Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 302 of 332
Found at i:99975608 original size:28 final size:28
Alignment explanation
Indices: 99975586--99975663 Score: 79
Period size: 31 Copynumber: 2.7 Consensus size: 28
99975576 TTAATATCTG
*
99975586 AAAAT-AATAAATAATAAAATAATAAGAA
1 AAAATAAATAAA-AATAAAATAATAACAA
*
99975614 AAAATAAATAAAAATAAAATAAATTAA-ACT
1 AAAATAAATAAAAATAAAAT-AA-TAACA-A
99975644 AAAATAAAATAAAAATAAAA
1 AAAAT-AAATAAAAATAAAA
99975664 ATAAAAATAA
Statistics
Matches: 44, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
28 13 0.30
29 9 0.20
30 8 0.18
31 14 0.32
ACGTcount: A:0.77, C:0.01, G:0.01, T:0.21
Consensus pattern (28 bp):
AAAATAAATAAAAATAAAATAATAACAA
Found at i:99975630 original size:6 final size:6
Alignment explanation
Indices: 99975591--99975677 Score: 71
Period size: 6 Copynumber: 15.5 Consensus size: 6
99975581 ATCTGAAAAT
* * *
99975591 AATAAA TAAT-AA AATAAT AAGAAA AA-ATA AATAAA AAT-AA AAT--A
1 AATAAA -AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA
* *
99975635 AATTAA ACT-AA AAT-AA AATAAA AATAAA AATAAA AATAAA AAT
1 AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AAT
99975678 TGGGTTGCCT
Statistics
Matches: 68, Mismatches: 7, Indels: 11
0.79 0.08 0.13
Matches are distributed among these distances:
4 4 0.06
5 21 0.31
6 40 0.59
7 3 0.04
ACGTcount: A:0.77, C:0.01, G:0.01, T:0.21
Consensus pattern (6 bp):
AATAAA
Found at i:99975633 original size:11 final size:11
Alignment explanation
Indices: 99975586--99975675 Score: 82
Period size: 10 Copynumber: 8.4 Consensus size: 11
99975576 TTAATATCTG
99975586 AAAATAATAAAT
1 AAAATAA-AAAT
*
99975598 AATAA-AATAAT
1 AA-AATAAAAAT
*
99975609 AAGA-AAAAAT
1 AAAATAAAAAT
99975619 -AAATAAAAAT
1 AAAATAAAAAT
*
99975629 AAAAT-AAATT
1 AAAATAAAAAT
*
99975639 AAACT-AAAAT
1 AAAATAAAAAT
99975649 AAAATAAAAAT
1 AAAATAAAAAT
99975660 AAAAATAAAAAT
1 -AAAATAAAAAT
99975672 AAAA
1 AAAA
99975676 ATTGGGTTGC
Statistics
Matches: 65, Mismatches: 8, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
9 2 0.03
10 28 0.43
11 18 0.28
12 15 0.23
13 2 0.03
ACGTcount: A:0.78, C:0.01, G:0.01, T:0.20
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:99975634 original size:5 final size:5
Alignment explanation
Indices: 99975598--99975675 Score: 66
Period size: 5 Copynumber: 14.4 Consensus size: 5
99975588 AATAATAAAT
* * * *
99975598 AATAA AATAA TAAGAA AAAATA AATAAA AATAA AATAA ATTAA ACTAA
1 AATAA AATAA -AATAA AATA-A AAT-AA AATAA AATAA AATAA AATAA
99975646 AATAA AATAAA AATAAA AATAAA AATAA AA
1 AATAA AAT-AA AAT-AA AAT-AA AATAA AA
99975676 ATTGGGTTGC
Statistics
Matches: 63, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
5 34 0.54
6 28 0.44
7 1 0.02
ACGTcount: A:0.78, C:0.01, G:0.01, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:99980822 original size:17 final size:18
Alignment explanation
Indices: 99980802--99980835 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
99980792 AAGTTAATTG
99980802 AAATTGCA-AAATTAAAT
1 AAATTGCAGAAATTAAAT
*
99980819 AAATTGTAGAAATTAAA
1 AAATTGCAGAAATTAAA
99980836 ATGAGGAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.59, C:0.03, G:0.09, T:0.29
Consensus pattern (18 bp):
AAATTGCAGAAATTAAAT
Found at i:99981583 original size:10 final size:10
Alignment explanation
Indices: 99981551--99981610 Score: 70
Period size: 10 Copynumber: 6.0 Consensus size: 10
99981541 TGAAATTCTA
99981551 AAAGATAAAT
1 AAAGATAAAT
*
99981561 ACAA-ATCAAT
1 A-AAGATAAAT
*
99981571 AAAGATAATT
1 AAAGATAAAT
99981581 AAAGATAAAT
1 AAAGATAAAT
99981591 AAAGATAAAT
1 AAAGATAAAT
99981601 GAAA-ATAAAT
1 -AAAGATAAAT
99981611 CCTAAAATTA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
9 2 0.05
10 36 0.84
11 5 0.12
ACGTcount: A:0.67, C:0.03, G:0.08, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:99989008 original size:30 final size:31
Alignment explanation
Indices: 99988922--99988991 Score: 122
Period size: 31 Copynumber: 2.3 Consensus size: 31
99988912 CTTTAGAGCC
* *
99988922 CAATCACTTAAATAAAAACTTTTGAATAGTT
1 CAATGACTTAAATGAAAACTTTTGAATAGTT
99988953 CAATGACTTAAATGAAAACTTTTGAATAGTT
1 CAATGACTTAAATGAAAACTTTTGAATAGTT
99988984 CAATGACT
1 CAATGACT
99988992 ATTTGTAACT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.43, C:0.13, G:0.10, T:0.34
Consensus pattern (31 bp):
CAATGACTTAAATGAAAACTTTTGAATAGTT
Found at i:99990268 original size:26 final size:25
Alignment explanation
Indices: 99990239--99990296 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 25
99990229 TTAGCATCAC
*
99990239 TAATT-TTAGTTAATTGTGATTAAGGT
1 TAATTATTAGTTAA-T-TAATTAAGGT
99990265 TAATTAATTAGTTAATTAATTAAGGT
1 TAATT-ATTAGTTAATTAATTAAGGT
99990291 TAATTA
1 TAATTA
99990297 AAGTTTAATC
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
25 1 0.03
26 19 0.66
27 1 0.03
28 8 0.28
ACGTcount: A:0.38, C:0.00, G:0.14, T:0.48
Consensus pattern (25 bp):
TAATTATTAGTTAATTAATTAAGGT
Found at i:99990292 original size:14 final size:14
Alignment explanation
Indices: 99990257--99990297 Score: 68
Period size: 14 Copynumber: 3.1 Consensus size: 14
99990247 GTTAATTGTG
99990257 ATTAAGGTTAATTA
1 ATTAAGGTTAATTA
99990271 ATT-A-GTTAATTA
1 ATTAAGGTTAATTA
99990283 ATTAAGGTTAATTA
1 ATTAAGGTTAATTA
99990297 A
1 A
99990298 AGTTTAATCC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 11 0.44
13 2 0.08
14 12 0.48
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (14 bp):
ATTAAGGTTAATTA
Found at i:99990600 original size:21 final size:21
Alignment explanation
Indices: 99990574--99990637 Score: 128
Period size: 21 Copynumber: 3.0 Consensus size: 21
99990564 GTAGATGGTA
99990574 TTTGTAATCAATTAATTTAAG
1 TTTGTAATCAATTAATTTAAG
99990595 TTTGTAATCAATTAATTTAAG
1 TTTGTAATCAATTAATTTAAG
99990616 TTTGTAATCAATTAATTTAAG
1 TTTGTAATCAATTAATTTAAG
99990637 T
1 T
99990638 GTAATCCTTA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.38, C:0.05, G:0.09, T:0.48
Consensus pattern (21 bp):
TTTGTAATCAATTAATTTAAG
Found at i:99998623 original size:27 final size:27
Alignment explanation
Indices: 99998604--99998760 Score: 206
Period size: 27 Copynumber: 5.8 Consensus size: 27
99998594 ATTACCAAAG
*
99998604 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* * **
99998631 TACCCTCGGTTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCATTT
*
99998658 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* * *
99998685 TACCCTCAATTTACAGAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
99998712 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCATTT
*
99998739 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
99998761 TAAAATACCC
Statistics
Matches: 113, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 113 1.00
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCATTT
Found at i:99998651 original size:54 final size:54
Alignment explanation
Indices: 99998593--99998789 Score: 196
Period size: 54 Copynumber: 3.6 Consensus size: 54
99998583 CAATTTGTAA
* * * *
99998593 AATTACCAAAGTACCCTCGATTTACAGAATTACCGTTTTACCCTCGGTTTATAG
1 AATTACCAAATTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAG
**** * *
99998647 AATTACTGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCAATTTACAG
1 AATTACCAAATTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAG
* *** * * *
99998701 AATTATCGTTTTACCCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAA
1 AATTACCAAATTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAG
* * * * *
99998755 AATTACTAAAATACCCTTGGTTTACAAAATTACCA
1 AATTACCAAATTACCCTCGATTTACAGAATTACCA
99998790 AAATACCCCT
Statistics
Matches: 117, Mismatches: 26, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 117 1.00
ACGTcount: A:0.32, C:0.22, G:0.09, T:0.38
Consensus pattern (54 bp):
AATTACCAAATTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAG
Found at i:99998769 original size:27 final size:27
Alignment explanation
Indices: 99998712--99998962 Score: 163
Period size: 27 Copynumber: 9.2 Consensus size: 27
99998702 ATTATCGTTT
* * ***
99998712 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTAAAA
99998739 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
* * *
99998766 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
* ** *
99998793 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTACAAAATTACTAAAA
* ** *
99998820 TACCACT-GGTTTATGAAATTACTGAAA
1 TACC-CTCGATTTACAAAATTACTAAAA
* ** *
99998847 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
99998874 TACCC-CTGATTTACAAAATTAC-AGAAA
1 TACCCTC-GATTTACAAAATTACTA-AAA
*
99998901 TACCCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTCGA-TTTAC--AAAATTACTA-AAA
* * * *
99998930 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTCGATTTACAAAATTACTAAAA
99998957 TACCCT
1 TACCCT
99998963 TGGTTTGTAG
Statistics
Matches: 178, Mismatches: 33, Indels: 26
0.75 0.14 0.11
Matches are distributed among these distances:
26 4 0.02
27 146 0.82
28 8 0.04
29 20 0.11
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTAAAA
Found at i:99998779 original size:81 final size:81
Alignment explanation
Indices: 99998591--99998788 Score: 270
Period size: 81 Copynumber: 2.4 Consensus size: 81
99998581 CTCAATTTGT
* * *
99998591 AAAATTACCAAAGTACCCTCGATTTACAGAATTACCGTTTTACCCTCGGTTTATAGAATTACTGT
1 AAAATTACCAAAATACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACTAT
*
99998656 TTTACCCTCGATTTAT
66 TTTACCCTCGATTTAC
* *** * *
99998672 AGAATTACCATTTTACCCTCAATTTACAGAATTATCGTTTTACCCTCGATTTATAGAATTACTAT
1 AAAATTACCAAAATACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACTAT
99998737 TTTACCCTCGATTTAC
66 TTTACCCTCGATTTAC
* * * *
99998753 AAAATTACTAAAATACCCTTGGTTTACAAAATTACC
1 AAAATTACCAAAATACCCTCGATTTACAGAATTACC
99998789 AAAATACCCC
Statistics
Matches: 98, Mismatches: 19, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
81 98 1.00
ACGTcount: A:0.32, C:0.22, G:0.09, T:0.37
Consensus pattern (81 bp):
AAAATTACCAAAATACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACTAT
TTTACCCTCGATTTAC
Found at i:99998797 original size:81 final size:81
Alignment explanation
Indices: 99998591--99998895 Score: 202
Period size: 81 Copynumber: 3.8 Consensus size: 81
99998581 CTCAATTTGT
* * * **** * *
99998591 AAAATTACCAAAGTACCCTCGATTTACAGAATTACCGTTTTACCCTCGGTTTATAGAATTACTGT
1 AAAATTACCAAAATACCCTCAATTTACAAAATTACCAAAATACCCTCGATTTATAGAATTACTAT
*
99998656 TTTACCCTCGATTTAT
66 TTTACCCTCGATTTAC
* *** * * ****
99998672 AGAATTACCATTTTACCCTCAATTTACAGAATTATCGTTTTACCCTCGATTTATAGAATTACTAT
1 AAAATTACCAAAATACCCTCAATTTACAAAATTACCAAAATACCCTCGATTTATAGAATTACTAT
99998737 TTTACCCTCGATTTAC
66 TTTACCCTCGATTTAC
* *** * * * *
99998753 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCC-CTAGTTTGTAAAATTACCA
