Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008310.1 Hibiscus syriacus cultivar Beakdansim tig00111000_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: 3887810
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 15
Found at i:1237461 original size:14 final size:15
Alignment explanation
Indices: 1237436--1237466 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
1237426 GATACTTAAA
1237436 TTAATAAATTTTTAT
1 TTAATAAATTTTTAT
1237451 TTAAT-AATTTTTAT
1 TTAATAAATTTTTAT
1237465 TT
1 TT
1237467 TTATTTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.69
15 5 0.31
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (15 bp):
TTAATAAATTTTTAT
Found at i:1238661 original size:47 final size:48
Alignment explanation
Indices: 1238608--1238706 Score: 119
Period size: 47 Copynumber: 2.1 Consensus size: 48
1238598 GTTGTACAAA
* *
1238608 ATTTCCGACGGAATCATTGTCCCATCATAAATTAAATTGATAT-TTTT
1 ATTTCCGACGGAATCATTATCCCATCACAAATTAAATTGATATATTTT
** * * * *
1238655 ATTTCCGATTGAATTATTATTCTATCACAAATTAAATTGGTATATTTT
1 ATTTCCGACGGAATCATTATCCCATCACAAATTAAATTGATATATTTT
1238703 ATTT
1 ATTT
1238707 AAAGTTCAAC
Statistics
Matches: 43, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
47 35 0.81
48 8 0.19
ACGTcount: A:0.32, C:0.13, G:0.09, T:0.45
Consensus pattern (48 bp):
ATTTCCGACGGAATCATTATCCCATCACAAATTAAATTGATATATTTT
Found at i:1238687 original size:112 final size:112
Alignment explanation
Indices: 1238538--1238763 Score: 362
Period size: 112 Copynumber: 2.0 Consensus size: 112
1238528 AATGTATATT
**
1238538 TTTTTATTTCCGATGGAATAACTATTCCATCAAAAATTAAATTGGTATATTTTAATTAAAGTTGT
1 TTTTTATTTCCGATGGAATAACTATTCCATCAAAAATTAAATTGGTATATTTTAATTAAAGTTCA
1238603 ACAAAATTTCCGACGGAATCATTGTCCCATCATAAATTAAATTGATA
66 ACAAAATTTCCGACGGAATCATTGTCCCATCATAAATTAAATTGATA
* * * * * *
1238650 TTTTTATTTCCGATTGAATTATTATTCTATCACAAATTAAATTGGTATATTTTATTTAAAGTTCA
1 TTTTTATTTCCGATGGAATAACTATTCCATCAAAAATTAAATTGGTATATTTTAATTAAAGTTCA
* *
1238715 ACATAATTTCCGATGGAATCATTGTCCCATCATAAATTAAATTGATA
66 ACAAAATTTCCGACGGAATCATTGTCCCATCATAAATTAAATTGATA
1238762 TT
1 TT
1238764 GTTCTTATTG
Statistics
Matches: 104, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
112 104 1.00
ACGTcount: A:0.36, C:0.13, G:0.10, T:0.42
Consensus pattern (112 bp):
TTTTTATTTCCGATGGAATAACTATTCCATCAAAAATTAAATTGGTATATTTTAATTAAAGTTCA
ACAAAATTTCCGACGGAATCATTGTCCCATCATAAATTAAATTGATA
Found at i:1240197 original size:216 final size:216
Alignment explanation
Indices: 1239501--1240332 Score: 1266
Period size: 216 Copynumber: 3.9 Consensus size: 216
1239491 AAATACAACG
* * *
1239501 TTAAGAACTAAATTGAACAAATATGAAATTACAAATTAAAATTTAAATAAACTAAACAACACACA
1 TTAAGGACTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACA
*
1239566 TTGATGAGGGATCAAATATAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTA
66 TTGATGAGGGATCAAATCTAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTA
1239631 AATTATACCCATTTAAAAAGTTATGGGCCAATTAAAAAATATAAATAAGAAATAAGTATGGGCCA
131 AATTATACCCATTTAAAAAGTTATGGGCCAATTAAAAAATATAAATAAGAAATAAGTATGGGCCA
1239696 ATTTCAT-ATGCAAATATAATT
196 ATTTC-TGATGCAAATATAATT
* * * *
1239717 TTAAGGACTAAATTGAACAAATATAAAATTAAAAATAAAAAATTAAATAAATTAAATAACACACA
1 TTAAGGACTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACA
* * * *
1239782 TTGATGAGGGATCAGATCGAAATAATTTTAAATTGTGAGGTTTAAATTAATGC-AAAAAGTACTA
66 TTGATGAGGGATCAAATCTAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTA
* *
1239846 AATTATACCAATTTAAAAAGTTATGGACCAATT-AAAAATATAAATAA-ATAATAAGTATGGGCC
131 AATTATACCCATTTAAAAAGTTATGGGCCAATTAAAAAATATAAATAAGA-AATAAGTATGGGCC
* *
1239909 AATTT-TAGATGCAAA-AAAAAT
195 AATTTCT-GATGCAAATATAATT
** *
1239930 TTAAGGACTAAATTGAACAAATATGAAATTACAAATTCAAATTTAAATAAATTAATCAACACACA
1 TTAAGGACTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACA
* *
1239995 TTGATGAGGGATCAAATCTAAATGATTTTAAATTGTGAGGTAGAAATTAATACAAAAAAGTACTA
66 TTGATGAGGGATCAAATCTAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTA
** * * *
1240060 AATTATATTCATATAAAAAGTTATGGGCCAATTAAAAAATATAAGTAAGAAATAAGTATGGGTCA
131 AATTATACCCATTTAAAAAGTTATGGGCCAATTAAAAAATATAAATAAGAAATAAGTATGGGCCA
1240125 ATTTCTGATGCAAATATAATT
196 ATTTCTGATGCAAATATAATT
* * **
1240146 TTAAGGACTAAATTAAATAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAATGCACA
1 TTAAGGACTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACA
*
1240211 TTGATGAGGGATCAAAT-TGAAATAATTTTAAATTGTGAAGTTGAAATTAATACACAAAAA-TAC
66 TTGATGAGGGATCAAATCT-AAATAATTTTAAATTGTGAGGTTGAAATTAATACA-AAAAAGTAC
* *
1240274 TAAATTATACCCATTTAAAAAGTTATGAGCCAATTAAAAAATATAAATAAGTAATAAGT
129 TAAATTATACCCATTTAAAAAGTTATGGGCCAATTAAAAAATATAAATAAGAAATAAGT
1240333 TTGAGATGCA
Statistics
Matches: 552, Mismatches: 54, Indels: 20
0.88 0.09 0.03
Matches are distributed among these distances:
212 1 0.00
213 110 0.20
214 79 0.14
215 82 0.15
216 275 0.50
217 5 0.01
ACGTcount: A:0.51, C:0.08, G:0.12, T:0.30
Consensus pattern (216 bp):
TTAAGGACTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACA
TTGATGAGGGATCAAATCTAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTA
AATTATACCCATTTAAAAAGTTATGGGCCAATTAAAAAATATAAATAAGAAATAAGTATGGGCCA
ATTTCTGATGCAAATATAATT
Found at i:1240437 original size:31 final size:31
Alignment explanation
Indices: 1240402--1240462 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
1240392 TAGGTGAATC
*
1240402 TGTCAGAAATTTGTGACAGATCCACATATTT
1 TGTCACAAATTTGTGACAGATCCACATATTT
** *
1240433 TGTCACAAATTTGTGATGGGTCCACATATT
1 TGTCACAAATTTGTGACAGATCCACATATT
1240463 CCATCACAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (31 bp):
TGTCACAAATTTGTGACAGATCCACATATTT
Found at i:1240470 original size:31 final size:31
Alignment explanation
Indices: 1240408--1240475 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
1240398 AATCTGTCAG
***
1240408 AAATTTGTGACAGATCCACATATTTTGTCAC
1 AAATTTGTGACAGATCCACATATTCCATCAC
** *
1240439 AAATTTGTGATGGGTCCACATATTCCATCAC
1 AAATTTGTGACAGATCCACATATTCCATCAC
1240470 AAATTT
1 AAATTT
1240476 AAAAAATTGT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.35
Consensus pattern (31 bp):
AAATTTGTGACAGATCCACATATTCCATCAC
Found at i:1241077 original size:44 final size:44
Alignment explanation
Indices: 1241029--1241125 Score: 133
Period size: 44 Copynumber: 2.2 Consensus size: 44
1241019 CCATGTTCGA
* *
1241029 TATCGATACTACTATACATAGTAGTATCGATACTCAC-TGGACGG
1 TATCGATACTACTATACAAAGTAGTATCGATACTC-CTTGGACAG
* * *
1241073 TATCGATACTACTATACAAAGTATTGTTGATACTCCTTGGACAG
1 TATCGATACTACTATACAAAGTAGTATCGATACTCCTTGGACAG
1241117 TATCGATAC
1 TATCGATAC
1241126 CGTTGAGTTG
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
43 1 0.02
44 46 0.98
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (44 bp):
TATCGATACTACTATACAAAGTAGTATCGATACTCCTTGGACAG
Found at i:1241594 original size:23 final size:23
Alignment explanation
Indices: 1241567--1241612 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
1241557 ATTCAACAAA
1241567 ACATCAGATAATATTAAAAAACT
1 ACATCAGATAATATTAAAAAACT
*
1241590 ACATCATATAATATTAAAAAACT
1 ACATCAGATAATATTAAAAAACT
1241613 TGAAGTAAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.57, C:0.13, G:0.02, T:0.28
Consensus pattern (23 bp):
ACATCAGATAATATTAAAAAACT
Found at i:1245814 original size:14 final size:15
Alignment explanation
Indices: 1245789--1245819 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
1245779 GATACTTAAA
1245789 TTAATAAATTTTTAT
1 TTAATAAATTTTTAT
1245804 TTAAT-AATTTTTAT
1 TTAATAAATTTTTAT
1245818 TT
1 TT
1245820 TTATTTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.69
15 5 0.31
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (15 bp):
TTAATAAATTTTTAT
Found at i:1246998 original size:47 final size:48
Alignment explanation
Indices: 1246945--1247043 Score: 114
Period size: 47 Copynumber: 2.1 Consensus size: 48
1246935 GTTGAACAAA
* *
1246945 ATTTCCGACGGAATCATT-TTCCCATCATAAATTAAATT-G-ATATTTGT
1 ATTTCCGACGAAATCATTATT-CCATCACAAATTAAATTGGTATATTT-T
* * *
1246992 ATTTCCGACTAAATGATTATTCTATCACAAATTAAATTGGTATATTTT
1 ATTTCCGACGAAATCATTATTCCATCACAAATTAAATTGGTATATTTT
1247040 ATTT
1 ATTT
1247044 AAAGTTGAAC
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
47 30 0.68
48 8 0.18
49 6 0.14
ACGTcount: A:0.33, C:0.14, G:0.09, T:0.43
Consensus pattern (48 bp):
ATTTCCGACGAAATCATTATTCCATCACAAATTAAATTGGTATATTTT
Found at i:1247029 original size:112 final size:112
Alignment explanation
Indices: 1246897--1247100 Score: 354
Period size: 112 Copynumber: 1.8 Consensus size: 112
1246887 TTCCGATGGA
*
1246897 TATTCCATCATAAATTAAATTGGTATATTTTAATTAAAGTTGAACAAAATTTCCGACGGAATCAT
1 TATTCCATCACAAATTAAATTGGTATATTTTAATTAAAGTTGAACAAAATTTCCGACGGAATCAT
*
1246962 TTTCCCATCATAAATTAAATTGATATTTGTATTTCCGACTAAATGAT
66 TGTCCCATCATAAATTAAATTGATATTTGTATTTCCGACTAAATGAT
* * * *
1247009 TATTCTATCACAAATTAAATTGGTATATTTTATTTAAAGTTGAACATAATTTCCGATGGAATCAT
1 TATTCCATCACAAATTAAATTGGTATATTTTAATTAAAGTTGAACAAAATTTCCGACGGAATCAT
1247074 TGTCCCATCATAAATTAAATTGATATT
66 TGTCCCATCATAAATTAAATTGATATT
1247101 ATTTTTATTG
Statistics
Matches: 86, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
112 86 1.00
ACGTcount: A:0.37, C:0.13, G:0.10, T:0.40
Consensus pattern (112 bp):
TATTCCATCACAAATTAAATTGGTATATTTTAATTAAAGTTGAACAAAATTTCCGACGGAATCAT
TGTCCCATCATAAATTAAATTGATATTTGTATTTCCGACTAAATGAT
Found at i:1248524 original size:216 final size:216
Alignment explanation
Indices: 1247827--1248724 Score: 1305
Period size: 216 Copynumber: 4.2 Consensus size: 216
1247817 ATTTTATGAA
* * * *
1247827 AAATACAACTTTAAGAACTAAATTGAACAAATATGAAATTACAAATTAAAATTTAAATAAATTAA
1 AAATATAATTTTAAGGACTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAA
**
1247892 ACAACACACATTGATGAGGGATCAAATATAAATAATTTTAAATTGTGAGGTTGAAATTAATACAA
66 ACAACACACATTGATGAGGGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAA
1247957 AAAAGTACTAAATTATACCCATTTAAAAAGTTATGGGCCAATTAAAAAATATAAATAAGAAATAA
131 AAAAGTACTAAATTATACCCATTTAAAAAGTTATGGGCCAATTAAAAAATATAAATAAGAAATAA
1248022 GTATGGGCCAATTTCAT-ATGC
196 GTATGGGCCAATTTC-TGATGC
* * *
1248043 AAATATAATTTTAAGGACTAAATTGAACAAATATAAAATTAAAAATAAAAAATTAAATAAATTAA
1 AAATATAATTTTAAGGACTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAA
* * * *
1248108 ATAACACACATTGATGA-GGATCAGATCGAAATAATTTTAAATTGTGAGGTTTAAATTAATGC-A
66 ACAACACACATTGATGAGGGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAA
* *
1248171 AAAAGTACTAAATTATACCAATTTAAAAAGTTATGGACCAATT--AAAA-ATAAATAA-ATAATA
131 AAAAGTACTAAATTATACCCATTTAAAAAGTTATGGGCCAATTAAAAAATATAAATAAGA-AATA
1248232 AGTATGGGCCAATTT-TAGATGC
195 AGTATGGGCCAATTTCT-GATGC
* **
1248254 AAA-A-AAATTTAAGGACTAAATTGAACAAATATGAAATTACAAATTCAAATTTAAATAAATTAA
1 AAATATAATTTTAAGGACTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAA
* * *
1248317 ACAACACACATTGATGAGGGATCAAATCTAAATGATTTTAAATTGTGAGGTAGAAATTAATACAA
66 ACAACACACATTGATGAGGGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAA
