Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167882.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_15, 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: 22478863
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 61000 characters in sequence are not A, C, G, or T
File 103 of 106
Found at i:21941890 original size:2 final size:2
Alignment explanation
Indices: 21941885--21941947 Score: 65
Period size: 2 Copynumber: 31.5 Consensus size: 2
21941875 TGATGTATGA
* * * * *
21941885 AT AT AT GT AT AT CAT AT AC AT AT AT GT AT GT AT AC AT AT AT AT
1 AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21941928 AT AT AT AT AT AT AT -T AT AT A
1 AT AT AT AT AT AT AT AT AT AT A
21941948 AAGATATGTC
Statistics
Matches: 49, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
1 1 0.02
2 46 0.94
3 2 0.04
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (2 bp):
AT
Found at i:21942629 original size:25 final size:25
Alignment explanation
Indices: 21942597--21942645 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
21942587 GTAACATTCA
* *
21942597 AATATTAATTTTAATAATATATTTC
1 AATATTAATTCTAATAACATATTTC
21942622 AATATTAATTCTAATAACATATTT
1 AATATTAATTCTAATAACATATTT
21942646 TTAAAAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.49
Consensus pattern (25 bp):
AATATTAATTCTAATAACATATTTC
Found at i:21946359 original size:2 final size:2
Alignment explanation
Indices: 21946354--21946381 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
21946344 TCTCTTGTAA
21946354 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21946382 TATCTATAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21951790 original size:5 final size:5
Alignment explanation
Indices: 21951739--21951787 Score: 73
Period size: 5 Copynumber: 10.0 Consensus size: 5
21951729 ATTTTTCTTG
* *
21951739 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT GTTTT GTTTT -TTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT
21951788 TTTGCCTAAA
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
4 4 0.09
5 39 0.91
ACGTcount: A:0.14, C:0.00, G:0.04, T:0.82
Consensus pattern (5 bp):
ATTTT
Found at i:21955002 original size:39 final size:39
Alignment explanation
Indices: 21954927--21955002 Score: 89
Period size: 39 Copynumber: 1.9 Consensus size: 39
21954917 AAAATATATT
* * ** **
21954927 AAATCTTCTAATAGTTTGATAATATTTAATTTAAAATGC
1 AAATCTTCCAATAGTTTGATAAGATAAAATACAAAATGC
*
21954966 AAATCTTCCAATAGTTTGGTAAGATAAAATACAAAAT
1 AAATCTTCCAATAGTTTGATAAGATAAAATACAAAAT
21955003 ATTTTATTAA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
39 30 1.00
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.37
Consensus pattern (39 bp):
AAATCTTCCAATAGTTTGATAAGATAAAATACAAAATGC
Found at i:21958956 original size:93 final size:93
Alignment explanation
Indices: 21958745--21958957 Score: 245
Period size: 93 Copynumber: 2.3 Consensus size: 93
21958735 AACATTAGTA
* * *
21958745 TTTACCCATCCTTTGTTTTGGTTTTTAAGTGATGTAAGATTCATTTATATATGCACAGATGTGCG
1 TTTACCCATCCTTTGTTTTGGTTCTTAAGTGATGTAAGATTCATTTATATATGCACAAATGTGAG
* *
21958810 ACAGATGAAAAGATGGAAATTTATAGAC
66 ACAGAGGAAAAGATGGAAATTTATAAAC
* * * *
21958838 TTTATCCA-CCATTTATTTTGGTTCTTAAGTGATGTAAGATTTATTTGTATATGCACAAATGTGT
1 TTTACCCATCC-TTTGTTTTGGTTCTTAAGTGATGTAAGATTCATTTATATATGCACAAATGTG-
*
21958902 AG-CAGAGGAATGAGATAGG-AATTTATAAAC
64 AGACAGAGGAA-AAGAT-GGAAATTTATAAAC
* * *
21958932 -TTACCCATCCCTTGGTTTGATTCTTA
1 TTTACCCATCCTTTGTTTTGGTTCTTA
21958958 TGCCAATGTA
Statistics
Matches: 100, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
92 2 0.02
93 79 0.79
94 17 0.17
95 2 0.02
ACGTcount: A:0.30, C:0.13, G:0.18, T:0.39
Consensus pattern (93 bp):
TTTACCCATCCTTTGTTTTGGTTCTTAAGTGATGTAAGATTCATTTATATATGCACAAATGTGAG
ACAGAGGAAAAGATGGAAATTTATAAAC
Found at i:21959129 original size:16 final size:16
Alignment explanation
Indices: 21959095--21959131 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
21959085 TGATCTATGT
*
21959095 TATG-TATAATTTTTA
1 TATGATATAAATTTTA
21959110 -ATGATATAAATTTTA
1 TATGATATAAATTTTA
21959125 TATGATA
1 TATGATA
21959132 ATTTGTAGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 3 0.16
15 10 0.53
16 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (16 bp):
TATGATATAAATTTTA
Found at i:21960784 original size:13 final size:13
Alignment explanation
Indices: 21960766--21960802 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
21960756 TTTTTTAGTT
21960766 ATATATATTTAAA
1 ATATATATTTAAA
21960779 ATATAT-TTTAAA
1 ATATATATTTAAA
*
21960791 AT-TAAATTTAAA
1 ATATATATTTAAA
21960803 TAAAAATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
11 2 0.09
12 14 0.64
13 6 0.27
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
ATATATATTTAAA
Found at i:21961951 original size:2 final size:2
Alignment explanation
Indices: 21961913--21961937 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
21961903 ATAAAAATTC
21961913 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 A
21961938 CATAAACTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:21967763 original size:7 final size:7
Alignment explanation
Indices: 21967751--21967787 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
21967741 TTGTTGCAAA
21967751 AAAAAAC
1 AAAAAAC
21967758 AAAAAAC
1 AAAAAAC
21967765 AAAAAAC
1 AAAAAAC
21967772 --AAAAC
1 AAAAAAC
21967777 AAACAAAC
1 AAA-AAAC
21967785 AAA
1 AAA
21967788 CAGTCCGTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
5 5 0.19
7 15 0.56
8 7 0.26
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (7 bp):
AAAAAAC
Found at i:21968181 original size:123 final size:122
Alignment explanation
Indices: 21967959--21968192 Score: 264
Period size: 128 Copynumber: 1.9 Consensus size: 122
21967949 TTAATAAATA
* * * * *
21967959 TTTTTAAAATTATAAAAAAATATTTTTTAAAGATTTTATTTTTTATTTATGAATCCTCTTAAATC
1 TTTTTAAAATTATAAAAAAATATTTTTTAAAAATTGTATTTCTTATTTATGAATCCACTAAAATC
**
21968024 AAATTTTCTTTTGTCTTTTCTTTTTTTTGACCTTTTTTA-TTTTTTAACATTTAGTAAT
66 AAATTTTCTTTTGTCTTTTCTTTTTCAT-ACC-TTTTTACTTTTTTAACATTTAGTAAT
* *
21968082 TTTTTAAAATTATAAATAAAAATATATATTTTTAAAAATTGTATTTCTTAGTTTTTGGATCCACT
1 TTTTTAAAATTAT--A-AAAAA-ATAT-TTTTTAAAAATTGTATTTCTTA-TTTATGAATCCACT
*
21968147 AAAAT-TAATTTT-TTTTGT-TTTT-TTTTTCAT-CCTTTTTACTTTTTTA
60 AAAATCAAATTTTCTTTTGTCTTTTCTTTTTCATACCTTTTTACTTTTTTA
21968193 TTTAAAAAAT
Statistics
Matches: 94, Mismatches: 10, Indels: 14
0.80 0.08 0.12
Matches are distributed among these distances:
122 6 0.06
123 22 0.23
125 7 0.07
126 9 0.10
127 10 0.11
128 25 0.27
129 15 0.16
ACGTcount: A:0.30, C:0.08, G:0.04, T:0.58
Consensus pattern (122 bp):
TTTTTAAAATTATAAAAAAATATTTTTTAAAAATTGTATTTCTTATTTATGAATCCACTAAAATC
AAATTTTCTTTTGTCTTTTCTTTTTCATACCTTTTTACTTTTTTAACATTTAGTAAT
Found at i:21968443 original size:15 final size:16
Alignment explanation
Indices: 21968423--21968452 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
21968413 ACTTTAACAC
21968423 TTCA-TTAATATGATA
1 TTCATTTAATATGATA
21968438 TTCATTTAATATGAT
1 TTCATTTAATATGAT
21968453 TATTTAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.50
Consensus pattern (16 bp):
TTCATTTAATATGATA
Found at i:21972046 original size:16 final size:16
Alignment explanation
Indices: 21972027--21972061 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
21972017 TTTGATGACA
*
21972027 TATCTTTAACAATTGG
1 TATCCTTAACAATTGG
21972043 TATCCTTAACAATTGG
1 TATCCTTAACAATTGG
21972059 TAT
1 TAT
21972062 GAGCTTGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.31, C:0.14, G:0.11, T:0.43
Consensus pattern (16 bp):
TATCCTTAACAATTGG
Found at i:21975520 original size:15 final size:15
Alignment explanation
Indices: 21975488--21975520 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
21975478 TACTTCAAAT
21975488 AAAAATTTTAAAAGA
1 AAAAATTTTAAAAGA
21975503 AAAACATTTTAAAA-A
1 AAAA-ATTTTAAAAGA
21975518 AAA
1 AAA
21975521 GTTGAAAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.24
Consensus pattern (15 bp):
AAAAATTTTAAAAGA
Found at i:21975722 original size:60 final size:60
Alignment explanation
Indices: 21975484--21975961 Score: 399
Period size: 60 Copynumber: 8.0 Consensus size: 60
21975474 AGAATACTTC
* * *
21975484 AAATAAAAATTTTAAAAGAAAAACA-TTTTAAAAAAAAGTTGAAAGTATCAATTTTTCTTGA
1 AAATAAAAATTTT-AAA-AAAAGCATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGA
* * * * * *
21975545 AAATGAAAATTTCAAAAGATA--TTTTTTGAGAAAAAGTTGAAATTATCAATTTTT-TTTA
1 AAATAAAAATTTTAAAA-AAAGCATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGA
** * *
21975603 AAAGTAAAAATTGCAAAAAAAAAAAGGTATTTTTGAGAAAAAATTTGAAAGTATCAATTTTTCTT
1 AAA-TAAAAATT----TTAAAAAAA-GCATTTTTGAG-AAAAAGTTGAAAGTATCAATTTTTCTT
21975668 GA
59 GA
* *
21975670 AAATAAAAATTTTAAAAAAAGCATTTTTGAGGAAAAGTT-AAAGGTATTAATTTTTCTTGA
1 AAATAAAAATTTTAAAAAAAGCATTTTTGAGAAAAAGTTGAAA-GTATCAATTTTTCTTGA
** * * *
21975730 AAATAAAAA-TTCCAAAAAAGCTATTTTTGAGAAAAAGTTGAAAGTATTAACTTTTCTTAA
1 AAATAAAAATTTTAAAAAAAGC-ATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGA
* * * **
21975790 AAATAAAAATTTT-GAAAAAGTATTTTTGAGGAAAAGTTGAAAGTATCAATTTTT-TTTT
1 AAATAAAAATTTTAAAAAAAGCATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGA
* * * * * * * * *
21975848 AAATTATAA-TTTCAAAAAAGCATTTTTTAGGAAAAGTTAAAAGTATCGATTCTTTTTTTA
1 AAATAAAAATTTTAAAAAAAGCATTTTTGAGAAAAAGTTGAAAGTATCAATT-TTTCTTGA
* * * *
21975908 AAATAAAAA-TTT-CAAAATGC---TTTAAGAAAAAGTTGAAAGTATCAAGTTTTCTTG
1 AAATAAAAATTTTAAAAAAAGCATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTG
21975962 TATAAAGGCA
Statistics
Matches: 344, Mismatches: 54, Indels: 44
0.78 0.12 0.10
Matches are distributed among these distances:
55 5 0.01
56 22 0.06
57 3 0.01
58 48 0.14
59 88 0.26
60 95 0.28
61 26 0.08
62 9 0.03
63 4 0.01
65 8 0.02
66 30 0.09
67 6 0.02
ACGTcount: A:0.47, C:0.05, G:0.12, T:0.36
Consensus pattern (60 bp):
AAATAAAAATTTTAAAAAAAGCATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGA
Found at i:21979954 original size:6 final size:7
Alignment explanation
Indices: 21979910--21979972 Score: 65
Period size: 7 Copynumber: 8.4 Consensus size: 7
21979900 ATAATGGATG
21979910 AAATGAAA
1 AAATG-AA
21979918 AAATGAA
1 AAATGAA
21979925 AAA-GCAA
1 AAATG-AA
21979932 CAAATGAA
1 -AAATGAA
21979940 AAATGAA
1 AAATGAA
*
21979947 AAATAAA
1 AAATGAA
21979954 AAAGGTGAA
1 AAA--TGAA
21979963 AAATGAA
1 AAATGAA
21979970 AAA
1 AAA
21979973 AAAAAAAGAA
Statistics
Matches: 48, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
6 1 0.02
7 30 0.62
8 10 0.21
9 7 0.15
ACGTcount: A:0.71, C:0.03, G:0.14, T:0.11
