 AGGTAATTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
10 7 0.16
11 21 0.48
12 16 0.36
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.49
Consensus pattern (12 bp):
ATTGATTTAGAT
Found at i:22254903 original size:22 final size:22
Alignment explanation
Indices: 22254878--22254920 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
22254868 TGATTATAAG
22254878 ATTTGATT-TAGTTATTATTTTT
1 ATTT-ATTATAGTTATTATTTTT
* *
22254900 ATTTATTATATTTTTTATTTT
1 ATTTATTATAGTTATTATTTT
22254921 ATAATAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 3 0.17
22 15 0.83
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (22 bp):
ATTTATTATAGTTATTATTTTT
Found at i:22254908 original size:16 final size:17
Alignment explanation
Indices: 22254883--22254919 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
22254873 ATAAGATTTG
22254883 ATTTAGTTAT-TATTTTT
1 ATTTAGTTATAT-TTTTT
22254900 ATTTA-TTATATTTTTT
1 ATTTAGTTATATTTTTT
22254916 ATTT
1 ATTT
22254920 TATAATAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (17 bp):
ATTTAGTTATATTTTTT
Found at i:22270799 original size:10 final size:9
Alignment explanation
Indices: 22270780--22270955 Score: 92
Period size: 9 Copynumber: 19.3 Consensus size: 9
22270770 AAAGAAATTT
22270780 TTTAAAAAA
1 TTTAAAAAA
22270789 TTTACAAAAA
1 TTTA-AAAAA
*
22270799 TTCAAAAGAA
1 TTTAAAA-AA
*
22270809 ATTAAAAAA
1 TTTAAAAAA
*
22270818 TTAAAAAAA
1 TTTAAAAAA
* * *
22270827 TCTGAAATA
1 TTTAAAAAA
22270836 TTTAAAAAA
1 TTTAAAAAA
22270845 TTATAAAAAA
1 TT-TAAAAAA
22270855 --T-AAAAA
1 TTTAAAAAA
* * *
22270861 TCTGAAACA
1 TTTAAAAAA
22270870 TTTAAAAAA
1 TTTAAAAAA
* *
22270879 ATAAAAAAA
1 TTTAAAAAA
*
22270888 TTATGAAAACA
1 TT-T-AAAAAA
*
22270899 --TAAGAAA
1 TTTAAAAAA
*
22270906 TTCAAAAAA
1 TTTAAAAAA
* *
22270915 TTCAAAAAT
1 TTTAAAAAA
* *
22270924 TTTGAAAAT
1 TTTAAAAAA
22270933 TTTAATAAAAA
1 TTT-A-AAAAA
22270944 TTTAAAAAA
1 TTTAAAAAA
22270953 TTT
1 TTT
22270956 TTAAAAATGA
Statistics
Matches: 125, Mismatches: 30, Indels: 24
0.70 0.17 0.13
Matches are distributed among these distances:
6 5 0.04
7 5 0.04
8 2 0.02
9 78 0.62
10 23 0.18
11 12 0.10
ACGTcount: A:0.63, C:0.05, G:0.03, T:0.29
Consensus pattern (9 bp):
TTTAAAAAA
Found at i:22270865 original size:34 final size:33
Alignment explanation
Indices: 22270822--22270888 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 33
22270812 AAAAAATTAA
* *
22270822 AAAAATCTGAAATATTTAAAAAATTATAAAAAAT
1 AAAAATCTGAAACATTTAAAAAAATA-AAAAAAT
22270856 AAAAATCTGAAACATTTAAAAAAATAAAAAAAT
1 AAAAATCTGAAACATTTAAAAAAATAAAAAAAT
22270889 TATGAAAACA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 7 0.23
34 24 0.77
ACGTcount: A:0.67, C:0.04, G:0.03, T:0.25
Consensus pattern (33 bp):
AAAAATCTGAAACATTTAAAAAAATAAAAAAAT
Found at i:22270995 original size:17 final size:18
Alignment explanation
Indices: 22270926--22270996 Score: 54
Period size: 18 Copynumber: 3.9 Consensus size: 18
22270916 TCAAAAATTT
* *
22270926 TGAAAATTTTAATAAAAA
1 TGAAAATATTATTAAAAA
* * *
22270944 TTTAAAAAATTTTTAAAAA
1 -TGAAAATATTATTAAAAA
*
22270963 TGAAAATATTAATAAAAA
1 TGAAAATATTATTAAAAA
* *
22270981 T-AAAATTTTCTTAAAA
1 TGAAAATATTATTAAAA
22270997 TTCAAAAAAA
Statistics
Matches: 40, Mismatches: 12, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
17 12 0.30
18 15 0.38
19 13 0.32
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.37
Consensus pattern (18 bp):
TGAAAATATTATTAAAAA
Found at i:22271244 original size:36 final size:35
Alignment explanation
Indices: 22271197--22271281 Score: 116
Period size: 36 Copynumber: 2.4 Consensus size: 35
22271187 AAGTTTTTTA
* * *
22271197 TTTTTATTTTTCAGAATTTTAAAAAAATTTTAAGAT
1 TTTTTAATTTTCAAAAATTTAAAAAAATTTT-AGAT
*
22271233 TTTTTAATTTTCAAAAATTTCAAAAAATTTTAGAT
1 TTTTTAATTTTCAAAAATTTAAAAAAATTTTAGAT
*
22271268 TTTTTTATTTTCAA
1 TTTTTAATTTTCAA
22271282 TTTTTTTTTA
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
35 17 0.39
36 27 0.61
ACGTcount: A:0.38, C:0.05, G:0.04, T:0.54
Consensus pattern (35 bp):
TTTTTAATTTTCAAAAATTTAAAAAAATTTTAGAT
Found at i:22271363 original size:18 final size:18
Alignment explanation
Indices: 22271319--22271362 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
22271309 TTTAAATTTA
22271319 AAAAATTTTATTTTTATG
1 AAAAATTTTATTTTTATG
*
22271337 AAAAATTTTATTTTTTTG
1 AAAAATTTTATTTTTATG
22271355 -AAAATTTT
1 AAAAATTTT
22271363 TGGATTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
17 8 0.32
18 17 0.68
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.57
Consensus pattern (18 bp):
AAAAATTTTATTTTTATG
Found at i:22271386 original size:18 final size:18
Alignment explanation
Indices: 22271320--22271386 Score: 59
