Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 11 of 290
Found at i:3924642 original size:21 final size:21
Alignment explanation
Indices: 3924614--3924657 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
3924604 TTTTTTGTAA
*
3924614 TTTTTAATAATTTCTCA-AAT
1 TTTTTAATAATTTATCATAAT
*
3924634 TTTTATAATATTTTATCATAAT
1 TTTT-TAATAATTTATCATAAT
3924656 TT
1 TT
3924658 ATAATATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 4 0.20
21 11 0.55
22 5 0.25
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (21 bp):
TTTTTAATAATTTATCATAAT
Found at i:3928995 original size:16 final size:16
Alignment explanation
Indices: 3928976--3929006 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
3928966 AATTTATTAA
3928976 AATAATATATTATATT
1 AATAATATATTATATT
*
3928992 AATAATTTATTATAT
1 AATAATATATTATAT
3929007 GACTAAATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
AATAATATATTATATT
Found at i:3939014 original size:18 final size:18
Alignment explanation
Indices: 3938991--3939030 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
3938981 GCTAGTAATG
3938991 AAAGCAAAATATTTTCCA
1 AAAGCAAAATATTTTCCA
3939009 AAAGCAAAATATTTTCCA
1 AAAGCAAAATATTTTCCA
3939027 AAAG
1 AAAG
3939031 GGGATTTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.53, C:0.15, G:0.07, T:0.25
Consensus pattern (18 bp):
AAAGCAAAATATTTTCCA
Found at i:3941065 original size:14 final size:15
Alignment explanation
Indices: 3941048--3941078 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
3941038 TATAGTGTAG
3941048 TAAATAT-TAAAAAA
1 TAAATATATAAAAAA
3941062 TAAATATATAAAAAA
1 TAAATATATAAAAAA
3941077 TA
1 TA
3941079 GGACATGTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (15 bp):
TAAATATATAAAAAA
Found at i:3946167 original size:5 final size:6
Alignment explanation
Indices: 3946152--3946176 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
3946142 AAAAAGAGAT
3946152 TTTTTG TTTTTG TTTTTG TTTTTG T
1 TTTTTG TTTTTG TTTTTG TTTTTG T
3946177 GAGTCTCACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (6 bp):
TTTTTG
Found at i:3951180 original size:13 final size:13
Alignment explanation
Indices: 3951162--3951186 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3951152 ATCTTACACG
3951162 CCCGTGTGGACTA
1 CCCGTGTGGACTA
3951175 CCCGTGTGGACT
1 CCCGTGTGGACT
3951187 CACACACCCG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.32, G:0.32, T:0.24
Consensus pattern (13 bp):
CCCGTGTGGACTA
Found at i:3951213 original size:18 final size:18
Alignment explanation
Indices: 3951174--3951213 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
3951164 CGTGTGGACT
*
3951174 ACCCGTGTGGACTCACAC
1 ACCCGTGTGGACCCACAC
3951192 ACCCGTGTGG-CCCACAC
1 ACCCGTGTGGACCCACAC
3951209 GACCC
1 -ACCC
3951214 AAATCAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.20, C:0.45, G:0.23, T:0.12
Consensus pattern (18 bp):
ACCCGTGTGGACCCACAC
Found at i:3969734 original size:4 final size:4
Alignment explanation
Indices: 3969723--3969752 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
3969713 AAAAAAAAGT
3969723 TAAA -AAA TAAA TAAA TAAA TAAA TAAA TAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAA
3969753 CATTGTGAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 22 0.88
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
TAAA
Found at i:3977660 original size:52 final size:52
Alignment explanation
Indices: 3977603--3977706 Score: 199
Period size: 52 Copynumber: 2.0 Consensus size: 52
3977593 AACAGTTGGA
3977603 GTTATTTGAGTTAATCAAGTTATTCGGATCAACTCGAATAAAAAATTAAGTT
1 GTTATTTGAGTTAATCAAGTTATTCGGATCAACTCGAATAAAAAATTAAGTT
*
3977655 GTTATTTGAGTTAATTAAGTTATTCGGATCAACTCGAATAAAAAATTAAGTT
1 GTTATTTGAGTTAATCAAGTTATTCGGATCAACTCGAATAAAAAATTAAGTT
3977707 TTTCGGTTTA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.38, C:0.09, G:0.15, T:0.38
Consensus pattern (52 bp):
GTTATTTGAGTTAATCAAGTTATTCGGATCAACTCGAATAAAAAATTAAGTT
Found at i:3977705 original size:31 final size:31
Alignment explanation
Indices: 3977667--3977725 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
3977657 TATTTGAGTT
3977667 AATTAAGTTATTCGGATCAACTCGAATAAAA
1 AATTAAGTTATTCGGATCAACTCGAATAAAA
* * *
3977698 AATTAAGTTTTTCGGTTTAACTCGAATA
1 AATTAAGTTATTCGGATCAACTCGAATA
3977726 TGAATTACAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.36
Consensus pattern (31 bp):
AATTAAGTTATTCGGATCAACTCGAATAAAA
Found at i:3981423 original size:9 final size:10
Alignment explanation
Indices: 3981407--3981431 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
3981397 TTGCATCAAA
3981407 TAAAAAAATT
1 TAAAAAAATT
3981417 TAAAAAAATT
1 TAAAAAAATT
3981427 TAAAA
1 TAAAA
3981432 TTCATCATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (10 bp):
TAAAAAAATT
Found at i:3982645 original size:26 final size:24
Alignment explanation
Indices: 3982608--3982658 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 24
3982598 TATTAAAAAT
*
3982608 TAAAAAGGTAATTTAGA-TATTTTAA
1 TAAAAAGATAA-TTA-ATTATTTTAA
3982633 TAAAAATGATAATTAATTATTTTAA
1 TAAAAA-GATAATTAATTATTTTAA
3982658 T
1 T
3982659 TATTTATGCT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
24 1 0.04
25 18 0.78
26 4 0.17
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.43
Consensus pattern (24 bp):
TAAAAAGATAATTAATTATTTTAA
Found at i:3986066 original size:133 final size:133
Alignment explanation
Indices: 3985828--3986070 Score: 308
Period size: 133 Copynumber: 1.8 Consensus size: 133
3985818 TTGTGTATAT
* * * * *
3985828 ATATGTGGTGTAACAGTCTTGATTCCTCCTAAAGGGAATCGCTGTATAACGATCTTGATTCCTCC
1 ATATGCGGCGTAACAGTCTTGATTCATCCTAAAGGGAATCGCGGGATAACGATCTTGATTCCTCC
* ** * * * *
3985893 TAAGGGGGGTCGCTTGAGCTGCATTTAAGTTAGTGTCTATCTACACGCGTGCTAGTCTTTTTTTG
66 TAAAGGGAATCACATGAGCTGCATTTAAGTGAGCGTCTATCTACACGCGTGCTAGTCTTTTTTTG
3985958 TCC
131 TCC
* * * *
3985961 ATATGCGGCGTAACGGTTTTGATTCATCCTAAAGGGAATTGCGGCGA-AGCGATCTTGATTCCTC
1 ATATGCGGCGTAACAGTCTTGATTCATCCTAAAGGGAATCGCGG-GATAACGATCTTGATTCCTC
**
3986025 CTAAAGGGAATCACATGATTTGCATTTAAGTGAGCGTCTATCTACA
65 CTAAAGGGAATCACATGAGCTGCATTTAAGTGAGCGTCTATCTACA
3986071 TGTGCGTGAG
Statistics
Matches: 91, Mismatches: 18, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
133 90 0.99
134 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.33
Consensus pattern (133 bp):
ATATGCGGCGTAACAGTCTTGATTCATCCTAAAGGGAATCGCGGGATAACGATCTTGATTCCTCC
TAAAGGGAATCACATGAGCTGCATTTAAGTGAGCGTCTATCTACACGCGTGCTAGTCTTTTTTTG
TCC
Found at i:3991553 original size:78 final size:78
Alignment explanation
Indices: 3991456--3991694 Score: 433
Period size: 78 Copynumber: 3.1 Consensus size: 78
3991446 GTAGATCAGT
* *
3991456 TGATGGCGCTTCAAAAGTAGGCAACAAATCCAAAAATGAGGACACTGGTGATACACCCAAGTCTA
1 TGATGTCGCTTCAAAAGTAGGCAACAAATCCAAAAATGAGGACACTGGTGACACACCCAAGTCTA
3991521 CCAAATCCAAGGA
66 CCAAATCCAAGGA
*
3991534 TGATGTCGCTTCAAGAGTAGGCAACAAATCCAAAAATGAGGACACTGGTGACACACCCAAGTCTA
1 TGATGTCGCTTCAAAAGTAGGCAACAAATCCAAAAATGAGGACACTGGTGACACACCCAAGTCTA
3991599 CCAAATCCAAGGA
66 CCAAATCCAAGGA
* *
3991612 GGATGTCACTTCAAAAGTAGGCAACAAATCCAAAAATGAGGACACTGGTGACACACCCAAGTCTA
1 TGATGTCGCTTCAAAAGTAGGCAACAAATCCAAAAATGAGGACACTGGTGACACACCCAAGTCTA
3991677 CCAAATCCAAGGA
66 CCAAATCCAAGGA
3991690 TGATG
1 TGATG
3991695 ACAATGTTAC
Statistics
Matches: 154, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
78 154 1.00
ACGTcount: A:0.39, C:0.23, G:0.21, T:0.17
Consensus pattern (78 bp):
TGATGTCGCTTCAAAAGTAGGCAACAAATCCAAAAATGAGGACACTGGTGACACACCCAAGTCTA
CCAAATCCAAGGA
Found at i:3991605 original size:42 final size:42
Alignment explanation
Indices: 3991480--3991686 Score: 123
Period size: 42 Copynumber: 5.2 Consensus size: 42
3991470 AAGTAGGCAA
*
3991480 CAAATCCAAAAATGAGGACACTGGTGATACACCCAAGTCTAC
1 CAAATCCAAAAATGAGGACACTGGTGACACACCCAAGTCTAC
** * * * **** * *
3991522 CAAATCCAAGGATGATGTCGCT--T--CA-AGAGTAGGC-AA
1 CAAATCCAAAAATGAGGACACTGGTGACACACCCAAGTCTAC
3991558 CAAATCCAAAAATGAGGACACTGGTGACACACCCAAGTCTAC
1 CAAATCCAAAAATGAGGACACTGGTGACACACCCAAGTCTAC
** * * * **** * *
3991600 CAAATCCAAGGAGGATGTCACT--T--CA-AAAGTAGGC-AA
1 CAAATCCAAAAATGAGGACACTGGTGACACACCCAAGTCTAC
3991636 CAAATCCAAAAATGAGGACACTGGTGACACACCCAAGTCTAC
1 CAAATCCAAAAATGAGGACACTGGTGACACACCCAAGTCTAC
3991678 CAAATCCAA
1 CAAATCCAA
3991687 GGATGATGAC
Statistics
Matches: 108, Mismatches: 45, Indels: 24
0.61 0.25 0.14
Matches are distributed among these distances:
36 36 0.33
37 8 0.07
38 5 0.05
40 6 0.06
41 8 0.07
42 45 0.42
ACGTcount: A:0.41, C:0.25, G:0.18, T:0.16
Consensus pattern (42 bp):
CAAATCCAAAAATGAGGACACTGGTGACACACCCAAGTCTAC
Found at i:4002927 original size:16 final size:16
Alignment explanation
Indices: 4002888--4002920 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
4002878 TAGCTGCTAC
4002888 TCAAAGCCCAAGCGAT
1 TCAAAGCCCAAGCGAT
4002904 TCAAAGCCCAAGCGAT
1 TCAAAGCCCAAGCGAT
4002920 T
1 T
4002921 ATGAGCCTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.30, G:0.18, T:0.15
Consensus pattern (16 bp):
TCAAAGCCCAAGCGAT
Found at i:4002995 original size:105 final size:103
Alignment explanation
Indices: 4002813--4003005 Score: 368
Period size: 105 Copynumber: 1.9 Consensus size: 103
4002803 AACTATGAAA
4002813 ATTATGAGCCTCAAAATTAAAGACAAGTAGAAATAAGTGAACATGAATGCACATGTATGTCTGTA
1 ATTATGAGCCTCAAAATTAAAGACAAGTAGAAATAAGTGAACATGAATGCACATGTATGTCTGTA
4002878 TAGCTGCTACTCAAAGCCCAAGCGATTCAAAGCCCAAGCG
66 TAGCTGCTACTC--AGCCCAAGCGATTCAAAGCCCAAGCG
4002918 ATTATGAGCCTCAAAATTAAAGACAAGTAGAAATAAGTGAACATGAATGCACATGTATGTCTGTA
1 ATTATGAGCCTCAAAATTAAAGACAAGTAGAAATAAGTGAACATGAATGCACATGTATGTCTGTA
4002983 TAGCTGCTACTCAGCCCAAGCGA
66 TAGCTGCTACTCAGCCCAAGCGA
4003006 GTGTTGGATA
Statistics
Matches: 88, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
103 11 0.12
105 77 0.88
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.23
Consensus pattern (103 bp):
ATTATGAGCCTCAAAATTAAAGACAAGTAGAAATAAGTGAACATGAATGCACATGTATGTCTGTA
TAGCTGCTACTCAGCCCAAGCGATTCAAAGCCCAAGCG
Found at i:4006615 original size:20 final size:22
Alignment explanation
Indices: 4006592--4006643 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 22
4006582 TGAATAATGT
4006592 ATAAAAA-CTT-AAAATAAATA
1 ATAAAAAGCTTAAAAATAAATA
4006612 ATAAAAGGAGCTTAAAAATAAATA
1 ATAAAA--AGCTTAAAAATAAATA
4006636 ATATAAAA
1 ATA-AAAA
4006644 ATTTTAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
20 6 0.22
22 1 0.04
23 4 0.15
24 13 0.48
25 3 0.11
ACGTcount: A:0.67, C:0.04, G:0.06, T:0.23
Consensus pattern (22 bp):
ATAAAAAGCTTAAAAATAAATA
