Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 293 of 325
Found at i:95733980 original size:261 final size:256
Alignment explanation
Indices: 95733468--95733958 Score: 689
Period size: 261 Copynumber: 1.9 Consensus size: 256
95733458 GAGAGCAGAT
* *
95733468 ACATAGCAGATCTAACCTTCAGATGACTAAAGCAGATCCAAGATGGTTTGGCATCTTTGTGCTTA
1 ACATAGCAGATCTAACCTTCAGATGACTAAAGCAGATCCAAGATGATTTGGCATCCTTGTGCTTA
* * * * * *
95733533 CAAGGAACAAATCGAAGGCATAGCTGATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATCTAAGA
66 CAAGGAACAAATCGAAGACACAACAGATTTGGCTTTCACGTGCTTACGCTGAAGCAAATCTAAGA
* *
95733598 TGATTTGGCATCTCTGTATTGTTAAAGAACAAATCGAAGAAACATATTTGGCATCTCTGTATTCG
131 TGATTTGGCATCTCTGTATTGTCAAAGAACAAATCGAAGAAACAGATTTGGCATCTCTGTATTCG
* * *
95733663 GCGGAGAGCAGATTGAAGATATTAACAGGACAGTCATAAGTTTACAAGAAGCAGATTAAAG
196 ACGGAGAGCAGATCGAAGATATCAACAGGACAGTCATAAGTTTACAAGAAGCAGATTAAAG
* *
95733724 ACATAGCAGATCTGACCTTCAGATGATTTTACTGAAGCAGATCCAAGATGATTTGGCATCCTTGT
1 ACATAGCAGATCTAACCTTCAGATG-----ACTAAAGCAGATCCAAGATGATTTGGCATCCTTGT
* * *
95733789 G-TTCACAAGGAGCAAATCGAAGACACAACAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGAT
61 GCTT-ACAAGGAACAAATCGAAGACACAACAGATTTGGCTTTCACGTGCTTACGCTGAAGCAAAT
* *
95733853 CTAAGATGATTTGGCATCTCTGTATTGTCAGAA-AACAAATCGAAGAAGCAGATTTGGCGTCTCT
125 CTAAGATGATTTGGCATCTCTGTATTGTCA-AAGAACAAATCGAAGAAACAGATTTGGCATCTCT
* * * *
95733917 GTGTTTGACGGAGAGCATATCGAAGATATCAACATGACAGTC
189 GTATTCGACGGAGAGCAGATCGAAGATATCAACAGGACAGTC
95733959 TTGAGTTTGA
Statistics
Matches: 204, Mismatches: 24, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
256 24 0.12
260 2 0.01
261 176 0.86
262 2 0.01
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (256 bp):
ACATAGCAGATCTAACCTTCAGATGACTAAAGCAGATCCAAGATGATTTGGCATCCTTGTGCTTA
CAAGGAACAAATCGAAGACACAACAGATTTGGCTTTCACGTGCTTACGCTGAAGCAAATCTAAGA
TGATTTGGCATCTCTGTATTGTCAAAGAACAAATCGAAGAAACAGATTTGGCATCTCTGTATTCG
ACGGAGAGCAGATCGAAGATATCAACAGGACAGTCATAAGTTTACAAGAAGCAGATTAAAG
Found at i:95734293 original size:17 final size:17
Alignment explanation
Indices: 95734273--95734306 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
95734263 AAGGATATGC
95734273 AATCTTAGATATGATAT
1 AATCTTAGATATGATAT
*
95734290 AATCTTATATATGATAT
1 AATCTTAGATATGATAT
95734307 GATATGATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.44
Consensus pattern (17 bp):
AATCTTAGATATGATAT
Found at i:95742030 original size:26 final size:26
Alignment explanation
Indices: 95741992--95742047 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
95741982 AGGTGGTGCG
95741992 TATTAGTCAGTCCATGGATCAATGCA
1 TATTAGTCAGTCCATGGATCAATGCA
*
95742018 TATTAGTCTGTCCATGGATCAATGCA
1 TATTAGTCAGTCCATGGATCAATGCA
95742044 TATT
1 TATT
95742048 CGGTTTTCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.36
Consensus pattern (26 bp):
TATTAGTCAGTCCATGGATCAATGCA
Found at i:95742843 original size:116 final size:113
Alignment explanation
Indices: 95742639--95742859 Score: 361
Period size: 116 Copynumber: 1.9 Consensus size: 113
95742629 GCACATTCCA
* *
95742639 TATAAATTTTGCTTCCTGCATCTGTAAGTGAAATTTGTGTATATATATTCTTTTTATATATTTGC
1 TATAAATTTTGCTTCATGCATCTGTAAGTGAAATTTGTGTATATATATTCTTTTGATATATTTGC
* * *
95742704 ATGTATCCATAAGTGAAATTTGCATGTATATATATTTCTTTCTATCTGT
66 ATGCATCCATAAGTGAAACTTGCATCTATATATA-TTCTTTCTATCTGT
95742753 TATAAATTTTGCTTCATGCATCTGTAAGTGAAATGTGTGTGTATATATATTCTTTTGATATATTT
1 TATAAATTTTGCTTCATGCATCTGTAAGTGAAAT-T-TGTGTATATATATTCTTTTGATATATTT
*
95742818 GCATGCATCCGTAAGTGAAACTTGCATCTATATATATTCTTT
64 GCATGCATCCATAAGTGAAACTTGCATCTATATATATTCTTT
95742860 TGATATATTC
Statistics
Matches: 99, Mismatches: 6, Indels: 3
0.92 0.06 0.03
Matches are distributed among these distances:
114 33 0.33
115 7 0.07
116 59 0.60
ACGTcount: A:0.28, C:0.12, G:0.14, T:0.47
Consensus pattern (113 bp):
TATAAATTTTGCTTCATGCATCTGTAAGTGAAATTTGTGTATATATATTCTTTTGATATATTTGC
ATGCATCCATAAGTGAAACTTGCATCTATATATATTCTTTCTATCTGT
Found at i:95742850 original size:52 final size:52
Alignment explanation
Indices: 95742767--95742868 Score: 152
Period size: 52 Copynumber: 2.0 Consensus size: 52
95742757 AATTTTGCTT
* ** *
95742767 CATGCATCTGTAAGTGAAATGTGTGTGTATATATATTCTTTTGATATATTTG
1 CATGCATCCGTAAGTGAAATGTGCATCTATATATATTCTTTTGATATATTTG
95742819 CATGCATCCGTAAGTGAAACT-TGCATCTATATATATTCTTTTGATATATT
1 CATGCATCCGTAAGTGAAA-TGTGCATCTATATATATTCTTTTGATATATT
95742869 CTTTCTATCT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
52 44 0.98
53 1 0.02
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (52 bp):
CATGCATCCGTAAGTGAAATGTGCATCTATATATATTCTTTTGATATATTTG
Found at i:95743866 original size:26 final size:23
Alignment explanation
Indices: 95743821--95743869 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 23
95743811 AAATATTATA
95743821 AATGTCATGAAAAATATAAAAAT
1 AATGTCATGAAAAATATAAAAAT
95743844 AATGTCCATGATATAAATATAAAAAT
1 AATGT-CATGA-A-AAATATAAAAAT
95743870 TTTCTATTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 5 0.22
24 5 0.22
25 1 0.04
26 12 0.52
ACGTcount: A:0.57, C:0.06, G:0.08, T:0.29
Consensus pattern (23 bp):
AATGTCATGAAAAATATAAAAAT
Found at i:95744086 original size:18 final size:19
Alignment explanation
Indices: 95744049--95744089 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
95744039 ATTTAGAATC
95744049 AAAACTAAAATAAATAATA
1 AAAACTAAAATAAATAATA
* *
95744068 AAAACTAGATTAAAT-ATA
1 AAAACTAAAATAAATAATA
95744086 AAAA
1 AAAA
95744090 TATCAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.71, C:0.05, G:0.02, T:0.22
Consensus pattern (19 bp):
AAAACTAAAATAAATAATA
Found at i:95744091 original size:31 final size:31
Alignment explanation
Indices: 95744015--95744088 Score: 82
Period size: 31 Copynumber: 2.4 Consensus size: 31
95744005 ACACATTATC
*
95744015 TTAAATATTAAAATAAAAATAAAAATTTAGAA
1 TTAAATA-TAAAATAAAAATAAAAATCTAGAA
*
95744047 TCAAA-ACTAAAATAAATAATAAAAA-CTAG-A
1 TTAAATA-TAAAATAAA-AATAAAAATCTAGAA
95744077 TTAAATATAAAA
1 TTAAATATAAAA
95744089 ATATCAATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
30 10 0.28
31 14 0.39
32 12 0.33
ACGTcount: A:0.66, C:0.04, G:0.03, T:0.27
Consensus pattern (31 bp):
TTAAATATAAAATAAAAATAAAAATCTAGAA
Found at i:95749318 original size:18 final size:19
Alignment explanation
Indices: 95749281--95749319 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
95749271 AAATCATATT
95749281 TATTATTTTCATATAAAAA
1 TATTATTTTCATATAAAAA
*
95749300 TATTATTTTGATA-AAAAA
1 TATTATTTTCATATAAAAA
95749318 TA
1 TA
95749320 AAAAAGATCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (19 bp):
TATTATTTTCATATAAAAA
Found at i:95749928 original size:24 final size:24
Alignment explanation
Indices: 95749900--95749948 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
95749890 CCAAAATAAC
95749900 AATTAATTTTTATATAAACTTTTA
1 AATTAATTTTTATATAAACTTTTA
95749924 AATTAATTTTTATATAAACTTTTA
1 AATTAATTTTTATATAAACTTTTA
95749948 A
1 A
95749949 CAAATATACG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (24 bp):
AATTAATTTTTATATAAACTTTTA
Found at i:95749946 original size:12 final size:12
Alignment explanation
Indices: 95749907--95749947 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
95749897 AACAATTAAT
95749907 TTTTATATAAAC
1 TTTTATATAAAC
* * *
95749919 TTTTAAATTAAT
1 TTTTATATAAAC
95749931 TTTTATATAAAC
1 TTTTATATAAAC
95749943 TTTTA
1 TTTTA
95749948 ACAAATATAC
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (12 bp):
TTTTATATAAAC
Found at i:95750699 original size:122 final size:121
Alignment explanation
Indices: 95750563--95750787 Score: 344
Period size: 122 Copynumber: 1.9 Consensus size: 121
95750553 GTTATATGAC
* * * * * *
95750563 TTTTAGTGGCGTTTTACCAAAAGCGCTGCTAATGCTCTGGTTTTTAGC-AGCGTTTTACCAAAAG
1 TTTTAGCGACGTTTTACCAAAAGAGCCGCTAATGCTCTAGTTTTTAGCGA-CATTTTACCAAAAG
*
95750627 CGCCGCTAACGCTCTGTTTTTTAGCGGCGTTTTACCAAAAGTGCCGCTAATGTCTAGT
65 CGCCACTAACGCTCTG-TTTTTAGCGGCGTTTTACCAAAAGTGCCGCTAATGTCTAGT
*
95750685 TTTTAGCGACGTTTTACCAAATGAGCCGCTAATGCTCTAGTTTTTAGCGACATTTTACCAAAAGC
1 TTTTAGCGACGTTTTACCAAAAGAGCCGCTAATGCTCTAGTTTTTAGCGACATTTTACCAAAAGC
*
95750750 GCCACTAATGCTCTGTTTTTAGCGGCGTTTTACCAAAA
66 GCCACTAACGCTCTGTTTTTAGCGGCGTTTTACCAAAA
95750788 ACGCTGCTAT
Statistics
Matches: 93, Mismatches: 9, Indels: 3
0.89 0.09 0.03
Matches are distributed among these distances:
121 23 0.25
122 69 0.74
123 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (121 bp):
TTTTAGCGACGTTTTACCAAAAGAGCCGCTAATGCTCTAGTTTTTAGCGACATTTTACCAAAAGC
GCCACTAACGCTCTGTTTTTAGCGGCGTTTTACCAAAAGTGCCGCTAATGTCTAGT
Found at i:95750716 original size:81 final size:81
Alignment explanation
Indices: 95750563--95750787 Score: 303
Period size: 81 Copynumber: 2.8 Consensus size: 81
95750553 GTTATATGAC
* *
95750563 TTTTAGTGGCGTTTTACCAAAAGCGCTGCTAATGCTCTGGTTTTTAGC-AGCGTTTTACCAAAAG
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCT-GTTTTTAGCGA-CGTTTTACCAAAAG
*
95750627 CGCCGCTAACGCTCT-GTT
64 AGCCGCTAACGCTCTAG-T
* *
95750645 TTTTAGCGGCGTTTTACCAAAAGTGCCGCTAATG-TCTAGTTTTTAGCGACGTTTTACCAAATGA
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCT-GTTTTTAGCGACGTTTTACCAAAAGA
*
95750709 GCCGCTAATGCTCTAGT
65 GCCGCTAACGCTCTAGT
* * * *
95750726 TTTTAGCGACATTTTACCAAAAGCGCCACTAATGCTCTGTTTTTAGCGGCGTTTTACCAAAA
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGTTTTTAGCGACGTTTTACCAAAA
95750788 ACGCTGCTAT
Statistics
Matches: 127, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
81 91 0.72
82 36 0.28
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (81 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGTTTTTAGCGACGTTTTACCAAAAGAG
CCGCTAACGCTCTAGT
Found at i:95750802 original size:40 final size:41
Alignment explanation
Indices: 95750563--95750811 Score: 317
Period size: 41 Copynumber: 6.1 Consensus size: 41
95750553 GTTATATGAC
* * *
95750563 TTTTAGTGGCGTTTTACCAAAAGCGCTGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTAGT
* *
95750604 TTTTAGCAGCGTTTTACCAAAAGCGCCGCTAACGCTCT-GTT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTAG-T
*
95750645 TTTTAGCGGCGTTTTACCAAAAGTGCCGCTAATG-TCTAGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTAGT
* * *
95750685 TTTTAGCGACGTTTTACCAAATGAGCCGCTAATGCTCTAGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTAGT
* * *
95750726 TTTTAGCGACATTTTACCAAAAGCGCCACTAATGCTCT-GT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTAGT
* * *
95750766 TTTTAGCGGCGTTTTACCAAAAACGCTGCTATTGCTCT-GT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTAGT
95750806 GTTTTA
1 -TTTTA
95750812 CAATTTTTAC
Statistics
Matches: 184, Mismatches: 20, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
40 72 0.39
41 112 0.61
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.35
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTAGT
Found at i:95750802 original size:81 final size:81
Alignment explanation
Indices: 95750574--95750811 Score: 302
Period size: 81 Copynumber: 2.9 Consensus size: 81
95750564 TTTAGTGGCG
* * * * *