Period size: 18 Copynumber: 3.7 Consensus size: 18
22271310 TTAAATTTAA
*
22271320 AAAATTTT-ATTTTTATG
1 AAAATTTTGATTTTTTTG
22271337 AAAAATTTT-ATTTTTTTG
1 -AAAATTTTGATTTTTTTG
22271355 AAAATTTTTGGATTTTTTAT-
1 AAAA-TTTT-GATTTTTT-TG
*
22271375 TAAATTTTGATT
1 AAAATTTTGATT
22271387 AAGTTTTCAT
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
17 4 0.09
18 24 0.56
19 4 0.09
20 10 0.23
21 1 0.02
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (18 bp):
AAAATTTTGATTTTTTTG
Found at i:22271458 original size:27 final size:28
Alignment explanation
Indices: 22271403--22271467 Score: 89
Period size: 27 Copynumber: 2.4 Consensus size: 28
22271393 TCATAATTTT
*
22271403 ATTTTTATAATTTCTAAAAATATTCCAG
1 ATTTTTAAAATTTCTAAAAATATTCCAG
*
22271431 ATATTTTAAAATTT-T-AAAATATTTCAG
1 AT-TTTTAAAATTTCTAAAAATATTCCAG
22271458 ATTTTTAAAA
1 ATTTTTAAAA
22271468 AAATTTAGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
26 8 0.24
27 13 0.38
28 3 0.09
29 10 0.29
ACGTcount: A:0.43, C:0.06, G:0.03, T:0.48
Consensus pattern (28 bp):
ATTTTTAAAATTTCTAAAAATATTCCAG
Found at i:22271497 original size:9 final size:9
Alignment explanation
Indices: 22271434--22271513 Score: 54
Period size: 9 Copynumber: 8.9 Consensus size: 9
22271424 ATTCCAGATA
22271434 TTTTAAAA-
1 TTTTAAAAT
22271442 TTTTAAAAT
1 TTTTAAAAT
* * *
22271451 ATTTCAGAT
1 TTTTAAAAT
*
22271460 TTTTAAAAAA
1 TTTT-AAAAT
* *
22271470 ATTTAGAAT
1 TTTTAAAAT
**
22271479 TTTTTTAAT
1 TTTTAAAAT
*
22271488 TTTTGAAAT
1 TTTTAAAAT
*
22271497 TTTAAAAAT
1 TTTTAAAAT
22271506 TTTTAAAA
1 TTTTAAAA
22271514 AAATTTCTTT
Statistics
Matches: 52, Mismatches: 18, Indels: 3
0.71 0.25 0.04
Matches are distributed among these distances:
8 8 0.15
9 39 0.75
10 5 0.10
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (9 bp):
TTTTAAAAT
Found at i:22274848 original size:13 final size:14
Alignment explanation
Indices: 22274830--22274862 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
22274820 CATCAATACC
22274830 ATAATCTAT-ATCT
1 ATAATCTATAATCT
*
22274843 ATAATCTATAATTT
1 ATAATCTATAATCT
22274857 ATAATC
1 ATAATC
22274863 ATCAGCAGCG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (14 bp):
ATAATCTATAATCT
Found at i:22274851 original size:7 final size:7
Alignment explanation
Indices: 22274830--22274862 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
22274820 CATCAATACC
22274830 ATAATCT
1 ATAATCT
22274837 AT-ATCT
1 ATAATCT
22274843 ATAATCT
1 ATAATCT
*
22274850 ATAATTT
1 ATAATCT
22274857 ATAATC
1 ATAATC
22274863 ATCAGCAGCG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
6 6 0.26
7 17 0.74
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (7 bp):
ATAATCT
Found at i:22285928 original size:15 final size:15
Alignment explanation
Indices: 22285908--22285940 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
22285898 AAATCAATGG
22285908 AAAAAAT-ATACTAAA
1 AAAAAATCA-ACTAAA
22285923 AAAAAATCAACTAAA
1 AAAAAATCAACTAAA
22285938 AAA
1 AAA
22285941 TCCACCAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 16 0.94
16 1 0.06
ACGTcount: A:0.76, C:0.09, G:0.00, T:0.15
Consensus pattern (15 bp):
AAAAAATCAACTAAA
Found at i:22301967 original size:32 final size:32
Alignment explanation
Indices: 22301924--22301996 Score: 110
Period size: 32 Copynumber: 2.3 Consensus size: 32
22301914 AAACTCTTAG
*
22301924 TTATAACAAAGTAAAAACTTATAATATAAATT
1 TTATAACAAAGTAAAAACTTATAACATAAATT
* * *
22301956 TTATAATAAAGTAAAAGCTTGTAACATAAATT
1 TTATAACAAAGTAAAAACTTATAACATAAATT
22301988 TTATAACAA
1 TTATAACAA
22301997 TGGAAGGGAC
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.53, C:0.07, G:0.05, T:0.34
Consensus pattern (32 bp):
TTATAACAAAGTAAAAACTTATAACATAAATT
Found at i:22304055 original size:2 final size:2
Alignment explanation
Indices: 22304048--22304073 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
22304038 TACCATTTGA
22304048 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
22304074 GATGTACTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22310043 original size:1 final size:1
Alignment explanation
Indices: 22310039--22310077 Score: 51
Period size: 1 Copynumber: 39.0 Consensus size: 1
22310029 CATTTTTCTG
** *
22310039 TTTTTTTTTTTTCGTTTTTTTTTGTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
22310078 CTAACAGAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
1 33 1.00
ACGTcount: A:0.00, C:0.03, G:0.05, T:0.92
Consensus pattern (1 bp):
T
Found at i:22311908 original size:28 final size:27
Alignment explanation
Indices: 22311871--22311926 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
22311861 TACCAAATAC
*
22311871 ATTTTTTAGAAAACAAAAAATAAAAAAT