Consensus pattern (7 bp):
AAATGAA
Found at i:21979962 original size:23 final size:23
Alignment explanation
Indices: 21979936--21979980 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
21979926 AAGCAACAAA
*
21979936 TGAAAAATGAAAAATAAAAAAGG
1 TGAAAAATGAAAAAAAAAAAAGG
21979959 TGAAAAATGAAAAAAAAAAAAG
1 TGAAAAATGAAAAAAAAAAAAG
21979981 AAAATGAAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.73, C:0.00, G:0.16, T:0.11
Consensus pattern (23 bp):
TGAAAAATGAAAAAAAAAAAAGG
Found at i:21981174 original size:21 final size:21
Alignment explanation
Indices: 21981132--21981174 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
21981122 TTTTGAATCA
* **
21981132 AAATCCTAAAAATTTTGGATG
1 AAATCATAAAAATTTTAAATG
*
21981153 AAATCATAAAATTTTTAAATG
1 AAATCATAAAAATTTTAAATG
21981174 A
1 A
21981175 GAACCTTTGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.49, C:0.07, G:0.09, T:0.35
Consensus pattern (21 bp):
AAATCATAAAAATTTTAAATG
Found at i:21981290 original size:34 final size:33
Alignment explanation
Indices: 21981252--21981358 Score: 99
Period size: 34 Copynumber: 3.2 Consensus size: 33
21981242 ATCTCCAACA
*
21981252 TGAAAATCTTGTGAATCTCCAATTCTTATGAATT
1 TGAAAA-CTTGTGAATCTCCAATTCTTACGAATT
* * * *
21981286 TGAAAGCCTTGCGAATCTTCAAATT-TTACGAATC
1 TGAAA-ACTTGTGAATC-TCCAATTCTTACGAATT
* * *
21981320 TGAAAACTTTGTGAATTTTCAATTCTTGCGAATT
1 TGAAAAC-TTGTGAATCTCCAATTCTTACGAATT
21981354 TGAAA
1 TGAAA
21981359 GTTTTTACAA
Statistics
Matches: 57, Mismatches: 12, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
33 6 0.11
34 45 0.79
35 6 0.11
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38
Consensus pattern (33 bp):
TGAAAACTTGTGAATCTCCAATTCTTACGAATT
Found at i:21981381 original size:35 final size:35
Alignment explanation
Indices: 21981333--21981560 Score: 148
Period size: 34 Copynumber: 6.6 Consensus size: 35
21981323 AAACTTTGTG
*
21981333 AATTTTCAATTCTTGCGAATTTGAAAGTTTTTACA
1 AATTTTCAATTCTTGCGAATCTGAAAGTTTTTACA
* * * ** *
21981368 AATTTTCATTTCTTGCAAAACTGAAAG-CCTTGCA
1 AATTTTCAATTCTTGCGAATCTGAAAGTTTTTACA
* *
21981402 AATCTTT-AATTCTTGTGAATCTGAAAGTTTTTACG
1 AAT-TTTCAATTCTTGCGAATCTGAAAGTTTTTACA
* * * *
21981437 AA-TCTCTAATTCTTACGAATCT-AAA-TGTCTTGCA
1 AATTTTC-AATTCTTGCGAATCTGAAAGT-TTTTACA
* * * * *
21981471 AATTTTTAATTCTTACGAATCTGAAA-ATCTTACG
1 AATTTTCAATTCTTGCGAATCTGAAAGTTTTTACA
* ***
21981505 AATCTTT-AATTCTTGCGAATCT-AAAATTTTTGTG
1 AAT-TTTCAATTCTTGCGAATCTGAAAGTTTTTACA
* *
21981539 AATCTTCAATTCTTACGAATCT
1 AATTTTCAATTCTTGCGAATCT
21981561 AAAATTCTTG
Statistics
Matches: 150, Mismatches: 33, Indels: 21
0.74 0.16 0.10
Matches are distributed among these distances:
33 8 0.05
34 90 0.60
35 52 0.35
ACGTcount: A:0.32, C:0.16, G:0.11, T:0.42
Consensus pattern (35 bp):
AATTTTCAATTCTTGCGAATCTGAAAGTTTTTACA
Found at i:21981415 original size:34 final size:34
Alignment explanation
Indices: 21981340--21981526 Score: 171
Period size: 34 Copynumber: 5.4 Consensus size: 34
21981330 GTGAATTTTC
* *
21981340 AATTCTTGCGAATTTGAAAGTTTTTACAAAT-TTT
1 AATTCTTGCGAATCTGAAAG-TCTTACAAATCTTT
* * * * *
21981374 CATTTCTTGCAAAACTGAAAGCCTTGCAAATCTTT
1 -AATTCTTGCGAATCTGAAAGTCTTACAAATCTTT
* * * *
21981409 AATTCTTGTGAATCTGAAAGTTTTTACGAATCTCT
1 AATTCTTGCGAATCTGAAAG-TCTTACAAATCTTT
* * *
21981444 AATTCTTACGAATCT-AAATGTCTTGCAAATTTTT
1 AATTCTTGCGAATCTGAAA-GTCTTACAAATCTTT
* * *
21981478 AATTCTTACGAATCTGAAAATCTTACGAATCTTT
1 AATTCTTGCGAATCTGAAAGTCTTACAAATCTTT
21981512 AATTCTTGCGAATCT
1 AATTCTTGCGAATCT
21981527 AAAATTTTTG
Statistics
Matches: 120, Mismatches: 28, Indels: 9
0.76 0.18 0.06
Matches are distributed among these distances:
34 75 0.62
35 45 0.38
ACGTcount: A:0.32, C:0.16, G:0.11, T:0.41
Consensus pattern (34 bp):
AATTCTTGCGAATCTGAAAGTCTTACAAATCTTT
Found at i:21981415 original size:69 final size:69
Alignment explanation
Indices: 21981340--21981518 Score: 184
Period size: 69 Copynumber: 2.6 Consensus size: 69
21981330 GTGAATTTTC
* * * *
21981340 AATTCTTGCGAATTTGAAAGTTTTTACAAAT-TTTCATTTCTTGCAAAACTGAAA-GCCTTGCAA
1 AATTCTTGCGAATCTGAAAGTTTTTACAAATCTCT-AATTCTTACAAAACT-AAATGCCTTGCAA
21981403 ATCTTT
64 ATCTTT
* * * * *
21981409 AATTCTTGTGAATCTGAAAGTTTTTACGAATCTCTAATTCTTACGAATCTAAATGTCTTGCAAAT
1 AATTCTTGCGAATCTGAAAGTTTTTACAAATCTCTAATTCTTACAAAACTAAATGCCTTGCAAAT
*
21981474 TTTT
66 CTTT
* * * * *
21981478 AATTCTTACGAATCTGAAA-ATCTTACGAATCTTTAATTCTT
1 AATTCTTGCGAATCTGAAAGTTTTTACAAATCTCTAATTCTT
21981519 GCGAATCTAA
Statistics
Matches: 93, Mismatches: 15, Indels: 5
0.82 0.13 0.04
Matches are distributed among these distances:
68 22 0.24
69 69 0.74
70 2 0.02
ACGTcount: A:0.32, C:0.16, G:0.11, T:0.42
Consensus pattern (69 bp):
AATTCTTGCGAATCTGAAAGTTTTTACAAATCTCTAATTCTTACAAAACTAAATGCCTTGCAAAT
CTTT
Found at i:21981416 original size:17 final size:17
Alignment explanation
Indices: 21981402--21981598 Score: 119
Period size: 17 Copynumber: 11.5 Consensus size: 17
21981392 AAGCCTTGCA
**
21981402 AATCTTTAATTCTTGTG
1 AATCTTTAATTCTTACG
** *
21981419 AATCTGAAAGTTTTTACG
1 AATCTTTAA-TTCTTACG
*
21981437 AATCTCTAATTCTTACG
1 AATCTTTAATTCTTACG
* * *
21981454 AATC-TAAATGTCTTGCA
1 AATCTTTAAT-TCTTACG
*
21981471 AATTTTTAATTCTTACG
1 AATCTTTAATTCTTACG
** *
21981488 AATCTGAAAATCTTACG
1 AATCTTTAATTCTTACG
*
21981505 AATCTTTAATTCTTGCG
1 AATCTTTAATTCTTACG
** * **
21981522 AATCTAAAATTTTTGTG
1 AATCTTTAATTCTTACG
*
21981539 AATCTTCAATTCTTACG
1 AATCTTTAATTCTTACG
** **
21981556 AATCTAAAATTCTTGTG
1 AATCTTTAATTCTTACG
* *
21981573 AATTTTTGAA-TGTTACG
1 AATCTTT-AATTCTTACG
21981590 AATCTTTAA
1 AATCTTTAA
21981599 ATTGCAAACC
Statistics
Matches: 132, Mismatches: 44, Indels: 9
0.71 0.24 0.05
Matches are distributed among these distances:
16 5 0.04
17 109 0.83
18 18 0.14
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (17 bp):
AATCTTTAATTCTTACG
Found at i:21981492 original size:51 final size:49
Alignment explanation
Indices: 21981432--21981595 Score: 150
Period size: 51 Copynumber: 3.2 Consensus size: 49
21981422 CTGAAAGTTT
*
21981432 TTACGAATCTCTAATTCTTACGAATCTAAATGTCTTGCAAATTTTTAATTC
1 TTACGAATCT-TAATTCTTACGAATCTAAAT-TCTTGCGAATTTTTAATTC
* * * * ** *
21981483 TTACGAATCTGAAAATCTTACGAATCTTTAATTCTTGCGAATCTAAAATTT
1 TTACGAATCT-TAATTCTTACGAATC-TAAATTCTTGCGAATTTTTAATTC
** * *
21981534 TTGTGAATCTTCAATTCTTACGAATCTAAAATTCTTGTGAATTTTTGAA-TG
1 TTACGAATCTT-AATTCTTACGAATCT-AAATTCTTGCGAATTTTT-AATTC
21981585 TTACGAATCTT
1 TTACGAATCTT
21981596 TAAATTGCAA
Statistics
Matches: 88, Mismatches: 21, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
50 1 0.01
51 81 0.92
52 6 0.07
ACGTcount: A:0.32, C:0.15, G:0.10, T:0.43
Consensus pattern (49 bp):
TTACGAATCTTAATTCTTACGAATCTAAATTCTTGCGAATTTTTAATTC
Found at i:21981542 original size:34 final size:34
Alignment explanation
Indices: 21981396--21981594 Score: 188
Period size: 34 Copynumber: 5.8 Consensus size: 34
21981386 AACTGAAAGC
* ** *
21981396 CTTGCAAATCTTTAATTCTTGTGAATCTGAAAGTT
1 CTTGCGAATCTTTAATTCTTACGAATCT-AAAATT
* * *
21981431 TTTACGAATCTCTAATTCTTACGAATCT-AAATGT
1 CTTGCGAATCTTTAATTCTTACGAATCTAAAAT-T
* *
21981465 CTTGCAAATTTTTAATTCTTACGAATCTGAAAA-T
1 CTTGCGAATCTTTAATTCTTACGAATCT-AAAATT
* *
21981499 CTTACGAATCTTTAATTCTTGCGAATCTAAAATT
1 CTTGCGAATCTTTAATTCTTACGAATCTAAAATT
* * *
21981533 TTTGTGAATCTTCAATTCTTACGAATCTAAAATT
1 CTTGCGAATCTTTAATTCTTACGAATCTAAAATT
* * *
21981567 CTTGTGAATTTTTGAA-TGTTACGAATCT
1 CTTGCGAATCTTT-AATTCTTACGAATCT
21981595 TTAAATTGCA
Statistics
Matches: 134, Mismatches: 25, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
33 7 0.05
34 100 0.75
35 24 0.18
36 3 0.02
ACGTcount: A:0.31, C:0.15, G:0.11, T:0.43
Consensus pattern (34 bp):
CTTGCGAATCTTTAATTCTTACGAATCTAAAATT
Found at i:21981956 original size:84 final size:85
Alignment explanation
Indices: 21981757--21981978 Score: 220
Period size: 84 Copynumber: 2.6 Consensus size: 85
21981747 GTAAAGTCAA
* * * *
21981757 ACTTCAGTTCTATCCAAGTCATTTTGTTTT-AGATTTTGATCTATGCCAGATCCTTCTTTGGTTC
1 ACTTCAGTTCCATCCAAGTCATTTAGTTTTGA-ATTTTGACCTATGCCAGATCCTTCATTGGTTC
*
21981821 AATCCAAGTTAATTATTTTAG
65 AATCCAAGTTAATTATCTTAG
* * * **
21981842 ACTTCAGCT-CAGTCC-AGGCTATTTTA-TTTTGAATTTTGACCTATGCC-TATTTTTCATTGGT
1 ACTTCAGTTCCA-TCCAAGTC-A-TTTAGTTTTGAATTTTGACCTATGCCAGATCCTTCATTGGT
** *
21981903 TCGGTCCAAGTTACTTATCTTAG
63 TCAATCCAAGTTAATTATCTTAG
* * * *
21981926 ACTTCAGTTCCATCCAAGTCATTTAGTTTTGGATTTTGGCCCATGCCAAATCC
1 ACTTCAGTTCCATCCAAGTCATTTAGTTTTGAATTTTGACCTATGCCAGATCC
21981979 ATCTTCGGGT
Statistics
Matches: 108, Mismatches: 21, Indels: 16
0.74 0.14 0.11
Matches are distributed among these distances:
83 4 0.04
84 63 0.58
85 37 0.34
86 4 0.04
ACGTcount: A:0.22, C:0.21, G:0.14, T:0.43
Consensus pattern (85 bp):
ACTTCAGTTCCATCCAAGTCATTTAGTTTTGAATTTTGACCTATGCCAGATCCTTCATTGGTTCA
ATCCAAGTTAATTATCTTAG
Found at i:21982036 original size:26 final size:27
Alignment explanation
Indices: 21981985--21982036 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 27
21981975 ATCCATCTTC
* *
21981985 GGGTCATCTTATTTTTAAATTTGATTT
1 GGGTCATCTTATTTTTAAACTCGATTT
21982012 GGGTCA-CTTATTTTTAAACTCGATT
1 GGGTCATCTTATTTTTAAACTCGATT
21982037 CAATCTACAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 17 0.74
27 6 0.26
ACGTcount: A:0.23, C:0.12, G:0.15, T:0.50
Consensus pattern (27 bp):
GGGTCATCTTATTTTTAAACTCGATTT
Found at i:21982192 original size:17 final size:17
Alignment explanation
Indices: 21982157--21982203 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
21982147 CCCTACCCTG
**
21982157 AAAATAAATAAAATGAT
1 AAAATAAATAAAAAAAT
21982174 AAAATAAATAAAAAAAT
1 AAAATAAATAAAAAAAT
*
21982191 AAAA-AGATAAAAA
1 AAAATAAATAAAAA
21982204 CGGTGAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
16 8 0.30
17 19 0.70
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.17
Consensus pattern (17 bp):
AAAATAAATAAAAAAAT
Found at i:21984176 original size:59 final size:58
Alignment explanation
Indices: 21983927--21984419 Score: 459
Period size: 59 Copynumber: 8.3 Consensus size: 58
21983917 TAGAATACCA
* * * * *
21983927 AAAATAAAAACTTCAAAAGAAA-AATATTTTAAAGAAAAGTTGAAAGTATCAATTTTCCTTG
1 AAAATAAAAATTTCAAAA-AAAGTAT-TTTTGAGGAAAAGTT-AAAG-ATCAATTTTTCTTG
** ** *
21983988 AAGGTAAAAATTGAAAAAAAAGGTATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTG
1 AAAATAAAAATTTCAAAAAAA-GTATTTTTGAGGAAAAGTT-AAAG-ATCAATTTTTCTTG
* * *
21984049 AAAATAAAATTTTCAAAAAAAGCATTTTTGAGGAAAAGTTAAAGGTATCAATTTTTCTTA
1 AAAATAAAAATTTCAAAAAAAGTATTTTTGAGGAAAAGTTAAA-G-ATCAATTTTTCTTG
* * *
21984109 AAAATAAAAATTTCAAAAAAAGCATTTTTGAGGAAAAGTTAAA-ATCAATTTTTTTTTTT