** * * *
1248382 AAAAGTACTAAATTATATTCATATAAAAAGTTATGGGCCAATTAAAAAATAGAAGTAAGAAATAA
131 AAAAGTACTAAATTATACCCATTTAAAAAGTTATGGGCCAATTAAAAAATATAAATAAGAAATAA
1248447 GTATGGGCCAATTTCTGATGC
196 GTATGGGCCAATTTCTGATGC
* *
1248468 AAATATAATTTTAAGGACTAAATTAAATAAATATGAAATTACAAATAAAAATTTAAATAAATTAA
1 AAATATAATTTTAAGGACTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAA
** *
1248533 ACAATGCAAATTGATGAGGGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAC
66 ACAACACACATTGATGAGGGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACA-
* *
1248598 AAAAA-TACTAAATTATACCCATTTAAAAAGTTATGAGCCAATTAAAAAATATAAATAAGTAATA
130 AAAAAGTACTAAATTATACCCATTTAAAAAGTTATGGGCCAATTAAAAAATATAAATAAGAAATA
* ** *
1248662 AGTATGGGTCAATTTGAGATGA
195 AGTATGGGCCAATTTCTGATGC
* * * * *
1248684 AAATATAGTTTTAAAGACTAAATTGAATACATATAAAATTA
1 AAATATAATTTTAAGGACTAAATTGAACAAATATGAAATTA
1248725 AAAGACTTTA
Statistics
Matches: 607, Mismatches: 62, Indels: 26
0.87 0.09 0.04
Matches are distributed among these distances:
209 70 0.12
210 41 0.07
211 73 0.12
212 4 0.01
213 4 0.01
214 75 0.12
215 43 0.07
216 292 0.48
217 5 0.01
ACGTcount: A:0.51, C:0.08, G:0.12, T:0.29
Consensus pattern (216 bp):
AAATATAATTTTAAGGACTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAA
ACAACACACATTGATGAGGGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAA
AAAAGTACTAAATTATACCCATTTAAAAAGTTATGGGCCAATTAAAAAATATAAATAAGAAATAA
GTATGGGCCAATTTCTGATGC
Found at i:1248866 original size:13 final size:13
Alignment explanation
Indices: 1248850--1248964 Score: 51
Period size: 13 Copynumber: 8.9 Consensus size: 13
1248840 TATAAGTTTA
1248850 TATATATATATAC
1 TATATATATATAC
*
1248863 TATAT-T-TATAT
1 TATATATATATAC
* *
1248874 TATAAACTATATAA
1 TATATA-TATATAC
1248888 T-TAT-TATA-AGC
1 TATATATATATA-C
* * *
1248899 TATATACATAAAT
1 TATATATATATAC
* *
1248912 TATGTTTATATGAAC
1 TATATATATAT--AC
*
1248927 TATATATATAAAC
1 TATATATATATAC
* *
1248940 TATGTATATAAAC
1 TATATATATATAC
*
1248953 TATATATGTATA
1 TATATATATATA
1248965 AACTATATAA
Statistics
Matches: 74, Mismatches: 19, Indels: 18
0.67 0.17 0.16
Matches are distributed among these distances:
10 1 0.01
11 13 0.18
12 4 0.05
13 41 0.55
14 6 0.08
15 9 0.12
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.44
Consensus pattern (13 bp):
TATATATATATAC
Found at i:1248866 original size:15 final size:14
Alignment explanation
Indices: 1248827--1248973 Score: 79
Period size: 15 Copynumber: 9.9 Consensus size: 14
1248817 TTTGGAAAAA
1248827 ATATAA-TATATA-
1 ATATAACTATATAT
*
1248839 ATATAAGTTTATATAT
1 ATATAA--CTATATAT
1248855 ATATATACTATATTTAT
1 ATATA-ACTATA--TAT
1248872 ATTATAAACTATATAATT
1 A-TAT-AACTATAT-A-T
*
1248890 ATTATAAGCTATATAC
1 A-TATAA-CTATATAT
* * *
1248906 ATA-AATTATGTTT
1 ATATAACTATATAT
1248919 ATATGAACTATATAT
1 ATAT-AACTATATAT
*
1248934 ATA-AACTATGTAT
1 ATATAACTATATAT
1248947 ATA-AACTATATAT
1 ATATAACTATATAT
*
1248960 GTATAAACTATATA
1 ATAT-AACTATATA
1248974 AATTATAATT
Statistics
Matches: 107, Mismatches: 12, Indels: 29
0.72 0.08 0.20
Matches are distributed among these distances:
12 6 0.06
13 30 0.28
14 2 0.02
15 31 0.29
16 7 0.07
17 9 0.08
18 21 0.20
19 1 0.01
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.44
Consensus pattern (14 bp):
ATATAACTATATAT
Found at i:1248870 original size:21 final size:21
Alignment explanation
Indices: 1248827--1248885 Score: 63
Period size: 23 Copynumber: 2.9 Consensus size: 21
1248817 TTTGGAAAAA
*
1248827 ATATA-ATATATAATATAAGTTT
1 ATATATATATATACTAT-A-TTT
1248849 ATATATATATATACTATATTT
1 ATATATATATATACTATATTT
1248870 ATAT-TATA-A-ACTATAT
1 ATATATATATATACTATAT
1248886 AATTATTATA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
18 7 0.20
19 1 0.03
20 4 0.11
21 7 0.20
22 6 0.17
23 10 0.29
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.47
Consensus pattern (21 bp):
ATATATATATATACTATATTT
Found at i:1248877 original size:18 final size:19
Alignment explanation
Indices: 1248850--1248885 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
1248840 TATAAGTTTA
*
1248850 TATATATATATACTATATT
1 TATATATATAAACTATATT
1248869 TATAT-TATAAACTATAT
1 TATATATATAAACTATAT
1248886 AATTATTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (19 bp):
TATATATATAAACTATATT
Found at i:1248913 original size:20 final size:18
Alignment explanation
Indices: 1248872--1248914 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
1248862 CTATATTTAT
*
1248872 ATTATAAACTATATAATT
1 ATTATAAACTATATAATA
*
1248890 ATTATAAGCTATATACATAA
1 ATTATAAACTATATA-AT-A
1248910 ATTAT
1 ATTAT
1248915 GTTTATATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 14 0.67
19 2 0.10
20 5 0.24
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.42
Consensus pattern (18 bp):
ATTATAAACTATATAATA
Found at i:1248937 original size:28 final size:26
Alignment explanation
Indices: 1248892--1248970 Score: 86
Period size: 28 Copynumber: 2.9 Consensus size: 26
1248882 ATATAATTAT
* * *
1248892 TATAAGCTATATACATAAATTATGTTTA
1 TATAAACTATATATATAAACTATG--TA
*
1248920 TATGAACTATATATATAAACTATGTA
1 TATAAACTATATATATAAACTATGTA
1248946 TATAAACTATATATGTATAAACTAT
1 TATAAACTATATA--TATAAACTAT
1248971 ATAAATTATA
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
26 14 0.32
28 30 0.68
ACGTcount: A:0.46, C:0.08, G:0.06, T:0.41
Consensus pattern (26 bp):
TATAAACTATATATATAAACTATGTA
Found at i:1248971 original size:13 final size:13
Alignment explanation
Indices: 1248869--1248973 Score: 77
Period size: 13 Copynumber: 7.5 Consensus size: 13
1248859 ATACTATATT
1248869 TATAT-TATAAAC
1 TATATATATAAAC
1248881 TATATAATTATTATAAGC
1 TATAT-A-TA-TA-AA-C
* *
1248899 TATATACATAAAT
1 TATATATATAAAC
* *
1248912 TATGTTTATATGAAC
1 TA--TATATATAAAC
1248927 TATATATATAAAC
1 TATATATATAAAC
*
1248940 TATGTATATAAAC
1 TATATATATAAAC
1248953 TATATATGTATAAAC
1 TATATA--TATAAAC
1248968 TATATA
1 TATATA
1248974 AATTATAATT
Statistics
Matches: 73, Mismatches: 10, Indels: 17
0.73 0.10 0.17
Matches are distributed among these distances:
12 5 0.07
13 28 0.38
14 2 0.03
15 26 0.36
16 3 0.04
17 3 0.04
18 6 0.08
ACGTcount: A:0.47, C:0.07, G:0.05, T:0.42
Consensus pattern (13 bp):
TATATATATAAAC
Found at i:1249331 original size:20 final size:20
Alignment explanation
Indices: 1249303--1249433 Score: 77
Period size: 22 Copynumber: 6.8 Consensus size: 20
1249293 TATAGTACAT
*
1249303 GTATGTATAAACTATGTATA
1 GTATATATAAACTATGTATA
1249323 GTATATATAAAC----TATA
1 GTATATATAAACTATGTATA
*
1249339 -TATATATAACCTATAGTATA
1 GTATATATAAACTAT-GTATA
1249359 TGTATATATAAAC----TATA
1 -GTATATATAAACTATGTATA
*
1249376 -TATATATAACCTATAGTATA
1 GTATATATAAACTAT-GTATA
*
1249396 TGTATATATACAATCTATTTAT-
1 -GTATATATA-AA-CTATGTATA
*
1249418 TTATTATATAAACTAT
1 GTA-TATATAAACTAT
1249434 ATATGTAACC
Statistics
Matches: 87, Mismatches: 7, Indels: 34
0.68 0.05 0.27
Matches are distributed among these distances:
15 20 0.23
16 4 0.05
17 4 0.05
20 23 0.26
21 4 0.05
22 24 0.28
23 4 0.05
24 4 0.05
ACGTcount: A:0.44, C:0.08, G:0.06, T:0.43
Consensus pattern (20 bp):
GTATATATAAACTATGTATA
Found at i:1249344 original size:15 final size:16
Alignment explanation
Indices: 1249319--1249396 Score: 70
Period size: 15 Copynumber: 4.6 Consensus size: 16
1249309 ATAAACTATG
1249319 TATAGTATATATAAAC
1 TATAGTATATATAAAC
*
1249335 TATA-TATATATAACCTATAG
1 TATAGTATATAT-A---A-AC
1249355 TATATGTATATATAAAC
1 TATA-GTATATATAAAC
*
1249372 TATA-TATATATAACC
1 TATAGTATATATAAAC
1249387 TATAGTATAT
1 TATAGTATAT
1249397 GTATATATAC
Statistics
Matches: 51, Mismatches: 3, Indels: 16
0.73 0.04 0.23
Matches are distributed among these distances:
15 21 0.41
16 10 0.20
17 5 0.10
18 1 0.02
19 1 0.02
20 5 0.10
21 1 0.02
22 7 0.14
ACGTcount: A:0.46, C:0.08, G:0.05, T:0.41
Consensus pattern (16 bp):
TATAGTATATATAAAC
Found at i:1249355 original size:94 final size:94
Alignment explanation
Indices: 1249244--1249449 Score: 269
Period size: 94 Copynumber: 2.2 Consensus size: 94
1249234 ACAATAGTTA
* *
1249244 ATATATGTAACCTATAGTATATGTATACATGTAAACTATATAT-T-TAACTTATAGTACATGTAT
1 ATATATGTAACCTATAGTATATGTAT--ATATAAACTATATATATATAACCTATAGTACATGTAT
*
1249307 GTATA-AA-CTATGTATAGTA-TATATAAACTAT
64 ATATACAATCTATGTAT-GTATTATATAAAC--T
* *
1249338 ATATATATAACCTATAGTATATGTATATATAAACTATATATATATAACCTATAGTATATGTATAT
1 ATATATGTAACCTATAGTATATGTATATATAAACTATATATATATAACCTATAGTACATGTATAT
* *
1249403 ATACAATCTATTTATTTATTATATAAACT
66 ATACAATCTATGTATGTATTATATAAACT
1249432 ATATATGTAACCTATAGT
1 ATATATGTAACCTATAGT
1249450 TTATAAACAA
Statistics
Matches: 99, Mismatches: 8, Indels: 10
0.85 0.07 0.09
Matches are distributed among these distances:
92 14 0.14
93 1 0.01
94 64 0.65
95 4 0.04
96 16 0.16
ACGTcount: A:0.42, C:0.09, G:0.07, T:0.42
Consensus pattern (94 bp):
ATATATGTAACCTATAGTATATGTATATATAAACTATATATATATAACCTATAGTACATGTATAT
ATACAATCTATGTATGTATTATATAAACT
Found at i:1249364 original size:37 final size:37
Alignment explanation
Indices: 1249308--1249405 Score: 173
Period size: 37 Copynumber: 2.7 Consensus size: 37
1249298 TACATGTATG
*
1249308 TATAAACTAT-GTATA-GTATATATAAACTATATATA
1 TATAACCTATAGTATATGTATATATAAACTATATATA
1249343 TATAACCTATAGTATATGTATATATAAACTATATATA
1 TATAACCTATAGTATATGTATATATAAACTATATATA
1249380 TATAACCTATAGTATATGTATATATA
1 TATAACCTATAGTATATGTATATATA
1249406 CAATCTATTT
Statistics
Matches: 60, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
35 9 0.15
36 5 0.08
37 46 0.77
ACGTcount: A:0.46, C:0.07, G:0.06, T:0.41
Consensus pattern (37 bp):
TATAACCTATAGTATATGTATATATAAACTATATATA
Found at i:1249396 original size:57 final size:57
Alignment explanation
Indices: 1249280--1249454 Score: 144
Period size: 57 Copynumber: 3.1 Consensus size: 57
1249270 ACATGTAAAC
* * * * * * *
1249280 TATATATTTAACTTATAGTACATGTATGTATAAACTATGTATAGTATATA--TAAACTA
1 TATATATATAACATATAGTATATGTATATATAAACTATATATA-TATA-ACCTATAGTA
*
1249337 TATATATATAACCTATAGTATATGTATATATAAACTATATATATATAACCTATAGTA
1 TATATATATAACATATAGTATATGTATATATAAACTATATATATATAACCTATAGTA
* * * * * *
1249394 TATGTATATATACAATCTA-TTTATTTATTATATAAAC--TATATATGTAACCTATAGTT
1 TATATATATA-AC-ATATAGTATATGTA-TATATAAACTATATATATATAACCTATAGTA
1249451 TATA
1 TATA
1249455 AACAATAGTT
Statistics
Matches: 98, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
55 1 0.01
56 4 0.04
57 73 0.74
58 8 0.08
59 12 0.12
ACGTcount: A:0.42, C:0.08, G:0.06, T:0.43
Consensus pattern (57 bp):
TATATATATAACATATAGTATATGTATATATAAACTATATATATATAACCTATAGTA
Found at i:1249468 original size:21 final size:20
Alignment explanation
Indices: 1249444--1249534 Score: 58
Period size: 21 Copynumber: 4.3 Consensus size: 20
1249434 ATATGTAACC
1249444 TATAGTTTATAAACAATAGTT
1 TATA-TTTATAAACAATAGTT
**
1249465 TATA-TTAGTGTACTATATAGTT
1 TATATTTA-TAAAC-A-ATAGTT
* * *
1249487 TATACTTTATAACCTATAGTA
1 TATA-TTTATAAACAATAGTT
* *
1249508 TATAATTTATAAACTATAGTC
1 TAT-ATTTATAAACAATAGTT
1249529 TATATT