1 ATTTTCTAGAAAA-AAAAAATAAAAAAT
**
22311899 ATTTTCTAGAAAATGAAAATAAAAAAT
1 ATTTTCTAGAAAAAAAAAATAAAAAAT
22311926 A
1 A
22311927 AAAACAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
27 13 0.52
28 12 0.48
ACGTcount: A:0.62, C:0.04, G:0.05, T:0.29
Consensus pattern (27 bp):
ATTTTCTAGAAAAAAAAAATAAAAAAT
Found at i:22315284 original size:2 final size:2
Alignment explanation
Indices: 22315277--22315305 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
22315267 AAAATCTTTT
22315277 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
22315306 CATGGGTTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:22315610 original size:49 final size:46
Alignment explanation
Indices: 22315557--22315678 Score: 104
Period size: 49 Copynumber: 2.5 Consensus size: 46
22315547 TAAAATATTA
*
22315557 TAAAAATAATTTTTTAATATATTTTAAATAAAAATCACGTTTTTGAGAT
1 TAAAAAT-ATTTTTTAATATATTTTAAATAAAAATCACATTTTT-A-AT
* * * * *
22315606 TAAAAACGTGATTTTGT-A-ATATTTTCAATTAAAATTATATTTTTAAT
1 TAAAAA--T-ATTTTTTAATATATTTTAAATAAAAATCACATTTTTAAT
22315653 TATAAAATATATTTTTAATATATTTT
1 TA-AAAATAT-TTTTTAATATATTTT
22315679 TAAGATTAAA
Statistics
Matches: 59, Mismatches: 8, Indels: 13
0.74 0.10 0.16
Matches are distributed among these distances:
45 2 0.03
46 5 0.08
47 5 0.08
48 12 0.20
49 27 0.46
50 1 0.02
51 7 0.12
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (46 bp):
TAAAAATATTTTTTAATATATTTTAAATAAAAATCACATTTTTAAT
Found at i:22315660 original size:20 final size:19
Alignment explanation
Indices: 22315624--22315671 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
22315614 TGATTTTGTA
* *
22315624 ATATTTTCAATTA-AAATT
1 ATATTTTTAATTATAAAAT
22315642 ATATTTTTAATTATAAAAT
1 ATATTTTTAATTATAAAAT
22315661 ATATTTTTAAT
1 ATATTTTTAAT
22315672 ATATTTTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
18 12 0.44
19 15 0.56
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (19 bp):
ATATTTTTAATTATAAAAT
Found at i:22315674 original size:18 final size:19
Alignment explanation
Indices: 22315624--22315674 Score: 70
Period size: 18 Copynumber: 2.7 Consensus size: 19
22315614 TGATTTTGTA
*
22315624 ATATTTTCAAT-TAAAATT
1 ATATTTTTAATATAAAATT
22315642 ATATTTTTAATTATAAAA-T
1 ATATTTTTAA-TATAAAATT
22315661 ATATTTTTAATATA
1 ATATTTTTAATATA
22315675 TTTTTAAGAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
18 13 0.43
19 12 0.40
20 5 0.17
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (19 bp):
ATATTTTTAATATAAAATT
Found at i:22316012 original size:25 final size:23
Alignment explanation
Indices: 22315984--22316086 Score: 88
Period size: 22 Copynumber: 4.3 Consensus size: 23
22315974 AAATTTCAAC
22315984 AAAAATAAT-ATTTTTTTAAATAT
1 AAAAA-AATAATTTTTTTAAATAT
22316007 -AAAAAATAATTTTTTTAGAAT-T
1 AAAAAAATAATTTTTTTA-AATAT
*
22316029 CAACAAAAATAATTTTTTT-AAGAT
1 -AA-AAAAATAATTTTTTTAAATAT
*
22316053 AAAAATATAATTTTTTGTTAAAAATAT
1 AAAAAAATAA-TTTTT-TT--AAATAT
22316080 AAAAAAA
1 AAAAAAA
22316087 ATTAAGTTTT
Statistics
Matches: 65, Mismatches: 4, Indels: 18
0.75 0.05 0.21
Matches are distributed among these distances:
21 3 0.05
22 21 0.32
23 12 0.18
24 4 0.06
25 15 0.23
27 10 0.15
ACGTcount: A:0.54, C:0.02, G:0.03, T:0.41
Consensus pattern (23 bp):
AAAAAAATAATTTTTTTAAATAT
Found at i:22316034 original size:49 final size:48
Alignment explanation
Indices: 22315950--22316068 Score: 145
Period size: 47 Copynumber: 2.4 Consensus size: 48
22315940 TTTTTACTGA
* *
22315950 AAATATGAAAAATACTTATTTTTCAAATTTCAACAAAAATAATATTTTTTT
1 AAATATAAAAAATAATT-TTTTTCAAATTTCAACAAAAAT-A-ATTTTTTT
22316001 AAATATAAAAAATAATTTTTTT-AGAA-TTCAACAAAAATAATTTTTTT
1 AAATATAAAAAATAATTTTTTTCA-AATTTCAACAAAAATAATTTTTTT
*
22316048 AAGATA-AAAATATAATTTTTT
1 AA-ATATAAAAAATAATTTTTT
22316069 GTTAAAAATA
Statistics
Matches: 63, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
47 24 0.38
48 4 0.06
49 13 0.21
50 7 0.11
51 15 0.24
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.43
Consensus pattern (48 bp):
AAATATAAAAAATAATTTTTTTCAAATTTCAACAAAAATAATTTTTTT
Found at i:22324589 original size:100 final size:95
Alignment explanation
Indices: 22324449--22324670 Score: 261
Period size: 100 Copynumber: 2.3 Consensus size: 95
22324439 AAAATGCAAC
* * **
22324449 TTTTAAAAGATTTTTAAATTTTAAAAAATCAAATATTGCTTTTGAGAAAAAT-GAATATAAAAAT
1 TTTTAAATGATTTATAAAGCTT-AAAAATCAAATATTGCTTTTGAGAAAAATAG-ATATAAAAAT
*
22324513 CATTTGGAC-AATTTTTGGAAT-TGTAATATAAAATTTT
64 CATTTGG-CTAA--TTTGGAATATG--ATATAAAA--CT
* * *
22324550 TTTTAAATGGTTTATAAAGCTTAAAAATCAAATGTTGCTTTTGAGAAAAATAGATATAAAAATTA
1 TTTTAAATGATTTATAAAGCTTAAAAATCAAATATTGCTTTTGAGAAAAATAGATATAAAAATCA
*
22324615 TTTGGCTAATTTGGAATATGGTATAAAACT
66 TTTGGCTAATTTGGAATATGATATAAAACT
