Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009001.1 Hibiscus syriacus cultivar Beakdansim tig00112383_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 4740655
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 23 of 24
Found at i:4562295 original size:20 final size:21
Alignment explanation
Indices: 4562260--4562309 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
4562250 TATGCTCTCC
*
4562260 TTTATTGTTGAATTTTTT-CTT
1 TTTATT-TTGAATTTTTTAATT
*
4562281 TTTATTTTTAATTTTTTAATT
1 TTTATTTTGAATTTTTTAATT
4562302 TTTATTTT
1 TTTATTTT
4562310 AGTCTTTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 10 0.38
21 16 0.62
ACGTcount: A:0.18, C:0.02, G:0.04, T:0.76
Consensus pattern (21 bp):
TTTATTTTGAATTTTTTAATT
Found at i:4562296 original size:14 final size:14
Alignment explanation
Indices: 4562260--4562309 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
4562250 TATGCTCTCC
* *
4562260 TTTATTGTTGAATT
1 TTTATTTTTTAATT
4562274 TTT-TCTTTTT-ATT
1 TTTAT-TTTTTAATT
4562287 TTTAATTTTTTAATT
1 TTT-ATTTTTTAATT
4562302 TTTATTTT
1 TTTATTTT
4562310 AGTCTTTATA
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
13 7 0.23
14 16 0.53
15 7 0.23
ACGTcount: A:0.18, C:0.02, G:0.04, T:0.76
Consensus pattern (14 bp):
TTTATTTTTTAATT
Found at i:4562310 original size:20 final size:19
Alignment explanation
Indices: 4562260--4562310 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 19
4562250 TATGCTCTCC
*
4562260 TTTATTGTTGAATTTTTTCTT
1 TTTATT-TT-AATTTTTTATT
4562281 TTTATTTTTAATTTTTTAATT
1 TTTA-TTTTAATTTTTT-ATT
4562302 TTTATTTTA
1 TTTATTTTA
4562311 GTCTTTATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 13 0.48
21 12 0.44
22 2 0.07
ACGTcount: A:0.20, C:0.02, G:0.04, T:0.75
Consensus pattern (19 bp):
TTTATTTTAATTTTTTATT
Found at i:4563995 original size:26 final size:26
Alignment explanation
Indices: 4563964--4564016 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
4563954 ATGATAAAGA
*
4563964 TAAAAGAGATTTATTACTTCTTTTAT
1 TAAAAGAGATTTATTACATCTTTTAT
4563990 TAAAAGAGATTTATTACATCTTTTAT
1 TAAAAGAGATTTATTACATCTTTTAT
4564016 T
1 T
4564017 CCAATTAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.36, C:0.08, G:0.08, T:0.49
Consensus pattern (26 bp):
TAAAAGAGATTTATTACATCTTTTAT
Found at i:4565523 original size:18 final size:17
Alignment explanation
Indices: 4565484--4565526 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
4565474 ATTATATGGA
4565484 TATT-TTATTCATTTAT
1 TATTATTATTCATTTAT
*
4565500 TTTTATTATTCATGTTAT
1 TATTATTATTCAT-TTAT
4565518 TATTATTAT
1 TATTATTAT
4565527 ATGTATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (17 bp):
TATTATTATTCATTTAT
Found at i:4566048 original size:2 final size:2
Alignment explanation
Indices: 4566041--4566078 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
4566031 TAATACTTTG
4566041 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4566079 TTTTTTTCCT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4567292 original size:5 final size:5
Alignment explanation
Indices: 4567282--4567310 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
4567272 TTCATCTTTC
4567282 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
4567311 CATCACTTGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTA
Found at i:4569880 original size:12 final size:12
Alignment explanation
Indices: 4569865--4569919 Score: 69
Period size: 12 Copynumber: 4.6 Consensus size: 12
4569855 AATAAAAATG
4569865 GCAAAAAAAAAA
1 GCAAAAAAAAAA
4569877 GCAAAAAAAAAA
1 GCAAAAAAAAAA
*
4569889 GCAAAAAAAGAA
1 GCAAAAAAAAAA
4569901 -CAAAAAGGAAAAA
1 GCAAAAA--AAAAA
4569914 G-AAAAA
1 GCAAAAA
4569920 GGGACAAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
11 6 0.16
12 23 0.61
13 9 0.24
ACGTcount: A:0.80, C:0.07, G:0.13, T:0.00
Consensus pattern (12 bp):
GCAAAAAAAAAA
Found at i:4569882 original size:11 final size:11
Alignment explanation
Indices: 4569868--4569906 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
4569858 AAAAATGGCA
4569868 AAAAAAAAAGC
1 AAAAAAAAAGC
4569879 AAAAAAAAAAGC
1 -AAAAAAAAAGC
4569891 AAAAAAAGAA-C
1 AAAAAAA-AAGC
4569902 AAAAA
1 AAAAA
4569907 GGAAAAAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
11 13 0.50
12 13 0.50
ACGTcount: A:0.85, C:0.08, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAGC
Found at i:4570545 original size:22 final size:22
Alignment explanation
Indices: 4570517--4570560 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
4570507 AGCTACCCCA
4570517 TCAAACC-TTTGAGCATCAAATG
1 TCAAACCATTT-AGCATCAAATG
4570539 TCAAACCATTTAGCATCAAATG
1 TCAAACCATTTAGCATCAAATG
4570561 AACAAAAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 18 0.86
23 3 0.14
ACGTcount: A:0.39, C:0.23, G:0.11, T:0.27
Consensus pattern (22 bp):
TCAAACCATTTAGCATCAAATG
Found at i:4571633 original size:36 final size:36
Alignment explanation
Indices: 4571526--4571650 Score: 160
Period size: 36 Copynumber: 3.4 Consensus size: 36
4571516 ATTGAAAACA
* * *
4571526 TTTCCCTTGAAATAAATTTCGTCTCTCTTGAGATAG
1 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAG
* * *
4571562 TTTCCCTTGGAACTAAGTTTTGTCTCTCTTAAGACAG
1 TTTCCCTTGAAAC-AAATTTTGTCTCTCTTGAGACAG
* * *
4571599 TTTCTCTTGAAACAATTTTTGTCTATCTTGAGACAG
1 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAG
4571635 TTTCCCTTGAAACAAA
1 TTTCCCTTGAAACAAA
4571651 ACCTTTGAAT
Statistics
Matches: 75, Mismatches: 13, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
36 45 0.60
37 30 0.40
ACGTcount: A:0.26, C:0.20, G:0.14, T:0.41
Consensus pattern (36 bp):
TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAG
Found at i:4571737 original size:68 final size:68
Alignment explanation
Indices: 4571608--4571782 Score: 205
Period size: 68 Copynumber: 2.6 Consensus size: 68
4571598 GTTTCTCTTG
* ** * **
4571608 AAAC-AATTTTTGTCTATCTTGAGACAGTTTCCCTTG-AA-ACAAAACCTTTGAATTTATTTCCC
1 AAACAAATTTTTTTCTCCCTTGAGACAGTTTCTCTTGAAACACAAAACCTTCAAATTTATTTCCC
4571670 CTA
66 CTA
* *
4571673 AAACAAATTTTTTTCTCCCTTGAGACAGTTACTCTTGAAACACAAAATCTTCAAATTTATTTCCC
1 AAACAAATTTTTTTCTCCCTTGAGACAGTTTCTCTTGAAACACAAAACCTTCAAATTTATTTCCC
*
4571738 TTA
66 CTA
* * *
4571741 AAACATAATTTTGTT-TCCCTTGAGACCGTTTCTCATGAAACA
1 AAACA-AATTTTTTTCTCCCTTGAGACAGTTTCTCTTGAAACA
4571783 ACAGATATCT
Statistics
Matches: 93, Mismatches: 13, Indels: 5
0.84 0.12 0.05
Matches are distributed among these distances:
65 4 0.04
66 27 0.29
67 2 0.02
68 52 0.56
69 8 0.09
ACGTcount: A:0.32, C:0.22, G:0.09, T:0.38
Consensus pattern (68 bp):
AAACAAATTTTTTTCTCCCTTGAGACAGTTTCTCTTGAAACACAAAACCTTCAAATTTATTTCCC
CTA
Found at i:4572606 original size:105 final size:105
Alignment explanation
Indices: 4572426--4573149 Score: 1140
Period size: 105 Copynumber: 7.0 Consensus size: 105
4572416 GCACTCGAGG
* * ** *
4572426 CAACACAAGTTCAACTTCACAACGAAGGGACAACTGGTTGTCAACAAACAACTTCTCAATTTCAG
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAAC-AACAACTTCTCAATTTCAG
4572491 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
65 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
* *
4572532 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCCTGTTAACAACAACTTCTCAATTTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
* *
4572597 GCCAATTTCAACTTCACAATGAAGGATATTGGACTTCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
*
4572637 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCCTGT---CAACAACTTCTCAATTTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
* * *
4572699 ACCAATTTCAACTTCACAATGAAGGATATTGGACTTCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
4572739 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
*
4572804 GCCAATTTCAACTTCACAACGAAGGATATTGGACTTCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
* **
4572844 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCAATCGCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
4572909 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
* * **
4572949 CAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCAATCGCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
4573014 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
*
4573054 CAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAA-AA-TT-TC-A-TTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
** * * *
4573114 TTCAATTTCAACTTCACGACGGAGGATATTAGACTC
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTC
4573150 TAAACAATGC
Statistics
Matches: 589, Mismatches: 26, Indels: 12
0.94 0.04 0.02
Matches are distributed among these distances:
100 35 0.06
101 1 0.00
102 101 0.17
103 2 0.00
104 2 0.00
105 410 0.70
106 38 0.06
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.22
Consensus pattern (105 bp):
CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
Found at i:4572790 original size:207 final size:208
Alignment explanation
Indices: 4572426--4573149 Score: 1116
Period size: 207 Copynumber: 3.5 Consensus size: 208
4572416 GCACTCGAGG
* * ** *
4572426 CAACACAAGTTCAACTTCACAACGAAGGGACAACTGGTTGTCAACAAACAACTTCTCAATTTCAG
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGT--AC-AACAACTTCTCAATTTCAG
4572491 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
63 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
* * *
4572556 AAGGGACCGCTGCCTGTTAACAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAATGAAG
128 AAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAG
4572621 GATATTGGACTTCAGA
193 GATATTGGACTTCAGA
* *
4572637 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCCTGT-CAACAACTTCTCAATTTCAGAAC
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTACAACAACTTCTCAATTTCAGAGC
* *
4572701 CAATTTCAACTTCACAATGAAGGATATTGGACTTCAGACAACGCAAGTTCAACTTCACGACGAAG
66 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
4572766 GGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGAT
131 GGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGAT
4572831 ATTGGACTTCAGA
196 ATTGGACTTCAGA
* **
4572844 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCAATCGCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGT--ACAACAACTTCTCAATTTCAGA
*
4572909 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGA
64 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGA
* **
4572974 AGGGACCGCTGCTTGTCAACAACAACTTCCCAATCGCAGAGCCAATTTCAACTTCACAACGAAGG
129 AGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGG
*
4573039 ATATTGGACTCCAGA
194 ATATTGGACTTCAGA
* * *
4573054 CAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGT-CAACAAAATT-TC-A-TTCAGAT
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTACAAC-AACTTCTCAATTTCAGAG
* * * *
4573115 TCAATTTCAACTTCACGACGGAGGATATTAGACTC
65 CCAATTTCAACTTCACAACGAAGGATATTGGACTC
4573150 TAAACAATGC
Statistics
Matches: 475, Mismatches: 34, Indels: 14
0.91 0.07 0.03
Matches are distributed among these distances:
205 35 0.07
206 1 0.00
207 204 0.43
208 5 0.01
210 195 0.41
211 35 0.07
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.22
Consensus pattern (208 bp):
CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTACAACAACTTCTCAATTTCAGAGC
CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
GGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGAT
ATTGGACTTCAGA
Found at i:4574342 original size:18 final size:17
Alignment explanation
Indices: 4574303--4574345 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
4574293 ATTATATGGA
4574303 TATT-TTATTCATTTAT
1 TATTATTATTCATTTAT
*
4574319 TTTTATTATTCATGTTAT
1 TATTATTATTCAT-TTAT
4574337 TATTATTAT
1 TATTATTAT
4574346 ATGTATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (17 bp):
TATTATTATTCATTTAT
Found at i:4574412 original size:2 final size:2
Alignment explanation
Indices: 4574405--4574439 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
4574395 ATTTTATTAT
4574405 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4574440 TTCTTTAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4574878 original size:2 final size:2
Alignment explanation
Indices: 4574871--4574900 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
4574861 TAATACTTTG
*
4574871 AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4574901 TTTTTTCTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:4575494 original size:7 final size:7
Alignment explanation
Indices: 4575482--4575516 Score: 70
Period size: 7 Copynumber: 5.0 Consensus size: 7
4575472 AATAGCATCG
4575482 CCTGCAA
1 CCTGCAA
4575489 CCTGCAA
1 CCTGCAA
4575496 CCTGCAA
1 CCTGCAA
4575503 CCTGCAA
1 CCTGCAA
4575510 CCTGCAA
1 CCTGCAA
4575517 ATCCCCAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.29, C:0.43, G:0.14, T:0.14
Consensus pattern (7 bp):
CCTGCAA
Found at i:4578062 original size:65 final size:65
Alignment explanation
Indices: 4577981--4578111 Score: 262
Period size: 65 Copynumber: 2.0 Consensus size: 65
4577971 TGACTCGATC
4577981 ACGATAATGACATCTTTAAAGTATAAGAAGTCATCGTTAGATTGCAACACCATATTCAAATTGTG
1 ACGATAATGACATCTTTAAAGTATAAGAAGTCATCGTTAGATTGCAACACCATATTCAAATTGTG
4578046 ACGATAATGACATCTTTAAAGTATAAGAAGTCATCGTTAGATTGCAACACCATATTCAAATTGTG
1 ACGATAATGACATCTTTAAAGTATAAGAAGTCATCGTTAGATTGCAACACCATATTCAAATTGTG
4578111 A
1 A
4578112 AAGGTAGATG
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 66 1.00
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.31
Consensus pattern (65 bp):
ACGATAATGACATCTTTAAAGTATAAGAAGTCATCGTTAGATTGCAACACCATATTCAAATTGTG
Found at i:4578832 original size:15 final size:15
Alignment explanation
Indices: 4578812--4578844 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
4578802 AGTTTTACTT
4578812 TTTCTTTTACTTTTC
1 TTTCTTTTACTTTTC
*
4578827 TTTCTTTTATTTTTC
1 TTTCTTTTACTTTTC
4578842 TTT
1 TTT
4578845 AAAGGTTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.06, C:0.15, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTCTTTTACTTTTC
Found at i:4579633 original size:41 final size:41
Alignment explanation
Indices: 4579576--4579695 Score: 231
Period size: 41 Copynumber: 2.9 Consensus size: 41
4579566 ACGCGTTGTC
4579576 ACACCTTAACTTACCATTTTACTATATATGCATTTTACACA
1 ACACCTTAACTTACCATTTTACTATATATGCATTTTACACA
4579617 ACACCTTAACTTACCATTTTACTATATATGCATTTTACACA
1 ACACCTTAACTTACCATTTTACTATATATGCATTTTACACA
*
4579658 ACACCTTAACTTACTATTTTACTATATATGCATTTTAC
1 ACACCTTAACTTACCATTTTACTATATATGCATTTTAC
4579696 CAAAAACATT
Statistics
Matches: 78, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
41 78 1.00
ACGTcount: A:0.33, C:0.23, G:0.03, T:0.41
Consensus pattern (41 bp):
ACACCTTAACTTACCATTTTACTATATATGCATTTTACACA
Found at i:4582114 original size:22 final size:23
Alignment explanation
Indices: 4582072--4582115 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
4582062 TCGAGTCTCC
* *
4582072 TTACATCCAATGATCTAGATTAT
1 TTACATCCAACGACCTAGATTAT
4582095 TTACAT-CAACGACCTAGATTA
1 TTACATCCAACGACCTAGATTA
4582116 AAAGCATATC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.34
Consensus pattern (23 bp):
TTACATCCAACGACCTAGATTAT
Found at i:4583022 original size:51 final size:51
Alignment explanation
Indices: 4582945--4583105 Score: 250
Period size: 51 Copynumber: 3.1 Consensus size: 51
4582935 CTAGTTAATC
4582945 TTTGTTGTAACTTGTAACTATGAAAAATTACTCTCTATATAATTTAGCATAG
1 TTTG-TGTAACTTGTAACTATGAAAAATTACTCTCTATATAATTTAGCATAG
* * *
4582997 TTTGTGTAACTTGTAACAATGAAAAATTACTTTCTATATAGTTTAGCATAG
1 TTTGTGTAACTTGTAACTATGAAAAATTACTCTCTATATAATTTAGCATAG
* * *
4583048 TTTGTGTAACTTGTAACTATGGAAAATCACTCTCTATACAATTTAGCATAG
1 TTTGTGTAACTTGTAACTATGAAAAATTACTCTCTATATAATTTAGCATAG
*
4583099 TTCGTGT
1 TTTGTGT
4583106 CAAAGGTGGA
Statistics
Matches: 99, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
51 95 0.96
52 4 0.04
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.41
Consensus pattern (51 bp):
TTTGTGTAACTTGTAACTATGAAAAATTACTCTCTATATAATTTAGCATAG
Found at i:4584706 original size:22 final size:20
Alignment explanation
Indices: 4584663--4584700 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
4584653 TTTTCTCTCT
* *
4584663 TTTTTATTAAAATTATCTTA
1 TTTTTACTAAAATTATATTA
4584683 TTTTTACTAAAATTATAT
1 TTTTTACTAAAATTATAT
4584701 ATTATTGGCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (20 bp):
TTTTTACTAAAATTATATTA
Found at i:4595166 original size:18 final size:17
Alignment explanation
Indices: 4595134--4595168 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
4595124 CTCAAAGTAA
*
4595134 TCTAAATTAAGATTAAT
1 TCTAAATTAAAATTAAT
4595151 TCTAATATTAAAATTAAT
1 TCTAA-ATTAAAATTAAT
4595169 CCAATTAACC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.43
Consensus pattern (17 bp):
TCTAAATTAAAATTAAT
Found at i:4597995 original size:22 final size:22
Alignment explanation
Indices: 4597969--4598011 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
4597959 ACTATACGGT
* * *
4597969 ATGAACAGTACCGTGAATAGTA
1 ATGAACAATACCATAAATAGTA
4597991 ATGAACAATACCATAAATAGT
1 ATGAACAATACCATAAATAGT
4598012 GCTACGGTGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.47, C:0.14, G:0.16, T:0.23
Consensus pattern (22 bp):
ATGAACAATACCATAAATAGTA
Found at i:4598703 original size:21 final size:22
Alignment explanation
Indices: 4598657--4598717 Score: 88
Period size: 21 Copynumber: 2.8 Consensus size: 22
4598647 TGAAATTTTA
*
4598657 TCCCGAAGGACCTGTGAATATG
1 TCCCGAAGGACCTATGAATATG
* *
4598679 TCCCAAAGGACCTATGAGT-TG
1 TCCCGAAGGACCTATGAATATG
4598700 TCCCGAAGGACCTATGAA
1 TCCCGAAGGACCTATGAA
4598718 ACCCTTGACT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
21 18 0.53
22 16 0.47
ACGTcount: A:0.30, C:0.25, G:0.25, T:0.21
Consensus pattern (22 bp):
TCCCGAAGGACCTATGAATATG
Found at i:4600562 original size:17 final size:17
Alignment explanation
Indices: 4600540--4600580 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
4600530 TATAATAAAC
4600540 TTATGATAATTAAATTA
1 TTATGATAATTAAATTA
4600557 TTATGATAATTAAATTA
1 TTATGATAATTAAATTA
*
4600574 ATATGAT
1 TTATGAT
4600581 TACTTTTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.46
Consensus pattern (17 bp):
TTATGATAATTAAATTA
Found at i:4601558 original size:18 final size:18
Alignment explanation
Indices: 4601537--4601736 Score: 121
Period size: 18 Copynumber: 11.1 Consensus size: 18
4601527 AATAAATTAA
4601537 TATATAGTTTATATATAC
1 TATATAGTTTATATATAC
4601555 TATATAGTTTATATATAC
1 TATATAGTTTATATATAC
* *
4601573 TA-AT-G--AACTATATAA
1 TATATAGTTTA-TATATAC
4601588 TATATAGTTTGTATATACCATATAC
1 TATATAG--T-T-TAT---ATATAC
*
4601613 TATATAGGTTATATATAC
1 TATATAGTTTATATATAC
***
4601631 TA-ATAAACTATATA-A-
1 TATATAGTTTATATATAC
4601646 TATATAGTTTATATATAC
1 TATATAGTTTATATATAC
** *
4601664 TA-AT-GAACTATATATAA
1 TATATAG-TTTATATATAC
*
4601681 TGTATAGTTTATATATAC
1 TATATAGTTTATATATAC
* * * **
4601699 CATATAGTCTATATGTGT
1 TATATAGTTTATATATAC
4601717 TATATAGTTTATATATAC
1 TATATAGTTTATATATAC
4601735 TA
1 TA
4601737 ATAAACTATG
Statistics
Matches: 135, Mismatches: 29, Indels: 36
0.68 0.14 0.18
Matches are distributed among these distances:
14 1 0.01
15 10 0.07
16 14 0.10
17 24 0.18
18 67 0.50
19 1 0.01
21 3 0.02
22 2 0.01
23 1 0.01
25 12 0.09
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.45
Consensus pattern (18 bp):
TATATAGTTTATATATAC
Found at i:4601568 original size:51 final size:51
Alignment explanation
Indices: 4601511--4601678 Score: 135
Period size: 51 Copynumber: 3.1 Consensus size: 51
4601501 TTTCAATTAA
*
4601511 TATATATGTTTATATTAATAAATTAATATATAGTTTATATATACTATATAG
1 TATATATGTTTATATTAATAAATTAATATATAGTTTATATATACTATATAC
* * * * * * *
4601562 TTTATATATACTA-ATGAACTATA-TAATATATAGTTTGTATATACCATATAC
1 TATATATGT-TTATATTAA-TAAATTAATATATAGTTTATATATACTATATAC
*
4601613 TATATAGGTTATATATACTAATAAACTATATAATATATAGTTTATATATACTA-ATGAAC
1 TATATATGTT-TATAT--TAAT-AA--AT-TAATATATAGTTTATATATACTATAT--AC
4601672 TATATAT
1 TATATAT
4601679 AATGTATAGT
Statistics
Matches: 87, Mismatches: 17, Indels: 18
0.71 0.14 0.15
Matches are distributed among these distances:
51 44 0.51
52 7 0.08
53 1 0.01
54 3 0.03
56 1 0.01
57 2 0.02
58 21 0.24
59 8 0.09
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.45
Consensus pattern (51 bp):
TATATATGTTTATATTAATAAATTAATATATAGTTTATATATACTATATAC
Found at i:4601592 original size:33 final size:32
Alignment explanation
Indices: 4601548--4601760 Score: 188
Period size: 33 Copynumber: 6.6 Consensus size: 32
4601538 ATATAGTTTA
*
4601548 TATATACTATATAGTTTATATATACTAATGAAC
1 TATATAATATATAGTTTATATATACTAAT-AAC
*
4601581 TATATAATATATAGTTTGTATATAC------C
1 TATATAATATATAGTTTATATATACTAATAAC
* *
4601607 -ATATACTATATAGGTTATATATACTAATAAAC
1 TATATAATATATAGTTTATATATACTAAT-AAC
4601639 TATATAATATATAGTTTATATATACTAATGAAC
1 TATATAATATATAGTTTATATATACTAAT-AAC
* * *
4601672 TATATATAATGTATAGTTTATATATACCATATAGTC
1 --TATATAATATATAGTTTATATATACTA-ATA-AC
**
4601708 TATATGTGTTATATAGTTTATATATACTAATAAAC
1 TATA--TAATATATAGTTTATATATACTAAT-AAC
* *
4601743 TATGTAATGTATAGTTTA
1 TATATAATATATAGTTTA
4601761 GGGTTTAGGA
Statistics
Matches: 145, Mismatches: 20, Indels: 30
0.74 0.10 0.15
Matches are distributed among these distances:
25 21 0.14
26 1 0.01
32 1 0.01
33 63 0.43
34 4 0.03
35 32 0.22
36 23 0.16
ACGTcount: A:0.41, C:0.07, G:0.08, T:0.44
Consensus pattern (32 bp):
TATATAATATATAGTTTATATATACTAATAAC
Found at i:4601625 original size:58 final size:58
Alignment explanation
Indices: 4601549--4601663 Score: 203
Period size: 58 Copynumber: 2.0 Consensus size: 58
4601539 TATAGTTTAT
* * *
4601549 ATATACTATATAGTTTATATATACTAATGAACTATATAATATATAGTTTGTATATACC
1 ATATACTATATAGGTTATATATACTAATAAACTATATAATATATAGTTTATATATACC
4601607 ATATACTATATAGGTTATATATACTAATAAACTATATAATATATAGTTTATATATAC
1 ATATACTATATAGGTTATATATACTAATAAACTATATAATATATAGTTTATATATAC
4601664 TAATGAACTA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 54 1.00
ACGTcount: A:0.43, C:0.08, G:0.06, T:0.43
Consensus pattern (58 bp):
ATATACTATATAGGTTATATATACTAATAAACTATATAATATATAGTTTATATATACC
Found at i:4601644 original size:17 final size:17
Alignment explanation
Indices: 4601622--4601679 Score: 57
Period size: 17 Copynumber: 3.5 Consensus size: 17
4601612 CTATATAGGT
4601622 TATATATACTAATAAAC
1 TATATATACTAATAAAC
***
4601639 TATATA-A-TATATAGTT
1 TATATATACTA-ATAAAC
*
4601655 TATATATACTAATGAAC
1 TATATATACTAATAAAC
4601672 TATATATA