1 AAAATAAAAATTTCAAAAAAAGTATTTTTGAGGAAAAGTTAAAGATCAA--TTTTTCTTG
*
21984168 TAAATAAAAATTTCAAAAAAAGTA-TTTTGAGG-AAAGTTGAAAGTATCAACTTTTT-TTG
1 AAAATAAAAATTTCAAAAAAAGTATTTTTGAGGAAAAGTT-AAAG-ATCAA-TTTTTCTTG
*
21984226 AAAATAAAAATTT-TAAAAAAGTATTTTTGAGGAAAAGTTAAAAGTATCAA-TTTTCTTTG
1 AAAATAAAAATTTCAAAAAAAGTATTTTTGAGGAAAAGTT-AAAG-ATCAATTTTTC-TTG
* * * ** *
21984285 AAAATAACAATTTC-AAAAAA-TCTTTTAGAAAAAAAGTTAAAAGTATCAATTTTCCTTG
1 AAAATAAAAATTTCAAAAAAAGTATTTTTGAGGAAAAGTT-AAAG-ATCAATTTTTCTTG
* * * *
21984343 AAAATAACAATTTC-AAAGAAGCATTTTTTAGGAAAAGTTGAAAGTATCAA-TTTTCTTTG
1 AAAATAAAAATTTCAAAAAAAGTATTTTTGAGGAAAAGTT-AAAG-ATCAATTTTTC-TTG
21984402 AAAATAAAAATTTCAAAA
1 AAAATAAAAATTTCAAAA
21984420 CGCTTTAACA
Statistics
Matches: 371, Mismatches: 44, Indels: 35
0.82 0.10 0.08
Matches are distributed among these distances:
57 24 0.06
58 84 0.23
59 116 0.31
60 85 0.23
61 60 0.16
62 2 0.01
ACGTcount: A:0.48, C:0.06, G:0.11, T:0.34
Consensus pattern (58 bp):
AAAATAAAAATTTCAAAAAAAGTATTTTTGAGGAAAAGTTAAAGATCAATTTTTCTTG
Found at i:21984244 original size:117 final size:118
Alignment explanation
Indices: 21983927--21984419 Score: 529
Period size: 117 Copynumber: 4.2 Consensus size: 118
21983917 TAGAATACCA
* * * **
21983927 AAAATAAAAACTTCAAAAGAAAAATATTTTAAAGAAAAGTTGAAAGTATCAATTTTCCTTGAAGG
1 AAAATAAAAATTTC-AAA-AAAAGTATTTTAGAGAAAAGTTGAAAGTATCAATTTTCCTTGAAAA
** * *
21983992 TAAAAATTGAAAAAAAAGGTATTTTTGAGAAAAAGTTGAAAGTATCAATTTT-TCTTG
64 TAAAAATTTTAAAAAAA-GCATTTTTGAGGAAAAGTTGAAAG-ATCAATTTTCT-TTG
* * * * *
21984049 AAAATAAAATTTTCAAAAAAAGCATTTTTGAGGAAAAGTT-AAAGGTATCAATTTTTCTTAAAAA
1 AAAATAAAAATTTCAAAAAAAGTATTTTAGA-GAAAAGTTGAAA-GTATCAATTTTCCTTGAAAA
* * *
21984113 TAAAAATTTCAAAAAAAGCATTTTTGAGGAAAAGTT-AAA-ATCAATTTTTTTTTTT
64 TAAAAATTTTAAAAAAAGCATTTTTGAGGAAAAGTTGAAAGATCAA--TTTTCTTTG
* * *
21984168 TAAATAAAAATTTCAAAAAAAGTATTTT-GAGGAAAGTTGAAAGTATCAACTTTT-TTTGAAAAT
1 AAAATAAAAATTTCAAAAAAAGTATTTTAGAGAAAAGTTGAAAGTATCAA-TTTTCCTTGAAAAT
* *
21984231 AAAAATTTT-AAAAAAGTATTTTTGAGGAAAAGTTAAAAGTATCAATTTTCTTTG
65 AAAAATTTTAAAAAAAGCATTTTTGAGGAAAAGTTGAAAG-ATCAATTTTCTTTG
* * * *
21984285 AAAATAACAATTTC-AAAAAA-TCTTTTAGAAAAAAAGTTAAAAGTATCAATTTTCCTTGAAAAT
1 AAAATAAAAATTTCAAAAAAAGTATTTTAG-AGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT
* * * *
21984348 AACAA-TTTCAAAGAAGCATTTTTTAGGAAAAGTTGAAAGTATCAATTTTCTTTG
65 AAAAATTTTAAAAAAAGCATTTTTGAGGAAAAGTTGAAAG-ATCAATTTTCTTTG
21984402 AAAATAAAAATTTCAAAA
1 AAAATAAAAATTTCAAAA
21984420 CGCTTTAACA
Statistics
Matches: 318, Mismatches: 38, Indels: 34
0.82 0.10 0.09
Matches are distributed among these distances:
115 5 0.02
116 38 0.12
117 139 0.44
118 12 0.04
119 39 0.12
120 31 0.10
121 42 0.13
122 12 0.04
ACGTcount: A:0.48, C:0.06, G:0.11, T:0.34
Consensus pattern (118 bp):
AAAATAAAAATTTCAAAAAAAGTATTTTAGAGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATA
AAAATTTTAAAAAAAGCATTTTTGAGGAAAAGTTGAAAGATCAATTTTCTTTG
Found at i:21985696 original size:2 final size:2
Alignment explanation
Indices: 21985689--21985717 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
21985679 TCTTCCTCCG
21985689 AT 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 AT A
21985718 ATTGTAGTTT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:21989546 original size:30 final size:30
Alignment explanation
Indices: 21989489--21989546 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 30
21989479 TTTTAAAAAA
* *
21989489 AATTTACTTATTAATGAAGTGATATCATCT
1 AATTTACTTATTAATAAAATGATATCATCT
21989519 AATTTACTTTATTAATAAAATGA-ATCAT
1 AATTTAC-TTATTAATAAAATGATATCAT
21989547 TCGAATCATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 12 0.48
31 13 0.52
ACGTcount: A:0.41, C:0.09, G:0.07, T:0.43
Consensus pattern (30 bp):
AATTTACTTATTAATAAAATGATATCATCT
Found at i:21990087 original size:10 final size:10
Alignment explanation
Indices: 21990074--21990103 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
21990064 ATTGAACTTT
21990074 TATATTTTAA
1 TATATTTTAA
21990084 TATATTTTAA
1 TATATTTTAA
21990094 T-TATTTTAA
1 TATATTTTAA
21990103 T
1 T
21990104 TGATAGAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (10 bp):
TATATTTTAA
Found at i:21990993 original size:12 final size:12
Alignment explanation
Indices: 21990971--21991007 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
21990961 TTTTTTAAAA
21990971 ATTTTATTAATT
1 ATTTTATTAATT
21990983 ATTTTATTAATT
1 ATTTTATTAATT
*
21990995 ATTATTTTTAATT
1 ATT-TTATTAATT
21991008 TAAATTTTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 15 0.65
13 8 0.35
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
ATTTTATTAATT
Found at i:21995834 original size:38 final size:39
Alignment explanation
Indices: 21995773--21995847 Score: 143
Period size: 38 Copynumber: 1.9 Consensus size: 39
21995763 AGAAGTTGTA
21995773 GTTTGTACTGTTTTTTGCTGCATACAGTTCAACTATTTT
1 GTTTGTACTGTTTTTTGCTGCATACAGTTCAACTATTTT
21995812 GTTTGTACT-TTTTTTGCTGCATACAGTTCAACTATT
1 GTTTGTACTGTTTTTTGCTGCATACAGTTCAACTATT
21995848 CTGCCATTGC
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
38 27 0.75
39 9 0.25
ACGTcount: A:0.19, C:0.16, G:0.15, T:0.51
Consensus pattern (39 bp):
GTTTGTACTGTTTTTTGCTGCATACAGTTCAACTATTTT
Found at i:21997659 original size:16 final size:16
Alignment explanation
Indices: 21997636--21997719 Score: 80
Period size: 16 Copynumber: 5.3 Consensus size: 16
21997626 ATTATAAATC
*
21997636 AAAATGATTTGAATTT
1 AAAATAATTTGAATTT
* *
21997652 AAATTGATTTGAATTT
1 AAAATAATTTGAATTT
* *
21997668 AAAATAATTTAAAATT
1 AAAATAATTTGAATTT
* *
21997684 GAATTAATTTG-ATTT
1 AAAATAATTTGAATTT
*
21997699 AAAATAAATTGAATTT
1 AAAATAATTTGAATTT
*
21997715 GAAAT
1 AAAAT
21997720 GATTCAGCAT
Statistics
Matches: 54, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
15 11 0.20
16 43 0.80
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.43
Consensus pattern (16 bp):
AAAATAATTTGAATTT
Found at i:21997672 original size:32 final size:31
Alignment explanation
Indices: 21997636--21997723 Score: 97
Period size: 32 Copynumber: 2.8 Consensus size: 31
21997626 ATTATAAATC
*
21997636 AAAATGATTTGAATTTAAATTGATTTGAATTT
1 AAAATAATTTGAATTTAAATTGATTTG-ATTT
* * * *
21997668 AAAATAATTTAAAATTGAATTAATTTGATTT
1 AAAATAATTTGAATTTAAATTGATTTGATTT
*
21997699 AAAATAAATTGAATTTGAAA-TGATT
1 AAAATAATTTGAATTT-AAATTGATT
21997724 CAGCATAAAA
Statistics
Matches: 45, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
31 21 0.47
32 24 0.53
ACGTcount: A:0.47, C:0.00, G:0.10, T:0.43
Consensus pattern (31 bp):
AAAATAATTTGAATTTAAATTGATTTGATTT
Found at i:21997698 original size:21 final size:21
Alignment explanation
Indices: 21997674--21997716 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
21997664 ATTTAAAATA
*
21997674 ATTTAAAATTGAATT-AATTTG
1 ATTTAAAA-TAAATTGAATTTG
21997695 ATTTAAAATAAATTGAATTTG
1 ATTTAAAATAAATTGAATTTG
21997716 A
1 A
21997717 AATGATTCAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (21 bp):
ATTTAAAATAAATTGAATTTG
Found at i:21998555 original size:18 final size:19
Alignment explanation
Indices: 21998524--21998566 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
21998514 ATGTGATAAA
*
21998524 TATTTATATTTAAATTATT
1 TATTTATATTTAAAATATT
21998543 TATTTAT-TTTAAAATATT
1 TATTTATATTTAAAATATT
*
21998561 AATTTA
1 TATTTA
21998567 GTTATTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 15 0.68
19 7 0.32
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
TATTTATATTTAAAATATT
Found at i:21998819 original size:60 final size:60
Alignment explanation
Indices: 21998753--21998871 Score: 186
Period size: 60 Copynumber: 2.0 Consensus size: 60
21998743 AGTAAAAAAT
* *
21998753 TTTTAAAA-ATAATTATTTTTATAATAGATTACACTTTTTATCTAAAAAATGTAGTCTATA
1 TTTTAAAATATAATTATTTTTATAATAAATTACA-TTTTTATCTAAAAAATGTAGCCTATA
* *
21998813 TTTTAAAATATATTTATTTTTATAATAAATTATATTTTTATCTAAAAAATGTAGCCTAT
1 TTTTAAAATATAATTATTTTTATAATAAATTACATTTTTATCTAAAAAATGTAGCCTAT
21998872 GTTAAAAGTA
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
60 32 0.59
61 22 0.41
ACGTcount: A:0.41, C:0.06, G:0.04, T:0.49
Consensus pattern (60 bp):
TTTTAAAATATAATTATTTTTATAATAAATTACATTTTTATCTAAAAAATGTAGCCTATA
Found at i:21998832 original size:136 final size:137
Alignment explanation
Indices: 21998691--21998938 Score: 358
Period size: 137 Copynumber: 1.8 Consensus size: 137
21998681 TTTCTTTATA
* * * *
21998691 TATTTTCATAATATATTATATTTTTTATCTTAAAAACATAATCAATATTGAAAGTA-AAAAATTT
1 TATTTTCATAATAAATTATA-TTTTTATCTAAAAAACATAACCAATATTAAAAGTATAAAAATTT
21998755 TT-AAAAATAATTATTTTTATAATAGATTACACTTTT-TATCTAAAAAATGTAGTCTATATTTTA
65 TTAAAAAATAATTATTTTTATAATAGATTACA-TTTTGTATCTAAAAAATGTAGTCTATATTTTA
21998818 AAATATATT
129 AAATATATT
* ** * * * *
21998827 TATTTTTATAATAAATTATATTTTTATCTAAAAAATGTAGCCTATGTTAAAAGTATAAAATTTTT
1 TATTTTCATAATAAATTATATTTTTATCTAAAAAACATAACCAATATTAAAAGTATAAAAATTTT
21998892 TAAAAAATAATTATTTTTATAATAGATTACATTTTGTATCTAAAAAA
66 TAAAAAATAATTATTTTTATAATAGATTACATTTTGTATCTAAAAAA
21998939 ATAATCTTTT
Statistics
Matches: 98, Mismatches: 11, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
135 27 0.28
136 31 0.32
137 40 0.41
ACGTcount: A:0.44, C:0.05, G:0.04, T:0.46
Consensus pattern (137 bp):
TATTTTCATAATAAATTATATTTTTATCTAAAAAACATAACCAATATTAAAAGTATAAAAATTTT
TAAAAAATAATTATTTTTATAATAGATTACATTTTGTATCTAAAAAATGTAGTCTATATTTTAAA
ATATATT
Found at i:21998850 original size:18 final size:18
Alignment explanation
Indices: 21998809--21998853 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
21998799 AAATGTAGTC
* *
21998809 TATA-TTTTAAAATATAT
1 TATATTTTTATAATAAAT
21998826 T-TATTTTTATAATAAAT
1 TATATTTTTATAATAAAT
21998843 TATATTTTTAT
1 TATATTTTTAT
21998854 CTAAAAAATG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 2 0.08
17 13 0.54
18 9 0.38
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TATATTTTTATAATAAAT
Found at i:21998904 original size:60 final size:59
Alignment explanation
Indices: 21998787--21998909 Score: 135
Period size: 60 Copynumber: 2.1 Consensus size: 59
21998777 TAGATTACAC
* ** * *
21998787 TTTTTATCTAAAAAATGTAGTCTATATTTTAAAATATATTTATTTTTATAATAAATTAT
1 TTTTTATCTAAAAAATGTAGTCTATATGTTAAAATATAAATATTTTTAAAAAAAATTAT
*
21998846 ATTTTTATCTAAAAAATGTAG-C-CTATGTTAAAAGTATAAA-ATTTTTTAAAAAATAATTAT
1 -TTTTTATCTAAAAAATGTAGTCTATATGTTAAAA-TATAAATA-TTTTTAAAAAA-AATTAT
21998906 TTTT
1 TTTT
21998910 ATAATAGATT
Statistics
Matches: 54, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
58 10 0.19
59 18 0.33
60 26 0.48
ACGTcount: A:0.42, C:0.04, G:0.05, T:0.49
Consensus pattern (59 bp):