1 TATATT
1249535 AATGTACTAT
Statistics
Matches: 55, Mismatches: 9, Indels: 13
0.71 0.12 0.17
Matches are distributed among these distances:
19 3 0.05
20 6 0.11
21 30 0.55
22 11 0.20
23 2 0.04
24 3 0.05
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (20 bp):
TATATTTATAAACAATAGTT
Found at i:1249500 original size:57 final size:58
Alignment explanation
Indices: 1249439--1249554 Score: 144
Period size: 64 Copynumber: 1.9 Consensus size: 58
1249429 ACTATATATG
* *
1249439 TAACCTATAG-TTTATAAACAATAGTTTATATTAGTGTACTATATAGTTTATACTTTA
1 TAACCTATAGATTTATAAACAATAGTCTATATTAATGTACTATATAGTTTATACTTTA
*
1249496 TAACCTATAGTATATAATTTATAAACTATAGTCTATATTAATGTACTATATAGTTTATA
1 TAACCTATAG------ATTTATAAACAATAGTCTATATTAATGTACTATATAGTTTATA
1249555 TTAATGTTAA
Statistics
Matches: 49, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
57 10 0.20
64 39 0.80
ACGTcount: A:0.39, C:0.09, G:0.08, T:0.45
Consensus pattern (58 bp):
TAACCTATAGATTTATAAACAATAGTCTATATTAATGTACTATATAGTTTATACTTTA
Found at i:1249619 original size:21 final size:21
Alignment explanation
Indices: 1249575--1249672 Score: 85
Period size: 21 Copynumber: 4.6 Consensus size: 21
1249565 TTATCTTAAC
*
1249575 TATAATTTATATTAA-TATAGTA
1 TATAATTTATA--AACTATACTA
*
1249597 TATAGTTTATAAACTATACTA
1 TATAATTTATAAACTATACTA
* * *
1249618 TATTAA--TATTAATTATATTAA
1 TA-TAATTTATAAACTATACT-A
1249639 CTATAATTTATAAACTATACTA
1 -TATAATTTATAAACTATACTA
1249661 TATAATTTATAA
1 TATAATTTATAA
1249673 CATATAATTT
Statistics
Matches: 61, Mismatches: 9, Indels: 13
0.73 0.11 0.16
Matches are distributed among these distances:
20 12 0.20
21 24 0.39
22 15 0.25
23 10 0.16
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.47
Consensus pattern (21 bp):
TATAATTTATAAACTATACTA
Found at i:1249630 original size:65 final size:66
Alignment explanation
Indices: 1249508--1249716 Score: 207
Period size: 65 Copynumber: 3.2 Consensus size: 66
1249498 ACCTATAGTA
* * * * * * * *
1249508 TATAATTTATAAACTATAGTCTAT-ATTAATGTACTATATAGTTTATATTAATGTTAATTATCTT
1 TATAATTTATAAACTATACTATATAATTTAT-AAC-ATATAATCTATATTAATATTAATTATATT
1249572 AAC
64 AAC
* *
1249575 TATAATTTATATTAA-TATAGTATATAGTTTATAA-ACTAT-A-CTATATTAATATTAATTATAT
1 TATAATTTATA--AACTATACTATATAATTTATAACA-TATAATCTATATTAATATTAATTATAT
1249636 TAAC
63 TAAC
* *
1249640 TATAATTTATAAACTATACTATATAATTTATAACATATAATTTATATTAATATTAATTTTA-TAG
1 TATAATTTATAAACTATACTATATAATTTATAACATATAATCTATATTAATATTAATTATATTA-
1249704 AC
65 AC
1249706 TAT-ATTTATAA
1 TATAATTTATAA
1249717 TATTAATTAA
Statistics
Matches: 121, Mismatches: 12, Indels: 20
0.79 0.08 0.13
Matches are distributed among these distances:
63 2 0.02
64 20 0.17
65 45 0.37
66 24 0.20
67 14 0.12
68 10 0.08
69 6 0.05
ACGTcount: A:0.43, C:0.06, G:0.03, T:0.48
Consensus pattern (66 bp):
TATAATTTATAAACTATACTATATAATTTATAACATATAATCTATATTAATATTAATTATATTAA
C
Found at i:1249641 original size:29 final size:30
Alignment explanation
Indices: 1249551--1249817 Score: 96
Period size: 31 Copynumber: 8.7 Consensus size: 30
1249541 CTATATAGTT
* * *
1249551 TATATTAATGTTAATTATCTTAACTATAATT
1 TATATTAATATTAATTATATTAACTAT-ATC
* *
1249582 TATATTAATATAGTATATAGTTTATAAACTATA-C
1 TATATTAATAT--TA-AT--TATATTAACTATATC
*
1249616 TATATTAATATTAATTATATTAACTATAATT
1 TATATTAATATTAATTATATTAACTAT-ATC
* *
1249647 TATAAACTATACTATATAATT-TA-TAACATATAATT
1 TAT--A-T-TAATAT-TAATTATATTAAC-TAT-ATC
*
1249682 TATATTAATATTAATTTTA-TAGACTATAT-
1 TATATTAATATTAATTATATTA-ACTATATC
* * *
1249711 T-TA-TAATATTAATTAAAATT-A-TAAACTA
1 TATATTAATATTAATT-ATATTAACTATA-TC
*
1249739 TATATTAATA-TAAGTTAATAATAA-TATTAAT-
1 TATATTAATATTAA-TT-ATATTAACTA-T-ATC
*
1249770 TATATTAATATTAATTATAAT-A-TATAAT-
1 TATATTAATATTAATTATATTAACTAT-ATC
*
1249798 TATTTTAATATTAATTATAT
1 TATATTAATATTAATTATAT
1249818 ATATTTTATT
Statistics
Matches: 192, Mismatches: 18, Indels: 55
0.72 0.07 0.21
Matches are distributed among these distances:
26 3 0.02
27 13 0.07
28 26 0.14
29 20 0.10
30 24 0.12
31 42 0.22
32 9 0.05
33 5 0.03
34 18 0.09
35 18 0.09
36 14 0.07
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (30 bp):
TATATTAATATTAATTATATTAACTATATC
Found at i:1249652 original size:43 final size:40
Alignment explanation
Indices: 1249501--1249685 Score: 132
Period size: 43 Copynumber: 4.5 Consensus size: 40
1249491 CTTTATAACC
*
1249501 TATAGTATATAATTTATAAACTATAGTCTATATTAAT-GTACTA
1 TATAGTATATAATTTATAAACTATA--CTATATTAATATTA--A
* * *
1249544 TATAGTTTATATTAATGTTAATTATCT-TAACTATAATTTATATTAA
1 TATAG--TATA-TAAT-TT-ATAAACTAT-ACTAT-ATTAATATTAA
*
1249590 TATAGTATATAGTTTATAAACTATACTATATTAATATTAA
1 TATAGTATATAATTTATAAACTATACTATATTAATATTAA
*
1249630 TTATATTAACTATAATTTATAAACTATACTATA-TAAT-TT-A
1 -TATAGT-A-TATAATTTATAAACTATACTATATTAATATTAA
*
1249670 TA-A-CATATAATTTATA
1 TATAGTATATAATTTATA
1249686 TTAATATTAA
Statistics
Matches: 119, Mismatches: 11, Indels: 32
0.73 0.07 0.20
Matches are distributed among these distances:
35 11 0.09
36 1 0.01
38 1 0.01
39 2 0.02
40 11 0.09
41 17 0.14
42 8 0.07
43 30 0.25
44 4 0.03
45 4 0.03
46 14 0.12
47 8 0.07
48 8 0.07
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.47
Consensus pattern (40 bp):
TATAGTATATAATTTATAAACTATACTATATTAATATTAA
Found at i:1249664 original size:14 final size:14
Alignment explanation
Indices: 1249604--1249665 Score: 54
Period size: 14 Copynumber: 4.4 Consensus size: 14
1249594 GTATATAGTT
1249604 TATAAACTATACTA
1 TATAAACTATACTA
* *
1249618 TATTAA-TATTAATTA
1 TATAAACTA-T-ACTA
* * *
1249633 TATTAACTATAATT
1 TATAAACTATACTA
1249647 TATAAACTATACTA
1 TATAAACTATACTA
1249661 TATAA
1 TATAA
1249666 TTTATAACAT
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
13 2 0.05
14 24 0.63
15 10 0.26
16 2 0.05
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (14 bp):
TATAAACTATACTA
Found at i:1249685 original size:21 final size:21
Alignment explanation
Indices: 1249575--1249685 Score: 68
Period size: 21 Copynumber: 5.2 Consensus size: 21
1249565 TTATCTTAAC
*
1249575 TATAATTTATATTAA-TATAGTA
1 TATAATTTATA--AACTATAATA
* *
1249597 TATAGTTTATAAACTATACTA
1 TATAATTTATAAACTATAATA
* * *
1249618 TATTAA--TATTAATTATATTAA
1 TA-TAATTTATAAACTATAAT-A
*
1249639 CTATAATTTATAAACTATACTA
1 -TATAATTTATAAACTATAATA
*
1249661 TATAATTTAT-AACATATAATT
1 TATAATTTATAAAC-TATAATA
1249682 TATA
1 TATA
1249686 TTAATATTAA
Statistics
Matches: 71, Mismatches: 11, Indels: 15
0.73 0.11 0.15
Matches are distributed among these distances:
20 15 0.21
21 31 0.44
22 15 0.21
23 10 0.14
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.47
Consensus pattern (21 bp):
TATAATTTATAAACTATAATA
Found at i:1249777 original size:31 final size:27
Alignment explanation
Indices: 1249621--1249834 Score: 116
Period size: 28 Copynumber: 7.9 Consensus size: 27
1249611 TATACTATAT
1249621 TAATAT-TAATTATATTAACTATAA-T-
1 TAATATATAATTATATTAA-TATAATTA
* *
1249646 T--TATA-AACTATACT-ATATAATTTA
1 TAATATATAATTATATTAATATAA-TTA
*
1249670 TAACATATAATTTATATTAATATTAATT-
1 TAATATATAA-TTATATTAATA-TAATTA
* *
1249698 TTATAGACTATATT-TA-TAATATTAATTA
1 TAATATA-TA-ATTATATTAATA-TAATTA
*
1249726 AAAT-TATAAACTATATATTAATATAAGTTAA
1 TAATATAT-AA-T-TATATTAATATAA-TT-A
1249757 TAATAATATTAATTATATTAATATTAATTA
1 TAAT-ATA-TAATTATATTAATA-TAATTA
*
1249787 TAATATATAATTATTTTAATATTAATTA
1 TAATATATAATTATATTAATA-TAATTA
1249815 T-ATATAT--TT-TATTAATATAA
1 TAATATATAATTATATTAATATAA
1249835 ATTTTATAGG
Statistics
Matches: 151, Mismatches: 14, Indels: 50
0.70 0.07 0.23
Matches are distributed among these distances:
21 5 0.03
22 1 0.01
23 14 0.09
24 8 0.05
25 3 0.02
26 5 0.03
27 22 0.15
28 35 0.23
29 17 0.11
30 16 0.11
31 16 0.11
32 4 0.03
33 4 0.03
34 1 0.01
ACGTcount: A:0.48, C:0.03, G:0.01, T:0.49
Consensus pattern (27 bp):
TAATATATAATTATATTAATATAATTA
Found at i:1253205 original size:24 final size:23
Alignment explanation
Indices: 1253178--1253224 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
1253168 CCTCCCTTGC
1253178 ACTTTA-TAGTTTTCCTTCTTATGG
1 ACTTTACTA-TTTTCCTT-TTATGG
1253202 ACTTTATCTATTTTCCTTTTATG
1 ACTTTA-CTATTTTCCTTTTATG
1253225 TTTCAGTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 11 0.52
25 8 0.38
26 2 0.10
ACGTcount: A:0.17, C:0.17, G:0.09, T:0.57
Consensus pattern (23 bp):
ACTTTACTATTTTCCTTTTATGG
Found at i:1254274 original size:182 final size:181
Alignment explanation
Indices: 1253959--1254554 Score: 874
Period size: 182 Copynumber: 3.3 Consensus size: 181
1253949 GATACAAATG
* * * * * *
1253959 AAAAATGTATCGTTACATAACAATATTATAGGTAAAAATATGACAAAATCGGTCTCGAAATGACA
1 AAAAATGTATCGATCCATAACAATATAATAGGTAAAAATATGACAAAACCAGTCTCAAAATGACA
* * * * *
1254024 AAACTGGTAAAACGATATCGGATATGTTGAAAGTGTCGATAATTTAATATAAATATTGACACTTT
66 AAACCGGTAAAA-GATACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACATTTT
* *
1254089 TGGAATTTAAAAGATAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTAAA
130 TGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAA
* *
1254141 AAAAATGTATCGATCCATAACAATATAATATGTAAAAATATGACAAAA-CATATCTCAAAAATGA
1 AAAAATGTATCGATCCATAACAATATAATAGGTAAAAATATGACAAAACCA-GTCTC-AAAATGA
* *
1254205 CAAAACCGGTAAAA-AAACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGAAATTT
64 CAAAACCGGTAAAAGATACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACA-TT
1254269 TTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAA
128 TTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAA
* *
1254323 AAAAATGTATCAATCCATAACAATATAATAGGTAAAAATATGACAAAACCAGTCCCAAAATGACA
1 AAAAATGTATCGATCCATAACAATATAATAGGTAAAAATATGACAAAACCAGTCTCAAAATGACA
* *
1254388 AATCCGGTAAAATGCTACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTT
66 AAACCGGTAAAA-GATACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACA-TTT
* * *
1254453 CT-GAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTAT
129 TTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAA
* * *
1254505 GAAAATGTATCGATCCATAACAATATAACAGCTAAAAATATGACAAAACC
1 AAAAATGTATCGATCCATAACAATATAATAGGTAAAAATATGACAAAACC
1254555 GGTAAAGAGC
Statistics
Matches: 376, Mismatches: 32, Indels: 12
0.90 0.08 0.03
Matches are distributed among these distances:
181 63 0.17
182 244 0.65
183 69 0.18
ACGTcount: A:0.45, C:0.12, G:0.15, T:0.28
Consensus pattern (181 bp):
AAAAATGTATCGATCCATAACAATATAATAGGTAAAAATATGACAAAACCAGTCTCAAAATGACA
AAACCGGTAAAAGATACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACATTTTT
GGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAA
Found at i:1255043 original size:19 final size:19
Alignment explanation
Indices: 1255021--1255095 Score: 87
Period size: 19 Copynumber: 3.9 Consensus size: 19
1255011 CTTTTATTTA
*
1255021 ATATTTTAGGTAAAAAATG
1 ATATTATAGGTAAAAAATG
1255040 ATATTATAGGTAAAAAATG
1 ATATTATAGGTAAAAAATG
* * * *
1255059 ATATTACATGTAGAAAGTG
1 ATATTATAGGTAAAAAATG
* *
1255078 ATATTCTAGGTAGAAAAT
1 ATATTATAGGTAAAAAAT
1255096 AAATATGGAT
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 47 1.00