Found at i:4006665 original size:26 final size:25
Alignment explanation
Indices: 4006602--4006678 Score: 77
Period size: 24 Copynumber: 3.1 Consensus size: 25
4006592 ATAAAAACTT
** *
4006602 AAAATAAATAATA-AAAGGAGCTTA
1 AAAATAAATAATATAAAACAGTTTA
*
4006626 AAAATAAATAATATAAAA-ATTTTA
1 AAAATAAATAATATAAAACAGTTTA
*
4006650 AAAATGAATAACATATAAAACAGTTTA
1 AAAATAAAT-A-ATATAAAACAGTTTA
4006677 AA
1 AA
4006679 TTAAATGTCA
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
24 25 0.57
25 4 0.09
26 8 0.18
27 7 0.16
ACGTcount: A:0.64, C:0.04, G:0.06, T:0.26
Consensus pattern (25 bp):
AAAATAAATAATATAAAACAGTTTA
Found at i:4006886 original size:28 final size:27
Alignment explanation
Indices: 4006719--4006959 Score: 137
Period size: 27 Copynumber: 9.1 Consensus size: 27
4006709 ATAATATGTG
* * * *
4006719 AAATAGTCTAAAATAAAGAGTATATAA
1 AAATAGTTTAAAATAAATAATATATAT
*
4006746 AAATATTTTAAAATAAATAATATAT-T
1 AAATAGTTTAAAATAAATAATATATAT
* **
4006772 GAA-AGTTTAAGGTAAATAATA-ATGA-
1 AAATAGTTTAAAATAAATAATATAT-AT
* ** * *
4006797 AAATGAATTTAAAACGATTAACATATA-
1 AAAT-AGTTTAAAATAAATAATATATAT
* * *
4006824 AAATAG--TACAACTAAAAAACATATA-
1 AAATAGTTTA-AAATAAATAATATATAT
* * *
4006849 AAAGATTTTAAAATAGATAATATATAT
1 AAATAGTTTAAAATAAATAATATATAT
*
4006876 AAAGTAGTTTAAAATGAAA-GATATATAT
1 AAA-TAGTTTAAAAT-AAATAATATATAT
* *
4006904 GAAATA--TCAAAATAAATAATATGTAT
1 -AAATAGTTTAAAATAAATAATATATAT
4006930 -AATAGTTTAAAAATAAATAATATATAT
1 AAATAGTTT-AAAATAAATAATATATAT
4006957 AAA
1 AAA
4006960 GTCTAAAATA
Statistics
Matches: 159, Mismatches: 38, Indels: 33
0.69 0.17 0.14
Matches are distributed among these distances:
24 8 0.05
25 35 0.22
26 29 0.18
27 59 0.37
28 23 0.14
29 5 0.03
ACGTcount: A:0.58, C:0.03, G:0.08, T:0.31
Consensus pattern (27 bp):
AAATAGTTTAAAATAAATAATATATAT
Found at i:4006966 original size:26 final size:26
Alignment explanation
Indices: 4006844--4006967 Score: 101
Period size: 26 Copynumber: 4.7 Consensus size: 26
4006834 ACTAAAAAAC
* *
4006844 ATATA-AAAGATTTTAAAATAGATAAT
1 ATATATAAAG-TTTAAAAATAAATAAT
* *
4006870 ATATATAAAGTAGTTTAAAATGAAA-GAT
1 ATATATAAAGT--TTAAAAAT-AAATAAT
* *
4006898 ATATATGAAA-TATCAAAATAAATAAT
1 ATATAT-AAAGTTTAAAAATAAATAAT
*
4006924 ATGTATAATAGTTTAAAAATAAATAAT
1 ATATATAA-AGTTTAAAAATAAATAAT
*
4006951 ATATATAAAGTCTAAAA
1 ATATATAAAGTTTAAAA
4006968 TAGACAATAG
Statistics
Matches: 80, Mismatches: 10, Indels: 16
0.75 0.09 0.15
Matches are distributed among these distances:
25 5 0.06
26 28 0.35
27 25 0.31
28 17 0.21
29 5 0.06
ACGTcount: A:0.57, C:0.02, G:0.08, T:0.33
Consensus pattern (26 bp):
ATATATAAAGTTTAAAAATAAATAAT
Found at i:4007712 original size:132 final size:128
Alignment explanation
Indices: 4007460--4007774 Score: 391
Period size: 132 Copynumber: 2.4 Consensus size: 128
4007450 AACGAAAAAC
* * * * **
4007460 CGAAACCCAGTACGGTAGGGCACGATTCCTCGAACTTCCAAACATTGAACATTG-CATTGTTTTA
1 CGAAACCCAGCACGGTAGGGCATGATTCCCCGAATTTCCAAACATCAAACATTGCCATTGTTTTA
* * * *
4007524 GAATTTAAAGAATACGAATGAAATTCTAAAGGAATATTTGATTATTTTGAATAAACGAGG-AAT
66 GAATTTAAAAAACACGAATGAAATTCTAAAGGAATATTCGATTATTTTGAACAAACG-GGAAAT
* * * *
4007587 CGAAACCCAGCACGATAGGGCATGGTTCCCCGAATTTCCAAGCATCAAACATTGCCCTTGTTTTA
1 CGAAACCCAGCACGGTAGGGCATGATTCCCCGAATTTCCAAACATCAAACATTGCCATTGTTTTA
** *
4007652 GAATTTAGAAAAAAAACACGTGTGAAATTCTAAAGGAATGTTCGATTATTTTGAACAAACGGGAA
66 GAATTT----AAAAAACACGAATGAAATTCTAAAGGAATATTCGATTATTTTGAACAAACGGGAA
4007717 AT
127 AT
* * *
4007719 CGAAACCAAGCACGGTAGGGCATGATTTCCCGAATTTTCAAACATCAAACATTGCC
1 CGAAACCCAGCACGGTAGGGCATGATTCCCCGAATTTCCAAACATCAAACATTGCC
4007775 TTCGTTTGAA
Statistics
Matches: 159, Mismatches: 23, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
127 45 0.28
128 15 0.09
131 2 0.01
132 97 0.61
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (128 bp):
CGAAACCCAGCACGGTAGGGCATGATTCCCCGAATTTCCAAACATCAAACATTGCCATTGTTTTA
GAATTTAAAAAACACGAATGAAATTCTAAAGGAATATTCGATTATTTTGAACAAACGGGAAAT
Found at i:4008786 original size:32 final size:30
Alignment explanation
Indices: 4008745--4008812 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 30
4008735 ACTTTAAAAG
* *
4008745 AAAT-TACATATGCAAAATAAAATGAGATTAA
1 AAATATACATA-G-AAAATAAAAGGAGAGTAA
* *
4008776 TAATATACATAGAATATAAAAGGAGAGTAA
1 AAATATACATAGAAAATAAAAGGAGAGTAA
4008806 AAATATA
1 AAATATA
4008813 TAATAAAACA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
30 21 0.68
31 4 0.13
32 6 0.19
ACGTcount: A:0.59, C:0.04, G:0.12, T:0.25
Consensus pattern (30 bp):
AAATATACATAGAAAATAAAAGGAGAGTAA
Found at i:4008878 original size:31 final size:31
Alignment explanation
Indices: 4008840--4008902 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
4008830 AGGAAATACT
* * *
4008840 TATACATATAATAGATTTA-AAAACATATATA
1 TATACATA-AATAAATTTAGAAAAAAAATATA
4008871 TATACATAAATAAATTTAGAAAAAAAATATA
1 TATACATAAATAAATTTAGAAAAAAAATATA
4008902 T
1 T
4008903 GCAAGAATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 9 0.32
31 19 0.68
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.33
Consensus pattern (31 bp):
TATACATAAATAAATTTAGAAAAAAAATATA
Found at i:4012875 original size:13 final size:13
Alignment explanation
Indices: 4012857--4012881 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4012847 TGTTGAATAA
4012857 ATTAATTATTTTT
1 ATTAATTATTTTT
4012870 ATTAATTATTTT
1 ATTAATTATTTT
4012882 GAATTTTTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
ATTAATTATTTTT
Found at i:4017295 original size:12 final size:10
Alignment explanation
Indices: 4017269--4017296 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
4017259 GTAGTTTTAA
4017269 TTATATAAAC
1 TTATATAAAC
4017279 TTATATAAAC
1 TTATATAAAC
4017289 TTATATAA
1 TTATATAA
4017297 TATCTGGGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (10 bp):
TTATATAAAC
Found at i:4017757 original size:6 final size:7
Alignment explanation
Indices: 4017737--4017768 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
4017727 TAAATTAATA
4017737 TAATTTT
1 TAATTTT
4017744 TAATTTT
1 TAATTTT
4017751 TAATTTT
1 TAATTTT
4017758 TAATTTT
1 TAATTTT
4017765 TAAT
1 TAAT
4017769 GATAAATTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (7 bp):
TAATTTT
Found at i:4017776 original size:21 final size:21
Alignment explanation
Indices: 4017737--4017777 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
4017727 TAAATTAATA
** *
4017737 TAATTTTTAATTTTTAATTTT
1 TAATTTTTAATGATAAATTTT
4017758 TAATTTTTAATGATAAATTT
1 TAATTTTTAATGATAAATTT
4017778 AATAATATTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.63
Consensus pattern (21 bp):
TAATTTTTAATGATAAATTTT
Found at i:4022631 original size:45 final size:44
Alignment explanation
Indices: 4022572--4022662 Score: 110
Period size: 45 Copynumber: 2.0 Consensus size: 44
4022562 TTTGGTTCGC
* * *
4022572 TGTATTGGATTAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAG-AAATCAACTGTTTGGTTGAA
* ***
4022617 TGTAATGGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
4022661 TG
1 TG
4022663 GAATAGAGGT
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
44 18 0.46
45 21 0.54
ACGTcount: A:0.30, C:0.05, G:0.29, T:0.36
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
Found at i:4022854 original size:18 final size:17
Alignment explanation
Indices: 4022827--4022861 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
4022817 TTATTTTTAA
*
4022827 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
4022845 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
4022862 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:4022927 original size:157 final size:157
Alignment explanation
Indices: 4022714--4023030 Score: 562
Period size: 157 Copynumber: 2.0 Consensus size: 157
4022704 TAGAATACCC
*
4022714 TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTATTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTATTATTTAAATTTTAATAAGATTATTA
* * *
4022779 TTATCAATAATAAATAATTTAATCATATTTAAAAATAATTATTTTTAAATATATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAAAATAATTATTATTAAATATATTATAATTAAAA
4022844 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
* *
4022871 TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTATTATTTAAATTTTAATAAGATTATTA
* *
4022936 ATATCAATAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAAAATAATTATTATTAAATATATTATAATTAAAA
4023001 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
4023028 TTA
1 TTA
4023031 ATATTCTTAT
Statistics
Matches: 152, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
157 152 1.00
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (157 bp):
TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTATTATTTAAATTTTAATAAGATTATTA
ATATCAATAATAAATAATTTAATCATATTTAAAAATAATTATTATTAAATATATTATAATTAAAA
TATATAATTTAATAAAATTCTTAATAA
Found at i:4023001 original size:16 final size:16
Alignment explanation
Indices: 4022964--4023005 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
4022954 TTAATCATAT
*
4022964 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
4022980 TT-AAATATATTATAA
1 TTAAAATATATTATAA
4022995 TTAAAATATAT
1 TTAAAATATAT
4023006 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:4023012 original size:14 final size:15
Alignment explanation
Indices: 4022973--4023014 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
4022963 TTTAAACATA
*
4022973 ATTATTATTAAATAT
1 ATTATAATTAAATAT
4022988 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
4023002 A-TATAATTTAATA
1 ATTATAATTAAATA
4023015 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:4026532 original size:9 final size:9
Alignment explanation
Indices: 4026502--4026526 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
4026492 AAATTCACTT
4026502 AAAAATAAA
1 AAAAATAAA
4026511 AAAAATAAA
1 AAAAATAAA
4026520 AAAAATA
1 AAAAATA
4026527 TTAAAATTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (9 bp):
AAAAATAAA
Found at i:4029146 original size:15 final size:17
Alignment explanation
Indices: 4029126--4029157 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
4029116 TACTAAATTG
4029126 TGCATAT-TA-AAAAAA
1 TGCATATATATAAAAAA
4029141 TGCATATATATAAAAAA
1 TGCATATATATAAAAAA
4029158 AATCAAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 2 0.13
17 6 0.40
ACGTcount: A:0.59, C:0.06, G:0.06, T:0.28
Consensus pattern (17 bp):
TGCATATATATAAAAAA
Found at i:4032250 original size:30 final size:30
Alignment explanation
Indices: 4032215--4032288 Score: 139
Period size: 30 Copynumber: 2.5 Consensus size: 30
4032205 TGGCAAAAAA
4032215 CTCTCAAATTTCTCCATAAATTTCTCAAAG