1 TATATATA
4601680 ATGTATAGTT
Statistics
Matches: 31, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
15 2 0.06
16 10 0.32
17 17 0.55
18 2 0.06
ACGTcount: A:0.48, C:0.07, G:0.03, T:0.41
Consensus pattern (17 bp):
TATATATACTAATAAAC
Found at i:4601655 original size:91 final size:93
Alignment explanation
Indices: 4601548--4601722 Score: 275
Period size: 91 Copynumber: 1.9 Consensus size: 93
4601538 ATATAGTTTA
* *
4601548 TATATACTATATAGTTTATATATACTAATGAAC-TATATAATATATAGTTTGTATATACCATATA
1 TATATAATATATAGTTTATATATACTAATGAACATATATAATATATAGTTTATATATACCATATA
4601612 -CTATATAG-GTTATATATACTAATAAAC
66 GCTATAT-GTGTTATATATACTAATAAAC
*
4601639 TATATAATATATAGTTTATATATACTAATGAACTATATATAATGTATAGTTTATATATACCATAT
1 TATATAATATATAGTTTATATATACTAATGAAC-ATATATAATATATAGTTTATATATACCATAT
4601704 AGTCTATATGTGTTATATA
65 AG-CTATATGTGTTATATA
4601723 GTTTATATAT
Statistics
Matches: 76, Mismatches: 3, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
91 32 0.42
93 29 0.38
94 1 0.01
95 14 0.18
ACGTcount: A:0.42, C:0.07, G:0.07, T:0.43
Consensus pattern (93 bp):
TATATAATATATAGTTTATATATACTAATGAACATATATAATATATAGTTTATATATACCATATA
GCTATATGTGTTATATATACTAATAAAC
Found at i:4601814 original size:2 final size:2
Alignment explanation
Indices: 4601797--4601867 Score: 54
Period size: 2 Copynumber: 33.0 Consensus size: 2
4601787 ATATGTAAAT
*
4601797 TA TA CTA TA TA GTA TA TA TA GTT TA TA TA TA TA -A TA TA TA GTA
1 TA TA -TA TA TA -TA TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA
* *
4601840 TA TA AA TA TA AA CTA TA GTA TA TA TA TA
1 TA TA TA TA TA TA -TA TA -TA TA TA TA TA
4601868 GGTCATATGT
Statistics
Matches: 56, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
1 1 0.02
2 45 0.80
3 10 0.18
ACGTcount: A:0.48, C:0.03, G:0.06, T:0.44
Consensus pattern (2 bp):
TA
Found at i:4601816 original size:9 final size:9
Alignment explanation
Indices: 4601802--4601865 Score: 51
Period size: 9 Copynumber: 6.7 Consensus size: 9
4601792 TAAATTATAC
4601802 TATATAGTA
1 TATATAGTA
4601811 TATATAGTTTA
1 TATATAG--TA
4601822 TATATA-TAA
1 TATATAGT-A
4601831 TATATAGTA
1 TATATAGTA
4601840 TATAAATA-TA
1 TAT--ATAGTA
*
4601850 AACTATAGTA
1 TA-TATAGTA
4601860 TATATA
1 TATATA
4601866 TAGGTCATAT
Statistics
Matches: 45, Mismatches: 2, Indels: 16
0.71 0.03 0.25
Matches are distributed among these distances:
8 1 0.02
9 25 0.56
10 7 0.16
11 12 0.27
ACGTcount: A:0.48, C:0.02, G:0.06, T:0.44
Consensus pattern (9 bp):
TATATAGTA
Found at i:4601818 original size:34 final size:36
Alignment explanation
Indices: 4601775--4601843 Score: 97
Period size: 34 Copynumber: 2.0 Consensus size: 36
4601765 TTAGGATTTT
*
4601775 TATATATAGTTCATATGTA-AAT-TATACTATATAG
1 TATATATAGTTCATATATATAATATATACTATATAG
* *
4601809 TATATATAGTTTATATATATAATATATAGTATATA
1 TATATATAGTTCATATATATAATATATACTATATA
4601844 AATATAAACT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
34 17 0.57
35 3 0.10
36 10 0.33
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.46
Consensus pattern (36 bp):
TATATATAGTTCATATATATAATATATACTATATAG
Found at i:4601827 original size:20 final size:19
Alignment explanation
Indices: 4601797--4601867 Score: 79
Period size: 20 Copynumber: 3.5 Consensus size: 19
4601787 ATATGTAAAT
4601797 TATACTATATAGTATATATAG
1 TATA-TATATA-TATATATAG
*
4601818 TTTATATATATAATATATAG
1 TATATATATAT-ATATATAG
* *
4601838 TATATAAATATAAACTATAG
1 TATATATATATATA-TATAG
4601858 TATATATATA
1 TATATATATA
4601868 GGTCATATGT
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
19 3 0.07
20 37 0.86
21 3 0.07
ACGTcount: A:0.48, C:0.03, G:0.06, T:0.44
Consensus pattern (19 bp):
TATATATATATATATATAG
Found at i:4601856 original size:29 final size:29
Alignment explanation
Indices: 4601792--4601868 Score: 77
Period size: 29 Copynumber: 2.6 Consensus size: 29
4601782 AGTTCATATG
* * *
4601792 TAAAT-TATACTATATAGTATATATAGTT
1 TAAATATATAATATATAGTATATATAATA
*
4601820 TATATATATAATATATAGTATATA-AATA
1 TAAATATATAATATATAGTATATATAATA
4601848 TAAACTATAGTATATATATAG
1 TAAA-TATA-TA-ATATATAG
4601869 GTCATATGTA
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
28 9 0.22
29 21 0.52
30 2 0.05
31 8 0.20
ACGTcount: A:0.48, C:0.03, G:0.06, T:0.43
Consensus pattern (29 bp):
TAAATATATAATATATAGTATATATAATA
Found at i:4601887 original size:51 final size:52
Alignment explanation
Indices: 4601832--4601953 Score: 192
Period size: 53 Copynumber: 2.3 Consensus size: 52
4601822 TATATATAAT
4601832 ATATAGTATATAAATATAAACTATAG-TATATATATAGGTCATATGTAAACC
1 ATATAGTATATAAATATAAACTATAGATATATATATAGGTCATATGTAAACC
* *
4601883 ATATAGTATATAAATATCAACTATAGTATATATATATAGGTCATATGTAAACT
1 ATATAGTATATAAATATAAACTATAG-ATATATATATAGGTCATATGTAAACC
* *
4601936 ATATAGTTTATATATATA
1 ATATAGTATATAAATATA
4601954 GTTCATATGT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
51 25 0.39
53 39 0.61
ACGTcount: A:0.46, C:0.07, G:0.09, T:0.39
Consensus pattern (52 bp):
ATATAGTATATAAATATAAACTATAGATATATATATAGGTCATATGTAAACC
Found at i:4601888 original size:31 final size:31
Alignment explanation
Indices: 4601853--4601979 Score: 98
Period size: 33 Copynumber: 4.4 Consensus size: 31
4601843 AAATATAAAC
4601853 TATAGTATATATATAGGTCATATGTAAACCA
1 TATAGTATATATATAGGTCATATGTAAACCA
* *
4601884 TATAG--TATATA-A----ATA--TCAACTA
1 TATAGTATATATATAGGTCATATGTAAACCA
*
4601906 TAGTA-TATATATATAGGTCATATGTAAACTA
1 TA-TAGTATATATATAGGTCATATGTAAACCA
*
4601937 TATAGTTTATATATATAGTTCATATGTAAA-C-
1 TATAG--TATATATATAGGTCATATGTAAACCA
*
4601968 TATAGTTTATAT
1 TATAGTATATAT
4601980 GTAAATATTA
Statistics
Matches: 77, Mismatches: 6, Indels: 28
0.69 0.05 0.25
Matches are distributed among these distances:
22 7 0.09
23 2 0.03
24 9 0.12
25 1 0.01
28 1 0.01
29 15 0.19
30 2 0.03
31 18 0.23
33 22 0.29
ACGTcount: A:0.42, C:0.07, G:0.10, T:0.41
Consensus pattern (31 bp):
TATAGTATATATATAGGTCATATGTAAACCA
Found at i:4601941 original size:33 final size:33
Alignment explanation
Indices: 4601904--4601971 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 33
4601894 AAATATCAAC
4601904 TATAGTATATATATATAGGTCATATGTAAACTA
1 TATAGTATATATATATAGGTCATATGTAAACTA
* *
4601937 TATAGTTTATATATATAGTTCATATGTAAACTA
1 TATAGTATATATATATAGGTCATATGTAAACTA
4601970 TA
1 TA
4601972 GTTTATATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.41, C:0.06, G:0.10, T:0.43
Consensus pattern (33 bp):
TATAGTATATATATATAGGTCATATGTAAACTA
Found at i:4601973 original size:18 final size:18
Alignment explanation
Indices: 4601950--4602026 Score: 73
Period size: 18 Copynumber: 3.9 Consensus size: 18
4601940 AGTTTATATA
4601950 TATAGTTCATATGTAAAC
1 TATAGTTCATATGTAAAC
*
4601968 TATAGTTTATATGTAAATATTAAC
1 TATAGTTCATATG----TA--AAC
*
4601992 TATAGTTTATATGTAAAC
1 TATAGTTCATATGTAAAC
*
4602010 TATAGTTCATATATAAA
1 TATAGTTCATATGTAAA
4602027 TATCAACCTT
Statistics
Matches: 50, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
18 30 0.60
20 2 0.04
22 2 0.04
24 16 0.32
ACGTcount: A:0.42, C:0.06, G:0.09, T:0.43
Consensus pattern (18 bp):
TATAGTTCATATGTAAAC
Found at i:4601997 original size:42 final size:42
Alignment explanation
Indices: 4601950--4602029 Score: 133
Period size: 42 Copynumber: 1.9 Consensus size: 42
4601940 AGTTTATATA
* *
4601950 TATAGTTCATATGTAAACTATAGTTTATATGTAAATATTAAC
1 TATAGTTCATATGTAAACTATAGTTCATATATAAATATTAAC
*
4601992 TATAGTTTATATGTAAACTATAGTTCATATATAAATAT
1 TATAGTTCATATGTAAACTATAGTTCATATATAAATAT
4602030 CAACCTTAGT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.44
Consensus pattern (42 bp):
TATAGTTCATATGTAAACTATAGTTCATATATAAATATTAAC
Found at i:4602045 original size:42 final size:42
Alignment explanation
Indices: 4601950--4602045 Score: 124
Period size: 42 Copynumber: 2.3 Consensus size: 42
4601940 AGTTTATATA
* * *
4601950 TATAGT-TCATATGTAAACTATAGTTTATATGTAAATATTAAC
1 TATAGTAT-ATATGTAAACTATAGTTCATATATAAATATCAAC
*
4601992 TATAGTTTATATGTAAACTATAGTTCATATATAAATATCAACC
1 TATAGTATATATGTAAACTATAGTTCATATATAAATATCAA-C
4602035 T-TAGTATATAT
1 TATAGTATATAT
4602046 ATATTTATAT
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
42 45 0.94
43 3 0.06
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.43
Consensus pattern (42 bp):
TATAGTATATATGTAAACTATAGTTCATATATAAATATCAAC
Found at i:4602096 original size:18 final size:17
Alignment explanation
Indices: 4602051--4602096 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
4602041 TATATATATT
4602051 TATATATATAGTTCATA
1 TATATATATAGTTCATA
* *
4602068 TGTAAACTATAGTTCATA
1 TATATA-TATAGTTCATA
4602086 TATATAGTATA
1 TATATA-TATA
4602097 TAAATATAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
17 4 0.17
18 19 0.83
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.43
Consensus pattern (17 bp):
TATATATATAGTTCATA
Found at i:4602107 original size:33 final size:32
Alignment explanation
Indices: 4602070--4602136 Score: 107
Period size: 33 Copynumber: 2.1 Consensus size: 32
4602060 AGTTCATATG
*
4602070 TAAACTATAGTTCATATATATAGTATATAAATA
1 TAAACTATAGTTCATATAAATAGTATA-AAATA
*
4602103 TAAACTATAGTTTATATAAATAGTATAAAATA
1 TAAACTATAGTTCATATAAATAGTATAAAATA
4602135 TA
1 TA
4602137 GTATATAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 7 0.22
33 25 0.78
ACGTcount: A:0.51, C:0.04, G:0.06, T:0.39
Consensus pattern (32 bp):
TAAACTATAGTTCATATAAATAGTATAAAATA
Found at i:4602136 original size:25 final size:23
Alignment explanation
Indices: 4602087--4602147 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 23
4602077 TAGTTCATAT
4602087 ATATAGTATAT-AA-A-TATAAA
1 ATATAGTATATAAATAGTATAAA
*
4602107 CTATAGTTTATATAAATAGTATAAA
1 ATATAG--TATATAAATAGTATAAA
4602132 ATATAGTATATAAATA
1 ATATAGTATATAAATA
4602148 TAAATATAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
20 5 0.15
22 5 0.15
23 12 0.35
24 1 0.03
25 11 0.32
ACGTcount: A:0.54, C:0.02, G:0.07, T:0.38
Consensus pattern (23 bp):
ATATAGTATATAAATAGTATAAA
Found at i:4602139 original size:12 final size:13
Alignment explanation
Indices: 4602100--4602149 Score: 59
Period size: 13 Copynumber: 3.8 Consensus size: 13
4602090 TAGTATATAA
4602100 ATATAAACTATAGT
1 ATATAAA-TATAGT
*
4602114 TTATATAA-ATAGT
1 ATATA-AATATAGT
4602127 ATA-AAATATAGT
1 ATATAAATATAGT
4602139 ATATAAATATA
1 ATATAAATATA
4602150 AATATAAACC
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
11 2 0.06
12 9 0.29
13 14 0.45
14 4 0.13
15 2 0.06
ACGTcount: A:0.54, C:0.02, G:0.06, T:0.38
Consensus pattern (13 bp):
ATATAAATATAGT
Found at i:4602253 original size:17 final size:17
Alignment explanation
Indices: 4602218--4602268 Score: 66
Period size: 17 Copynumber: 2.9 Consensus size: 17
4602208 AATAAACTAT
4602218 ATAATTTATACAATATAC
1 ATAATTTATA-AATATAC
* *
4602236 ATTATTTATAAGTATAC
1 ATAATTTATAAATATAC
*
4602253 ATAATATATAAATATA
1 ATAATTTATAAATATA
4602269 AATTGTATAG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
17 19 0.68
18 9 0.32
ACGTcount: A:0.51, C:0.06, G:0.02, T:0.41
Consensus pattern (17 bp):
ATAATTTATAAATATAC
Found at i:4602309 original size:13 final size:11
Alignment explanation
Indices: 4602274--4602311 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
4602264 ATATAAATTG
*
4602274 TATAGTTTATA