1 AAAATTACCAAAATACCCTCAATTTACAAAATTACCAAAATACCCTCGA-TTTATAGAATTACTA
*** * *
99998817 AAATACCACT-GGTTTAT
65 TTTTACC-CTCGATTTAC
* ** ** * *
99998834 GAAATTACTGAAATACCCTCAATTTGTAAAATTACCAAAATACCC-CTGATTTACAAAATTAC
1 AAAATTACCAAAATACCCTCAATTTACAAAATTACCAAAATACCCTC-GATTTATAGAATTAC
99998896 AGAAATACCC
Statistics
Matches: 179, Mismatches: 42, Indels: 6
0.79 0.19 0.03
Matches are distributed among these distances:
80 2 0.01
81 174 0.97
82 3 0.02
ACGTcount: A:0.36, C:0.21, G:0.08, T:0.35
Consensus pattern (81 bp):
AAAATTACCAAAATACCCTCAATTTACAAAATTACCAAAATACCCTCGATTTATAGAATTACTAT
TTTACCCTCGATTTAC
Found at i:99998965 original size:27 final size:27
Alignment explanation
Indices: 99998739--99998968 Score: 180
Period size: 27 Copynumber: 8.4 Consensus size: 27
99998729 ATTACTATTT
* *
99998739 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGGTTTACAAAATTACTAAAA
*
99998766 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACTAAAA
* * ** *
99998793 TACCCCTAGTTTGTAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACTAAAA
** *
99998820 TACCAC-TGGTTTATGAAATTACTGAAA
1 TACC-CTTGGTTTACAAAATTACTAAAA
*** ** *
99998847 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACTAAAA
* *
99998874 TACCCCTGATTTACAAAATTAC-AGAAA
1 TACCCTTGGTTTACAAAATTACTA-AAA
*
99998901 TACCCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTTG-GTTTAC--AAAATTACTA-AAA
* *
99998930 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGGTTTACAAAATTACTAAAA
99998957 TACCCTTGGTTT
1 TACCCTTGGTTT
99998969 GTAGATTTAC
Statistics
Matches: 164, Mismatches: 30, Indels: 18
0.77 0.14 0.08
Matches are distributed among these distances:
26 2 0.01
27 134 0.82
28 8 0.05
29 20 0.12
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (27 bp):
TACCCTTGGTTTACAAAATTACTAAAA
Found at i:99998983 original size:110 final size:108
Alignment explanation
Indices: 99998739--99998962 Score: 281
Period size: 108 Copynumber: 2.1 Consensus size: 108
99998729 ATTACTATTT
* ** * * * *
99998739 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTAGTT
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAATTACCAAAATACCCCTACTT
* **
99998804 TGTAAAATTACCAAAATACCACTGGTTTATGAAATTACTGAAA
66 TCTAAAATTACCAAAATACCACTGGTTTACAAAATTACTGAAA
*
99998847 TACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAATTA-CAGAAATACCCTTGAC
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAATTACCA-AAATACCCCT-AC
* *
99998911 TTTCTAAAAATTA-TAGAAATACCATTGGTTTACAAAATTACTGAAA
64 TTTCT-AAAATTACCA-AAATACCACTGGTTTACAAAATTACTGAAA
99998957 TACCCT
1 TACCCT
99998963 TGGTTTGTAG
Statistics
Matches: 99, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
107 2 0.02
108 51 0.52
109 6 0.06
110 40 0.40
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.31
Consensus pattern (108 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAATTACCAAAATACCCCTACTT
TCTAAAATTACCAAAATACCACTGGTTTACAAAATTACTGAAA
Found at i:99999081 original size:27 final size:27
Alignment explanation
Indices: 99999020--99999086 Score: 75
Period size: 27 Copynumber: 2.5 Consensus size: 27
99999010 ATACCTCTAA
*
99999020 TAGG-TAAAAAGACCGTAAAGCCCCTG
1 TAGGATAAAATGACCGTAAAGCCCCTG
* *
99999046 TAGGGTAAAGTGACCGTAATA-CCCCTG
1 TAGGATAAAATGACCGTAA-AGCCCCTG
*
99999073 TATGATAAAATGAC
1 TAGGATAAAATGAC
99999087 GAATATGCCC
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
26 4 0.12
27 29 0.85
28 1 0.03
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.21
Consensus pattern (27 bp):
TAGGATAAAATGACCGTAAAGCCCCTG
Found at i:100001387 original size:40 final size:41
Alignment explanation
Indices: 100001343--100001419 Score: 106
Period size: 41 Copynumber: 1.9 Consensus size: 41
100001333 GTCTGATATT
100001343 ATTCACCAGCA-ACAA-CCTGCTAGGCAT-AAAGCCCGATTAC
1 ATTCACCAGCATA-AAGCCTGCTAGGC-TGAAAGCCCGATTAC
*
100001383 ATTCACCAGCATAAAGCTTGCTAGGCTGAAAGCCCGA
1 ATTCACCAGCATAAAGCCTGCTAGGCTGAAAGCCCGA
100001420 ATATCCCTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
40 14 0.42
41 19 0.58
ACGTcount: A:0.34, C:0.30, G:0.18, T:0.18
Consensus pattern (41 bp):
ATTCACCAGCATAAAGCCTGCTAGGCTGAAAGCCCGATTAC
Found at i:100002338 original size:23 final size:22
Alignment explanation
Indices: 100002312--100002365 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
100002302 TTAATTTATG
*
100002312 TTATAATATATAC-ATATTATTA
1 TTATAATATA-ACTATAATATTA
* *
100002334 CTTATATTATAACTTTAATATTA
1 -TTATAATATAACTATAATATTA
100002357 TTATAATAT
1 TTATAATAT
100002366 TATTTCCACC
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 10 0.38
23 16 0.62
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.52
Consensus pattern (22 bp):
TTATAATATAACTATAATATTA
Found at i:100008709 original size:100 final size:100
Alignment explanation
Indices: 100008517--100008709 Score: 221
Period size: 100 Copynumber: 1.9 Consensus size: 100
100008507 TTATAGAGAA
*
100008517 TCAAAGATAATATCACAAATGTGCATACCTATATGGCCAAATATGCAAGATCAAATTTAACATCA
1 TCAAAGATAATATCACAAATGTGCATACCTATATGGCCAAATATGCAAGATCAAATATAACATCA
* * *
100008582 CCTAAGTACTTACTCATATGGCTGAATATACAAAT
66 CATAAGTACATACTCATATGGCAGAATATACAAAT
* *** * * *
100008617 TCAAATATAATATCACTTTTGTGCATACCT-TCATGGTCAAATATTCAAGATTC-AATATAACGT
1 TCAAAGATAATATCACAAATGTGCATACCTAT-ATGGCCAAATATGCAAGA-TCAAATATAACAT
* *
100008680 CACATATGTACATAC-CTATGTGGCAGAATA
64 CACATAAGTACATACTC-ATATGGCAGAATA
100008710 AATACAAGAT
Statistics
Matches: 77, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
99 2 0.03
100 73 0.95
101 2 0.03
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.31
Consensus pattern (100 bp):
TCAAAGATAATATCACAAATGTGCATACCTATATGGCCAAATATGCAAGATCAAATATAACATCA
CATAAGTACATACTCATATGGCAGAATATACAAAT
Found at i:100008913 original size:40 final size:41
Alignment explanation
Indices: 100008869--100008945 Score: 106
Period size: 41 Copynumber: 1.9 Consensus size: 41
100008859 GTCTGATATT
100008869 ATTCACCAGCA-ACAA-CCTGCTAGGCAT-AAAGCCCGATTAC
1 ATTCACCAGCATA-AAGCCTGCTAGGC-TGAAAGCCCGATTAC
*
100008909 ATTCACCAGCATAAAGCTTGCTAGGCTGAAAGCCCGA
1 ATTCACCAGCATAAAGCCTGCTAGGCTGAAAGCCCGA
100008946 ATATCCCTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
40 14 0.42
41 19 0.58
ACGTcount: A:0.34, C:0.30, G:0.18, T:0.18
Consensus pattern (41 bp):
ATTCACCAGCATAAAGCCTGCTAGGCTGAAAGCCCGATTAC
Found at i:100009471 original size:9 final size:9
Alignment explanation
Indices: 100009457--100009485 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
100009447 TATACTAGTC
100009457 CATTTATTT
1 CATTTATTT
100009466 CATTTATTT
1 CATTTATTT
100009475 CATTTATTT
1 CATTTATTT
100009484 CA
1 CA
100009486 CATTTTAGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.24, C:0.14, G:0.00, T:0.62
Consensus pattern (9 bp):
CATTTATTT
Found at i:100009871 original size:23 final size:22
Alignment explanation
Indices: 100009845--100009898 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
100009835 TTAATTTATG
*
100009845 TTATAATATATAC-ATATTATTA
1 TTATAATATA-ACTATAATATTA
* *
100009867 CTTATATTATAACTTTAATATTA
1 -TTATAATATAACTATAATATTA
100009890 TTATAATAT
1 TTATAATAT
100009899 TATTTCCACC
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 10 0.38
23 16 0.62
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.52
Consensus pattern (22 bp):
TTATAATATAACTATAATATTA
Found at i:100010489 original size:30 final size:31
Alignment explanation
Indices: 100010452--100010534 Score: 118
Period size: 31 Copynumber: 2.7 Consensus size: 31
100010442 CGCTTACAGT
*
100010452 AAAGGCTTCAG-CCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
100010482 AATGGCTTCGGCCCAAG-GATATGATTTATGA
1 AAAGGCTTCGGCCC-AGTGATATGATTTATGA
100010513 AAAGGCTTCGGCCCAGTG-TATG
1 AAAGGCTTCGGCCCAGTGATATG
100010535 TCGAGACTGA
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
30 15 0.32
31 30 0.64
32 2 0.04
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:100011404 original size:7 final size:7
Alignment explanation
Indices: 100011392--100011425 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
100011382 AAAATTATTG
100011392 TTATTTT
1 TTATTTT
100011399 TTATTTT
1 TTATTTT
100011406 TTA-TTT
1 TTATTTT
100011412 TTA-TTT
1 TTATTTT
100011418 TTATTTT
1 TTATTTT
100011425 T
1 T
100011426 CTTTCTTGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 12 0.46
7 14 0.54
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TTATTTT
Found at i:100011405 original size:6 final size:6
Alignment explanation
Indices: 100011386--100011425 Score: 53
Period size: 6 Copynumber: 6.3 Consensus size: 6
100011376 TAGCAGAAAA
*
100011386 TTATTG TTATTTT TTATTTT TTATTT TTATTT TTATTT TT
1 TTATTT TTA-TTT TTA-TTT TTATTT TTATTT TTATTT TT
100011426 CTTTCTTGTT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
6 20 0.62
7 12 0.38
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (6 bp):
TTATTT
Found at i:100011412 original size:13 final size:13
Alignment explanation
Indices: 100011386--100011425 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
100011376 TAGCAGAAAA
*
100011386 TTATTGTTATTTT
1 TTATTTTTATTTT
100011399 TTATTTTT-TATTT
1 TTATTTTTAT-TTT
100011412 TTATTTTTATTTT
1 TTATTTTTATTTT
100011425 T
1 T
100011426 CTTTCTTGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
12 1 0.04
13 22 0.92
14 1 0.04
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (13 bp):
TTATTTTTATTTT
Found at i:100012926 original size:27 final size:27
Alignment explanation
Indices: 100012907--100013063 Score: 215
Period size: 27 Copynumber: 5.8 Consensus size: 27
100012897 ATTTCCAAAG
*
100012907 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
* * *
100012934 TACCCTCGGTTTACAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
*
100012961 TACCTTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
* *
100012988 TACCCTCAATTTATAGAATTATCATTT
1 TACCCTCGATTTATAGAATTACCATTT
* *
100013015 TACCCTCGATTTATAAAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
* *
100013042 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTATAGAATTAC
100013064 TAAAATACCC
Statistics
Matches: 116, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 116 1.00
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACCATTT
Found at i:100013072 original size:27 final size:27
Alignment explanation
Indices: 100013015--100013197 Score: 138
Period size: 27 Copynumber: 6.8 Consensus size: 27
100013005 ATTATCATTT
* ****
100013015 TACCCTCGATTTATAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCAAAA
*
100013042 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
* *
100013069 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
* **
100013096 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTACAAAATTACCAAAA
* *** *