1 CTCTCAAATTTCTCCATAAATTTCTCAAAG
*
4032245 CTCTCAAATTTCTCCTTAAATTTCTCAAAG
1 CTCTCAAATTTCTCCATAAATTTCTCAAAG
4032275 CTCTCAAATTTCTC
1 CTCTCAAATTTCTC
4032289 AAAGATCTCT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.30, C:0.28, G:0.03, T:0.39
Consensus pattern (30 bp):
CTCTCAAATTTCTCCATAAATTTCTCAAAG
Found at i:4032258 original size:9 final size:9
Alignment explanation
Indices: 4032216--4032291 Score: 62
Period size: 9 Copynumber: 7.8 Consensus size: 9
4032206 GGCAAAAAAC
4032216 TCTCAAATT
1 TCTCAAATT
4032225 TCTCCATAAATT
1 TCT-C--AAATT
**
4032237 TCTCAAAGC
1 TCTCAAATT
4032246 TCTCAAATT
1 TCTCAAATT
4032255 TCTCCTTAAATT
1 TCT-C--AAATT
**
4032267 TCTCAAAGC
1 TCTCAAATT
4032276 TCTCAAATT
1 TCTCAAATT
4032285 TCTCAAA
1 TCTCAAA
4032292 GATCTCTTTA
Statistics
Matches: 53, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
9 33 0.62
10 2 0.04
11 2 0.04
12 16 0.30
ACGTcount: A:0.33, C:0.26, G:0.03, T:0.38
Consensus pattern (9 bp):
TCTCAAATT
Found at i:4032304 original size:20 final size:18
Alignment explanation
Indices: 4032232--4032297 Score: 81
Period size: 18 Copynumber: 4.0 Consensus size: 18
4032222 ATTTCTCCAT
4032232 AAATTTCTCAAAGCTCTC
1 AAATTTCTCAAAGCTCTC
4032250 AAATTTCTC----CT-T-
1 AAATTTCTCAAAGCTCTC
4032262 AAATTTCTCAAAGCTCTC
1 AAATTTCTCAAAGCTCTC
*
4032280 AAATTTCTCAAAGATCTC
1 AAATTTCTCAAAGCTCTC
4032298 TTTAATTAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
12 9 0.22
13 1 0.02
14 2 0.05
16 2 0.05
17 1 0.02
18 26 0.63
ACGTcount: A:0.33, C:0.26, G:0.05, T:0.36
Consensus pattern (18 bp):
AAATTTCTCAAAGCTCTC
Found at i:4032507 original size:26 final size:24
Alignment explanation
Indices: 4032459--4032527 Score: 68
Period size: 25 Copynumber: 2.8 Consensus size: 24
4032449 AATTTTAATT
* *
4032459 TTTGAATATTATTTAATATTTTTTTA
1 TTTGTATATT-TTTAATA-ATTTTTA
4032485 TTTGTATATTTTTAATTAATTTTTA
1 TTTGTATATTTTTAA-TAATTTTTA
*
4032510 TTT-TATAATTTTTTATAA
1 TTTGTAT-ATTTTTAATAA
4032528 CAGTCTATAG
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
24 6 0.16
25 21 0.55
26 11 0.29
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (24 bp):
TTTGTATATTTTTAATAATTTTTA
Found at i:4034066 original size:18 final size:18
Alignment explanation
Indices: 4034043--4034085 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
4034033 TGCCAGGTGC
*
4034043 GTATCCTAGCCCTTATAT
1 GTATCCTAACCCTTATAT
*
4034061 GTATCCTAATCCTTATAT
1 GTATCCTAACCCTTATAT
*
4034079 GTTTCCT
1 GTATCCT
4034086 GTTGAAACCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.21, C:0.26, G:0.09, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:4035159 original size:28 final size:27
Alignment explanation
Indices: 4035104--4035176 Score: 85
Period size: 27 Copynumber: 2.7 Consensus size: 27
4035094 ATCTAACATG
* *
4035104 AATAAAATGTAAAAC-AATTTGAAATAA
1 AATAATATGTAAAACAAATTTCAAAT-A
*
4035131 AATAATATATAAAACAAATTTCAAATA
1 AATAATATGTAAAACAAATTTCAAATA
* *
4035158 AACAATATGTTAAACAAAT
1 AATAATATGTAAAACAAAT
4035177 CAAGATGAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
27 30 0.77
28 9 0.23
ACGTcount: A:0.62, C:0.07, G:0.04, T:0.27
Consensus pattern (27 bp):
AATAATATGTAAAACAAATTTCAAATA
Found at i:4035336 original size:22 final size:20
Alignment explanation
Indices: 4035288--4035325 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
4035278 ACAAAAATAA
*
4035288 TAAAAAAATATATATAAATC
1 TAAAATAATATATATAAATC
*
4035308 CAAAATAATATATATAAA
1 TAAAATAATATATATAAA
4035326 AGTTTAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (20 bp):
TAAAATAATATATATAAATC
Found at i:4035466 original size:24 final size:23
Alignment explanation
Indices: 4035294--4035468 Score: 63
Period size: 24 Copynumber: 7.4 Consensus size: 23
4035284 ATAATAAAAA
* **
4035294 AATATATATAAATCCAAAATAAT
1 AATATATAAAAATTTAAAATAAT
* *
4035317 -ATATATAAAAGTTTAAAATAGGT
1 AATATATAAAAATTTAAAATA-AT
* **
4035340 AACATATAAAGTTTTAAAATTAAT
1 AATATATAAAAATTTAAAA-TAAT
* * **
4035364 AATA-ATAAAAGGTTCACGATAAAT
1 AATATATAAAA-ATTTAAAAT-AAT
*
4035388 AATA-A-AAAGAATTTAAAATAGT
1 AATATATAAA-AATTTAAAATAAT
** * *
4035410 TTTCATATAAAATAGTGTAACCA-AAT
1 AAT-ATATAAAA-A-TTTAA-AATAAT
*
4035436 AACATATAAAAATTTAAAATAGAT
1 AATATATAAAAATTTAAAATA-AT
4035460 AATATATAA
1 AATATATAA
4035469 GATGATTTAA
Statistics
Matches: 107, Mismatches: 31, Indels: 27
0.65 0.19 0.16
Matches are distributed among these distances:
22 20 0.19
23 21 0.20
24 45 0.42
25 14 0.13
26 6 0.06
27 1 0.01
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.31
Consensus pattern (23 bp):
AATATATAAAAATTTAAAATAAT
Found at i:4036349 original size:5 final size:5
Alignment explanation
Indices: 4036339--4036363 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
4036329 ACCAATGAAT
4036339 TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA
4036364 GGCTAATTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:4037784 original size:24 final size:23
Alignment explanation
Indices: 4037757--4037804 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 23
4037747 CATTTAATAA
4037757 AATA-AAAGTTATTTTTAATATTTT
1 AATAGAAA-TTATTTTT-ATATTTT
4037781 AATAGTAAATTATTTTTATATTTT
1 AATAG-AAATTATTTTTATATTTT
4037805 TAATGAGATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 11 0.50
25 8 0.36
26 3 0.14
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (23 bp):
AATAGAAATTATTTTTATATTTT
Found at i:4040705 original size:127 final size:126
Alignment explanation
Indices: 4040420--4040784 Score: 536
Period size: 127 Copynumber: 2.9 Consensus size: 126
4040410 ATTGATGTGT
* *
4040420 GAGCTTTTTTCA-TCAATTTTGCTGACAGTGCATCCTGCTTGAAGCATTTTTGACAATATTTGTT
1 GAGCTTTTTTCAGT-AATTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTTGACACTATTTGTT
* *
4040484 CAGAACCGTCTTCTTAATATTATTTTTTCAGGAACTACTAG-AGAAAAAGAGCGTCCACGTAG
65 CAGAACCGTCTTCTTAAAATTATTTTTTCAGGAATTACT-GTAGAAAAAGAGCGTCCACGTAG
** * * *
4040546 GAGAATTTTTCAGTAATTTTGCTGACAGTGCATTCTGCTTAAAGCGCTTTTGACACTATTTGTTC
1 GAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTTGACACTATTTGTTC
* * * *
4040611 AGAAACGTCTTCTCAAAATTATTTTTTTCAGGAATTACTGTAGAAAAATAGCGTCCACGTGG
66 AGAACCGTCTTCTTAAAATTA-TTTTTTCAGGAATTACTGTAGAAAAAGAGCGTCCACGTAG
* *
4040673 GAGCTTTTTTCAGTAATTTTGCTGACAATGCATCCTGCTTGAAGCGTTTTTCACACTATTTGTTC
1 GAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTTGACACTATTTGTTC
* *
4040738 AGAACCGTATTCTTAAAATTATTTTTTCAAGAATTACTGTAGAAAAA
66 AGAACCGTCTTCTTAAAATTATTTTTTCAGGAATTACTGTAGAAAAA
4040785 ATAAAATCCT
Statistics
Matches: 212, Mismatches: 24, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
126 100 0.47
127 112 0.53
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (126 bp):
GAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTTGACACTATTTGTTC
AGAACCGTCTTCTTAAAATTATTTTTTCAGGAATTACTGTAGAAAAAGAGCGTCCACGTAG
Found at i:4040881 original size:34 final size:34
Alignment explanation
Indices: 4040838--4040964 Score: 130
Period size: 34 Copynumber: 3.6 Consensus size: 34
4040828 CTAAACACAA
*
4040838 TATTATTTTTAAAAAAAACTAAAACCTAATTTAAT
1 TATT-TTTTTAAAAAAAACTAAACCCTAATTTAAT
* * *
4040873 TATTTTTTTTAAAAACACTAAGCCCTAATTTAAT
1 TATTTTTTTAAAAAAAACTAAACCCTAATTTAAT
* ** *
4040907 TAATTTATTT-AAAACCATTAAACCCTAATTTAAT
1 T-ATTTTTTTAAAAAAAACTAAACCCTAATTTAAT
*
4040941 TAATTTTTTAAAAAGAACACTAAA
1 TATTTTTTTAAAAA-AA-ACTAAA
4040965 TACTTATTTA
Statistics
Matches: 75, Mismatches: 13, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
33 6 0.08
34 53 0.71
35 11 0.15
36 5 0.07
ACGTcount: A:0.46, C:0.12, G:0.02, T:0.40
Consensus pattern (34 bp):
TATTTTTTTAAAAAAAACTAAACCCTAATTTAAT
Found at i:4041079 original size:15 final size:15
Alignment explanation
Indices: 4041058--4041113 Score: 85
Period size: 15 Copynumber: 3.7 Consensus size: 15
4041048 AATTATTTTA
* *
4041058 AAAAAACACTAACCC
1 AAAAAACCCTAAACC
*
4041073 TAAAAACCCTAAACC
1 AAAAAACCCTAAACC
4041088 AAAAAACCCTAAACC
1 AAAAAACCCTAAACC
4041103 AAAAAACCCTA
1 AAAAAACCCTA
4041114 GGGACTAAAC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 37 1.00
ACGTcount: A:0.59, C:0.32, G:0.00, T:0.09
Consensus pattern (15 bp):
AAAAAACCCTAAACC
Found at i:4041084 original size:42 final size:42
Alignment explanation
Indices: 4041002--4041080 Score: 124
Period size: 42 Copynumber: 1.9 Consensus size: 42
4040992 AATCCAGAAC
* *
4041002 CCTAAATTATTTTAACAAAACACTAAAACCTACAAACCTAAG
1 CCTAAATTATTTTAAAAAAACACTAAAACCTAAAAACCTAAG
*
4041044 CCTAAATTATTTTAAAAAAACACT-AACCCTAAAAACC
1 CCTAAATTATTTTAAAAAAACACTAAAACCTAAAAACC
4041081 CTAAACCAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
41 11 0.32
42 23 0.68
ACGTcount: A:0.51, C:0.24, G:0.01, T:0.24
Consensus pattern (42 bp):
CCTAAATTATTTTAAAAAAACACTAAAACCTAAAAACCTAAG
Found at i:4044082 original size:2 final size:2
Alignment explanation
Indices: 4044075--4044110 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
4044065 AAAATGACTA
4044075 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4044111 GCAACTTTCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4055184 original size:17 final size:17
Alignment explanation
Indices: 4055153--4055212 Score: 52
Period size: 17 Copynumber: 3.5 Consensus size: 17
4055143 TTAAAAAATA
4055153 TTAAAAGAT-TATATATT
1 TTAAAA-ATATATATATT
**
4055170 TTAAAAATATATATAAA
1 TTAAAAATATATATATT
*
4055187 TTATAAATATATA-ATT
1 TTAAAAATATATATATT
4055203 GTCTAAAAAT
1 -T-TAAAAAT
4055213 TAAAAATATG
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
16 3 0.09
17 25 0.74
18 6 0.18
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.42
Consensus pattern (17 bp):
TTAAAAATATATATATT
Found at i:4055313 original size:37 final size:37
Alignment explanation
Indices: 4055246--4055333 Score: 115
Period size: 37 Copynumber: 2.4 Consensus size: 37
4055236 AACATTGTAA
*
4055246 AAAAAATTACTAAAACTATAAAAATAATAAAAAATTG-
1 AAAAAATTA-TAAAAATATAAAAATAATAAAAAATTGT
* * *
4055283 AAAAAATTATAAAAATATTAGAAATCATAAAAGATTGT
1 AAAAAATTATAAAAATA-TAAAAATAATAAAAAATTGT
4055321 AAAAAATTATAAA
1 AAAAAATTATAAA
4055334 GAATTTATAC
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
36 7 0.16
37 25 0.56
38 13 0.29
ACGTcount: A:0.66, C:0.03, G:0.05, T:0.26
Consensus pattern (37 bp):
AAAAAATTATAAAAATATAAAAATAATAAAAAATTGT
Found at i:4055338 original size:10 final size:10
Alignment explanation
Indices: 4055265--4055338 Score: 55
Period size: 10 Copynumber: 7.7 Consensus size: 10
4055255 CTAAAACTAT
*
4055265 AAAAATAATA
1 AAAAATTATA
*
4055275 AAAAATT-GA
1 AAAAATTATA
4055284 AAAAATTAT-