95750574 TTTTACCAAAAGCGCTGCTAATGCTCTGGTTTTTAGCAGCGTTTTACCAAAAGCGCCGCTAACGC
1 TTTTACCAAAAGCGCCGCTAATGCTCTAGTTTTTAGCGGCGTTTTACCAAAAACGCCGCTAATGC
* *
95750639 TCTGTTTTTTAGCGGCG
66 TCTG-TTTTTAGCGACA
* * *
95750656 TTTTACCAAAAGTGCCGCTAATG-TCTAGTTTTTAGCGACGTTTTACCAAATGA-GCCGCTAATG
1 TTTTACCAAAAGCGCCGCTAATGCTCTAGTTTTTAGCGGCGTTTTACCAAA-AACGCCGCTAATG
95750719 CTCTAGTTTTTAGCGACA
65 CTCT-GTTTTTAGCGACA
* * *
95750737 TTTTACCAAAAGCGCCACTAATGCTCT-GTTTTTAGCGGCGTTTTACCAAAAACGCTGCTATTGC
1 TTTTACCAAAAGCGCCGCTAATGCTCTAGTTTTTAGCGGCGTTTTACCAAAAACGCCGCTAATGC
95750801 TCTGTGTTTTA
66 TCTGT-TTTTA
95750812 CAATTTTTAC
Statistics
Matches: 135, Mismatches: 16, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
80 3 0.02
81 107 0.79
82 25 0.19
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (81 bp):
TTTTACCAAAAGCGCCGCTAATGCTCTAGTTTTTAGCGGCGTTTTACCAAAAACGCCGCTAATGC
TCTGTTTTTAGCGACA
Found at i:95751725 original size:26 final size:26
Alignment explanation
Indices: 95751673--95751726 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
95751663 ATAAAATCGA
*
95751673 TAAAAAAAAACAAATAATAAGATTTT
1 TAAAAAAAAACAAATAATAAGACTTT
* *
95751699 TAAAAGAATAACAAAT-ATCAGACTTT
1 TAAAA-AAAAACAAATAATAAGACTTT
95751725 TA
1 TA
95751727 GTTTTCATCT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 15 0.62
27 9 0.38
ACGTcount: A:0.59, C:0.07, G:0.06, T:0.28
Consensus pattern (26 bp):
TAAAAAAAAACAAATAATAAGACTTT
Found at i:95754279 original size:58 final size:58
Alignment explanation
Indices: 95754184--95754301 Score: 200
Period size: 58 Copynumber: 2.0 Consensus size: 58
95754174 GGTAAATCAT
* * *
95754184 ATACTTCGATGCTCACACAGAGCTACGGTAGCCCACAACTTATGTGGAATTACTACCA
1 ATACATCGATGCTCACACAGAGCTACGGTAGCCCACAACTTATGCGAAATTACTACCA
*
95754242 ATACATCGATGCTCACACAGAGCTACGGTAGCCCACAACTTATGCGAAATTGCTACCA
1 ATACATCGATGCTCACACAGAGCTACGGTAGCCCACAACTTATGCGAAATTACTACCA
95754300 AT
1 AT
95754302 CACTATATTT
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
58 56 1.00
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (58 bp):
ATACATCGATGCTCACACAGAGCTACGGTAGCCCACAACTTATGCGAAATTACTACCA
Found at i:95755281 original size:2 final size:2
Alignment explanation
Indices: 95755274--95755315 Score: 54
Period size: 2 Copynumber: 22.5 Consensus size: 2
95755264 TTTGTTTTAC
*
95755274 AT AT AT AT AT AT AT AT AT AT AT A- AA AT A- AT AT A- AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
95755313 AT A
1 AT A
95755316 ATGTAATAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
1 3 0.08
2 33 0.92
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (2 bp):
AT
Found at i:95755324 original size:8 final size:8
Alignment explanation
Indices: 95755274--95755337 Score: 60
Period size: 8 Copynumber: 7.8 Consensus size: 8
95755264 TTTGTTTTAC
95755274 ATATATATA
1 ATATA-ATA
95755283 TATATATATA
1 -ATATA-ATA
*
95755293 TATAAAATA
1 -ATATAATA
95755302 ATATAAT-
1 ATATAATA
95755309 ATAT-ATA
1 ATATAATA
*
95755316 ATGTAATA
1 ATATAATA
95755324 ATATAATA
1 ATATAATA
95755332 ATATAA
1 ATATAA
95755338 ATTAATATAT
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
6 2 0.04
7 7 0.15
8 22 0.46
9 3 0.06
10 14 0.29
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.41
Consensus pattern (8 bp):
ATATAATA
Found at i:95757857 original size:17 final size:18
Alignment explanation
Indices: 95757825--95757858 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
95757815 CAGGGGAGAA
*
95757825 AAAGAGAAATAAAAAGGG
1 AAAGAGAAAGAAAAAGGG
95757843 AAAGA-AAAGAAAAAGG
1 AAAGAGAAAGAAAAAGG
95757859 AAAAACTAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.71, C:0.00, G:0.26, T:0.03
Consensus pattern (18 bp):
AAAGAGAAAGAAAAAGGG
Found at i:95758182 original size:40 final size:39
Alignment explanation
Indices: 95758099--95758206 Score: 112
Period size: 40 Copynumber: 2.7 Consensus size: 39
95758089 ATTGAGATTG
* * *
95758099 ATACTGAACTGAATTATGGAA-TACTGAATATTGTTTTAA
1 ATACTGAATTGAATTGT-GAATTACTGAATATTGTTATAA
**
95758138 ATACTGAATTGAATTGTGAAGTTACTGAATATTGTTATGT
1 ATACTGAATTGAATTGTGAA-TTACTGAATATTGTTATAA
*
95758178 ATACTGCATTG-ATCTGTGATATTACTGAA
1 ATACTGAATTGAAT-TGTGA-ATTACTGAA
95758207 GTAATGAATT
Statistics
Matches: 59, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
38 3 0.05
39 17 0.29
40 38 0.64
41 1 0.02
ACGTcount: A:0.34, C:0.08, G:0.18, T:0.40
Consensus pattern (39 bp):
ATACTGAATTGAATTGTGAATTACTGAATATTGTTATAA
Found at i:95758650 original size:17 final size:18
Alignment explanation
Indices: 95758628--95758662 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
95758618 GTTAATAGGG
*
95758628 ACAAATGAAA-TAAATTT
1 ACAAATAAAACTAAATTT
95758645 ACAAATAAAACTAAATTT
1 ACAAATAAAACTAAATTT
95758663 GAATAATATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.60, C:0.09, G:0.03, T:0.29
Consensus pattern (18 bp):
ACAAATAAAACTAAATTT
Found at i:95764206 original size:92 final size:92
Alignment explanation
Indices: 95764049--95764233 Score: 370
Period size: 92 Copynumber: 2.0 Consensus size: 92
95764039 CATATAAAGA
95764049 AGAACCAGTTCAAATGCTAGCTCGAGAAGTGAAAGAATTAAGAAACAAACGGGTCCCTCTAGTAA
1 AGAACCAGTTCAAATGCTAGCTCGAGAAGTGAAAGAATTAAGAAACAAACGGGTCCCTCTAGTAA
95764114 AAGTACTGTGGAGAAGCCATAGTGTGG
66 AAGTACTGTGGAGAAGCCATAGTGTGG
95764141 AGAACCAGTTCAAATGCTAGCTCGAGAAGTGAAAGAATTAAGAAACAAACGGGTCCCTCTAGTAA
1 AGAACCAGTTCAAATGCTAGCTCGAGAAGTGAAAGAATTAAGAAACAAACGGGTCCCTCTAGTAA
95764206 AAGTACTGTGGAGAAGCCATAGTGTGG
66 AAGTACTGTGGAGAAGCCATAGTGTGG
95764233 A
1 A
95764234 AGAAGCAACA
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
92 93 1.00
ACGTcount: A:0.38, C:0.16, G:0.26, T:0.19
Consensus pattern (92 bp):
AGAACCAGTTCAAATGCTAGCTCGAGAAGTGAAAGAATTAAGAAACAAACGGGTCCCTCTAGTAA
AAGTACTGTGGAGAAGCCATAGTGTGG
Found at i:95764649 original size:12 final size:13
Alignment explanation
Indices: 95764628--95764707 Score: 50
Period size: 12 Copynumber: 6.5 Consensus size: 13
95764618 TTTTATTTAG
95764628 ATTA-TATATATT
1 ATTATTATATATT
95764640 A-TATTATATAATT
1 ATTATTATAT-ATT
95764653 GATTATTATA-ATT
1 -ATTATTATATATT
*
95764666 ATTA--AT-TGTT
1 ATTATTATATATT
*
95764676 A-TAGTTTTATATT
1 ATTA-TTATATATT
*
95764689 ATTATTA-GTATT
1 ATTATTATATATT
95764701 ATTATTA
1 ATTATTA
95764708 AATAAATTAA
Statistics
Matches: 53, Mismatches: 5, Indels: 20
0.68 0.06 0.26
Matches are distributed among these distances:
9 2 0.04
10 5 0.09
11 2 0.04
12 22 0.42
13 12 0.23
14 3 0.06
15 7 0.13
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (13 bp):
ATTATTATATATT
Found at i:95764659 original size:20 final size:19
Alignment explanation
Indices: 95764636--95764677 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
95764626 AGATTATATA
95764636 TATTAT-ATTATATAATTGAT
1 TATTATAATTAT-TAATTG-T
95764656 TATTATAATTATTAATTGT
1 TATTATAATTATTAATTGT
95764675 TAT
1 TAT
95764678 AGTTTTATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.19
20 12 0.57
21 5 0.24
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (19 bp):
TATTATAATTATTAATTGT
Found at i:95765190 original size:16 final size:18
Alignment explanation
Indices: 95765160--95765196 Score: 60
Period size: 16 Copynumber: 2.2 Consensus size: 18
95765150 TAGGGGAGAA
95765160 AAAGAGAAAGAAAAAAGG
1 AAAGAGAAAGAAAAAAGG
95765178 AAAGA-AAAG-AAAAAGG
1 AAAGAGAAAGAAAAAAGG
95765194 AAA
1 AAA
95765197 AACTAGAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 10 0.53
17 4 0.21
18 5 0.26
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (18 bp):
AAAGAGAAAGAAAAAAGG
Found at i:95773328 original size:35 final size:35
Alignment explanation
Indices: 95773301--95773466 Score: 172
Period size: 35 Copynumber: 4.6 Consensus size: 35
95773291 CATGGCAAAG
*
95773301 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
95773336 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
95773371 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGC
** * * * *
95773411 TAAGAAATGTAGGTATGGCAT-TTCCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATCAT-CCATACTGAGC
**
95773446 TGAAAAATGTAGGTATGGTAT
1 TGTGAAATGTAGGTATGGTAT
95773467 TTCAATGAGG
Statistics
Matches: 113, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
34 1 0.01
35 79 0.70
37 2 0.02
38 3 0.03
40 28 0.25
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
Found at i:95773420 original size:75 final size:75
Alignment explanation
Indices: 95773301--95773471 Score: 221
Period size: 75 Copynumber: 2.4 Consensus size: 75
95773291 CATGGCAAAG
** *
95773301 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
95773360 CCATACTGAGC
65 CCATACCGAGC
95773371 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
95773436 CATACCGAGT
66 CATACCGAGC
**
95773446 TGAAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
95773472 TGAGGAAAAC
Statistics
Matches: 88, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
70 18 0.20
73 4 0.05
74 5 0.06
75 61 0.69
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:95780090 original size:78 final size:74
Alignment explanation
Indices: 95779983--95780134 Score: 198
Period size: 78 Copynumber: 2.0 Consensus size: 74
95779973 GTATGGTATC
* ** * *
95779983 ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-CCATACTGAGCTGTGAAATAATGTAGG
1 ATCCATACTAAGTTAAGAAATGTAGGTATGGCATT-TCCCATACCGAG-T-TGAAA-AATGTAGG
*
95780047 TATGGTATTATCAA
62 CATGGTATT-TCAA
95780061 ATCCATACTAAGTTAAGAAATGTAGGTATGGCATTTCCCATACCGAGTTGAAAAATGTAGGCATG
1 ATCCATACTAAGTTAAGAAATGTAGGTATGGCATTTCCCATACCGAGTTGAAAAATGTAGGCATG
95780126 GTATTTCAA
66 GTATTTCAA
95780135 TGAGGAAAAC
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
74 4 0.06
75 16 0.24
76 5 0.07
77 2 0.03
78 40 0.60
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.32
Consensus pattern (74 bp):
ATCCATACTAAGTTAAGAAATGTAGGTATGGCATTTCCCATACCGAGTTGAAAAATGTAGGCATG
GTATTTCAA
Found at i:95780132 original size:35 final size:35
Alignment explanation
Indices: 95779965--95780132 Score: 153
Period size: 35 Copynumber: 4.6 Consensus size: 35
95779955 GCAAAGTGTG
* **
95779965 AAATGTAGGTATGGTATCAT-CCATACTGAGTTGTG
1 AAATGTAGGTATGGTAT-TTCCCATACTGAGTTGAA
95780000 AAATGTAGGTATGGTATTAT-CCATACTGAGCTGTGAA
1 AAATGTAGGTATGGTATT-TCCCATACTGAG-T-TGAA
*
95780037 ATAATGTAGGTATGGTATTATCAAATCCATACTAAGTT-AA
1 A-AATGTAGGTATGGTATT-TC----CCATACTGAGTTGAA
* *
95780077 GAAATGTAGGTATGGCATTTCCCATACCGAGTTGAA
1 -AAATGTAGGTATGGTATTTCCCATACTGAGTTGAA
*
95780113 AAATGTAGGCATGGTATTTC
1 AAATGTAGGTATGGTATTTC
95780133 AATGAGGAAA
Statistics
Matches: 113, Mismatches: 9, Indels: 22
0.78 0.06 0.15
Matches are distributed among these distances:
35 56 0.50
36 3 0.03
37 3 0.03
38 19 0.17
39 2 0.02
40 18 0.16
41 2 0.02
42 1 0.01
43 9 0.08
ACGTcount: A:0.33, C:0.12, G:0.23, T:0.33
Consensus pattern (35 bp):
AAATGTAGGTATGGTATTTCCCATACTGAGTTGAA
Found at i:95787525 original size:18 final size:18
Alignment explanation
Indices: 95787504--95787561 Score: 55
Period size: 18 Copynumber: 3.3 Consensus size: 18
95787494 AAGAAGATGC
95787504 AGTATGCCTTGAAGGCTA