100013123 TACCACT-GGTTTGTGAAATTACCGAAA
1 TACC-CTCGATTTACAAAATTACCAAAA
* **
100013150 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
*
100013177 TATCCCT-GATTTGCAAAATTA
1 TA-CCCTCGATTTACAAAATTA
100013198 TAGAAATACC
Statistics
Matches: 127, Mismatches: 24, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
26 2 0.02
27 120 0.94
28 5 0.04
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.32
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCAAAA
Found at i:100013073 original size:81 final size:81
Alignment explanation
Indices: 100012894--100013074 Score: 227
Period size: 81 Copynumber: 2.2 Consensus size: 81
100012884 CTCAATTTGT
* * * * * *
100012894 AAAATTTCCAAAGTACCCTCGATTTATAGAATTACCGTTTTACCCTCGGTTTACAGAATTACCGT
1 AAAATTACCAAAATACCCTCAATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACCGT
* *
100012959 TTTACCTTCGATTTAT
66 TTTACCCTCGATTTAC
* *** * *
100012975 AGAATTACCATTTTACCCTCAATTTATAGAATTATCATTTTACCCTCGATTTATAAAATTACCGT
1 AAAATTACCAAAATACCCTCAATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACCGT
100013040 TTTACCCTCGATTTAC
66 TTTACCCTCGATTTAC
*
100013056 AAAATTACTAAAATACCCT
1 AAAATTACCAAAATACCCT
100013075 TGGTTTACAA
Statistics
Matches: 82, Mismatches: 18, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
81 82 1.00
ACGTcount: A:0.32, C:0.22, G:0.08, T:0.38
Consensus pattern (81 bp):
AAAATTACCAAAATACCCTCAATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACCGT
TTTACCCTCGATTTAC
Found at i:100013100 original size:54 final size:54
Alignment explanation
Indices: 100013042--100013265 Score: 163
Period size: 54 Copynumber: 4.1 Consensus size: 54
100013032 ATTACCGTTT
* *
100013042 TACCCTCGA-TTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGACTTTGCAAAATTACCAAAATACCC-TGGTTTACAAAATTACCAAAA
* * * *** *
100013096 TACCC-CTAGTTTGTAAAATTACCAAAATACCACTGGTTTGTGAAATTACCGAAA
1 TACCCTCGACTTTGCAAAATTACCAAAATACC-CTGGTTTACAAAATTACCAAAA
* * * * *
100013150 TACCCTC-AATTTGTAAAATTACCAAAATATCCCTGATTTGCAAAATTA-TAGAAA
1 TACCCTCGACTTTGCAAAATTACCAAAATA-CCCTGGTTTACAAAATTACCA-AAA
* * * **
100013204 TACCCTTGACTTT-CTAAAAATTA-TAGAAATACCATTGGTTTACAAAATTACTGAAA
1 TACCCTCGACTTTGC--AAAATTACCA-AAATACC-CTGGTTTACAAAATTACCAAAA
100013260 TACCCT
1 TACCCT
100013266 TCGTTTGTAG
Statistics
Matches: 137, Mismatches: 22, Indels: 20
0.77 0.12 0.11
Matches are distributed among these distances:
53 2 0.01
54 89 0.65
55 11 0.08
56 34 0.25
57 1 0.01
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.31
Consensus pattern (54 bp):
TACCCTCGACTTTGCAAAATTACCAAAATACCCTGGTTTACAAAATTACCAAAA
Found at i:100013142 original size:81 final size:82
Alignment explanation
Indices: 100013056--100013294 Score: 209
Period size: 81 Copynumber: 2.9 Consensus size: 82
100013046 CTCGATTTAC
100013056 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAA
1 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCT-GTTTGTAAAATTACCAA
* *
100013121 AATACCAC-TG-GTTTGT-
65 AATACC-CTTGACTTTCTA
* ** *** ** * * *
100013137 GAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATATCCCTGATTTGCAAAATTA-TAG
1 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTG-TTTGTAAAATTACCA-
100013201 AAATACCCTTGACTTTCTA
64 AAATACCCTTGACTTTCTA
* ** * * *
100013220 AAAATTA-TAGAAATACCATTGGTTTACAAAATTACTGAAATACCCTTCGTTTGTAGATTTACCA
1 AAAATTACTA-AAATACCCTTGGTTTACAAAATTACCAAAATACCCCT-GTTTGTAAAATTACCA
*
100013284 AAACACCCTTG
64 AAATACCCTTG
100013295 TAGGATGAAG
Statistics
Matches: 119, Mismatches: 31, Indels: 14
0.73 0.19 0.09
Matches are distributed among these distances:
80 3 0.03
81 58 0.49
82 4 0.03
83 52 0.44
84 2 0.02
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (82 bp):
AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTGTTTGTAAAATTACCAAA
ATACCCTTGACTTTCTA
Found at i:100013204 original size:27 final size:28
Alignment explanation
Indices: 100013191--100013266 Score: 86
Period size: 29 Copynumber: 2.7 Consensus size: 28
100013181 CCTGATTTGC
100013191 AAAATTATAGAAATACCCTTGACTTTCTA
1 AAAATTATAGAAATACCCTTGACTTTC-A
* *
100013220 AAAATTATAGAAATACCATTG-GTTT-A
1 AAAATTATAGAAATACCCTTGACTTTCA
100013246 CAAAATTACT-GAAATACCCTT
1 -AAAATTA-TAGAAATACCCTT
100013267 CGTTTGTAGA
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
26 1 0.02
27 17 0.40
28 4 0.10
29 20 0.48
ACGTcount: A:0.43, C:0.16, G:0.08, T:0.33
Consensus pattern (28 bp):
AAAATTATAGAAATACCCTTGACTTTCA
Found at i:100014242 original size:25 final size:24
Alignment explanation
Indices: 100014199--100014268 Score: 86
Period size: 25 Copynumber: 2.8 Consensus size: 24
100014189 AGGAAGTGCT
* * *
100014199 AAAAGGGCTATACCTCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTACC
*
100014223 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTACC
100014248 AAGAAGGGCTTTGCCCCAGTT
1 AA-AAGGGCTTTGCCCCAGTT
100014269 ATTAAAAGAG
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
24 2 0.05
25 38 0.95
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTACC
Found at i:100014281 original size:24 final size:23
Alignment explanation
Indices: 100014224--100014295 Score: 81
Period size: 25 Copynumber: 3.0 Consensus size: 23
100014214 CAGTTTACCG
100014224 AAAAGGGCTTTGCCCCAGTTTATC
1 AAAAGGGCTTTGCCCCAG-TTATC
*
100014248 AAGAAGGGCTTTGCCCCAGTTATT
1 AA-AAGGGCTTTGCCCCAGTTATC
**
100014272 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAG-GGCTTTGCC-CCAGTTAT
100014296 ATGATAAAGC
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
23 3 0.07
24 15 0.36
25 24 0.57
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (23 bp):
AAAAGGGCTTTGCCCCAGTTATC
Found at i:100014522 original size:30 final size:30
Alignment explanation
Indices: 100014488--100014569 Score: 148
Period size: 30 Copynumber: 2.7 Consensus size: 30
100014478 CGCTTACAGT
100014488 AAAGGCTTCGG-CCAGTCATATGATTTATGA
1 AAAGGCTTCGGCCCAGT-ATATGATTTATGA
100014518 AAAGGCTTCGGCCCAGTATATGATTTATGA
1 AAAGGCTTCGGCCCAGTATATGATTTATGA
100014548 AAAGGCTTCGGCCCAGTATATG
1 AAAGGCTTCGGCCCAGTATATG
100014570 TCGAGACTGA
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
30 46 0.90
31 5 0.10
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.28
Consensus pattern (30 bp):
AAAGGCTTCGGCCCAGTATATGATTTATGA
Found at i:100016955 original size:32 final size:32
Alignment explanation
Indices: 100016919--100016983 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
100016909 CGTATGCATT
100016919 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
100016951 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
100016983 T
1 T
100016984 GGTAAGCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATGGATGATGGGCA
Found at i:100020181 original size:13 final size:13
Alignment explanation
Indices: 100020163--100020188 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
100020153 AGGATTTGTT
100020163 TTATCTAAACTAA
1 TTATCTAAACTAA
100020176 TTATCTAAACTAA
1 TTATCTAAACTAA
100020189 GAATGCACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:100022983 original size:17 final size:19
Alignment explanation
Indices: 100022961--100023009 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 19
100022951 CTAATAGATA
100022961 AATATTAAATTA-CA-TTT
1 AATATTAAATTATCACTTT
*
100022978 AATATTAAGATAATCACTTT
1 AATATTAA-ATTATCACTTT
100022998 AATATTAAATTA
1 AATATTAAATTA
100023010 ATAAAATACT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 8 0.30
18 3 0.11
19 5 0.19
20 11 0.41
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (19 bp):
AATATTAAATTATCACTTT
Found at i:100027528 original size:22 final size:21
Alignment explanation
Indices: 100027498--100027544 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
100027488 TACAAATTAA
100027498 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
100027520 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
100027541 ATCT
1 ATCT
100027545 AAGATTGCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:100027550 original size:19 final size:19
Alignment explanation
Indices: 100027515--100027593 Score: 117
Period size: 19 Copynumber: 4.2 Consensus size: 19
100027505 AGATTACAAG
100027515 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
100027536 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
*
100027555 GTCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
100027572 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
100027591 ATC
1 ATC
100027594 CTTAAAGATT
Statistics
Matches: 54, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
17 16 0.30
19 29 0.54
20 1 0.02
21 8 0.15
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:100027578 original size:36 final size:39
Alignment explanation
Indices: 100027516--100027590 Score: 120
Period size: 36 Copynumber: 2.0 Consensus size: 39
100027506 GATTACAAGA
100027516 TCATATCTTCAAGATTGCATATCATATCTAAGATTGCATG
1 TCATATCTTCAAGATTG-ATATCATATCTAAGATTGCATG
100027556 TCATATC-T-AAGATTG-TATCATATCTAAGATTGCAT
1 TCATATCTTCAAGATTGATATCATATCTAAGATTGCAT
100027591 ATCCTTAAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
36 20 0.57
38 7 0.20
39 1 0.03
40 7 0.20
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.39
Consensus pattern (39 bp):
TCATATCTTCAAGATTGATATCATATCTAAGATTGCATG
Found at i:100027593 original size:14 final size:15
Alignment explanation
Indices: 100027554--100027593 Score: 55
Period size: 17 Copynumber: 2.6 Consensus size: 15
100027544 TAAGATTGCA
100027554 TGTCATATCTAAGAT
1 TGTCATATCTAAGAT
100027569 TGTATCATATCTAAGAT
1 TG--TCATATCTAAGAT
100027586 TG-CATATC
1 TGTCATATC
100027594 CTTAAAGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
14 6 0.26
15 2 0.09
17 15 0.65
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (15 bp):
TGTCATATCTAAGAT
Found at i:100034426 original size:84 final size:84
Alignment explanation
Indices: 100034318--100034623 Score: 495
Period size: 84 Copynumber: 3.5 Consensus size: 84
100034308 AGTGTGCTCT
100034318 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
100034383 TGAAAGATACCATGGCAAC
66 TGAAAGATACCATGGCAAC
100034402 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
100034467 TGAAAGATACCATGGCAAC
66 TGAAAGATACCATGGCAAC
100034486 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAGATGTGTAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-----T--G-TGTGTAAG
100034551 ACCATGGTTGAAAGATACCATGGCAAC
58 ACCATGGTTGAAAGATACCATGGCAAC
* * * **
100034578 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
100034624 ATGACAGAAA
Statistics
Matches: 209, Mismatches: 5, Indels: 8
0.94 0.02 0.04
Matches are distributed among these distances:
84 131 0.63
89 1 0.00
91 1 0.00
92 76 0.36
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (84 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