1 TATAATTTATA
*
4602285 TATAATTCATA
1 TATAATTTATA
4602296 TATAATTTATA
1 TATAATTTATA
4602307 TATAA
1 TATAA
4602312 ACTATGTAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (11 bp):
TATAATTTATA
Found at i:4602397 original size:27 final size:28
Alignment explanation
Indices: 4602352--4602412 Score: 79
Period size: 27 Copynumber: 2.2 Consensus size: 28
4602342 TTGTATAAAC
* **
4602352 TATATAATATTATAGTTTATACATGGTA
1 TATATAATATTATACTTTATACATAATA
*
4602380 TATATAGT-TTATACTTTATACATAATA
1 TATATAATATTATACTTTATACATAATA
4602407 TATATA
1 TATATA
4602413 TAAACTATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 22 0.76
28 7 0.24
ACGTcount: A:0.41, C:0.05, G:0.07, T:0.48
Consensus pattern (28 bp):
TATATAATATTATACTTTATACATAATA
Found at i:4602411 original size:2 final size:2
Alignment explanation
Indices: 4602404--4602513 Score: 96
Period size: 2 Copynumber: 53.0 Consensus size: 2
4602394 TTTATACATA
* * * *
4602404 AT AT AT AT AT AA ACT AT AT AGT TT TT AT AT AT A- AT AC AT AT ACT
1 AT AT AT AT AT AT A-T AT AT A-T AT AT AT AT AT AT AT AT AT AT A-T
* * *
4602448 TT AT AT AT AA ACT AT AT AGT TT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT A-T AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT
*
4602492 AT AT AT AT AT AT AT AT CT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
4602514 TAGTTGTTTT
Statistics
Matches: 88, Mismatches: 14, Indels: 12
0.77 0.12 0.11
Matches are distributed among these distances:
1 1 0.01
2 82 0.93
3 5 0.06
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4602412 original size:20 final size:19
Alignment explanation
Indices: 4602352--4602513 Score: 107
Period size: 20 Copynumber: 8.2 Consensus size: 19
4602342 TTGTATAAAC
4602352 TATATAATAT-TATAGTTTA
1 TATATAATATATATA-TTTA
* **
4602371 TACATGGTATATATAGTTTA
1 TATATAATATATATA-TTTA
* * *
4602391 TACT-TTATACATA-ATATA
1 TA-TATAATATATATATTTA
*
4602409 TATATAAACTATATAGTTTTTA
1 TATAT-AA-TATATA-TATTTA
*
4602431 TATATAATACATATACTTTA
1 TATATAATATATATA-TTTA
4602451 TATATAA-ACTATATAGTTTA
1 TATATAATA-TATATA-TTTA
*
4602471 TATATATATATATATATATA
1 TATATA-ATATATATATTTA
*
4602491 TATATATATATATATATCTA
1 TATATA-ATATATATATTTA
4602511 TAT
1 TAT
4602514 TAGTTGTTTT
Statistics
Matches: 114, Mismatches: 18, Indels: 21
0.75 0.12 0.14
Matches are distributed among these distances:
17 1 0.01
18 6 0.05
19 11 0.10
20 78 0.68
21 9 0.08
22 9 0.08
ACGTcount: A:0.43, C:0.05, G:0.04, T:0.48
Consensus pattern (19 bp):
TATATAATATATATATTTA
Found at i:4602791 original size:20 final size:18
Alignment explanation
Indices: 4602766--4602802 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
4602756 CTTATTTCTA
4602766 TTTTTAAATTGGGTCATAAC
1 TTTTTAAA-TGGGT-ATAAC
4602786 TTTTTAAATGGGTATAA
1 TTTTTAAATGGGTATAA
4602803 TTTAGTACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.32, C:0.05, G:0.16, T:0.46
Consensus pattern (18 bp):
TTTTTAAATGGGTATAAC
Found at i:4602901 original size:209 final size:213
Alignment explanation
Indices: 4602534--4603351 Score: 1271
Period size: 209 Copynumber: 3.8 Consensus size: 213
4602524 AATATTTTTT
* *
4602534 CTCA-ACTTATTACTTATTTCTATTTATT-AATTGGCCTATAACTTTTTAAATGAGTATAATTTA
1 CTCATACTTATTACTTATTTCTATTT-TTAAATTGGCCCATAACTTTTTAAATGGGTATAATTTA
4602597 GTACATTTTTGTATTAATTTCAACCTCAAAATTTAAAATTATTTCGATTTGATCCCT-T-T-TGT
65 GTACATTTTTGTATTAATTTCAACCTCAAAATTTAAAATTATTTCGATTTGATCCCTATATGTGT
4602659 GTTGTTTAATATATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTT
130 GTTGTTTAATATATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTT
**
4602724 TATTTGCACCTGAAATTGA
195 TATTTGCATATGAAATTGA
* **
4602743 CTCATATTTATTACTTATTTCTATTTTTAAATTGGGTCATAACTTTTTAAATGGGTATAATTTAG
1 CTCATACTTATTACTTATTTCTATTTTTAAATTGGCCCATAACTTTTTAAATGGGTATAATTTAG
*
4602808 TAC-TTTTTGTATTAATTTCAACCTCAAAATTTAAAATTATTTCTATTTGATCCCT-T-T-TGTG
66 TACATTTTTGTATTAATTTCAACCTCAAAATTTAAAATTATTTCGATTTGATCCCTATATGTGTG
4602869 TTGTTTAATATATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTTT
131 TTGTTTAATATATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTTT
*
4602934 ATATGCATATGAAATTGA
196 ATTTGCATATGAAATTGA
*
4602952 CCCATACTTATTACTTATTTCTATTTTTAAATTGGCCCATAACTTTTTAAATGGGTATAATTTAG
1 CTCATACTTATTACTTATTTCTATTTTTAAATTGGCCCATAACTTTTTAAATGGGTATAATTTAG
* ** *
4603017 TACTTTTTTGTATTAATTTCAACAGCACAATTTAAAATTATTTCGATTTGATCCCTCATCAATGT
66 TACATTTTTGTATTAATTTCAACCTCAAAATTTAAAATTATTTCGATTTGATCCCT-AT--ATGT
* *
4603082 GTGTTGTTTAATTTATTTAAATTTTT-GTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAAT
128 GTGTTGTTTAATATATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAAT
4603146 TTTATTTGCATATGAAATTGA
193 TTTATTTGCATATGAAATTGA
* * *
4603167 -TCCATACTTATTACTTAATTCTATTTTTTTAATTGGCCCATAACTTTTTACATGGGTATAATTT
1 CT-CATACTTATTACTTATTTCTA-TTTTTAAATTGGCCCATAACTTTTTAAATGGGTATAATTT
** *
4603231 AGTATTTTTTTGTATTAATTTCAACCTCACAATTTAAAATTATTTCGATTTGATCCCTCATCAAT
64 AGTACATTTTTGTATTAATTTCAACCTCAAAATTTAAAATTATTTCGATTTGATCCCT-AT--AT
*
4603296 GTGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTA
126 GTGTGTTGTTTAATATATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTA
4603352 ATTCTTAAAT
Statistics
Matches: 569, Mismatches: 28, Indels: 16
0.93 0.05 0.03
Matches are distributed among these distances:
209 207 0.36
210 103 0.18
212 1 0.00
215 78 0.14
216 154 0.27
217 26 0.05
ACGTcount: A:0.29, C:0.12, G:0.09, T:0.50
Consensus pattern (213 bp):
CTCATACTTATTACTTATTTCTATTTTTAAATTGGCCCATAACTTTTTAAATGGGTATAATTTAG
TACATTTTTGTATTAATTTCAACCTCAAAATTTAAAATTATTTCGATTTGATCCCTATATGTGTG
TTGTTTAATATATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTTT
ATTTGCATATGAAATTGA
Found at i:4603669 original size:16 final size:16
Alignment explanation
Indices: 4603628--4603669 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
4603618 TGAATTGTTT
*
4603628 TGACCTGAACTGGAAA
1 TGACCTGAACTGAAAA
*
4603644 CGATCC-GAACTGAAAA
1 TGA-CCTGAACTGAAAA
4603660 TGACCTGAAC
1 TGACCTGAAC
4603670 CCGATATGGA
Statistics
Matches: 21, Mismatches: 3, Indels: 4
0.75 0.11 0.14
Matches are distributed among these distances:
15 2 0.10
16 17 0.81
17 2 0.10
ACGTcount: A:0.38, C:0.24, G:0.21, T:0.17
Consensus pattern (16 bp):
TGACCTGAACTGAAAA
Found at i:4608863 original size:23 final size:23
Alignment explanation
Indices: 4608806--4608863 Score: 55
Period size: 23 Copynumber: 2.4 Consensus size: 23
4608796 TTTAAAATTT
4608806 TATAAAATGATAAATTTATAAAGAA
1 TATAAAA--ATAAATTTATAAAGAA
* *
4608831 TATAATAATAAA-TTATAAATTAA
1 TATAAAAATAAATTTATAAA-GAA
*
4608854 TTTAAAAATA
1 TATAAAAATA
4608864 TAAAAAATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
22 7 0.25
23 15 0.54
25 6 0.21
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.36
Consensus pattern (23 bp):
TATAAAAATAAATTTATAAAGAA
Found at i:4609080 original size:23 final size:23
Alignment explanation
Indices: 4609033--4609082 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
4609023 AATAACATAT
* **
4609033 TAGGTAACGCTTATATAATGTAA
1 TAGGTAACGATTATATAATAAAA
*
4609056 TAGGTAGCGATTATATAATAAAA
1 TAGGTAACGATTATATAATAAAA
4609079 TAGG
1 TAGG
4609083 CATTTAACCG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.42, C:0.06, G:0.20, T:0.32
Consensus pattern (23 bp):
TAGGTAACGATTATATAATAAAA
Found at i:4609142 original size:87 final size:87
Alignment explanation
Indices: 4608996--4609158 Score: 299
Period size: 87 Copynumber: 1.9 Consensus size: 87
4608986 TATGTTATAT
*
4608996 CATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAATAGGT
1 CATTTAACCGAAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAATAGGT
4609061 AGCGATTATATAATAAAATAGG
66 AGCGATTATATAATAAAATAGG
*
4609083 CATTTAACCGAAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGT
1 CATTTAACCGAAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAATAGGT
*
4609148 AGCGCTTATAT
66 AGCGATTATAT
4609159 TGACCTATTT
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
87 73 1.00
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.32
Consensus pattern (87 bp):
CATTTAACCGAAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAATAGGT
AGCGATTATATAATAAAATAGG
Found at i:4609561 original size:199 final size:197
Alignment explanation
Indices: 4609185--4609753 Score: 749
Period size: 199 Copynumber: 2.9 Consensus size: 197
4609175 TAAACCGGTA
* * *
4609185 ACATTGCAAATTTATCTATTACATTATAATTATCGGTTTCGATGTTTTTTGGATCGATACAATTT
1 ACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATAC--TTT
* *
4609250 T-A-AATGTATTGACACTTTATGCGTGCACCTCGTTGGGCATTCATTCTGGA-AACAAGTATCGA
64 TAATAATGTATCGACACTTTATGCGTGCACCTCGTTTGGCATTCATTCTGGACAACAAGTATCGA
*
4609312 CACAAACTTAAAGAGTGTCGATACATTAT-TTAGACCTATTTTTTCATAAAACCGGTAAATTTCT
129 CACAAA-TTAAA-AGTGTCGATACATTATGTT-GACCTATTTTTTCATAAAACCGATAAATTTCT
4609376 ATCGGGT
191 ATCGGGT
* *
4609383 ACATTGTAAATTTACCTATCACATTGTAATTATCGGTTTCGATGTTTTTGGGATCGATACTTTTA
1 ACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACTTTTA
* ** *
4609448 ATATATGTATCGACACTTTATGCGTGTACC-CGTTTGAAATTCATTATGGACAA-AATGTATCGA
66 ATA-ATGTATCGACACTTTATGCGTGCACCTCGTTTGGCATTCATTCTGGACAACAA-GTATCGA
* * * * *
4609511 CACAAATTTAATAAGTGTCAATACTTTATGATGACCTATTTTTTCATAAAACCGATATATTTTTA
129 CACAAA-TTAA-AAGTGTCGATACATTATGTTGACCTATTTTTTCATAAAACCGATAAATTTCTA
*
4609576 TCGGTT
192 TCGGGT
* *
4609582 ACATTGTAAATTTACAC-ATTACATTATAATAATCGGTTTTGAT-TTTATTGGGATCGATACTTT
1 ACATTGTAAATTTAC-CTATTACATTATAATTATCGGTTTCGATGTTT-TTGGGATCGATACTTT
*
4609645 TAATAATTGTATCGACACTTTATGCGTGCACCTCGTTTGGGCATTCATTCTGGACAATAAGTATC
64 TAATAA-TGTATCGACACTTTATGCGTGCACCTCGTTT-GGCATTCATTCTGGACAACAAGTATC
*
4609710 AACACAAATTACACAAGTGTCGATACATTATGTTGACCTATTTT
127 GACACAAATTA-A-AAGTGTCGATACATTATGTTGACCTATTTT
4609754 CTAATTAACC
Statistics
Matches: 325, Mismatches: 32, Indels: 25
0.85 0.08 0.07
Matches are distributed among these distances:
196 4 0.01
197 1 0.00
198 78 0.24
199 174 0.54
200 11 0.03
201 55 0.17
202 2 0.01
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.39
Consensus pattern (197 bp):
ACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACTTTTA
ATAATGTATCGACACTTTATGCGTGCACCTCGTTTGGCATTCATTCTGGACAACAAGTATCGACA
CAAATTAAAAGTGTCGATACATTATGTTGACCTATTTTTTCATAAAACCGATAAATTTCTATCGG
GT
Found at i:4613507 original size:28 final size:26
Alignment explanation
Indices: 4613476--4613533 Score: 80
Period size: 28 Copynumber: 2.2 Consensus size: 26
4613466 TAATTCTTTC
*
4613476 TTTTCAAAATTTTTATATATACTTATT
1 TTTTCAAAATATTTATATATA-TTATT
*
4613503 ATTTTCATAATATTTATATATATTATT
1 -TTTTCAAAATATTTATATATATTATT
4613530 TTTT
1 TTTT
4613534 ATTAATGATT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 4 0.14
27 5 0.18
28 19 0.68
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (26 bp):
TTTTCAAAATATTTATATATATTATT
Found at i:4615222 original size:27 final size:26
Alignment explanation
Indices: 4615191--4615256 Score: 78
Period size: 27 Copynumber: 2.5 Consensus size: 26
4615181 CATTCACATA
*
4615191 TTTACATTTGCATTTGCATTTTGCATT
1 TTTACATTTGCATTTACATTTT-CATT
* * *
4615218 TTTACGTTTGTATTTATATTTTCATT
1 TTTACATTTGCATTTACATTTTCATT
*
4615244 TTTGCATTTGCAT