1 AGTATGCCTTGAAGGCTA
** * * *
95787522 AGTAT-TATAGAAGACGA
1 AGTATGCCTTGAAGGCTA
*
95787539 AGCATGCCTTGAAGGCTA
1 AGTATGCCTTGAAGGCTA
95787557 AGTAT
1 AGTAT
95787562 TTGAGAAGAT
Statistics
Matches: 27, Mismatches: 12, Indels: 2
0.66 0.29 0.05
Matches are distributed among these distances:
17 11 0.41
18 16 0.59
ACGTcount: A:0.34, C:0.14, G:0.26, T:0.26
Consensus pattern (18 bp):
AGTATGCCTTGAAGGCTA
Found at i:95787546 original size:35 final size:34
Alignment explanation
Indices: 95787477--95787625 Score: 165
Period size: 35 Copynumber: 4.3 Consensus size: 34
95787467 AAGTATGCCT
* * *
95787477 CCTTGAAGGCTATGT-TTAAGAAGATGCAGTATG
1 CCTTGAAGGCTAAGTATTAAGAAGACGAAGTATG
*
95787510 CCTTGAAGGCTAAGTATTATAGAAGACGAAGCATG
1 CCTTGAAGGCTAAGTATTA-AGAAGACGAAGTATG
* * *
95787545 CCTTGAAGGCTAAGTATTTGAGAAGATGAAGTTTG
1 CCTTGAAGGCTAAGTA-TTAAGAAGACGAAGTATG
* * * *
95787580 CCTTAAAGGCTAAGTGTCGAAGAAGACAAAGTATG
1 CCTTGAAGGCTAAGTAT-TAAGAAGACGAAGTATG
95787615 CCTTGAAGGCT
1 CCTTGAAGGCT
95787626 GTGTCTAAGA
Statistics
Matches: 96, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
33 14 0.15
34 4 0.04
35 76 0.79
36 2 0.02
ACGTcount: A:0.34, C:0.13, G:0.27, T:0.26
Consensus pattern (34 bp):
CCTTGAAGGCTAAGTATTAAGAAGACGAAGTATG
Found at i:95787582 original size:70 final size:68
Alignment explanation
Indices: 95787477--95787625 Score: 183
Period size: 70 Copynumber: 2.2 Consensus size: 68
95787467 AAGTATGCCT
* * * * *
95787477 CCTTGAAGGCTATGTTTAAGAAGATGCAGTATGCCTTGAAGGCTAAGTAT-TATAGAAGACGAAG
1 CCTTGAAGGCTATATTTAAGAAGATGAAGTATGCCTTAAAGGCTAAGTATCGA-AGAAGACAAAG
95787541 CATG
65 CATG
* * *
95787545 CCTTGAAGGCTAAGTATTTGAGAAGATGAAGTTTGCCTTAAAGGCTAAGTGTCGAAGAAGACAAA
1 CCTTGAAGGCT-A-TATTTAAGAAGATGAAGTATGCCTTAAAGGCTAAGTATCGAAGAAGACAAA
*
95787610 GTATG
64 GCATG
95787615 CCTTGAAGGCT
1 CCTTGAAGGCT
95787626 GTGTCTAAGA
Statistics
Matches: 69, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
68 11 0.16
69 1 0.01
70 56 0.81
71 1 0.01
ACGTcount: A:0.34, C:0.13, G:0.27, T:0.26
Consensus pattern (68 bp):
CCTTGAAGGCTATATTTAAGAAGATGAAGTATGCCTTAAAGGCTAAGTATCGAAGAAGACAAAGC
ATG
Found at i:95789067 original size:60 final size:59
Alignment explanation
Indices: 95788913--95789095 Score: 192
Period size: 58 Copynumber: 3.1 Consensus size: 59
95788903 GTGAAATGTG
* *
95788913 TATATATATTCTTTTGATATATTTGCATGCATCCGTAAGTGAAATT-TGCATGTATATA
1 TATATATATTCTTTTGATATATTTGCATGCATCCGTAAGTGAAATTGTGTATATATATA
* * * * * *
95788971 TATCTTTCTATCTGTT-ATAAATTTTGCATCATGCATCTGTAAGTGAAATGTGTGTATATATATA
1 TATATATAT-TCTTTTGATATA-TTTG---CATGCATCCGTAAGTGAAAT-TGTGTATATATATA
* * *
95789035 TATATAAATTCTTTTGATATATTTGCATGCATCCGTAAGTGAAATT-TGCATCTATATA
1 TATATATATTCTTTTGATATATTTGCATGCATCCGTAAGTGAAATTGTGTATATATATA
95789093 TAT
1 TAT
95789096 TCTTTTGATA
Statistics
Matches: 100, Mismatches: 17, Indels: 16
0.75 0.13 0.12
Matches are distributed among these distances:
58 23 0.23
59 10 0.10
60 19 0.19
62 19 0.19
63 10 0.10
64 19 0.19
ACGTcount: A:0.31, C:0.11, G:0.13, T:0.45
Consensus pattern (59 bp):
TATATATATTCTTTTGATATATTTGCATGCATCCGTAAGTGAAATTGTGTATATATATA
Found at i:95789156 original size:29 final size:28
Alignment explanation
Indices: 95789103--95789170 Score: 68
Period size: 27 Copynumber: 2.4 Consensus size: 28
95789093 TATTCTTTTG
* * *
95789103 ATATAC-TCTTTCTATCTATTTGTGTAT
1 ATATACTTTTTTCTATCTATGTGTGTAC
*
95789130 ATATA-TTTTTTCTATCTGTATGTGTGTGC
1 ATATACTTTTTTCTATC--TATGTGTGTAC
95789159 ATATACTTTTTT
1 ATATACTTTTTT
95789171 TATATAATTC
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
27 14 0.42
29 13 0.39
30 6 0.18
ACGTcount: A:0.21, C:0.12, G:0.10, T:0.57
Consensus pattern (28 bp):
ATATACTTTTTTCTATCTATGTGTGTAC
Found at i:95800127 original size:41 final size:41
Alignment explanation
Indices: 95800082--95800210 Score: 213
Period size: 41 Copynumber: 3.1 Consensus size: 41
95800072 GTGGGGCATC
*
95800082 GCATACCTGTTTGGTACATTGTTGGAAAAGACTGTGAGGAG
1 GCATACCTGTTTGGTACATTGTTGGAAAAGACTGTGAAGAG
* *
95800123 GCATACTTGTTTGGTACATTGTTGGTAAAGACTGTGAAGAG
1 GCATACCTGTTTGGTACATTGTTGGAAAAGACTGTGAAGAG
*
95800164 GCATACCTGTTTGGTACATTGTTGGAAAAGACTGTAAAGAG
1 GCATACCTGTTTGGTACATTGTTGGAAAAGACTGTGAAGAG
*
95800205 GAATAC
1 GCATAC
95800211 ATAGTTGCTA
Statistics
Matches: 81, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 81 1.00
ACGTcount: A:0.29, C:0.12, G:0.29, T:0.30
Consensus pattern (41 bp):
GCATACCTGTTTGGTACATTGTTGGAAAAGACTGTGAAGAG
Found at i:95800583 original size:16 final size:16
Alignment explanation
Indices: 95800562--95800592 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
95800552 AGCCTAATCC
*
95800562 CTAAATTTAACCCAAA
1 CTAAATTGAACCCAAA
95800578 CTAAATTGAACCCAA
1 CTAAATTGAACCCAA
95800593 TCTACCCAAA
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:0.26, G:0.03, T:0.23
Consensus pattern (16 bp):
CTAAATTGAACCCAAA
Found at i:95801852 original size:23 final size:22
Alignment explanation
Indices: 95801823--95802407 Score: 180
Period size: 24 Copynumber: 25.9 Consensus size: 22
95801813 TGCTTTTCAT
95801823 ATATATTATGTA-AGTATTTTTA
1 ATATATTATGTATA-TATTTTTA
95801845 ATACTATTAAT-TATATATTTTTA
1 ATA-TATT-ATGTATATATTTTTA
95801868 TATATATTATGTATATATTTTTAA
1 -ATATATTATGTATATATTTTT-A
*
95801892 ATATCCTCCTAT-TCATATATTTTT-
1 ATAT-AT--TATGT-ATATATTTTTA
*
95801916 ATGTTATCTCATGTATATATTTTTA
1 AT-ATAT-T-ATGTATATATTTTTA
95801941 ATATCATT-TGTTATATATATTTT-
1 ATAT-ATTATG-TATATAT-TTTTA
95801964 ATATTATTTCATGTATATATTTTTA
1 ATA-TA-TT-ATGTATATATTTTTA
* *
95801989 TATTATCCTTAT-TAT-TATTATT-
1 -A-TAT-ATTATGTATATATTTTTA
*
95802011 A-ATATTA-GTATAT-GTTTTA
1 ATATATTATGTATATATTTTTA
* *
95802030 TTATA-TATGTATATATCTTTA
1 ATATATTATGTATATATTTTTA
* * *
95802051 ATATGTAATGTATATATCTTTA
1 ATATATTATGTATATATTTTTA
*
95802073 ATATACATATAGGTATATATTTATGTA
1 ATAT--AT-TATGTATATATTT-T-TA
*
95802100 ATATTATTAATAGGTGT-T-TTTTTA
1 ATA-TATT-AT--GTATATATTTTTA
* * * * *
95802124 ACATCATTATTTCTA-ATATGT-
1 ATAT-ATTATGTATATATTTTTA
*
95802145 ATATATTATGTAAATATTTTAATA
1 ATATATTATGTATATATTTT--TA
* *
95802169 TTATATTATATATGCAT-TTTTTA
1 ATATATTATGTAT--ATATTTTTA
*
95802192 TATATATTACGTGTATACACTTTTT-
1 -ATATATTA--TGTATATA-TTTTTA
*
95802217 A-ATA-T-TGTAT-T-TTTAT-
1 ATATATTATGTATATATTTTTA
* **
95802233 ATATATCATGTATATATTTCGA
1 ATATATTATGTATATATTTTTA
95802255 ATACTA-TAT-TATAT-TTTTTA
1 ATA-TATTATGTATATATTTTTA
95802275 CATATTATCTTATGTATATATTTTTTA
1 -ATA-TA--TTATGTATATA-TTTTTA
* *
95802302 TATATGTTATGTACATAATTTTT-
1 -ATATATTATGTATAT-ATTTTTA
*
95802325 -T-TAATAT-TATAT-TTTTTA
1 ATATATTATGTATATATTTTTA
95802343 ATATTATTATGTATATA-TTTTA
1 ATA-TATTATGTATATATTTTTA
*
95802365 ATATTACTA-GT-TATATTTTTTA
1 ATA-TATTATGTATATA-TTTTTA
*
95802387 TACTATTTTATGTATATATTT
1 -A-TATATTATGTATATATTT
95802408 CAAGCACTAT
Statistics
Matches: 424, Mismatches: 57, Indels: 162
0.66 0.09 0.25
Matches are distributed among these distances:
16 5 0.01
17 8 0.02
18 9 0.02
19 20 0.05
20 29 0.07
21 37 0.09
22 58 0.14
23 67 0.16
24 90 0.21
25 42 0.10
26 38 0.09
27 17 0.04
28 4 0.01
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.56
Consensus pattern (22 bp):
ATATATTATGTATATATTTTTA
Found at i:95802190 original size:26 final size:27
Alignment explanation
Indices: 95802161--95802227 Score: 68
Period size: 27 Copynumber: 2.6 Consensus size: 27
95802151 TATGTAAATA
*
95802161 TTTTAATATTATATTA-TATATGCA-T
1 TTTTAATATTATATTACTATATACACT
* *
95802186 TTTTTATA-TATATTACGTGTATACACT
1 TTTTAATATTATATTAC-TATATACACT
*
95802213 TTTTAATATTGTATT
1 TTTTAATATTATATT
95802228 TTTATATATA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
24 7 0.21
25 7 0.21
26 6 0.18
27 8 0.24
28 5 0.15
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.57
Consensus pattern (27 bp):
TTTTAATATTATATTACTATATACACT
Found at i:95802298 original size:110 final size:111
Alignment explanation
Indices: 95802161--95802407 Score: 281
Period size: 110 Copynumber: 2.2 Consensus size: 111
95802151 TATGTAAATA
* ** ** *
95802161 TTTTAATATTATATTATATATGCATTTTTTATATATATTACGTGTATACA-CTTTTTAATATTGT
1 TTTTAATATTATATTATGTATATATTTTTTATATATATTACGTACATA-ATCTTTTTAATATTAT
95802225 A-TTTTT-ATATATATCATGTATATATTTCGAATACTA-TA-TTATATT
65 ATTTTTTAATAT-TATCATGTATATATTT-GAATACTACTAGTTATATT
* * * *
95802270 TTTTACATATTATCTTATGTATATATTTTTTATATATGTTATGTACATAATTTTTTTAATATTAT
1 TTTTA-ATATTATATTATGTATATATTTTTTATATATATTACGTACATAATCTTTTTAATATTAT
* * *
95802335 ATTTTTTAATATTATTATGTATATATTTTAATATTACTAGTTATATT
65 ATTTTTTAATATTATCATGTATATATTTGAATACTACTAGTTATATT
* *
95802382 TTTT-ATACTATTTTATGTATATATTT
1 TTTTAATATTATATTATGTATATATTT
95802408 CAAGCACTAT
Statistics
Matches: 117, Mismatches: 15, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
109 6 0.05
110 74 0.63
111 22 0.19
112 15 0.13
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.58
Consensus pattern (111 bp):
TTTTAATATTATATTATGTATATATTTTTTATATATATTACGTACATAATCTTTTTAATATTATA
TTTTTTAATATTATCATGTATATATTTGAATACTACTAGTTATATT
Found at i:95802300 original size:70 final size:65
Alignment explanation
Indices: 95802226--95802363 Score: 161
Period size: 70 Copynumber: 2.0 Consensus size: 65
95802216 TAATATTGTA
*
95802226 TTTTTATATATATCATGTATAT-ATTTCGAATACTATATTATATTTTTTACATATTATCTTATGT
1 TTTTTATATATATCATGTACATAATTT-GAATA--ATATTATATTTTTTA-ATATTA--TTATGT
95802290 ATATAT
60 ATATAT
* * ***
95802296 TTTTTATATATGTTATGTACATAATTTTTTTAATATTATATTTTTTAATATTATTATGTATATAT
1 TTTTTATATATATCATGTACATAATTTGAATAATATTATATTTTTTAATATTATTATGTATATAT
95802361 TTT
1 TTT
95802364 AATATTACTA
Statistics
Matches: 61, Mismatches: 6, Indels: 7
0.82 0.08 0.09
Matches are distributed among these distances:
65 15 0.25
67 6 0.10
68 15 0.25
70 21 0.34
71 4 0.07
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.59
Consensus pattern (65 bp):
TTTTTATATATATCATGTACATAATTTGAATAATATTATATTTTTTAATATTATTATGTATATAT
Found at i:95802304 original size:25 final size:26
Alignment explanation
Indices: 95802264--95802334 Score: 83
Period size: 27 Copynumber: 2.7 Consensus size: 26
95802254 AATACTATAT
95802264 TATATTTTTTACATATTATCTTATGTA
1 TATATTTTTTA-ATATTATCTTATGTA
*
95802291 TATATTTTTT-ATA-TATGTTATGTA
1 TATATTTTTTAATATTATCTTATGTA
*
95802315 CATAATTTTTTTAATATTAT
1 TAT-A-TTTTTTAATATTAT
95802335 ATTTTTTAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
24 12 0.32
25 4 0.11
26 6 0.16
27 13 0.34
28 3 0.08
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.61
Consensus pattern (26 bp):
TATATTTTTTAATATTATCTTATGTA
Found at i:95802336 original size:41 final size:43
Alignment explanation
Indices: 95802291--95802407 Score: 125
Period size: 41 Copynumber: 2.7 Consensus size: 43
95802281 ATCTTATGTA
*
95802291 TATATTTTTTATATATGTTATGTACATAATTTT-T-TTAATA-T
1 TATATTTTTTATATATATTATGTACAT-ATTTTATATTAATAGT
* *
95802332 TATATTTTTTA-ATATTATTATGTATATATTTTAATATTACTAGT
1 TATATTTTTTATATA-TATTATGTACATATTTT-ATATTAATAGT
* *
95802376 TATATTTTTTATACTATTTTATGTATATATTT
1 TATATTTTTTATA-TATATTATGTACATATTT
95802408 CAAGCACTAT
Statistics