ACGTcount: A:0.47, C:0.03, G:0.17, T:0.33
Consensus pattern (19 bp):
ATATTATAGGTAAAAAATG
Found at i:1256461 original size:22 final size:22
Alignment explanation
Indices: 1256410--1256465 Score: 60
Period size: 24 Copynumber: 2.5 Consensus size: 22
1256400 AATGTTTTTG
*
1256410 TTTTTTTATATAAAATGATAGTA
1 TTTTATTATATAAAATGATAG-A
*
1256433 TAGTTATTATATAAAATGATA-A
1 T-TTTATTATATAAAATGATAGA
1256455 CTTTTATTATA
1 -TTTTATTATA
1256466 AATGCAGGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
22 9 0.32
23 2 0.07
24 17 0.61
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.50
Consensus pattern (22 bp):
TTTTATTATATAAAATGATAGA
Found at i:1258652 original size:19 final size:19
Alignment explanation
Indices: 1258628--1258676 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
1258618 AATGTAGGGT
*
1258628 TAATTTCGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
1258647 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
1258666 TAATTTTGTAT
1 TAATTTTGTAT
1258677 GTGAATGTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.33, C:0.04, G:0.10, T:0.53
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:1259616 original size:199 final size:199
Alignment explanation
Indices: 1259049--1260370 Score: 1940
Period size: 199 Copynumber: 6.7 Consensus size: 199
1259039 ATAAACTTAT
*
1259049 GTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * *
1259114 TGTAAATTAACAATGTAACCGGTCTAAATATACCAGTTTTTGAGAAAACAGATGTACAAAAAGTA
66 GGTAAATTAACAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTA
*
1259179 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTTTAAACCAAGTGCACGA
131 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCTAAACCAAGTGCACGA
1259244 AAAA
196 AAAA
**
1259248 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACGTCATAACCCAACCCATAATTATAATG
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAA---CAT--CGAAACCCATAATTATAATG
**
1259313 TAATAGGTAAATTAACAATGTAACCAATCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAA
61 TAATAGGTAAATTAACAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAA
*
1259378 AAGTATCGACACAAATAAAACAAGTGTCGATAGTTTTGGTCCAGAATGTATTTCTAAACCAAGTG
126 AAGTATCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCTAAACCAAGTG
1259443 CACGAAAAA
191 CACGAAAAA
1259452 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* *
1259517 GGTAAATTAACAATGTAACCGGTCTAAATATACCAGTTTTTGAGAAAACAGGTGTACAAAAAATA
66 GGTAAATTAACAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTA
*
1259582 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCATAATGTATTTCTAAACCAAGTGCACGA
131 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCTAAACCAAGTGCACGA
1259647 AAAA
196 AAAA
*
1259651 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCAAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * *
1259716 GGGTAAATTAACAATGTAACCAGTCTAAATATATCGGATTTTGAGAAAACAGGTGTACAAAAAGT
66 -GGTAAATTAACAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGT
* * *
1259781 ATCGACACAAATAAAACAAGTGTAGATACTTTTGGTCTAGAATGTATTTCTAAACCAAGTGCACA
130 ATCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCTAAACCAAGTGCACG
1259846 AAAAA
195 AAAAA
** * ** *
1259851 GTGTCGAT-C--CCA-AA-AA----C-AT--C-AAAAC--CCATAA-TTATAATGTA-ATAGGTA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGA-AACCCATAAT-TATA-ATGTA
* * * ** * *
1259899 A-A--T---TAA-CAATGTAACCAGTCTAATTATATTGGTTTTTGAGAAAACATGTGTATAAAAA
63 ATAGGTAAATTAACAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAA
* * * *
1259957 GTATGGATACAAATAAAACAAGTGTCGATACTTTTGATCCAAAATGTATTTCTAAACCAAGTGCA
128 GTATCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCTAAACCAAGTGCA
*
1260022 TG-AAAA
193 CGAAAAA
* * * *
1260028 GTGTCGATATATTTATAATAAGTGTCGATCCCAAAAACATCGAAACCCAAAATTTTAATGTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * **
1260093 GGTAAATTAACAATGTAACCGGTCTAAATGTATCTATTTTTGAGAAAACAGGTGTACAAAAAGTA
66 GGTAAATTAACAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTA
1260158 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCTAAACCAAGTGCACGA
131 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCTAAACCAAGTGCACGA
*
1260223 ATAA
196 AAAA
*
1260227 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAATATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
*
1260292 GGTAAATTAACAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTA-AAAAAATA
66 GGTAAATTAACAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTA
1260356 TCGACACAAATAAAA
131 TCGACACAAATAAAA
1260371 TAGGTATAAT
Statistics
Matches: 1007, Mismatches: 82, Indels: 69
0.87 0.07 0.06
Matches are distributed among these distances:
177 12 0.01
178 106 0.11
179 2 0.00
180 1 0.00
181 2 0.00
182 3 0.00
185 9 0.01
186 10 0.01
187 7 0.01
188 1 0.00
189 1 0.00
190 7 0.01
191 9 0.01
192 8 0.01
194 1 0.00
195 2 0.00
196 2 0.00
197 3 0.00
198 128 0.13
199 367 0.36
200 133 0.13
201 3 0.00
202 3 0.00
204 187 0.19
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.27
Consensus pattern (199 bp):
GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
GGTAAATTAACAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTA
TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCTAAACCAAGTGCACGA
AAAA
Found at i:1259971 original size:178 final size:178
Alignment explanation
Indices: 1259670--1260234 Score: 623
Period size: 178 Copynumber: 3.1 Consensus size: 178
1259660 CATTTATAAC
1259670 AAGTGTCGATCCCAAAAACATCAAAACCCATAATTATAATGTAATAGGGTAAATTAACAATGTAA
1 AAGTGTCGATCCCAAAAACATCAAAACCCATAATTATAATGTAATAGGGTAAATTAACAATGTAA
1259735 CCAGTCTAAATATATCGGATTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAACAA
66 CCAGTCTAAATATATCGGATTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAACAA
* * *
1259800 GTGTAGATACTTTTGGTCTAGAATGTATTTCTAAACCAAGTGCACAAAA
131 GTGTAGATACTTTTGATCCAAAATGTATTTCTAAACCAAGTGCA-AAAA
1259849 AAGTGTCGATCCCAAAAACATCAAAACCCATAATTATAATGTAATA-GGTAAATTAACAATGTAA
1 AAGTGTCGATCCCAAAAACATCAAAACCCATAATTATAATGTAATAGGGTAAATTAACAATGTAA
* * * * * * *
1259913 CCAGTCTAATTATATTGGTTTTTGAGAAAACATGTGTATAAAAAGTATGGATACAAATAAAACAA
66 CCAGTCTAAATATATCGGATTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAACAA
* **
1259978 GTGTCGATACTTTTGATCCAAAATGTATTTCTAAACCAAGTGCATGAA
131 GTGTAGATACTTTTGATCCAAAATGTATTTCTAAACCAAGTGCAAAAA
*** * ** * *
1260026 AAGTGTCGATATATTTATAATAAGTGTCGATCCCAAAA-ACATCGAAACCCAAAATTTTAATGTA
1 AAGTGTCG--AT-CCCA-AA-AA----C-AT--CAAAACCCAT---AA-TTATAA-TGTAA--T-
* * * *
1260090 ATAGGTAAATTAACAATGTAACCGGTCTAAATGTATC-TATTTTTGAGAAAACAGGTGTACAAAA
46 A-GGGTAAATTAACAATGTAACCAGTCTAAATATATCGGA-TTTTGAGAAAACAGGTGTACAAAA
* * *
1260154 AGTATCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCTAAACCAAGTGC
109 AGTATCGACACAAATAAAACAAGTGTAGATACTTTTGATCCAAAATGTATTTCTAAACCAAGTGC
* *
1260219 ACGAAT
174 A-AAAA
1260225 AAGTGTCGAT
1 AAGTGTCGAT
1260235 ACATTTATAA
Statistics
Matches: 326, Mismatches: 36, Indels: 30
0.83 0.09 0.08
Matches are distributed among these distances:
177 10 0.03
178 116 0.36
179 48 0.15
180 1 0.00
181 2 0.01
182 2 0.01
186 1 0.00
187 2 0.01
188 3 0.01
189 5 0.02
191 2 0.01
192 3 0.01
193 4 0.01
195 1 0.00
196 1 0.00
197 2 0.01
198 114 0.35
199 9 0.03
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.28
Consensus pattern (178 bp):
AAGTGTCGATCCCAAAAACATCAAAACCCATAATTATAATGTAATAGGGTAAATTAACAATGTAA
CCAGTCTAAATATATCGGATTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAACAA
GTGTAGATACTTTTGATCCAAAATGTATTTCTAAACCAAGTGCAAAAA
Found at i:1260187 original size:198 final size:198
Alignment explanation
Indices: 1259849--1260370 Score: 832
Period size: 198 Copynumber: 2.6 Consensus size: 198
1259839 GTGCACAAAA
*
1259849 AAGTGTCGATCCCAAAAACATCAAAACCCATAATTATAATGTAATAGGTAAATTAACAATGTAAC
1 AAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAAATTAACAATGTAAC
* * * * *
1259914 CAGTCTAATTATAT-TGGTTTTTGAGAAAACATGTGTATAAAAAGTATGGATACAAATAAAACAA
66 CGGTCTAAATATATCT-GTTTTTGAGAAAACAGGTGTA-AAAAAGTATCGACACAAATAAAACAA
* *
1259978 GTGTCGATACTTTTGATCCAAAATGTATTTCTAAACCAAGTGCATGAA-AAGTGTCGATATATTT
129 GTGTCGATACTTTTGATCCAAAATGTATTTCTAAACCAAGTGCACGAATAAGTGTCGATACATTT
*
1260042 ATAAT
194 ATAAC
* *
1260047 AAGTGTCGATCCCAAAAACATCGAAACCCAAAATTTTAATGTAATAGGTAAATTAACAATGTAAC
1 AAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAAATTAACAATGTAAC
* *
1260112 CGGTCTAAATGTATCTATTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAACAAG
66 CGGTCTAAATATATCTGTTTTTGAGAAAACAGGTGTA-AAAAAGTATCGACACAAATAAAACAAG
* *
1260177 TGTCGATACTTTTGGTCCAGAATGTATTTCTAAACCAAGTGCACGAATAAGTGTCGATACATTTA
130 TGTCGATACTTTTGATCCAAAATGTATTTCTAAACCAAGTGCACGAATAAGTGTCGATACATTTA
1260242 TAAC
195 TAAC
*
1260246 AAGTGTCGATCCCAAAAATATCGAAACCCATAATTATAATGTAATAGGTAAATTAACAATGTAAC
1 AAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAAATTAACAATGTAAC
* * *
1260311 CGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTAAAAAAATATCGACACAAATAAAA
66 CGGTCTAAATATATCTGTTTTTGAGAAAACAGGTGTAAAAAAGTATCGACACAAATAAAA
1260371 TAGGTATAAT
Statistics
Matches: 298, Mismatches: 24, Indels: 4
0.91 0.07 0.01
Matches are distributed among these distances:
198 183 0.61
199 115 0.39
ACGTcount: A:0.43, C:0.14, G:0.15, T:0.28
Consensus pattern (198 bp):
AAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAAATTAACAATGTAAC
CGGTCTAAATATATCTGTTTTTGAGAAAACAGGTGTAAAAAAGTATCGACACAAATAAAACAAGT
GTCGATACTTTTGATCCAAAATGTATTTCTAAACCAAGTGCACGAATAAGTGTCGATACATTTAT
AAC
Found at i:1260756 original size:14 final size:15
Alignment explanation
Indices: 1260737--1260777 Score: 57
Period size: 14 Copynumber: 2.8 Consensus size: 15
1260727 TTTCTCAAAG
1260737 CTCTTCTCAACCCA-
1 CTCTTCTCAACCCAT
*
1260751 CTCTTCCCAACCCAT
1 CTCTTCTCAACCCAT
*
1260766 CTCTTCTTAACC
1 CTCTTCTCAACC
1260778 ACAACCTCCT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
14 13 0.57
15 10 0.43
ACGTcount: A:0.20, C:0.49, G:0.00, T:0.32
Consensus pattern (15 bp):
CTCTTCTCAACCCAT
Found at i:1263264 original size:24 final size:24
Alignment explanation
Indices: 1263213--1263265 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
1263203 TTTCATTTAT
* * *
1263213 AATTAGAGCTTGAATTTAAATTTC
1 AATTTGAGCTTGAATTTAAATGTA
*
1263237 AATTTGAGTTTGAATTTAAATGTA
1 AATTTGAGCTTGAATTTAAATGTA
1263261 AATTT
1 AATTT
1263266 CAGCCCCACT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.38, C:0.04, G:0.13, T:0.45
Consensus pattern (24 bp):
AATTTGAGCTTGAATTTAAATGTA
Found at i:1264568 original size:594 final size:594
Alignment explanation
Indices: 1263440--1265019 Score: 2238
Period size: 594 Copynumber: 2.6 Consensus size: 594
1263430 TTCATTCGTG
* * * * * **
1263440 TCGATACATGTTGTCCATAATGTA-TTTCCAAACCAAGTGTACGGGAAAAATGTTTATACATTTA
1 TCGATACTTTTTGTCCATAATGTATTTTCCAAACCAAGTGCAC-GGCAAAGTGTCGATACATTTA
* * * * * *
1263504 TAACAAGTATCGATCCCAAAAACATTGAAACACATA-ATTATAATGTAATAAGTAAATTAACAAT