TTTTTATCTAAAAAATGTAGTCTATATGTTAAAATATAAATATTTTTAAAAAAAATTAT
Found at i:22001435 original size:17 final size:17
Alignment explanation
Indices: 22001415--22001453 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
22001405 TTTCATAATT
22001415 TTAAATTT-ATTTTTTAA
1 TTAAATTTAATTTTTT-A
*
22001432 TTAACTTTAATTTTTTA
1 TTAAATTTAATTTTTTA
22001449 TTAAA
1 TTAAA
22001454 AAATATAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (17 bp):
TTAAATTTAATTTTTTA
Found at i:22002581 original size:6 final size:6
Alignment explanation
Indices: 22002563--22002687 Score: 74
Period size: 6 Copynumber: 19.7 Consensus size: 6
22002553 GGCAATGGGC
* * * *
22002563 ATTTTT ATGTTT ATTTTT ATTTTT ATTTTT ATTATT -TGTCT ATTTATT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTT-TT
* * **
22002611 AATATAT ATTTTT ATTTTT ATTTTT -TTTATCT ATTAAT ATTTTT ATTATTT
1 -ATTTTT ATTTTT ATTTTT ATTTTT ATTT-T-T ATTTTT ATTTTT ATT-TTT
*
22002662 ATCTGCTTTT ATTTTT ATTATT ATTT
1 A--T--TTTT ATTTTT ATTTTT ATTT
22002688 ATCTATTTCT
Statistics
Matches: 90, Mismatches: 18, Indels: 22
0.69 0.14 0.17
Matches are distributed among these distances:
5 5 0.06
6 66 0.73
7 7 0.08
8 6 0.07
9 1 0.01
10 4 0.04
11 1 0.01
ACGTcount: A:0.22, C:0.03, G:0.02, T:0.72
Consensus pattern (6 bp):
ATTTTT
Found at i:22002622 original size:37 final size:35
Alignment explanation
Indices: 22002580--22002650 Score: 106
Period size: 37 Copynumber: 2.0 Consensus size: 35
22002570 TGTTTATTTT
*
22002580 TATTTTTATTTTTATTATTTGTCTATTTATTAATATA
1 TATTTTTATTTTTATT-TTT-TCTATCTATTAATATA
*
22002617 TATTTTTATTTTTATTTTTTTTATCTATTAATAT
1 TATTTTTATTTTTATTTTTTCTATCTATTAATAT
22002651 TTTTATTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
35 13 0.41
36 3 0.09
37 16 0.50
ACGTcount: A:0.25, C:0.03, G:0.01, T:0.70
Consensus pattern (35 bp):
TATTTTTATTTTTATTTTTTCTATCTATTAATATA
Found at i:22002624 original size:31 final size:32
Alignment explanation
Indices: 22002586--22002662 Score: 88
Period size: 31 Copynumber: 2.5 Consensus size: 32
22002576 TTTTTATTTT
22002586 TATTTTTATTATTT-GTCTATTTAT-TAATATA
1 TATTTTTATTATTTAGTCTATTTATCTAATA-A
* * * *
22002617 TATTTTTATT-TTTATTTTTTTTATCTATTAA
1 TATTTTTATTATTTAGTCTATTTATCTAATAA
22002648 TATTTTTATTATTTA
1 TATTTTTATTATTTA
22002663 TCTGCTTTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
30 3 0.08
31 28 0.72
32 8 0.21
ACGTcount: A:0.26, C:0.03, G:0.01, T:0.70
Consensus pattern (32 bp):
TATTTTTATTATTTAGTCTATTTATCTAATAA
Found at i:22002689 original size:26 final size:24
Alignment explanation
Indices: 22002564--22002754 Score: 86
Period size: 23 Copynumber: 7.6 Consensus size: 24
22002554 GCAATGGGCA
* * *
22002564 TTTTTATGTTTATTTTTATTTTTATT
1 TTTTTATTTTTATTATTA--TTTATC
* *
22002590 TTTATTATTTGTCTATTTATTAATATATA
1 TTT-TTATTT-T-TA-TTATT-ATTTATC
*
22002619 TTTTTATTTTTATT-TTTTTTATC
1 TTTTTATTTTTATTATTATTTATC
* * *
22002642 TATTAATATTT-TTATTATTTATC
1 TTTTTATTTTTATTATTATTTATC
22002665 TGCTTTTATTTTTATTATTATTTATC
1 T--TTTTATTTTTATTATTATTTATC
* * * *
22002691 TATTT-CTTTTA-T-TTATCTAATT
1 TTTTTATTTTTATTATTAT-TTATC
* *
22002713 TTTTTGTTATCTATTAATGTATTTATC
1 TTTTTATT-TTTATT-AT-TATTTATC
*
22002740 TTTTTATTTTAATTA
1 TTTTTATTTTTATTA
22002755 ATTTTCAGTT
Statistics
Matches: 123, Mismatches: 26, Indels: 33
0.68 0.14 0.18
Matches are distributed among these distances:
21 4 0.03
22 10 0.08
23 27 0.22
24 8 0.07
25 11 0.09
26 22 0.18
27 17 0.14
28 10 0.08
29 9 0.07
30 4 0.03
31 1 0.01
ACGTcount: A:0.23, C:0.05, G:0.03, T:0.70
Consensus pattern (24 bp):
TTTTTATTTTTATTATTATTTATC
Found at i:22002704 original size:17 final size:16
Alignment explanation
Indices: 22002682--22002750 Score: 59
Period size: 17 Copynumber: 4.2 Consensus size: 16
22002672 ATTTTTATTA
22002682 TTATTTATCTATTTCTT
1 TTATTTATCTATTT-TT
22002699 TTATTTATCTAATTTTT
1 TTATTTATCT-ATTTTT
* **
22002716 TT-GTTATCTATTAAT
1 TTATTTATCTATTTTT
* *
22002731 GTATTTATCTTTTTATT
1 TTATTTATCTATTT-TT
22002748 TTA
1 TTA
22002751 ATTAATTTTC
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
15 5 0.12
16 14 0.35
17 17 0.43
18 4 0.10
ACGTcount: A:0.22, C:0.07, G:0.03, T:0.68
Consensus pattern (16 bp):
TTATTTATCTATTTTT
Found at i:22002705 original size:43 final size:42
Alignment explanation
Indices: 22002626--22002708 Score: 107
Period size: 42 Copynumber: 2.0 Consensus size: 42
22002616 ATATTTTTAT
*
22002626 TTTTATTTTTTTTATCTATTAATATTTTTATTATTTATCTGC
1 TTTTATTTTTATTATCTATTAATATTTTTATTATTTATCTGC
*
22002668 TTTTATTTTTATTAT-TATTTATCTATTTCTT-TTATTTATCT
1 TTTTATTTTTATTATCTA-TTA-ATATTT-TTATTATTTATCT
22002709 AATTTTTTTG
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
41 2 0.06
42 17 0.47
43 15 0.42
44 2 0.06
ACGTcount: A:0.20, C:0.07, G:0.01, T:0.71
Consensus pattern (42 bp):
TTTTATTTTTATTATCTATTAATATTTTTATTATTTATCTGC
Found at i:22002722 original size:20 final size:18
Alignment explanation
Indices: 22002671--22002722 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 18
22002661 TATCTGCTTT
22002671 TATTTTTATTATTATTTATC
1 TATTTTT-TT-TTATTTATC
*
22002691 TA-TTTCTTTTATTTATC
1 TATTTTTTTTTATTTATC
22002708 TAATTTTTTTGTTAT
1 T-ATTTTTTT-TTAT
22002723 CTATTAATGT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
17 10 0.37
18 3 0.11
19 8 0.30
20 6 0.22
ACGTcount: A:0.21, C:0.06, G:0.02, T:0.71
Consensus pattern (18 bp):
TATTTTTTTTTATTTATC
Found at i:22002742 original size:43 final size:40
Alignment explanation
Indices: 22002631--22002748 Score: 107
Period size: 43 Copynumber: 2.8 Consensus size: 40
22002621 TTTATTTTTA
* **
22002631 TTTTTTTTATCTATTAA-TATTTT-TATTATTTATCTGCT
1 TTTTTTTTATCTATTAATTATTTTCTTTTATTTATCTAAT
*
22002669 TTTATTTTTAT-TATTATTTATCTATTTCTTTTATTTATCTAAT
1 TTT-TTTTTATCTATTAATTA--T-TTTCTTTTATTTATCTAAT
22002712 TTTTTTGTTATCTATTAATGTATTTATCTTTTTATTT
1 TTTTTT-TTATCTATTAAT-TATTT-TC-TTTTATTT
22002749 TAATTAATTT
Statistics
Matches: 64, Mismatches: 5, Indels: 16
0.75 0.06 0.19
Matches are distributed among these distances:
38 8 0.12
39 9 0.14
41 1 0.02
42 8 0.12
43 22 0.34
44 14 0.22
45 2 0.03
ACGTcount: A:0.21, C:0.07, G:0.03, T:0.69
Consensus pattern (40 bp):
TTTTTTTTATCTATTAATTATTTTCTTTTATTTATCTAAT
Found at i:22003633 original size:6 final size:6
Alignment explanation
Indices: 22003622--22003675 Score: 69
Period size: 6 Copynumber: 9.5 Consensus size: 6
22003612 GTTTAATACA
* *
22003622 TTTTAT TTTTAT TTTCA- TTTT-T CTTTAT TTTTAT TTTTAT TTTTA-
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
22003667 TTTTAT TTT
1 TTTTAT TTT
22003676 CTTTAAATAA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
5 11 0.27
6 30 0.73
ACGTcount: A:0.15, C:0.04, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTTAT
Found at i:22003648 original size:16 final size:15
Alignment explanation
Indices: 22003629--22003680 Score: 52
Period size: 17 Copynumber: 3.3 Consensus size: 15
22003619 ACATTTTATT
22003629 TTTATTTTCATTTTTC
1 TTTATTTT-ATTTTTC
*
22003645 TTTATTTTTATTTTTATT
1 TTTA-TTTTA-TTTT-TC
22003663 TTTATTTTA-TTTTC
1 TTTATTTTATTTTTC
22003677 TTTA
1 TTTA
22003681 AATAAAATTC
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
14 5 0.16
15 3 0.10
16 5 0.16
17 13 0.42
18 5 0.16
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTATTTTATTTTTC
Found at i:22003651 original size:22 final size:23
Alignment explanation
Indices: 22003623--22003675 Score: 81
Period size: 22 Copynumber: 2.3 Consensus size: 23
22003613 TTTAATACAT
22003623 TTTATTTTTATTTTCATTTTT-C
1 TTTATTTTTATTTTCATTTTTAC
* *
22003645 TTTATTTTTATTTTTATTTTTAT
1 TTTATTTTTATTTTCATTTTTAC
22003668 TTTATTTT
1 TTTATTTT
22003676 CTTTAAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
22 20 0.71
23 8 0.29
ACGTcount: A:0.15, C:0.04, G:0.00, T:0.81
Consensus pattern (23 bp):
TTTATTTTTATTTTCATTTTTAC
Found at i:22003909 original size:57 final size:57
Alignment explanation
Indices: 22003693--22003908 Score: 240
Period size: 59 Copynumber: 3.7 Consensus size: 57
22003683 TAAAATTCAA
* * * * *
22003693 AAAAAATATTTTTTAAAGAAAAGTTAAAAGTATCAATTTTTCTTAAAAATAAGCTTTCTA
1 AAAAAATA-TTTTGAGA-AAAAGTTGAAAGTATCAATTTTTCTTCAAAATAAGCTTT-TT
* * * *
22003753 AAAAAATATTTTTCAGAAAAAATTGAAAGTATTAATTTTTCTTCAAAATAAGCTTTCT
1 AAAAAATA-TTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTCAAAATAAGCTTTTT
*
22003811 AAAAATATACTTTTGAGTAAAAGTTGAAAGTATCAATTTTT-TTCAAAATTAAAG-TTTTT
1 AAAAA-ATA-TTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTCAAAA-T-AAGCTTTTT
22003870 AAAAAATATTTTG-GAGAAAAGTTGAAAGTATCAATTTTT
1 AAAAAATATTTTGAGA-AAAAGTTGAAAGTATCAATTTTT
22003909 TCTATACAAA
Statistics
Matches: 137, Mismatches: 15, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
56 1 0.01
57 28 0.20
58 15 0.11
59 75 0.55
60 18 0.13
ACGTcount: A:0.45, C:0.06, G:0.09, T:0.39
Consensus pattern (57 bp):
AAAAAATATTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTCAAAATAAGCTTTTT
Found at i:22005878 original size:41 final size:39
Alignment explanation
Indices: 22005844--22006016 Score: 107
Period size: 41 Copynumber: 4.3 Consensus size: 39
22005834 AGCAATTTAC
** *
22005844 TTTTTAAAGTTGTGGTGCCTCTATTTAGAGGAGCATTAA
1 TTTTTAAAGTCATGGTGCCTCTACTTAGAGGAGCATTAA
* * * ** *
22005883 TTTTTGAAGTCATGGTGCTTCTACTTAGAGAATTTATTTA
1 TTTTTAAAGTCATGGTGCCTCTACTTAGAGGA-GCATTAA
* * * *
22005923 TTTTTCAAAGTCATTGAGCCTCTGA-TTAGAGGGGCCATTTA
1 TTTTT-AAAGTCATGGTGCCTCT-ACTTAGAGGAG-CATTAA
* * * *
22005964 TTTTTCAAAGTCGTTGAGCCTCTGA-TTAGAGGAGTCATTTA
1 TTTTT-AAAGTCATGGTGCCTCT-ACTTAGAGGAG-CATTAA
22006005 TTTTTCAAAGTC
1 TTTTT-AAAGTC
22006017 GTTAAGCCTC
Statistics
Matches: 110, Mismatches: 20, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
39 26 0.24
40 9 0.08
41 74 0.67
42 1 0.01
ACGTcount: A:0.25, C:0.13, G:0.20, T:0.42
Consensus pattern (39 bp):
TTTTTAAAGTCATGGTGCCTCTACTTAGAGGAGCATTAA
Found at i:22005944 original size:80 final size:82
Alignment explanation
Indices: 22005860--22006123 Score: 213
Period size: 82 Copynumber: 3.2 Consensus size: 82
22005850 AAGTTGTGGT
* * * * *
22005860 GCCTCT-ATTTAGAGGAG-CATTAATTTTT-GAAGTCATGGTGCTTCT-ACTTAGAGAATTTATT
1 GCCTCTGA-TTAGAGGAGCCATTAATTTTTCAAAGTCATGGAGCCTCTGA-TTAGAGAAGTCATT
*
22005921 TATTTTTCAAAGTCATTGA
64 TATTTTTCAAAGTCATTAA
* * * * *
22005940 GCCTCTGATTAGAGGGGCCATTTATTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGTCATTTA
1 GCCTCTGATTAGAGGAGCCATTAATTTTTCAAAGTCATGGAGCCTCTGATTAGAGAAGTCATTTA
*
22006005 TTTTTCAAAGTCGTTAA
66 TTTTTCAAAGTCATTAA
* ** * * * *
22006022 GCCTCTGATTAGGGGAGCCATCT-A-TTTTC-AAGATTGTGGAACCTCTGTTTAGAGGAGCTTTA