Matches: 65, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
40 8 0.12
41 21 0.32
42 1 0.02
43 5 0.08
44 12 0.18
45 16 0.25
46 2 0.03
ACGTcount: A:0.32, C:0.03, G:0.04, T:0.62
Consensus pattern (43 bp):
TATATTTTTTATATATATTATGTACATATTTTATATTAATAGT
Found at i:95802341 original size:15 final size:15
Alignment explanation
Indices: 95802321--95802349 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
95802311 TGTACATAAT
95802321 TTTTTTAATATTATA
1 TTTTTTAATATTATA
95802336 TTTTTTAATATTAT
1 TTTTTTAATATTAT
95802350 TATGTATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTTTTAATATTATA
Found at i:95802381 original size:20 final size:22
Alignment explanation
Indices: 95802240--95802407 Score: 82
Period size: 22 Copynumber: 7.5 Consensus size: 22
95802230 TATATATATC
* *
95802240 ATGTATATATTTCGAATACTA-T
1 ATGTATATATTT-TAATATTACT
*
95802262 AT-TATATTTTTTACATATTATCTT
1 ATGTATATATTTTA-ATATTA-C-T
* **
95802286 ATGTATATATTTTTTATATATGTT
1 ATGTATATA-TTTTAATAT-TACT
* *
95802310 ATGTACATAATTTT--T-TTAAT
1 ATGTATAT-ATTTTAATATTACT
* *
95802330 AT-TATATTTTTTAATATTATT
1 ATGTATATATTTTAATATTACT
95802351 ATGTATATATTTTAATATTACT
1 ATGTATATATTTTAATATTACT
* *
95802373 A-GTTATATTTTTTATACTATT-TT
1 ATG-TATATATTTTA-A-TATTACT
95802396 ATGTATATATTT
1 ATGTATATATTT
95802408 CAAGCACTAT
Statistics
Matches: 112, Mismatches: 18, Indels: 31
0.70 0.11 0.19
Matches are distributed among these distances:
18 4 0.04
19 4 0.04
20 6 0.05
21 21 0.19
22 31 0.28
23 11 0.10
24 20 0.18
25 10 0.09
26 5 0.04
ACGTcount: A:0.32, C:0.04, G:0.05, T:0.59
Consensus pattern (22 bp):
ATGTATATATTTTAATATTACT
Found at i:95802605 original size:21 final size:20
Alignment explanation
Indices: 95802564--95802607 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 20
95802554 TTATTTCTAA
95802564 TATGTATATATCTTTAATAC
1 TATGTATATATCTTTAATAC
95802584 TATGTATATA-CTTTGCAATAC
1 TATGTATATATCTTT--AATAC
95802605 TAT
1 TAT
95802608 TATTATGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.18
20 10 0.45
21 8 0.36
ACGTcount: A:0.34, C:0.11, G:0.07, T:0.48
Consensus pattern (20 bp):
TATGTATATATCTTTAATAC
Found at i:95805625 original size:53 final size:53
Alignment explanation
Indices: 95805544--95805694 Score: 205
Period size: 53 Copynumber: 2.8 Consensus size: 53
95805534 CTTACACGGT
* *
95805544 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
* *
95805599 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCATATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
95805652 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
95805695 GCACACTTAT
Statistics
Matches: 88, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
52 1 0.01
53 80 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:95813056 original size:53 final size:53
Alignment explanation
Indices: 95812975--95813125 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
95812965 CTTACACGGT
* *
95812975 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
95813030 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
95813083 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
95813126 GCACACTTAT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:95816708 original size:22 final size:22
Alignment explanation
Indices: 95816683--95816726 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
95816673 CATGACTAAC
95816683 ATTCATTCGTCATTTATTCATT
1 ATTCATTCGTCATTTATTCATT
*
95816705 ATTCATTTGTCATTTATTCATT
1 ATTCATTCGTCATTTATTCATT
95816727 CATCTATTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.23, C:0.16, G:0.05, T:0.57
Consensus pattern (22 bp):
ATTCATTCGTCATTTATTCATT
Found at i:95822731 original size:22 final size:22
Alignment explanation
Indices: 95822703--95822747 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
95822693 AATGGATGAA
95822703 TGAATAAATAACAAATGAATGT
1 TGAATAAATAACAAATGAATGT
* *
95822725 TGAATAAATGACGAATGAATGT
1 TGAATAAATAACAAATGAATGT
95822747 T
1 T
95822748 ACTCATGCAT
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:0.04, G:0.18, T:0.29
Consensus pattern (22 bp):
TGAATAAATAACAAATGAATGT
Found at i:95830912 original size:75 final size:75
Alignment explanation
Indices: 95830745--95830914 Score: 218
Period size: 75 Copynumber: 2.3 Consensus size: 75
95830735 TACTCGGATG
* *
95830745 TTTT-AATTCCTGTCTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACA
1 TTTTAAATT-CTGTTTTTCAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGTCACA
* * *
95830809 CGCTGAGGTAT
65 CACCGAGGAAT
* * * *
95830820 TTTCAATTTATGGTTTTCAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTC-GGTTCACA
1 TTTTAAATTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGG-TCACA
*
95830884 TACCGAGGAAT
65 CACCGAGGAAT
95830895 TTTTAAATTCTGTTTTTCAA
1 TTTTAAATTCTGTTTTTCAA
95830915 TTTATGTTTT
Statistics
Matches: 79, Mismatches: 14, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
74 2 0.03
75 74 0.94
76 3 0.04
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (75 bp):
TTTTAAATTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGTCACAC
ACCGAGGAAT
Found at i:95830974 original size:90 final size:88
Alignment explanation
Indices: 95830819--95831181 Score: 408
Period size: 90 Copynumber: 4.1 Consensus size: 88
95830809 CGCTGAGGTA
* *
95830819 TTTTCAATTTATGGTTTTCAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGTTCACA
1 TTTTCAATTTAT-GTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACA
* * *
95830884 TACCGAGGAATTTTTAAATTCTGT
65 TGCCGAGGTATTTTCAAATTCTGT
* ** *
95830908 TTTTCAATTTATGTTTTCCAAAAAATCAACTCATATCGCGAGAGGTGAGTTGAGTTTCGGGCCAC
1 TTTTCAATTTATGTTTT-C-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCAC
* * * *
95830973 ATGCCAAGGTCTTTTCAAATTGTAT
64 ATGCCGAGGTATTTTCAAATTCTGT
* * *
95830998 TTTT-AATTTCTGTTTCTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTTAGCCTCGGG--A
1 TTTTCAATTTATGTTT-T--CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCA
* * *
95831060 CATGCTGAGGTATTTTCAATTTCTGC
63 CATGCCGAGGTATTTTCAAATTCTGT
* * *
95831086 GTTTCAATTTATGTGTTTCAAAGATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGGTCACA
1 TTTTCAATTTATGT-TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACA
* * * *
95831151 CGCCGAGGTATTTCCAATTTCAGT
65 TGCCGAGGTATTTTCAAATTCTGT
95831175 TTTTCAA
1 TTTTCAA
95831182 AAAAATCAAC
Statistics
Matches: 227, Mismatches: 39, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
87 38 0.17
88 28 0.12
89 60 0.26
90 101 0.44
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (88 bp):
TTTTCAATTTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACAT
GCCGAGGTATTTTCAAATTCTGT
Found at i:95831092 original size:14 final size:14
Alignment explanation
Indices: 95831073--95831106 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
95831063 GCTGAGGTAT
*
95831073 TTTCAATTTCTGCG
1 TTTCAATTTATGCG
*
95831087 TTTCAATTTATGTG
1 TTTCAATTTATGCG
95831101 TTTCAA
1 TTTCAA
95831107 AGATCAACTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.21, C:0.15, G:0.12, T:0.53
Consensus pattern (14 bp):
TTTCAATTTATGCG
Found at i:95833125 original size:23 final size:22
Alignment explanation
Indices: 95833060--95833769 Score: 148
Period size: 24 Copynumber: 31.0 Consensus size: 22
95833050 TATAAATGGT
95833060 TATTTTTAATATATGTATATTGTATA
1 TATTTTTAATATA--T-TA-TGTATA
* *
95833086 TGCTTTTCATATATATTATGTA-A
1 T-ATTTTTA-ATATATTATGTATA
95833109 GTATTTTTAATACTATTAAT-TATA
1 -TATTTTTAATA-TATT-ATGTATA
95833133 TATTTTTATATATATTATGTATA
1 TATTTTTA-ATATATTATGTATA
*
95833156 TATTTTTAAATATCCTCCTAT-TCATA
1 TATTTTT-AATAT-AT--TATGT-ATA
*
95833182 TATTTTT-ATGTTATCTCATGTATA
1 TATTTTTAAT-ATAT-T-ATGTATA
*
95833206 TATATTGTAATATCATTA-GTTATA
1 TAT-TTTTAATAT-ATTATG-TATA
95833230 TATTTTT-ATACTATTTCATGTATA
1 TATTTTTAATA-TA-TT-ATGTATA
*
95833254 TATTTTTATATTATCCTTAT-TAT-
1 TATTTTTA-A-TAT-ATTATGTATA
*
95833277 TATTATT-A-ATATTA-GTATA
1 TATTTTTAATATATTATGTATA
* *
95833296 T-GTTTTATTATA-TATGTATA
1 TATTTTTAATATATTATGTATA
* *
95833316 TATCTTTAATATACATATAGGTATA
1 TATTTTTAATAT--AT-TATGTATA
*
95833341 TATTTATGTAATATTATTAATAGGTGT-
1 TATTT-T-TAATA-TATT-AT--GTATA
* * *
95833368 T-TTTTTAACATCATTATTTCTA
1 TATTTTTAATAT-ATTATGTATA
* * *
95833390 -ATATGT-ATATATTATGTAAA
1 TATTTTTAATATATTATGTATA
* * *
95833410 TATTTTAATATTATATTATATATG
1 TATTTT--TAATATATTATGTATA
95833434 TATTTTTATATATATATTACGTGTATA
1 TA-TTTT-TA-ATATATTA--TGTATA
*
95833461 CACTTTTT-A-ATA-T-TGTAT-
1 TA-TTTTTAATATATTATGTATA
* *
95833479 T-TTTAT-ATATATCATGTATA
1 TATTTTTAATATATTATGTATA
*
95833499 TATTTTGAATACTA-TAT-TATA
1 TATTTTTAATA-TATTATGTATA
*
95833520 TTTTTTTACATATTATCTTATGTATA
1 TATTTTTA-ATA-TA--TTATGTATA
* * *
95833546 TATTTTTTATATATGTTATATACA
1 TA-TTTTTA-ATATATTATGTATA
95833570 TAATTTTT--TA-A-TAT-TATA
1 T-ATTTTTAATATATTATGTATA
*
95833588 T-TTTTTTATATTATTATGTATA
1 TATTTTTAATA-TATTATGTATA
*
95833610 TA-TTTTAATATTACTA-GTTATA
1 TATTTTTAATA-TATTATG-TATA
* *
95833632 TTTTTTTATACTATTTTATGTATA
1 TATTTTTA-A-TATATTATGTATA
** *
95833656 TATTTCAAACACTATATAT-TATA
1 TATTTTTAATA-TAT-TATGTATA
* ** *
95833679 TATTTCT-A-ATACCAT-TA-C
1 TATTTTTAATATATTATGTATA
* **
95833697 TATTTATATATATATTATGTACG
1 TATTTTTA-ATATATTATGTATA
* *
95833720 TACTTGTAACATCATTATTATGTATA
1 TA-TTTTTA-AT-A-TATTATGTATA
95833746 TATTTTTAATATATATATGTATA
1 TATTTTTAATATAT-TATGTATA
95833769 T
1 T
95833770 TTATGTAGTA
Statistics
Matches: 507, Mismatches: 85, Indels: 187
0.65 0.11 0.24
Matches are distributed among these distances:
16 10 0.02
17 3 0.01
18 21 0.04
19 22 0.04
20 21 0.04
21 41 0.08
22 52 0.10
23 94 0.19
24 106 0.21
25 49 0.10
26 48 0.09
27 31 0.06
28 9 0.02
ACGTcount: A:0.34, C:0.06, G:0.05, T:0.55
Consensus pattern (22 bp):
TATTTTTAATATATTATGTATA
Found at i:95833162 original size:24 final size:23
Alignment explanation
Indices: 95833018--95833448 Score: 152
Period size: 24 Copynumber: 18.4 Consensus size: 23
95833008 TTTATGTGCA
*
95833018 TATATATATATATGTATATATTTA
1 TATATATAT-TATGTATATATTTT
*
95833042 TATAGTACTATAAATGGT-TAT-TTTT
1 TATA-TA-TAT-TAT-GTATATATTTT
* * *
95833067 AATATATGTATATTGTATATGCTTTT
1 TATATATAT-TA-TGTATAT-ATTTT
*
95833093 CATATATATTATGTA-AGTATTTT
1 TATATATATTATGTATA-TATTTT
95833116 TA-ATACTATTAAT-TATATATTTT
1 TATATA-TATT-ATGTATATATTTT
95833139 TATATATATTATGTATATATTTT
1 TATATATATTATGTATATATTTT
* *
95833162 TAAATATCCTCCTAT-TCATATATTTT
1 TATATAT-AT--TATGT-ATATATTTT
* *
95833188 TATGT-TATCTCATGTATATATATTG
1 TATATATAT-T-ATGTATATAT-TTT
95833213 TA-ATATCATTA-GTTATATATTTT
1 TATATAT-ATTATG-TATATATTTT
95833236 TATACTAT-TTCATGTATATATTTT
1 TATA-TATATT-ATGTATATATTTT
** *
95833260 TATAT-TATCCT-TAT-TATTAT
1 TATATATATTATGTATATATTTT
*
95833280 TAT-TAATATTA-GTATAT-GTTT
1 TATAT-ATATTATGTATATATTTT
95833301 TAT-TATA-TATGTATATATCTTT
1 TATATATATTATGTATATAT-TTT
* * * *
95833323 AATATACATATAGGTATATATTTA
1 TATATATAT-TATGTATATATTTT
* *
95833347 TGTA-ATATTAT-TAATAGGTGTTTT
1 TATATATATTATGT-ATA--TATTTT
* * * * *
95833371 TTTAACATCATTAT-T-TCTA-ATA
1 TAT-ATAT-ATTATGTATATATTTT
* *
95833393 TGTATATATTATGTAAATATTTT