65 TAACAAGTGTCGATACTAAAAACATTGAATCACATAGA-TATAATGTAATAGGTAAAATAACAAT
** * * * * * *
1263568 GTAGTC-AGTCTAAATAAACCGATTTTTGAGAAAACATGTATACATAAAGTATCGATACAAATCC
129 GTAACCGA-CCTAAATACACAG-TTTATGAGAAAACATGTATACATAAAGTATCGACACAAATAC
* * *
1263632 AACAAGTGTCGATACTTTTTGTCCAGAATGTATTTTCTAAACCAAGTGCACAACAAAGTGTCGAT
192 AACAAGTGTCGATACTTTTTGTCCATAATGTATTTTCAAAACCAAGTGCACGACAAAGTGTCGAT
*
1263697 ACATTTATAACAAGTGTCGATACTAAAATCATCGAAACACATAGATATAATGTAATAGGTAAAAT
257 ACATTTATAACAAGTGTCGATACTAAAAACATCGAAACACATAGATATAATGTAATAGGTAAAAT
* * *
1263762 AACAATGTAACC-AGCCTAAATACACCGGTTTATGAGAAAACAAGCATACATAAAGTATCGACAC
322 AACAATGTAACCGA-CCTAAATACACCGGTTTATGAGAAAATAGGTATACATAAAGTATCGACAC
*
1263826 AAATCCAACAAGTGTCAATACTTTTTGTCCATAATGTATTTTCCAAACCAATGCACAAAAAAGTG
386 AAATACAACAAGTGTCAATACTTTTTGTCCATAATGTATTTTCCAAACCAATGCACAAAAAAGTG
* * * *
1263891 TCGATACATTTATAACATGTGTCGATCCCAAATACATTGAAACCTATAATTACAATGTAATAGGT
451 TCGATACATTTATAACAAGTGTCGATACCAAATACATCGAAACCTATAAATACAATGTAATAGGT
* ** * ** ** * *
1263956 CACTTTACAATGTAACCGGTTTAAATTTATCGG-GAGAAAATAGGTATACATAAAGTATCGACAC
516 AAAATAACAATGTAACCGGCCTAAATACACCGGTGAGAAAACAGGTATACATAAAGTATCGACAC
1264020 AAATCCAACAAGTA
581 AAATCCAACAAGTA
*
1264034 TCGATACTTTTTGTCCATAATGTATTTTCCAAACCAAGTGCATGGCAAAGTGTCGATACATTTAT
1 TCGATACTTTTTGTCCATAATGTATTTTCCAAACCAAGTGCACGGCAAAGTGTCGATACATTTAT
1264099 AACAAGTGTCGATACTAAAAACATTGAATCACATAGATATAATGTAATAGGTAAAATAACAATGT
66 AACAAGTGTCGATACTAAAAACATTGAATCACATAGATATAATGTAATAGGTAAAATAACAATGT
* * *
1264164 AACCGACCTAAATACACTAGCTTATGAGAAAACAAGTATACATAAAGTATCGACACAAATTCAAC
131 AACCGACCTAAATACAC-AGTTTATGAGAAAACATGTATACATAAAGTATCGACACAAATACAAC
* * *
1264229 AAGTGTCGATACTTTTTGTCCATAATGTATTTTCCAAACCATGTGCAGGACAAAGTGTCGATACA
195 AAGTGTCGATACTTTTTGTCCATAATGTATTTTCAAAACCAAGTGCACGACAAAGTGTCGATACA
1264294 TTTATAACAAGTGTCGATACTAAAAACATCGAAACACATAGATATAATGTAATAGGTAAAATAAC
260 TTTATAACAAGTGTCGATACTAAAAACATCGAAACACATAGATATAATGTAATAGGTAAAATAAC
* *
1264359 AATGTAACCGACCTAAATACACCAGTTTATGAGAAAATAGGTATACATAAAGTATCGGCACAAAT
325 AATGTAACCGACCTAAATACACCGGTTTATGAGAAAATAGGTATACATAAAGTATCGACACAAAT
* * * ** *
1264424 ACAACAAGTTTCGATACTTTTTGTCTATAATGTATTTTCCAAACCAAGTGCATGACAAAGTGTCG
390 ACAACAAGTGTCAATACTTTTTGTCCATAATGTATTTTCCAAACCAA-TGCACAAAAAAGTGTCG
* *
1264489 ATACATTTATAACAAGTGTCGATACTAAA-ACATCGAAACAC-ATAAATATAATGTAATAGGTAA
454 ATACATTTATAACAAGTGTCGATACCAAATACATCGAAAC-CTATAAATACAATGTAATAGGTAA
*
1264552 AATAACAATGTAACCGGCCTAAATACACCGGTTTATTAGAAAACAGGTATACATAAAGTATCGAC
518 AATAACAATGTAACCGGCCTAAATACACCGG----TGAGAAAACAGGTATACATAAAGTATCGAC
* *
1264617 ACAAATTCAACAAGTG
579 ACAAATCCAACAAGTA
* *
1264633 TCGATACTTTTTGTCCATAATGTCTTTTCCAAACCAAGTGCACGACAAAGTGTCGATACATTTAT
1 TCGATACTTTTTGTCCATAATGTATTTTCCAAACCAAGTGCACGGCAAAGTGTCGATACATTTAT
* * *
1264698 AACAAGCGTCGATTCTAAAAACATCGAATCACATAGATATAATGTAATAGGTAAAATAACAATGT
66 AACAAGTGTCGATACTAAAAACATTGAATCACATAGATATAATGTAATAGGTAAAATAACAATGT
* * *
1264763 AACCGGCCTAAGTACACCGGTTTATGAGAAAACATGTATACATAAAGTATCGACACAAATACAAC
131 AACCGACCTAAATACA-CAGTTTATGAGAAAACATGTATACATAAAGTATCGACACAAATACAAC
*
1264828 AAGTGTCGATACTTTTTGTCCATAATTTATTTTCAAAACCAAGTGCACGACAAAGTGTCGATACA
195 AAGTGTCGATACTTTTTGTCCATAATGTATTTTCAAAACCAAGTGCACGACAAAGTGTCGATACA
* * ** *
1264893 TTTATAACAAATGTCGATACTAAAAACATCGAAACACATAGATATAATGTAATAGGTCACTTTAC
260 TTTATAACAAGTGTCGATACTAAAAACATCGAAACACATAGATATAATGTAATAGGTAAAATAAC
*** ** *
1264958 AATGTAACCGGTTTAAATTTATCGGTTTTATGAGAAAATAGGTATACATAAAGTATCGACAC
325 AATGTAACCGACCTAAATACACCGG-TTTATGAGAAAATAGGTATACATAAAGTATCGACAC
1265020 TTTATTTATT
Statistics
Matches: 882, Mismatches: 90, Indels: 22
0.89 0.09 0.02
Matches are distributed among these distances:
594 424 0.48
595 61 0.07
599 361 0.41
600 36 0.04
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (594 bp):
TCGATACTTTTTGTCCATAATGTATTTTCCAAACCAAGTGCACGGCAAAGTGTCGATACATTTAT
AACAAGTGTCGATACTAAAAACATTGAATCACATAGATATAATGTAATAGGTAAAATAACAATGT
AACCGACCTAAATACACAGTTTATGAGAAAACATGTATACATAAAGTATCGACACAAATACAACA
AGTGTCGATACTTTTTGTCCATAATGTATTTTCAAAACCAAGTGCACGACAAAGTGTCGATACAT
TTATAACAAGTGTCGATACTAAAAACATCGAAACACATAGATATAATGTAATAGGTAAAATAACA
ATGTAACCGACCTAAATACACCGGTTTATGAGAAAATAGGTATACATAAAGTATCGACACAAATA
CAACAAGTGTCAATACTTTTTGTCCATAATGTATTTTCCAAACCAATGCACAAAAAAGTGTCGAT
ACATTTATAACAAGTGTCGATACCAAATACATCGAAACCTATAAATACAATGTAATAGGTAAAAT
AACAATGTAACCGGCCTAAATACACCGGTGAGAAAACAGGTATACATAAAGTATCGACACAAATC
CAACAAGTA
Found at i:1264663 original size:399 final size:399
Alignment explanation
Indices: 1263437--1265168 Score: 2188
Period size: 399 Copynumber: 4.3 Consensus size: 399
1263427 TTATTCATTC
* * * * * **
1263437 GTGTCGATACATGTTGTCCATAATGTA-TTTCCAAACCAAGTGTACGGGA-AAAATGTTTATACA
1 GTGTCGATACTTTTTGTCCATAATGTATTTTCCAAACCATGTGCAC--GACAAAGTGTCGATACA
* * * *
1263500 TTTATAACAAGTATCGATCCCAAAAACATTGAAACACATAATTATAATGTAATAAGTAAATTAAC
64 TTTATAACAAGTGTCGATCCCAAAAACATCGAAACACATAATTATAATGTAATAGGTAAAATAAC
** * * * * *
1263565 AATGTAGTC-AGTCTAAATAAACCGATTTTTGAGAAAACATGTATACATAAAGTATCGATACAAA
129 AATGTAACCGA-CCTAAATACACCG-TTTATGAGAAAACAGGTATACATAAAGTATCGACACAAA
* * * *
1263629 TCCAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTTCTAAACCAAGTGCACAACAAAGTGTC
192 TACAACAAGTGTCGATACTTTTTGTCCATAATGTATTTTCCAAACCAAGTGCACGACAAAGTGTC
*
1263694 GATACATTTATAACAAGTGTCGATACTAAAATCATCGAAACACATAGATATAATGTAATAGGTAA
257 GATACATTTATAACAAGTGTCGATACTAAAAACATCGAAACACATAGATATAATGTAATAGGTAA
* *
1263759 AATAACAATGTAACCAGCCTAAATACACCGGTTTATGAGAAAACAAGCATACATAAAGTATCGAC
322 AATAACAATGTAACCGGCCTAAATACACCGGTTTATGAGAAAACAAGTATACATAAAGTATCGAC
*
1263824 ACAAATCCAACAA
387 ACAAATTCAACAA
* * * *
1263837 GTGTCAATACTTTTTGTCCATAATGTATTTTCCAAACCA-ATGCACAAAAAAGTGTCGATACATT
1 GTGTCGATACTTTTTGTCCATAATGTATTTTCCAAACCATGTGCACGACAAAGTGTCGATACATT
* * * * * ** *
1263901 TATAACATGTGTCGATCCCAAATACATTGAAAC-CTATAATTACAATGTAATAGGTCACTTTACA
66 TATAACAAGTGTCGATCCCAAAAACATCGAAACAC-ATAATTATAATGTAATAGGTAAAATAACA
*** ** * * * *
1263965 ATGTAACCGGTTTAAATTTATCG----GGAGAAAATAGGTATACATAAAGTATCGACACAAATCC
130 ATGTAACCGACCTAAATACACCGTTTATGAGAAAACAGGTATACATAAAGTATCGACACAAATAC
* * *
1264026 AACAAGTATCGATACTTTTTGTCCATAATGTATTTTCCAAACCAAGTGCATGGCAAAGTGTCGAT
195 AACAAGTGTCGATACTTTTTGTCCATAATGTATTTTCCAAACCAAGTGCACGACAAAGTGTCGAT
* *
1264091 ACATTTATAACAAGTGTCGATACTAAAAACATTGAATCACATAGATATAATGTAATAGGTAAAAT
260 ACATTTATAACAAGTGTCGATACTAAAAACATCGAAACACATAGATATAATGTAATAGGTAAAAT
* ** *
1264156 AACAATGTAACCGACCTAAATACACTAGCTTATGAGAAAACAAGTATACATAAAGTATCGACACA
325 AACAATGTAACCGGCCTAAATACACCGGTTTATGAGAAAACAAGTATACATAAAGTATCGACACA
1264221 AATTCAACAA
390 AATTCAACAA
*
1264231 GTGTCGATACTTTTTGTCCATAATGTATTTTCCAAACCATGTGCAGGACAAAGTGTCGATACATT
1 GTGTCGATACTTTTTGTCCATAATGTATTTTCCAAACCATGTGCACGACAAAGTGTCGATACATT
* *
1264296 TATAACAAGTGTCGATACTAAAAACATCGAAACACATAGA-TATAATGTAATAGGTAAAATAACA
66 TATAACAAGTGTCGATCCCAAAAACATCGAAACACATA-ATTATAATGTAATAGGTAAAATAACA
* *
1264360 ATGTAACCGACCTAAATACACCAGTTTATGAGAAAATAGGTATACATAAAGTATCGGCACAAATA
130 ATGTAACCGACCTAAATACACC-GTTTATGAGAAAACAGGTATACATAAAGTATCGACACAAATA
* * *
1264425 CAACAAGTTTCGATACTTTTTGTCTATAATGTATTTTCCAAACCAAGTGCATGACAAAGTGTCGA
194 CAACAAGTGTCGATACTTTTTGTCCATAATGTATTTTCCAAACCAAGTGCACGACAAAGTGTCGA
*
1264490 TACATTTATAACAAGTGTCGATACT-AAAACATCGAAACACATAAATATAATGTAATAGGTAAAA
259 TACATTTATAACAAGTGTCGATACTAAAAACATCGAAACACATAGATATAATGTAATAGGTAAAA
* *
1264554 TAACAATGTAACCGGCCTAAATACACCGGTTTATTAGAAAACAGGTATACATAAAGTATCGACAC
324 TAACAATGTAACCGGCCTAAATACACCGGTTTATGAGAAAACAAGTATACATAAAGTATCGACAC
1264619 AAATTCAACAA
389 AAATTCAACAA
* *
1264630 GTGTCGATACTTTTTGTCCATAATGTCTTTTCCAAACCAAGTGCACGACAAAGTGTCGATACATT
1 GTGTCGATACTTTTTGTCCATAATGTATTTTCCAAACCATGTGCACGACAAAGTGTCGATACATT
* * * *
1264695 TATAACAAGCGTCGATTCTAAAAACATCGAATCACATAGA-TATAATGTAATAGGTAAAATAACA
66 TATAACAAGTGTCGATCCCAAAAACATCGAAACACATA-ATTATAATGTAATAGGTAAAATAACA
* * *
1264759 ATGTAACCGGCCTAAGTACACCGGTTTATGAGAAAACATGTATACATAAAGTATCGACACAAATA
130 ATGTAACCGACCTAAATACACC-GTTTATGAGAAAACAGGTATACATAAAGTATCGACACAAATA
* *
1264824 CAACAAGTGTCGATACTTTTTGTCCATAATTTATTTTCAAAACCAAGTGCACGACAAAGTGTCGA
194 CAACAAGTGTCGATACTTTTTGTCCATAATGTATTTTCCAAACCAAGTGCACGACAAAGTGTCGA
* * **
1264889 TACATTTATAACAAATGTCGATACTAAAAACATCGAAACACATAGATATAATGTAATAGGTCACT
259 TACATTTATAACAAGTGTCGATACTAAAAACATCGAAACACATAGATATAATGTAATAGGTAAAA
* ** ** * * *
1264954 TTACAATGTAACCGGTTTAAATTTATCGGTTTTATGAGAAAATAGGTATACATAAAGTATCGACA
324 TAACAATGTAACCGGCCTAAATACACCGG-TTTATGAGAAAACAAGTATACATAAAGTATCGACA
** * ***
1265019 CTTTATT-TATTT
388 C-AAATTCAACAA
* * * * * *
1265031 GT-TCGATACTTTTTATCCATAATG-AATTCCCAAACTATGTGCAC-ACATAAATTTTCGATACA
1 GTGTCGATACTTTTTGTCCATAATGTATTTTCCAAACCATGTGCACGAC--AAAGTGTCGATACA
** * * * * **
1265093 TTTATTAA-AAGCATCGACCCCAAATACATC-AAGAC-CAAAAATTATAATGTAATAGGTCACTT
64 TTTA-TAACAAGTGTCGATCCCAAAAACATCGAA-ACAC-ATAATTATAATGTAATAGGTAAAAT
*
1265155 TACAATGTAACCGA
126 AACAATGTAACCGA
1265169 TTAAATTTAC
Statistics
Matches: 1175, Mismatches: 136, Indels: 42
0.87 0.10 0.03
Matches are distributed among these distances:
394 261 0.22
395 87 0.07
396 3 0.00
398 4 0.00
399 473 0.40
400 293 0.25
401 51 0.04
402 3 0.00
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.29
Consensus pattern (399 bp):
GTGTCGATACTTTTTGTCCATAATGTATTTTCCAAACCATGTGCACGACAAAGTGTCGATACATT
TATAACAAGTGTCGATCCCAAAAACATCGAAACACATAATTATAATGTAATAGGTAAAATAACAA
TGTAACCGACCTAAATACACCGTTTATGAGAAAACAGGTATACATAAAGTATCGACACAAATACA
ACAAGTGTCGATACTTTTTGTCCATAATGTATTTTCCAAACCAAGTGCACGACAAAGTGTCGATA
CATTTATAACAAGTGTCGATACTAAAAACATCGAAACACATAGATATAATGTAATAGGTAAAATA
ACAATGTAACCGGCCTAAATACACCGGTTTATGAGAAAACAAGTATACATAAAGTATCGACACAA
ATTCAACAA
Found at i:1265044 original size:200 final size:200
Alignment explanation
Indices: 1263437--1265019 Score: 2209
Period size: 200 Copynumber: 7.9 Consensus size: 200
1263427 TTATTCATTC
* * * * **
1263437 GTGTCGATACATGTTGTCCATAATGTA-TTTCCAAACCAAGTGTACGGGA-AAAATGTTTATACA
1 GTGTCGATACTTTTTGTCCATAATGTATTTTCCAAACCAAGTGCAC--GACAAAGTGTCGATACA
* * * * * *
1263500 TTTATAACAAGTATCGATCCCAAAAACATTGAAACACATA-ATTATAATGTAATAAGTAAATTAA
64 TTTATAACAAGTGTCGATACTAAAAACATCGAAACACATAGA-TATAATGTAATAGGTAAAATAA
** * * * * * * *
1263564 CAATGTAGTCAGTCTAAATAAACCGATTTTTGAGAAAACATGTATACATAAAGTATCGATACAAA
128 CAATGTAACCGGCCTAAATACACCGGTTTATGAGAAAACAGGTATACATAAAGTATCGACACAAA
1263629 TCCAACAA
193 TCCAACAA
* * *
1263637 GTGTCGATACTTTTTGTCCAGAATGTATTTTCTAAACCAAGTGCACAACAAAGTGTCGATACATT
1 GTGTCGATACTTTTTGTCCATAATGTATTTTCCAAACCAAGTGCACGACAAAGTGTCGATACATT
*
1263702 TATAACAAGTGTCGATACTAAAATCATCGAAACACATAGATATAATGTAATAGGTAAAATAACAA
66 TATAACAAGTGTCGATACTAAAAACATCGAAACACATAGATATAATGTAATAGGTAAAATAACAA
* * *
1263767 TGTAACCAGCCTAAATACACCGGTTTATGAGAAAACAAGCATACATAAAGTATCGACACAAATCC
131 TGTAACCGGCCTAAATACACCGGTTTATGAGAAAACAGGTATACATAAAGTATCGACACAAATCC
1263832 AACAA
196 AACAA
* * *
1263837 GTGTCAATACTTTTTGTCCATAATGTATTTTCCAAACCAA-TGCACAAAAAAGTGTCGATACATT