1 AAAAATTATA
*
4055293 AAAAA-TATT
1 AAAAATTATA
* *
4055302 AGAAATCATA
1 AAAAATTATA
* *
4055312 AAAGATTGTA
1 AAAAATTATA
4055322 AAAAATTATA
1 AAAAATTATA
*
4055332 AAGAATT
1 AAAAATT
4055339 TATACAATAG
Statistics
Matches: 48, Mismatches: 13, Indels: 6
0.72 0.19 0.09
Matches are distributed among these distances:
8 3 0.06
9 17 0.35
10 28 0.58
ACGTcount: A:0.65, C:0.01, G:0.07, T:0.27
Consensus pattern (10 bp):
AAAAATTATA
Found at i:4055959 original size:33 final size:30
Alignment explanation
Indices: 4055921--4055980 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 30
4055911 ACTTCTAATA
*
4055921 AATTTTAGTAATTTTTATATTGTTTTTTTTTGT
1 AATTTTA-TAATTTTT-TAAT-TTTTTTTTTGT
*
4055954 AATTTTATAGTTTTTTAATTTTTTTTT
1 AATTTTATAATTTTTTAATTTTTTTTT
4055981 ATTTTTAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 8 0.32
31 3 0.12
32 7 0.28
33 7 0.28
ACGTcount: A:0.22, C:0.00, G:0.07, T:0.72
Consensus pattern (30 bp):
AATTTTATAATTTTTTAATTTTTTTTTTGT
Found at i:4055975 original size:24 final size:26
Alignment explanation
Indices: 4055921--4055975 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 26
4055911 ACTTCTAATA
4055921 AATTTTAGTAATTTTTATATTGTTTT
1 AATTTTAGTAATTTTTATATTGTTTT
*
4055947 --TTTTTGTAA-TTTTATAGTT-TTTT
1 AATTTTAGTAATTTTTATA-TTGTTTT
4055970 AATTTT
1 AATTTT
4055976 TTTTTATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
23 11 0.44
24 10 0.40
25 4 0.16
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (26 bp):
AATTTTAGTAATTTTTATATTGTTTT
Found at i:4060867 original size:51 final size:46
Alignment explanation
Indices: 4060803--4060902 Score: 130
Period size: 46 Copynumber: 2.1 Consensus size: 46
4060793 ATATTTTAAA
4060803 ATTATTTTATTGTACAAATTAATTATAAA-AATAAACTTAAATTTAAAATAT
1 ATTATTTTATTGTACAAA-TAA--A-AAATAA-AAA-TTAAATTTAAAATAT
*
4060854 ATTATTTTTTTGTACAAATAAAAAATAAAAATTAAATTTAAAATAT
1 ATTATTTTATTGTACAAATAAAAAATAAAAATTAAATTTAAAATAT
4060900 ATT
1 ATT
4060903 TAAAATTGAT
Statistics
Matches: 47, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
46 18 0.38
47 6 0.13
48 3 0.06
50 3 0.06
51 17 0.36
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.43
Consensus pattern (46 bp):
ATTATTTTATTGTACAAATAAAAAATAAAAATTAAATTTAAAATAT
Found at i:4065104 original size:19 final size:20
Alignment explanation
Indices: 4065077--4065140 Score: 51
Period size: 19 Copynumber: 3.1 Consensus size: 20
4065067 TAAAGTAAAG
*
4065077 TAAATAATA-ATACTATATA
1 TAAAAAATACATACTATATA
* *
4065096 TAAAAAATATATA-TGTATA
1 TAAAAAATACATACTATATA
*
4065115 TAATAGAAATACACACTACTATA
1 TAA-A-AAATACATACTA-TATA
4065138 TAA
1 TAA
4065141 TAATAATAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
19 16 0.46
20 4 0.11
21 7 0.20
22 1 0.03
23 7 0.20
ACGTcount: A:0.56, C:0.08, G:0.03, T:0.33
Consensus pattern (20 bp):
TAAAAAATACATACTATATA
Found at i:4065265 original size:26 final size:24
Alignment explanation
Indices: 4065204--4065265 Score: 58
Period size: 24 Copynumber: 2.5 Consensus size: 24
4065194 AGTAATAAAA
4065204 AATAATAGTATATATAAATATATAT
1 AATAATAGTA-ATATAAATATATAT
*
4065229 ACATAA-A--AATATACACTAATATAT
1 A-ATAATAGTAATATA-AAT-ATATAT
4065253 AATAATAGTAATA
1 AATAATAGTAATA
4065266 GCAAAAATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 11
0.71 0.02 0.26
Matches are distributed among these distances:
22 5 0.17
23 7 0.23
24 8 0.27
25 2 0.07
26 8 0.27
ACGTcount: A:0.58, C:0.05, G:0.03, T:0.34
Consensus pattern (24 bp):
AATAATAGTAATATAAATATATAT
Found at i:4065473 original size:3 final size:3
Alignment explanation
Indices: 4065460--4065539 Score: 53
Period size: 3 Copynumber: 26.3 Consensus size: 3
4065450 GAGGGTATAT
4065460 ATA AT- ATA ATA AT- ATA TATA ATA ATA TATA CATGA GA-A ATA ATA
1 ATA ATA ATA ATA ATA ATA -ATA ATA ATA -ATA -AT-A -ATA ATA ATA
* *
4065504 ATA ATA AT- ATAA ATA ATA GTA AAA ATA ATA A-A ATA A
1 ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA A
4065540 AAAAAATAAA
Statistics
Matches: 62, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
2 9 0.15
3 41 0.66
4 10 0.16
5 2 0.03
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:4065518 original size:12 final size:12
Alignment explanation
Indices: 4065458--4065540 Score: 62
Period size: 12 Copynumber: 6.6 Consensus size: 12
4065448 GAGAGGGTAT
4065458 ATATAATATAATA
1 ATATAA-ATAATA
*
4065471 ATATATATAATA
1 ATATAAATAATA
4065483 ATATATACATGAGA-A
1 ATATA-A-AT-A-ATA
4065498 ATA-ATAATAATA
1 ATATA-AATAATA
4065510 ATATAAATAATA
1 ATATAAATAATA
* *
4065522 GTAAAAATAATA
1 ATATAAATAATA
*
4065534 AAATAAA
1 ATATAAA
4065541 AAAAATAAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 13
0.74 0.09 0.17
Matches are distributed among these distances:
11 1 0.02
12 37 0.65
13 8 0.14
14 5 0.09
15 5 0.09
16 1 0.02
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (12 bp):
ATATAAATAATA
Found at i:4066719 original size:43 final size:42
Alignment explanation
Indices: 4066657--4067412 Score: 274
Period size: 43 Copynumber: 17.6 Consensus size: 42
4066647 CGTCTTTGAT
*
4066657 CTGTTTCCCTACTGCTTAGGGTGTTAAGATCTGTAAATTTAGC
1 CTGTTACCCTACTGCTTAGGG-GTTAAGATCTGTAAATTTAGC
** * * * *
4066700 CTGTTACCCTACTATTTAGGGGTTAAG-GCTTGTCACA-TTCGAT
1 CTGTTACCCTACTGCTTAGGGGTTAAGATC-TGT-AAATTTAG-C
*
4066743 CTGTTTCCCTACTGCTTAGGGGGTTTAAGATCTGTAAATCTTCAGC
1 CTGTTACCCTACTGCTTA-GGGG-TTAAGATCTGTAAAT-TT-AGC
* * * * *
4066789 CTGTTACCCTACTGCTTAAGGGTTTAAG-GCTTGTCACA-TTCGAT
1 CTGTTACCCTACTGCTT-AGGGGTTAAGATC-TGT-AAATTTAG-C
** * * *
4066833 CTGTTTTCTTACTGTTTA--GG----G-TCTGTAAATTTAAC
1 CTGTTACCCTACTGCTTAGGGGTTAAGATCTGTAAATTTAGC
* * ** * *
4066868 TTGTTACCCTACTGCTTAGGGGTTTAAG-GCT-TATCGTCTTTGAT
1 CTGTTACCCTACTGCTTAGGGG-TTAAGATCTGTA-AAT-TTAG-C
* * *
4066912 CTATTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGC
1 CTGTTACCCTACTGCTTA-GGGGTTAAGATCTGTAAATTTAGC
** ** **** * *
4066955 CTGTTA--C-ACTGCTTAGGGGTTTAAGGCCCATCGCCTTCGAT
1 CTGTTACCCTACTGCTTAGGGG-TTAAGATCTGTAAATTTAG-C
* * * *
4066996 CTGTTTCCCTAATGCTTGGGGGTTAAGATCTGTAAATTCAGC
1 CTGTTACCCTACTGCTTAGGGGTTAAGATCTGTAAATTTAGC
* ** * ** * *
4067038 CTGTTACCCTACTGCTTAGGGGGTTAAGGTCCATCACCTTCGAT
1 CTGTTACCCTACTGCTTA-GGGGTTAAGATCTGTAAATTTAG-C
* * * *
4067082 CTGTTTCCCTACTACTTAGGGGGTTAAGATCTGTAAATTCAAC
1 CTGTTACCCTACTGCTTA-GGGGTTAAGATCTGTAAATTTAGC
** ** * * *
4067125 CTGTTACCCTACTGCTTAGGGGTTTAAGGCCCAT-CATCTTCGAT
1 CTGTTACCCTACTGCTTAGGGG-TTAAGATCTGTAAAT-TTAG-C
* * *
4067169 TTGTTTCCCTACTGCTTAGGGGGTTAACATCTGTAAATTTAGC
1 CTGTTACCCTACTGCTTA-GGGGTTAAGATCTGTAAATTTAGC
* * * ** *** * *
4067212 CTGCTACCTTACTGCTCAGGGGGTTAAGGCCAT-T-GCCTTCGAT
1 CTGTTACCCTACTGCTTA-GGGGTTAAGATC-TGTAAATTTAG-C
* * * *
4067255 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTACATTCAAC
1 CTGTTACCCTACTGCTTA-GGGGTTAAGATCTGTAAATTTAGC
* ** ** * * *
4067298 CTGTTACCCTACTGCTTAGAGGTTTAAGGCCCAT-CATCTTCGAT
1 CTGTTACCCTACTGCTTAG-GGGTTAAGATCTGTAAAT-TTAG-C
*
4067342 CTGTTTCCCTACTGCTTAGAGGGTTAAGATCTGTAAATTTAGC
1 CTGTTACCCTACTGCTTAG-GGGTTAAGATCTGTAAATTTAGC
*
4067385 CTGCTACCCTACTGCTTAGGGGGTTAAG
1 CTGTTACCCTACTGCTTA-GGGGTTAAG
4067413 GCCATCACCT
Statistics
Matches: 496, Mismatches: 169, Indels: 96
0.65 0.22 0.13
Matches are distributed among these distances:
35 15 0.03
36 5 0.01
37 4 0.01
39 4 0.01
40 17 0.03
41 10 0.02
42 45 0.09
43 193 0.39
44 144 0.29
45 31 0.06
46 26 0.05
47 2 0.00
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (42 bp):
CTGTTACCCTACTGCTTAGGGGTTAAGATCTGTAAATTTAGC
Found at i:4067018 original size:44 final size:44
Alignment explanation
Indices: 4066869--4067455 Score: 335
Period size: 43 Copynumber: 13.6 Consensus size: 44
4066859 AAATTTAACT
* * * ** *
4066869 TGTTACCCTACTGCTTAGGGGTTTAAGG-CTTATCGTCTTTGATC
1 TGTTTCCCTACTGCTTAGGGGGTTAAGGTC-CATCAACTTCGATC
* * ** * *
4066913 TATTTCCCTACTGCTTAGGGGGTTAAGATCTGT-AAATTC-AGCC
1 TGTTTCCCTACTGCTTAGGGGGTTAAGGTCCATCAACTTCGA-TC
* * * **
4066956 TG-TT-AC-ACTGCTTAGGGGTTTAAGGCCCATCGCCTTCGATC
1 TGTTTCCCTACTGCTTAGGGGGTTAAGGTCCATCAACTTCGATC
* * ** * *
4066997 TGTTTCCCTAATGCTT-GGGGGTTAAGATCTGT-AAATTC-AGCC
1 TGTTTCCCTACTGCTTAGGGGGTTAAGGTCCATCAACTTCGA-TC
* *
4067039 TGTTACCCTACTGCTTAGGGGGTTAAGGTCCATCACCTTCGATC
1 TGTTTCCCTACTGCTTAGGGGGTTAAGGTCCATCAACTTCGATC
* * ** * * *
4067083 TGTTTCCCTACTACTTAGGGGGTTAAGATCTGT-AAATTCAACC
1 TGTTTCCCTACTGCTTAGGGGGTTAAGGTCCATCAACTTCGATC
* * * * *
4067126 TGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCATCTTCGATT
1 TGTTTCCCTACTGCTTAGGGGGTTAAGGTCCATCAACTTCGATC
** ** * * * *
4067170 TGTTTCCCTACTGCTTAGGGGGTTAACATCTGTAAATTTAG-CC
1 TGTTTCCCTACTGCTTAGGGGGTTAAGGTCCATCAACTTCGATC
* * * * ***
4067213 TGCTACCTTACTGCTCAGGGGGTTAAGG-CCATTGCCTTCGATC
1 TGTTTCCCTACTGCTTAGGGGGTTAAGGTCCATCAACTTCGATC
* ** * *
4067256 TGTTTCCCTACTGCTTAGGGGGTTAAGAT-C-TGTACATTCAACC
1 TGTTTCCCTACTGCTTAGGGGGTTAAGGTCCATCAAC-TTCGATC
* * * * *
4067299 TGTTACCCTACTGCTTAGAGGTTTAAGGCCCATCATCTTCGATC
1 TGTTTCCCTACTGCTTAGGGGGTTAAGGTCCATCAACTTCGATC
* * ** * * * *
4067343 TGTTTCCCTACTGCTTAGAGGGTTAAGATCTGTAAATTTAG-CC
1 TGTTTCCCTACTGCTTAGGGGGTTAAGGTCCATCAACTTCGATC
* * *
4067386 TGCTACCCTACTGCTTAGGGGGTTAAGG-CCATCACCTTCGATC
1 TGTTTCCCTACTGCTTAGGGGGTTAAGGTCCATCAACTTCGATC
* *
4067429 TG-CTCCACTACTGCTTAGGGGGATAAG
1 TGTTTCC-CTACTGCTTAGGGGGTTAAG
4067456 ATCTGTAAAT
Statistics
Matches: 391, Mismatches: 133, Indels: 39
0.69 0.24 0.07
Matches are distributed among these distances:
40 19 0.05
41 8 0.02
42 39 0.10
43 184 0.47
44 137 0.35
45 4 0.01
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.34
Consensus pattern (44 bp):
TGTTTCCCTACTGCTTAGGGGGTTAAGGTCCATCAACTTCGATC
Found at i:4067128 original size:87 final size:86
Alignment explanation
Indices: 4066607--4067468 Score: 1041
Period size: 87 Copynumber: 10.0 Consensus size: 86
4066597 AGTTGTAATT
* * * ** *
4066607 TTCAGCTTGGTACCCTACTGCTTAGAGGTTTAAGGCCCATCGTCTTTGATCTGTTTCCCTACTGC
1 TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGG-CCATCACCTTCGATCTGTTTCCCTACTGC
*
4066672 TTAGGGTGTTAAGATCTGTAAA
65 TTAGGGGGTTAAGATCTGTAAA
* ** ** *
4066694 TTTAGCCTGTTACCCTACTATTTAGGGG-TTAAGGCTTGTCACATTCGATCTGTTTCCCTACTGC
1 TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGC-CATCACCTTCGATCTGTTTCCCTACTGC
4066758 TTAGGGGGTTTAAGATCTGTAAA
65 TTAGGGGG-TTAAGATCTGTAAA
* ** * * *
4066781 TCTTCAGCCTGTTACCCTACTGCTTAAGGGTTTAAGGCTTGTCACATTCGATCTGTTTTCTTACT
1 --TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGC-CATCACCTTCGATCTGTTTCCCTACT
*
4066846 GTTTA---GG----G-TCTGTAAA
63 GCTTAGGGGGTTAAGATCTGTAAA
* * * * ** * *
4066862 TTTAACTTGTTACCCTACTGCTTAGGGGTTTAAGGCTTATCGTCTTTGATCTATTTCCCTACTGC