1 GCCTCTGATTAGAGGAGCCAT-TAATTTTTCAAAG-TCATGGAGCCTCTGATTAGAGAAG--TCA
22006084 TTTATTTTTTCAAAGTC-TTAGA
62 TTTA-TTTTTCAAAGTCATTA-A
22006106 GCCTCT-ACTTAGAGGAGC
1 GCCTCTGA-TTAGAGGAGC
22006124 TTTGATTAAA
Statistics
Matches: 153, Mismatches: 20, Indels: 18
0.80 0.10 0.09
Matches are distributed among these distances:
80 17 0.11
81 36 0.24
82 60 0.39
83 12 0.08
84 28 0.18
ACGTcount: A:0.25, C:0.16, G:0.21, T:0.39
Consensus pattern (82 bp):
GCCTCTGATTAGAGGAGCCATTAATTTTTCAAAGTCATGGAGCCTCTGATTAGAGAAGTCATTTA
TTTTTCAAAGTCATTAA
Found at i:22006017 original size:41 final size:41
Alignment explanation
Indices: 22005918--22006123 Score: 231
Period size: 41 Copynumber: 5.0 Consensus size: 41
22005908 TAGAGAATTT
* *
22005918 ATTTATTTTTCAAAGTCATTGAGCCTCTGATTAGAGGGGCC
1 ATTTATTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCC
*
22005959 ATTTATTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGTC
1 ATTTATTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCC
* *
22006000 ATTTATTTTTCAAAGTCGTTAAGCCTCTGATTAGGGGAGCC
1 ATTTATTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCC
* * * * * *
22006041 ATCTA-TTTTC-AAGATTGTGGAACCTCTGTTTAGAGGAGCTTT
1 ATTTATTTTTCAAAG-TCGTTGAGCCTCTGATTAGAGGAGC--C
22006083 ATTTATTTTTTCAAAGTC-TTAGAGCCTCT-ACTTAGAGGAGC
1 ATTTA-TTTTTCAAAGTCGTT-GAGCCTCTGA-TTAGAGGAGC
22006124 TTTGATTAAA
Statistics
Matches: 138, Mismatches: 19, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
39 3 0.02
40 24 0.17
41 80 0.58
42 4 0.03
43 1 0.01
44 23 0.17
45 3 0.02
ACGTcount: A:0.25, C:0.16, G:0.21, T:0.38
Consensus pattern (41 bp):
ATTTATTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCC
Found at i:22006364 original size:12 final size:13
Alignment explanation
Indices: 22006347--22006426 Score: 60
Period size: 13 Copynumber: 6.0 Consensus size: 13
22006337 CCCAATGGAC
22006347 TTTTTATT-TTTA
1 TTTTTATTATTTA
22006359 TTTTTATTATTTA
1 TTTTTATTATTTA
*
22006372 TGTATTTATTAATATA
1 T-T-TTTATT-ATTTA
22006388 TTTTT-TTA-TTA
1 TTTTTATTATTTA
22006399 TTATTTATCTATTT-
1 TT-TTTAT-TATTTA
*
22006413 CTTTTATTTATTTA
1 TTTTTA-TTATTTA
22006427 ATTATTTTTT
Statistics
Matches: 55, Mismatches: 3, Indels: 18
0.72 0.04 0.24
Matches are distributed among these distances:
11 4 0.07
12 12 0.22
13 17 0.31
14 8 0.15
15 9 0.16
16 5 0.09
ACGTcount: A:0.24, C:0.03, G:0.01, T:0.72
Consensus pattern (13 bp):
TTTTTATTATTTA
Found at i:22006381 original size:4 final size:4
Alignment explanation
Indices: 22006355--22006468 Score: 58
Period size: 4 Copynumber: 28.8 Consensus size: 4
22006345 ACTTTTTATT
* * * * *
22006355 TTTA TTTT TATTA TTTA TGTA TTTA TTAA TATA TTTT TTTA -TTA -TTA
1 TTTA TTTA T-TTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* * * * *
22006402 TTTA TCTA TTTCT TTTA TTTA TTTA ATTA TTT- TTT- TGTTA TCTA TTAA
1 TTTA TTTA TTT-A TTTA TTTA TTTA TTTA TTTA TTTA T-TTA TTTA TTTA
*
22006450 TATA TTTA TCTT- TTTA TTT
1 TTTA TTTA T-TTA TTTA TTT
22006469 TGATTAATTT
Statistics
Matches: 81, Mismatches: 22, Indels: 14
0.69 0.19 0.12
Matches are distributed among these distances:
3 12 0.15
4 60 0.74
5 9 0.11
ACGTcount: A:0.25, C:0.04, G:0.02, T:0.70
Consensus pattern (4 bp):
TTTA
Found at i:22006421 original size:43 final size:44
Alignment explanation
Indices: 22006374--22006456 Score: 116
Period size: 43 Copynumber: 1.9 Consensus size: 44
22006364 ATTATTTATG
* *
22006374 TATTTA-TTAATATATTTTTTTATTAT-TATTTATCTATTTCTTT
1 TATTTATTTAAT-TATTTTTTTATTATCTATTAATATATTTCTTT
*
22006417 TATTTATTTAATTATTTTTTTGTTATCTATTAATATATTT
1 TATTTATTTAATTATTTTTTTATTATCTATTAATATATTT
22006457 ATCTTTTTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
43 19 0.54
44 16 0.46
ACGTcount: A:0.27, C:0.04, G:0.01, T:0.69
Consensus pattern (44 bp):
TATTTATTTAATTATTTTTTTATTATCTATTAATATATTTCTTT
Found at i:22007377 original size:14 final size:14
Alignment explanation
Indices: 22007358--22007389 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
22007348 TAATACATTT
22007358 TTTATTTTATTTTA
1 TTTATTTTATTTTA
*
22007372 TTTATTTTATTTTC
1 TTTATTTTATTTTA
22007386 TTTA
1 TTTA
22007390 AATAAAATTC
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:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (14 bp):
TTTATTTTATTTTA
Found at i:22007471 original size:58 final size:56
Alignment explanation
Indices: 22007403--22007615 Score: 293
Period size: 58 Copynumber: 3.7 Consensus size: 56
22007393 AAAATTCAAA
* *
22007403 AAAAATATTTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGCTTTCC
1 AAAAATA-TTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAG-TTTTC
*
22007461 AAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAGTTTTC
1 AAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAGTTTTC
* * * *
22007517 AAAAACGGATTTTTGAGAAAAAGTTGAAAGTATTAATTTTTCTTAAAAATAAGTTTTC
1 AAAAA--TATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAGTTTTC
22007575 AAAAATGGATTTTTGAA-GAAAAGTTGAAAGTATCAATTTTT
1 AAAAAT--ATTTTT-AAGGAAAAGTTGAAAGTATCAATTTTT
22007616 TCTGTACAAA
Statistics
Matches: 140, Mismatches: 10, Indels: 10
0.88 0.06 0.06
Matches are distributed among these distances:
56 9 0.06
57 42 0.30
58 88 0.63
59 1 0.01
ACGTcount: A:0.43, C:0.06, G:0.13, T:0.38
Consensus pattern (56 bp):
AAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAGTTTTC
Found at i:22009440 original size:194 final size:190
Alignment explanation
Indices: 22009163--22009510 Score: 516
Period size: 194 Copynumber: 1.8 Consensus size: 190
22009153 ACATACACAC
* * * * *
22009163 ATATATATTTGGAACCATAATTAAATTGAAAATATGATAAATTAAGATTTAATATATTTTAATTT
1 ATATATATTTGGAACCATAATTAAATTAAAAAAAAGATAAATTAAGATTTAATATATTTGAATTC
* * ** * *
22009228 AAAATTTATGTTAAATTTTCAATCTTTGATATATTTTGATTTGAATTTAAATAATTATCCAAAAA
66 AAAATTTATATAAAATTTTCAATCTCAGATAGATTTTGATTTAAATTTAAATAATTAT-CAAAAA
22009293 TATTAAATTTAAATAATTTATTAAATAGAATTATTTGGCAGAAAATAAATATTTATTAAGT
130 TATTAAATTTAAATAATTTATTAAATAGAATTATTTGGCAGAAAATAAATATTTATTAAGT
* * **
22009354 ATATATATTTGGAATCATGATTAAATTTAAAAAGAAAAGATAAATTATTATTTAATATATTTGAA
1 ATATATATTTGGAACCATAATTAAA-TT-AAAA-AAAAGATAAATTAAGATTTAATATATTTGAA
*
22009419 TTCAAAATTTATATAAAATTTTCAATCTCAGATAGATTTTGATTTAAATTTAAATAATTATCTAA
63 TTCAAAATTTATATAAAATTTTCAATCTCAGATAGATTTTGATTTAAATTTAAATAATTATCAAA
22009484 AATATTAAATTTAAATAATTTATTAAA
128 AATATTAAATTTAAATAATTTATTAAA
22009511 GAAATTTATT
Statistics
Matches: 138, Mismatches: 16, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
191 23 0.17
192 2 0.01
193 33 0.24
194 80 0.58
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.43
Consensus pattern (190 bp):
ATATATATTTGGAACCATAATTAAATTAAAAAAAAGATAAATTAAGATTTAATATATTTGAATTC
AAAATTTATATAAAATTTTCAATCTCAGATAGATTTTGATTTAAATTTAAATAATTATCAAAAAT
ATTAAATTTAAATAATTTATTAAATAGAATTATTTGGCAGAAAATAAATATTTATTAAGT
Found at i:22009521 original size:26 final size:26
Alignment explanation
Indices: 22009462--22009516 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
22009452 AGATTTTGAT
*
22009462 TTAAATTTAAATAATTATCTAAAATA
1 TTAAATTTAAATAATTATCTAAAAAA
22009488 TTAAATTTAAATAATTTAT-TAAAGAAA
1 TTAAATTTAAATAA-TTATCTAAA-AAA
22009515 TT
1 TT
22009517 TATTTGATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 18 0.69
27 8 0.31
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (26 bp):
TTAAATTTAAATAATTATCTAAAAAA
Found at i:22010249 original size:23 final size:22
Alignment explanation
Indices: 22010208--22010250 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
22010198 AATTGATTGT
*
22010208 TCAACGAAAAATAATTTATTAG
1 TCAACGAAAAATAAATTATTAG
*
22010230 TCAATGAAAAATAAGATTATT
1 TCAACGAAAAATAA-ATTATT
22010251 TTCTAAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.51, C:0.07, G:0.09, T:0.33
Consensus pattern (22 bp):
TCAACGAAAAATAAATTATTAG
Found at i:22010427 original size:21 final size:20
Alignment explanation
Indices: 22010403--22010448 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
22010393 TAATTTAACC
*
22010403 TAATTCAAAATATTATTATAT
1 TAATTAAAAATATTATTAT-T
* *
22010424 TAATAAAAAATATTTTTATT
1 TAATTAAAAATATTATTATT
22010444 TAATT
1 TAATT
22010449 TTACTAAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (20 bp):
TAATTAAAAATATTATTATT
Found at i:22010446 original size:20 final size:21
Alignment explanation
Indices: 22010409--22010447 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
22010399 AACCTAATTC
22010409 AAAATATTATTATATTAATAA
1 AAAATATTATTATATTAATAA
*
22010430 AAAATATTTTTAT-TTAAT
1 AAAATATTATTATATTAAT
22010448 TTTACTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
AAAATATTATTATATTAATAA
Found at i:22010614 original size:23 final size:25
Alignment explanation
Indices: 22010578--22010624 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
22010568 CAACATGAAA
22010578 TATTATTATATTAA-TAAAATATTT
1 TATTATTATATTAATTAAAATATTT
*
22010602 TATT-TTATTTTAATTAAAATATT
1 TATTATTATATTAATTAAAATATT
22010625 AACATTAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (25 bp):
TATTATTATATTAATTAAAATATTT
Found at i:22010732 original size:29 final size:29
Alignment explanation
Indices: 22010699--22010755 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
22010689 ATATTTTTAG
* *
22010699 TATTTCAATAATAAATAGTATTATATTAT
1 TATTTCAATAATAAATAATAATATATTAT
*
22010728 TATTTTAATAATAAATAATAATATATTA
1 TATTTCAATAATAAATAATAATATATTA
22010756 AATAATATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (29 bp):
TATTTCAATAATAAATAATAATATATTAT
Found at i:22010765 original size:33 final size:34
Alignment explanation
Indices: 22010705--22010796 Score: 89
Period size: 33 Copynumber: 2.7 Consensus size: 34
22010695 TTAGTATTTC
* *
22010705 AATAATAAATAGTATTATATTATTATTTTAATA-ATA
1 AATAAT-AATA-TATTA-AATAATATTTTAATATATA
* * *
22010741 AATAATAATATATTAAATAATATTTTATTATTTT
1 AATAATAATATATTAAATAATATTTTAATATATA
*
22010775 AATAATTA-ATATTAAATAATAT
1 AATAATAATATATTAAATAATAT
22010797 AATATAATTA
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
33 26 0.53
34 13 0.27
35 4 0.08
36 6 0.12
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (34 bp):
AATAATAATATATTAAATAATATTTTAATATATA
Found at i:22010777 original size:41 final size:39
Alignment explanation
Indices: 22010723--22010818 Score: 113
Period size: 41 Copynumber: 2.4 Consensus size: 39
22010713 ATAGTATTAT
22010723 ATTATTATTTTAATAATAAATAATAATATATTAAATAATAT-
1 ATTATTATTTTAATAATAAATAATAA-ATA--AAATAATATA
* * * *
22010764 TTTATTATTTTAATAATTAATATTAAATAATATAATATA
1 ATTATTATTTTAATAATAAATAATAAATAAAATAATATA
*
22010803 ATTATTATTTTCATAA
1 ATTATTATTTTAATAA
22010819 AATGAATATT