1 TTTACATTTGCAT
4615257 CTTTTTATAA
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
26 14 0.44
27 18 0.56
ACGTcount: A:0.18, C:0.12, G:0.11, T:0.59
Consensus pattern (26 bp):
TTTACATTTGCATTTACATTTTCATT
Found at i:4617994 original size:8 final size:8
Alignment explanation
Indices: 4617979--4618142 Score: 140
Period size: 8 Copynumber: 20.8 Consensus size: 8
4617969 TATACTTGAA
4617979 AAAAAAGG
1 AAAAAAGG
*
4617987 AGAAAAGG
1 AAAAAAGG
4617995 AAAAAAGG
1 AAAAAAGG
*
4618003 AAAAAAGAA
1 AAAAAAG-G
*
4618012 AAAAAATG
1 AAAAAAGG
4618020 AAAAAA-G
1 AAAAAAGG
*
4618027 AAAAAAAG
1 AAAAAAGG
*
4618035 AAAAAAAG
1 AAAAAAGG
*
4618043 AAAAAAAG
1 AAAAAAGG
*
4618051 AAAAAAAG
1 AAAAAAGG
*
4618059 AAAAAAAG
1 AAAAAAGG
*
4618067 AAAAAAAG
1 AAAAAAGG
*
4618075 AAAAAAAG
1 AAAAAAGG
*
4618083 AAAAAAAG
1 AAAAAAGG
4618091 AAAAAA-G
1 AAAAAAGG
4618098 AAAAAA--
1 AAAAAAGG
*
4618104 AAAAAA-A
1 AAAAAAGG
*
4618111 AAAAAAGAA
1 AAAAAAG-G
*
4618120 AAAAAAGA
1 AAAAAAGG
4618128 AAAAAAGGG
1 AAAAAA-GG
4618137 AAAAAA
1 AAAAAA
4618143 TTGAATCAAG
Statistics
Matches: 144, Mismatches: 6, Indels: 11
0.89 0.04 0.07
Matches are distributed among these distances:
6 6 0.04
7 20 0.14
8 97 0.67
9 21 0.15
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.01
Consensus pattern (8 bp):
AAAAAAGG
Found at i:4618016 original size:24 final size:24
Alignment explanation
Indices: 4617978--4618142 Score: 214
Period size: 24 Copynumber: 7.0 Consensus size: 24
4617968 TTATACTTGA
* *
4617978 AAAAAAAGGAGAAAAGGAAAAAAG
1 AAAAAAAGAAAAAAAGGAAAAAAG
* *
4618002 GAAAAAAGAAAAAAAATGAAAAAAG
1 AAAAAAAG-AAAAAAAGGAAAAAAG
*
4618027 AAAAAAAGAAAAAAAGAAAAAAAG
1 AAAAAAAGAAAAAAAGGAAAAAAG
*
4618051 AAAAAAAGAAAAAAAGAAAAAAAG
1 AAAAAAAGAAAAAAAGGAAAAAAG
4618075 AAAAAAAGAAAAAAA-GAAAAAAG
1 AAAAAAAGAAAAAAAGGAAAAAAG
4618098 -AAAAAA-AAAAAAA--AAAAAAG
1 AAAAAAAGAAAAAAAGGAAAAAAG
4618118 AAAAAAAAGAAAAAAAGGGAAAAAA
1 -AAAAAAAGAAAAAAA-GGAAAAAA
4618143 TTGAATCAAG
Statistics
Matches: 126, Mismatches: 8, Indels: 12
0.86 0.05 0.08
Matches are distributed among these distances:
20 7 0.06
21 7 0.06
22 12 0.10
23 14 0.11
24 60 0.48
25 20 0.16
26 6 0.05
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.01
Consensus pattern (24 bp):
AAAAAAAGAAAAAAAGGAAAAAAG
Found at i:4618141 original size:16 final size:16
Alignment explanation
Indices: 4617978--4618134 Score: 216
Period size: 16 Copynumber: 10.0 Consensus size: 16
4617968 TTATACTTGA
* *
4617978 AAAAAAAGGAGAAAAG
1 AAAAAAAGAAAAAAAG
* *
4617994 GAAAAAAGGAAAAAAG
1 AAAAAAAGAAAAAAAG
4618010 AAAAAAA-ATGAAAAAAG
1 AAAAAAAGA--AAAAAAG
4618027 AAAAAAAGAAAAAAAG
1 AAAAAAAGAAAAAAAG
4618043 AAAAAAAGAAAAAAAG
1 AAAAAAAGAAAAAAAG
4618059 AAAAAAAGAAAAAAAG
1 AAAAAAAGAAAAAAAG
4618075 AAAAAAAGAAAAAAAG
1 AAAAAAAGAAAAAAAG
4618091 -AAAAAAGAAAAAAA-
1 AAAAAAAGAAAAAAAG
*
4618105 AAAAAAA-AAAAAGA-
1 AAAAAAAGAAAAAAAG
4618119 AAAAAAAGAAAAAAAG
1 AAAAAAAGAAAAAAAG
4618135 GGAAAAAATT
Statistics
Matches: 129, Mismatches: 6, Indels: 12
0.88 0.04 0.08
Matches are distributed among these distances:
14 13 0.10
15 26 0.20
16 75 0.58
17 14 0.11
18 1 0.01
ACGTcount: A:0.85, C:0.00, G:0.14, T:0.01
Consensus pattern (16 bp):
AAAAAAAGAAAAAAAG
Found at i:4618142 original size:1 final size:1
Alignment explanation
Indices: 4618003--4618133 Score: 127
Period size: 1 Copynumber: 131.0 Consensus size: 1
4617993 GGAAAAAAGG
* ** * * * * * *
4618003 AAAAAAGAAAAAAAATGAAAAAAGAAAAAAAGAAAAAAAGAAAAAAAGAAAAAAAGAAAAAAAGA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * *
4618068 AAAAAAGAAAAAAAGAAAAAAAGAAAAAAGAAAAAAAAAAAAAAAAAAAGAAAAAAAAGAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
4618133 A
1 A
4618134 GGGAAAAAAT
Statistics
Matches: 101, Mismatches: 29, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 101 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.01
Consensus pattern (1 bp):
A
Found at i:4621604 original size:75 final size:75
Alignment explanation
Indices: 4621482--4621652 Score: 200
Period size: 75 Copynumber: 2.3 Consensus size: 75
4621472 TTAACATATG
* * * * * *
4621482 TATCAGCAAATG-TTGGGTATGCTGAAAACCCCTTTCAATCAGAATCAGTAATGTTGATGCATTT
1 TATCAGCAAATGCTGGGGCATGCTAAAAACCCCTTTCAAACAGAATCAGGAATATTGATGCATTT
**
4621546 TGAACGTTTG
66 TGAACGTTCA
* * * * * *
4621556 TATTAGCCAATGCTGGGGCATGCTAAAAACCCTTTTCAAACATAATCAGGAATATTGGTGTATTT
1 TATCAGCAAATGCTGGGGCATGCTAAAAACCCCTTTCAAACAGAATCAGGAATATTGATGCATTT
4621621 TGAACGTTCA
66 TGAACGTTCA
*
4621631 TATCCGCAAATGCTGGGGCATG
1 TATCAGCAAATGCTGGGGCATG
4621653 ATGAAGGCCC
Statistics
Matches: 79, Mismatches: 17, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
74 10 0.13
75 69 0.87
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.32
Consensus pattern (75 bp):
TATCAGCAAATGCTGGGGCATGCTAAAAACCCCTTTCAAACAGAATCAGGAATATTGATGCATTT
TGAACGTTCA
Found at i:4622605 original size:54 final size:54
Alignment explanation
Indices: 4622521--4622624 Score: 172
Period size: 54 Copynumber: 1.9 Consensus size: 54
4622511 CATGACCAAA
* *
4622521 CATCTGAGAAGAAGCCACATGAAATGATGAATGTGTTGTCAAATGTTTTACAAG
1 CATCTGAGAAGAAGCCACAAGAAATAATGAATGTGTTGTCAAATGTTTTACAAG
* *
4622575 CATCTGAGCAGAAGCCACAAGAAATAATGAATGTGTTGTCAAGTGTTTTA
1 CATCTGAGAAGAAGCCACAAGAAATAATGAATGTGTTGTCAAATGTTTTA
4622625 AGAACTAGTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 46 1.00
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.28
Consensus pattern (54 bp):
CATCTGAGAAGAAGCCACAAGAAATAATGAATGTGTTGTCAAATGTTTTACAAG
Found at i:4623669 original size:123 final size:122
Alignment explanation
Indices: 4623525--4623975 Score: 584
Period size: 123 Copynumber: 3.7 Consensus size: 122
4623515 TGGATCAGCA
*
4623525 TTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGA
1 TTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGA
* * *
4623590 AGAGCTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAGCATTAAC
66 AGAACTTGTTCAACCTTTTGCTTGACTCTATCACAGAAGGAGATAGATCAGCA-CAAC
* *
4623648 TTTTCTAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGG-AGAAGAAGTTCACAATGAG
1 TTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAGTTCATAATGAG
* * * * ** * * * *
4623712 AAGAACTTGTTCAACTTTTTACTTTAAT-TCATCACCCAATGGA-TTAGCATTACCACCAC
65 AAGAACTTGTTCAACCTTTTGCTTGACTCT-ATCACAGAA-GGAGATAG-ATCAGCACAAC
* * * *
4623771 TTTTCCAGAGGAAGTTTATAGTGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTCCATAATGAGA
1 TTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGA
*
4623836 AGAACTTGTTCAACCTTTTGCTTGACTCTATCACAGAAAGAGATAGATCAGCACCAAC
66 AGAACTTGTTCAACCTTTTGCTTGACTCTATCACAGAAGGAGATAGATCAGCA-CAAC
* * * * *
4623894 ATTTCCAGATAAAATTCATAATGAGAAGAACTTATCTGGAGAGGAAGAAGAAGTTCATAATGAGA
1 TTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGA
*
4623959 AGAACTTGTTCGACCTT
66 AGAACTTGTTCAACCTT
4623976 AGCTTGATTC
Statistics
Matches: 277, Mismatches: 43, Indels: 16
0.82 0.13 0.05
Matches are distributed among these distances:
122 11 0.04
123 254 0.92
124 12 0.04
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.26
Consensus pattern (122 bp):
TTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGA
AGAACTTGTTCAACCTTTTGCTTGACTCTATCACAGAAGGAGATAGATCAGCACAAC
Found at i:4623848 original size:246 final size:237
Alignment explanation
Indices: 4623407--4624409 Score: 809
Period size: 246 Copynumber: 4.4 Consensus size: 237
4623397 CTTGATGGAT
* * *
4623407 CAACATTTCCAGATAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAGGAAGTTCATAA
1 CAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAA
* * * * * *
4623472 TAAGAAGAACTTGTTCAACCTTTCGCTCGAATCCATCAATTGATGGATCAGCATTTTCCAGAGAA
66 TGAGAAGAACTTGTTCAACCTTTCACTCGAATCCACCAATGGATGCATCACCATTTTCCAGAGAA
* * *
4623537 AGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCA
131 AGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTCCATAATGAGAAGAACTTGTTCA
* *
4623602 ACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAGCAT
196 ACCTTTTGCATGACTCTATCACAGAAAGAGATAGATCAGCAC
* * * *
4623644 TAACTTTTCTAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGG-AGAAGAAGTTCACAA
1 CAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAA
* * **
4623708 TGAGAAGAACTTGTTCAACTTTTTACTTTAATTCATCACCCAATGGATTAGCATTACCACCACTT
66 TGAGAAGAACTTGTTCAACCTTTCACTCGAA-TC--CA-CCAATGGA-T-GCA-T--CACCA-TT
* * *
4623773 TTCCAGAGGAAGTTTATAGTGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTCCATAATGAGAAG
121 TTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTCCATAATGAGAAG
*
4623838 AACTTGTTCAACCTTTTGCTTGACTCTATCACAGAAAGAGATAGATCAGCAC
186 AACTTGTTCAACCTTTTGCATGACTCTATCACAGAAAGAGATAGATCAGCAC
* * * *
4623890 CAACATTTCCAGATAAAATTCATAATGAGAAGAACTTATCTGGAG-AGGAAGAAGAAGTTCATAA
1 CAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAA
* * * * * * ***
4623954 TGAGAAGAACTTGTTCGACC-TT-AGCTTGATTCATCACCTATGGA-G-TTGA--A--TGAAAGA
66 TGAGAAGAACTTGTTCAACCTTTCA-CTCGAATC--CACCAATGGATGCATCACCATTTTCCAGA
** * * ***** *
4624011 -AGAACCTCAT-TTGAG--G-A-TCAAC---ATTTTCAGAAGAAGTTCATAATGAGAAGAACTTG
128 GA-AAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTCCATAATGAGAAGAACTTG
* * *
4624067 TTCAACCTTTTGC-TCGAAT-TCATCAC---------TCGAT--GGAC
192 TTCAACCTTTTGCAT-GACTCT-ATCACAGAAAGAGATAGATCAGCAC
* * *
4624102 CATCATTGT-C-G-GAAGAGTTCAGAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
1 CAACATT-TCCAGAGAA-AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
*
4624164 AATGAGAAGAACTTGTTCAA-CTTT-AGCTTG-AT----CAATGGAT-CA--A-C-TTTTCCAG-
64 AATGAGAAGAACTTGTTCAACCTTTCA-CTCGAATCCACCAATGGATGCATCACCATTTTCCAGA
* * *
4624216 GTAGAGTTCATAATGAGAAGAACTCATCTGAAGA-TAAGAAGAAGTTCATAATGAGAAGAACTTG
128 G-AAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTCCATAATGAGAAGAACTTG
* * *
4624280 TTCAACCTTTTGCTTGACTCCATTTC-CAGAAAGAGATAGAGCAGCA-
192 TTCAACCTTTTGCATGACT-C-TATCACAGAAAGAGATAGATCAGCAC
* * * *
4624326 GAGCCATTTCCAG-GAAGAGTTCATAATGATAAGAACTCATCTGAAG-AGGAAAAAGAAGTTCAT
1 CA-ACATTTCCAGAGAA-AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
4624389 AATGAGAA-ATACTTGTTCAAC
64 AATGAGAAGA-ACTTGTTCAAC
4624410 ATTAATTTAA
Statistics
Matches: 620, Mismatches: 92, Indels: 119
0.75 0.11 0.14
Matches are distributed among these distances:
204 1 0.00
205 6 0.01
206 8 0.01
207 5 0.01
209 1 0.00
210 3 0.00
211 31 0.05
212 54 0.09
213 46 0.07
214 7 0.01
215 2 0.00
216 1 0.00
222 2 0.00
223 52 0.08
224 3 0.00
225 41 0.07
226 35 0.06
227 1 0.00
228 1 0.00
230 4 0.01
231 9 0.01
234 1 0.00
236 39 0.06
237 46 0.07
238 1 0.00
239 2 0.00
240 7 0.01
241 1 0.00
242 2 0.00
243 8 0.01
244 7 0.01
245 13 0.02
246 180 0.29
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.26
Consensus pattern (237 bp):
CAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAA
TGAGAAGAACTTGTTCAACCTTTCACTCGAATCCACCAATGGATGCATCACCATTTTCCAGAGAA
AGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTCCATAATGAGAAGAACTTGTTCA
ACCTTTTGCATGACTCTATCACAGAAAGAGATAGATCAGCAC
Found at i:4624168 original size:112 final size:104
Alignment explanation
Indices: 4624039--4624293 Score: 304
Period size: 101 Copynumber: 2.4 Consensus size: 104
4624029 CAACATTTTC