22324645 TTTTAAATGATTTATAAAGCTTAAAA
1 TTTTAAATGATTTATAAAGCTTAAAA
22324671 TGCATTTTTA
Statistics
Matches: 108, Mismatches: 10, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
95 26 0.24
97 7 0.06
98 8 0.07
99 3 0.03
100 46 0.43
101 18 0.17
ACGTcount: A:0.44, C:0.05, G:0.12, T:0.40
Consensus pattern (95 bp):
TTTTAAATGATTTATAAAGCTTAAAAATCAAATATTGCTTTTGAGAAAAATAGATATAAAAATCA
TTTGGCTAATTTGGAATATGATATAAAACT
Found at i:22328715 original size:44 final size:45
Alignment explanation
Indices: 22328666--22328752 Score: 140
Period size: 44 Copynumber: 2.0 Consensus size: 45
22328656 TTTAATTTTT
*
22328666 AATATTTAATTAAACTAAATTTTAATAAAT-AAATTTAAATTTAA
1 AATATTTAACTAAACTAAATTTTAATAAATGAAATTTAAATTTAA
* *
22328710 AATATTTAACTAAATTAAATTTTAATAAATGAAATTTATATTT
1 AATATTTAACTAAACTAAATTTTAATAAATGAAATTTAAATTT
22328753 TATTTTATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
44 28 0.72
45 11 0.28
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.45
Consensus pattern (45 bp):
AATATTTAACTAAACTAAATTTTAATAAATGAAATTTAAATTTAA
Found at i:22328739 original size:15 final size:15
Alignment explanation
Indices: 22328670--22328746 Score: 63
Period size: 15 Copynumber: 5.1 Consensus size: 15
22328660 ATTTTTAATA
*
22328670 TTTAATTAAACTAAAT
1 TTTAA-TAAATTAAAT
22328686 TTTAATAAA-TAAA-
1 TTTAATAAATTAAAT
*
22328699 TTT-A-AATTTAAAAT
1 TTTAATAAATT-AAAT
22328713 ATTTAACTAAATTAAAT
1 -TTTAA-TAAATTAAAT
*
22328730 TTTAATAAATGAAAT
1 TTTAATAAATTAAAT
22328745 TT
1 TT
22328747 ATATTTTATT
Statistics
Matches: 51, Mismatches: 3, Indels: 15
0.74 0.04 0.22
Matches are distributed among these distances:
11 2 0.04
12 2 0.04
13 6 0.12
14 4 0.08
15 18 0.35
16 11 0.22
17 4 0.08
18 4 0.08
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.44
Consensus pattern (15 bp):
TTTAATAAATTAAAT
Found at i:22329116 original size:20 final size:20
Alignment explanation
Indices: 22329091--22329128 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
22329081 AATTTTTTTC
22329091 ATTAATTTCAT-TATTAAAAA
1 ATTAATTT-ATATATTAAAAA
22329111 ATTAATTTATATATTAAA
1 ATTAATTTATATATTAAA
22329129 GTTTTGACCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (20 bp):
ATTAATTTATATATTAAAAA
Found at i:22335400 original size:24 final size:24
Alignment explanation
Indices: 22335365--22335410 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
22335355 AAATGAAAAA
* * *
22335365 TGAAAAACTGAAGAATAAAAAATG
1 TGAAAAAATGAAAAAAAAAAAATG
22335389 TGAAAAAATGAAAAAAAAAAAA
1 TGAAAAAATGAAAAAAAAAAAA
22335411 GACTCAAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.72, C:0.02, G:0.13, T:0.13
Consensus pattern (24 bp):
TGAAAAAATGAAAAAAAAAAAATG
Found at i:22336621 original size:22 final size:22
Alignment explanation
Indices: 22336565--22336621 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
22336555 ATAATCTCTA
22336565 AGAATTTTCAAATGAGAATATTT
1 AGAATTTT-AAATGAGAATATTT
*
22336588 -GAGTTTTAAATGAGAA-ATTTT
1 AGAATTTTAAATGAGAATA-TTT
*
22336609 AGAATTTTGAATG
1 AGAATTTTAAATG
22336622 TAAATCTCTA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
20 1 0.03
21 12 0.41
22 16 0.55
ACGTcount: A:0.40, C:0.02, G:0.18, T:0.40
Consensus pattern (22 bp):
AGAATTTTAAATGAGAATATTT
Found at i:22336728 original size:38 final size:37
Alignment explanation
Indices: 22336611--22336747 Score: 168
Period size: 37 Copynumber: 3.7 Consensus size: 37
22336601 GAAATTTTAG
*
22336611 AATTTTGAATGTAAATCTCTAAAAATTTTAGCCTT-A
1 AATTTTGAATGTAAATCTCTAAGAATTTTAGCCTTGA
* * *
22336647 GAATTTTGAATGCAAATATTTAAGAATTTTAGCCTTGA
1 -AATTTTGAATGTAAATCTCTAAGAATTTTAGCCTTGA
* *
22336685 AATTTTGAATATGAATCTCTAAGAATTTTGAGCCTTGA
1 AATTTTGAATGTAAATCTCTAAGAATTTT-AGCCTTGA
* * *
22336723 AATTTTAAATGTGAATCACTAAGAA
1 AATTTTGAATGTAAATCTCTAAGAA
22336748 ATTCTTGCGA
Statistics
Matches: 86, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
37 55 0.64
38 31 0.36
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.39
Consensus pattern (37 bp):
AATTTTGAATGTAAATCTCTAAGAATTTTAGCCTTGA
Found at i:22336782 original size:18 final size:18
Alignment explanation
Indices: 22336741--22336789 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
22336731 ATGTGAATCA
*
22336741 CTAAGAAATTCTTGCGAAT
1 CTAA-AAATTCTTGCAAAT
22336760 CTAAAAATTCTTGCAAA-
1 CTAAAAATTCTTGCAAAT
* *
22336777 CTTAAAATCCTTG
1 CTAAAAATTCTTG
22336790 ATAATCAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
17 11 0.41
18 12 0.44
19 4 0.15
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.33
Consensus pattern (18 bp):
CTAAAAATTCTTGCAAAT
Found at i:22336860 original size:18 final size:18
Alignment explanation
Indices: 22336839--22336913 Score: 80