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
38 8 0.17
39 14 0.29
40 3 0.06
41 23 0.48
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (39 bp):
ATTATTATTTTAATAATAAATAATAAATAAAATAATATA
Found at i:22010778 original size:38 final size:38
Alignment explanation
Indices: 22010736--22010854 Score: 102
Period size: 38 Copynumber: 3.1 Consensus size: 38
22010726 ATTATTTTAA
22010736 TAATAAATAATAATATATTAAATAATATTTTATTATTT
1 TAATAAATAATAATATATTAAATAATATTTTATTATTT
* * * *
22010774 TAATAATTAATATTA-AATAATATAATATAATTATTATTT
1 TAATAAATAATAATATATTAA-ATAATAT-TTTATTATTT
* * *
22010813 TCAT-AA-AATGAATATTTTAAATAAT-TTCTTAATACTTT
1 TAATAAATAAT-AATATATTAAATAATATT-TTATTA-TTT
22010851 TAAT
1 TAAT
22010855 TTAAAATATA
Statistics
Matches: 63, Mismatches: 12, Indels: 12
0.72 0.14 0.14
Matches are distributed among these distances:
37 13 0.21
38 35 0.56
39 15 0.24
ACGTcount: A:0.48, C:0.03, G:0.01, T:0.49
Consensus pattern (38 bp):
TAATAAATAATAATATATTAAATAATATTTTATTATTT
Found at i:22010799 original size:15 final size:15
Alignment explanation
Indices: 22010733--22010801 Score: 52
Period size: 15 Copynumber: 4.4 Consensus size: 15
22010723 ATTATTATTT
*
22010733 TAATAATAAATAATA
1 TAATATTAAATAATA
22010748 -ATATATTAAATAATA
1 TA-ATATTAAATAATA
* *
22010763 TTTTATTATTTTAATAAT-
1 ---TAATA-TTAAATAATA
22010781 TAATATTAAATAATA
1 TAATATTAAATAATA
22010796 TAATAT
1 TAATAT
22010802 AATTATTATT
Statistics
Matches: 42, Mismatches: 5, Indels: 14
0.69 0.08 0.23
Matches are distributed among these distances:
14 9 0.21
15 22 0.52
18 2 0.05
19 9 0.21
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
TAATATTAAATAATA
Found at i:22010878 original size:27 final size:27
Alignment explanation
Indices: 22010826--22010879 Score: 63
Period size: 28 Copynumber: 2.0 Consensus size: 27
22010816 TAAAATGAAT
* *
22010826 ATTTTAAATAATTTCTTAATACTTTTA
1 ATTTAAAATAATTACTTAATACTTTTA
* *
22010853 ATTTAAAATATATTACTTTATATTTTT
1 ATTTAAAATA-ATTACTTAATACTTTT
22010880 GTTAATGAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
27 9 0.41
28 13 0.59
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (27 bp):
ATTTAAAATAATTACTTAATACTTTTA
Found at i:22011060 original size:30 final size:28
Alignment explanation
Indices: 22010979--22011058 Score: 81
Period size: 30 Copynumber: 2.6 Consensus size: 28
22010969 TATAACTACT
*
22010979 TTAATAGTATAAATATTTTTAATATTTTA
1 TTAATAGAAT-AATATTTTTAATATTTTA
22011008 TTAATA-AATATTACTATTTTTAATATTATTGTA
1 TTAATAGAATA--A-TATTTTTAATA-T-TT-TA
22011041 TTAATAGAATAATATTTT
1 TTAATAGAATAATATTTT
22011059 AAGAATAATA
Statistics
Matches: 43, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
27 1 0.02
28 2 0.05
29 7 0.16
30 11 0.26
31 7 0.16
32 3 0.07
33 8 0.19
34 4 0.09
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.54
Consensus pattern (28 bp):
TTAATAGAATAATATTTTTAATATTTTA
Found at i:22011211 original size:27 final size:29
Alignment explanation
Indices: 22011176--22011243 Score: 85
Period size: 27 Copynumber: 2.6 Consensus size: 29
22011166 TATTAAAATA
22011176 TAAT-TATTTTTTAAT-ATAAA-AATTTT
1 TAATATATTTTTTAATCATAAATAATTTT
22011202 TAATATA--TTTTAATCATAAATAATTTT
1 TAATATATTTTTTAATCATAAATAATTTT
*
22011229 TAATAT-TTTATTAAT
1 TAATATATTTTTTAAT
22011244 TATATCAATA
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
25 7 0.19
26 9 0.25
27 14 0.39
28 6 0.17
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (29 bp):
TAATATATTTTTTAATCATAAATAATTTT
Found at i:22018080 original size:14 final size:14
Alignment explanation
Indices: 22018061--22018090 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
22018051 GTTTGTTTCA
22018061 CGGAAAATGATTTT
1 CGGAAAATGATTTT
22018075 CGGAAAATGATTTT
1 CGGAAAATGATTTT
22018089 CG
1 CG
22018091 CATTTTCAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.33
Consensus pattern (14 bp):
CGGAAAATGATTTT
Found at i:22018356 original size:18 final size:18
Alignment explanation
Indices: 22018269--22018467 Score: 94
Period size: 18 Copynumber: 10.9 Consensus size: 18
22018259 AGCATAATTT
*
22018269 TATTTATAAATAATATTA
1 TATTAATAAATAATATTA
*
22018287 TATTAATAAATAA-ATAA
1 TATTAATAAATAATATTA
*
22018304 TATTATATTAATAA-A-TA
1 TATTA-ATAAATAATATTA
* * * *
22018321 -A-TATTAAATTACAGTA
1 TATTAATAAATAATATTA
22018337 TATTAATAAATAATATTA
1 TATTAATAAATAATATTA
* *
22018355 TATGAATAAACAATA-TA
1 TATTAATAAATAATATTA
**
22018372 CTATTAATATAATATACAAATAAAAA
1 -TATT-A-ATAA-AT---AAT-ATTA
22018398 TATTAATAAATAATA-TA
1 TATTAATAAATAATATTA
22018415 CTATTAATATAAT-ATATTA
1 -TATTAATA-AATAATATTA
* *
22018434 -ATAAATAATATTATAATT-
1 TATTAATAA-ATAAT-ATTA
22018452 TATTAATAAATAATAT
1 TATTAATAAATAATAT
22018468 AAAGAATAAC
Statistics
Matches: 140, Mismatches: 20, Indels: 43
0.69 0.10 0.21
Matches are distributed among these distances:
14 5 0.04
15 3 0.02
16 4 0.03
17 23 0.16
18 65 0.46
19 19 0.14
20 4 0.03
21 1 0.01
22 2 0.01
23 4 0.03
24 4 0.03
25 5 0.04
26 1 0.01
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.41
Consensus pattern (18 bp):
TATTAATAAATAATATTA
Found at i:22018363 original size:46 final size:45
Alignment explanation
Indices: 22018295--22018448 Score: 163
Period size: 46 Copynumber: 3.4 Consensus size: 45
22018285 TATATTAATA
*
22018295 AATAAATAATATTATATTAATAAATAATATTAAAT-TACAGTATATT
1 AATAAATAATATTATATAAATAAATAATATTAAATATA-A-TATATT
* * **
22018341 AATAAATAATATTATATGAATAAACAATATACTATTAATATAATATACA
1 AATAAATAATATTATATAAATAAATAATAT--TA--AATATAATATATT
*
22018390 AATAAA-AATATTA-ATAAATAATATACTATT-AATATAATATATT
1 AATAAATAATATTATATAAATAA-ATAATATTAAATATAATATATT
22018433 AATAAATAATATTATA
1 AATAAATAATATTATA
22018449 ATTTATTAAT
Statistics
Matches: 91, Mismatches: 9, Indels: 17
0.78 0.08 0.15
Matches are distributed among these distances:
43 17 0.19
44 7 0.08
45 1 0.01
46 29 0.32
47 7 0.08
48 14 0.15
49 10 0.11
50 4 0.04
51 2 0.02
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.38
Consensus pattern (45 bp):
AATAAATAATATTATATAAATAAATAATATTAAATATAATATATT
Found at i:22018387 original size:16 final size:16
Alignment explanation
Indices: 22018366--22018444 Score: 80
Period size: 16 Copynumber: 5.3 Consensus size: 16
22018356 ATGAATAAAC
*
22018366 AATATACTATTAATAT
1 AATATACTAATAATAT
*
22018382 AATATACAAATAA-A-
1 AATATACTAATAATAT
22018396 AATAT--TAATAA-AT
1 AATATACTAATAATAT
*
22018409 AATATACTATTAATAT
1 AATATACTAATAATAT
*
22018425 AATATATTAATAA-AT
1 AATATACTAATAATAT
22018440 AATAT
1 AATAT
22018445 TATAATTTAT
Statistics
Matches: 53, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
12 6 0.11
13 5 0.09
14 5 0.09
15 13 0.25
16 24 0.45
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (16 bp):
AATATACTAATAATAT
Found at i:22018407 original size:12 final size:13
Alignment explanation
Indices: 22018269--22018467 Score: 105
Period size: 13 Copynumber: 15.2 Consensus size: 13
22018259 AGCATAATTT
*
22018269 TATTTATAAATAA
1 TATTAATAAATAA
*
22018282 TATTATATTAATAA
1 TATTA-ATAAATAA
* *
22018296 -ATAAATAATATTA
1 TATTAATAA-ATAA
22018309 TATTAATAAATAA
1 TATTAATAAATAA
*
22018322 TATTAAATTACAGT-A
1 TATT-AA-TA-AATAA
22018337 TATTAATAAATAA
1 TATTAATAAATAA
*
22018350 TATTATATGAATAA
1 TATTA-ATAAATAA
* *
22018364 -A-CAAT--ATAC
1 TATTAATAAATAA
22018373 TATTAATATAAT-A
1 TATTAATA-AATAA
**
22018386 TACAAATAAA-AA
1 TATTAATAAATAA
22018398 TATTAATAAATAA
1 TATTAATAAATAA
*
22018411 TATACTATTAATATAATA
1 TAT--TAATAA-AT-A-A
22018429 TATTAATAAATAA
1 TATTAATAAATAA
*
22018442 TATT-AT-AAT-T
1 TATTAATAAATAA
22018452 TATTAATAAATAA
1 TATTAATAAATAA
22018465 TAT
1 TAT
22018468 AAAGAATAAC
Statistics
Matches: 141, Mismatches: 22, Indels: 46
0.67 0.11 0.22
Matches are distributed among these distances:
9 3 0.02
10 5 0.04
11 10 0.07
12 22 0.16
13 45 0.32
14 28 0.20
15 14 0.10
16 9 0.06
17 1 0.01
18 4 0.03
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.41
Consensus pattern (13 bp):
TATTAATAAATAA
Found at i:22018413 original size:43 final size:44
Alignment explanation
Indices: 22018344--22018446 Score: 145
Period size: 43 Copynumber: 2.3 Consensus size: 44
22018334 GTATATTAAT
* *
22018344 AAATAATATTATATGAATAAACAATATACTATTAATATAATATAC
1 AAATAA-ATAATATTAATAAACAATATACTATTAATATAATATAC
* *
22018389 AAATAAA-AATATTAATAAATAATATACTATTAATATAATATAT
1 AAATAAATAATATTAATAAACAATATACTATTAATATAATATAC
*
22018432 TAATAAATAATATTA
1 AAATAAATAATATTA
22018447 TAATTTATTA
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
43 38 0.73
44 8 0.15
45 6 0.12
ACGTcount: A:0.58, C:0.04, G:0.01, T:0.37
Consensus pattern (44 bp):
AAATAAATAATATTAATAAACAATATACTATTAATATAATATAC
Found at i:22018435 original size:31 final size:28
Alignment explanation
Indices: 22018290--22018468 Score: 122
Period size: 28 Copynumber: 6.2 Consensus size: 28
22018280 AATATTATAT
* *
22018290 TAATAAATAAATAATATTATATTAATAAA
1 TAATATATAAAT-ATAATATATTAATAAA
22018319 TAATAT-TAAAT-TACAGTATATTAATAAA
1 TAATATATAAATATA-A-TATATTAATAAA
* * *
22018347 TAATATTATATGAATAAACAATATACTATTAATA
1 TAATA-TATA--AAT--ATAATATATTAATAA-A
* *
22018381 TAATATACAAATA-AAAATATTAATAAA
1 TAATATATAAATATAATATATTAATAAA
22018408 TAATATACTATTAATATAATATATTAATAAA
1 TAATATA-TA--AATATAATATATTAATAAA
*
22018439 T-A-ATAT---TATAATTTATTAATAAA
1 TAATATATAAATATAATATATTAATAAA
22018462 TAATATA
1 TAATATA
22018469 AAGAATAACA
Statistics
Matches: 122, Mismatches: 12, Indels: 36
0.72 0.07 0.21
Matches are distributed among these distances:
23 17 0.14
24 1 0.01
25 3 0.02
26 2 0.02
27 8 0.07
28 34 0.28
29 10 0.08
30 7 0.06
31 17 0.14
32 3 0.02
33 12 0.10
34 7 0.06
35 1 0.01
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (28 bp):
TAATATATAAATATAATATATTAATAAA
Found at i:22018457 original size:23 final size:23
Alignment explanation
Indices: 22018269--22018356 Score: 74
Period size: 22 Copynumber: 3.9 Consensus size: 23
22018259 AGCATAATTT
* *
22018269 TATTTATAAATAATATTATATTA
1 TATTAATAAATAATATTATAATA
* *
22018292 -ATAAATAAATAATATTATATTA
1 TATTAATAAATAATATTATAATA
* * *
22018314 -ATAAATAATATTAA-ATTACAGTA
1 TATTAATAA-A-TAATATTATAATA
22018337 TATTAATAAATAATATTATA
1 TATTAATAAATAATATTATA
22018357 TGAATAAACA
Statistics
Matches: 55, Mismatches: 6, Indels: 8
0.80 0.09 0.12
Matches are distributed among these distances:
22 31 0.56
23 14 0.25
24 10 0.18
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (23 bp):
TATTAATAAATAATATTATAATA
Found at i:22018466 original size:43 final size:43
Alignment explanation
Indices: 22018274--22018469 Score: 121
Period size: 43 Copynumber: 4.3 Consensus size: 43
22018264 AATTTTATTT
* *