TGAAAGATACCATGGCAAC
Found at i:100034434 original size:46 final size:46
Alignment explanation
Indices: 100034367--100034667 Score: 422
Period size: 46 Copynumber: 6.7 Consensus size: 46
100034357 TGGCAACCTG
100034367 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
100034413 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-----TG---
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
100034451 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
*
100034497 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAGA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
* *
100034543 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
* ** * *
100034589 AGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG-AAA
* * * *
100034635 TGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCA
100034668 TCATGTCAAA
Statistics
Matches: 233, Mismatches: 13, Indels: 18
0.88 0.05 0.07
Matches are distributed among these distances:
38 36 0.15
41 2 0.01
43 2 0.01
45 1 0.00
46 192 0.82
ACGTcount: A:0.38, C:0.16, G:0.25, T:0.22
Consensus pattern (46 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
Found at i:100034973 original size:23 final size:25
Alignment explanation
Indices: 100034928--100034974 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
100034918 AATAAATATA
*
100034928 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
100034953 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
100034975 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:100039860 original size:46 final size:46
Alignment explanation
Indices: 100039722--100039988 Score: 315
Period size: 46 Copynumber: 5.7 Consensus size: 46
100039712 AGTGTGCTCT
100039722 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
100039768 CTGTGTCTAAGAACATG-GTTGAA-A-GATGGTTGAAAGATACCATGGCAAC
1 C--TG-ATATGAA-ATGTG-T-AAGACCATGGTTGAAAGATACCATGGCAAC
100039817 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
100039863 CTGATATGAGATGTGTAAGACCATGGTTGAAAGAAACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * **
100039909 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * ** * *
100039955 ATGACAAAAAATGAGTAAGACCATAGTTGAAAGA
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGA
100039989 CACTATGACA
Statistics
Matches: 191, Mismatches: 21, Indels: 18
0.83 0.09 0.08
Matches are distributed among these distances:
44 2 0.01
45 5 0.03
46 142 0.74
47 2 0.01
48 2 0.01
49 31 0.16
50 5 0.03
51 2 0.01
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:100039984 original size:138 final size:141
Alignment explanation
Indices: 100039722--100039988 Score: 355
Period size: 138 Copynumber: 1.9 Consensus size: 141
100039712 AGTGTGCTCT
* * * **
100039722 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTCTAAGAACATGGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGAAACCATGGCAACCTGTGACTAAGAACAAGAA
* * * ** * *
100039787 TGAAAGATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGAT
66 TGAAACATGGTTGAAAGATACCATGGCAACATGACAAAAAATGAGTAAGACCATAGTTGAAAGAT
100039852 ACCATGGCAAC
131 ACCATGGCAAC
* *
100039863 CTGATATGAGATGTGTAAGACCATGGTTGAAAGAAACCATGGCAA-C-GTGAC-ATGAA-AAGAA
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGAAACCATGGCAACCTGTGACTAAGAACAAGAA
100039924 T-AAGACCATGGTTGAAAGATACCATGGCAACATGACAAAAAATGAGTAAGACCATAGTTGAAAG
66 TGAA-A-CATGGTTGAAAGATACCATGGCAACATGACAAAAAATGAGTAAGACCATAGTTGAAAG
100039988 A
129 A
100039989 CACTATGACA
Statistics
Matches: 110, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
136 2 0.02
137 4 0.04
138 56 0.51
139 4 0.04
140 1 0.01
141 43 0.39
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.22
Consensus pattern (141 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGAAACCATGGCAACCTGTGACTAAGAACAAGAA
TGAAACATGGTTGAAAGATACCATGGCAACATGACAAAAAATGAGTAAGACCATAGTTGAAAGAT
ACCATGGCAAC
Found at i:100040273 original size:23 final size:25
Alignment explanation
Indices: 100040228--100040274 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
100040218 AATAAATATA
*
100040228 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
100040253 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
100040275 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:100043232 original size:46 final size:46
Alignment explanation
Indices: 100043165--100043465 Score: 377
Period size: 46 Copynumber: 6.7 Consensus size: 46
100043155 TGGCAACCTG
* * *
100043165 TGTGTAAGACTATGGTTGAAAGATACCTTGGCAACCTGATATGGAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
100043211 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-----TG---
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
*
100043249 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTAATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
* *
100043295 TGTGTAAGACCATGGTTGAAAGATACCCTGGCAACCTGATATGAGA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
* *
100043341 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
* ** * *
100043387 AGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG-AAA
* * * *
100043433 TGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCA
100043466 TCATGTCAAA
Statistics
Matches: 228, Mismatches: 18, Indels: 18
0.86 0.07 0.07
Matches are distributed among these distances:
38 36 0.16
41 2 0.01
43 2 0.01
45 1 0.00
46 187 0.82
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.23
Consensus pattern (46 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
Found at i:100043251 original size:84 final size:84
Alignment explanation
Indices: 100043116--100043421 Score: 450
Period size: 84 Copynumber: 3.5 Consensus size: 84
100043106 AGTGTGCTCT
*
100043116 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACTATGGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
*
100043181 TGAAAGATACCTTGGCAAC
66 TGAAAGATACCATGGCAAC
*
100043200 CTGATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
100043265 TGAAAGATACCATGGCAAC
66 TGAAAGATACCATGGCAAC
* *
100043284 CTAATATGAAATGTGTAAGACCATGGTTGAAAGATACCCTGGCAACCTGATATGAGATGTGTAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-----T--G-TGTGTAAG
100043349 ACCATGGTTGAAAGATACCATGGCAAC
58 ACCATGGTTGAAAGATACCATGGCAAC
* * * **
100043376 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
100043422 ATGACAGAAA
Statistics
Matches: 201, Mismatches: 13, Indels: 8
0.91 0.06 0.04
Matches are distributed among these distances:
84 125 0.62
89 1 0.00
91 1 0.00
92 74 0.37
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.24
Consensus pattern (84 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
TGAAAGATACCATGGCAAC
Found at i:100043771 original size:23 final size:25
Alignment explanation
Indices: 100043726--100043772 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
100043716 AATAAATATA
*
100043726 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
100043751 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
100043773 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:100044584 original size:13 final size:13
Alignment explanation
Indices: 100044566--100044601 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
100044556 GATAAATCCC
100044566 CATGGCCGTGCGA
1 CATGGCCGTGCGA
*
100044579 CATGGCCGTGTGA
1 CATGGCCGTGCGA
100044592 CATGGCCGTG
1 CATGGCCGTG
100044602 GGTGAACTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.14, C:0.28, G:0.39, T:0.19
Consensus pattern (13 bp):
CATGGCCGTGCGA
Found at i:100046650 original size:5 final size:5
Alignment explanation
Indices: 100046640--100046709 Score: 56
Period size: 5 Copynumber: 13.6 Consensus size: 5
100046630 TCCTCCTATC
*
100046640 TTTAT TTTAT TTTA- TTTAT TTTATT TTTCT TTTGATT TTTAT TTTCAT
1 TTTAT TTTAT TTTAT TTTAT TTTA-T TTTAT TTT-A-T TTTAT TTT-AT
*
100046688 TTCAAT TTTA- -TTAT TTTAT TTT
1 TT-TAT TTTAT TTTAT TTTAT TTT
100046710 GAAAGACATA
Statistics
Matches: 53, Mismatches: 4, Indels: 16
0.73 0.05 0.22
Matches are distributed among these distances:
3 3 0.06
4 4 0.08
5 29 0.55
6 13 0.25
7 4 0.08
ACGTcount: A:0.19, C:0.04, G:0.01, T:0.76
Consensus pattern (5 bp):
TTTAT
Found at i:100046679 original size:12 final size:11
Alignment explanation
Indices: 100046640--100046709 Score: 56
Period size: 12 Copynumber: 6.3 Consensus size: 11
100046630 TCCTCCTATC
100046640 TTTA-TTTTAT
1 TTTATTTTTAT
100046650 TTTA--TTTAT
1 TTTATTTTTAT
*
100046659 TTTATTTTTCT
1 TTTATTTTTAT
100046670 TTTGATTTTTAT
1 TTT-ATTTTTAT
**
100046682 TTTCATTTCAAT
1 TTT-ATTTTTAT
100046694 TTTATTATTTTAT
1 TTTA-T-TTTTAT
100046707 TTT
1 TTT
100046710 GAAAGACATA
Statistics
Matches: 48, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
9 9 0.19
10 4 0.08
11 8 0.17
12 20 0.42
13 7 0.15
ACGTcount: A:0.19, C:0.04, G:0.01, T:0.76
Consensus pattern (11 bp):
TTTATTTTTAT
Found at i:100046684 original size:17 final size:17
Alignment explanation
Indices: 100046643--100046699 Score: 57
Period size: 17 Copynumber: 3.5 Consensus size: 17
100046633 TCCTATCTTT
100046643 ATTTTATTTT-ATTT--
1 ATTTTATTTTCATTTCA
* *
100046657 ATTTTATTTTTCTTTTGA
1 ATTTTA-TTTTCATTTCA
*
100046675 TTTTTATTTTCATTTCA
1 ATTTTATTTTCATTTCA
100046692 ATTTTATT
1 ATTTTATT
100046700 ATTTTATTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
14 6 0.18
15 4 0.12
16 3 0.09
17 16 0.47
18 5 0.15
ACGTcount: A:0.19, C:0.05, G:0.02, T:0.74
Consensus pattern (17 bp):
ATTTTATTTTCATTTCA
Found at i:100052269 original size:24 final size:24
Alignment explanation
Indices: 100052237--100052287 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
100052227 AAGTCTGCCA
**
100052237 GGATAGGATTTAGGAGTTGATAAG
1 GGATAGGATTTAGGAGCAGATAAG
100052261 GGATAGGATTTAGGAGCAGATAAG
1 GGATAGGATTTAGGAGCAGATAAG
100052285 GGA
1 GGA
100052288 GTAAATCTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.35, C:0.02, G:0.39, T:0.24
Consensus pattern (24 bp):
GGATAGGATTTAGGAGCAGATAAG
Found at i:100053764 original size:27 final size:26
Alignment explanation
Indices: 100053706--100053819 Score: 129
Period size: 27 Copynumber: 4.2 Consensus size: 26
100053696 AGGAAGCGTC
* *
100053706 CTGGTGGCTATGCCACAAATTATCTGAT
1 CTGGTGGCTCTGCCAC--ATTATCTGTT
100053734 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
*
100053761 CTGGTGGTTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGT-T
* *
100053789 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
*
100053815 TTGGT
1 CTGGT
100053820 AGCCATGCTG
Statistics
Matches: 76, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
26 7 0.09
27 38 0.50
28 31 0.41
ACGTcount: A:0.17, C:0.22, G:0.23, T:0.39
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:100053791 original size:55 final size:54