4624039 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCGAATTCATCACTCGATGGACCA
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTC---TTCATCA----ATGGACCA
*
4624104 TCATTGT-C-GGAAGAGTTCAGAATAAGAAGAACTCATCTGAAGAAGGA
59 AC-TTGTCCAGGAAGAGTTCAGAATAAGAAGAACTCATCTGAAG-A-GA
* * * *
4624151 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAA-CTTTAG--CTTGATCAATGGATCAACTTTTC
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCTTCATCAATGGACCAACTTGTC
* * * *
4624213 CAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGATA
66 CAGGAAGAGTTCAGAATAAGAAGAACTCATCTGAAGAGA
4624252 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCT
1 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCT
4624294 TGACTCCATT
Statistics
Matches: 128, Mismatches: 10, Indels: 18
0.82 0.06 0.12
Matches are distributed among these distances:
101 37 0.29
102 15 0.12
103 31 0.24
106 6 0.05
109 1 0.01
111 5 0.04
112 33 0.26
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.27
Consensus pattern (104 bp):
AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCTTCATCAATGGACCAACTTGTC
CAGGAAGAGTTCAGAATAAGAAGAACTCATCTGAAGAGA
Found at i:4624776 original size:3 final size:3
Alignment explanation
Indices: 4624762--4624823 Score: 56
Period size: 3 Copynumber: 21.0 Consensus size: 3
4624752 TGTCCCAACT
* *
4624762 TTA TTT TTA TTA TTA TTA -TA TT- TTA TTTA TTA TTT TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA
* * *
4624806 ATA TTA TTT TTA CTA TTA
1 TTA TTA TTA TTA TTA TTA
4624824 AATAATAAAT
Statistics
Matches: 46, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
2 4 0.09
3 39 0.85
4 3 0.07
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:4624810 original size:18 final size:18
Alignment explanation
Indices: 4624789--4624824 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
4624779 ATATTTTATT
*
4624789 TATTATTTTTATTATTAA
1 TATTATTTTTACTATTAA
4624807 TATTATTTTTACTATTAA
1 TATTATTTTTACTATTAA
4624825 ATAATAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (18 bp):
TATTATTTTTACTATTAA
Found at i:4626217 original size:23 final size:22
Alignment explanation
Indices: 4626191--4626273 Score: 73
Period size: 23 Copynumber: 3.7 Consensus size: 22
4626181 TATTGTAATT
*
4626191 TTATTTTGTTTTTATTACTTTCA
1 TTATTTT-TTATTATTACTTTCA
*
4626214 TTATTATTTTATTATTACTTTTA
1 TTATT-TTTTATTATTACTTTCA
* *
4626237 -TA-TTTTAATTATTGCTTT-A
1 TTATTTTTTATTATTACTTTCA
4626256 GTTATTATTTTATTATTA
1 -TTATT-TTTTATTATTA
4626274 TTTTTATCTT
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
19 1 0.02
20 13 0.27
21 3 0.06
22 3 0.06
23 27 0.55
24 2 0.04
ACGTcount: A:0.24, C:0.05, G:0.04, T:0.67
Consensus pattern (22 bp):
TTATTTTTTATTATTACTTTCA
Found at i:4626235 original size:12 final size:11
Alignment explanation
Indices: 4626202--4626277 Score: 68
Period size: 11 Copynumber: 6.9 Consensus size: 11
4626192 TATTTTGTTT
*
4626202 TTATTACTTTCA
1 TTATTA-TTTTA
4626214 TTATTATTTTA
1 TTATTATTTTA
4626225 TTATTACTTTTA
1 TTATTA-TTTTA
*
4626237 -TA-T-TTTAA
1 TTATTATTTTA
**
4626245 TTATTGCTTTA
1 TTATTATTTTA
4626256 GTTATTATTTTA
1 -TTATTATTTTA
4626268 TTATTATTTT
1 TTATTATTTT
4626278 TATCTTAGTC
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
8 4 0.08
9 2 0.04
10 2 0.04
11 25 0.47
12 20 0.38
ACGTcount: A:0.25, C:0.05, G:0.03, T:0.67
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:4628470 original size:33 final size:33
Alignment explanation
Indices: 4628433--4628532 Score: 182
Period size: 33 Copynumber: 3.0 Consensus size: 33
4628423 CCATCTCAAG
4628433 TTCACCCCTCAACACCTCAACTTCTTTCACCAC
1 TTCACCCCTCAACACCTCAACTTCTTTCACCAC
*
4628466 TTCACCCCTCAATACCTCAACTTCTTTCACCAC
1 TTCACCCCTCAACACCTCAACTTCTTTCACCAC
*
4628499 TTCACCCTTCAACACCTCAACTTCTTTCACCAC
1 TTCACCCCTCAACACCTCAACTTCTTTCACCAC
4628532 T
1 T
4628533 CCATCTATTT
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 64 1.00
ACGTcount: A:0.24, C:0.46, G:0.00, T:0.30
Consensus pattern (33 bp):
TTCACCCCTCAACACCTCAACTTCTTTCACCAC
Found at i:4628591 original size:21 final size:21
Alignment explanation
Indices: 4628566--4628609 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
4628556 TCCCTTATGC
4628566 CTCTCAAGTGTCTCTTCGACT
1 CTCTCAAGTGTCTCTTCGACT
*
4628587 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTGTCTCTTCGACT
4628608 CT
1 CT
4628610 TGATTGTCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.14, C:0.34, G:0.11, T:0.41
Consensus pattern (21 bp):
CTCTCAAGTGTCTCTTCGACT
Found at i:4630003 original size:15 final size:15
Alignment explanation
Indices: 4629977--4630024 Score: 51
Period size: 17 Copynumber: 3.0 Consensus size: 15
4629967 TTCAAACATC
4629977 CAAACAAATCCAAAAT
1 CAAAC-AATCCAAAAT
*
4629993 CTAACAATCCACAAAAT
1 CAAACAAT-C-CAAAAT
*
4630010 CAAACATTCCAAAAT
1 CAAACAATCCAAAAT
4630025 ATTCAAAATG
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
15 9 0.33
16 6 0.22
17 12 0.44
ACGTcount: A:0.56, C:0.27, G:0.00, T:0.17
Consensus pattern (15 bp):
CAAACAATCCAAAAT
Found at i:4630349 original size:12 final size:12
Alignment explanation
Indices: 4630332--4630357 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
4630322 TTGTTGTGCT
4630332 TGCTCCTCGGGC
1 TGCTCCTCGGGC
4630344 TGCTCCTCGGGC
1 TGCTCCTCGGGC
4630356 TG
1 TG
4630358 TTCAGGCTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.38, G:0.35, T:0.27
Consensus pattern (12 bp):
TGCTCCTCGGGC
Found at i:4635868 original size:22 final size:21
Alignment explanation
Indices: 4635826--4635865 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
4635816 GAGTTTATTT
*
4635826 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
4635847 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
4635866 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:4638281 original size:22 final size:23
Alignment explanation
Indices: 4638253--4638308 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 23
4638243 AACCTTCATT
4638253 TATAATAAAAT-TTATAATTTTA
1 TATAATAAAATATTATAATTTTA
* *
4638275 TATAATAACTATATTATCATTTTA
1 TATAATAA-AATATTATAATTTTA
*
4638299 TATAAAAAAA
1 TATAATAAAA
4638309 CGTTCTTGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
22 8 0.29
23 3 0.11
24 17 0.61
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.45
Consensus pattern (23 bp):
TATAATAAAATATTATAATTTTA
Found at i:4640464 original size:182 final size:182
Alignment explanation
Indices: 4640156--4641013 Score: 1132
Period size: 182 Copynumber: 4.7 Consensus size: 182
4640146 TACACGTACT
* * * * * * *
4640156 TATTAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTTGTCATTTCGAGACCG
1 TATTAAAGTATCGACACTTTCAATATATCTGGTCGCTCTATACCGGTTTTGTCCTTTAGATACCG
* *
4640221 GTTTTGTCATATTTTTACCTGTTATATCGTTGTGGACCGATACATTGTTATAAAATATCGACACT
66 GTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATTTTTATAAAATATCGACACT
* * **
4640286 TTATAGGCGCTAAAACTGTTTCTCTTTTAAATTCACAAAGTGTTTATACTTA
131 TTATAGGCGCTAAAATTGATTCTCTTTTAAATTCACAAAGTGTCGATACTTA
* *
4640338 TATTAAAATATCGACACTTTAAATATATCTGGTCGCTCTATACCGGTTTTGTCCTTTAGATACCG
1 TATTAAAGTATCGACACTTTCAATATATCTGGTCGCTCTATACCGGTTTTGTCCTTTAGATACCG
* * *
4640403 ATTTTGTCATATTTTTACCTGTTATATCGTTATGGATCGATACATTTTTATAAAGTATCGACACT
66 GTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATTTTTATAAAATATCGACACT
* *
4640468 TTATAGGCGCTAAAAATGCTTCTCTTTTAAATTCACAAAGTGTCGATACTTA
131 TTATAGGCGCTAAAATTGATTCTCTTTTAAATTCACAAAGTGTCGATACTTA
* * *
4640520 TATTAAAGTATCGACACTTTCAATATATTTGGTCGCTCTATAACGGTTTTGTCCTTTAGATACTG
1 TATTAAAGTATCGACACTTTCAATATATCTGGTCGCTCTATACCGGTTTTGTCCTTTAGATACCG
* *
4640585 GTTTTGTCATATTTTTACATGTTATATCGTTGTGGATCGATACATTGTTATAAAATATCGACACT
66 GTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATTTTTATAAAATATCGACACT
***
4640650 TTATAAAAGCTAAAATTGATTCTCTTTTAAATTCACAAAGTGTCGATACTTA
131 TTATAGGCGCTAAAATTGATTCTCTTTTAAATTCACAAAGTGTCGATACTTA
* * * * *
4640702 TATTAAAGTATCGACACTTTCAATATATTTGGTAACGC-CT-TACCCGATTTTGTCTTTTTGAGA
1 TATTAAAGTATCGACACTTTCAATATATCTGGT--CGCTCTATA-CCGGTTTTGTCCTTTAGATA
* * *
4640765 CCAGTTTTGTCATATTTTTACCTGTTATATCATTGTGGATCGATACATATTTATAAAGA-ATCGA
63 CCGGTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATTTTTATAAA-ATATCGA
* * *
4640829 CACTTTATAGGTGCTAAAATTGATTCTCCTTTAAATTCACAATGTGTCGATACTTA
127 CACTTTATAGGCGCTAAAATTGATTCTCTTTTAAATTCACAAAGTGTCGATACTTA
* * * * * * * * *
4640885 TATTAACGTATCGACACTTTTAATATATCCGGTAGCGT-TTTACCAGTTTTGTCTTTTCG-TGAT
1 TATTAAAGTATCGACACTTTCAATATATCTGGTCGC-TCTATACCGGTTTTGTCCTTTAGAT-AC
* * * * * *
4640948 CGGTTTTGTCATATTTTTTTCCTGTTATATTGATGTAGATCGATGCATTTTTATAAAATATTGAC
64 CGGTTTTGTCATA-TTTTTACCTGTTATATCGTTGTGGATCGATACATTTTTATAAAATATCGAC
4641013 A
128 A
4641014 TAAACCGACA
Statistics
Matches: 598, Mismatches: 68, Indels: 19
0.87 0.10 0.03
Matches are distributed among these distances:
181 2 0.00
182 395 0.66
183 197 0.33
184 4 0.01
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.42
Consensus pattern (182 bp):
TATTAAAGTATCGACACTTTCAATATATCTGGTCGCTCTATACCGGTTTTGTCCTTTAGATACCG
GTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATTTTTATAAAATATCGACACT
TTATAGGCGCTAAAATTGATTCTCTTTTAAATTCACAAAGTGTCGATACTTA
Found at i:4641731 original size:23 final size:23
Alignment explanation
Indices: 4641699--4641742 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
4641689 ATTTTAATTT
*
4641699 AATATATTTATTATTCTTTTTTA
1 AATATATTTATTATTATTTTTTA
* *
4641722 AATATTTTTATTTTTATTTTT
1 AATATATTTATTATTATTTTT
4641743 ATTTAAAAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.70
Consensus pattern (23 bp):
AATATATTTATTATTATTTTTTA
Found at i:4641759 original size:26 final size:26
Alignment explanation
Indices: 4641700--4641761 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
4641690 TTTTAATTTA
*
4641700 ATATATTTATTATTCTTTTTTAAATAT
1 ATATATTT-TTATTCTTTTTTAAAAAT
* *
4641727 TTTTATTTTTATT-TTTATTTAAAAAT
1 ATATATTTTTATTCTTT-TTTAAAAAT
4641753 ATATATTTT
1 ATATATTTT
4641762 ATGTTAAAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
25 3 0.10
26 20 0.69
27 6 0.21
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (26 bp):
ATATATTTTTATTCTTTTTTAAAAAT
Found at i:4642786 original size:25 final size:27
Alignment explanation
Indices: 4642758--4642812 Score: 80
Period size: 25 Copynumber: 2.1 Consensus size: 27
4642748 TGATAGATAA
4642758 AATCATGGT-ATAAAAACAAA-AG-AAC
1 AATCAT-GTCATAAAAACAAACAGAAAC
4642783 AATCATGTCATAAAAACAAACAGAAAC
1 AATCATGTCATAAAAACAAACAGAAAC
4642810 AAT
1 AAT
4642813 GCTTCAAAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
24 2 0.07
25 17 0.63
26 2 0.07
27 6 0.22
ACGTcount: A:0.60, C:0.15, G:0.09, T:0.16
Consensus pattern (27 bp):
AATCATGTCATAAAAACAAACAGAAAC
Found at i:4650557 original size:20 final size:19
Alignment explanation
Indices: 4650532--4650572 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
4650522 TCCGATATAA
*
4650532 AATAATGATTTAATTAAAAT
1 AATAATAATTT-ATTAAAAT
*
4650552 AATAATAATTTTTTAAAAT
1 AATAATAATTTATTAAAAT
4650571 AA
1 AA
4650573 AATTACATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.41
Consensus pattern (19 bp):
AATAATAATTTATTAAAAT
Found at i:4654317 original size:12 final size:12