22018274 ATAAATAATATTATATTAATAAATAAATAATATTAT-ATTAATAA
1 ATAAATAATATAATA-T-ATAAATAAATAATATTATAATTAATTA
* * **
22018318 ATAATATTAA-ATTACAGTATATTAATAAATAATATTATATGAATAAACA
1 ATAA-A-TAATA-TA-A-TATATAAATAAATAATATTATA--ATTAATTA
* *
22018367 ATATACTATTAATATAATATACAAATAAA-AATATTAATAAATAATATA
1 ATA-A--A-TAATATAATATATAAATAAATAATATT-ATAATTAAT-TA
* * * *
22018415 CT-ATTAATATAATATATTAATAAATAATATTATAATTTATTA
1 ATAAATAATATAATATATAAATAAATAATATTATAATTAATTA
22018457 ATAAATAATATAA
1 ATAAATAATATAA
22018470 AGAATAACAA
Statistics
Matches: 120, Mismatches: 17, Indels: 31
0.71 0.10 0.18
Matches are distributed among these distances:
42 3 0.03
43 34 0.28
44 10 0.08
45 2 0.02
46 22 0.18
47 7 0.06
48 10 0.08
49 21 0.17
50 2 0.02
51 8 0.07
52 1 0.01
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (43 bp):
ATAAATAATATAATATATAAATAAATAATATTATAATTAATTA
Found at i:22018574 original size:9 final size:9
Alignment explanation
Indices: 22018557--22018626 Score: 60
Period size: 9 Copynumber: 8.2 Consensus size: 9
22018547 AATTATTTTT
*
22018557 TAATATTAA
1 TAATTTTAA
22018566 TAATTTTAA
1 TAATTTTAA
*
22018575 TAA--TAAA
1 TAATTTTAA
*
22018582 TAATTTCAA
1 TAATTTTAA
22018591 TATATTTTAA
1 TA-ATTTTAA
*
22018601 TAA--TAAA
1 TAATTTTAA
22018608 TAATTTTAA
1 TAATTTTAA
22018617 T-ATTTTAA
1 TAATTTTAA
22018625 TA
1 TA
22018627 GTTATATTAA
Statistics
Matches: 49, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
7 12 0.24
8 8 0.16
9 21 0.43
10 8 0.16
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (9 bp):
TAATTTTAA
Found at i:22018583 original size:16 final size:16
Alignment explanation
Indices: 22018554--22018618 Score: 63
Period size: 16 Copynumber: 4.5 Consensus size: 16
22018544 TCTAATTATT
*
22018554 TTTTAAT-ATTAATAA
1 TTTTAATAATAAATAA
22018569 TTTTAATAATAAATAA
1 TTTTAATAATAAATAA
*
22018585 -TTT--CAAT--AT-A
1 TTTTAATAATAAATAA
22018595 TTTTAATAATAAATAA
1 TTTTAATAATAAATAA
22018611 TTTTAATA
1 TTTTAATA
22018619 TTTTAATAGT
Statistics
Matches: 40, Mismatches: 3, Indels: 13
0.71 0.05 0.23
Matches are distributed among these distances:
10 1 0.03
11 5 0.12
13 6 0.15
15 12 0.30
16 16 0.40
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (16 bp):
TTTTAATAATAAATAA
Found at i:22018597 original size:26 final size:25
Alignment explanation
Indices: 22018557--22018626 Score: 99
Period size: 26 Copynumber: 2.8 Consensus size: 25
22018547 AATTATTTTT
22018557 TAATATTAATA-ATTTTAATAATAAA
1 TAAT-TTAATATATTTTAATAATAAA
22018582 TAATTTCAATATATTTTAATAATAAA
1 TAATTT-AATATATTTTAATAATAAA
*
22018608 TAATTTTA-ATATTTTAATA
1 TAATTTAATATATTTTAATA
22018627 GTTATATTAA
Statistics
Matches: 42, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
24 13 0.31
25 9 0.21
26 20 0.48
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (25 bp):
TAATTTAATATATTTTAATAATAAA
Found at i:22018769 original size:14 final size:14
Alignment explanation
Indices: 22018746--22018783 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
22018736 CAAAAAATAT
22018746 AAAT-ATTTTCCAA
1 AAATCATTTTCCAA
*
22018759 AAATCATTTTCCTA
1 AAATCATTTTCCAA
*
22018773 AAGTCATTTTC
1 AAATCATTTTC
22018784 TATAAAACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 4 0.18
14 18 0.82
ACGTcount: A:0.37, C:0.18, G:0.03, T:0.42
Consensus pattern (14 bp):
AAATCATTTTCCAA
Found at i:22021984 original size:17 final size:18
Alignment explanation
Indices: 22021962--22021998 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
22021952 CATCCTAATC
*
22021962 ATTTATTTTTATA-TTAT
1 ATTTATTCTTATATTTAT
22021979 ATTTATTCTTATATTTAT
1 ATTTATTCTTATATTTAT
22021997 AT
1 AT
22021999 CCGATGGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (18 bp):
ATTTATTCTTATATTTAT
Found at i:22022220 original size:18 final size:20
Alignment explanation
Indices: 22022178--22022221 Score: 65
Period size: 18 Copynumber: 2.3 Consensus size: 20
22022168 CTAATTATTC
*
22022178 TAAATAAAATTTTATATTGT
1 TAAATAAAATTTTATATTAT
22022198 TAAATAAAA-TTTAT-TTAT
1 TAAATAAAATTTTATATTAT
22022216 TAAATA
1 TAAATA
22022222 TACAAAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 9 0.39
19 5 0.22
20 9 0.39
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (20 bp):
TAAATAAAATTTTATATTAT
Found at i:22023166 original size:29 final size:29
Alignment explanation
Indices: 22023097--22023176 Score: 92
Period size: 29 Copynumber: 2.7 Consensus size: 29
22023087 ATAATTTTTA
* *
22023097 AAATATCATATTAATTAATATGTTTATAATTT
1 AAATATTATATTAA--AATAT-TTTATAATAT
22023129 AAATATTATATTAAAATATTTT-TGAATAT
1 AAATATTATATTAAAATATTTTAT-AATAT
22023158 AAATATTATATT-AAATATT
1 AAATATTATATTAAAATATT
22023177 GTATTATAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
28 8 0.18
29 19 0.42
30 5 0.11
32 13 0.29
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (29 bp):
AAATATTATATTAAAATATTTTATAATAT
Found at i:22025814 original size:3 final size:3
Alignment explanation
Indices: 22025808--22025867 Score: 57
Period size: 3 Copynumber: 17.7 Consensus size: 3
22025798 GGTTTTTTTT
22025808 TTA TTA TTA TTA TTTA TTTA TTTA TTTA TTA TTA TTTA TTTA TTTA TTA
1 TTA TTA TTA TTA -TTA -TTA -TTA -TTA TTA TTA -TTA -TTA -TTA TTA
22025857 TTA TTA TTA TT
1 TTA TTA TTA TT
22025868 CTTAGATTAG
Statistics
Matches: 55, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
3 29 0.53
4 26 0.47
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (3 bp):
TTA
Found at i:22025824 original size:4 final size:4
Alignment explanation
Indices: 22025817--22025855 Score: 64
Period size: 4 Copynumber: 10.2 Consensus size: 4
22025807 TTTATTATTA
22025817 TTAT TTAT TTAT TTAT TTA- TTA- TTAT TTAT TTAT TTAT T
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT T
22025856 ATTATTATTA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 6 0.18
4 28 0.82
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TTAT
Found at i:22025842 original size:18 final size:18
Alignment explanation
Indices: 22025814--22025861 Score: 87
Period size: 18 Copynumber: 2.6 Consensus size: 18
22025804 TTTTTTATTA
22025814 TTATTATTTATTTATTTAT
1 TTATTA-TTATTTATTTAT
22025833 TTATTATTATTTATTTAT
1 TTATTATTATTTATTTAT
22025851 TTATTATTATT
1 TTATTATTATT
22025862 ATTATTCTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
18 23 0.79
19 6 0.21
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (18 bp):
TTATTATTATTTATTTAT
Found at i:22025917 original size:21 final size:20
Alignment explanation
Indices: 22025892--22025931 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 20
22025882 GTTTAATACA
22025892 TTTTATTTTATTTTTCTTTAT
1 TTTTATTTTA-TTTTCTTTAT
22025913 TTTTATTTTATTTTCTTTA
1 TTTTATTTTATTTTCTTTA
22025932 AATAAAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.80
Consensus pattern (20 bp):
TTTTATTTTATTTTCTTTAT
Found at i:22025983 original size:57 final size:58
Alignment explanation
Indices: 22025922--22026041 Score: 145
Period size: 58 Copynumber: 2.1 Consensus size: 58
22025912 TTTTTATTTT
* *
22025922 ATTTTCTTT-AA-ATAAAATTAAAAAAAAATATTTTTTAAGGAAAAGTTGAAAGTATCA
1 ATTTTCTTTAAAGATAAAATTAAAAAAAAATA-TTTTTAAGAAAAAATTGAAAGTATCA
** *** *
22025979 ATTTTCTTTAAAGATAAGCTTTCTAAAAAATATTTTTGAGAAAAAATTGAAAGTATCA
1 ATTTTCTTTAAAGATAAAATTAAAAAAAAATATTTTTAAGAAAAAATTGAAAGTATCA
22026037 ATTTT
1 ATTTT
22026042 TCTTCAAAAT
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
57 9 0.17
58 30 0.57
59 14 0.26
ACGTcount: A:0.47, C:0.05, G:0.09, T:0.39
Consensus pattern (58 bp):
ATTTTCTTTAAAGATAAAATTAAAAAAAAATATTTTTAAGAAAAAATTGAAAGTATCA
Found at i:22026031 original size:58 final size:57
Alignment explanation
Indices: 22025944--22026158 Score: 258
Period size: 58 Copynumber: 3.7 Consensus size: 57
22025934 TAAAATTAAA
* * *
22025944 AAAAAATATTTTTTAAGGAAAAGTTGAAAGTATCAATTTTCTTTAAAGATAAGCTTTCT
1 AAAAAATA-TTTTTGAGAAAAAGTTGAAAGTATCAATTTTCTTCAAA-ATAAGCTTTCT
*
22026003 AAAAAATATTTTTGAGAAAAAATTGAAAGTATCAATTTTTCTTCAAAATAAGCTTTCT
1 AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAA-TTTTCTTCAAAATAAGCTTTCT
* * *
22026061 AAAAATATATTTTTGAGTAAAAGTTAAAAGTA-CTAATTTT-TCTCAAAATTAAAG-TTTTT
1 AAAAA-ATATTTTTGAGAAAAAGTTGAAAGTATC-AATTTTCT-TCAAAA-T-AAGCTTTCT
*
22026120 AAAAAATA-TTTTGGGAAAAAGTTGAAAGTATCAATTTTC
1 AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTC
22026159 CCTATACAAA
Statistics
Matches: 137, Mismatches: 11, Indels: 17
0.83 0.07 0.10
Matches are distributed among these distances:
57 26 0.19
58 55 0.40
59 53 0.39
60 3 0.02
ACGTcount: A:0.44, C:0.07, G:0.11, T:0.39
Consensus pattern (57 bp):
AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCTTCAAAATAAGCTTTCT
Found at i:22026044 original size:59 final size:58
Alignment explanation
Indices: 22025944--22026157 Score: 267
Period size: 59 Copynumber: 3.7 Consensus size: 58
22025934 TAAAATTAAA
* * *
22025944 AAAAAATATTTTTTAAGGAAAAGTTGAAAGTATCAA-TTTTCTTTAAAGATAAGCTTTCT
1 AAAAAATA-TTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTCAAA-ATAAGCTTTCT
*
22026003 AAAAAATATTTTTGAGAAAAAATTGAAAGTATCAATTTTTCTTCAAAATAAGCTTTCT
1 AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTCAAAATAAGCTTTCT
* * *
22026061 AAAAATATATTTTTGAGTAAAAGTTAAAAGTA-CTAATTTTTC-TCAAAATTAAAG-TTTTT
1 AAAAA-ATATTTTTGAGAAAAAGTTGAAAGTATC-AATTTTTCTTCAAAA-T-AAGCTTTCT
*
22026120 AAAAAATA-TTTTGGGAAAAAGTTGAAAGTATCAATTTT
1 AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTT
22026158 CCCTATACAA
Statistics
Matches: 138, Mismatches: 11, Indels: 14
0.85 0.07 0.09
Matches are distributed among these distances:
57 25 0.18
58 51 0.37
59 59 0.43
60 3 0.02
ACGTcount: A:0.44, C:0.06, G:0.11, T:0.39
Consensus pattern (58 bp):
AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTCAAAATAAGCTTTCT
Found at i:22030121 original size:33 final size:31
Alignment explanation
Indices: 22030078--22030142 Score: 78
Period size: 30 Copynumber: 2.0 Consensus size: 31
22030068 TAATGTCAAC
22030078 AATGGATGAAAGATGAGAGAAAAAAAAGAAAAAA
1 AATGGATGAAAG--GAGA-AAAAAAAAGAAAAAA
* *
22030112 AATGG-TGAAAGGTGAAAAAAAAATAAAAAA
1 AATGGATGAAAGGAGAAAAAAAAAGAAAAAA
22030142 A
1 A
22030143 TAAATAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
30 15 0.52
31 3 0.10
33 6 0.21
34 5 0.17
ACGTcount: A:0.68, C:0.00, G:0.22, T:0.11
Consensus pattern (31 bp):
AATGGATGAAAGGAGAAAAAAAAAGAAAAAA
Found at i:22030147 original size:12 final size:11
Alignment explanation
Indices: 22030126--22030156 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
22030116 GTGAAAGGTG
22030126 AAAAAAAAATA
1 AAAAAAAAATA
22030137 AAAAAATAAATA
1 AAAAAA-AAATA
22030149 AAAAAAAA
1 AAAAAAAA