Alignment explanation
Indices: 100053706--100053819 Score: 149
Period size: 55 Copynumber: 2.1 Consensus size: 54
100053696 AGGAAGCGTC
*
100053706 CTGGTGGCTATGCCACAAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAAATTATCTGATCTGGTGACTCTGCCACAT-TATCTGTT
* * * *
100053761 CTGGTGGTTCTGCCAC-GATTATCTGTATCTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTATGCCACAAATTATCTG-ATCTGGTGACTCTGCCACATTATCTGTT
*
100053815 TTGGT
1 CTGGT
100053820 AGCCATGCTG
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
54 20 0.38
55 32 0.62
ACGTcount: A:0.17, C:0.22, G:0.23, T:0.39
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAAATTATCTGATCTGGTGACTCTGCCACATTATCTGTT
Found at i:100054895 original size:16 final size:16
Alignment explanation
Indices: 100054874--100054907 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
100054864 AGGGTCCTTG
100054874 TCTCAAAGAGCATCTT
1 TCTCAAAGAGCATCTT
100054890 TCTCAAAGAGCATCTT
1 TCTCAAAGAGCATCTT
100054906 TC
1 TC
100054908 CTCGTCACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.32
Consensus pattern (16 bp):
TCTCAAAGAGCATCTT
Found at i:100064783 original size:380 final size:380
Alignment explanation
Indices: 100064125--100064887 Score: 1465
Period size: 380 Copynumber: 2.0 Consensus size: 380
100064115 ACTGGAAAAA
100064125 TGTTTTTACCAATAATTTTCTACTGTTAAATATATATTAATAAAAATATTATCTTTATTTAATAT
1 TGTTTTTACCAATAATTTTCTACTGTTAAATATATATTAATAAAAATATTATCTTTATTTAATAT
100064190 GATAAAAATATTGATCAATTCAAAATTACGATTATAGTGATGTATTCAATTGTTAGGTTGTTAGG
66 GATAAAAATATTGATCAATTCAAAATTACGATTATAGTGATGTATTCAATTGTTAGGTTGTTAGG
100064255 ACATTAATCATAAAAAAGTTTTAGAAGTGTATAATAATTATTTAGTTTTACACAACTGATTTATT
131 ACATTAATCATAAAAAAGTTTTAGAAGTGTATAATAATTATTTAGTTTTACACAACTGATTTATT
* *
100064320 CAATTGTTATATTTTTATACTATTTGTCCTATTTTAAAATGTGATTATGAATATCTATACTATTT
196 CAATTGTTATAATTTTATACTATTTGTCCTATTTTAAAATGTGATTATGAATATATATACTATTT
*
100064385 TAAAATCTCTTTTTAAATAAAATAATTGTTAACACATAAAGTTGTTAATTGCTTGAACTATTATA
261 TAAAATCTCTTATTAAATAAAATAATTGTTAACACATAAAGTTGTTAATTGCTTGAACTATTATA
100064450 TTTGAATGAAAGTGCTTGATGACAATGACCATGCGGGTTGGGACTACAAAATCTG
326 TTTGAATGAAAGTGCTTGATGACAATGACCATGCGGGTTGGGACTACAAAATCTG
*
100064505 TGTTTTTACCAATAATCTTT-TACTGTTAAATATATATTAATAAGAATATTATCTTTATTTAATA
1 TGTTTTTACCAATAAT-TTTCTACTGTTAAATATATATTAATAAAAATATTATCTTTATTTAATA
100064569 TGATAAAAATATTGATCAATTCAAAATTACGATTATAGTGATGTATTCAATTGTTAGGTTGTTAG
65 TGATAAAAATATTGATCAATTCAAAATTACGATTATAGTGATGTATTCAATTGTTAGGTTGTTAG
100064634 GACATTAATCATAAAAAAGTTTTAGAAGTGTATAATAATTATTTAGTTTTACACAACTGATTTAT
130 GACATTAATCATAAAAAAGTTTTAGAAGTGTATAATAATTATTTAGTTTTACACAACTGATTTAT
*
100064699 TCAATTGTTATAATTTTATACTATTTTTCCTATTTTAAAATGTGATTATGAATATATATACTATT
195 TCAATTGTTATAATTTTATACTATTTGTCCTATTTTAAAATGTGATTATGAATATATATACTATT
100064764 TTAAAATCTCTTATTAAATAAAATAATTGTTAACACATAAAGTTGTTAATTGCTTGAACTATTAT
260 TTAAAATCTCTTATTAAATAAAATAATTGTTAACACATAAAGTTGTTAATTGCTTGAACTATTAT
100064829 ATTTGAATGAAAGTGCTTGATGACAATGACCATGCGGGTTGGGACTACAAAATCTG
325 ATTTGAATGAAAGTGCTTGATGACAATGACCATGCGGGTTGGGACTACAAAATCTG
100064885 TGT
1 TGT
100064888 AAAAAATAAC
Statistics
Matches: 377, Mismatches: 5, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
380 374 0.99
381 3 0.01
ACGTcount: A:0.37, C:0.09, G:0.12, T:0.42
Consensus pattern (380 bp):
TGTTTTTACCAATAATTTTCTACTGTTAAATATATATTAATAAAAATATTATCTTTATTTAATAT
GATAAAAATATTGATCAATTCAAAATTACGATTATAGTGATGTATTCAATTGTTAGGTTGTTAGG
ACATTAATCATAAAAAAGTTTTAGAAGTGTATAATAATTATTTAGTTTTACACAACTGATTTATT
CAATTGTTATAATTTTATACTATTTGTCCTATTTTAAAATGTGATTATGAATATATATACTATTT
TAAAATCTCTTATTAAATAAAATAATTGTTAACACATAAAGTTGTTAATTGCTTGAACTATTATA
TTTGAATGAAAGTGCTTGATGACAATGACCATGCGGGTTGGGACTACAAAATCTG
Found at i:100067638 original size:61 final size:61
Alignment explanation
Indices: 100067520--100067703 Score: 160
Period size: 61 Copynumber: 3.0 Consensus size: 61
100067510 AATAATTTTT
* ** * *
100067520 GCTTAGTGCTCGT-TGCCATGTGTTTGGCACTTAGTGCCTCATCGGTCTAGCCAAAGTATTTGC
1 GCTTAGTGCTC-TCT-CCATGTATTTGGCACCCAGTGCCTCATCGGACTAG-CGAAGTATTTGC
* *
100067583 GCTTAGTGCTCTCTCGATGTATTTGGCACCCAGTG-CTTATCGGACTAGTCGAAGTATTTGC
1 GCTTAGTGCTCTCTCCATGTATTTGGCACCCAGTGCCTCATCGGACTAG-CGAAGTATTTGC
* ** * * * *
100067644 ACCCA-T-CACTCATCTATGTATTTGGCACCCAATGCCTCATCGAACTAGCTGAAGTATTTG
1 GCTTAGTGCTCTC-TCCATGTATTTGGCACCCAGTGCCTCATCGGACTAGC-GAAGTATTTG
100067704 TCTGCACATT
Statistics
Matches: 101, Mismatches: 16, Indels: 10
0.80 0.13 0.08
Matches are distributed among these distances:
59 4 0.04
60 22 0.22
61 45 0.45
62 18 0.18
63 12 0.12
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.33
Consensus pattern (61 bp):
GCTTAGTGCTCTCTCCATGTATTTGGCACCCAGTGCCTCATCGGACTAGCGAAGTATTTGC
Found at i:100068169 original size:12 final size:12
Alignment explanation
Indices: 100068152--100068188 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
100068142 ATATATACAT
100068152 ATCAATTTCATA
1 ATCAATTTCATA
100068164 ATCAA--TCAT-
1 ATCAATTTCATA
100068173 ATCAATTTCATA
1 ATCAATTTCATA
100068185 ATCA
1 ATCA
100068189 CTCATAACAT
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
9 5 0.23
10 4 0.18
11 4 0.18
12 9 0.41
ACGTcount: A:0.43, C:0.19, G:0.00, T:0.38
Consensus pattern (12 bp):
ATCAATTTCATA
Found at i:100068173 original size:21 final size:21
Alignment explanation
Indices: 100068149--100068194 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
100068139 TCAATATATA
100068149 CATATCAATTTCATAATCAAT
1 CATATCAATTTCATAATCAAT
*
100068170 CATATCAATTTCATAATCACT
1 CATATCAATTTCATAATCAAT
100068191 CATA
1 CATA
100068195 ACATCCACTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.41, C:0.22, G:0.00, T:0.37
Consensus pattern (21 bp):
CATATCAATTTCATAATCAAT
Found at i:100070032 original size:9 final size:9
Alignment explanation
Indices: 100070018--100070050 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
100070008 GTTAAACAAA
100070018 TCGAGTTAT
1 TCGAGTTAT
*
100070027 TCGAGTTAA
1 TCGAGTTAT
100070036 TCGAGTTAT
1 TCGAGTTAT
100070045 TCGAGT
1 TCGAGT
100070051 CAACTCGATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.24, C:0.12, G:0.24, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:100070039 original size:18 final size:18
Alignment explanation
Indices: 100070016--100070050 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
100070006 GAGTTAAACA
100070016 AATCGAGTTATTCGAGTT
1 AATCGAGTTATTCGAGTT
100070034 AATCGAGTTATTCGAGT
1 AATCGAGTTATTCGAGT
100070051 CAACTCGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.29, C:0.11, G:0.23, T:0.37
Consensus pattern (18 bp):
AATCGAGTTATTCGAGTT
Found at i:100070117 original size:9 final size:9
Alignment explanation
Indices: 100070100--100070145 Score: 83
Period size: 9 Copynumber: 5.1 Consensus size: 9
100070090 TGAGTTTTCG
100070100 AATTCGAAT
1 AATTCGAAT
*
100070109 AACTCGAAT
1 AATTCGAAT
100070118 AATTCGAAT
1 AATTCGAAT
100070127 AATTCGAAT
1 AATTCGAAT
100070136 AATTCGAAT
1 AATTCGAAT
100070145 A
1 A
100070146 TCAAACTATA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 35 1.00
ACGTcount: A:0.46, C:0.13, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:100070535 original size:16 final size:16
Alignment explanation
Indices: 100070503--100070532 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
100070493 CTATTTACTT
100070503 TCCCTCAAAACTTTTA
1 TCCCTCAAAACTTTTA
100070519 TCCC-CAAAACTTTT
1 TCCCTCAAAACTTTT
100070533 TATTTTCCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.30, C:0.33, G:0.00, T:0.37
Consensus pattern (16 bp):
TCCCTCAAAACTTTTA
Found at i:100074813 original size:22 final size:22
Alignment explanation
Indices: 100074788--100074832 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
100074778 TTTAATAAAA
100074788 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
100074810 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
100074832 A
1 A
100074833 CACTCCCCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:100078172 original size:22 final size:22
Alignment explanation
Indices: 100078146--100078195 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
100078136 TTTTAATAAA
*
100078146 AAAATATCTATAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
100078168 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
*
100078190 ACAATA
1 AAAATA
100078196 ATCAGACAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.50, C:0.14, G:0.02, T:0.34
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:100084104 original size:27 final size:24
Alignment explanation
Indices: 100084074--100084127 Score: 63
Period size: 27 Copynumber: 2.1 Consensus size: 24
100084064 TGATTCACTT
100084074 ACTCTATTATAAAACTACACTTTTATA
1 ACTCTATTATAAAA-TA-A-TTTTATA
* *
100084101 ACTCTTTTATGAAATAATTTTATA
1 ACTCTATTATAAAATAATTTTATA
100084125 ACT
1 ACT
100084128 TTATCTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 10 0.40
25 1 0.04
26 2 0.08
27 12 0.48
ACGTcount: A:0.39, C:0.15, G:0.02, T:0.44
Consensus pattern (24 bp):
ACTCTATTATAAAATAATTTTATA
Found at i:100084172 original size:3 final size:3
Alignment explanation
Indices: 100084166--100084193 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
100084156 GTTGTTGTTT
100084166 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
100084194 GGTTTAAGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:100084400 original size:98 final size:96
Alignment explanation
Indices: 100084228--100084410 Score: 224
Period size: 98 Copynumber: 1.9 Consensus size: 96
100084218 AAACTTTTTC
** * * * **
100084228 AAAAAAATCAATTAAGCTCTTGTTTTTTTTTTTTGCACTCAATTGAGTAGTTGAACTTTCAAAAT
1 AAAAAAAGAAATTAAGCCCTTGTTTTTATTTTTTGCACTCAATTGAGTACTTGAACTACCAAAAT
* *
100084293 ATATTAAAAAGGCCTTCAAAATTTTTCAAAA
66 ACATCAAAAAGGCCTTCAAAATTTTTCAAAA
100084324 AAAAAAAGAAATTAAGCCCTTGCTTTTTAATTTTTTGCACTCAATTG-GATACTTGAACTACCAA
1 AAAAAAAGAAATTAAGCCCTTG-TTTTT-ATTTTTTGCACTCAATTGAG-TACTTGAACTACCAA
* * *
100084388 AATGCATCAAAAATGTCTTCAAA
63 AATACATCAAAAAGGCCTTCAAA
100084411 CTTAAAAAAA
Statistics
Matches: 72, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
96 19 0.26
97 6 0.08
98 47 0.65
ACGTcount: A:0.39, C:0.15, G:0.10, T:0.36
Consensus pattern (96 bp):
AAAAAAAGAAATTAAGCCCTTGTTTTTATTTTTTGCACTCAATTGAGTACTTGAACTACCAAAAT
ACATCAAAAAGGCCTTCAAAATTTTTCAAAA
Found at i:100084422 original size:98 final size:96
Alignment explanation
Indices: 100084228--100084436 Score: 204
Period size: 98 Copynumber: 2.1 Consensus size: 96
100084218 AAACTTTTTC
** * * * **
100084228 AAAAAAATCAATTAAGCTCTTGTTTTTTTTTTTTGCACTCAATTGAGTAGTTGAACTTTCAAAAT
1 AAAAAAAGAAATTAAGCCCTTGTTTTTATTTTTTGCACTCAATTGAGTACTTGAACTACCAAAAT
* * ****
100084293 ATATTAAAAAGGCCTTCAAAATTTTTCAAAA