1 GTGTCGATACTTTTTGTCCATAATGTATTTTCCAAACCAAGTGCACGACAAAGTGTCGATACATT
* * * * * * * ** *
1263901 TATAACATGTGTCGATCCCAAATACATTGAAAC-CTATA-ATTACAATGTAATAGGTCACTTTAC
66 TATAACAAGTGTCGATACTAAAAACATCGAAACAC-ATAGA-TATAATGTAATAGGTAAAATAAC
** ** * *
1263964 AATGTAACCGGTTTAAATTTATCGG-----GAGAAAATAGGTATACATAAAGTATCGACACAAAT
129 AATGTAACCGGCCTAAATACACCGGTTTATGAGAAAACAGGTATACATAAAGTATCGACACAAAT
1264024 CCAACAA
194 CCAACAA
* * *
1264031 GTATCGATACTTTTTGTCCATAATGTATTTTCCAAACCAAGTGCATGGCAAAGTGTCGATACATT
1 GTGTCGATACTTTTTGTCCATAATGTATTTTCCAAACCAAGTGCACGACAAAGTGTCGATACATT
* *
1264096 TATAACAAGTGTCGATACTAAAAACATTGAATCACATAGATATAATGTAATAGGTAAAATAACAA
66 TATAACAAGTGTCGATACTAAAAACATCGAAACACATAGATATAATGTAATAGGTAAAATAACAA
* ** * * *
1264161 TGTAACCGACCTAAATACACTAGCTTATGAGAAAACAAGTATACATAAAGTATCGACACAAATTC
131 TGTAACCGGCCTAAATACACCGGTTTATGAGAAAACAGGTATACATAAAGTATCGACACAAATCC
1264226 AACAA
196 AACAA
* *
1264231 GTGTCGATACTTTTTGTCCATAATGTATTTTCCAAACCATGTGCAGGACAAAGTGTCGATACATT
1 GTGTCGATACTTTTTGTCCATAATGTATTTTCCAAACCAAGTGCACGACAAAGTGTCGATACATT
1264296 TATAACAAGTGTCGATACTAAAAACATCGAAACACATAGATATAATGTAATAGGTAAAATAACAA
66 TATAACAAGTGTCGATACTAAAAACATCGAAACACATAGATATAATGTAATAGGTAAAATAACAA
* * * * *
1264361 TGTAACCGACCTAAATACACCAGTTTATGAGAAAATAGGTATACATAAAGTATCGGCACAAATAC
131 TGTAACCGGCCTAAATACACCGGTTTATGAGAAAACAGGTATACATAAAGTATCGACACAAATCC
1264426 AACAA
196 AACAA
* * *
1264431 GTTTCGATACTTTTTGTCTATAATGTATTTTCCAAACCAAGTGCATGACAAAGTGTCGATACATT
1 GTGTCGATACTTTTTGTCCATAATGTATTTTCCAAACCAAGTGCACGACAAAGTGTCGATACATT
*
1264496 TATAACAAGTGTCGATACT-AAAACATCGAAACACATAAATATAATGTAATAGGTAAAATAACAA
66 TATAACAAGTGTCGATACTAAAAACATCGAAACACATAGATATAATGTAATAGGTAAAATAACAA
* *
1264560 TGTAACCGGCCTAAATACACCGGTTTATTAGAAAACAGGTATACATAAAGTATCGACACAAATTC
131 TGTAACCGGCCTAAATACACCGGTTTATGAGAAAACAGGTATACATAAAGTATCGACACAAATCC
1264625 AACAA
196 AACAA
*
1264630 GTGTCGATACTTTTTGTCCATAATGTCTTTTCCAAACCAAGTGCACGACAAAGTGTCGATACATT
1 GTGTCGATACTTTTTGTCCATAATGTATTTTCCAAACCAAGTGCACGACAAAGTGTCGATACATT
* * *
1264695 TATAACAAGCGTCGATTCTAAAAACATCGAATCACATAGATATAATGTAATAGGTAAAATAACAA
66 TATAACAAGTGTCGATACTAAAAACATCGAAACACATAGATATAATGTAATAGGTAAAATAACAA
* * *
1264760 TGTAACCGGCCTAAGTACACCGGTTTATGAGAAAACATGTATACATAAAGTATCGACACAAATAC
131 TGTAACCGGCCTAAATACACCGGTTTATGAGAAAACAGGTATACATAAAGTATCGACACAAATCC
1264825 AACAA
196 AACAA
* *
1264830 GTGTCGATACTTTTTGTCCATAATTTATTTTCAAAACCAAGTGCACGACAAAGTGTCGATACATT
1 GTGTCGATACTTTTTGTCCATAATGTATTTTCCAAACCAAGTGCACGACAAAGTGTCGATACATT
* * ** *
1264895 TATAACAAATGTCGATACTAAAAACATCGAAACACATAGATATAATGTAATAGGTCACTTTACAA
66 TATAACAAGTGTCGATACTAAAAACATCGAAACACATAGATATAATGTAATAGGTAAAATAACAA
** ** * *
1264960 TGTAACCGGTTTAAATTTATCGGTTTTATGAGAAAATAGGTATACATAAAGTATCGACAC
131 TGTAACCGGCCTAAATACACCGG-TTTATGAGAAAACAGGTATACATAAAGTATCGACAC
1265020 TTTATTTATT
Statistics
Matches: 1238, Mismatches: 130, Indels: 29
0.89 0.09 0.02
Matches are distributed among these distances:
194 77 0.06
195 86 0.07
196 2 0.00
198 2 0.00
199 277 0.22
200 743 0.60
201 51 0.04
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (200 bp):
GTGTCGATACTTTTTGTCCATAATGTATTTTCCAAACCAAGTGCACGACAAAGTGTCGATACATT
TATAACAAGTGTCGATACTAAAAACATCGAAACACATAGATATAATGTAATAGGTAAAATAACAA
TGTAACCGGCCTAAATACACCGGTTTATGAGAAAACAGGTATACATAAAGTATCGACACAAATCC
AACAA
Found at i:1265284 original size:599 final size:595
Alignment explanation
Indices: 1263437--1265303 Score: 2308
Period size: 599 Copynumber: 3.1 Consensus size: 595
1263427 TTATTCATTC
* * * * * **
1263437 GTGTCGATACATGTTGTCCATAATGTATTTCCAAACCAAGTGTACGGGAAAAATGTTTATACATT
1 GTGTCGATACTTTTTGTCCATAATGTATTTCCAAACCAAGTGCAC-GCAAAAGTGTCGATACATT
* * * * * *
1263502 TATAACAAGTATCGATCCCAAAAACATTGAAACACATA-ATTATAATGTAATAAGTAAATTAACA
65 TATAACAAGTGTCGATACTAAAAACATTGAATCACATAGA-TATAATGTAATAGGTAAAATAACA
** * * * * * * *
1263566 ATGTAGTCAGTCTAAATAAACCGATTTTTGAGAAAACATGTATACATAAAGTATCGATACAAATC
129 ATGTAACCGGCCTAAATACACCGGTTTATGAGAAAACATGTATACATAAAGTATCGACACAAATA
* * *
1263631 CAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTTCTAAACCAAGTGCACAACAAAGTGTCGA
194 CAACAAGTGTCGATACTTTTTGTCCATAATGTATTTTCAAAACCAAGTGCACGACAAAGTGTCGA
*
1263696 TACATTTATAACAAGTGTCGATACTAAAATCATCGAAACACATAGATATAATGTAATAGGTAAAA
259 TACATTTATAACAAGTGTCGATACTAAAAACATCGAAACACATAGATATAATGTAATAGGTAAAA
* * * *
1263761 TAACAATGTAACCAGCCTAAATACACCGGTTTATGAGAAAACAAGCATACATAAAGTATCGACAC
324 TAACAATGTAACCGGCCTAAATACACCGGTTTATGAGAAAATAGGTATACATAAAGTATCGACAC
* * * *
1263826 AAATCCAACAAGTGTCAATACTTTTTGTCCATAATGTATTTTCCAAACCAATGCACAAAAAAGTG
389 AAATACAACAAGT-TCGATACTTTTTGTCCATAATGTATTTTCCAAACCAGTGCACACAAAAGTG
* * * * *
1263891 TCGATACATTTATAACATGTGTCGATCCCAAATACATTGAAACCTATAATTACAATGTAATAGGT
453 TCGATACATTTATAACAAGTGTCGATCCCAAATACA-TCAAACCAAAAATTATAATGTAATAGGT
*
1263956 CACTTTACAATGTAACCGGTTTAAATTTATCGG-----GAGAAAATAGGTATACATAAAGTATCG
517 CACTTTACAATGTAACCGGATTAAATTTA-CGGTTTATGAGAAAATAGGTATACATAAAGTATCG
*
1264016 ACACAAATCCAACAA
581 ACACAAATTCAACAA
* *
1264031 GTATCGATACTTTTTGTCCATAATGTATTTTCCAAACCAAGTGCATGGC-AAAGTGTCGATACAT
1 GTGTCGATACTTTTTGTCCATAATGTA-TTTCCAAACCAAGTGCA-CGCAAAAGTGTCGATACAT
1264095 TTATAACAAGTGTCGATACTAAAAACATTGAATCACATAGATATAATGTAATAGGTAAAATAACA
64 TTATAACAAGTGTCGATACTAAAAACATTGAATCACATAGATATAATGTAATAGGTAAAATAACA
* ** * * *
1264160 ATGTAACCGACCTAAATACACTAGCTTATGAGAAAACAAGTATACATAAAGTATCGACACAAATT
129 ATGTAACCGGCCTAAATACACCGGTTTATGAGAAAACATGTATACATAAAGTATCGACACAAATA
* * *
1264225 CAACAAGTGTCGATACTTTTTGTCCATAATGTATTTTCCAAACCATGTGCAGGACAAAGTGTCGA
194 CAACAAGTGTCGATACTTTTTGTCCATAATGTATTTTCAAAACCAAGTGCACGACAAAGTGTCGA
1264290 TACATTTATAACAAGTGTCGATACTAAAAACATCGAAACACATAGATATAATGTAATAGGTAAAA
259 TACATTTATAACAAGTGTCGATACTAAAAACATCGAAACACATAGATATAATGTAATAGGTAAAA
* * *
1264355 TAACAATGTAACCGACCTAAATACACCAGTTTATGAGAAAATAGGTATACATAAAGTATCGGCAC
324 TAACAATGTAACCGGCCTAAATACACCGGTTTATGAGAAAATAGGTATACATAAAGTATCGACAC
* *
1264420 AAATACAACAAGTTTCGATACTTTTTGTCTATAATGTATTTTCCAAACCAAGTGCATGAC-AAAG
389 AAATACAACAAG-TTCGATACTTTTTGTCCATAATGTATTTTCCAAACC-AGTGCA-CACAAAAG
* * *
1264484 TGTCGATACATTTATAACAAGTGTCGATACTAAA-ACATCGAAACACATAAA-TATAATGTAATA
451 TGTCGATACATTTATAACAAGTGTCGATCCCAAATACATC-AAAC-CAAAAATTATAATGTAATA
* ** * ** ** * *
1264547 GGTAAAATAACAATGTAACCGGCCTAAATACACCGGTTTATTAGAAAACAGGTATACATAAAGTA
514 GGTCACTTTACAATGTAACCGGATTAAATTTA-CGGTTTATGAGAAAATAGGTATACATAAAGTA
1264612 TCGACACAAATTCAACAA
578 TCGACACAAATTCAACAA
*
1264630 GTGTCGATACTTTTTGTCCATAATGTCTTTTCCAAACCAAGTGCACG-ACAAAGTGTCGATACAT
1 GTGTCGATACTTTTTGTCCATAATGT-ATTTCCAAACCAAGTGCACGCA-AAAGTGTCGATACAT
* * *
1264694 TTATAACAAGCGTCGATTCTAAAAACATCGAATCACATAGATATAATGTAATAGGTAAAATAACA
64 TTATAACAAGTGTCGATACTAAAAACATTGAATCACATAGATATAATGTAATAGGTAAAATAACA
*
1264759 ATGTAACCGGCCTAAGTACACCGGTTTATGAGAAAACATGTATACATAAAGTATCGACACAAATA
129 ATGTAACCGGCCTAAATACACCGGTTTATGAGAAAACATGTATACATAAAGTATCGACACAAATA
*
1264824 CAACAAGTGTCGATACTTTTTGTCCATAATTTATTTTCAAAACCAAGTGCACGACAAAGTGTCGA
194 CAACAAGTGTCGATACTTTTTGTCCATAATGTATTTTCAAAACCAAGTGCACGACAAAGTGTCGA
* * **
1264889 TACATTTATAACAAATGTCGATACTAAAAACATCGAAACACATAGATATAATGTAATAGGTCACT
259 TACATTTATAACAAGTGTCGATACTAAAAACATCGAAACACATAGATATAATGTAATAGGTAAAA
* ** ** *
1264954 TTACAATGTAACCGGTTTAAATTTATCGGTTTTATGAGAAAATAGGTATACATAAAGTATCGACA
324 TAACAATGTAACCGGCCTAAATACACCGG-TTTATGAGAAAATAGGTATACATAAAGTATCGACA
** ** *** * * * *
1265019 C-TTTATTTATTTGTTCGATACTTTTTATCCATAATG-AATTCCCAAACTATGTGCACACATAAA
388 CAAATA-CAACAAGTTCGATACTTTTTGTCCATAATGTATTTTCCAAACCA-GTGCACACA-AAA
* * ** *
1265082 TTTTCGATACATTTATTAA-AAGCATCGACCCCAAATACATCAAGACCAAAAATTATAATGTAAT
450 GTGTCGATACATTTA-TAACAAGTGTCGATCCCAAATACATCAA-ACCAAAAATTATAATGTAAT
* * *
1265146 AGGTCACTTTACAATGTAACC-GATTAAATTTACAGGTTTTATGAGCAAATAGGTCTACATAATG
513 AGGTCACTTTACAATGTAACCGGATTAAATTTAC-GG-TTTATGAGAAAATAGGTATACATAAAG
* *** ** ***
1265210 TATCGATACTTTTTGTATTT
576 TATCGACACAAATTCAACAA
* * * * * * *
1265230 GTGTGGATACTTTCTGTCCATAATG-AATGCCAAACGATGTCCACGCATAAAGTGTCGATACATT
1 GTGTCGATACTTTTTGTCCATAATGTATTTCCAAACCAAGTGCACGCA-AAAGTGTCGATACATT
*
1265294 TATAAAAAGT
65 TATAACAAGT
1265304 ATAGACCCCA
Statistics
Matches: 1093, Mismatches: 152, Indels: 51
0.84 0.12 0.04
Matches are distributed among these distances:
593 1 0.00
594 415 0.38
595 62 0.06
596 1 0.00
597 3 0.00
598 30 0.03
599 450 0.41
600 131 0.12
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.29
Consensus pattern (595 bp):
GTGTCGATACTTTTTGTCCATAATGTATTTCCAAACCAAGTGCACGCAAAAGTGTCGATACATTT
ATAACAAGTGTCGATACTAAAAACATTGAATCACATAGATATAATGTAATAGGTAAAATAACAAT
GTAACCGGCCTAAATACACCGGTTTATGAGAAAACATGTATACATAAAGTATCGACACAAATACA
ACAAGTGTCGATACTTTTTGTCCATAATGTATTTTCAAAACCAAGTGCACGACAAAGTGTCGATA
CATTTATAACAAGTGTCGATACTAAAAACATCGAAACACATAGATATAATGTAATAGGTAAAATA
ACAATGTAACCGGCCTAAATACACCGGTTTATGAGAAAATAGGTATACATAAAGTATCGACACAA
ATACAACAAGTTCGATACTTTTTGTCCATAATGTATTTTCCAAACCAGTGCACACAAAAGTGTCG
ATACATTTATAACAAGTGTCGATCCCAAATACATCAAACCAAAAATTATAATGTAATAGGTCACT
TTACAATGTAACCGGATTAAATTTACGGTTTATGAGAAAATAGGTATACATAAAGTATCGACACA
AATTCAACAA
Found at i:1265313 original size:199 final size:198
Alignment explanation
Indices: 1264935--1265422 Score: 628
Period size: 199 Copynumber: 2.5 Consensus size: 198
1264925 AACACATAGA
* *
1264935 TATAATGTAATAGGTCACTTTACAATGTAACCGGTTTAAATTTATC-GGTTTTATGAGAAAATAG
1 TATAATGTAATAGGTCACTTTACAATGTAACC-GATTAAATTTACCAGGTTTTATGAGAAAATAG
* * *
1264999 GTATACATAAAGTATCGACACTTTATTTATTTGTTCGATACTTTTTATCCATAATGAATTCCCAA
65 GTCTACATAATGTATCGACACTTT-TTTATTTGTTCGATACTTTCTATCCATAATGAATTCCCAA
* * * * * *
1265064 ACTATGTGCACACATAAATTTTCGATACATTTATTAAAAGCATCGACCCCAAATACATCA-AGAC
129 ACGATGTCCACACATAAAGTGTCGATACATTTATAAAAAGCATAGACCCC-AATACAT-AGAGAC
1265128 CAAAAAT
192 CAAAAAT
*
1265135 TATAATGTAATAGGTCACTTTACAATGTAACCGATTAAATTTA-CAGGTTTTATGAGCAAATAGG
1 TATAATGTAATAGGTCACTTTACAATGTAACCGATTAAATTTACCAGGTTTTATGAGAAAATAGG
* * * *
1265199 TCTACATAATGTATCGATACTTTTTGTATTTGTGTGGATACTTTCTGTCCATAATGAA-TGCCAA
66 TCTACATAATGTATCGACACTTTTT-TATTTGT-TCGATACTTTCTATCCATAATGAATTCCCAA
* * *
1265263 ACGATGTCCACGCATAAAGTGTCGATACATTTATAAAAAGTATAGACCCCAATACATAGAGACCG
129 ACGATGTCCACACATAAAGTGTCGATACATTTATAAAAAGCATAGACCCCAATACATAGAGACCA
*
1265328 GAAAT
194 AAAAT
* * **
1265333 TATAATGTAATAGGTCAATTTACAATGTAACCGGTTGAAATTTACCA-GTGTAAAT-AGAAAATA
1 TATAATGTAATAGGTCACTTTACAATGTAACCGATT-AAATTTACCAGGT-TTTATGAGAAAATA
* *
1265396 GGTCAACATAATGTGTCGACACTTTTT
64 GGTCTACATAATGTATCGACACTTTTT
1265423 AAATTCGTAT
Statistics
Matches: 254, Mismatches: 27, Indels: 15
0.86 0.09 0.05
Matches are distributed among these distances:
197 1 0.00
198 53 0.21
199 142 0.56
200 58 0.23
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (198 bp):
TATAATGTAATAGGTCACTTTACAATGTAACCGATTAAATTTACCAGGTTTTATGAGAAAATAGG
TCTACATAATGTATCGACACTTTTTTATTTGTTCGATACTTTCTATCCATAATGAATTCCCAAAC
GATGTCCACACATAAAGTGTCGATACATTTATAAAAAGCATAGACCCCAATACATAGAGACCAAA