22030157 TGAAAAGAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (11 bp):
AAAAAAAAATA
Found at i:22032047 original size:32 final size:31
Alignment explanation
Indices: 22032011--22032073 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 31
22032001 TCTCTGTTTA
*
22032011 GAGGAGCAATTTACTTTTCAAAAGTTGAGGTG
1 GAGGAACAATTTACTTTTC-AAAGTTGAGGTG
*
22032043 GAGGAACAATTTACTTTTCAAAGTTGTGGTG
1 GAGGAACAATTTACTTTTCAAAGTTGAGGTG
22032074 CCTCTGTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 11 0.38
32 18 0.62
ACGTcount: A:0.30, C:0.10, G:0.27, T:0.33
Consensus pattern (31 bp):
GAGGAACAATTTACTTTTCAAAGTTGAGGTG
Found at i:22032165 original size:41 final size:41
Alignment explanation
Indices: 22032131--22032263 Score: 189
Period size: 41 Copynumber: 3.2 Consensus size: 41
22032121 TAGAGAATTT
*
22032131 ATTTATTTTCTAAAGTCGTTGAGCCTCTGATTAGAGGGGCC
1 ATTTATTTTCTAAAGTCGTTGAGCCTCTGATTAGAGGAGCC
*
22032172 ATTTATTTTCCAAAGTCGTTGAGCCTCTGATTAGAGGAGCC
1 ATTTATTTTCTAAAGTCGTTGAGCCTCTGATTAGAGGAGCC
* *
22032213 ATTTATTTT-TCAAAGTCGTTAAGCCTTTGATTA-AGGGAGCC
1 ATTTATTTTCT-AAAGTCGTTGAGCCTCTGATTAGA-GGAGCC
*
22032254 ATCTATTTTC
1 ATTTATTTTC
22032264 AAGATCATGG
Statistics
Matches: 83, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
40 1 0.01
41 82 0.99
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.38
Consensus pattern (41 bp):
ATTTATTTTCTAAAGTCGTTGAGCCTCTGATTAGAGGAGCC
Found at i:22032913 original size:19 final size:18
Alignment explanation
Indices: 22032889--22032940 Score: 65
Period size: 17 Copynumber: 3.0 Consensus size: 18
22032879 CTTTTTCATT
22032889 TTTATTATTTATTTATTTA
1 TTTATTATTTATTTA-TTA
22032908 TTTATTA-TT-TTTATTA
1 TTTATTATTTATTTATTA
*
22032924 -TTATTATTTATTGATTA
1 TTTATTATTTATTTATTA
22032941 GATTAGAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
15 6 0.20
16 5 0.17
17 10 0.33
18 2 0.07
19 7 0.23
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (18 bp):
TTTATTATTTATTTATTA
Found at i:22032945 original size:19 final size:17
Alignment explanation
Indices: 22032890--22032945 Score: 53
Period size: 19 Copynumber: 3.2 Consensus size: 17
22032880 TTTTTCATTT
*
22032890 TTATTATTTATTTATTTAT
1 TTATTATTTA-TTA-TTAA
22032909 TTATTATTT-TTATT-A
1 TTATTATTTATTATTAA
22032924 TTATTATTTATTGATTAGA
1 TTATTATTTATT-ATTA-A
22032943 TTA
1 TTA
22032946 GAATTGTTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
15 9 0.28
16 4 0.12
17 6 0.19
19 13 0.41
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.68
Consensus pattern (17 bp):
TTATTATTTATTATTAA
Found at i:22032978 original size:5 final size:5
Alignment explanation
Indices: 22032960--22033028 Score: 86
Period size: 5 Copynumber: 13.0 Consensus size: 5
22032950 TGTTTAATAC
22032960 ATTTT ATTTT -TTTT ATTTTTT ATTTT ATTTTT ATTTT ATTTT CATTTTT
1 ATTTT ATTTT ATTTT A--TTTT ATTTT A-TTTT ATTTT ATTTT -A-TTTT
22033009 ATTTT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT
22033029 CTTTAAATAA
Statistics
Matches: 58, Mismatches: 0, Indels: 12
0.83 0.00 0.17
Matches are distributed among these distances:
4 4 0.07
5 38 0.66
6 7 0.12
7 9 0.16
ACGTcount: A:0.17, C:0.01, G:0.00, T:0.81
Consensus pattern (5 bp):
ATTTT
Found at i:22032990 original size:11 final size:11
Alignment explanation
Indices: 22032960--22033028 Score: 83
Period size: 11 Copynumber: 6.5 Consensus size: 11
22032950 TGTTTAATAC
22032960 ATTTTA-TTTT
1 ATTTTATTTTT
22032970 -TTTTATTTTTT
1 ATTTTA-TTTTT
22032981 ATTTTATTTTT
1 ATTTTATTTTT
*
22032992 ATTTTATTTTC
1 ATTTTATTTTT
22033003 ATTTT-TATTTT
1 ATTTTAT-TTTT
22033014 ATTTTA-TTTT
1 ATTTTATTTTT
22033024 ATTTT
1 ATTTT
22033029 CTTTAAATAA
Statistics
Matches: 52, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
9 5 0.10
10 10 0.19
11 32 0.62
12 5 0.10
ACGTcount: A:0.17, C:0.01, G:0.00, T:0.81
Consensus pattern (11 bp):
ATTTTATTTTT
Found at i:22033007 original size:27 final size:27
Alignment explanation
Indices: 22032960--22033029 Score: 108
Period size: 27 Copynumber: 2.6 Consensus size: 27
22032950 TGTTTAATAC
22032960 ATTTTATTTT-TTTT-ATTTTTTATTTT
1 ATTTTATTTTATTTTCA-TTTTTATTTT
22032986 ATTTTTATTTTATTTTCATTTTTATTTT
1 A-TTTTATTTTATTTTCATTTTTATTTT
22033014 ATTTTATTTTATTTTC
1 ATTTTATTTTATTTTC
22033030 TTTAAATAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
26 1 0.02
27 24 0.59
28 15 0.37
29 1 0.02
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (27 bp):
ATTTTATTTTATTTTCATTTTTATTTT
Found at i:22033132 original size:58 final size:55
Alignment explanation
Indices: 22033055--22033257 Score: 228
Period size: 58 Copynumber: 3.6 Consensus size: 55
22033045 AAAAAAATAT
* *
22033055 TTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTTTTCAAAAACGGA
1 TTTTTGAGAAAAAGTTGAAAGTATCAATTTT-CTTAAAAATAAGTTTTCAAAAA--GA
* *
22033113 TTTTTGAGAAAAAGTTGAAAGTATTAATTTTTCTTAAAAAAAAGTTTTCAAAAATAGA
1 TTTTTGAGAAAAAGTTGAAAGTATCAA-TTTTCTTAAAAATAAGTTTTC-AAAA-AGA
* * * *
22033171 TTTTTGAGAAAAAGTTGAAAGTATCAATTTTCTTCGAAATTAAAGTTTTTAAAAATA
1 TTTTTGAGAAAAAGTTGAAAGTATCAATTTTCTT-AAAAAT-AAGTTTTCAAAAAGA
* * *
22033228 -TTTTGGGAAAAAATTGAAAGTATTAATTTT
1 TTTTTGAGAAAAAGTTGAAAGTATCAATTTT
22033258 TCCTGTACAA
Statistics
Matches: 127, Mismatches: 13, Indels: 12
0.84 0.09 0.08
Matches are distributed among these distances:
56 27 0.21
57 9 0.07
58 75 0.59
59 15 0.12
60 1 0.01
ACGTcount: A:0.43, C:0.05, G:0.13, T:0.38
Consensus pattern (55 bp):
TTTTTGAGAAAAAGTTGAAAGTATCAATTTTCTTAAAAATAAGTTTTCAAAAAGA
Found at i:22033143 original size:27 final size:27
Alignment explanation
Indices: 22033112--22033201 Score: 67
Period size: 30 Copynumber: 3.2 Consensus size: 27
22033102 TCAAAAACGG
22033112 ATTTTTGAGAAAAAGTTGAAAGTATTA
1 ATTTTTGAGAAAAAGTTGAAAGTATTA
* * * *
22033139 ATTTTTCTTAAAAAAAAGTTTTCAAA--AATA
1 A--TTT-TTGAGAAAAAG--TTGAAAGTATTA
*
22033169 GATTTTTGAGAAAAAGTTGAAAGTATCA
1 -ATTTTTGAGAAAAAGTTGAAAGTATTA
22033197 ATTTT
1 ATTTT
22033202 CTTCGAAATT
Statistics
Matches: 46, Mismatches: 9, Indels: 16
0.65 0.13 0.23
Matches are distributed among these distances:
26 5 0.11
27 6 0.13
28 11 0.24
29 6 0.13
30 12 0.26
31 1 0.02
32 5 0.11
ACGTcount: A:0.44, C:0.03, G:0.13, T:0.39
Consensus pattern (27 bp):
ATTTTTGAGAAAAAGTTGAAAGTATTA
Found at i:22033175 original size:116 final size:113
Alignment explanation
Indices: 22033047--22033259 Score: 286
Period size: 116 Copynumber: 1.9 Consensus size: 113
22033037 AAAATTCAAA
* *
22033047 AAAAATATTTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTT-AAAAAT-AAGTTTTCAAAAAC
1 AAAAATAATTTTTAAGAAAAAGTTGAAAGTATCAATTTT-CTTCAAAAATAAAGTTTTCAAAAA-
*
22033110 GGATTTTTGAGAAAAAGTTGAAAGTATTAATTTTTCTTAAAAAAAAGTTTTC
64 -GA-TTTTGAGAAAAAATTGAAAGTATTAATTTTTCTTAAAAAAAAGTTTTC
* * * * *
22033162 AAAAATAGATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCTTCGAAATTAAAGTTTTTAAAAAT
1 AAAAATA-ATTTTTAAGAAAAAGTTGAAAGTATCAATTTTCTTCAAAAATAAAGTTTTCAAAAAG
*
22033227 ATTTTGGGAAAAAATTGAAAGTATTAATTTTTC
65 ATTTTGAGAAAAAATTGAAAGTATTAATTTTTC
22033260 CTGTACAAAA
Statistics
Matches: 86, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
114 30 0.35
115 11 0.13
116 33 0.38
117 12 0.14
ACGTcount: A:0.44, C:0.05, G:0.13, T:0.38
Consensus pattern (113 bp):
AAAAATAATTTTTAAGAAAAAGTTGAAAGTATCAATTTTCTTCAAAAATAAAGTTTTCAAAAAGA
TTTTGAGAAAAAATTGAAAGTATTAATTTTTCTTAAAAAAAAGTTTTC
Found at i:22035404 original size:26 final size:26
Alignment explanation
Indices: 22035368--22035417 Score: 84
Period size: 26 Copynumber: 1.9 Consensus size: 26
22035358 AGATTTTGAT
22035368 TTAAATTTAAATAA-TTATCTAAAATA
1 TTAAATTTAAATAATTTAT-TAAAATA
22035394 TTAAATTTAAATAATTTATTAAAA
1 TTAAATTTAAATAATTTATTAAAA
22035418 AAATTTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 19 0.83
27 4 0.17
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (26 bp):
TTAAATTTAAATAATTTATTAAAATA
Found at i:22036070 original size:14 final size:14
Alignment explanation
Indices: 22036046--22036078 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
22036036 AGCTCCGTAT
22036046 TTTTATAAAAAATAA
1 TTTTAT-AAAAATAA
22036061 TTTT-TAAAAATAA
1 TTTTATAAAAATAA
22036074 TTTTA
1 TTTTA
22036079 GTATTTTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
13 12 0.71
14 1 0.06
15 4 0.24
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
TTTTATAAAAATAA
Found at i:22036334 original size:21 final size:20
Alignment explanation
Indices: 22036310--22036355 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
22036300 TAATTTAATC
*
22036310 TAATTCAAAATATTATTATAT
1 TAATTAAAAATATTATTAT-T
* *
22036331 TAATAAAAAATATTTTTATT
1 TAATTAAAAATATTATTATT
22036351 TAATT
1 TAATT
22036356 TTACTAAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (20 bp):
TAATTAAAAATATTATTATT
Found at i:22036353 original size:20 final size:21
Alignment explanation
Indices: 22036316--22036354 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
22036306 AATCTAATTC
22036316 AAAATATTATTATATTAATAA
1 AAAATATTATTATATTAATAA
*
22036337 AAAATATTTTTAT-TTAAT
1 AAAATATTATTATATTAAT
22036355 TTTACTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
AAAATATTATTATATTAATAA
Found at i:22036523 original size:23 final size:25
Alignment explanation
Indices: 22036487--22036533 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
22036477 CAACATGAAA
22036487 TATTATTATATTAA-TAAAATATTT
1 TATTATTATATTAATTAAAATATTT
*
22036511 TATT-TTATTTTAATTAAAATATT
1 TATTATTATATTAATTAAAATATT
22036534 AACATTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (25 bp):
TATTATTATATTAATTAAAATATTT
Found at i:22036641 original size:29 final size:29
Alignment explanation
Indices: 22036608--22036664 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
22036598 ATATTTTTAG
* *
22036608 TATTTCAATAATAAATAGTATTATATTAT
1 TATTTCAATAATAAATAATAATATATTAT
*
22036637 TATTTTAATAATAAATAATAATATATTA
1 TATTTCAATAATAAATAATAATATATTA
22036665 AATAATATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (29 bp):
TATTTCAATAATAAATAATAATATATTAT
Found at i:22036668 original size:15 final size:15
Alignment explanation
Indices: 22036648--22036704 Score: 51
Period size: 15 Copynumber: 3.6 Consensus size: 15
22036638 ATTTTAATAA
22036648 TAAATAATAATATAT
1 TAAATAATAATATAT
* *
22036663 TAAATAATATTTTAT
1 TAAATAATAATATAT
**
22036678 TATTTTAATAATTAATAT
1 TA-AATAATAA-T-ATAT
22036696 TAAATAATA
1 TAAATAATA
22036705 TAATTATTAT
Statistics
Matches: 31, Mismatches: 8, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
15 15 0.48
16 5 0.16
17 6 0.19
18 5 0.16
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TAAATAATAATATAT
Done.