66 ACATCAAAAAGGCCTTCAAAATTAAAAAAAA
100084324 AAAAAAAGAAATTAAGCCCTTGCTTTTTAATTTTTTGCACTCAATTG-GATACTTGAACTACCAA
1 AAAAAAAGAAATTAAGCCCTTG-TTTTT-ATTTTTTGCACTCAATTGAG-TACTTGAACTACCAA
* * * *
100084388 AATGCATCAAAAATGTCTTCAAACTTAAAAAAAA
63 AATACATCAAAAAGGCCTTCAAAATTAAAAAAAA
* *
100084422 AGAAGAAGACAATTA
1 AAAAAAAGA-AATTA
100084437 TTGTTATATG
Statistics
Matches: 90, Mismatches: 19, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
96 19 0.21
97 6 0.07
98 60 0.67
99 5 0.06
ACGTcount: A:0.43, C:0.14, G:0.10, T:0.33
Consensus pattern (96 bp):
AAAAAAAGAAATTAAGCCCTTGTTTTTATTTTTTGCACTCAATTGAGTACTTGAACTACCAAAAT
ACATCAAAAAGGCCTTCAAAATTAAAAAAAA
Found at i:100087536 original size:27 final size:27
Alignment explanation
Indices: 100087481--100087661 Score: 204
Period size: 27 Copynumber: 6.7 Consensus size: 27
100087471 CCCTCGATCA
* *
100087481 GTAAAATCACCAAAATA-CCCTGGTCT
1 GTAAAATTACCAAAATACCCCTGGTTT
* *
100087507 GTAAAATTGCTAAAATACCCCTGGTTT
1 GTAAAATTACCAAAATACCCCTGGTTT
*
100087534 GTAAAATTACCAAAATACCCCTAGTTT
1 GTAAAATTACCAAAATACCCCTGGTTT
*
100087561 GTAAAATTACCAAAATACCACTGGTTT
1 GTAAAATTACCAAAATACCCCTGGTTT
* **
100087588 GTGAAATTACCAAAATA-CCCTCAATTT
1 GTAAAATTACCAAAATACCCCT-GGTTT
* * *
100087615 GTAAAATTTCCAAAATATCCCTGATTT
1 GTAAAATTACCAAAATACCCCTGGTTT
** *
100087642 ACAAAATTACAAAAATACCC
1 GTAAAATTACCAAAATACCC
100087662 TTAACTTTCT
Statistics
Matches: 131, Mismatches: 21, Indels: 5
0.83 0.13 0.03
Matches are distributed among these distances:
26 17 0.13
27 110 0.84
28 4 0.03
ACGTcount: A:0.41, C:0.22, G:0.09, T:0.29
Consensus pattern (27 bp):
GTAAAATTACCAAAATACCCCTGGTTT
Found at i:100087585 original size:54 final size:54
Alignment explanation
Indices: 100087481--100087739 Score: 211
Period size: 54 Copynumber: 4.8 Consensus size: 54
100087471 CCCTCGATCA
* * * * * *
100087481 GTAAAATCACCAAAATA-CCCTGGTCTGTAAAATTGCTAAAATACCCCTGGTTT
1 GTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCACTGGTTT
100087534 GTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCACTGGTTT
1 GTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCACTGGTTT
* * * *
100087588 GTGAAATTACCAAAATA-CCCTCAATTTGTAAAATTTCCAAAATATCC-CTGATTT
1 GTAAAATTACCAAAATACCCCT-AGTTTGTAAAATTACCAAAATA-CCACTGGTTT
** * * * * * *
100087642 ACAAAATTACAAAAATACCCTTAACTTTCTAAAAATTA-TAGAAATACCATTGGTTT
1 GTAAAATTACCAAAATACCCCT-AGTTTGT-AAAATTACCA-AAATACCACTGGTTT
** ** * * * *
100087698 ACAAAATTACTGAAATACCCTTGGTTTGTAGATTTACCAAAA
1 GTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAA
100087740 CACCTTTGTA
Statistics
Matches: 168, Mismatches: 30, Indels: 15
0.79 0.14 0.07
Matches are distributed among these distances:
53 20 0.12
54 94 0.56
55 18 0.11
56 36 0.21
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (54 bp):
GTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCACTGGTTT
Found at i:100087712 original size:27 final size:27
Alignment explanation
Indices: 100087673--100087724 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
100087663 TAACTTTCTA
100087673 AAAATTATAGAAATACCATTGGTTTAC
1 AAAATTATAGAAATACCATTGGTTTAC
*
100087700 AAAATTACT-GAAATACCCTTGGTTT
1 AAAATTA-TAGAAATACCATTGGTTT
100087725 GTAGATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (27 bp):
AAAATTATAGAAATACCATTGGTTTAC
Found at i:100088193 original size:20 final size:20
Alignment explanation
Indices: 100088163--100088216 Score: 99
Period size: 20 Copynumber: 2.6 Consensus size: 20
100088153 TGGTAAGTTG
100088163 GGCCTCAATGGGCTGGAATCA
1 GGCC-CAATGGGCTGGAATCA
100088184 GGCCCAATGGGCTGGAATCA
1 GGCCCAATGGGCTGGAATCA
100088204 GGCCCAATGGGCT
1 GGCCCAATGGGCT
100088217 TCGTGCCCAT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 29 0.88
21 4 0.12
ACGTcount: A:0.22, C:0.26, G:0.35, T:0.17
Consensus pattern (20 bp):
GGCCCAATGGGCTGGAATCA
Found at i:100088752 original size:24 final size:25
Alignment explanation
Indices: 100088670--100088763 Score: 154
Period size: 25 Copynumber: 3.8 Consensus size: 25
100088660 AGGAAGTGCT
* *
100088670 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
100088695 AAAAGGGCTTTGCCCCAGTTTACCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
100088720 AAAAGGGCTTTGCCCCAGTTTATC-
1 AAAAGGGCTTTGCCCCAGTTTACCA
100088744 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
100088764 ATTAAAAGAG
Statistics
Matches: 66, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
24 20 0.30
25 46 0.70
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:100089031 original size:31 final size:31
Alignment explanation
Indices: 100088982--100089064 Score: 143
Period size: 31 Copynumber: 2.7 Consensus size: 31
100088972 CGCTTATAGT
100088982 AAAGGCTTCGG-CCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
100089012 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
100089043 AAAGGCTTCGGCCTAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
100089065 TCGAGACTGA
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
30 16 0.31
31 35 0.69
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.29
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:100099783 original size:32 final size:32
Alignment explanation
Indices: 100099747--100099807 Score: 122
Period size: 32 Copynumber: 1.9 Consensus size: 32
100099737 TGCATTTTAT
100099747 CATTTTAATAGTTAATGGATGATGGGCATTAG
1 CATTTTAATAGTTAATGGATGATGGGCATTAG
100099779 CATTTTAATAGTTAATGGATGATGGGCAT
1 CATTTTAATAGTTAATGGATGATGGGCAT
100099808 GGTAAGCATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.31, C:0.07, G:0.25, T:0.38
Consensus pattern (32 bp):
CATTTTAATAGTTAATGGATGATGGGCATTAG
Found at i:100106770 original size:32 final size:32
Alignment explanation
Indices: 100106734--100106794 Score: 122
Period size: 32 Copynumber: 1.9 Consensus size: 32
100106724 TGTATGCATT
100106734 TTAGCATTTTAATAGTTAATGGATGATGGCCA
1 TTAGCATTTTAATAGTTAATGGATGATGGCCA
100106766 TTAGCATTTTAATAGTTAATGGATGATGG
1 TTAGCATTTTAATAGTTAATGGATGATGG
100106795 GCATGGTAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.31, C:0.07, G:0.23, T:0.39
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATGGATGATGGCCA
Found at i:100129678 original size:7 final size:7
Alignment explanation
Indices: 100129666--100129696 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
100129656 AGACATTTAA
100129666 AAATATT
1 AAATATT
100129673 AAATATT
1 AAATATT
100129680 AAATATT
1 AAATATT
100129687 AAATATT
1 AAATATT
100129694 AAA
1 AAA
100129697 ATCAATTGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (7 bp):
AAATATT
Found at i:100133407 original size:15 final size:15
Alignment explanation
Indices: 100133387--100133418 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
100133377 AAATAATAAT
*
100133387 TTATATATATTTATC
1 TTATATACATTTATC
100133402 TTATATACATTTATC
1 TTATATACATTTATC
100133417 TT
1 TT
100133419 CTAAATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.59
Consensus pattern (15 bp):
TTATATACATTTATC
Found at i:100134285 original size:14 final size:14
Alignment explanation
Indices: 100134259--100134303 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
100134249 TAAACCTGCT
*
100134259 TAAACCCTAAACCA
1 TAAACCTTAAACCA
* *
100134273 TATATCTTAAACCA
1 TAAACCTTAAACCA
*
100134287 TAAACCTTAAACTA
1 TAAACCTTAAACCA
100134301 TAA
1 TAA
100134304 TGATAATTAA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.49, C:0.24, G:0.00, T:0.27
Consensus pattern (14 bp):
TAAACCTTAAACCA
Found at i:100134519 original size:41 final size:40
Alignment explanation
Indices: 100134462--100134639 Score: 221
Period size: 41 Copynumber: 4.4 Consensus size: 40
100134452 GTTATATGAC
* *
100134462 TTTTAGCGGTGTTTTACCAAAAGCGCCGCTAATGCTATGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCT-GT
* *
100134503 TTTTAGCGGCGTTTTACCAAAAGCGTCGCTAATGCTTTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCT-GT
* * *
100134544 TTTTAGCGGCGTTTTACCAAAAGTGCCGCTAATGGTCTAT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGT
** * **
100134584 TTTTAGCGGCGTTTTAGTAAAAAACGCCGCTGTTGCTCTGT
1 TTTTAGCGGCGTTTTA-CCAAAAGCGCCGCTAATGCTCTGT
100134625 TTTTAGCGGCGTTTT
1 TTTTAGCGGCGTTTT
100134640 TTTTAAAATG
Statistics
Matches: 120, Mismatches: 16, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
40 17 0.14
41 103 0.86
ACGTcount: A:0.20, C:0.19, G:0.24, T:0.37
Consensus pattern (40 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGT
Found at i:100134652 original size:81 final size:81
Alignment explanation
Indices: 100134462--100134670 Score: 224
Period size: 82 Copynumber: 2.6 Consensus size: 81
100134452 GTTATATGAC
* * * * * *
100134462 TTTTAGCGGTGTTTTACCAAAAGCGCCGCTAATGCTATGGTTTTTAGCGGCGTTTTACCAAAAGC
1 TTTTAGCGGCGTTTTACCAAAAGTGCCGCTAATGCTCT-ATTTTTAGCGGCGTTTTACAAAAAAC
* *
100134527 GTCGCTAATGCTTTGGT
65 GCCGCTAATGCTCTGGT
* *
100134544 TTTTAGCGGCGTTTTACCAAAAGTGCCGCTAATGGTCTATTTTTAGCGGCGTTTTAGTAAAAAAC
1 TTTTAGCGGCGTTTTACCAAAAGTGCCGCTAATGCTCTATTTTTAGCGGCGTTTTA-CAAAAAAC
**
100134609 GCCGCTGTTGCTCT-GT
65 GCCGCTAATGCTCTGGT
*** *
100134625 TTTTAGCGGCGTTTTTTTTAAAA-TGCCGCTATTGCTCTATATTTTA
1 TTTTAGCGGCG-TTTTACCAAAAGTGCCGCTAATGCTCTAT-TTTTA
100134671 AAAATTTTGC
Statistics
Matches: 107, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
81 45 0.42
82 62 0.58
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.39
Consensus pattern (81 bp):
TTTTAGCGGCGTTTTACCAAAAGTGCCGCTAATGCTCTATTTTTAGCGGCGTTTTACAAAAAACG
CCGCTAATGCTCTGGT
Found at i:100134670 original size:41 final size:40
Alignment explanation
Indices: 100134543--100134670 Score: 130
Period size: 41 Copynumber: 3.1 Consensus size: 40
100134533 AATGCTTTGG
*** * * *
100134543 TTTTTAGCGGCGTTTTACCAAAAGTGCCGCTAATGGTCTA
1 TTTTTAGCGGCGTTTTTTAAAAAATGCCGCTATTGCTCTA
* * * *
100134583 TTTTTAGCGGCGTTTTAGTAAAAAACGCCGCTGTTGCTCTG
1 TTTTTAGCGGCGTTTT-TTAAAAAATGCCGCTATTGCTCTA
**
100134624 TTTTTAGCGGCGTTTTTTTTAAAATGCCGCTATTGCTCTA
1 TTTTTAGCGGCGTTTTTTAAAAAATGCCGCTATTGCTCTA
100134664 TATTTTA
1 T-TTTTA
100134671 AAAATTTTGC
Statistics
Matches: 71, Mismatches: 15, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
40 35 0.49
41 36 0.51
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.41
Consensus pattern (40 bp):
TTTTTAGCGGCGTTTTTTAAAAAATGCCGCTATTGCTCTA
Found at i:100135832 original size:24 final size:25
Alignment explanation
Indices: 100135805--100135856 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
100135795 GCCTAGCCTC
*
100135805 TTTTGAT-AACTGGGGCAAAGCCCT
1 TTTTGATAAACTGGGGCAAAACCCT
*
100135829 TTTTGGTAAACTGGGGCAAAACCCT
1 TTTTGATAAACTGGGGCAAAACCCT
100135854 TTT
1 TTT
100135857 CGCACTTCCT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 6 0.24
25 19 0.76
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (25 bp):