Period size: 18 Copynumber: 4.2 Consensus size: 18
22336829 AATTCTTGCA
*
22336839 AATTTGAAAATTATTATG
1 AATTTGAAAATTCTTATG
* *
22336857 AATTTGATAATTCTTACG
1 AATTTGAAAATTCTTATG
**
22336875 AAGCT-AAAATTCTTATG
1 AATTTGAAAATTCTTATG
* *
22336892 AATTTGATAATTCTTGTG
1 AATTTGAAAATTCTTATG
22336910 AATT
1 AATT
22336914 CTTACGAATC
Statistics
Matches: 45, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
17 13 0.29
18 32 0.71
ACGTcount: A:0.37, C:0.07, G:0.12, T:0.44
Consensus pattern (18 bp):
AATTTGAAAATTCTTATG
Found at i:22336932 original size:17 final size:17
Alignment explanation
Indices: 22336910--22336998 Score: 88
Period size: 17 Copynumber: 5.1 Consensus size: 17
22336900 AATTCTTGTG
22336910 AATTCTTACGAATCTAA
1 AATTCTTACGAATCTAA
* *
22336927 AATTCTTATGAATTTAA
1 AATTCTTACGAATCTAA
* * * *
22336944 TAATTTTTGCAAAGCTAA
1 -AATTCTTACGAATCTAA
* *
22336962 AATTCTTGCAAATCTGAA
1 AATTCTTACGAATCT-AA
22336980 AATTCTTACGAATCTAA
1 AATTCTTACGAATCTAA
22336997 AA
1 AA
22336999 AGTCATTGAA
Statistics
Matches: 58, Mismatches: 12, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
17 32 0.55
18 26 0.45
ACGTcount: A:0.42, C:0.13, G:0.08, T:0.37
Consensus pattern (17 bp):
AATTCTTACGAATCTAA
Found at i:22336997 original size:35 final size:35
Alignment explanation
Indices: 22336910--22336998 Score: 90
Period size: 35 Copynumber: 2.5 Consensus size: 35
22336900 AATTCTTGTG
** *
22336910 AATTCTTACGAATCTAAAATTCTTATGAATTTAAT
1 AATTCTTACGAATCTAAAATTCTTACAAATTGAAT
* * * * *
22336945 AATTTTTGCAAAGCTAAAATTCTTGCAAATCTGAA-
1 AATTCTTACGAATCTAAAATTCTTACAAAT-TGAAT
22336980 AATTCTTACGAATCTAAAA
1 AATTCTTACGAATCTAAAA
22336999 AGTCATTGAA
Statistics
Matches: 41, Mismatches: 12, Indels: 2
0.75 0.22 0.04
Matches are distributed among these distances:
35 38 0.93
36 3 0.07
ACGTcount: A:0.42, C:0.13, G:0.08, T:0.37
Consensus pattern (35 bp):
AATTCTTACGAATCTAAAATTCTTACAAATTGAAT
Found at i:22337386 original size:42 final size:44
Alignment explanation
Indices: 22337300--22337402 Score: 122
Period size: 42 Copynumber: 2.4 Consensus size: 44
22337290 AAATGCTTAC
* * *
22337300 CTTTGAATCTTAGATGTGAATCTCTAAGATTTTTTAATGAGAAT
1 CTTTGAATCTTAGATTTGAATCTCTAAGATATTTCAATGAGAAT
* *
22337344 C-TT-AATCTTAGATTTGAATCTTTAAGA-ATTTCAATTGCGAAT
1 CTTTGAATCTTAGATTTGAATCTCTAAGATATTTCAA-TGAGAAT
*
22337386 CTTTGAATCTTAAATTT
1 CTTTGAATCTTAGATTT
22337403 TTACGAATTT
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
41 5 0.10
42 29 0.58
43 4 0.08
44 12 0.24
ACGTcount: A:0.32, C:0.11, G:0.13, T:0.45
Consensus pattern (44 bp):
CTTTGAATCTTAGATTTGAATCTCTAAGATATTTCAATGAGAAT
Found at i:22337445 original size:16 final size:17
Alignment explanation
Indices: 22337426--22337465 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
22337416 ATCACTTACA
22337426 AATCTTAAAAC-TTATG
1 AATCTTAAAACTTTATG
*
22337442 AATCTTTAAACTTTTATG
1 AATCTTAAAAC-TTTATG
22337460 AATCTT
1 AATCTT
22337466 TGAATTTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 10 0.48
18 11 0.52
ACGTcount: A:0.38, C:0.12, G:0.05, T:0.45
Consensus pattern (17 bp):
AATCTTAAAACTTTATG
Found at i:22337515 original size:18 final size:18
Alignment explanation
Indices: 22337437--22337651 Score: 109
Period size: 18 Copynumber: 11.9 Consensus size: 18
22337427 ATCTTAAAAC
*
22337437 TTATGAATCTTTAAACTT
1 TTATGAATCTTTAAATTT
*
22337455 TTATGAATCTTTGAATTT
1 TTATGAATCTTTAAATTT
* * *
22337473 TTGTGAATCTTTGAATCT
1 TTATGAATCTTTAAATTT
22337491 TTATGAAT-TTTAAATTT
1 TTATGAATCTTTAAATTT
* *
22337508 TTCGTGAACCTTTGAAATTGT
1 TT-ATGAATCTTT-AAATT-T
* * *
22337529 TTATGAGTC-TTGAATTAC
1 TTATGAATCTTTAAATT-T
** *
22337547 TTACAAATC-TGAAATCTT
1 TTATGAATCTTTAAAT-TT
* * *
22337565 TTACGAATTTTTAAACTT
1 TTATGAATCTTTAAATTT
* * *
22337583 TTGTGAATCTTGAATTTT
1 TTATGAATCTTTAAATTT
*
22337601 TTA-GAAT-TTTGAATCTT
1 TTATGAATCTTTAAAT-TT
* * *
22337618 TTACGAA-CATTGAATTT
1 TTATGAATCTTTAAATTT
* *
22337635 TTATGAGTCTTTGAATT
1 TTATGAATCTTTAAATT
22337652 CAATTTATTT
Statistics
Matches: 148, Mismatches: 39, Indels: 20
0.71 0.19 0.10
Matches are distributed among these distances:
16 4 0.03
17 25 0.17
18 97 0.66
19 10 0.07
20 9 0.06
21 3 0.02
ACGTcount: A:0.29, C:0.09, G:0.12, T:0.49
Consensus pattern (18 bp):
TTATGAATCTTTAAATTT
Found at i:22337607 original size:17 final size:18
Alignment explanation
Indices: 22337587--22337636 Score: 59
Period size: 17 Copynumber: 2.8 Consensus size: 18
22337577 AAACTTTTGT
22337587 GAATCTTGAATTTTTTA-
1 GAATCTTGAATTTTTTAC
* *
22337604 GAATTTTGAATCTTTTAC
1 GAATCTTGAATTTTTTAC
22337622 GAA-CATTGAATTTTT
1 GAATC-TTGAATTTTT
22337637 ATGAGTCTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 15 0.56
18 12 0.44