1 TATATATATTATGTATATATTTT
* * *
95833416 AATATTATATTATATATGTATTTT
1 TATA-TATATTATGTATATATTTT
95833440 TATATATAT
1 TATATATAT
95833449 ATTACGTGTA
Statistics
Matches: 307, Mismatches: 52, Indels: 97
0.67 0.11 0.21
Matches are distributed among these distances:
19 3 0.01
20 22 0.07
21 20 0.07
22 23 0.07
23 72 0.23
24 85 0.28
25 35 0.11
26 39 0.13
27 8 0.03
ACGTcount: A:0.34, C:0.05, G:0.06, T:0.55
Consensus pattern (23 bp):
TATATATATTATGTATATATTTT
Found at i:95833414 original size:28 final size:28
Alignment explanation
Indices: 95833382--95833435 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 28
95833372 TTAACATCAT
95833382 TATTTCTAATATGTATA-TAT-TATGTAAA
1 TATTT-TAATAT-TATATTATATATGTAAA
95833410 TATTTTAATATTATATTATATATGTA
1 TATTTTAATATTATATTATATATGTA
95833436 TTTTTATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 4 0.17
27 9 0.38
28 11 0.46
ACGTcount: A:0.39, C:0.02, G:0.06, T:0.54
Consensus pattern (28 bp):
TATTTTAATATTATATTATATATGTAAA
Found at i:95833602 original size:13 final size:15
Alignment explanation
Indices: 95833572--95833601 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
95833562 TATATACATA
95833572 ATTTTTTAATATTAT
1 ATTTTTTAATATTAT
*
95833587 ATTTTTTTATATTAT
1 ATTTTTTAATATTAT
95833602 TATGTATATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
ATTTTTTAATATTAT
Found at i:95833609 original size:22 final size:22
Alignment explanation
Indices: 95833478--95833656 Score: 86
Period size: 22 Copynumber: 8.0 Consensus size: 22
95833468 TAATATTGTA
*
95833478 TTTTTATATATATCATGTATATAT
1 TTTTTATAT-TATTATGTATAT-T
** *
95833502 TTTGAATACTA-TAT-TATATT
1 TTTTTATATTATTATGTATATT
95833522 TTTTTACATATTATCTTATGTATATAT
1 TTTTT--ATATTA--TTATGTATAT-T
* * * *
95833549 TTTTTATATATGTTATATACATAA
1 TTTTTATAT-TATTATGTATAT-T
95833573 TTTTT-TA--A-TAT-TATATT
1 TTTTTATATTATTATGTATATT
*
95833590 TTTTTATATTATTATGTATATA
1 TTTTTATATTATTATGTATATT
* *
95833612 TTTTAATATTACTA-GTTATATT
1 TTTTTATATTATTATG-TATATT
*
95833634 TTTTTATACTATTTTATGTATAT
1 TTTTTATA-T-TATTATGTATAT
95833657 ATTTCAAACA
Statistics
Matches: 117, Mismatches: 21, Indels: 34
0.68 0.12 0.20
Matches are distributed among these distances:
17 5 0.04
18 6 0.05
19 3 0.03
20 5 0.04
21 9 0.08
22 36 0.31
23 5 0.04
24 28 0.24
25 8 0.07
26 6 0.05
27 6 0.05
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.60
Consensus pattern (22 bp):
TTTTTATATTATTATGTATATT
Found at i:95833840 original size:20 final size:21
Alignment explanation
Indices: 95833815--95833858 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 21
95833805 TTATTTCTAA
95833815 TATGTATATA-TCTT-TAATAC
1 TATGTATATACT-TTGTAATAC
95833835 TATGTATATACTTTGTAATAC
1 TATGTATATACTTTGTAATAC
95833856 TAT
1 TAT
95833859 TATTATGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.34, C:0.09, G:0.07, T:0.50
Consensus pattern (21 bp):
TATGTATATACTTTGTAATAC
Found at i:95834931 original size:18 final size:17
Alignment explanation
Indices: 95834904--95834939 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
95834894 CCCTCCCCTC
95834904 TCCCCTCTCTCCTTTCT
1 TCCCCTCTCTCCTTTCT
*
95834921 TCCCTCTCTCTCTTTTCT
1 TCCC-CTCTCTCCTTTCT
95834939 T
1 T
95834940 TTTTTTTCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (17 bp):
TCCCCTCTCTCCTTTCT
Found at i:95835418 original size:3 final size:3
Alignment explanation
Indices: 95835410--95835441 Score: 55
Period size: 3 Copynumber: 10.3 Consensus size: 3
95835400 TGTATTTCCA
95835410 TAT TAT TAT TAT TAT TAT TAT TAT ATAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT T
95835442 GTATATTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:95841435 original size:17 final size:21
Alignment explanation
Indices: 95841393--95841435 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
95841383 GATTGGAAAA
95841393 TGAAATATACTTGTTTTGGCT
1 TGAAATATACTTGTTTTGGCT
95841414 TGAAATA-A-TTG-TTTGG-T
1 TGAAATATACTTGTTTTGGCT
95841431 TGAAA
1 TGAAA
95841436 ATTTTTAGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 6 0.27
18 5 0.23
19 3 0.14
20 1 0.05
21 7 0.32
ACGTcount: A:0.30, C:0.05, G:0.21, T:0.44
Consensus pattern (21 bp):
TGAAATATACTTGTTTTGGCT
Found at i:95841437 original size:18 final size:20
Alignment explanation
Indices: 95841393--95841437 Score: 51
Period size: 18 Copynumber: 2.4 Consensus size: 20
95841383 GATTGGAAAA
*
95841393 TGAAATATACTTGTTTTGGCT
1 TGAAA-ATAATTGTTTTGGCT
95841414 TG-AAATAATTG-TTTGG-T
1 TGAAAATAATTGTTTTGGCT
95841431 TGAAAAT
1 TGAAAAT
95841438 TTTTAGGTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
17 3 0.14
18 9 0.41
19 6 0.27
20 2 0.09
21 2 0.09
ACGTcount: A:0.31, C:0.04, G:0.20, T:0.44
Consensus pattern (20 bp):
TGAAAATAATTGTTTTGGCT
Found at i:95841694 original size:20 final size:20
Alignment explanation
Indices: 95841668--95841717 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
95841658 CACGGCTGCA
*
95841668 GCACACGGGCATGTTCC-AG
1 GCACACGGGCATGTCCCAAG
95841687 GCCACACGGGCATGTCCCAAG
1 G-CACACGGGCATGTCCCAAG
95841708 GCACACGGGC
1 GCACACGGGC
95841718 GTGTGCCCCT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 1 0.04
20 24 0.86
21 3 0.11
ACGTcount: A:0.22, C:0.36, G:0.32, T:0.10
Consensus pattern (20 bp):
GCACACGGGCATGTCCCAAG
Found at i:95842621 original size:18 final size:18
Alignment explanation
Indices: 95842571--95842621 Score: 93
Period size: 18 Copynumber: 2.8 Consensus size: 18
95842561 ACAGCTTGTA
95842571 TGCATGCTGCAGCAATTG
1 TGCATGCTGCAGCAATTG
95842589 TGCATGCTGCAGCAATTG
1 TGCATGCTGCAGCAATTG
*
95842607 TGCATGTTGCAGCAA
1 TGCATGCTGCAGCAA
95842622 CATATTTTCT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (18 bp):
TGCATGCTGCAGCAATTG
Found at i:95844475 original size:14 final size:14
Alignment explanation
Indices: 95844456--95844484 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
95844446 CTACAAAAAG
95844456 AAAAAAAAAGGCAA
1 AAAAAAAAAGGCAA
95844470 AAAAAAAAAGGCAA
1 AAAAAAAAAGGCAA
95844484 A
1 A
95844485 CAAACATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.79, C:0.07, G:0.14, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAGGCAA
Found at i:95850331 original size:130 final size:129
Alignment explanation
Indices: 95850164--95850403 Score: 363
Period size: 130 Copynumber: 1.9 Consensus size: 129
95850154 ATAAGGGACA
* * **
95850164 ATTTGCATATGATTGGAAAGTTTCAAAGTTGGATGAAATTTTATGACTCGGTTTGTATGTTTGTT
1 ATTTGAATATGATTGAAAAGTTTCAAAGTTGGATGAAATTTTATGACTCGGTTTGTATGGGT-TT
* * * * *
95850229 TATGTTTAAGTCCGGTAATGCCTCGAGCCCTGTCCCGGCGTCGGAGGTGTTACATTTAGTGGTAT
65 TACGCTTAAGTCCGGTAATGCCTCGAACCCTGTCCCAGCATCGGAGGTGTTACATTTAGTGGTAT
* *
95850294 ATTTGAATGTGATTGAAAAGTTTCAAAGTTGGATGAAATTTTATGGCTCGGTTTGTATGGGTTTT
1 ATTTGAATATGATTGAAAAGTTTCAAAGTTGGATGAAATTTTATGACTCGGTTTGTATGGGTTTT
*
95850359 ACGCTTAAGTTCGGTAATGCCTCGAACCCTGTCCCAGCATCGGAG
66 ACGCTTAAGTCCGGTAATGCCTCGAACCCTGTCCCAGCATCGGAG
95850404 ACGAGTAAGG
Statistics
Matches: 98, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
129 42 0.43
130 56 0.57
ACGTcount: A:0.23, C:0.15, G:0.26, T:0.37
Consensus pattern (129 bp):
ATTTGAATATGATTGAAAAGTTTCAAAGTTGGATGAAATTTTATGACTCGGTTTGTATGGGTTTT
ACGCTTAAGTCCGGTAATGCCTCGAACCCTGTCCCAGCATCGGAGGTGTTACATTTAGTGGTAT
Found at i:95856281 original size:13 final size:14
Alignment explanation
Indices: 95856260--95856292 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
95856250 TTTATTAATG
95856260 AAATATATTAAA-AT
1 AAAT-TATTAAATAT
95856274 AAATTATTAAATAT
1 AAATTATTAAATAT
95856288 AAATT
1 AAATT
95856293 TATATTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
AAATTATTAAATAT
Found at i:95857422 original size:22 final size:21
Alignment explanation
Indices: 95857392--95857435 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
95857382 ATTGTATGAT
95857392 TTATGAAT-GCATGATAATTGTA
1 TTATGAATGGCATGA-AA-TGTA
*
95857414 TTATTAATGGCATGAAATGTA
1 TTATGAATGGCATGAAATGTA
95857435 T
1 T
95857436 CTTTGATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 5 0.25
22 9 0.45
23 6 0.30
ACGTcount: A:0.36, C:0.05, G:0.18, T:0.41
Consensus pattern (21 bp):
TTATGAATGGCATGAAATGTA
Found at i:95861225 original size:30 final size:29
Alignment explanation
Indices: 95861184--95861247 Score: 101
Period size: 30 Copynumber: 2.2 Consensus size: 29
95861174 ATGAATCGGA
*
95861184 AGCTTTAGCACTAAGTGTGCGATTTAAACT
1 AGCTTTAGCACTAAGTGTGCAATTT-AACT
*
95861214 AGCTTTGGCACTAAGTGTGCAATTTAACT
1 AGCTTTAGCACTAAGTGTGCAATTTAACT
95861243 AGCTT
1 AGCTT
95861248 CGGCTACTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 9 0.28
30 23 0.72
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.34
Consensus pattern (29 bp):
AGCTTTAGCACTAAGTGTGCAATTTAACT
Found at i:95870263 original size:136 final size:136
Alignment explanation
Indices: 95870019--95870290 Score: 456
Period size: 136 Copynumber: 2.0 Consensus size: 136
95870009 TCTTTTCAAG
* *
95870019 CTTGAAAGTAAGTCAATCTTAGCCCTATTTTTAATGTTCTTTATGTTTTTGAGATCTTTGAAGCA
1 CTTGAAAGTAAGTCAATCCTAGCCCCATTTTTAATGTTCTTTATGTTTTTGAGATCTTTGAAGCA
*
95870084 TGATCTAACTATTTATACCATTATTTTGAGCTAGGGTTCATGTTCAAAA-ACTTACCCATATGTG
66 TGATCTAACTATTTATACCATTATTTTGAGCTAGGGTTCATGTT-AAAATACTTAACCATATGTG
95870148 ACATGCA
130 ACATGCA
* *
95870155 CTTGAAAGTAAGTTAATCCTAGCCCCGTTTTTAATGTTCTTTATGTTTTTGAGATCTTTGAAGCA
1 CTTGAAAGTAAGTCAATCCTAGCCCCATTTTTAATGTTCTTTATGTTTTTGAGATCTTTGAAGCA
* * *
95870220 TGATCTAGCTATTTATACCATTATTTTGAGCTAGGGTTCATGTTAAAATACTTAACCGTGTGTGA
66 TGATCTAACTATTTATACCATTATTTTGAGCTAGGGTTCATGTTAAAATACTTAACCATATGTGA
95870285 CATGCA
131 CATGCA
95870291 AGTATTTTGG
Statistics
Matches: 127, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
135 4 0.03
136 123 0.97
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.40
Consensus pattern (136 bp):
CTTGAAAGTAAGTCAATCCTAGCCCCATTTTTAATGTTCTTTATGTTTTTGAGATCTTTGAAGCA
TGATCTAACTATTTATACCATTATTTTGAGCTAGGGTTCATGTTAAAATACTTAACCATATGTGA
CATGCA
Found at i:95876915 original size:15 final size:15
Alignment explanation
Indices: 95876895--95876925 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
95876885 AACGGGACAG
95876895 AAAAAGAAAGGAGAA
1 AAAAAGAAAGGAGAA
*
95876910 AAAAAGAGAGGAGAA
1 AAAAAGAAAGGAGAA
95876925 A
1 A
95876926 TTAAGGTTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (15 bp):
AAAAAGAAAGGAGAA
Found at i:95879479 original size:106 final size:106
Alignment explanation
Indices: 95879294--95879531 Score: 343
Period size: 106 Copynumber: 2.3 Consensus size: 106
95879284 ACGGACAGTG
* * **
95879294 ACACAGGCGTGTGTCTCAGCCGTGTGTGACACAAGGTCATGTTGCACTACCATGTGTCCCCTGGG
1 ACACAGGCGTGTGTCTCAGCCGTGTGCGACACAAGGTCATATTGCAAGACCATGTGTCCCCTGGG
*
95879359 GTACCCTACGATTTTAAGTCAGCCTTGAACACGGCCAAGGC
66 GTACCCTACGATTTTAAATCAGCCTTGAACACGGCCAAGGC
* * ** * *
95879400 ACACAGGCGTGTGTCTCAGCTGTGTGCGATACATTGTCATATTGCAAGGCCGTGTGTCCCCTGGG
1 ACACAGGCGTGTGTCTCAGCCGTGTGCGACACAAGGTCATATTGCAAGACCATGTGTCCCCTGGG
* *
95879465 GTACCCTACGATTTTAAATCAGTCTTGAACACGGCTAAGGC
66 GTACCCTACGATTTTAAATCAGCCTTGAACACGGCCAAGGC