TTTTGATAAACTGGGGCAAAACCCT
Found at i:100135931 original size:21 final size:21
Alignment explanation
Indices: 100135904--100135952 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
100135894 TATAATGAGT
*
100135904 ATATCATAGCATATCATATGC
1 ATATCATAACATATCATATGC
* *
100135925 ATCTCATAACATATCATGTGC
1 ATATCATAACATATCATATGC
100135946 ATATCAT
1 ATATCAT
100135953 GTATAATAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.37, C:0.20, G:0.08, T:0.35
Consensus pattern (21 bp):
ATATCATAACATATCATATGC
Found at i:100139193 original size:24 final size:23
Alignment explanation
Indices: 100139139--100139185 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
100139129 AAAAATCATG
* *
100139139 AACACT-AATCTATAACCCCTAA
1 AACACTAAATCCATAAACCCTAA
100139161 AACACTAAATCCATAAACCCTAA
1 AACACTAAATCCATAAACCCTAA
100139184 AA
1 AA
100139186 ACCCTAAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 6 0.27
23 16 0.73
ACGTcount: A:0.51, C:0.30, G:0.00, T:0.19
Consensus pattern (23 bp):
AACACTAAATCCATAAACCCTAA
Found at i:100139205 original size:53 final size:54
Alignment explanation
Indices: 100139120--100139222 Score: 136
Period size: 53 Copynumber: 1.9 Consensus size: 54
100139110 CCCAAAACCT
* * *
100139120 TAAACCCTCAAAAATCATGAACACTAATCTATAACCCCTAAAACACTAAATCCA
1 TAAACCCTCAAAAACCATAAACACTAAACTATAACCCCTAAAACACTAAATCCA
* ** *
100139174 TAAACCCT-AAAAACCCTAAACACTAAACTATAACTGCTAAAACCCTAAA
1 TAAACCCTCAAAAACCATAAACACTAAACTATAACCCCTAAAACACTAAA
100139223 CCCTAAAAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
53 34 0.81
54 8 0.19
ACGTcount: A:0.50, C:0.29, G:0.02, T:0.19
Consensus pattern (54 bp):
TAAACCCTCAAAAACCATAAACACTAAACTATAACCCCTAAAACACTAAATCCA
Found at i:100139228 original size:15 final size:15
Alignment explanation
Indices: 100139155--100139230 Score: 50
Period size: 16 Copynumber: 5.0 Consensus size: 15
100139145 AATCTATAAC
*
100139155 CCCTAAAACACTAAAT
1 CCCT-AAACACTAAAA
* *
100139171 CCATAAACCCTAAAAA
1 CCCTAAACACT-AAAA
100139187 CCCTAAACACT-AAA
1 CCCTAAACACTAAAA
*
100139201 --CTATAACTGCTAAAA
1 CCCTA-AAC-ACTAAAA
*
100139216 CCCTAAACCCTAAAA
1 CCCTAAACACTAAAA
100139231 AACATCATAT
Statistics
Matches: 47, Mismatches: 7, Indels: 13
0.70 0.10 0.19
Matches are distributed among these distances:
12 3 0.06
13 3 0.06
14 5 0.11
15 15 0.32
16 18 0.38
17 3 0.06
ACGTcount: A:0.50, C:0.32, G:0.01, T:0.17
Consensus pattern (15 bp):
CCCTAAACACTAAAA
Found at i:100139349 original size:7 final size:7
Alignment explanation
Indices: 100139336--100139400 Score: 58
Period size: 7 Copynumber: 9.1 Consensus size: 7
100139326 ATTTATTTTT
100139336 AGGTTTA
1 AGGTTTA
*
100139343 GGGTTTA
1 AGGTTTA
**
100139350 ATATTTA
1 AGGTTTA
100139357 AGGTTTA
1 AGGTTTA
*
100139364 AGGTCTA
1 AGGTTTA
*
100139371 TGGTTTA
1 AGGTTTA
*
100139378 GGGTTTTA
1 AGG-TTTA
*
100139386 TGGTTTA
1 AGGTTTA
100139393 AGGTTTA
1 AGGTTTA
100139400 A
1 A
100139401 TGGCCATGGG
Statistics
Matches: 45, Mismatches: 12, Indels: 2
0.76 0.20 0.03
Matches are distributed among these distances:
7 39 0.87
8 6 0.13
ACGTcount: A:0.25, C:0.02, G:0.28, T:0.46
Consensus pattern (7 bp):
AGGTTTA
Found at i:100139389 original size:15 final size:15
Alignment explanation
Indices: 100139353--100139403 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 15
100139343 GGGTTTAATA
*
100139353 TTTAAGGTTTAAGG-
1 TTTATGGTTTAAGGT
* *
100139367 TCTATGGTTTAGGGT
1 TTTATGGTTTAAGGT
100139382 TTTATGGTTTAAGGT
1 TTTATGGTTTAAGGT
*
100139397 TTAATGG
1 TTTATGG
100139404 CCATGGGTAT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
14 11 0.37
15 19 0.63
ACGTcount: A:0.22, C:0.02, G:0.29, T:0.47
Consensus pattern (15 bp):
TTTATGGTTTAAGGT
Found at i:100139729 original size:7 final size:7
Alignment explanation
Indices: 100139717--100139841 Score: 74
Period size: 7 Copynumber: 17.1 Consensus size: 7
100139707 AGGGGTAGAA
100139717 GTTTAGG
1 GTTTAGG
100139724 GTTTAGG
1 GTTTAGG
* *
100139731 TTTTATG
1 GTTTAGG
*
100139738 GCTTAGG
1 GTTTAGG
100139745 GTTTAAGG
1 GTTT-AGG
* *
100139753 GTTAAGA
1 GTTTAGG
100139760 G-TTATGG
1 GTTTA-GG
100139767 GTTTACGG
1 GTTTA-GG
100139775 GTTATAGG
1 GTT-TAGG
100139783 GTTTAGG
1 GTTTAGG
*
100139790 ATTTAGG
1 GTTTAGG
* *
100139797 ATTTAAG
1 GTTTAGG
*
100139804 ATTTAGG
1 GTTTAGG
*
100139811 ATTTA-G
1 GTTTAGG
100139817 GTGTTAGGG
1 GT-TTA-GG
100139826 GTTTTAGG
1 G-TTTAGG
*
100139834 GTTAAGG
1 GTTTAGG
100139841 G
1 G
100139842 GACATGGGTT
Statistics
Matches: 94, Mismatches: 16, Indels: 16
0.75 0.13 0.13
Matches are distributed among these distances:
6 4 0.04
7 60 0.64
8 22 0.23
9 7 0.07
10 1 0.01
ACGTcount: A:0.22, C:0.02, G:0.36, T:0.41
Consensus pattern (7 bp):
GTTTAGG
Found at i:100139991 original size:7 final size:7
Alignment explanation
Indices: 100139979--100140024 Score: 56
Period size: 7 Copynumber: 6.6 Consensus size: 7
100139969 CATGTCTTAG
100139979 GGGTTAA
1 GGGTTAA
*
100139986 GGGTTAG
1 GGGTTAA
100139993 GGGTTAA
1 GGGTTAA
*
100140000 GGGTTAG
1 GGGTTAA
*
100140007 GGGTTTA
1 GGGTTAA
*
100140014 GGGTTTA
1 GGGTTAA
100140021 GGGT
1 GGGT
100140025 AATTAGTGTG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.17, C:0.00, G:0.50, T:0.33
Consensus pattern (7 bp):
GGGTTAA
Found at i:100140024 original size:14 final size:14
Alignment explanation
Indices: 100139975--100140023 Score: 80
Period size: 14 Copynumber: 3.4 Consensus size: 14
100139965 GGGACATGTC
100139975 TTAGGGGTTAAGGG
1 TTAGGGGTTAAGGG
100139989 TTAGGGGTTAAGGG
1 TTAGGGGTTAAGGG
*
100140003 TTAGGGGTTTAGGG
1 TTAGGGGTTAAGGG
100140017 TTTAGGG
1 -TTAGGG
100140024 TAATTAGTGT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
14 27 0.82
15 6 0.18
ACGTcount: A:0.18, C:0.00, G:0.49, T:0.33
Consensus pattern (14 bp):
TTAGGGGTTAAGGG
Found at i:100140150 original size:17 final size:17
Alignment explanation
Indices: 100140124--100140167 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
100140114 AATCTATATA
* *
100140124 TTAAATAATTTCAAATT
1 TTAAAAAATTTAAAATT
*
100140141 TTAAAGAA-TTAAAATT
1 TTAAAAAATTTAAAATT
100140157 TTAAAAAATTT
1 TTAAAAAATTT
100140168 TCAAGATTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 14 0.61
17 9 0.39
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (17 bp):
TTAAAAAATTTAAAATT
Found at i:100140165 original size:26 final size:26
Alignment explanation
Indices: 100140136--100140185 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
100140126 AAATAATTTC
100140136 AAATTTTAAAGAATTAAAATTTTAAA
1 AAATTTTAAAGAATTAAAATTTTAAA
* * *
100140162 AAATTTTCAAGATTTCAAATTTTA
1 AAATTTTAAAGAATTAAAATTTTA
100140186 TCTAATTCTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (26 bp):
AAATTTTAAAGAATTAAAATTTTAAA
Found at i:100140319 original size:16 final size:17
Alignment explanation
Indices: 100140293--100140324 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
100140283 TATATAAGTG
100140293 ATTGTTTTTTAATTTAT
1 ATTGTTTTTTAATTTAT
100140310 ATTG-TTTTTAATTTA
1 ATTGTTTTTTAATTTA
100140325 AAAGGTATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (17 bp):
ATTGTTTTTTAATTTAT
Found at i:100140711 original size:116 final size:117
Alignment explanation
Indices: 100140401--100140851 Score: 551
Period size: 115 Copynumber: 3.9 Consensus size: 117
100140391 ATATCATTAT
* * * * * * *
100140401 GTTTTAAACAAAACGAC-ACTGTTTTATTGGATTTGTTAGTGACGTTTTG-TG-TAAAACGCTGC
1 GTTTAAAACAAAACGGCGA-TGTTTTGTTGGA-TTATTAGTGGCGTTTTGAGGTTAAAACGCCGC
* *
100140463 AATAGGTGCGTTTTTAGAGGCGCTAGGGTATAAACGCCACTAAAGGTGA-TTCC
64 AATAGGTGCGTTTTTAGCGGCGCTAGGGTATAAACGCCACTAAAGGTGATTTCA
* * * ** *
100140516 GTTTAAAACAAAACGGCAACGTCTTGTTGGATTATTAGTGGCGTTTT-AGGAAAAAACGCCTCAA
1 GTTTAAAACAAAACGGCGATGTTTTGTTGGATTATTAGTGGCGTTTTGAGGTTAAAACGCCGCAA
* * **
100140580 TTGGTGCATTTTTAGCGGCGCTAGGGTATAAACGCTGCTAAAGGTGATTTCA
66 TAGGTGCGTTTTTAGCGGCGCTAGGGTATAAACGCCACTAAAGGTGATTTCA
* *
100140632 G-TTAAAACAAAAACAGTGATGTTTTGTTGGATTATTAGTGGCGTTTTGAGGTTAAAA-GCCGCA
1 GTTTAAAAC-AAAACGGCGATGTTTTGTTGGATTATTAGTGGCGTTTTGAGGTTAAAACGCCGCA
* * * * *
100140695 ATAGGTGCGTTTTTAGCGACGCTAGGTTAAAAACGCTACTAAAGGTGATTT-G
65 ATAGGTGCGTTTTTAGCGGCGCTAGGGTATAAACGCCACTAAAGGTGATTTCA
*
100140747 GTTTAAAACAAAACGGCGATGTTTTGTTGGATTATTAGTGGCATTTTGA-GTTAAAACGCCGCAA
1 GTTTAAAACAAAACGGCGATGTTTTGTTGGATTATTAGTGGCGTTTTGAGGTTAAAACGCCGCAA
* *
100140811 TAGGTGCGTTTTTAGCGGGGCTAGGGTATAAACGCCGCTAA
66 TAGGTGCGTTTTTAGCGGCGCTAGGGTATAAACGCCACTAA
100140852 TGTTAAATTA
Statistics
Matches: 287, Mismatches: 41, Indels: 16
0.83 0.12 0.05
Matches are distributed among these distances:
114 22 0.08
115 163 0.57
116 95 0.33
117 7 0.02
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (117 bp):
GTTTAAAACAAAACGGCGATGTTTTGTTGGATTATTAGTGGCGTTTTGAGGTTAAAACGCCGCAA
TAGGTGCGTTTTTAGCGGCGCTAGGGTATAAACGCCACTAAAGGTGATTTCA
Found at i:100140836 original size:231 final size:231
Alignment explanation
Indices: 100140420--100140851 Score: 609
Period size: 231 Copynumber: 1.9 Consensus size: 231
100140410 AAAACGACAC
* * * *
100140420 TGTTTTATTGGATTTGTTAGTGACGTTTTGTGTAAAACGCTGCAATAGGTGCGTTTTTAGAGGCG
1 TGTTTTATTGGATTTATTAGTGACGTTTTGGGTAAAACGCCGCAATAGGTGCGTTTTTAGAGACG
*
100140485 CTAGGGTATAAACGCCACTAAAGGTGATTCCGTTTAAAACAAAACGGCAACGTCTTGTTGGATTA
66 CTAGGGTAAAAACGCCACTAAAGGTGATTCCGTTTAAAACAAAACGGCAACGTCTTGTTGGATTA
* * *
100140550 TTAGTGGCGTTTTAGGAAAAAACGCCTCAATTGGTGCATTTTTAGCGGCGCTAGGGTATAAACGC
131 TTAGTGGCATTTTAGGAAAAAACGCCGCAATAGGTGCATTTTTAGCGGCGCTAGGGTATAAACGC
*
100140615 TGCTAAAGGTGATTTCAGTTAAAACAAAAACAGTGA
196 CGCTAAAGGTGATTTCAGTTAAAACAAAAACAGTGA
* * *
100140651 TGTTTTGTTGGA-TTATTAGTGGCGTTTTGAGGTTAAAA-GCCGCAATAGGTGCGTTTTTAGCGA
1 TGTTTTATTGGATTTATTAGTGACGTTTTG-GG-TAAAACGCCGCAATAGGTGCGTTTTTAGAGA
* * ** * * *
100140714 CGCTAGGTTAAAAACGCTACTAAAGGTGATTTGGTTTAAAACAAAACGGCGATGTTTTGTTGGAT
64 CGCTAGGGTAAAAACGCCACTAAAGGTGATTCCGTTTAAAACAAAACGGCAACGTCTTGTTGGAT
** * *
100140779 TATTAGTGGCATTTT-GAGTTAAAACGCCGCAATAGGTGCGTTTTTAGCGGGGCTAGGGTATAAA
129 TATTAGTGGCATTTTAG-GAAAAAACGCCGCAATAGGTGCATTTTTAGCGGCGCTAGGGTATAAA
100140843 CGCCGCTAA
193 CGCCGCTAA
100140852 TGTTAAATTA
Statistics
Matches: 175, Mismatches: 23, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
230 16 0.09
231 154 0.88
232 5 0.03
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.32
Consensus pattern (231 bp):
TGTTTTATTGGATTTATTAGTGACGTTTTGGGTAAAACGCCGCAATAGGTGCGTTTTTAGAGACG
CTAGGGTAAAAACGCCACTAAAGGTGATTCCGTTTAAAACAAAACGGCAACGTCTTGTTGGATTA
TTAGTGGCATTTTAGGAAAAAACGCCGCAATAGGTGCATTTTTAGCGGCGCTAGGGTATAAACGC
CGCTAAAGGTGATTTCAGTTAAAACAAAAACAGTGA
Found at i:100142979 original size:20 final size:20
Alignment explanation
Indices: 100142954--100143007 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