ACGTcount: A:0.30, C:0.08, G:0.12, T:0.50
Consensus pattern (18 bp):
GAATCTTGAATTTTTTAC
Found at i:22337619 original size:35 final size:36
Alignment explanation
Indices: 22337563--22337636 Score: 89
Period size: 35 Copynumber: 2.1 Consensus size: 36
22337553 ATCTGAAATC
* **
22337563 TTTTACGAATTTTTAAACTTTTGTGAATC-TTGAATT
1 TTTTACGAATTTTGAAACTTTTACGAA-CATTGAATT
*
22337599 TTTTA-GAATTTTGAATCTTTTACGAACATTGAATT
1 TTTTACGAATTTTGAAACTTTTACGAACATTGAATT
22337634 TTT
1 TTT
22337637 ATGAGTCTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
34 1 0.03
35 27 0.82
36 5 0.15
ACGTcount: A:0.28, C:0.08, G:0.11, T:0.53
Consensus pattern (36 bp):
TTTTACGAATTTTGAAACTTTTACGAACATTGAATT
Found at i:22337647 original size:126 final size:126
Alignment explanation
Indices: 22337412--22337649 Score: 295
Period size: 126 Copynumber: 1.9 Consensus size: 126
22337402 TTTACGAATT
* *
22337412 TTGAATCACTTACAAATCTTAAAACTTATGAATCTTTAAACTTTTATGAATCTTTGAATTTTTGT
1 TTGAATCACTTACAAATCTGAAAACTTACGAATCTTTAAACTTTTATGAATCTTTGAATTTTTGT
* ** *
22337477 GAATCTTTGAATCTTTATGAATTTTAAATTTTTCGTGAACCTTTGAAATTGTTTATGAGTC
66 GAATCTTTGAATCTTTACGAACATTAAATTTTTCATGAACCTTTGAAATTGTTTATGAGTC
* * * *
22337538 TTGAATTACTTACAAATCTGAAATCTTTTACGAATTTTTAAACTTTTGTGAATC-TTGAATTTTT
1 TTGAATCACTTACAAATCTGAAAAC--TTACGAATCTTTAAACTTTTATGAATCTTTGAATTTTT
* **
22337602 -TAGAAT-TTTGAATCTTTTACGAACATTGAATTTTT-ATGAGTCTTTGAA
64 GT-GAATCTTTGAATC-TTTACGAACATTAAATTTTTCATGAACCTTTGAA
22337650 TTCAATTTAT
Statistics
Matches: 95, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
126 41 0.43
127 30 0.32
128 24 0.25
ACGTcount: A:0.31, C:0.11, G:0.11, T:0.47
Consensus pattern (126 bp):
TTGAATCACTTACAAATCTGAAAACTTACGAATCTTTAAACTTTTATGAATCTTTGAATTTTTGT
GAATCTTTGAATCTTTACGAACATTAAATTTTTCATGAACCTTTGAAATTGTTTATGAGTC
Found at i:22337786 original size:22 final size:21
Alignment explanation
Indices: 22337711--22337786 Score: 61
Period size: 22 Copynumber: 3.6 Consensus size: 21
22337701 CAAGCCTTTA
*
22337711 AATTCAAATTGAGAA-TCGTTG
1 AATTTAAATTGAGAATTC-TTG
22337732 AATTT-AATT-ACGAACTTC-TG
1 AATTTAAATTGA-GAA-TTCTTG
*
22337752 AACTTTAAGTTGAGAATTCTTG
1 AA-TTTAAATTGAGAATTCTTG
22337774 AATTTCAAATTGA
1 AATTT-AAATTGA
22337787 AAATGTATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 15
0.71 0.05 0.24
Matches are distributed among these distances:
19 1 0.02
20 11 0.25
21 13 0.30
22 18 0.41
23 1 0.02
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.38
Consensus pattern (21 bp):
AATTTAAATTGAGAATTCTTG
Found at i:22348032 original size:16 final size:17
Alignment explanation
Indices: 22348002--22348044 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
22347992 TTTGTTTTTG
22348002 ATAAA-ATTTTAAATAA
1 ATAAATATTTTAAATAA
*
22348018 ATAAATATTTT-AATAG
1 ATAAATATTTTAAATAA
22348034 ATCAAATATTT
1 AT-AAATATTT
22348045 AAACAGATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 11 0.46
17 13 0.54
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (17 bp):
ATAAATATTTTAAATAA
Found at i:22348052 original size:17 final size:16
Alignment explanation
Indices: 22348005--22348060 Score: 53
Period size: 17 Copynumber: 3.6 Consensus size: 16
22347995 GTTTTTGATA
* *
22348005 AAAT-TTTAAATAAAT
1 AAATATTTAAACAGAT
* *
22348020 AAATATTTTAATAGAT
1 AAATATTTAAACAGAT
22348036 CAAATATTTAAACAGAT
1 -AAATATTTAAACAGAT
22348053 -AATATTTA
1 AAATATTTA
22348061 TTTAAATAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
15 12 0.34
16 9 0.26
17 14 0.40
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.39
Consensus pattern (16 bp):
AAATATTTAAACAGAT
Found at i:22348144 original size:26 final size:27
Alignment explanation
Indices: 22348103--22348154 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 27
22348093 AAACTTAAAC
*
22348103 AAATATTTAAATGAATTCGAATATTAT
1 AAATATTTAAACGAATTCGAATATTAT
*
22348130 AAATA-TTAAACGAATTTGAATATTA
1 AAATATTTAAACGAATTCGAATATTA
22348155 AGAAATAGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 18 0.78
27 5 0.22
ACGTcount: A:0.50, C:0.04, G:0.08, T:0.38
Consensus pattern (27 bp):
AAATATTTAAACGAATTCGAATATTAT
Found at i:22348160 original size:27 final size:26
Alignment explanation
Indices: 22348103--22348166 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
22348093 AAACTTAAAC
* *
22348103 AAATATTTAAATGAATTCGAATATTAT
1 AAATA-TTAAACGAATTCGAATATTAG
*
22348130 AAATATTAAACGAATTTGAATATTAAG
1 AAATATTAAACGAATTCGAATATT-AG
*
22348157 AAATAGTAAA
1 AAATATTAAA
22348167 GATCTATTCT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 17 0.53
27 15 0.47
ACGTcount: A:0.53, C:0.03, G:0.09, T:0.34
Consensus pattern (26 bp):
AAATATTAAACGAATTCGAATATTAG