*
95879506 ACACAGGCGTGTGGCT-AGCCGTGTGC
1 ACACAGGCGTGTGTCTCAGCCGTGTGC
95879532 CCCAAGTCAG
Statistics
Matches: 117, Mismatches: 15, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
105 9 0.08
106 108 0.92
ACGTcount: A:0.21, C:0.26, G:0.28, T:0.25
Consensus pattern (106 bp):
ACACAGGCGTGTGTCTCAGCCGTGTGCGACACAAGGTCATATTGCAAGACCATGTGTCCCCTGGG
GTACCCTACGATTTTAAATCAGCCTTGAACACGGCCAAGGC
Found at i:95885934 original size:44 final size:44
Alignment explanation
Indices: 95885836--95885965 Score: 117
Period size: 44 Copynumber: 3.0 Consensus size: 44
95885826 ACATAGGATC
* * * * * *
95885836 CGATATGTG-TTTTCGTGTAAGACCATGCCTGGGACATTAGCAT
1 CGATATATGATTTACGTGTAAGACCCTGTCTGGGACAGTGGCAT
95885879 CGACT-TATGATTTACGTGTAAGACCCTGTCTGGGACAGTGGCAT
1 CGA-TATATGATTTACGTGTAAGACCCTGTCTGGGACAGTGGCAT
* * *
95885923 CGATATTTGA-TTACATGTAATACCAC-GTCTGGGAC-GCTGGCAT
1 CGATATATGATTTACGTGTAAGACC-CTGTCTGGGACAG-TGGCAT
95885966 TGTACGAGCT
Statistics
Matches: 73, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
42 1 0.01
43 34 0.47
44 38 0.52
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.31
Consensus pattern (44 bp):
CGATATATGATTTACGTGTAAGACCCTGTCTGGGACAGTGGCAT
Found at i:95887103 original size:55 final size:55
Alignment explanation
Indices: 95886987--95887106 Score: 136
Period size: 55 Copynumber: 2.2 Consensus size: 55
95886977 CCCTACGATT
*
95886987 TTAAGTCAGCCTTGAACACGGCCAAGGCACACGGGCATGTGGCTAGCCGTGTGAC
1 TTAAGTCAGTCTTGAACACGGCCAAGGCACACGGGCATGTGGCTAGCCGTGTGAC
** * * * * *
95887042 CCAAGTCAGTTTTGACCACGGCCAAGGCACATGGGCATGTCTTG-TGGCCGTGTGA-
1 TTAAGTCAGTCTTGAACACGGCCAAGGCACACGGGCATG--TGGCTAGCCGTGTGAC
95887097 TTAAGTCAGT
1 TTAAGTCAGT
95887107 ATGTATGCCC
Statistics
Matches: 53, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
55 41 0.77
56 10 0.19
57 2 0.04
ACGTcount: A:0.23, C:0.25, G:0.30, T:0.23
Consensus pattern (55 bp):
TTAAGTCAGTCTTGAACACGGCCAAGGCACACGGGCATGTGGCTAGCCGTGTGAC
Found at i:95887874 original size:16 final size:17
Alignment explanation
Indices: 95887842--95887874 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
95887832 TGGATTTATA
95887842 TGAAATAGTGAATATTG
1 TGAAATAGTGAATATTG
*
95887859 TGAAAT-GTGGATATTG
1 TGAAATAGTGAATATTG
95887875 AATATTGATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.36, C:0.00, G:0.27, T:0.36
Consensus pattern (17 bp):
TGAAATAGTGAATATTG
Found at i:95893572 original size:39 final size:39
Alignment explanation
Indices: 95893529--95893614 Score: 136
Period size: 39 Copynumber: 2.2 Consensus size: 39
95893519 TTTAGTAATT
* * *
95893529 TTAGTTTGTGTCTTTAATTATGTCATAGTTTGAACATCA
1 TTAGTATGAGTCTTTAATTATGTCATAGTATGAACATCA
95893568 TTAGTATGAGTCTTTAATTATGTCATAGTATGAACATCA
1 TTAGTATGAGTCTTTAATTATGTCATAGTATGAACATCA
*
95893607 TTAATATG
1 TTAGTATG
95893615 TGTTTTGCAT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.30, C:0.09, G:0.15, T:0.45
Consensus pattern (39 bp):
TTAGTATGAGTCTTTAATTATGTCATAGTATGAACATCA
Found at i:95893927 original size:24 final size:24
Alignment explanation
Indices: 95893897--95893945 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
95893887 GTATGAGTGT
95893897 TTATAGTGTGATGATTCTTATGAG
1 TTATAGTGTGATGATTCTTATGAG
*
95893921 TTATAGTGTGCTGATTCTTATGAG
1 TTATAGTGTGATGATTCTTATGAG
95893945 T
1 T
95893946 GTCTTTAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.22, C:0.06, G:0.24, T:0.47
Consensus pattern (24 bp):
TTATAGTGTGATGATTCTTATGAG
Found at i:95903079 original size:45 final size:45
Alignment explanation
Indices: 95903020--95903112 Score: 186
Period size: 45 Copynumber: 2.1 Consensus size: 45
95903010 GTACTTTCCT
95903020 TTTATTATAGCGAAATCTTCTTTTGCTAGCGATTTTTTATCTTTC
1 TTTATTATAGCGAAATCTTCTTTTGCTAGCGATTTTTTATCTTTC
95903065 TTTATTATAGCGAAATCTTCTTTTGCTAGCGATTTTTTATCTTTC
1 TTTATTATAGCGAAATCTTCTTTTGCTAGCGATTTTTTATCTTTC
95903110 TTT
1 TTT
95903113 TTAAGAATTT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.19, C:0.15, G:0.11, T:0.55
Consensus pattern (45 bp):
TTTATTATAGCGAAATCTTCTTTTGCTAGCGATTTTTTATCTTTC
Found at i:95904282 original size:24 final size:24
Alignment explanation
Indices: 95904237--95904283 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
95904227 ACTGAACTAA
* *
95904237 TTTTTTATTAAAATTTTCATATAT
1 TTTTTTATTAAAATATTAATATAT
95904261 TTTTATTATTAAAA-ATTAATATA
1 TTTT-TTATTAAAATATTAATATA
95904284 ATTGACTGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (24 bp):
TTTTTTATTAAAATATTAATATAT
Found at i:95907744 original size:21 final size:21
Alignment explanation
Indices: 95907718--95907781 Score: 56
Period size: 27 Copynumber: 2.8 Consensus size: 21
95907708 ATTTATGTAT
95907718 ATAAAATAAAAATTAAGAGCA
1 ATAAAATAAAAATTAAGAGCA
95907739 ATAAAATTATAATTAAAATTAAGAGCA
1 AT-AAA--AT-A--AAAATTAAGAGCA
* *
95907766 ATAAAATTATAATTAA
1 ATAAAATAAAAATTAA
95907782 TCATAAATAT
Statistics
Matches: 35, Mismatches: 2, Indels: 12
0.71 0.04 0.24
Matches are distributed among these distances:
21 9 0.26
22 3 0.09
24 4 0.11
25 1 0.03
26 3 0.09
27 15 0.43
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.28
Consensus pattern (21 bp):
ATAAAATAAAAATTAAGAGCA
Found at i:95907746 original size:15 final size:15
Alignment explanation
Indices: 95907726--95907774 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 15
95907716 ATATAAAATA
95907726 AAAATTAAGAGCAAT
1 AAAATTAAGAGCAAT
* *
95907741 AAAATT-ATA--ATT
1 AAAATTAAGAGCAAT
95907753 AAAATTAAGAGCAAT
1 AAAATTAAGAGCAAT
95907768 AAAATTA
1 AAAATTA
95907775 TAATTAATCA
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
12 8 0.30
13 2 0.07
14 2 0.07
15 15 0.56
ACGTcount: A:0.61, C:0.04, G:0.08, T:0.27
Consensus pattern (15 bp):
AAAATTAAGAGCAAT
Found at i:95907757 original size:27 final size:27
Alignment explanation
Indices: 95907726--95907781 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
95907716 ATATAAAATA
95907726 AAAATTAAGAGCAATAAAATTATAATT
1 AAAATTAAGAGCAATAAAATTATAATT
95907753 AAAATTAAGAGCAATAAAATTATAATT
1 AAAATTAAGAGCAATAAAATTATAATT
95907780 AA
1 AA
95907782 TCATAAATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.61, C:0.04, G:0.07, T:0.29
Consensus pattern (27 bp):
AAAATTAAGAGCAATAAAATTATAATT
Found at i:95914377 original size:29 final size:29
Alignment explanation
Indices: 95914321--95914378 Score: 73
Period size: 31 Copynumber: 2.0 Consensus size: 29
95914311 AGTTATACAA
95914321 TAAATTTTTATAAATAAAAAATACATAAAC
1 TAAATTTTTATAAATAAAAAATA-ATAAAC
**
95914351 TAAATTTTATATTTATAAAAAAT-ATAAA
1 TAAATTTT-TATAAATAAAAAATAATAAA
95914379 AAATTATGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 5 0.20
30 8 0.32
31 12 0.48
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (29 bp):
TAAATTTTTATAAATAAAAAATAATAAAC
Found at i:95915625 original size:29 final size:29
Alignment explanation
Indices: 95915532--95915625 Score: 77
Period size: 29 Copynumber: 3.2 Consensus size: 29
95915522 TAACACAGTG
*
95915532 TCAGTA-CAATCTGGGCCAAAGCCCT-AT
1 TCAGTAGCAATCTGGGCCTAAGCCCTAAT
* *
95915559 TCAGTAAAGTACAGTCTGGGCCTTAGCCCTTAA-
1 TCAGT--AG--CAATCTGGGCCTAAGCCC-TAAT
* *
95915592 ACAGTAGCAATATGGGCCTAAGCCCTAAT
1 TCAGTAGCAATCTGGGCCTAAGCCCTAAT
95915621 TCAGT
1 TCAGT
95915626 CTCGACATAT
Statistics
Matches: 51, Mismatches: 8, Indels: 14
0.70 0.11 0.19
Matches are distributed among these distances:
27 5 0.10
28 3 0.06
29 20 0.39
31 2 0.04
32 15 0.29
33 5 0.10
34 1 0.02
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (29 bp):
TCAGTAGCAATCTGGGCCTAAGCCCTAAT
Found at i:95915754 original size:42 final size:42
Alignment explanation
Indices: 95915707--95915798 Score: 166
Period size: 42 Copynumber: 2.2 Consensus size: 42
95915697 TGGCCCTTAG
95915707 GCCCATTTCAATATCACATGTAATGTCAATGAAGGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAAGGTATGCAA
*
95915749 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAAGGTATGCAA
*
95915791 ACCCATTT
1 GCCCATTT
95915799 GGGGAGACTA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGTCAATGAAGGTATGCAA
Found at i:95915973 original size:25 final size:25
Alignment explanation
Indices: 95915945--95916014 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
95915935 CTCTTTTAAT
95915945 AACTGGGGCAAAGCCC-TTTCTGATA
1 AACTGGGGCAAAGCCCTTTTC-GATA
* * *
95915970 AACTGAGGCAAAACCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
95915995 AACTGGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
95916015 AGCACTTCCT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
25 35 0.90
26 4 0.10
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.24
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:95916777 original size:27 final size:26
Alignment explanation
Indices: 95916747--95916813 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 26
95916737 GGGCATATTC
95916747 GTCATTTTACCATACAAGGG-TATTACG
1 GTCATTTTACC-TACAAGGGCT-TTACG
* *
95916774 GTCACTTTACGCTACAGGGGCTTTACG
1 GTCATTTTAC-CTACAAGGGCTTTACG
*
95916801 GTCTTTTTACCTA
1 GTCATTTTACCTA
95916814 TTAGGGGTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
26 3 0.09
27 29 0.85
28 2 0.06
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.36
Consensus pattern (26 bp):
GTCATTTTACCTACAAGGGCTTTACG
Found at i:95916895 original size:27 final size:27
Alignment explanation
Indices: 95916843--95917069 Score: 147
Period size: 27 Copynumber: 8.4 Consensus size: 27
95916833 TTCATCCTAC
* * * *
95916843 AAGGGTGTTTTGATAAATCTACAAACT
1 AAGGGTATTTCGATAATTTTACAAACT
* ** *
95916870 AAGGGTATTTCAATAATTTTGTAAACC
1 AAGGGTATTTCGATAATTTTACAAACT
** * * **
95916897 AATAGTATTTCTATAACTTTTAGAAGGT
1 AAGGGTATTTCGATAA-TTTTACAAACT
* * **
95916925 CAATGGTATTTCTATAATTTTGTAAA-T
1 -AAGGGTATTTCGATAATTTTACAAACT
* * * *
95916952 CAGGGGTATTTTGGTAATTTTACAAATT
1 -AAGGGTATTTCGATAATTTTACAAACT
*
95916980 AAGGGTATTTC-AGTAATTTCACAAACT
1 AAGGGTATTTCGA-TAATTTTACAAACT
95917007 -AGTGGTATTTCGATAATTTTACAAACT
1 AAG-GGTATTTCGATAATTTTACAAACT
* *
95917034 -AGGGTATTTTGGTAATTTTACAAACT
1 AAGGGTATTTCGATAATTTTACAAACT
*
95917060 AGGGGTATTT
1 AAGGGTATTT
95917070 TGGTAATTCT
Statistics
Matches: 157, Mismatches: 36, Indels: 14
0.76 0.17 0.07
Matches are distributed among these distances:
26 24 0.15
27 104 0.66
28 14 0.09
29 15 0.10
ACGTcount: A:0.33, C:0.09, G:0.17, T:0.40
Consensus pattern (27 bp):
AAGGGTATTTCGATAATTTTACAAACT
Found at i:95917057 original size:53 final size:54
Alignment explanation
Indices: 95916953--95917110 Score: 176
Period size: 54 Copynumber: 2.9 Consensus size: 54
95916943 TTTGTAAATC
* * *
95916953 AGGGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCAGTAATTTCACAAACT
1 AGGGGTATTTCGATAATTTTACAAACTAAGGGTATTTCAGTAATTTCACAAACT
* ** *
95917007 AGTGGTATTTCGATAATTTTACAAACT-AGGGTATTTTGGTAATTTTACAAACT
1 AGGGGTATTTCGATAATTTTACAAACTAAGGGTATTTCAGTAATTTCACAAACT
* * * ** *
95917060 AGGGGTATTTTGGTAATTCTATCCTAC-AGGGGTATTTCAGTAATTTCACAA
1 AGGGGTATTTCGATAATTTTA-CAAACTAAGGGTATTTCAGTAATTTCACAA
95917111 TCGAGGGTAA
Statistics