1 TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGC-CATCACCTTCGATCTGTTTCCCTACTGC
4066927 TTAGGGGGTTAAGATCTGTAAA
65 TTAGGGGGTTAAGATCTGTAAA
* *
4066949 TTCAGCCTGTTA--C-ACTGCTTAGGGGTTTAAGGCCCATCGCCTTCGATCTGTTTCCCTAATGC
1 TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGG-CCATCACCTTCGATCTGTTTCCCTACTGC
4067011 TT-GGGGGTTAAGATCTGTAAA
65 TTAGGGGGTTAAGATCTGTAAA
* *
4067032 TTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGTCCATCACCTTCGATCTGTTTCCCTACTAC
1 TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGG-CCATCACCTTCGATCTGTTTCCCTACTGC
4067097 TTAGGGGGTTAAGATCTGTAAA
65 TTAGGGGGTTAAGATCTGTAAA
* * *
4067119 TTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCATCTTCGATTTGTTTCCCTACTGC
1 TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGG-CCATCACCTTCGATCTGTTTCCCTACTGC
*
4067184 TTAGGGGGTTAACATCTGTAAA
65 TTAGGGGGTTAAGATCTGTAAA
* * * * * **
4067206 TTTAGCCTGCTACCTTACTGCTCAGGGGGTTAAGGCCATTGCCTTCGATCTGTTTCCCTACTGCT
1 TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCATCACCTTCGATCTGTTTCCCTACTGCT
*
4067271 TAGGGGGTTAAGATCTGTACA
66 TAGGGGGTTAAGATCTGTAAA
* * *
4067292 TTCAACCTGTTACCCTACTGCTTAGAGGTTTAAGGCCCATCATCTTCGATCTGTTTCCCTACTGC
1 TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGG-CCATCACCTTCGATCTGTTTCCCTACTGC
*
4067357 TTAGAGGGTTAAGATCTGTAAA
65 TTAGGGGGTTAAGATCTGTAAA
* * * *
4067379 TTTAGCCTGCTACCCTACTGCTTAGGGGGTTAAGGCCATCACCTTCGATCTG-CTCCACTACTGC
1 TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCATCACCTTCGATCTGTTTCC-CTACTGC
*
4067443 TTAGGGGGATAAGATCTGTAAA
65 TTAGGGGGTTAAGATCTGTAAA
4067465 TTCA
1 TTCA
4067469 CTGATTCTAG
Statistics
Matches: 668, Mismatches: 87, Indels: 41
0.84 0.11 0.05
Matches are distributed among these distances:
79 55 0.08
81 8 0.01
82 3 0.00
83 31 0.05
84 44 0.07
85 7 0.01
86 201 0.30
87 259 0.39
89 24 0.04
90 36 0.05
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (86 bp):
TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCATCACCTTCGATCTGTTTCCCTACTGCT
TAGGGGGTTAAGATCTGTAAA
Found at i:4067253 original size:173 final size:173
Alignment explanation
Indices: 4066617--4067468 Score: 1122
Period size: 173 Copynumber: 5.0 Consensus size: 173
4066607 TTCAGCTTGG
* * * *
4066617 TACCCTACTGCTTAGAGGTTTAAGGCCCATCGTCTTTGATCTGTTTCCCTACTGCTTAGGGTGTT
1 TACCCTACTGCTTAGGGGTTTAAGGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGGGGGTT
** ** * *
4066682 AAGATCTGTAAATTTAGCCTGTTACCCTACTATTTA-GGGGTTAAGGCTTGTCACATTCGATCTG
66 AAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGC-CATCGCCTTCGATCTG
*
4066746 TTTCCCTACTGCTTAGGGGGTTTAAGATCTGTAAATCTTCAGCCTGT
130 TTTCCCTACTGCTTAGGGGG-TTAAGATCTGTAAA--TTCAACCTGT
* *** * * *
4066793 TACCCTACTGCTTAAGGGTTTAAGGCTTGTCA-CATTCGATCTGTTTTCTTACTGTTTA---GG-
1 TACCCTACTGCTTAGGGGTTTAAGGCCCATCATC-TTCGATCTGTTTCCCTACTGCTTAGGGGGT
* * * * * *
4066853 ---G-TCTGTAAATTTAACTTGTTACCCTACTGCTTAGGGGTTTAAGGCTTATCGTCTTTGATCT
65 TAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGC-CATCGCCTTCGATCT
* *
4066914 ATTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGT
129 GTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAACCTGT
** *
4066959 TA--C-ACTGCTTAGGGGTTTAAGGCCCATCGCCTTCGATCTGTTTCCCTAATGCTT-GGGGGTT
1 TACCCTACTGCTTAGGGGTTTAAGGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGGGGGTT
* *
4067020 AAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGTCCATCACCTTCGATCTG
66 AAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGG-CCATCGCCTTCGATCTG
*
4067085 TTTCCCTACTACTTAGGGGGTTAAGATCTGTAAATTCAACCTGT
130 TTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAACCTGT
*
4067129 TACCCTACTGCTTAGGGGTTTAAGGCCCATCATCTTCGATTTGTTTCCCTACTGCTTAGGGGGTT
1 TACCCTACTGCTTAGGGGTTTAAGGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGGGGGTT
* * * * *
4067194 AACATCTGTAAATTTAGCCTGCTACCTTACTGCTCAGGGGGTTAAGGCCATTGCCTTCGATCTGT
66 AAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCATCGCCTTCGATCTGT
*
4067259 TTCCCTACTGCTTAGGGGGTTAAGATCTGTACATTCAACCTGT
131 TTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAACCTGT
* *
4067302 TACCCTACTGCTTAGAGGTTTAAGGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGAGGGTT
1 TACCCTACTGCTTAGGGGTTTAAGGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGGGGGTT
* *
4067367 AAGATCTGTAAATTTAGCCTGCTACCCTACTGCTTAGGGGGTTAAGGCCATCACCTTCGATCTG-
66 AAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCATCGCCTTCGATCTGT
* *
4067431 CTCCACTACTGCTTAGGGGGATAAGATCTGTAAATTCA
131 TTCC-CTACTGCTTAGGGGGTTAAGATCTGTAAATTCA
4067469 CTGATTCTAG
Statistics
Matches: 593, Mismatches: 66, Indels: 37
0.85 0.09 0.05
Matches are distributed among these distances:
163 40 0.07
164 2 0.00
165 2 0.00
166 12 0.02
168 42 0.07
169 43 0.07
170 94 0.16
171 1 0.00
172 4 0.01
173 257 0.43
174 49 0.08
175 1 0.00
176 46 0.08
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (173 bp):
TACCCTACTGCTTAGGGGTTTAAGGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGGGGGTT
AAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCATCGCCTTCGATCTGT
TTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAACCTGT
Found at i:4082165 original size:15 final size:13
Alignment explanation
Indices: 4082117--4082170 Score: 54
Period size: 15 Copynumber: 3.7 Consensus size: 13
4082107 AAAAAACTAA
4082117 TTCTTTTATTTTTT
1 TTCTTTT-TTTTTT
4082131 TCTCTTTATTTCTTTT
1 T-TCTTT-TTT-TTTT
4082147 TTCTTTTCTTTTTT
1 TTCTTTT-TTTTTT
4082161 GTTCTTTTTT
1 -TTCTTTTTT
4082171 CGTCTTTTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
14 8 0.23
15 21 0.60
16 6 0.17
ACGTcount: A:0.04, C:0.13, G:0.02, T:0.81
Consensus pattern (13 bp):
TTCTTTTTTTTTT
Found at i:4082165 original size:22 final size:22
Alignment explanation
Indices: 4082117--4082171 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
4082107 AAAAAACTAA
*
4082117 TTCTTTTATTTTTTTCTCTTTAT
1 TTCTTTT-TTCTTTTCTCTTTAT
*
4082140 TTCTTTTTTCTTTTCT-TTTTT
1 TTCTTTTTTCTTTTCTCTTTAT
4082161 GTTCTTTTTTC
1 -TTCTTTTTTC
4082172 GTCTTTTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 4 0.14
22 18 0.62
23 7 0.24
ACGTcount: A:0.04, C:0.15, G:0.02, T:0.80
Consensus pattern (22 bp):
TTCTTTTTTCTTTTCTCTTTAT
Found at i:4087929 original size:19 final size:20
Alignment explanation
Indices: 4087905--4087945 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
4087895 AAAATATTAA
*
4087905 AAATATTTTT-ATAATTTTT
1 AAATATTTTTAATAAATTTT
4087924 AAATATTTTTAATAAATTTT
1 AAATATTTTTAATAAATTTT
4087944 AA
1 AA
4087946 TTTTAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
AAATATTTTTAATAAATTTT
Found at i:4088747 original size:17 final size:19
Alignment explanation
Indices: 4088703--4088747 Score: 58
Period size: 17 Copynumber: 2.4 Consensus size: 19
4088693 AATTTGTGAG
4088703 TTTTTTTGTAAATATTAATA
1 TTTTTTT-TAAATATTAATA
*
4088723 TTTATTTTAAA-A-TAATA
1 TTTTTTTTAAATATTAATA
4088740 TTTTTTTT
1 TTTTTTTT
4088748 TTGAAAAAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 12 0.52
18 1 0.04
19 4 0.17
20 6 0.26
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (19 bp):
TTTTTTTTAAATATTAATA
Found at i:4088754 original size:20 final size:21
Alignment explanation
Indices: 4088703--4088754 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 21
4088693 AATTTGTGAG
* *
4088703 TTTTTTTGTAAATATTAATAT
1 TTTTTTTGAAAATAATAATAT
* *
4088724 TTATTTT-AAAATAAT-ATTT
1 TTTTTTTGAAAATAATAATAT
4088743 TTTTTTTGAAAA
1 TTTTTTTGAAAA
4088755 AGAAATATAA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
19 9 0.36
20 10 0.40
21 6 0.24
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.60
Consensus pattern (21 bp):
TTTTTTTGAAAATAATAATAT
Found at i:4088961 original size:22 final size:21
Alignment explanation
Indices: 4088930--4088980 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 21
4088920 TATTTAAAGT
*
4088930 GAAAAAAATATTCATAACATTA
1 GAAAAAAATATTAATAA-ATTA
4088952 -AAAAATAATATTAATAAATTA
1 GAAAAA-AATATTAATAAATTA
4088973 GAAAAAAA
1 GAAAAAAA
4088981 AACTAATTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 11 0.42
22 15 0.58
ACGTcount: A:0.67, C:0.04, G:0.04, T:0.25
Consensus pattern (21 bp):
GAAAAAAATATTAATAAATTA
Found at i:4089970 original size:21 final size:20
Alignment explanation
Indices: 4089946--4089993 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
4089936 CATATATATG
4089946 AAATATATAATTAATT-TTCAT
1 AAATATAT-ATTAATTATT-AT
*
4089967 AAATTTATATTAATTATTAT
1 AAATATATATTAATTATTAT
4089987 AAA-ATAT
1 AAATATAT
4089994 TTTATTGAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 3 0.12
20 12 0.50
21 9 0.38
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (20 bp):
AAATATATATTAATTATTAT
Found at i:4091395 original size:18 final size:18
Alignment explanation
Indices: 4091372--4091410 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
4091362 TCTATATTAG
4091372 AATGAGAAATAGTAAATA
1 AATGAGAAATAGTAAATA
4091390 AATGAGAAATAGTAAATA
1 AATGAGAAATAGTAAATA
4091408 AAT
1 AAT
4091411 ACCATAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.15, T:0.23
Consensus pattern (18 bp):
AATGAGAAATAGTAAATA
Found at i:4094389 original size:4 final size:4
Alignment explanation
Indices: 4094380--4094428 Score: 62
Period size: 4 Copynumber: 12.2 Consensus size: 4
4094370 AAAAGAAGGT
* * * *
4094380 ATAC ATAC ATAC ATAC ATAC ATAC ATAT AAAC ATAT ATAC ATAT ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
4094428 A
1 A
4094429 GAGAGAGAGG
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.53, C:0.18, G:0.00, T:0.29
Consensus pattern (4 bp):
ATAC
Found at i:4094401 original size:16 final size:16
Alignment explanation
Indices: 4094380--4094428 Score: 71
Period size: 16 Copynumber: 3.1 Consensus size: 16
4094370 AAAAGAAGGT
*
4094380 ATACATACATACATAC
1 ATACATACATATATAC
*
4094396 ATACATACATATAAAC
1 ATACATACATATATAC
*
4094412 ATATATACATATATAC
1 ATACATACATATATAC
4094428 A
1 A
4094429 GAGAGAGAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.53, C:0.18, G:0.00, T:0.29
Consensus pattern (16 bp):
ATACATACATATATAC
Found at i:4094972 original size:23 final size:23
Alignment explanation
Indices: 4094937--4095030 Score: 134
Period size: 23 Copynumber: 4.1 Consensus size: 23
4094927 AAGTTAGAAG
4094937 AGTGAAGAGACTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* * *
4094960 AGTGAAAAAACTTGAATATGAAT
1 AGTGAAGAGACTTGAATATGAAA
*
4094983 AGTGAAGAGACTTGAAGATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* *
4095006 AGTTAAGAGGCTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