Alignment explanation
Indices: 4654300--4654325 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
4654290 TTTATACCAA
4654300 TTCATTTGTTTT
1 TTCATTTGTTTT
4654312 TTCATTTGTTTT
1 TTCATTTGTTTT
4654324 TT
1 TT
4654326 TTTTCGGGTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.08, G:0.08, T:0.77
Consensus pattern (12 bp):
TTCATTTGTTTT
Found at i:4657195 original size:60 final size:60
Alignment explanation
Indices: 4657063--4657219 Score: 178
Period size: 60 Copynumber: 2.6 Consensus size: 60
4657053 AAACTATGGT
* *
4657063 TCTCATTCTAAATTAGTCCTCAAACTTTTGAACATTCTAATTCCATCCCTAAACTATGAC
1 TCTCATTCTAAATTAGTCCTCAAACATTTGAACATTCTAATTCCATCCCTAAACGATGAC
* * *
4657123 TCTCAATCTAAATTGGTACCT-AAACATTTGATCATTCTAAATT-CATCACC-AAACGATGA-
1 TCTCATTCTAAATTAGT-CCTCAAACATTTGAACATTCT-AATTCCATC-CCTAAACGATGAC
* * *
4657182 TCCTCATTTTAAATTAATCCTCAAACCTTTGAACATTC
1 T-CTCATTCTAAATTAGTCCTCAAACATTTGAACATTC
4657220 CAACATCATC
Statistics
Matches: 81, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
59 4 0.05
60 68 0.84
61 9 0.11
ACGTcount: A:0.34, C:0.25, G:0.06, T:0.36
Consensus pattern (60 bp):
TCTCATTCTAAATTAGTCCTCAAACATTTGAACATTCTAATTCCATCCCTAAACGATGAC
Found at i:4661562 original size:21 final size:21
Alignment explanation
Indices: 4661515--4661563 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
4661505 ATTAAAATAT
*
4661515 TTTTATAAATTTTCATTCAAA
1 TTTTATAAATTTTAATTCAAA
*
4661536 TATTTAT-AATTTTAATATTAAA
1 T-TTTATAAATTTTAAT-TCAAA
4661558 TTTTAT
1 TTTTAT
4661564 TTGTTAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
21 14 0.58
22 10 0.42
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (21 bp):
TTTTATAAATTTTAATTCAAA
Found at i:4661755 original size:18 final size:19
Alignment explanation
Indices: 4661720--4661756 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
4661710 TACGGAATGT
4661720 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
4661740 AAGATTACCA-GGGAATA
1 AAGATTACCAGGGGAATA
4661757 GAATTACTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:4662398 original size:20 final size:20
Alignment explanation
Indices: 4662373--4662410 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
4662363 TTTGGTTCAC
*
4662373 GGAATATAAGATTACCAGTG
1 GGAATAAAAGATTACCAGTG
4662393 GGAATAAAAGATTACCAG
1 GGAATAAAAGATTACCAG
4662411 GAAATAGGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.11, G:0.24, T:0.21
Consensus pattern (20 bp):
GGAATAAAAGATTACCAGTG
Found at i:4662416 original size:18 final size:19
Alignment explanation
Indices: 4662375--4662416 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
4662365 TGGTTCACGG
* *
4662375 AATATAAGATTACCAGTGGG
1 AATAAAAGATTACCAG-GGA
4662395 AATAAAAGATTACCA-GGA
1 AATAAAAGATTACCAGGGA
4662413 AATA
1 AATA
4662417 GGATTACTGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 6 0.30
20 14 0.70
ACGTcount: A:0.50, C:0.10, G:0.19, T:0.21
Consensus pattern (19 bp):
AATAAAAGATTACCAGGGA
Found at i:4662551 original size:660 final size:661
Alignment explanation
Indices: 4661692--4663017 Score: 2233
Period size: 661 Copynumber: 2.0 Consensus size: 661
4661682 ATACAATATT
* * * *
4661692 CCTAAGGTGCGTTTGGTTTACGGAATGTAAGATTACCAGTGGGAATAAAAGATTACCAGGGAATA
1 CCTAGGGTGCGTTTGGTTCACGGAATATAAGATTACCAGTGGGAATAAAAGATTACCAGGAAATA
* *
4661757 GAATTACTGGGAATGTTGTATTTTGTGTTTGGTTGGTTTAGCAGGAATGTAAGATTACCGTATTT
66 GAATTACTGGGAATGTTGTATTTTATGTTTGGTTGGTTTAACAGGAATGTAAGATTACCGTATTT
* *
4661822 GGTTAAAGGAATAAAAGATTATTGGAATGTATATTTGACCAAATTGTCCTTATTATATATTTATT
131 GGTTAAAGAAATAAAAGATTATTGAAATGTATATTTGACCAAATTGTCCTTATTATATATTTATT
* *
4661887 TTTTAACAAGTTGAAAAATATTTATATATTTTCTTT-AAAAAAATTAAATTCATAATATTTATAT
196 TTTTAACAAGTTGAAAAATATTTATATATTTTCTTTAAAAAAAAATAAATTCATAAAATTTATAT
* *
4661951 ATTTTTTTTACAAAATTGAAAATAAAAAAAAGTTTAATGAAAGGGTAAAATTTTATTTTAACCCC
261 AATTTTTTTACAAAATTGAAAATAAAAAAAAGTTTAATGAAAGGGTAAAATTTTAATTTAACCCC
* *
4662016 TGAACTTCATATAAAATTTTAATTATAGATTTTTTTTTATAAATCTAAAATAGTTTAAGGATAAA
326 TGAACTTCATATAAAATTTTAATTATAGACTTTTTTTTATAAATCTAAAATAGTTTAACGATAAA
*
4662081 TTTGTAATTTAACCTTCGTAGAATTTCTATTATTCAATGACAGAATAAGAATATTTTAGAAAGAA
391 TTTGTAATTTAACCTGCGTAGAATTTCTATTATTCAATGACAGAATAAGAATATTTTAGAAAGAA
* * *
4662146 AAACATTTTAAGGGCATTTTAGTCCAAAACACCGGTAATCCAACAATACCTAAGAAAAGGGAGGT
456 AAAAAATTTAAAGGCATTTTAGTCCAAAACACCGGTAATCCAACAATACCTAAGAAAAGGGAGGT
*
4662211 AATGGCATTCCCGGTAATAAAACCCAAAAAATACACTATTGGTAATGTAAGATTACAGGGAATGA
521 AATGACATTCCCGGTAATAAAACCCAAAAAATACACTATTGGTAATGTAAGATTACAGGGAATGA
4662276 CATTCCCAGCAAACCAAACGGGGAAATGTGGATTCCATTCCCATGGGAATCTCACATTCCCCCAA
586 CATTCCCAGCAAACCAAACGGGGAAATGTGGATTCCATTCCCATGGGAATCTCACATTCCCCCAA
**
4662341 CCAAATGCACC
651 CCAAACACACC
4662352 CCTAGGGTGCGTTTGGTTCACGGAATATAAGATTACCAGTGGGAATAAAAGATTACCAGGAAATA
1 CCTAGGGTGCGTTTGGTTCACGGAATATAAGATTACCAGTGGGAATAAAAGATTACCAGGAAATA
* * *
4662417 GGATTACTGGGAATGTTGTATTTTATGTTTGGTTGGTTTAACAGGAGTGTAAGATTACCGTGTTT
66 GAATTACTGGGAATGTTGTATTTTATGTTTGGTTGGTTTAACAGGAATGTAAGATTACCGTATTT
*
4662482 GGTTAAA-AAATAAAAGATTATTGAAATGTATATTTGATCAAATTGTCCTTATTATATATTTATT
131 GGTTAAAGAAATAAAAGATTATTGAAATGTATATTTGACCAAATTGTCCTTATTATATATTTA-T
4662546 TTTTTAACAAGTTGAAAAATATTTATATATTTTCTTTAAAAAAAAATAAATTCATAAAATTTATA
195 TTTTTAACAAGTTGAAAAATATTTATATATTTTCTTTAAAAAAAAATAAATTCATAAAATTTATA
* *
4662611 TAATTTTTTTACAAAATTGAAAATATAAAAAGGTTTAATGAAAGGGTAAAATTTTAATTTAACCC
260 TAATTTTTTTACAAAATTGAAAATAAAAAAAAGTTTAATGAAAGGGTAAAATTTTAATTTAACCC
* *
4662676 TTGAACTTCATATAAAATTTTAATTATAGACTTTTTTTTGTAAATCTAAAATAGTTTAACGATAA
325 CTGAACTTCATATAAAATTTTAATTATAGACTTTTTTTTATAAATCTAAAATAGTTTAACGATAA
* * *
4662741 ATTTGTAATTTAACCTGCGTAGAATTTTTATTATTCAATGACAGAATAAGGATATTTTTGAAAGA
390 ATTTGTAATTTAACCTGCGTAGAATTTCTATTATTCAATGACAGAATAAGAATATTTTAGAAAGA
* * * *
4662806 AAAAAAATTTAAAGGCATTTTAGTCCAAAACGCCGGTAATTCAACAATATCTAAGGAAAGGGAGG
455 AAAAAAATTTAAAGGCATTTTAGTCCAAAACACCGGTAATCCAACAATACCTAAGAAAAGGGAGG
* * * *
4662871 TAATGACATTCCCGGTAATATACCCCAAAAAATCCACTATTGGTAATGTAAGATTACCGGGAATG
520 TAATGACATTCCCGGTAATAAAACCCAAAAAATACACTATTGGTAATGTAAGATTACAGGGAATG
* * * *
4662936 ATATTCCCGGCCAACCAAACGGGGAAATGTGGATTCCATTCCCATGGGAATCTCACATTCCCCTA
585 ACATTCCCAGCAAACCAAACGGGGAAATGTGGATTCCATTCCCATGGGAATCTCACATTCCCCCA
4663001 ACCAAACACACC
650 ACCAAACACACC
4663013 CCTAG
1 CCTAG
4663018 AGTAATGTTA
Statistics
Matches: 620, Mismatches: 44, Indels: 3
0.93 0.07 0.00
Matches are distributed among these distances:
659 52 0.08
660 166 0.27
661 402 0.65
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.34
Consensus pattern (661 bp):
CCTAGGGTGCGTTTGGTTCACGGAATATAAGATTACCAGTGGGAATAAAAGATTACCAGGAAATA
GAATTACTGGGAATGTTGTATTTTATGTTTGGTTGGTTTAACAGGAATGTAAGATTACCGTATTT
GGTTAAAGAAATAAAAGATTATTGAAATGTATATTTGACCAAATTGTCCTTATTATATATTTATT
TTTTAACAAGTTGAAAAATATTTATATATTTTCTTTAAAAAAAAATAAATTCATAAAATTTATAT
AATTTTTTTACAAAATTGAAAATAAAAAAAAGTTTAATGAAAGGGTAAAATTTTAATTTAACCCC
TGAACTTCATATAAAATTTTAATTATAGACTTTTTTTTATAAATCTAAAATAGTTTAACGATAAA
TTTGTAATTTAACCTGCGTAGAATTTCTATTATTCAATGACAGAATAAGAATATTTTAGAAAGAA
AAAAAATTTAAAGGCATTTTAGTCCAAAACACCGGTAATCCAACAATACCTAAGAAAAGGGAGGT
AATGACATTCCCGGTAATAAAACCCAAAAAATACACTATTGGTAATGTAAGATTACAGGGAATGA
CATTCCCAGCAAACCAAACGGGGAAATGTGGATTCCATTCCCATGGGAATCTCACATTCCCCCAA
CCAAACACACC
Found at i:4666293 original size:15 final size:15
Alignment explanation
Indices: 4666273--4666506 Score: 387
Period size: 15 Copynumber: 15.6 Consensus size: 15
4666263 AGGGAAAACC
4666273 TTATGCAATTATAAG
1 TTATGCAATTATAAG
*
4666288 TTATGCAGTTATAAG
1 TTATGCAATTATAAG
*
4666303 TTATGCAGTTATAAG
1 TTATGCAATTATAAG
4666318 TTATGCAATTATAAG
1 TTATGCAATTATAAG
*
4666333 TTATGCAGTTATAAG
1 TTATGCAATTATAAG
4666348 TTATGCAATTATAAG
1 TTATGCAATTATAAG
4666363 TTATGCAATTATAAG
1 TTATGCAATTATAAG
*
4666378 TTATGCAGTTATAAG
1 TTATGCAATTATAAG
4666393 TTATGCAATTATAAG
1 TTATGCAATTATAAG
* *
4666408 TTAGGCAGTTATAAG
1 TTATGCAATTATAAG
4666423 TTATGCAATTATAAG
1 TTATGCAATTATAAG
*
4666438 TTATGCAGTTATAAG
1 TTATGCAATTATAAG
4666453 TTATGCAATTATAAG
1 TTATGCAATTATAAG
* *
4666468 TTATGTAGTTATAAG
1 TTATGCAATTATAAG
4666483 TTATGCAATTATAAG
1 TTATGCAATTATAAG
4666498 TTATGCAAT
1 TTATGCAAT
4666507 ATCAAGCAAA
Statistics
Matches: 203, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 203 1.00
ACGTcount: A:0.37, C:0.06, G:0.17, T:0.40
Consensus pattern (15 bp):
TTATGCAATTATAAG
Found at i:4675610 original size:16 final size:16
Alignment explanation
Indices: 4675589--4675625 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
4675579 TAAATTTTAG
4675589 TGGTCGGTGCGTTT-TT
1 TGGTCGGT-CGTTTGTT
4675605 TGGTCGGTCGTTTGTT
1 TGGTCGGTCGTTTGTT
4675621 TGGTC
1 TGGTC
4675626 TTTATCTTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 5 0.25
16 15 0.75
ACGTcount: A:0.00, C:0.14, G:0.38, T:0.49
Consensus pattern (16 bp):
TGGTCGGTCGTTTGTT
Found at i:4675834 original size:29 final size:29
Alignment explanation
Indices: 4675790--4675846 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
4675780 AGTAAACTAA
4675790 AATAATCAAAACAACATTAAATTTTTTTG
1 AATAATCAAAACAACATTAAATTTTTTTG
* * *
4675819 AATATTCAAAATAACATTAATTTTTTTT
1 AATAATCAAAACAACATTAAATTTTTTT
4675847 TTAAAAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.46, C:0.09, G:0.02, T:0.44
Consensus pattern (29 bp):
AATAATCAAAACAACATTAAATTTTTTTG
Found at i:4676023 original size:2 final size:2
Alignment explanation
Indices: 4676012--4676048 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
4676002 AATTAAATTT
4676012 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4676049 ATTATTTGAT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:4676458 original size:50 final size:51
Alignment explanation
Indices: 4676363--4676482 Score: 170
Period size: 51 Copynumber: 2.4 Consensus size: 51
4676353 GTAAAGTGCG
* **
4676363 CCCCTGCACCGCGTTATACGATGATTTGGCGCCACGTGGGGTATAGCGCGC
1 CCCCTGCACCGCGCTATACGATGAGCTGGCGCCACGTGGGGTATAGCGCGC
* * *
4676414 CCCCTGTACCGCGCTATACGGTGAGCTGGCGCCACGT-GGGTATAGCGCGG
1 CCCCTGCACCGCGCTATACGATGAGCTGGCGCCACGTGGGGTATAGCGCGC
*
4676464 CCCCTGCAGCGCGCTATAC
1 CCCCTGCACCGCGCTATAC
4676483 CTGTATATTT
Statistics
Matches: 61, Mismatches: 8, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
50 29 0.48
51 32 0.52
ACGTcount: A:0.15, C:0.34, G:0.32, T:0.19
Consensus pattern (51 bp):
CCCCTGCACCGCGCTATACGATGAGCTGGCGCCACGTGGGGTATAGCGCGC
Found at i:4676633 original size:12 final size:10
Alignment explanation
Indices: 4676592--4676632 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
4676582 TTTATCACAC
4676592 CAAATTCTCT
1 CAAATTCTCT
4676602 CAAATTCTCT
1 CAAATTCTCT
4676612 -AAATTTCTCT
1 CAAA-TTCTCT
*
4676622 CAAATACTCT
1 CAAATTCTCT
4676632 C
1 C
4676633 TTTTTAAGGT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 3 0.11
10 22 0.79
11 3 0.11
ACGTcount: A:0.32, C:0.29, G:0.00, T:0.39
Consensus pattern (10 bp):
CAAATTCTCT
Found at i:4676681 original size:13 final size:14
Alignment explanation
Indices: 4676653--4676681 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
4676643 ATATTTTATA
4676653 ATATTTTTACTATT
1 ATATTTTTACTATT
4676667 ATATTTTTACT-TT
1 ATATTTTTACTATT