100142944 GTGTTAAAAA
100142954 TAATTTAAATATAAAATAAG
1 TAATTTAAATATAAAATAAG
* * *
100142974 TAATTTTAATATTAAATGAG
1 TAATTTAAATATAAAATAAG
*
100142994 T-A-TTGAATATAAAA
1 TAATTTAAATATAAAA
100143008 AATATTAAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
18 10 0.34
19 1 0.03
20 18 0.62
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (20 bp):
TAATTTAAATATAAAATAAG
Found at i:100143169 original size:16 final size:16
Alignment explanation
Indices: 100143148--100143179 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
100143138 CCGAAATTCG
100143148 AAACAACTATAAATTT
1 AAACAACTATAAATTT
100143164 AAACAACTATAAATTT
1 AAACAACTATAAATTT
100143180 TCGTTGGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (16 bp):
AAACAACTATAAATTT
Found at i:100143858 original size:43 final size:43
Alignment explanation
Indices: 100143794--100143933 Score: 199
Period size: 43 Copynumber: 3.0 Consensus size: 43
100143784 GTCTTAATGT
100143794 TAAATATATATCATATAATAACTTACAAAACTTACATAATACA
1 TAAATATATATCATATAATAACTTACAAAACTTACATAATACA
100143837 TAAATATATATCATATCATAACTTACGTAACTTACAAAACTTACATAATACA
1 TAAATATATATC--AT-AT-A---A--TAACTTACAAAACTTACATAATACA
100143889 TAAATATATATCATATAATAACTTACAAAACTTACATAATACA
1 TAAATATATATCATATAATAACTTACAAAACTTACATAATACA
100143932 TA
1 TA
100143934 CCTTATATAA
Statistics
Matches: 88, Mismatches: 0, Indels: 18
0.83 0.00 0.17
Matches are distributed among these distances:
43 39 0.44
45 3 0.03
46 2 0.02
47 1 0.01
48 1 0.01
49 2 0.02
50 3 0.03
52 37 0.42
ACGTcount: A:0.51, C:0.15, G:0.01, T:0.33
Consensus pattern (43 bp):
TAAATATATATCATATAATAACTTACAAAACTTACATAATACA
Found at i:100143873 original size:52 final size:52
Alignment explanation
Indices: 100143812--100143983 Score: 231
Period size: 52 Copynumber: 3.3 Consensus size: 52
100143802 TATCATATAA
100143812 TAACTTACAAAACTTACATAATACATAAATATATATCATATCATAACTTACG
1 TAACTTACAAAACTTACATAATACATAAATATATATCATATCATAACTTACG
* *
100143864 TAACTTACAAAACTTACATAATACATAAATATATATCATATAATAACTTACA
1 TAACTTACAAAACTTACATAATACATAAATATATATCATATCATAACTTACG
* * * * * *
100143916 AAACTTACATAA--TACATACCTTATATAAATTTATATCATATCATAACTTGCG
1 TAACTTACAAAACTTACATA--ATACATAAATATATATCATATCATAACTTACG
*
100143968 TAACATACAAAACTTA
1 TAACTTACAAAACTTA
100143984 ACTTACGTAA
Statistics
Matches: 103, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
50 6 0.06
52 95 0.92
54 2 0.02
ACGTcount: A:0.48, C:0.17, G:0.02, T:0.33
Consensus pattern (52 bp):
TAACTTACAAAACTTACATAATACATAAATATATATCATATCATAACTTACG
Found at i:100143900 original size:95 final size:99
Alignment explanation
Indices: 100143794--100143983 Score: 289
Period size: 95 Copynumber: 1.9 Consensus size: 99
100143784 GTCTTAATGT
100143794 TAAATATATATCATATAATAACTTACAAAACTTACATAATACATA-A-AT-A-TATATCATATCA
1 TAAATATATATCATATAATAACTTACAAAACTTACATAATACATACATATAATTATATCATATCA
*
100143855 TAACTTACGTAACTTACAAAACTTACATAATACA
66 TAACTTACGTAACATACAAAACTTACATAATACA
100143889 TAAATATATATCATATAATAACTTACAAAACTTACATAATACATACCTTATATAAATTTATATCA
1 TAAATATATATCATATAATAACTTACAAAACTTACATAATACATA-C--ATAT-AA-TTATATCA
*
100143954 TATCATAACTTGCGTAACATACAAAACTTA
61 TATCATAACTTACGTAACATACAAAACTTA
100143984 ACTTACGTAA
Statistics
Matches: 84, Mismatches: 2, Indels: 9
0.88 0.02 0.09
Matches are distributed among these distances:
95 45 0.54
99 1 0.01
100 2 0.02
102 1 0.01
104 35 0.42
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.34
Consensus pattern (99 bp):
TAAATATATATCATATAATAACTTACAAAACTTACATAATACATACATATAATTATATCATATCA
TAACTTACGTAACATACAAAACTTACATAATACA
Found at i:100145712 original size:12 final size:12
Alignment explanation
Indices: 100145695--100145720 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
100145685 AAGATCGATG
100145695 GATGAATCTGAT
1 GATGAATCTGAT
100145707 GATGAATCTGAT
1 GATGAATCTGAT
100145719 GA
1 GA
100145721 AGAGGATGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.08, G:0.27, T:0.31
Consensus pattern (12 bp):
GATGAATCTGAT
Found at i:100148996 original size:13 final size:14
Alignment explanation
Indices: 100148980--100149008 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
100148970 TTATAAATAT
100148980 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
100148993 TTATAATGGTTTAA
1 TTATAATGGTTTAA
100149007 TT
1 TT
100149009 CGTCATTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:100149904 original size:42 final size:43
Alignment explanation
Indices: 100149818--100149972 Score: 163
Period size: 43 Copynumber: 3.6 Consensus size: 43
100149808 GTGCCGCTAA
* * * * **
100149818 AAAAGTCATGGCTTTTAACGACGCTTTCCCAAAAAATGCTGCT
1 AAAAGTCATGACTTTTAGCGGCGCTTTCCCAACAAACACTGCT
* * *
100149861 -AAAGTCATGGCTTTTAGCGGCGCTTCCCCAACAAACACCGCT
1 AAAAGTCATGACTTTTAGCGGCGCTTTCCCAACAAACACTGCT
* * *
100149903 AAAAGCCATGACTTTTAGCGGCGCTTTTCTC-ACAAACACTGTT
1 AAAAGTCATGACTTTTAGCGGCGC-TTTCCCAACAAACACTGCT
100149946 AAAAG-CTATGACTTTTAGCGGCGCTTT
1 AAAAGTC-ATGACTTTTAGCGGCGCTTT
100149973 TCTCAAAAAT
Statistics
Matches: 96, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
42 39 0.41
43 53 0.55
44 4 0.04
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (43 bp):
AAAAGTCATGACTTTTAGCGGCGCTTTCCCAACAAACACTGCT
Found at i:100149972 original size:43 final size:43
Alignment explanation
Indices: 100149861--100149993 Score: 160
Period size: 43 Copynumber: 3.1 Consensus size: 43
100149851 AAATGCTGCT
* * * *
100149861 AAAGTCATGGCTTTTAGCGGCGC-TTCCCCAACAAACACCGCTA
1 AAAGCCATGACTTTTAGCGGCGCTTTTCTC-ACAAACACCGCTA
* *
100149904 AAAGCCATGACTTTTAGCGGCGCTTTTCTCACAAACACTGTTA
1 AAAGCCATGACTTTTAGCGGCGCTTTTCTCACAAACACCGCTA
* * **
100149947 AAAGCTATGACTTTTAGCGGCGCTTTTCTCAAAAATGCCGCTA
1 AAAGCCATGACTTTTAGCGGCGCTTTTCTCACAAACACCGCTA
100149990 AAAG
1 AAAG
100149994 TCTTGATCTT
Statistics
Matches: 77, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
43 73 0.95
44 4 0.05
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.26
Consensus pattern (43 bp):
AAAGCCATGACTTTTAGCGGCGCTTTTCTCACAAACACCGCTA
Found at i:100153491 original size:21 final size:21
Alignment explanation
Indices: 100153466--100153529 Score: 58
Period size: 21 Copynumber: 2.9 Consensus size: 21
100153456 TTTCTAGAAG
100153466 ATTTAGTATTTATTAGAATAT
1 ATTTAGTATTTATTAGAATAT
**
100153487 ATTTAACATTTATTAGCATAATAT
1 ATTTAGTATTTATTAG---AATAT
*
100153511 ATTT-GATATTGATTAGAAT
1 ATTTAG-TATTTATTAGAAT
100153530 TAGGTTTTCT
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
21 17 0.50
24 17 0.50
ACGTcount: A:0.39, C:0.03, G:0.09, T:0.48
Consensus pattern (21 bp):
ATTTAGTATTTATTAGAATAT
Found at i:100155663 original size:18 final size:18
Alignment explanation
Indices: 100155596--100155726 Score: 203
Period size: 18 Copynumber: 7.3 Consensus size: 18
100155586 ATAATCTTCA
100155596 ATGATATGCAATCTTAGAT
1 ATGAT-TGCAATCTTAGAT
*
100155615 TTGATATGCAATCTTAGAT
1 ATGAT-TGCAATCTTAGAT
*
100155634 ATGA-TACAATCTTAGAT
1 ATGATTGCAATCTTAGAT
100155651 ATGATTGCAATCTTAGAT
1 ATGATTGCAATCTTAGAT
*
100155669 ATGA-TACAATCTTAGAT
1 ATGATTGCAATCTTAGAT
100155686 ATGATTGCAATCTTAGAT
1 ATGATTGCAATCTTAGAT
100155704 ATGATTGCAATCTTAGAT
1 ATGATTGCAATCTTAGAT
100155722 ATGAT
1 ATGAT
100155727 ATATGATATT
Statistics
Matches: 104, Mismatches: 6, Indels: 5
0.90 0.05 0.04
Matches are distributed among these distances:
17 32 0.31
18 51 0.49
19 21 0.20
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.38
Consensus pattern (18 bp):
ATGATTGCAATCTTAGAT
Found at i:100155666 original size:35 final size:35
Alignment explanation
Indices: 100155604--100155726 Score: 210
Period size: 35 Copynumber: 3.5 Consensus size: 35
100155594 CAATGATATG
*
100155604 CAATCTTAGATTTGATATGCAATCTTAGATATGATA
1 CAATCTTAGATATGAT-TGCAATCTTAGATATGATA
100155640 CAATCTTAGATATGATTGCAATCTTAGATATGATA
1 CAATCTTAGATATGATTGCAATCTTAGATATGATA
*
100155675 CAATCTTAGATATGATTGCAATCTTAGATATGATTG
1 CAATCTTAGATATGATTGCAATCTTAGATATGA-TA
100155711 CAATCTTAGATATGAT
1 CAATCTTAGATATGAT
100155727 ATATGATATT
Statistics
Matches: 84, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
35 52 0.62
36 32 0.38
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.38
Consensus pattern (35 bp):
CAATCTTAGATATGATTGCAATCTTAGATATGATA
Found at i:100155710 original size:53 final size:53
Alignment explanation
Indices: 100155596--100155727 Score: 212
Period size: 53 Copynumber: 2.5 Consensus size: 53
100155586 ATAATCTTCA
*
100155596 ATGATATGCAATCTTAGATTTGATATGCAATCTTAGATATGATACAATCTTAGAT
1 ATGAT-TGCAATCTTAGATATGATA-GCAATCTTAGATATGATACAATCTTAGAT
*
100155651 ATGATTGCAATCTTAGATATGATA-CAATCTTAGATATGATTGCAATCTTAGAT
1 ATGATTGCAATCTTAGATATGATAGCAATCTTAGATATGA-TACAATCTTAGAT
100155704 ATGATTGCAATCTTAGATATGATA
1 ATGATTGCAATCTTAGATATGATA
100155728 TATGATATTA
Statistics
Matches: 74, Mismatches: 2, Indels: 4
0.93 0.03 0.05
Matches are distributed among these distances:
52 15 0.20
53 36 0.49
54 18 0.24
55 5 0.07
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.38
Consensus pattern (53 bp):
ATGATTGCAATCTTAGATATGATAGCAATCTTAGATATGATACAATCTTAGAT
Found at i:100158128 original size:26 final size:26
Alignment explanation
Indices: 100158099--100158153 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
100158089 ATACCTCTAG
100158099 TAAACTTAACTTGAAAGTATTCATTC
1 TAAACTTAACTTGAAAGTATTCATTC
100158125 TAAACTTAACTTGAAAGTATTCATTC
1 TAAACTTAACTTGAAAGTATTCATTC
100158151 TAA
1 TAA
100158154 GCAAATGTAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.40, C:0.15, G:0.07, T:0.38
Consensus pattern (26 bp):
TAAACTTAACTTGAAAGTATTCATTC
Found at i:100158465 original size:7 final size:7
Alignment explanation
Indices: 100158453--100158503 Score: 59
Period size: 7 Copynumber: 6.9 Consensus size: 7
100158443 CTATTTCAAA
100158453 AAAAAAG
1 AAAAAAG
100158460 AAAAAA-
1 AAAAAAG
100158466 AAGAAAAG
1 AA-AAAAG
100158474 AAAAAGAGAG
1 -AAAA-A-AG
100158484 AAAAAAG
1 AAAAAAG
100158491 AAAAAAG
1 AAAAAAG
100158498 AAAAAA
1 AAAAAA
100158504 ATAAAAATGG
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
6 2 0.05
7 25 0.64
8 3 0.08
9 7 0.18
10 2 0.05
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:100158472 original size:14 final size:13
Alignment explanation
Indices: 100158450--100158510 Score: 61
Period size: 14 Copynumber: 4.5 Consensus size: 13
100158440 CTTCTATTTC
*
100158450 AAAAAA-AAAGAA
1 AAAAAAGAAAAAA
100158462 AAAAAAGAAAAGAA
1 AAAAAAGAAAA-AA
*
100158476 AAAGAGAGAAAAAA
1 AAA-AAAGAAAAAA
100158490 GAAAAAAGAAAAAA
1 -AAAAAAGAAAAAA
100158504 ATAAAAA
1 A-AAAAA
100158511 TGGAGAGACC
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
12 6 0.15
13 4 0.10
14 21 0.51
15 10 0.24
ACGTcount: A:0.85, C:0.00, G:0.13, T:0.02
Consensus pattern (13 bp):
AAAAAAGAAAAAA
Done.