Matches: 85, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
53 40 0.47
54 45 0.53
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.39
Consensus pattern (54 bp):
AGGGGTATTTCGATAATTTTACAAACTAAGGGTATTTCAGTAATTTCACAAACT
Found at i:95917073 original size:27 final size:27
Alignment explanation
Indices: 95916953--95917077 Score: 171
Period size: 27 Copynumber: 4.7 Consensus size: 27
95916943 TTTGTAAATC
*
95916953 AGGGGTATTTTGGTAATTTTACAAATT
1 AGGGGTATTTTGGTAATTTTACAAACT
* ** *
95916980 AAGGGTATTTCAGTAATTTCACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACT
* * *
95917007 AGTGGTATTTCGATAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACT
95917034 A-GGGTATTTTGGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACT
95917060 AGGGGTATTTTGGTAATT
1 AGGGGTATTTTGGTAATT
95917078 CTATCCTACA
Statistics
Matches: 84, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
26 23 0.27
27 61 0.73
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (27 bp):
AGGGGTATTTTGGTAATTTTACAAACT
Found at i:95917104 original size:80 final size:80
Alignment explanation
Indices: 95916955--95917119 Score: 192
Period size: 80 Copynumber: 2.1 Consensus size: 80
95916945 TGTAAATCAG
* *
95916955 GGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCAGTAATTTCACAAACTAGTGGTATTTCGA
1 GGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCAGTAATTTCACAAACTAGGGGTATTTCGA
* *
95917020 TAATTTTACAAACTA
66 TAATTTCACAAACGA
* ** **
95917035 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAA-TTCTATCCTAC-AGGGGTATTTC
1 GGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCAGTAATTTC-A-CAAACTAGGGGTATTTC
*
95917098 -AGTAATTTCACAATCGA
64 GA-TAATTTCACAAACGA
95917115 GGGTA
1 GGGTA
95917120 AAACGGTAAT
Statistics
Matches: 72, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
79 4 0.06
80 65 0.90
81 3 0.04
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (80 bp):
GGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCAGTAATTTCACAAACTAGGGGTATTTCGA
TAATTTCACAAACGA
Found at i:95917117 original size:27 final size:27
Alignment explanation
Indices: 95916953--95917110 Score: 135
Period size: 27 Copynumber: 5.9 Consensus size: 27
95916943 TTTGTAAATC
** * *
95916953 AGGGGTATTTTGGTAATTTTACAAATT
1 AGGGGTATTTCAGTAATTTCACAAACT
*
95916980 AAGGGTATTTCAGTAATTTCACAAACT
1 AGGGGTATTTCAGTAATTTCACAAACT
* *
95917007 AGTGGTATTTC-GATAATTTTACAAACT
1 AGGGGTATTTCAG-TAATTTCACAAACT
** *
95917034 A-GGGTATTTTGGTAATTTTACAAACT
1 AGGGGTATTTCAGTAATTTCACAAACT
** **
95917060 AGGGGTATTTTGGTAA-TTCTATCCTAC-
1 AGGGGTATTTCAGTAATTTC-A-CAAACT
95917087 AGGGGTATTTCAGTAATTTCACAA
1 AGGGGTATTTCAGTAATTTCACAA
95917111 TCGAGGGTAA
Statistics
Matches: 108, Mismatches: 17, Indels: 13
0.78 0.12 0.09
Matches are distributed among these distances:
26 26 0.24
27 76 0.70
28 6 0.06
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.39
Consensus pattern (27 bp):
AGGGGTATTTCAGTAATTTCACAAACT
Found at i:95917119 original size:53 final size:52
Alignment explanation
Indices: 95916955--95917119 Score: 152
Period size: 53 Copynumber: 3.1 Consensus size: 52
95916945 TGTAAATCAG
* * * *
95916955 GGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCAGTAATTTCACAAACTA
1 GGGTATTTCGATAATTCTACAAACT-AGGGTATTTCAGTAATTTCACAAACTA
* ** *
95917008 GTGGTATTTCGATAATTTTACAAACTAGGGTATTTTGGTAATTTTACAAACTA
1 G-GGTATTTCGATAATTCTACAAACTAGGGTATTTCAGTAATTTCACAAACTA
* * ** * *
95917061 GGGGTATTTTGGTAATTCTATCCTAC-AGGGGTATTTCAGTAATTTCACAATCGA
1 -GGGTATTTCGATAATTCTA-CAAACTA-GGGTATTTCAGTAATTTCACAAACTA
95917115 GGGTA
1 GGGTA
95917120 AAACGGTAAT
Statistics
Matches: 92, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
53 46 0.50
54 46 0.50
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (52 bp):
GGGTATTTCGATAATTCTACAAACTAGGGTATTTCAGTAATTTCACAAACTA
Found at i:95917143 original size:27 final size:26
Alignment explanation
Indices: 95917113--95917258 Score: 166
Period size: 27 Copynumber: 5.4 Consensus size: 26
95917103 TTTCACAATC
95917113 GAGGGTAAAACGGTAATTTTGTAAACT
1 GAGGGTAAAACGGTAATTTTGTAAA-T
*
95917140 GAGGGTAAAATGGTAATTTTGTAAATT
1 GAGGGTAAAACGGTAATTTTGTAAA-T
* * *
95917167 GAGGGTAAAACAGTAAATCTGTAAATT
1 GAGGGTAAAACGGTAATTTTGTAAA-T
* * *
95917194 GAGGGTAAAATGGTAATTCTATAAAT
1 GAGGGTAAAACGGTAATTTTGTAAAT
*
95917220 CGAGGGTAAAACGTTAATTTTGTAAAT
1 -GAGGGTAAAACGGTAATTTTGTAAAT
95917247 CGAGGGTGAAAA
1 -GAGGGT-AAAA
95917259 TCGAGGGTGA
Statistics
Matches: 103, Mismatches: 14, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
26 1 0.01
27 98 0.95
28 4 0.04
ACGTcount: A:0.40, C:0.05, G:0.25, T:0.29
Consensus pattern (26 bp):
GAGGGTAAAACGGTAATTTTGTAAAT
Found at i:95917173 original size:107 final size:106
Alignment explanation
Indices: 95916939--95917165 Score: 242
Period size: 107 Copynumber: 2.1 Consensus size: 106
95916929 GGTATTTCTA
* *
95916939 TAATTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCAGTAATTTCACAA
1 TAATTTTGTAAAT-AGGGGTATTTTGGTAATTCTACAAATCAAGGGTATTTCAGTAATTTCACAA
* *** ***
95917004 ACTAGTGGTATTTCGATAATTTTACAAACTAGGGTATTTTGG
65 ACGAGTGGTAAAACGATAATTTTACAAACTAGGGTAAAATGG
** ** *
95917046 TAATTTTACAAACTAGGGGTATTTTGGTAATTCTATCCTA-CAGGGGTATTTCAGTAATTTCACA
1 TAATTTTGTAAA-TAGGGGTATTTTGGTAATTCTA-CAAATCAAGGGTATTTCAGTAATTTCACA
* * **
95917110 ATCGAG-GGTAAAACGGTAATTTTGTAAACTGAGGGTAAAATGG
64 AACGAGTGGTAAAACGATAATTTTACAAACT-AGGGTAAAATGG
95917153 TAATTTTGTAAAT
1 TAATTTTGTAAAT
95917166 TGAGGGTAAA
Statistics
Matches: 97, Mismatches: 20, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
106 19 0.20
107 75 0.77
108 3 0.03
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.38
Consensus pattern (106 bp):
TAATTTTGTAAATAGGGGTATTTTGGTAATTCTACAAATCAAGGGTATTTCAGTAATTTCACAAA
CGAGTGGTAAAACGATAATTTTACAAACTAGGGTAAAATGG
Found at i:95917244 original size:54 final size:53
Alignment explanation
Indices: 95917109--95917259 Score: 203
Period size: 54 Copynumber: 2.8 Consensus size: 53
95917099 GTAATTTCAC
* * *
95917109 AATCGAGGGTAAAACGGTAATTTTGTAAACTGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAAC-GTAATTTTGTAAATTGAGGGTAAAATGGTAATTCTATA
* * *
95917163 AATTGAGGGTAAAACAGTAAATCTGTAAATTGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAAC-GTAATTTTGTAAATTGAGGGTAAAATGGTAATTCTATA
*
95917217 AATCGAGGGTAAAACGTTAATTTTGTAAATCGAGGGTGAAAAT
1 AATCGAGGGTAAAACG-TAATTTTGTAAATTGAGGGT-AAAAT
95917260 CGAGGGTGAA
Statistics
Matches: 84, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
53 1 0.01
54 78 0.93
55 5 0.06
ACGTcount: A:0.40, C:0.06, G:0.25, T:0.30
Consensus pattern (53 bp):
AATCGAGGGTAAAACGTAATTTTGTAAATTGAGGGTAAAATGGTAATTCTATA
Found at i:95917260 original size:40 final size:39
Alignment explanation
Indices: 95917216--95917298 Score: 112
Period size: 40 Copynumber: 2.1 Consensus size: 39
95917206 GTAATTCTAT
* * *
95917216 AAATCGAGGGTAAAACGTTAATTTTGTAAATCGAGGGTGA
1 AAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGT-A
* *
95917256 AAATCGAGGGTGAAACGGTAATTCTATAGATCGAGGGTA
1 AAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTA
95917295 AAAT
1 AAAT
95917299 GGTAATTTTA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
39 5 0.13
40 33 0.87
ACGTcount: A:0.39, C:0.08, G:0.28, T:0.25
Consensus pattern (39 bp):
AAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTA
Found at i:95917261 original size:13 final size:13
Alignment explanation
Indices: 95917243--95917270 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
95917233 TTAATTTTGT
95917243 AAATCGAGGGTGA
1 AAATCGAGGGTGA
95917256 AAATCGAGGGTGA
1 AAATCGAGGGTGA
95917269 AA
1 AA
95917271 CGGTAATTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.07, G:0.36, T:0.14
Consensus pattern (13 bp):
AAATCGAGGGTGA
Found at i:95917276 original size:67 final size:67
Alignment explanation
Indices: 95917189--95917319 Score: 190
Period size: 67 Copynumber: 2.0 Consensus size: 67
95917179 GTAAATCTGT
* * * **
95917189 AAATTGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGTTAATTTTGTAAATCGAGGGT
1 AAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGT
95917254 GA
66 GA
* * *
95917256 AAATCGAGGGTGAAACGGTAATTCTATAGATCGAGGGTAAAATGGTAATTTTACAAATCGAGGG
1 AAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTACAAATCGAGGG
95917320 CATTTCAATA
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
67 56 1.00
ACGTcount: A:0.38, C:0.08, G:0.27, T:0.27
Consensus pattern (67 bp):
AAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGT
GA
Found at i:95917302 original size:27 final size:27
Alignment explanation
Indices: 95917256--95917319 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 27
95917246 TCGAGGGTGA
* *
95917256 AAATCGAGGGTGAAACGGTAATTCTAT
1 AAATCGAGGGTAAAACGGTAATTCTAC
* * *
95917283 AGATCGAGGGTAAAATGGTAATTTTAC
1 AAATCGAGGGTAAAACGGTAATTCTAC
95917310 AAATCGAGGG
1 AAATCGAGGG
95917320 CATTTCAATA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.38, C:0.09, G:0.28, T:0.25
Consensus pattern (27 bp):
AAATCGAGGGTAAAACGGTAATTCTAC
Found at i:95917332 original size:94 final size:94
Alignment explanation
Indices: 95917162--95917339 Score: 212
Period size: 94 Copynumber: 1.9 Consensus size: 94
95917152 GTAATTTTGT
* * * * *
95917162 AAATTGAGGGTAAAACAGTAAATCTGTAAATTGAGGGTAAAATGGTAATTCTATAAATCGAGGGT
1 AAATCGAGGGTAAAACAGTAAATCTATAAATCGAGGGTAAAATGGTAATTCTACAAATCGAGGGC
** *
95917227 AAAACGTTAATTTTGTAAATCGAGGGTGA
66 AAAACAATAATTTGGTAAATCGAGGGTGA
* * * * *
95917256 AAATCGAGGGTGAAACGGTAATTCTATAGATCGAGGGTAAAATGGTAATTTTACAAATCGAGGGC
1 AAATCGAGGGTAAAACAGTAAATCTATAAATCGAGGGTAAAATGGTAATTCTACAAATCGAGGGC
***
95917321 ATTTCAATAATTTGGTAAA
66 AAAACAATAATTTGGTAAA
95917340 CTAAAGTATT
Statistics
Matches: 68, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
94 68 1.00
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.29
Consensus pattern (94 bp):
AAATCGAGGGTAAAACAGTAAATCTATAAATCGAGGGTAAAATGGTAATTCTACAAATCGAGGGC
AAAACAATAATTTGGTAAATCGAGGGTGA
Found at i:95919761 original size:42 final size:42
Alignment explanation
Indices: 95919714--95919805 Score: 166
Period size: 42 Copynumber: 2.2 Consensus size: 42
95919704 TGGCCCTTAG
* *
95919714 GCCCATTTCAATATTACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
95919756 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
95919798 GCCCATTT
1 GCCCATTT
95919806 GGGGAGACTA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.33
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
Found at i:95919980 original size:25 final size:25
Alignment explanation
Indices: 95919952--95920021 Score: 115
Period size: 25 Copynumber: 2.8 Consensus size: 25
95919942 CTATTTTAAT
95919952 AACTGGGGCAAAGCCC-TTTCTGATA
1 AACTGGGGCAAAGCCCTTTTC-GATA
95919977 AACTGGGGCAAAGCCCTTTTCGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
95920002 AACTGGGGCAGAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
95920022 AGCACTTCCT
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
25 39 0.91
26 4 0.09
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:95920821 original size:27 final size:27