4095029 AG
1 AG
4095031 ATACACACAT
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 61 1.00
ACGTcount: A:0.48, C:0.04, G:0.26, T:0.22
Consensus pattern (23 bp):
AGTGAAGAGACTTGAATATGAAA
Found at i:4099465 original size:23 final size:23
Alignment explanation
Indices: 4099439--4099532 Score: 134
Period size: 23 Copynumber: 4.1 Consensus size: 23
4099429 AAGTTAGAAG
4099439 AGTGAAGAGACTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* * *
4099462 AGTGAAAAAACTTGAATATGAAT
1 AGTGAAGAGACTTGAATATGAAA
*
4099485 AGTGAAGAGACTTGAAGATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* *
4099508 AGTTAAGAGGCTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
4099531 AG
1 AG
4099533 ATACACACAT
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 61 1.00
ACGTcount: A:0.48, C:0.04, G:0.26, T:0.22
Consensus pattern (23 bp):
AGTGAAGAGACTTGAATATGAAA
Found at i:4100190 original size:15 final size:15
Alignment explanation
Indices: 4100170--4100221 Score: 52
Period size: 15 Copynumber: 3.2 Consensus size: 15
4100160 AGTGAATTGG
4100170 AAATAAAAATATATT
1 AAATAAAAATATATT
4100185 AAATAAAAA-ATAATTT
1 AAATAAAAATAT-A-TT
4100201 ATTAATAAAATATATATT
1 A--AATAAAA-ATATATT
4100219 AAA
1 AAA
4100222 ATGATTTGAC
Statistics
Matches: 31, Mismatches: 0, Indels: 11
0.74 0.00 0.26
Matches are distributed among these distances:
14 2 0.06
15 10 0.32
16 5 0.16
18 10 0.32
19 2 0.06
20 2 0.06
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
AAATAAAAATATATT
Found at i:4100195 original size:16 final size:16
Alignment explanation
Indices: 4100170--4100221 Score: 54
Period size: 18 Copynumber: 3.2 Consensus size: 16
4100160 AGTGAATTGG
4100170 AAAT-AAAAATATATT
1 AAATAAAAAATATATT
4100185 AAATAAAAAATA-ATTT
1 AAATAAAAAATATA-TT
*
4100201 ATTAATAAAATATATATT
1 A--AATAAAAAATATATT
4100219 AAA
1 AAA
4100222 ATGATTTGAC
Statistics
Matches: 31, Mismatches: 1, Indels: 9
0.76 0.02 0.22
Matches are distributed among these distances:
15 5 0.16
16 12 0.39
18 13 0.42
19 1 0.03
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
AAATAAAAAATATATT
Found at i:4109757 original size:19 final size:18
Alignment explanation
Indices: 4109658--4109790 Score: 54
Period size: 19 Copynumber: 6.8 Consensus size: 18
4109648 TTTTAAATTT
4109658 TTTATAAATTTTTAA-AA
1 TTTATAAATTTTTAATAA
* * *
4109675 ATTATTAGAATTTATATATTA
1 TTTA-TA-AATTTTTA-ATAA
* *
4109696 TTTATATATTTTTATAAAAA
1 TTTATA-AATTTT-TAATAA
* *
4109716 TTT-TAAATATATTTTATTGA
1 TTTAT-AA-AT-TTTTAATAA
4109736 TTTGATAAATTTTTAATAA
1 TTT-ATAAATTTTTAATAA
* *
4109755 TTTATTAGATTTTTTATAA
1 TTTA-TAAATTTTTAATAA
*
4109774 TTTTTATAAGTTTTTAA
1 --TTTATAAATTTTTAA
4109791 GATTTTTTTT
Statistics
Matches: 83, Mismatches: 20, Indels: 23
0.66 0.16 0.18
Matches are distributed among these distances:
17 3 0.04
18 3 0.04
19 31 0.37
20 30 0.36
21 15 0.18
22 1 0.01
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (18 bp):
TTTATAAATTTTTAATAA
Found at i:4109770 original size:39 final size:36
Alignment explanation
Indices: 4109639--4109790 Score: 108
Period size: 39 Copynumber: 3.9 Consensus size: 36
4109629 GACTTTTATA
* *
4109639 TATTTGATTTTTTAAATTTTTTATAAATTTTTAAAAAT
1 TATTAGATTTTTT--ATTATTTATAAATTTTTAAAAAT
* *
4109677 TATTAGAATTTATATATTATTTATATATTTTTATAAAAAT
1 TATTAG-ATTT-TTTATTATTTATA-AATTTT-TAAAAAT
* *
4109717 T-TTAAATATATTTTATTGATTTGATAAATTTTTAATAATT
1 TATTAGAT-T-TTTTATT-ATTT-ATAAATTTTTAA-AAAT
* *
4109757 TATTAGATTTTTTATAATTTTTATAAGTTTTTAA
1 TATTAGATTTTTTAT--TATTTATAAATTTTTAA
4109791 GATTTTTTTT
Statistics
Matches: 91, Mismatches: 11, Indels: 23
0.73 0.09 0.18
Matches are distributed among these distances:
38 16 0.18
39 38 0.42
40 28 0.31
41 9 0.10
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.59
Consensus pattern (36 bp):
TATTAGATTTTTTATTATTTATAAATTTTTAAAAAT
Found at i:4109777 original size:9 final size:9
Alignment explanation
Indices: 4109743--4109954 Score: 51
Period size: 9 Copynumber: 21.8 Consensus size: 9
4109733 TGATTTGATA
4109743 AATTTTTAAT
1 AATTTTT-AT
*
4109753 AATTTATTAG
1 AATTT-TTAT
*
4109763 ATTTTTTAT
1 AATTTTTAT
4109772 AATTTTTAT
1 AATTTTTAT
4109781 AAGTTTTTA-
1 AA-TTTTTAT
4109790 AGATTTTTTTTAT
1 A-A---TTTTTAT
*
4109803 AAAATTTTA-
1 -AATTTTTAT
*
4109812 AATATGCTTAGTT
1 AAT-T-TTTA--T
4109825 AA-TTTTAT
1 AATTTTTAT
*
4109833 TATTTTTAAT
1 AATTTTT-AT
4109843 ATATATTTT-T
1 A-AT-TTTTAT
4109853 AAATTTTTTAT
1 -AA-TTTTTAT
**
4109864 AATACTTAT
1 AATTTTTAT
*
4109873 AAGTTATTAT
1 AA-TTTTTAT
*
4109883 TATTTTTAT
1 AATTTTTAT
4109892 AATTTTTAT
1 AATTTTTAT
*
4109901 AAGTTTATT-C
1 AA-TTT-TTAT
*
4109911 AATTTTAAT
1 AATTTTTAT
4109920 ACA--TTTAT
1 A-ATTTTTAT
*
4109928 AATTTTTTT
1 AATTTTTAT
*
4109937 TATTTTTAAAT
1 AATTTTT--AT
4109948 AATTTTT
1 AATTTTT
4109955 TATGACTCTT
Statistics
Matches: 148, Mismatches: 26, Indels: 55
0.65 0.11 0.24
Matches are distributed among these distances:
7 1 0.01
8 10 0.07
9 56 0.38
10 50 0.34
11 17 0.11
12 10 0.07
13 3 0.02
14 1 0.01
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (9 bp):
AATTTTTAT
Found at i:4109777 original size:28 final size:27
Alignment explanation
Indices: 4109746--4109916 Score: 73
Period size: 28 Copynumber: 5.8 Consensus size: 27
4109736 TTTGATAAAT
4109746 TTTTAATAATTTATTAGATTTTTTATAA
1 TTTTAATAATTTATTA-ATTTTTTATAA
*
4109774 TTTTTATAAGTTT-TTAAGATTTTTTTTATAAAA
1 TTTTAATAA-TTTATT-A-A--TTTTTTAT--AA
4109807 TTTTAA-ATATGCTTAGTTAATTTTATTAT--
1 TTTTAATA-AT--TTA-TTAATTTT-TTATAA
*
4109836 TTTTAATATATATTTTTAAATTTTTTATAA
1 TTTTAATA-AT-TTATT-AATTTTTTATAA
* * *
4109866 TACTT-ATAAGTTATTATTATTTTTATAA
1 T-TTTAATAATTTATTAAT-TTTTTATAA
*
4109894 TTTTTATAAGTTTATTCAATTTT
1 TTTTAATAA-TTTATT-AATTTT
4109917 AATACATTTA
Statistics
Matches: 111, Mismatches: 11, Indels: 41
0.68 0.07 0.25
Matches are distributed among these distances:
27 4 0.04
28 34 0.31
29 29 0.26
30 10 0.09
31 10 0.09
32 6 0.05
33 12 0.11
34 3 0.03
35 1 0.01
36 2 0.02
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (27 bp):
TTTTAATAATTTATTAATTTTTTATAA
Found at i:4109873 original size:92 final size:92
Alignment explanation
Indices: 4109704--4109877 Score: 219
Period size: 92 Copynumber: 1.9 Consensus size: 92
4109694 TATTTATATA
** * *
4109704 TTTTTATAAAAATTTTAAATATATTTTATTGATTTGATAAATTTTTAATAATTTATTAGATTTTT
1 TTTTTATAAAAATTTTAAATATAGCTTATTAATTTGATAAATTTTTAATAATTTATTAAATTTTT
**
4109769 TATAATTTTTATAAGTTTTTAAGATTT
66 TATAATACTTATAAGTTTTTAAGATTT
* * *
4109796 TTTTTAT-AAAATTTTAAATAT-GCTTAGTTAATTTTAT-TATTTTTAATATATATTTTTAAATT
1 TTTTTATAAAAATTTTAAATATAGCTTA-TTAATTTGATAAATTTTTAATA-AT-TTATTAAATT
4109858 TTTTATAATACTTATAAGTT
63 TTTTATAATACTTATAAGTT
4109878 ATTATTATTT
Statistics
Matches: 70, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
90 13 0.19
91 24 0.34
92 33 0.47
ACGTcount: A:0.36, C:0.01, G:0.05, T:0.59
Consensus pattern (92 bp):
TTTTTATAAAAATTTTAAATATAGCTTATTAATTTGATAAATTTTTAATAATTTATTAAATTTTT
TATAATACTTATAAGTTTTTAAGATTT
Found at i:4109952 original size:27 final size:27
Alignment explanation
Indices: 4109869--4109952 Score: 66
Period size: 27 Copynumber: 3.1 Consensus size: 27
4109859 TTTATAATAC
*
4109869 TTATAAG-TTATTATTATTTTTATAAT-TT
1 TTATAAGTTTA-T-TTATTTTTA-AATAAT
* *
4109897 TTATAAGTTTATTCAATTTT-AATACAT
1 TTATAAGTTTATTTATTTTTAAATA-AT
* *
4109924 TTATAATTTTTTTTATTTTTAAATAAT
1 TTATAAGTTTATTTATTTTTAAATAAT
4109951 TT
1 TT
4109953 TTTATGACTC
Statistics
Matches: 45, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
25 3 0.07
27 27 0.60
28 12 0.27
29 3 0.07
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (27 bp):
TTATAAGTTTATTTATTTTTAAATAAT
Found at i:4115948 original size:26 final size:25
Alignment explanation
Indices: 4115911--4115973 Score: 81
Period size: 26 Copynumber: 2.4 Consensus size: 25
4115901 AGTTATAAAT
4115911 ATTTTAATTTTGAATATAATAATTC
1 ATTTTAATTTTGAATATAATAATTC
* *
4115936 ATTTTATATTTTGAATTTAATAATATA
1 ATTTTA-ATTTTGAATATAATAAT-TC
*
4115963 ATTTAAATTTT
1 ATTTTAATTTT
4115974 TCTTATAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
25 6 0.18
26 21 0.64
27 6 0.18
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.56
Consensus pattern (25 bp):
ATTTTAATTTTGAATATAATAATTC
Found at i:4118886 original size:107 final size:107
Alignment explanation
Indices: 4118700--4118917 Score: 427
Period size: 107 Copynumber: 2.0 Consensus size: 107
4118690 AAAAGGTAAC
4118700 TTATTTCTCTGTATATCTATGGATTTTGCAGATACAAACCAGCTTCAAATTATAGACATTGATCA
1 TTATTTCTCTGTATATCTATGGATTTTGCAGATACAAACCAGCTTCAAATTATAGACATTGATCA
4118765 ATGGAACAGTTAATTTCACAATGGGTTTCGTATTAAAAACAA
66 ATGGAACAGTTAATTTCACAATGGGTTTCGTATTAAAAACAA
4118807 TTATTTCTCTGTATATCTATGGATTTTGCAGATACAAACCAGCTTCAAATTATAGACATTGATCA
1 TTATTTCTCTGTATATCTATGGATTTTGCAGATACAAACCAGCTTCAAATTATAGACATTGATCA
*
4118872 ATGGAACAGTTAATTTCACAATGGGTTTCGTATTAGAAACAA
66 ATGGAACAGTTAATTTCACAATGGGTTTCGTATTAAAAACAA
4118914 TTAT
1 TTAT
4118918 AACATATGTA
Statistics
Matches: 110, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
107 110 1.00
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.36
Consensus pattern (107 bp):
TTATTTCTCTGTATATCTATGGATTTTGCAGATACAAACCAGCTTCAAATTATAGACATTGATCA
ATGGAACAGTTAATTTCACAATGGGTTTCGTATTAAAAACAA
Found at i:4128479 original size:15 final size:14
Alignment explanation
Indices: 4128446--4128503 Score: 52
Period size: 13 Copynumber: 4.3 Consensus size: 14
4128436 TGTTTAATTT
4128446 TTAATTT-AA-TAA
1 TTAATTTAAAGTAA
*
4128458 ATAATTATAAAGTAA
1 TTAATT-TAAAGTAA
4128473 TTAA-TTAAAGTAA
1 TTAATTTAAAGTAA
*
4128486 TATTATTTAAA-TAA
1 T-TAATTTAAAGTAA
4128500 TTAA
1 TTAA
4128504 ATATAAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
12 5 0.14
13 12 0.32
14 9 0.24
15 11 0.30
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.43
Consensus pattern (14 bp):
TTAATTTAAAGTAA
Found at i:4134448 original size:3 final size:3
Alignment explanation
Indices: 4134442--4134473 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
4134432 AAAAGATGTT
4134442 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
4134474 TAGTGTTTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:4139024 original size:22 final size:22
Alignment explanation
Indices: 4138999--4139068 Score: 79
Period size: 22 Copynumber: 3.2 Consensus size: 22
4138989 ACATAATAGT
* *
4138999 GAAAACAACAAGAAAGTAGCGA
1 GAAAACAACAAGAAAATAGCAA
4139021 GAAAACAACAAGAAAATAGCAA
1 GAAAACAACAAGAAAATAGCAA
* ** *
4139043 CAAAACAGTAA-AAAATAGTAA
1 GAAAACAACAAGAAAATAGCAA
4139064 GAAAA
1 GAAAA