4676680 AT
1 AT
4676682 TTAATATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.27
14 11 0.73
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.66
Consensus pattern (14 bp):
ATATTTTTACTATT
Found at i:4681648 original size:20 final size:20
Alignment explanation
Indices: 4681611--4681649 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
4681601 AGATTGAGTG
* * *
4681611 GATTTTGATGTTGTTTGCAC
1 GATTTTAATGATGATTGCAC
4681631 GATTTTAATGATGATTGCA
1 GATTTTAATGATGATTGCA
4681650 AGTTTAGGAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.23, C:0.08, G:0.23, T:0.46
Consensus pattern (20 bp):
GATTTTAATGATGATTGCAC
Found at i:4681831 original size:21 final size:21
Alignment explanation
Indices: 4681805--4681844 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
4681795 CAGAACCCCA
*
4681805 GGGGGGTATCAATTCCCCTGT
1 GGGGGGAATCAATTCCCCTGT
*
4681826 GGGGGGAATCGATTCCCCT
1 GGGGGGAATCAATTCCCCT
4681845 TCAAAGGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.15, C:0.25, G:0.35, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCAATTCCCCTGT
Found at i:4681872 original size:20 final size:21
Alignment explanation
Indices: 4681827--4681887 Score: 79
Period size: 20 Copynumber: 2.9 Consensus size: 21
4681817 TTCCCCTGTG
4681827 GGGGGAATCGATTCCCCTTCAAA
1 GGGGGAATCGATT-CCC-TCAAA
*
4681850 GGGGGAATCGGTTCCCT-AAA
1 GGGGGAATCGATTCCCTCAAA
*
4681870 GGGGGGATCGATTCCCTC
1 GGGGGAATCGATTCCCTC
4681888 TGCACCAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
20 18 0.53
21 1 0.03
22 3 0.09
23 12 0.35
ACGTcount: A:0.21, C:0.25, G:0.33, T:0.21
Consensus pattern (21 bp):
GGGGGAATCGATTCCCTCAAA
Found at i:4687802 original size:203 final size:203
Alignment explanation
Indices: 4687453--4687860 Score: 764
Period size: 203 Copynumber: 2.0 Consensus size: 203
4687443 GGGGATTATT
4687453 AGAGAAGATAATATAGCCGTTTTAGTGTGAAAACAATTAATAAAACAGCTTGGAGCGTGGGGGGA
1 AGAGAAGATAATATAGCCGTTTTAGTGTGAAAACAATTAATAAAACAGCTTGGAGCGTGGGGGGA
*
4687518 ATCGGTACCCCCTATTGGGAATCGGTTCCCTAAGTGTAAAATTCAAATATTTCGACCGTTATACA
66 ATCGGTACCCCCTATGGGGAATCGGTTCCCTAAGTGTAAAATTCAAATATTTCGACCGTTATACA
* *
4687583 ATGGGGAATCGGTACCCCCTGGGGGGAATCGGTTCCCTCCGAGCATACTAGAATTCTCGGAGCCA
131 AGGGGGAATCGGTACCCCATGGGGGGAATCGGTTCCCTCCGAGCATACTAGAATTCTCGGAGCCA
4687648 AACCATTC
196 AACCATTC
4687656 AGAGAAGATAATATAGCCGTTTTAGTGTGAAAACAATTAATAAAACAGCTTGGAGCGTGGGGGGA
1 AGAGAAGATAATATAGCCGTTTTAGTGTGAAAACAATTAATAAAACAGCTTGGAGCGTGGGGGGA
4687721 ATCGGTA-CCCCTATGGGGAATCGGTTCCCTAAGTGTAAAATTCAAATATTTCGACCGTTATACA
66 ATCGGTACCCCCTATGGGGAATCGGTTCCCTAAGTGTAAAATTCAAATATTTCGACCGTTATACA
*
4687785 AGGGGGGAATCGGTACCCCATGGGGGGAATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAGCC
131 A-GGGGGAATCGGTACCCCATGGGGGGAATCGGTTCCCTCCGAGCATACTAGAATTCTCGGAGCC
4687850 AAACCATTC
195 AAACCATTC
4687859 AG
1 AG
4687861 GGGGAATCGG
Statistics
Matches: 200, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
202 57 0.28
203 143 0.71
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (203 bp):
AGAGAAGATAATATAGCCGTTTTAGTGTGAAAACAATTAATAAAACAGCTTGGAGCGTGGGGGGA
ATCGGTACCCCCTATGGGGAATCGGTTCCCTAAGTGTAAAATTCAAATATTTCGACCGTTATACA
AGGGGGAATCGGTACCCCATGGGGGGAATCGGTTCCCTCCGAGCATACTAGAATTCTCGGAGCCA
AACCATTC
Found at i:4688929 original size:50 final size:51
Alignment explanation
Indices: 4688850--4688977 Score: 168
Period size: 51 Copynumber: 2.5 Consensus size: 51
4688840 ACCTATGTGG
* * ** * **
4688850 CGTATAGCGCGCTGCAGGGGCCGTACTATA-CCCACGTGGCGCCAGCTCAC
1 CGTATAGCGCGGTGCAGGGGGCGCGCTATACCCCAAGTGGCGCCAAATCAC
*
4688900 CGTATAGCGCGGTGCAGGGGGCGCGCTATACCCCAAGTGGCGCCAAATCAT
1 CGTATAGCGCGGTGCAGGGGGCGCGCTATACCCCAAGTGGCGCCAAATCAC
*
4688951 CGTATAGCGCGGTGTAGGGGGCGCGCT
1 CGTATAGCGCGGTGCAGGGGGCGCGCT
4688978 TTACTACTAA
Statistics
Matches: 68, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
50 26 0.38
51 42 0.62
ACGTcount: A:0.18, C:0.30, G:0.35, T:0.16
Consensus pattern (51 bp):
CGTATAGCGCGGTGCAGGGGGCGCGCTATACCCCAAGTGGCGCCAAATCAC
Found at i:4690221 original size:21 final size:22
Alignment explanation
Indices: 4690195--4690235 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
4690185 CATTTTAAGG
*
4690195 TTTTGAT-TAAACTTTGAATTA
1 TTTTGATGAAAACTTTGAATTA
4690216 TTTTGATGAAAACTTTGAAT
1 TTTTGATGAAAACTTTGAAT
4690236 AAATTCAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.34, C:0.05, G:0.12, T:0.49
Consensus pattern (22 bp):
TTTTGATGAAAACTTTGAATTA
Found at i:4690484 original size:19 final size:17
Alignment explanation
Indices: 4690462--4690496 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
4690452 AAATTAGTGA
4690462 AAAATAAATATATTAAATT
1 AAAATAAA-AT-TTAAATT
4690481 AAAATAAAATTTAAAT
1 AAAATAAAATTTAAAT
4690497 AAAGTTAGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 2 0.12
19 8 0.50
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AAAATAAAATTTAAATT
Found at i:4690776 original size:31 final size:31
Alignment explanation
Indices: 4690735--4690795 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
4690725 GTGAACATAA
*
4690735 GATATGATCATTTTCGCTTTTATTTAATTAG
1 GATATAATCATTTTCGCTTTTATTTAATTAG
* *
4690766 GATATAATCATTTTTGTTTTTATTTAATTA
1 GATATAATCATTTTCGCTTTTATTTAATTA
4690796 AGATGTGGTC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.28, C:0.07, G:0.10, T:0.56
Consensus pattern (31 bp):
GATATAATCATTTTCGCTTTTATTTAATTAG
Found at i:4691105 original size:31 final size:30
Alignment explanation
Indices: 4691063--4691138 Score: 98
Period size: 31 Copynumber: 2.5 Consensus size: 30
4691053 AATTCAATCG
* *
4691063 TTAAATTAATATTTTATTTAAATTTTAAGAA
1 TTAAATAAATATTTTATTTAAAATTT-AGAA
*
4691094 TTAAATAAATATTTTATTTAAAATTTAGGA
1 TTAAATAAATATTTTATTTAAAATTTAGAA
* *
4691124 TCAAACAAATATTTT
1 TTAAATAAATATTTT
4691139 TGTCTAAAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
30 16 0.40
31 24 0.60
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (30 bp):
TTAAATAAATATTTTATTTAAAATTTAGAA
Found at i:4693759 original size:17 final size:17
Alignment explanation
Indices: 4693737--4693770 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
4693727 TAAATTACAT
*
4693737 CTTTCATCCATCAACTA
1 CTTTCATCAATCAACTA
4693754 CTTTCATCAATCAACTA
1 CTTTCATCAATCAACTA
4693771 TCTTCTCACT
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:0.32, C:0.32, G:0.00, T:0.35
Consensus pattern (17 bp):
CTTTCATCAATCAACTA
Found at i:4694820 original size:20 final size:21
Alignment explanation
Indices: 4694789--4694834 Score: 85
Period size: 20 Copynumber: 2.2 Consensus size: 21
4694779 TTGCCACCAA
4694789 AAGGTGATTACCCATTCTTTG
1 AAGGTGATTACCCATTCTTTG
4694810 AAGGT-ATTACCCATTCTTTG
1 AAGGTGATTACCCATTCTTTG
4694830 AAGGT
1 AAGGT
4694835 TCCAGAGAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 20 0.80
21 5 0.20
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.37
Consensus pattern (21 bp):
AAGGTGATTACCCATTCTTTG
Found at i:4701637 original size:48 final size:48
Alignment explanation
Indices: 4701558--4701652 Score: 111
Period size: 48 Copynumber: 2.0 Consensus size: 48
4701548 TCAGATCTGA
* * *
4701558 TCATTTCATGTTTCGGTTTTATTCAAATCTATTGTAAGT-TGGGTCGGG
1 TCATTTCAGGTTTCAGTTTTATTCAAATCTATAGTAAGTCT-GGTCGGG
* ** *
4701606 TCATTTCGGGTTTCAGTTTTATTTTAGTCTATAGTAAGTCTGGTCGG
1 TCATTTCAGGTTTCAGTTTTATTCAAATCTATAGTAAGTCTGGTCGG
4701653 TTTGAATATC
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
48 38 0.97
49 1 0.03
ACGTcount: A:0.18, C:0.13, G:0.23, T:0.46
Consensus pattern (48 bp):
TCATTTCAGGTTTCAGTTTTATTCAAATCTATAGTAAGTCTGGTCGGG
Found at i:4702070 original size:12 final size:11
Alignment explanation
Indices: 4702053--4702091 Score: 51
Period size: 12 Copynumber: 3.3 Consensus size: 11
4702043 TTATGTTTGA
4702053 ATAAATATTATT
1 ATAAATA-TATT
4702065 ATAAATATATTT
1 ATAAATATA-TT
4702077 ATAAATAATATT
1 ATAAAT-ATATT
4702089 ATA
1 ATA
4702092 TTATTATATC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 2 0.08
12 20 0.80
13 3 0.12
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (11 bp):
ATAAATATATT
Found at i:4710214 original size:24 final size:24
Alignment explanation
Indices: 4710185--4710281 Score: 167
Period size: 24 Copynumber: 4.0 Consensus size: 24
4710175 AACGATTCAT
*
4710185 CTGGAAGAAACAGTTATGTCAGCA
1 CTGGAAGAAACAGTCATGTCAGCA
4710209 CTGGAAGAAACAGTCATGTCAGCA
1 CTGGAAGAAACAGTCATGTCAGCA
4710233 CTGGAAGAAACAGTCATGTCAGCA
1 CTGGAAGAAACAGTCATGTCAGCA
* *
4710257 CTGGAAGAAGCAGTCATGGCAGCA
1 CTGGAAGAAACAGTCATGTCAGCA
4710281 C
1 C
4710282 AATTACCCTC
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 70 1.00
ACGTcount: A:0.36, C:0.21, G:0.27, T:0.16
Consensus pattern (24 bp):
CTGGAAGAAACAGTCATGTCAGCA
Found at i:4713816 original size:15 final size:14
Alignment explanation
Indices: 4713798--4713849 Score: 56
Period size: 14 Copynumber: 3.8 Consensus size: 14
4713788 CAATTATTTT
4713798 TTTATTAAATATTCA
1 TTTATT-AATATTCA
4713813 TTTATTCAA-ATT--
1 TTTATT-AATATTCA
4713825 TTTATTAATATTCA
1 TTTATTAATATTCA
*
4713839 TTTATTCATAT
1 TTTATTAATAT
4713850 ATATATATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
11 2 0.06
12 9 0.28
14 13 0.41
15 8 0.25
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.58
Consensus pattern (14 bp):
TTTATTAATATTCA
Found at i:4713834 original size:26 final size:27
Alignment explanation
Indices: 4713796--4713846 Score: 95
Period size: 26 Copynumber: 1.9 Consensus size: 27
4713786 GTCAATTATT
4713796 TTTTTATTAAATATTCATTTATTCAAA
1 TTTTTATTAAATATTCATTTATTCAAA
4713823 TTTTTATT-AATATTCATTTATTCA
1 TTTTTATTAAATATTCATTTATTCA
4713847 TATATATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 16 0.67
27 8 0.33
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.59
Consensus pattern (27 bp):
TTTTTATTAAATATTCATTTATTCAAA
Found at i:4713861 original size:26 final size:26
Alignment explanation
Indices: 4713800--4713864 Score: 76
Period size: 26 Copynumber: 2.4 Consensus size: 26
4713790 ATTATTTTTT
* *
4713800 TATTAAATATTCATTTATTCAAATTTT
1 TATT-AATATTCATTTATTCAAATATA
*
4713827 TATTAATATTCATTTATTCATATATA
1 TATTAATATTCATTTATTCAAATATA
4713853 TATATATATATT
1 TAT-TA-ATATT
4713865 ACATGATTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
26 22 0.67
27 6 0.18
28 5 0.15
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.55
Consensus pattern (26 bp):
TATTAATATTCATTTATTCAAATATA
Found at i:4714087 original size:21 final size:22
Alignment explanation
Indices: 4714047--4714088 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
4714037 ATTACATATT
4714047 AAAATAATAAAAAATATAAATC
1 AAAATAATAAAAAATATAAATC
4714069 AAAAT-ATCAAAAAAT-TAAAT
1 AAAATAAT-AAAAAATATAAAT
4714089 AAGATGTTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (22 bp):
AAAATAATAAAAAATATAAATC
Found at i:4715325 original size:3 final size:3
Alignment explanation
Indices: 4715317--4715384 Score: 127
Period size: 3 Copynumber: 22.7 Consensus size: 3
4715307 TTTTTACCCA
4715317 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
4715365 TAT CAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TA
4715385 AATATATATT
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Done.