Alignment explanation
Indices: 95920791--95920876 Score: 93
Period size: 27 Copynumber: 3.1 Consensus size: 27
95920781 GTAAATCTAC
95920791 AAACCAAGGGTATTTC-AGTAATTTTTT
1 AAACCAAGGGTATTTCTA-TAATTTTTT
* *
95920818 AAACCAATGGTATTTCTATAATTTTTAG
1 AAACCAAGGGTATTTCTATAATTTTT-T
** *
95920846 AAAGTTAAGGGTATTTCTATAATTTTGT
1 AAA-CCAAGGGTATTTCTATAATTTTTT
95920874 AAA
1 AAA
95920877 TTAGGGGTAT
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
27 23 0.47
28 7 0.14
29 19 0.39
ACGTcount: A:0.36, C:0.08, G:0.14, T:0.42
Consensus pattern (27 bp):
AAACCAAGGGTATTTCTATAATTTTTT
Found at i:95920968 original size:27 final size:26
Alignment explanation
Indices: 95920826--95920969 Score: 92
Period size: 27 Copynumber: 5.3 Consensus size: 26
95920816 TTAAACCAAT
* *
95920826 GGTATTTCTATAATTTTTAGAAAGTTAAG
1 GGTATTTCGATAA-TTTTACAAAG-T-AG
* ** *
95920855 GGTATTTCTATAATTTTGTAAATTAGG
1 GGTATTTCGATAATTTTACAAAGTA-G
* * *
95920882 GGTATTTTGGTACTTTTAC-AAGTTGAG
1 GGTATTTCGATAATTTTACAAAG-T-AG
* * **
95920909 GGTATTTCGGTAATTTCACAAACCAG
1 GGTATTTCGATAATTTTACAAAGTAG
95920935 TGGTATTTCGATAATTTTACAAAGTAG
1 -GGTATTTCGATAATTTTACAAAGTAG
95920962 GGATATTT
1 GG-TATTT
95920970 TGGTAATTCT
Statistics
Matches: 90, Mismatches: 19, Indels: 14
0.73 0.15 0.11
Matches are distributed among these distances:
26 7 0.08
27 60 0.67
28 10 0.11
29 13 0.14
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.42
Consensus pattern (26 bp):
GGTATTTCGATAATTTTACAAAGTAG
Found at i:95921046 original size:27 final size:27
Alignment explanation
Indices: 95921009--95921125 Score: 126
Period size: 27 Copynumber: 4.3 Consensus size: 27
95920999 GTAATTTCAC
*
95921009 AATCAAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
95921036 AATTGAGGGTAAAACGGTAGTTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* ** *
95921063 AATCGAGGGTGAAATAGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * **
95921090 GATCGAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
95921117 AATCGAGGG
1 AATCGAGGG
95921126 CATTTCAGTA
Statistics
Matches: 74, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 74 1.00
ACGTcount: A:0.38, C:0.09, G:0.26, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:95923278 original size:19 final size:20
Alignment explanation
Indices: 95923232--95923278 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 20
95923222 ATCGAGTGGT
*
95923232 TAATTAGGCTTTAATTAAGTG
1 TAATTA-GCTTTAATTAAGAG
95923253 -AATTTAGC-TTAATTAAGAG
1 TAA-TTAGCTTTAATTAAGAG
95923272 TAATTAG
1 TAATTAG
95923279 GAAAAAGGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
19 14 0.61
20 6 0.26
21 3 0.13
ACGTcount: A:0.38, C:0.04, G:0.17, T:0.40
Consensus pattern (20 bp):
TAATTAGCTTTAATTAAGAG
Found at i:95923629 original size:30 final size:28
Alignment explanation
Indices: 95923587--95923654 Score: 82
Period size: 28 Copynumber: 2.3 Consensus size: 28
95923577 GTGATATATT
* *
95923587 TATTTAATTATTTTTTATTTAAGTAAATAGA
1 TATTT-ATTATTTATTA-TTAAG-AAAAAGA
*
95923618 TATTTATTATTTATTATTAAGAAAAATA
1 TATTTATTATTTATTATTAAGAAAAAGA
95923646 TATTTATTA
1 TATTTATTA
95923655 ATTAAATAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
28 14 0.41
29 5 0.15
30 10 0.29
31 5 0.15
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.54
Consensus pattern (28 bp):
TATTTATTATTTATTATTAAGAAAAAGA
Found at i:95923931 original size:31 final size:33
Alignment explanation
Indices: 95923881--95923942 Score: 110
Period size: 31 Copynumber: 1.9 Consensus size: 33
95923871 ATAAGAAACA
95923881 AAGATAGAACAGAAAAACAGAATAGGCTATTCG
1 AAGATAGAACAGAAAAACAGAATAGGCTATTCG
95923914 AAGATAGAA-A-AAAAACAGAATAGGCTATT
1 AAGATAGAACAGAAAAACAGAATAGGCTATT
95923943 TGAAAGTACC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
31 19 0.66
32 1 0.03
33 9 0.31
ACGTcount: A:0.55, C:0.10, G:0.19, T:0.16
Consensus pattern (33 bp):
AAGATAGAACAGAAAAACAGAATAGGCTATTCG
Found at i:95926680 original size:18 final size:18
Alignment explanation
Indices: 95926657--95926768 Score: 84
Period size: 18 Copynumber: 6.2 Consensus size: 18
95926647 TAAATAAAAG
* *
95926657 TACTGAATGACTGACTGT
1 TACTGAATAACTGAATGT
*
95926675 TACTGAATAATTG-ATCGT
1 TACTGAATAACTGAAT-GT
* *
95926693 TACTGAATAACTGATTGC
1 TACTGAATAACTGAATGT
** * *
95926711 TACTGAGCAAATGATTGT
1 TACTGAATAACTGAATGT
*
95926729 TACTGAATAACT-AATTT
1 TACTGAATAACTGAATGT
* *
95926746 CTACTGAATGATTGAATGT
1 -TACTGAATAACTGAATGT
95926765 TACT
1 TACT
95926769 AAATGAAACT
Statistics
Matches: 72, Mismatches: 18, Indels: 8
0.73 0.18 0.08
Matches are distributed among these distances:
17 4 0.06
18 63 0.88
19 5 0.07
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (18 bp):
TACTGAATAACTGAATGT
Found at i:95926766 original size:36 final size:36
Alignment explanation
Indices: 95926657--95926768 Score: 109
Period size: 36 Copynumber: 3.1 Consensus size: 36
95926647 TAAATAAAAG
* * * *
95926657 TACTGAATGACTGACTGTTACTGAATAATTG-ATCGT
1 TACTGAATAACTAATTGCTACTGAATAATTGAAT-GT
* ** * *
95926693 TACTGAATAACTGATTGCTACTGAGCAAATGATTGT
1 TACTGAATAACTAATTGCTACTGAATAATTGAATGT
* *
95926729 TACTGAATAACTAATTTCTACTGAATGATTGAATGT
1 TACTGAATAACTAATTGCTACTGAATAATTGAATGT
95926765 TACT
1 TACT
95926769 AAATGAAACT
Statistics
Matches: 61, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
36 60 0.98
37 1 0.02
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (36 bp):
TACTGAATAACTAATTGCTACTGAATAATTGAATGT
Found at i:95937939 original size:30 final size:30
Alignment explanation
Indices: 95937865--95937950 Score: 88
Period size: 30 Copynumber: 2.9 Consensus size: 30
95937855 TTCAGTTCAC
*
95937865 GAGCTAAACCTTAGCTCAACTTCAGCTTAG
1 GAGCTAAACCTTAGCTCAACTTTAGCTTAG
**
95937895 GAG-TATAATTTTAGCTCAACTTTAGCTTAAG
1 GAGCTA-AACCTTAGCTCAACTTTAGCTT-AG
* *
95937926 G-GCTAAAGCTTAGCTC-ATTTTAGCT
1 GAGCTAAACCTTAGCTCAACTTTAGCT
95937951 CAAACCCAGT
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
29 10 0.21
30 32 0.68
31 5 0.11
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (30 bp):
GAGCTAAACCTTAGCTCAACTTTAGCTTAG
Found at i:95939548 original size:13 final size:12
Alignment explanation
Indices: 95939532--95939577 Score: 56
Period size: 13 Copynumber: 3.7 Consensus size: 12
95939522 AAGTATATAC
95939532 AAAAAAAATTCA
1 AAAAAAAATTCA
**
95939544 AAAAAAAATTTTG
1 AAAAAAAA-TTCA
95939557 AAAAAAAATTCGA
1 AAAAAAAATTC-A
95939570 AAAAAAAA
1 AAAAAAAA
95939578 GGTGTTTTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
12 10 0.36
13 18 0.64
ACGTcount: A:0.74, C:0.04, G:0.04, T:0.17
Consensus pattern (12 bp):
AAAAAAAATTCA
Found at i:95939919 original size:22 final size:20
Alignment explanation
Indices: 95939877--95939919 Score: 50
Period size: 20 Copynumber: 2.0 Consensus size: 20
95939867 GAATGAAATC
* *
95939877 GAGAGAAGAAATAAAGAAAA
1 GAGAGAAAAAAAAAAGAAAA
95939897 GAGAGAAAAAAAAGAAGAGAAA
1 GAGAGAAAAAAAA-AAGA-AAA
95939919 G
1 G
95939920 TGTACAAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 11 0.58
21 4 0.21
22 4 0.21
ACGTcount: A:0.70, C:0.00, G:0.28, T:0.02
Consensus pattern (20 bp):
GAGAGAAAAAAAAAAGAAAA
Found at i:95949124 original size:40 final size:40
Alignment explanation
Indices: 95949080--95949156 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
95949070 TTACAGTACC
95949080 ACTTGGTGTATAGGGCTGGATCA-GTCAATTTTATCCCAAT
1 ACTTGGTGTATAGGGCTGGAT-AGGTCAATTTTATCCCAAT
* * *
95949120 ACTTGGTGTGTAGGGCTGGGTAGGTCGATTTTATCCC
1 ACTTGGTGTATAGGGCTGGATAGGTCAATTTTATCCC
95949157 CACATGGTGT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
39 1 0.03
40 32 0.97
ACGTcount: A:0.19, C:0.17, G:0.29, T:0.35
Consensus pattern (40 bp):
ACTTGGTGTATAGGGCTGGATAGGTCAATTTTATCCCAAT
Found at i:95950920 original size:258 final size:258
Alignment explanation
Indices: 95950453--95950980 Score: 912
Period size: 258 Copynumber: 2.0 Consensus size: 258
95950443 TGCTCCGAGT
* *
95950453 GTGGCCAAGTATTGGATAAAGGCCATAGAGCGCATAATGGATGACTTGGATTTTACTAATGAGCA
1 GTGGCCGAGTATTGGATAAAGGCCATAGAGCGCATAATGGATGACTTGGATTTTACTAATGAACA
* *
95950518 GAAGCTCAAGGGGGCTGTGTCTCTGCTTCGCGATGAGGCATACCAGTGGTGGTTGACCATTAAGG
66 GAAGCTCAAAGGGGCTGTGTCTCTGCTTCGCAATGAGGCATACCAGTGGTGGTTGACCATTAAGG
* *
95950583 AGGGTACTCAGCCTGATAGGTTGACTTGGGATTTGTTTAAGACCACCTATCTGAGTAAGTATGTG
131 AGGATACTCAGCCTGATAGGTTGACTTGGGATTTGTTTAAGACCACCTATCTGAGTAAGTATATG
* * * *
95950648 GGAGCTAGCTACACTGACGCTAGGCAACGTGAGCTTCTGAATCTTACTAAGGGAGACCGTTTA
196 GGAGCTAACTACACTGACACCAGGCAACGTGAGCTTCTGAATCTTACTAAGGGAGACCGTTAA
* * * *
95950711 GTGGCCGAGTATTGGATGAAGGCCATAGAGTGCATAATGGATGACTTGGATTTTACTGATGAATA
1 GTGGCCGAGTATTGGATAAAGGCCATAGAGCGCATAATGGATGACTTGGATTTTACTAATGAACA
95950776 GAAGCTCAAAGGGGCTGTGTCTCTGCTTCGCAATGAGGCATACCAGTGGTGGTTGACCATTAAGG
66 GAAGCTCAAAGGGGCTGTGTCTCTGCTTCGCAATGAGGCATACCAGTGGTGGTTGACCATTAAGG
95950841 AGGATACTCAGCCTGATAGGTTGACTTGGGATTTGTTTAAGACCACCTATCTGAGTAAGTATATG
131 AGGATACTCAGCCTGATAGGTTGACTTGGGATTTGTTTAAGACCACCTATCTGAGTAAGTATATG
*
95950906 GGAGCTAACTACACTGACACCAGGCAACGTGAGCTTTTGAATCTTACTAAGGGAGACCGTTAA
196 GGAGCTAACTACACTGACACCAGGCAACGTGAGCTTCTGAATCTTACTAAGGGAGACCGTTAA
*
95950969 GTGGCTGAGTAT
1 GTGGCCGAGTAT
95950981 GAGGCCGAAT
Statistics
Matches: 254, Mismatches: 16, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
258 254 1.00
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.27
Consensus pattern (258 bp):
GTGGCCGAGTATTGGATAAAGGCCATAGAGCGCATAATGGATGACTTGGATTTTACTAATGAACA
GAAGCTCAAAGGGGCTGTGTCTCTGCTTCGCAATGAGGCATACCAGTGGTGGTTGACCATTAAGG
AGGATACTCAGCCTGATAGGTTGACTTGGGATTTGTTTAAGACCACCTATCTGAGTAAGTATATG
GGAGCTAACTACACTGACACCAGGCAACGTGAGCTTCTGAATCTTACTAAGGGAGACCGTTAA
Found at i:95957724 original size:32 final size:30
Alignment explanation
Indices: 95957650--95957731 Score: 94
Period size: 32 Copynumber: 2.6 Consensus size: 30
95957640 GTATACAATT
* *
95957650 GTAACATAAATATTTAATTACTTTTTATTTAA
1 GTAA-ATAGATATTT-ATTACTTATTATTTAA
95957682 GTAAATAGATATTTATTACTTATTATTATTAA
1 GTAAATAGATATTTATTACTTATTA-T-TTAA
95957714 GTTAAA-AGATATTTATTA
1 G-TAAATAGATATTTATTA
95957732 ATTAAATAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
30 10 0.22
31 10 0.22
32 21 0.47
33 4 0.09
ACGTcount: A:0.41, C:0.04, G:0.06, T:0.49
Consensus pattern (30 bp):
GTAAATAGATATTTATTACTTATTATTTAA
Found at i:95957870 original size:3 final size:3
Alignment explanation
Indices: 95957862--95957886 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
95957852 TTATTGTAGA
95957862 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
95957887 GATATTATAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:95963537 original size:14 final size:14
Alignment explanation
Indices: 95963518--95963544 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
95963508 TAGAAAAACC
95963518 CAGAATAAAGAAAT
1 CAGAATAAAGAAAT
95963532 CAGAATAAAGAAA
1 CAGAATAAAGAAA
95963545 CCCAAGATAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.67, C:0.07, G:0.15, T:0.11
Consensus pattern (14 bp):
CAGAATAAAGAAAT
Done.