4139069 TAGGAAAAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
21 13 0.32
22 28 0.68
ACGTcount: A:0.66, C:0.11, G:0.16, T:0.07
Consensus pattern (22 bp):
GAAAACAACAAGAAAATAGCAA
Found at i:4139059 original size:21 final size:22
Alignment explanation
Indices: 4139033--4139083 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
4139023 AAACAACAAG
*
4139033 AAAATAGCAACAAAACA-GTAA
1 AAAATAGCAACAAAACAGGAAA
* * *
4139054 AAAATAGTAAGAAAATAGGAAA
1 AAAATAGCAACAAAACAGGAAA
4139076 AAAATAGC
1 AAAATAGC
4139084 TTTTTTTTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 14 0.58
22 10 0.42
ACGTcount: A:0.67, C:0.08, G:0.14, T:0.12
Consensus pattern (22 bp):
AAAATAGCAACAAAACAGGAAA
Found at i:4142627 original size:30 final size:31
Alignment explanation
Indices: 4142583--4142640 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
4142573 TTGACTAAAT
* * *
4142583 TAAAGTACAGGGACTAA-ATTAAAATTTTTA
1 TAAAATACAAGGACTAATAATAAAATTTTTA
4142613 TAAAATACAAGGACTAATAATAAAATTT
1 TAAAATACAAGGACTAATAATAAAATTT
4142641 AACTTAAGCA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 15 0.62
31 9 0.38
ACGTcount: A:0.52, C:0.07, G:0.10, T:0.31
Consensus pattern (31 bp):
TAAAATACAAGGACTAATAATAAAATTTTTA
Found at i:4149664 original size:13 final size:13
Alignment explanation
Indices: 4149640--4149683 Score: 72
Period size: 13 Copynumber: 3.5 Consensus size: 13
4149630 TAATACAAAA
4149640 AAAATT-AATTTT
1 AAAATTGAATTTT
*
4149652 AAAGTTGAATTTT
1 AAAATTGAATTTT
4149665 AAAATTGAATTTT
1 AAAATTGAATTTT
4149678 AAAATT
1 AAAATT
4149684 TCAAAAAGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
12 5 0.17
13 24 0.83
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (13 bp):
AAAATTGAATTTT
Found at i:4162380 original size:37 final size:37
Alignment explanation
Indices: 4162323--4162474 Score: 173
Period size: 37 Copynumber: 3.9 Consensus size: 37
4162313 TATGATCACT
*
4162323 TATCAC-TTGTC-CCTGATCAGATAAGTGTAGCCACC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
* *
4162358 TATCACTTTGTTTCTTGATCAGATAAGTGTAGCCACT
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
4162395 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCAC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGC-----C-A-C-C
*
4162440 TTATCACTTTGTCTCTTGATCAGATAAGTATAGCC
1 -TATCACTTTGTCTCTTGATCAGATAAGTGTAGCC
4162475 GAAGCTATCA
Statistics
Matches: 100, Mismatches: 6, Indels: 16
0.82 0.05 0.13
Matches are distributed among these distances:
35 6 0.06
36 4 0.04
37 54 0.54
41 1 0.01
42 1 0.01
43 1 0.01
44 1 0.01
46 32 0.32
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (37 bp):
TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
Found at i:4162458 original size:46 final size:46
Alignment explanation
Indices: 4162391--4162757 Score: 446
Period size: 46 Copynumber: 7.6 Consensus size: 46
4162381 TAAGTGTAGC
* **
4162391 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
4162437 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
4162483 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
4162535 CACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
4162587 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
4162633 CACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
4162679 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
4162731 CACTTATCACTTTATCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
4162758 AGTACTCAAA
Statistics
Matches: 291, Mismatches: 17, Indels: 26
0.87 0.05 0.08
Matches are distributed among these distances:
46 155 0.53
48 1 0.00
49 1 0.00
50 2 0.01
51 3 0.01
52 129 0.44
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:4162510 original size:52 final size:52
Alignment explanation
Indices: 4162434--4162751 Score: 426
Period size: 52 Copynumber: 6.3 Consensus size: 52
4162424 TAGCTAAAGC
* *
4162434 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
4162487 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * *
4162539 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
4162591 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
4162637 TATCAC-TTT-A----TCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
4162683 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
4162735 TATCACTTTATCACTTG
1 TATCACTTT-TCACTTG
4162752 ATCAGAAGTA
Statistics
Matches: 239, Mismatches: 16, Indels: 20
0.87 0.06 0.07
Matches are distributed among these distances:
46 84 0.35
47 2 0.01
48 2 0.01
52 133 0.56
53 18 0.08
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:4162699 original size:196 final size:196
Alignment explanation
Indices: 4162391--4162743 Score: 607
Period size: 196 Copynumber: 1.8 Consensus size: 196
4162381 TAAGTGTAGC
* * * * *
4162391 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTATCACT
*
4162456 TGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTTCACTTGTCACTTGATCAGATAAGT
66 TGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGT
* *
4162521 GTAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTA
131 GTAGCCAAAGCTACCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTA
4162586 T
196 T
*
4162587 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTATCACT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTATCACT
*
4162652 TGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTTGTCACTTGATCAGATAAGT
66 TGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGT
*
4162717 GTAGCTAAAGCTACCACTTATCACTTT
131 GTAGCCAAAGCTACCACTTATCACTTT
4162744 ATCACTTGAT
Statistics
Matches: 146, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
196 146 1.00
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (196 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTATCACT
TGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGT
GTAGCCAAAGCTACCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTA
T
Found at i:4162746 original size:98 final size:97
Alignment explanation
Indices: 4162391--4162757 Score: 501
Period size: 98 Copynumber: 3.7 Consensus size: 97
4162381 TAAGTGTAGC
* * * *
4162391 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTT-TCAC-TTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTATCACT
4162456 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
64 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
*
4162490 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCCACTTG
1 CAC-TTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTT--A----
* *
4162555 TCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTAT
59 TCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
4162594 CAC--T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTATCACTTG
1 CACTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTATCACTTG
*
4162654 ATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 ATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
4162686 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCACTT
1 CACTTT-CACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTATCACTT
4162751 GATCAGA
65 GATCAGA
4162758 AGTACTCAAA
Statistics
Matches: 240, Mismatches: 15, Indels: 27
0.85 0.05 0.10
Matches are distributed among these distances:
92 39 0.16
94 1 0.00
96 1 0.00
98 150 0.62
99 7 0.03
100 2 0.01
101 1 0.00
104 39 0.16
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (97 bp):
CACTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTATCACTTG
ATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:4165663 original size:21 final size:19
Alignment explanation
Indices: 4165620--4165665 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
4165610 AAATAAAAAT
*
4165620 AAAAATATAAAAAATTTAG
1 AAAAATATAAAAAATCTAG
* *
4165639 AAATATATATAAAATCTAG
1 AAAAATATAAAAAATCTAG
4165658 AAAAATAT
1 AAAAATAT
4165666 GAATTATAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.28
Consensus pattern (19 bp):
AAAAATATAAAAAATCTAG
Found at i:4167450 original size:42 final size:42
Alignment explanation
Indices: 4167403--4167633 Score: 147
Period size: 42 Copynumber: 5.6 Consensus size: 42
4167393 ATCTACTCTG
* * *
4167403 CTGTAACCTCAGAGAGATAAGATCCTTATTTAATCCGCTCCA
1 CTGTAACCTCAGGGAGATAAGATCCTGATTTAATCTGCTCCA
* * ** * * *
4167445 CTGTAACTTCAGGGAGATAGGATAGTGCTTTCGATCTGCT-CG
1 CTGTAACCTCAGGGAGATAAGATCCTGATTT-AATCTGCTCCA
* ** *
4167487 CTGTAATCTCA-GGAGATAAGATCTCTGGCTCAATCTGCTCCA
1 CTGTAACCTCAGGGAGATAAGATC-CTGATTTAATCTGCTCCA
* * *
4167529 CTGTAA-CTCAGGGAGATAAGAT-CTGAATTCTTTAGTCTGTTTCA
1 CTGTAACCTCAGGGAGATAAGATCCTG-A---TTTAATCTGCTCCA
* * ** *
4167573 CTGTAATCTCAGGGA-ATAAGA-CCTG-GTCGATCTGCTCTA
1 CTGTAACCTCAGGGAGATAAGATCCTGATTTAATCTGCTCCA
4167612 CTGTAA-CTCA-GGAGATAAGATC
1 CTGTAACCTCAGGGAGATAAGATC
4167634 TGAAATTCTT
Statistics
Matches: 144, Mismatches: 33, Indels: 27
0.71 0.16 0.13
Matches are distributed among these distances:
37 3 0.02
38 10 0.07
39 14 0.10
40 3 0.02
41 21 0.15
42 55 0.38
43 6 0.04
44 24 0.17
45 8 0.06
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (42 bp):
CTGTAACCTCAGGGAGATAAGATCCTGATTTAATCTGCTCCA
Found at i:4167458 original size:83 final size:82
Alignment explanation
Indices: 4167358--4167554 Score: 200
Period size: 83 Copynumber: 2.4 Consensus size: 82
4167348 TTCAGTCTAT
* * * *
4167358 TCCACTGCATCTTCAGGGAAATAAGACCTGATGCGATCTACTCTGCTGTAACCTCAGAGAGATAA
1 TCCACTGTAACTTCAGGGAGATAAGAACTGATGCGATCTACTC-GCTGTAACCTCAG-GAGATAA
* * *
4167423 GATC-CTTATTTAATCCGC
64 GATCTCTGACTCAATCCGC
* * * * * *
4167441 TCCACTGTAACTTCAGGGAGATAGGATAGTGCTTTCGATCTGCTCGCTGTAATCTCAGGAGATAA
1 TCCACTGTAACTTCAGGGAGATAAGA-ACTG-ATGCGATCTACTCGCTGTAACCTCAGGAGATAA
* *
4167506 GATCTCTGGCTCAATCTGC
64 GATCTCTGACTCAATCCGC
*
4167525 TCCACTGTAAC-TCAGGGAGATAAGATCTGA
1 TCCACTGTAACTTCAGGGAGATAAGAACTGA
4167555 ATTCTTTAGT
Statistics
Matches: 92, Mismatches: 19, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
82 2 0.02
83 46 0.50
84 34 0.37
85 10 0.11
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.28
Consensus pattern (82 bp):
TCCACTGTAACTTCAGGGAGATAAGAACTGATGCGATCTACTCGCTGTAACCTCAGGAGATAAGA
TCTCTGACTCAATCCGC
Found at i:4167530 original size:84 final size:84
Alignment explanation
Indices: 4167391--4167546 Score: 217
Period size: 84 Copynumber: 1.9 Consensus size: 84
4167381 AGACCTGATG
* * *
4167391 CGATCTACTCTGCTGTAACCTCAGAGAGATAAGATCCTTATTTAATCCGCTCCACTGTAACTTCA
1 CGATCTACTCTGCTGTAACCTCAGAGAGATAAGATCCTGACTCAATCCGCTCCACTGTAAC-TCA
4167456 GGGAGATAGGATAGTGCTTT
65 GGGAGATAGGATAGTGCTTT
* * * *
4167476 CGATCTGCTC-GCTGTAATCTCAG-GAGATAAGATCTCTGGCTCAATCTGCTCCACTGTAACTCA