Found at i:22348890 original size:22 final size:20
Alignment explanation
Indices: 22348846--22348895 Score: 55
Period size: 22 Copynumber: 2.4 Consensus size: 20
22348836 ATTTTTCATA
*
22348846 TTTTAAATAATATTTTAATTT
1 TTTTAAATAATTTTTTAA-TT
22348867 TTTTAAATCATATTTTTTAATT
1 TTTTAAAT-A-ATTTTTTAATT
*
22348889 TTATAAA
1 TTTTAAA
22348896 ATCGAATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 8 0.32
22 9 0.36
23 8 0.32
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (20 bp):
TTTTAAATAATTTTTTAATT
Found at i:22349890 original size:21 final size:20
Alignment explanation
Indices: 22349865--22349926 Score: 67
Period size: 19 Copynumber: 3.2 Consensus size: 20
22349855 AATTAGTTTG
* *
22349865 ATTTTAAAGAGAGAGAATGA
1 ATTTTTAAGAGAAAGAATGA
*
22349885 ATTTTT-AGAGAAAGTATGA
1 ATTTTTAAGAGAAAGAATGA
22349904 ATTTTT-AGAGAAA-ATATGA
1 ATTTTTAAGAGAAAGA-ATGA
22349923 ATTT
1 ATTT
22349927 AGATGAAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
19 32 0.86
20 5 0.14
ACGTcount: A:0.45, C:0.00, G:0.19, T:0.35
Consensus pattern (20 bp):
ATTTTTAAGAGAAAGAATGA
Found at i:22349903 original size:19 final size:19
Alignment explanation
Indices: 22349881--22349926 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
22349871 AAGAGAGAGA
*
22349881 ATGAATTTTTAGAGAAAGT
1 ATGAATTTTTAGAGAAAAT
22349900 ATGAATTTTTAGAGAAAAT
1 ATGAATTTTTAGAGAAAAT
22349919 ATGAATTT
1 ATGAATTT
22349927 AGATGAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.43, C:0.00, G:0.17, T:0.39
Consensus pattern (19 bp):
ATGAATTTTTAGAGAAAAT
Found at i:22349929 original size:17 final size:18
Alignment explanation
Indices: 22349881--22349935 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 18
22349871 AAGAGAGAGA
*
22349881 ATGAATTTTTAGAGAAAGT
1 ATGAA-TTTTAGAGAAAAT
22349900 ATGAATTTTTAGAGAAAAT
1 ATGAA-TTTTAGAGAAAAT
22349919 ATGAA-TTTAGATGAAAA
1 ATGAATTTTAGA-GAAAA
22349936 AAAAAAGGAA
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
17 6 0.18
18 5 0.15
19 23 0.68
ACGTcount: A:0.47, C:0.00, G:0.18, T:0.35
Consensus pattern (18 bp):
ATGAATTTTAGAGAAAAT
Found at i:22350483 original size:16 final size:16
Alignment explanation
Indices: 22350462--22350493 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
22350452 CCTTTACATC
*
22350462 TCTTTTTTCTTTTTCT
1 TCTTTTCTCTTTTTCT
22350478 TCTTTTCTCTTTTTCT
1 TCTTTTCTCTTTTTCT
22350494 CCTTCCTAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (16 bp):
TCTTTTCTCTTTTTCT
Found at i:22350730 original size:34 final size:34
Alignment explanation
Indices: 22350692--22350784 Score: 118
Period size: 34 Copynumber: 2.7 Consensus size: 34
22350682 TAAAAAATAC
*
22350692 TTTAAACATTTTTGAAAATCCATTTTCAAAAACT
1 TTTAAAGATTTTTGAAAATCCATTTTCAAAAACT
* * *
22350726 TTTAAAGATTTCT-AAACATCTATTTTTAAAAACT
1 TTTAAAGATTTTTGAAA-ATCCATTTTCAAAAACT
22350760 TTTAAGAGA-TTTTGAAAATCCATTT
1 TTTAA-AGATTTTTGAAAATCCATTT
22350785 CATGAAATTT
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
33 3 0.06
34 41 0.82
35 6 0.12
ACGTcount: A:0.40, C:0.12, G:0.05, T:0.43
Consensus pattern (34 bp):
TTTAAAGATTTTTGAAAATCCATTTTCAAAAACT
Found at i:22354855 original size:16 final size:14
Alignment explanation
Indices: 22354827--22354859 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
22354817 TCTGCCCTTT
22354827 TAAAATATATTTTA
1 TAAAATATATTTTA
*
22354841 TAAAATATATTTTT
1 TAAAATATATTTTA
22354855 TAAAA
1 TAAAA
22354860 AGAAAAAATA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
TAAAATATATTTTA
Found at i:22355074 original size:20 final size:20
Alignment explanation
Indices: 22355010--22355078 Score: 66
Period size: 20 Copynumber: 3.4 Consensus size: 20
22355000 AATATATATT
* *
22355010 TTTTAAAAAATTTAAAATTA
1 TTTTAAAAAATTTAATATCA
* ** *
22355030 TGTTAAAAAATGAAATATCCC
1 TTTTAAAAAATTTAATAT-CA
*
22355051 TTTTAAAAAATTTCATATCA
1 TTTTAAAAAATTTAATATCA
22355071 TTTTAAAA
1 TTTTAAAA
22355079 TATTAAGTAT
Statistics
Matches: 37, Mismatches: 11, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
20 23 0.62
21 14 0.38
ACGTcount: A:0.49, C:0.07, G:0.03, T:0.41
Consensus pattern (20 bp):
TTTTAAAAAATTTAATATCA
Found at i:22355345 original size:31 final size:31
Alignment explanation
Indices: 22355308--22355408 Score: 86
Period size: 31 Copynumber: 3.2 Consensus size: 31
22355298 ATATGAATTT
22355308 TTTTAAATGAT-TT-AGAATTTTTTACTTAATA
1 TTTTAAATGATATTAAG-A-TTTTTACTTAATA
* *
22355339 TTTTAAAATGATATTAAGATTTTTATTTAATT
1 TTTT-AAATGATATTAAGATTTTTACTTAATA
*
22355371 TTTTAAATCAATACTT-A-ATTTTTACTTAAT-
1 TTTTAAAT-GATA-TTAAGATTTTTACTTAATA
22355401 TCTTTAAA
1 T-TTTAAA
22355409 ATAATATGTT
Statistics
Matches: 60, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
30 1 0.02