1 CGATCTACTCTGCTGTAACCTCAGAGAGATAAGATC-CTGACTCAATCCGCTCCACTGTAACTCA
4167539 GGGAGATA
65 GGGAGATA
4167547 AGATCTGAAT
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
83 22 0.35
84 32 0.51
85 9 0.14
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (84 bp):
CGATCTACTCTGCTGTAACCTCAGAGAGATAAGATCCTGACTCAATCCGCTCCACTGTAACTCAG
GGAGATAGGATAGTGCTTT
Found at i:4167592 original size:44 final size:44
Alignment explanation
Indices: 4167527--4167675 Score: 154
Period size: 44 Copynumber: 3.5 Consensus size: 44
4167517 CAATCTGCTC
4167527 CACTGTAACTCAGGGAGATAAGATCTGAATTCTTTAGTCTGTTT
1 CACTGTAACTCAGGGAGATAAGATCTGAATTCTTTAGTCTGTTT
* * * *
4167571 CACTGTAATCTCAGGGA-ATAAGACCTG--GTC--GA-TCTG-CT
1 CACTGTAA-CTCAGGGAGATAAGATCTGAATTCTTTAGTCTGTTT
*
4167609 CTACTGTAACTCA-GGAGATAAGATCTGAAATTCTTTAGTCTGTTC
1 C-ACTGTAACTCAGGGAGATAAGATCTG-AATTCTTTAGTCTGTTT
*
4167654 CACTGTATCTCAGGGA-ATAAGA
1 CACTGTAACTCAGGGAGATAAGA
4167676 CCTTTTATAG
Statistics
Matches: 84, Mismatches: 10, Indels: 22
0.72 0.09 0.19
Matches are distributed among these distances:
37 3 0.04
38 15 0.18
39 11 0.13
40 1 0.01
41 2 0.02
42 2 0.02
43 1 0.01
44 37 0.44
45 12 0.14
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.32
Consensus pattern (44 bp):
CACTGTAACTCAGGGAGATAAGATCTGAATTCTTTAGTCTGTTT
Found at i:4167677 original size:82 final size:84
Alignment explanation
Indices: 4167487--4167678 Score: 293
Period size: 83 Copynumber: 2.3 Consensus size: 84
4167477 GATCTGCTCG
4167487 CTGTAATCTCA-GGAGATAAGATCTCTGGCTCAATCTGCTCCACTGTAACTCAGGGAGATAAGAT
1 CTGTAATCTCAGGGA-ATAAGA-C-CTGGCTCAATCTGCTCCACTGTAACTCAGGGAGATAAGAT
*
4167551 CTGAATTCTTTAGTCTGTTTCA
63 CTGAATTCTTTAGTCTGTTCCA
* *
4167573 CTGTAATCTCAGGGAATAAGACCTGG-TCGATCTGCTCTACTGTAACTCA-GGAGATAAGATCTG
1 CTGTAATCTCAGGGAATAAGACCTGGCTCAATCTGCTCCACTGTAACTCAGGGAGATAAGATCTG
4167636 AAATTCTTTAGTCTGTTCCA
66 -AATTCTTTAGTCTGTTCCA
4167656 CTGT-ATCTCAGGGAATAAGACCT
1 CTGTAATCTCAGGGAATAAGACCT
4167679 TTTATAGTGA
Statistics
Matches: 101, Mismatches: 3, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
82 33 0.33
83 43 0.43
84 4 0.04
85 1 0.01
86 17 0.17
87 3 0.03
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (84 bp):
CTGTAATCTCAGGGAATAAGACCTGGCTCAATCTGCTCCACTGTAACTCAGGGAGATAAGATCTG
AATTCTTTAGTCTGTTCCA
Found at i:4168857 original size:1 final size:1
Alignment explanation
Indices: 4168851--4168875 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
4168841 CTCTCCAAAG
4168851 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
4168876 AGGAAGCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:4188570 original size:21 final size:20
Alignment explanation
Indices: 4188530--4188572 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
4188520 AATTTTATTG
*
4188530 TTTTATATTTAACTATTTAA
1 TTTTATATTTAACTAATTAA
*
4188550 TTTTATATTTTAATTAATTAA
1 TTTTATA-TTTAACTAATTAA
4188571 TT
1 TT
4188573 AATTGAACTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (20 bp):
TTTTATATTTAACTAATTAA
Found at i:4188780 original size:2 final size:2
Alignment explanation
Indices: 4188773--4188798 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4188763 CCCAACGACC
4188773 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
4188799 AAAGGTGTCG
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):
TA
Found at i:4189170 original size:19 final size:19
Alignment explanation
Indices: 4189132--4189172 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
4189122 TTTGAGTTTT
*
4189132 TTTATATATATTTTTCTAG
1 TTTATATATATTATTCTAG
4189151 TTTATTATATATTATT-TAG
1 TTTA-TATATATTATTCTAG
4189170 TTT
1 TTT
4189173 TTTTTATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.66
Consensus pattern (19 bp):
TTTATATATATTATTCTAG
Found at i:4189183 original size:22 final size:22
Alignment explanation
Indices: 4189126--4189183 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 22
4189116 TAGGATTTTG
*
4189126 AGTTTTTTTATATATATTTTTCT
1 AGTTTTTTTAT-TATATTATTCT
*
4189149 AG-TTTATTA-TATATTATT-T
1 AGTTTTTTTATTATATTATTCT
4189168 AGTTTTTTTTATTATA
1 AG-TTTTTTTATTATA
4189184 AAATTTTCAG
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
19 3 0.10
20 8 0.28
21 6 0.21
22 10 0.34
23 2 0.07
ACGTcount: A:0.26, C:0.02, G:0.05, T:0.67
Consensus pattern (22 bp):
AGTTTTTTTATTATATTATTCT
Found at i:4189681 original size:19 final size:18
Alignment explanation
Indices: 4189645--4189687 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
4189635 ATTTAGGAGG
*
4189645 GAATTGAGAGAAATTTGA
1 GAATTGAGAGAAAGTTGA
*
4189663 GAATATGAGAGAGAGTTGA
1 GAAT-TGAGAGAAAGTTGA
4189682 G-ATTGA
1 GAATTGA
4189688 ATTGAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 3 0.14
18 6 0.27
19 13 0.59
ACGTcount: A:0.42, C:0.00, G:0.33, T:0.26
Consensus pattern (18 bp):
GAATTGAGAGAAAGTTGA
Found at i:4193300 original size:53 final size:52
Alignment explanation
Indices: 4193181--4193384 Score: 233
Period size: 52 Copynumber: 4.0 Consensus size: 52
4193171 TCACATATCA
* * * * * *
4193181 CACATCGAAGCCATAGCCCTGCCATGGTCTTACAC-GGATCACATAT-A-AT
1 CACACCGATGCCATAGCCCAGCTATGGTCTTATACGGGAACACATATCACAT
* *
4193230 ---ACCGATGCCATATCCCAGATATGGTCTTATAC-GGAATCACATTATCACAT
1 CACACCGATGCCATAGCCCAGCTATGGTCTTATACGGGAA-CACA-TATCACAT
* *
4193280 CACACCGACGCCATAGCCCAGCTATGGTCTTATACGGGAACACGTATCACAT
1 CACACCGATGCCATAGCCCAGCTATGGTCTTATACGGGAACACATATCACAT
* *
4193332 TACACCGATGCCATAGCCCAGCTATGGTCTTATACGGGCACACATATCACAT
1 CACACCGATGCCATAGCCCAGCTATGGTCTTATACGGGAACACATATCACAT
4193384 C
1 C
4193385 TTTTCCGTCA
Statistics
Matches: 130, Mismatches: 17, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
46 28 0.22
47 4 0.03
48 3 0.02
49 1 0.01
50 2 0.02
52 56 0.43
53 32 0.25
54 4 0.03
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (52 bp):
CACACCGATGCCATAGCCCAGCTATGGTCTTATACGGGAACACATATCACAT
Found at i:4197557 original size:15 final size:15
Alignment explanation
Indices: 4197537--4197569 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
4197527 GTAACAACTT
4197537 ACAGCTAAAATGATA
1 ACAGCTAAAATGATA
*
4197552 ACAGCTAAGATGATA
1 ACAGCTAAAATGATA
4197567 ACA
1 ACA
4197570 ACTTAATAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.52, C:0.15, G:0.15, T:0.18
Consensus pattern (15 bp):
ACAGCTAAAATGATA
Found at i:4198403 original size:34 final size:35
Alignment explanation
Indices: 4198348--4198414 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
4198338 CAAACACCAG
*
4198348 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
4198383 AAAACATTTTCCCG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
4198415 TATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.45, C:0.15, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:4199543 original size:14 final size:15
Alignment explanation
Indices: 4199506--4199544 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
4199496 AATTCAGTTT
4199506 TTAAATTTTCAATAC
1 TTAAATTTTCAATAC
*
4199521 TTAAATTTTCAGTAC
1 TTAAATTTTCAATAC
4199536 TT-AATTTTC
1 TTAAATTTTC
4199545 TGCATGGCTC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 7 0.30
15 16 0.70
ACGTcount: A:0.33, C:0.13, G:0.03, T:0.51
Consensus pattern (15 bp):
TTAAATTTTCAATAC
Found at i:4209948 original size:46 final size:46
Alignment explanation
Indices: 4209877--4209969 Score: 177
Period size: 46 Copynumber: 2.0 Consensus size: 46
4209867 ATTGAGGGTT
4209877 AATTTTTTTAGAATCAAGATCAAATTGATACAATGTATAAATATTA
1 AATTTTTTTAGAATCAAGATCAAATTGATACAATGTATAAATATTA
*
4209923 AATTTTTTTAGAATCAAGATTAAATTGATACAATGTATAAATATTA
1 AATTTTTTTAGAATCAAGATCAAATTGATACAATGTATAAATATTA
4209969 A
1 A
4209970 GGGTTAAAAT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.46, C:0.05, G:0.09, T:0.40
Consensus pattern (46 bp):
AATTTTTTTAGAATCAAGATCAAATTGATACAATGTATAAATATTA
Found at i:4219321 original size:21 final size:21
Alignment explanation
Indices: 4219297--4219339 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
4219287 TGTTACATAT
*
4219297 GATATTAGTAGTGCAGACTTA
1 GATATTAATAGTGCAGACTTA
4219318 GATATTAATAGTGCAGACTTA
1 GATATTAATAGTGCAGACTTA
4219339 G
1 G
4219340 TTGTCCAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.09, G:0.23, T:0.33
Consensus pattern (21 bp):
GATATTAATAGTGCAGACTTA
Found at i:4220811 original size:17 final size:17
Alignment explanation
Indices: 4220777--4220821 Score: 65
Period size: 16 Copynumber: 2.6 Consensus size: 17
4220767 TTTTTATTCC
*
4220777 TAATTTATTTTATTAAT
1 TAATTAATTTTATTAAT
4220794 TAAATTAATTTT-TTAAT
1 T-AATTAATTTTATTAAT
4220811 TAATTAATTTT
1 TAATTAATTTT
4220822 CTCAACTCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 10 0.38
17 7 0.27
18 9 0.35
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TAATTAATTTTATTAAT
Found at i:4220814 original size:21 final size:22
Alignment explanation
Indices: 4220777--4220817 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
4220767 TTTTTATTCC
*
4220777 TAATTTATTTTATTAATTAAAT
1 TAATTTATTTAATTAATTAAAT
4220799 TAATTT-TTTAATTAATTAA
1 TAATTTATTTAATTAATTAA
4220818 TTTTCTCAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
TAATTTATTTAATTAATTAAAT
Found at i:4220956 original size:23 final size:23
Alignment explanation
Indices: 4220930--4220977 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
4220920 TGATAAAAGC
4220930 TAATTCCATTTCAGAACTTTAAT
1 TAATTCCATTTCAGAACTTTAAT
* *
4220953 TAATTCCGTTTTAGAACTTTAAT
1 TAATTCCATTTCAGAACTTTAAT
4220976 TA
1 TA
4220978 TTTAATTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.33, C:0.15, G:0.06, T:0.46
Consensus pattern (23 bp):
TAATTCCATTTCAGAACTTTAAT
Found at i:4225130 original size:23 final size:23
Alignment explanation
Indices: 4225096--4225139 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
4225086 TGATTGAATA
* *
4225096 TGAATATGAAATTAACTTAAATG
1 TGAATATGAAATAAAATTAAATG
4225119 TGAAT-TGTAAATAAAATTAAA
1 TGAATATG-AAATAAAATTAAA
4225140 ATTTTGAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 2 0.11
23 16 0.89
ACGTcount: A:0.52, C:0.02, G:0.11, T:0.34
Consensus pattern (23 bp):
TGAATATGAAATAAAATTAAATG
Found at i:4228292 original size:24 final size:23
Alignment explanation
Indices: 4228260--4228306 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
4228250 TAGGTCTTCC
4228260 AATATTATTGGTT-TTTATTTTAA
1 AATATTATT-GTTATTTATTTTAA
*
4228283 AATATATATTTTTATTTATTTTAA
1 AATAT-TATTGTTATTTATTTTAA
4228307 TATTTAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (23 bp):
AATATTATTGTTATTTATTTTAA
Done.