31 26 0.43
32 26 0.43
33 5 0.08
34 2 0.03
ACGTcount: A:0.37, C:0.05, G:0.04, T:0.54
Consensus pattern (31 bp):
TTTTAAATGATATTAAGATTTTTACTTAATA
Found at i:22355350 original size:32 final size:32
Alignment explanation
Indices: 22355326--22355415 Score: 89
Period size: 31 Copynumber: 2.8 Consensus size: 32
22355316 GATTTAGAAT
22355326 TTTTTACTTAATATTTTAAAATGATATTAAGA
1 TTTTTACTTAATATTTTAAAATGATATTAAGA
* * *
22355358 TTTTTATTTAAT-TTTTTAAATCAATACTT-A-A
1 TTTTTACTTAATATTTTAAAAT-GATA-TTAAGA
*
22355389 TTTTTACTTAAT-TCTTTAAAATAATAT
1 TTTTTACTTAATAT-TTTAAAATGATAT
22355416 GTTTTAAGTT
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
30 1 0.02
31 25 0.50
32 22 0.44
33 2 0.04
ACGTcount: A:0.38, C:0.06, G:0.02, T:0.54
Consensus pattern (32 bp):
TTTTTACTTAATATTTTAAAATGATATTAAGA
Found at i:22355685 original size:22 final size:21
Alignment explanation
Indices: 22355642--22355686 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
22355632 TTTGAATATC
* *
22355642 TAAAATTATTTTTTTATATTT
1 TAAAATTATTTTATGATATTT
*
22355663 TAAAATTAGTTTTATGATTTTT
1 TAAAATTA-TTTTATGATATTT
22355685 TA
1 TA
22355687 TTTTTTGATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.62
Consensus pattern (21 bp):
TAAAATTATTTTATGATATTT
Found at i:22369256 original size:42 final size:41
Alignment explanation
Indices: 22369191--22369269 Score: 99
Period size: 41 Copynumber: 1.9 Consensus size: 41
22369181 GTTTATCTAT
*
22369191 TTTTTTAGATGTTTTTAT-CTTTTTAACATTTAAAATTCTTA
1 TTTTTTAGATGTTTTTATATTTTTTAACA-TTAAAATTCTTA
*
22369232 TTTTTTATGAT-TTTTTATTATTTTTTGACATTAAAATT
1 TTTTTTA-GATGTTTTTA-TATTTTTTAACATTAAAATT
22369270 TATAAACTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
41 13 0.39
42 12 0.36
43 8 0.24
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.63
Consensus pattern (41 bp):
TTTTTTAGATGTTTTTATATTTTTTAACATTAAAATTCTTA
Found at i:22369293 original size:26 final size:25
Alignment explanation
Indices: 22369264--22369314 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
22369254 TTTTGACATT
*
22369264 AAAATTTATAAACTTTTAATTTTAAAA
1 AAAATTT-TAAA-TTTTAATATTAAAA
22369291 AAAATTTTAAATTTTAATATTAAA
1 AAAATTTTAAATTTTAATATTAAA
22369315 TATATTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 12 0.52
26 4 0.17
27 7 0.30
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (25 bp):
AAAATTTTAAATTTTAATATTAAAA
Found at i:22372661 original size:29 final size:29
Alignment explanation
Indices: 22372608--22372675 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 29
22372598 ATTCAAACAT
*
22372608 AAAAAATCAACTAAAATAAATAATCAATTG
1 AAAAAATCAACTAAAATAAATAATCAA-TA
22372638 AAAAAAT-AACCTACAAA-AAA-AATCAATA
1 AAAAAATCAA-CTA-AAATAAATAATCAATA
22372666 AAAAAATCAA
1 AAAAAATCAA
22372676 TGAAAAATAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
28 8 0.24
29 10 0.29
30 13 0.38
31 3 0.09
ACGTcount: A:0.69, C:0.12, G:0.01, T:0.18
Consensus pattern (29 bp):
AAAAAATCAACTAAAATAAATAATCAATA
Found at i:22372668 original size:12 final size:12
Alignment explanation
Indices: 22372653--22372693 Score: 57
Period size: 12 Copynumber: 3.3 Consensus size: 12
22372643 ATAACCTACA
22372653 AAAAAAATCAAT
1 AAAAAAATCAAT
22372665 AAAAAAATCAAT
1 AAAAAAATCAAT
22372677 GAAAAATAA-CAAT
1 -AAAAA-AATCAAT
22372690 AAAA
1 AAAA
22372694 TTTTTAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
12 16 0.59
13 9 0.33
14 2 0.07
ACGTcount: A:0.76, C:0.07, G:0.02, T:0.15
Consensus pattern (12 bp):
AAAAAAATCAAT
Found at i:22373014 original size:2 final size:2
Alignment explanation
Indices: 22373007--22373033 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
22372997 AACTAGATAA
22373007 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
22373034 ATTCATGTTG
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:22377194 original size:14 final size:15
Alignment explanation
Indices: 22377175--22377208 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
22377165 AGAGAAAGGC
*
22377175 AAAAAT-AAATAAAT
1 AAAAATAAAAGAAAT
22377189 AAAAATAAAAGAAAT
1 AAAAATAAAAGAAAT
22377204 AAAAA
1 AAAAA
22377209 AAAGTTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (15 bp):
AAAAATAAAAGAAAT
Found at i:22377203 original size:15 final size:14
Alignment explanation
Indices: 22377175--22377212 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
22377165 AGAGAAAGGC
*
22377175 AAAAATAAATAAAT
1 AAAAATAAAGAAAT
22377189 AAAAATAAAAGAAAT
1 AAAAAT-AAAGAAAT
22377204 AAAAA-AAAG
1 AAAAATAAAG
22377213 TTTTAAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 4 0.18
14 6 0.27
15 12 0.55
ACGTcount: A:0.82, C:0.00, G:0.05, T:0.13
Consensus pattern (14 bp):
AAAAATAAAGAAAT
Done.