AAT
Found at i:1265437 original size:21 final size:21
Alignment explanation
Indices: 1265411--1265467 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
1265401 ACATAATGTG
1265411 TCGACACTTTTTAAATTCGTA
1 TCGACACTTTTTAAATTCGTA
*
1265432 TCGACACTTTTTAAATTCGTG
1 TCGACACTTTTTAAATTCGTA
1265453 TCGACACTTTTTAAA
1 TCGACACTTTTTAAA
1265468 ATTACGCGTG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.28, C:0.19, G:0.11, T:0.42
Consensus pattern (21 bp):
TCGACACTTTTTAAATTCGTA
Found at i:1268558 original size:25 final size:25
Alignment explanation
Indices: 1268530--1268580 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
1268520 ATATGAACAA
1268530 CCCTTGGTTTGAATGATTAAATCAG
1 CCCTTGGTTTGAATGATTAAATCAG
*
1268555 CCCTTGGTTTGGATGATTAAATCAG
1 CCCTTGGTTTGAATGATTAAATCAG
1268580 C
1 C
1268581 ATTGAATGCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (25 bp):
CCCTTGGTTTGAATGATTAAATCAG
Found at i:1269040 original size:35 final size:35
Alignment explanation
Indices: 1268994--1269063 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 35
1268984 ATATAAAGAG
1268994 CTAGTTTAATTAATGAACCAG-TTTAAATGAATGAA
1 CTAGTTTAATTAATGAACCAGCTTT-AATGAATGAA
* * *
1269029 CTAGTTTAATTAGTGAACTAGCTTTATTGAATGAA
1 CTAGTTTAATTAATGAACCAGCTTTAATGAATGAA
1269064 AGAGGATACT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
35 28 0.90
36 3 0.10
ACGTcount: A:0.39, C:0.09, G:0.16, T:0.37
Consensus pattern (35 bp):
CTAGTTTAATTAATGAACCAGCTTTAATGAATGAA
Found at i:1269054 original size:18 final size:17
Alignment explanation
Indices: 1268994--1269063 Score: 79
Period size: 18 Copynumber: 4.0 Consensus size: 17
1268984 ATATAAAGAG
1268994 CTAGTTTAATTAATGAA
1 CTAGTTTAATTAATGAA
* *
1269011 CCAGTTTAAATGAATGAA
1 CTAGTTT-AATTAATGAA
*
1269029 CTAGTTTAATTAGTGAA
1 CTAGTTTAATTAATGAA
1269046 CTAGCTTT-ATTGAATGAA
1 CTAG-TTTAATT-AATGAA
1269064 AGAGGATACT
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
17 21 0.48
18 23 0.52
ACGTcount: A:0.39, C:0.09, G:0.16, T:0.37
Consensus pattern (17 bp):
CTAGTTTAATTAATGAA
Found at i:1272048 original size:25 final size:25
Alignment explanation
Indices: 1272020--1272071 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
1272010 ATATGAACAA
*
1272020 CCCTTGGTTTGAATGATTAAATCAG
1 CCCTTGGTTTGAATGATTAAATAAG
*
1272045 CCCTTGGTTTGGATGATTAAATAAG
1 CCCTTGGTTTGAATGATTAAATAAG
1272070 CC
1 CC
1272072 TTGAATGCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (25 bp):
CCCTTGGTTTGAATGATTAAATAAG
Found at i:1272529 original size:35 final size:35
Alignment explanation
Indices: 1272483--1272552 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 35
1272473 ATATAAAGAG
1272483 CTAGTTTAATTAATGAACCAG-TTTAAATGAATGAA
1 CTAGTTTAATTAATGAACCAGCTTT-AATGAATGAA
* * *
1272518 CTAGTTTAATTAGTGAACTAGCTTTATTGAATGAA
1 CTAGTTTAATTAATGAACCAGCTTTAATGAATGAA
1272553 AGAGGATACT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
35 28 0.90
36 3 0.10
ACGTcount: A:0.39, C:0.09, G:0.16, T:0.37
Consensus pattern (35 bp):
CTAGTTTAATTAATGAACCAGCTTTAATGAATGAA
Found at i:1272543 original size:18 final size:17
Alignment explanation
Indices: 1272483--1272552 Score: 79
Period size: 18 Copynumber: 4.0 Consensus size: 17
1272473 ATATAAAGAG
1272483 CTAGTTTAATTAATGAA
1 CTAGTTTAATTAATGAA
* *
1272500 CCAGTTTAAATGAATGAA
1 CTAGTTT-AATTAATGAA
*
1272518 CTAGTTTAATTAGTGAA
1 CTAGTTTAATTAATGAA
1272535 CTAGCTTT-ATTGAATGAA
1 CTAG-TTTAATT-AATGAA
1272553 AGAGGATACT
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
17 21 0.48
18 23 0.52
ACGTcount: A:0.39, C:0.09, G:0.16, T:0.37
Consensus pattern (17 bp):
CTAGTTTAATTAATGAA
Found at i:1274735 original size:23 final size:21
Alignment explanation
Indices: 1274687--1274729 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
1274677 TGCCTATTTT
*
1274687 ATTATATAAGCTACCTATTAC
1 ATTATATAAGCTACCTAATAC
1274708 ATTATATAAGCTCTACCTAATA
1 ATTATATAAG--CTACCTAATA
1274730 TGTTATTGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 10 0.53
23 9 0.47
ACGTcount: A:0.40, C:0.19, G:0.05, T:0.37
Consensus pattern (21 bp):
ATTATATAAGCTACCTAATAC
Found at i:1275172 original size:13 final size:13
Alignment explanation
Indices: 1275153--1275190 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
1275143 TAATTTAGTG
1275153 ATTATAAATAA-A
1 ATTATAAATAAGA
1275165 ACTTATAATATAAGA
1 A-TTATAA-ATAAGA
1275180 ATTATAAATAA
1 ATTATAAATAA
1275191 TATAAAGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 1 0.04
13 10 0.43
14 10 0.43
15 2 0.09
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.34
Consensus pattern (13 bp):
ATTATAAATAAGA
Found at i:1275250 original size:18 final size:19
Alignment explanation
Indices: 1275170--1275253 Score: 68
Period size: 19 Copynumber: 4.5 Consensus size: 19
1275160 ATAAAACTTA
*
1275170 TAATAT-AAGAATTATAAA
1 TAATATAAAGAATTATAAT
1275188 TAATATAAAGAATTGA-AAT
1 TAATATAAAGAATT-ATAAT
* * *
1275207 TAATATAAA-AATCACATTT
1 TAATATAAAGAATTATA-AT
*
1275226 ATAATATACA-AATTATAAT
1 -TAATATAAAGAATTATAAT
1275245 TAATATAAA
1 TAATATAAA
1275254 AACTAAATTT
Statistics
Matches: 53, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
17 1 0.02
18 18 0.34
19 20 0.38
20 14 0.26
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.35
Consensus pattern (19 bp):
TAATATAAAGAATTATAAT
Found at i:1277039 original size:16 final size:17
Alignment explanation
Indices: 1277009--1277041 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
1276999 AGCCTTGTAT
1277009 GGTTGCAAGCCTCCTAC
1 GGTTGCAAGCCTCCTAC
1277026 GGTTGCAA-CCTCCTAC
1 GGTTGCAAGCCTCCTAC
1277042 TATGGTCTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.18, C:0.36, G:0.21, T:0.24
Consensus pattern (17 bp):
GGTTGCAAGCCTCCTAC
Found at i:1277731 original size:30 final size:30
Alignment explanation
Indices: 1277691--1277757 Score: 100
Period size: 30 Copynumber: 2.3 Consensus size: 30
1277681 TAATTTTATG
* *
1277691 GAAAA-TGATTTACATAGATTGAATTAATT
1 GAAAATTGATTTACATAAAATGAATTAATT
*
1277720 GAAAATTGATTTACATAAAATGAATTATTT
1 GAAAATTGATTTACATAAAATGAATTAATT
1277750 GAAAATTG
1 GAAAATTG
1277758 TTTTCGGAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
29 5 0.15
30 29 0.85
ACGTcount: A:0.46, C:0.03, G:0.13, T:0.37
Consensus pattern (30 bp):
GAAAATTGATTTACATAAAATGAATTAATT
Found at i:1278382 original size:36 final size:35
Alignment explanation
Indices: 1278325--1278392 Score: 100
Period size: 36 Copynumber: 1.9 Consensus size: 35
1278315 CATTGATTAT
1278325 AATCAATTACAATGATCAAATATTGAAAAAATACAG
1 AATCAATTACAATGATCAAATATT-AAAAAATACAG
* * *
1278361 AATCAATTATAATTATTAAATATTAAAAAATA
1 AATCAATTACAATGATCAAATATTAAAAAATA
1278393 AGTTTTCTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
35 8 0.28
36 21 0.72
ACGTcount: A:0.57, C:0.07, G:0.04, T:0.31
Consensus pattern (35 bp):
AATCAATTACAATGATCAAATATTAAAAAATACAG
Found at i:1283671 original size:13 final size:14
Alignment explanation
Indices: 1283636--1283672 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
1283626 ACTTTCTATA
1283636 TTAATTAT-AATCC
1 TTAATTATAAATCC
1283649 TTATATTATAAAT-C
1 TTA-ATTATAAATCC
1283663 TTAATTATAA
1 TTAATTATAA
1283673 CCATTAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 10 0.45
14 9 0.41
15 3 0.14
ACGTcount: A:0.43, C:0.08, G:0.00, T:0.49
Consensus pattern (14 bp):
TTAATTATAAATCC
Found at i:1287570 original size:13 final size:14
Alignment explanation
Indices: 1287552--1287586 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
1287542 ATTAAATTTA
1287552 TTATTTTAATAT-T
1 TTATTTTAATATAT
*
1287565 TTATTTTTATATAT
1 TTATTTTAATATAT
1287579 TTATTTTA
1 TTATTTTA
1287587 TCTAAAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (14 bp):
TTATTTTAATATAT
Found at i:1287902 original size:17 final size:16
Alignment explanation
Indices: 1287873--1287914 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 16
1287863 AACACATATC
1287873 AATT-TTTTATCTTTTAA
1 AATTATTTTATC--TTAA
1287890 AATTATTTT-TCTTAA
1 AATTATTTTATCTTAA
1287905 AATTATTTTA
1 AATTATTTTA
1287915 AAAGGTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
15 13 0.57
17 6 0.26
18 4 0.17
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (16 bp):
AATTATTTTATCTTAA
Found at i:1291756 original size:18 final size:18
Alignment explanation
Indices: 1291735--1291774 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
1291725 TGCTCAACCC
* *
1291735 GACCCTCCTGCCCGATCT
1 GACCCACCTGCACGATCT
*
1291753 GACCCACCTGCATGATCT
1 GACCCACCTGCACGATCT
1291771 GACC
1 GACC
1291775 TGTATTTCCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.17, C:0.45, G:0.17, T:0.20
Consensus pattern (18 bp):
GACCCACCTGCACGATCT
Found at i:1302147 original size:217 final size:215
Alignment explanation
Indices: 1301895--1302584 Score: 1116
Period size: 216 Copynumber: 3.2 Consensus size: 215
1301885 AACAAATATG
*
1301895 ATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAGGGATCAAATCAAAA
1 ATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAGGGATCAAATCGAAA
1301960 TAATTTTAAATTGTGAGGTGT-AAATTAATACAAACAAAGTACTAAATTATACCCATTTAAAAAG
66 TAATTTTAAATTGTGAGGT-TAAAATTAATACAAA-AAAGTACTAAATTATACCCATTTAAAAAG
*
1302024 TTATGGGCCAA-TAAAAATTAGAAATTAAGTAATAAGTATGGATCAATTTCAGATGCAAATAAAA
129 TTATGGGCCAATTAAAAAATAGAAA-TAAGTAATAAGTATGG-TCAATTTCAGATGCAAATAAAA
*
1302088 TTTGGAGGACTAAATTGAATAAAT
192 TTTGGAGGACTAAATTGAACAAAT
* *
1302112 ATGAAATTAAAAATAAAAATTTAAATAACTTAAACAACACACATTGATGAGGGATCAAATCGAAA
1 ATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAGGGATCAAATCGAAA
*
1302177 TAATTTTGAATTGTGAGGTTAAAATTAATACAAAAAAGTACTAAATTATACCCATTTAAAAAGTT
66 TAATTTTAAATTGTGAGGTTAAAATTAATACAAAAAAGTACTAAATTATACCCATTTAAAAAGTT
* * *
1302242 ATGAGCTAATTAAAAAATAGAAATAAGTAATAAGTATGTGTCAATTTAAGATGCAAATAAAATTT
131 ATGGGCCAATTAAAAAATAGAAATAAGTAATAAGTATG-GTCAATTTCAGATGCAAATAAAATTT
1302307 GGAGGACTAAATTGAACAAAT
195 GGAGGACTAAATTGAACAAAT
*
1302328 ATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAGGGATCAAATTGAAA
1 ATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAGGGATCAAATCGAAA
* * *
1302393 TAATTTTAAATTTTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATACTCATTTAAAAAGTT
66 TAATTTTAAATTGTGAGGTTAAAATTAATACAAAAAAGTACTAAATTATACCCATTTAAAAAGTT
* * *
1302458 ATAGGCCAATTAAAAAATATAAATAAGTAATAAGTATGGGTCAATTTTCAGATGCAAATAAATTT
131 ATGGGCCAATTAAAAAATAGAAATAAGTAATAAGTAT-GGTCAA-TTTCAGATGCAAATAAAATT
*
1302523 TGGAGGACTAAAATGAACAAAT
194 TGGAGGACTAAATTGAACAAAT
* * *
1302545 ATGAAATTGCAAAT-AAAATTTAAATAACTTAAATAACACA
1 ATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACA
1302585 AAAGGGATCA
Statistics
Matches: 442, Mismatches: 26, Indels: 11
0.92 0.05 0.02
Matches are distributed among these distances:
216 283 0.64
217 159 0.36
ACGTcount: A:0.50, C:0.08, G:0.12, T:0.29
Consensus pattern (215 bp):
ATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAGGGATCAAATCGAAA
TAATTTTAAATTGTGAGGTTAAAATTAATACAAAAAAGTACTAAATTATACCCATTTAAAAAGTT
ATGGGCCAATTAAAAAATAGAAATAAGTAATAAGTATGGTCAATTTCAGATGCAAATAAAATTTG
GAGGACTAAATTGAACAAAT
Found at i:1302672 original size:2 final size:2
Alignment explanation
Indices: 1302667--1302778 Score: 77
Period size: 2 Copynumber: 54.5 Consensus size: 2
1302657 AAAACAACTA
* *
1302667 AT AT AT AT AT AT AT AT AT AT AT A- AT AT AA ACT AT AT AGT TT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT A-T AT AT
* * * *
1302710 AT AT AA AGT AT AT GT AT -T AT AT AT AT AA ACT AT AT AGT TT AT
1 AT AT AT A-T AT AT AT AT AT AT AT AT AT AT A-T AT AT A-T AT AT
* *
1302752 AT AT AT AT -T AT GT AT AA ACT AT AT AT A
1 AT AT AT AT AT AT AT AT AT A-T AT AT AT A
1302779 CCATGTATAA
Statistics
Matches: 85, Mismatches: 16, Indels: 18
0.71 0.13 0.15
Matches are distributed among these distances:
1 3 0.04
2 76 0.89
3 6 0.07
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.46
Consensus pattern (2 bp):
AT
Found at i:1302721 original size:11 final size:10
Alignment explanation
Indices: 1302666--1302778 Score: 54
Period size: 11 Copynumber: 11.0 Consensus size: 10
1302656 TAAAACAACT
1302666 AATATATATA
1 AATATATATA
*
1302676 TATATATATA
1 AATATATATA
*
1302686 TATA-ATATA
1 AATATATATA
1302695 AACTATATAGT-
1 AA-TATATA-TA
*
1302706 -TTATATATA
1 AATATATATA
*
1302715 AAGTATATGTA
1 AA-TATATATA
*
1302726 TTATATATATA
1 -AATATATATA
*
1302737 AACTATATAGTT
1 AA-TATATA-TA
*
1302749 TATATATAT-
1 AATATATATA
* *
1302758 ATTATGTATA
1 AATATATATA
1302768 AACTATATATA
1 AA-TATATATA
1302779 CCATGTATAA
Statistics
Matches: 77, Mismatches: 15, Indels: 21
0.68 0.13 0.19
Matches are distributed among these distances:
8 1 0.01
9 18 0.23
10 18 0.23
11 36 0.47
12 4 0.05
ACGTcount: A:0.48, C:0.03, G:0.04, T:0.45
Consensus pattern (10 bp):
AATATATATA
Found at i:1302775 original size:42 final size:41
Alignment explanation
Indices: 1302667--1302778 Score: 147
Period size: 42 Copynumber: 2.7 Consensus size: 41
1302657 AAAACAACTA
*
1302667 ATATATATA-TATATATATATATAATATAAACTATATAGTTT
1 ATATATATATTATGTATATATAT-ATATAAACTATATAGTTT
*
1302708 ATATATAAAGTATATGTAT-TATATATATAAACTATATAGTTT
1 ATATATATA-T-TATGTATATATATATATAAACTATATAGTTT
*
1302750 ATATATATATTATGTATAAACTATATATA
1 ATATATATATTATGTATATA-TATATATA
1302779 CCATGTATAA
Statistics
Matches: 62, Mismatches: 4, Indels: 9
0.83 0.05 0.12
Matches are distributed among these distances:
40 7 0.11
41 10 0.16
42 34 0.55
43 5 0.08
44 6 0.10
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.46
Consensus pattern (41 bp):
ATATATATATTATGTATATATATATATAAACTATATAGTTT
Found at i:1302860 original size:11 final size:11
Alignment explanation
Indices: 1302846--1302883 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
1302836 GCTACATAGT
1302846 TTATATATAAA
1 TTATATATAAA
*
1302857 TTATATATGAA
1 TTATATATAAA
1302868 TTATATATAAA
1 TTATATATAAA
*
1302879 CTATA
1 TTATA
1302884 CAATTTATAT
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:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (11 bp):
TTATATATAAA
Found at i:1302909 original size:17 final size:17
Alignment explanation
Indices: 1302889--1302942 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
1302879 CTATACAATT
* *
1302889 TATATTTATATATTATG
1 TATATTTATAAATTATA
* *
1302906 TATAATTATAAATCATA
1 TATATTTATAAATTATA
1302923 TATATTGTATAAATTATA
1 TATATT-TATAAATTATA
1302941 TA
1 TA
1302943 GTTTATTAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
17 18 0.60
18 12 0.40
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (17 bp):
TATATTTATAAATTATA
Found at i:1302962 original size:22 final size:24
Alignment explanation
Indices: 1302921--1302988 Score: 77
Period size: 22 Copynumber: 2.9 Consensus size: 24
1302911 TTATAAATCA
* *
1302921 TATATATTGTATAAATTATATAGTT
1 TATATA-TATATAAACTATATAGTT
1302946 TAT-TA-ATATAAACTATATAGTT
1 TATATATATATAAACTATATAGTT
* *
1302968 TATATATATATATAGTATATA
1 TATATATATATAAACTATATA
1302989 TGGTTTAGGG
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
22 18 0.49
23 2 0.05
24 14 0.38
25 3 0.08
ACGTcount: A:0.44, C:0.01, G:0.06, T:0.49
Consensus pattern (24 bp):
TATATATATATAAACTATATAGTT
Found at i:1303067 original size:20 final size:20
Alignment explanation
Indices: 1303042--1303117 Score: 89
Period size: 20 Copynumber: 3.5 Consensus size: 20
1303032 TTATATAAAC
1303042 TATATACTATAATTTATATT
1 TATATACTATAATTTATATT
*
1303062 TATATACTATATTTTATACTAT
1 TATATACTATAATTTATA-T-T
*
1303084 ATATATAAACTATAGTTTATATT
1 -TATAT--ACTATAATTTATATT
1303107 TATATACTATA
1 TATATACTATA
1303118 TATATGAAGT
Statistics
Matches: 49, Mismatches: 2, Indels: 10
0.80 0.03 0.16
Matches are distributed among these distances:
20 23 0.47
21 1 0.02
22 6 0.12
23 6 0.12
24 1 0.02
25 12 0.24
ACGTcount: A:0.41, C:0.07, G:0.01, T:0.51
Consensus pattern (20 bp):
TATATACTATAATTTATATT
Found at i:1303084 original size:25 final size:25
Alignment explanation
Indices: 1303056--1303112 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
1303046 TACTATAATT
* * *
1303056 TATATTTATATACTATATTTTATAC
1 TATATATATAAACTATAGTTTATAC
1303081 TATATATATAAACTATAGTTTATA-
1 TATATATATAAACTATAGTTTATAC
*
1303105 TTTATATA
1 TATATATA
1303113 CTATATATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 7 0.25
25 21 0.75
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.53
Consensus pattern (25 bp):
TATATATATAAACTATAGTTTATAC
Found at i:1303116 original size:33 final size:32
Alignment explanation
Indices: 1303069--1303174 Score: 123
Period size: 33 Copynumber: 3.4 Consensus size: 32
1303059 ATTTATATAC
1303069 TATATTT-TATACTATATATATAAACTATAGTT
1 TATATTTATATACTATATATAT-AACTATAGTT
*
1303101 TATATTTATATACTATATATATGAAGTATAGTT
1 TATATTTATATACTATATATAT-AACTATAGTT
*
1303134 TACA--TATGA-ACTATATATAT-ACTATAGTT
1 TATATTTAT-ATACTATATATATAACTATAGTT
*
1303163 GATATTTATATA
1 TATATTTATATA
1303175 TGAACTATAG
Statistics
Matches: 63, Mismatches: 6, Indels: 11
0.79 0.08 0.14
Matches are distributed among these distances:
29 10 0.16
30 1 0.02
31 18 0.29
32 8 0.13
33 26 0.41
ACGTcount: A:0.41, C:0.06, G:0.07, T:0.47
Consensus pattern (32 bp):
TATATTTATATACTATATATATAACTATAGTT
Found at i:1303172 original size:24 final size:24
Alignment explanation
Indices: 1303145--1303228 Score: 92
Period size: 24 Copynumber: 3.8 Consensus size: 24
1303135 ACATATGAAC
1303145 TATATAT-ATACTATAGTTGATATT
1 TATATATGA-ACTATAGTTGATATT
1303169 TATATATGAACTATAGTT--TA--
1 TATATATGAACTATAGTTGATATT
*
1303189 CATATA--AACTATAGTTGATATT
1 TATATATGAACTATAGTTGATATT
*
1303211 TACATATGAACTATAGTT
1 TATATATGAACTATAGTT
1303229 TACATATGAA
Statistics
Matches: 50, Mismatches: 3, Indels: 14
0.75 0.04 0.21
Matches are distributed among these distances:
18 10 0.20
20 7 0.14
22 6 0.12
24 26 0.52
25 1 0.02
ACGTcount: A:0.39, C:0.07, G:0.10, T:0.44
Consensus pattern (24 bp):
TATATATGAACTATAGTTGATATT
Found at i:1303194 original size:42 final size:41
Alignment explanation
Indices: 1303148--1303243 Score: 156
Period size: 42 Copynumber: 2.3 Consensus size: 41
1303138 TATGAACTAT
*
1303148 ATATATACTATAGTTGATATTTATATATGAACTATAGTTTAC
1 ATATA-ACTATAGTTGATATTTACATATGAACTATAGTTTAC
1303190 ATATAAACTATAGTTGATATTTACATATGAACTATAGTTTAC
1 ATAT-AACTATAGTTGATATTTACATATGAACTATAGTTTAC
1303232 ATATGAACTATA
1 ATAT-AACTATA
1303244 TATATAAACT
Statistics
Matches: 51, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
42 50 0.98
43 1 0.02
ACGTcount: A:0.41, C:0.08, G:0.09, T:0.42
Consensus pattern (41 bp):
ATATAACTATAGTTGATATTTACATATGAACTATAGTTTAC
Found at i:1303232 original size:18 final size:18
Alignment explanation
Indices: 1303119--1303243 Score: 96
Period size: 18 Copynumber: 6.7 Consensus size: 18
1303109 TATACTATAT
*
1303119 ATATGAAGTATAGTTTAC
1 ATATGAACTATAGTTTAC
1303137 ATATGAACTATA-TATATAC
1 ATATGAACTATAGT-T-TAC
** *
1303156 -TAT-AGTTGATA-TTTAT
1 ATATGAACT-ATAGTTTAC
1303172 ATATGAACTATAGTTTAC
1 ATATGAACTATAGTTTAC
*
1303190 ATATAAACTATAGTTGATATTTAC
1 ATATGAACTATA---G---TTTAC
1303214 ATATGAACTATAGTTTAC
1 ATATGAACTATAGTTTAC
1303232 ATATGAACTATA
1 ATATGAACTATA
1303244 TATATAAACT
Statistics
Matches: 86, Mismatches: 9, Indels: 24
0.72 0.08 0.20
Matches are distributed among these distances:
16 2 0.02
17 10 0.12
18 53 0.62
19 3 0.03
21 2 0.02
24 16 0.19
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.41
Consensus pattern (18 bp):
ATATGAACTATAGTTTAC
Found at i:1303299 original size:24 final size:25
Alignment explanation
Indices: 1303253--1303331 Score: 76
Period size: 24 Copynumber: 3.2 Consensus size: 25
1303243 ATATATAAAC
* *
1303253 TATATAGTTTACATA-TGACCTATA
1 TATATAGTTTACTTAGTGAACTATA
1303277 TATATAGTTTA-TTAGTGAACTATA
1 TATATAGTTTACTTAGTGAACTATA
* *
1303301 TAAACTA-TTTATTTAGT-ATACTATA
1 TATA-TAGTTTACTTAGTGA-ACTATA
1303326 TATATA
1 TATATA
1303332 AACTATAGTT
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
23 2 0.04
24 29 0.62
25 16 0.34
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.46
Consensus pattern (25 bp):
TATATAGTTTACTTAGTGAACTATA
Found at i:1303369 original size:27 final size:27
Alignment explanation
Indices: 1303335--1303392 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
1303325 ATATATAAAC
1303335 TATAGTTTATATTTATATACTACATAA
1 TATAGTTTATATTTATATACTACATAA
* *
1303362 TATAGTTTATATTTATATACTATATAT
1 TATAGTTTATATTTATATACTACATAA
1303389 TATA
1 TATA
1303393 TATAAAACCT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.40, C:0.05, G:0.03, T:0.52
Consensus pattern (27 bp):
TATAGTTTATATTTATATACTACATAA
Found at i:1303523 original size:9 final size:9
Alignment explanation
Indices: 1303511--1303543 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
1303501 TACTATAGTA
1303511 TATATAAAC
1 TATATAAAC
1303520 TATATAATA-
1 TATATAA-AC
1303529 TATATAAAC
1 TATATAAAC
1303538 TATATA
1 TATATA
1303544 TTATATAGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 1 0.05
9 20 0.91
10 1 0.05
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (9 bp):
TATATAAAC
Found at i:1303530 original size:18 final size:18
Alignment explanation
Indices: 1303504--1303831 Score: 164
Period size: 18 Copynumber: 18.2 Consensus size: 18
1303494 TAATTTATAC
1303504 TATAGTATATATAAACTA
1 TATAGTATATATAAACTA
*
1303522 TATAATATATATAAACTA
1 TATAGTATATATAAACTA
* *
1303540 TATA-T-TATAT--AGTT
1 TATAGTATATATAAACTA
1303554 TAGTAGTATATATAAACTA
1 TA-TAGTATATATAAACTA
*
1303573 TATGGTATATATAAAACTA
1 TATAGTATATAT-AAACTA
* ***
1303592 TACA-T-TATATAGTTTA
1 TATAGTATATATAAACTA
1303608 T-TAGTATATATAAACTA
1 TATAGTATATATAAACTA
1303625 TATA--ATATATAAACTA
1 TATAGTATATATAAACTA
* *
1303641 TATGGTACATATAAACTA
1 TATAGTATATATAAACTA
* * * **
1303659 TACATTATACAT-ATTTCA
1 TATAGTATATATAAACT-A
1303677 T-TAGTATATATAAACTA
1 TATAGTATATATAAACTA
1303694 TATAGTATATGGTATATACAAACTA
1 TATAG--TA---TATAT--AAACTA
* ** *
1303719 TATATTATATAGTGCATTA
1 TATAGTATATA-TAAACTA
* *
1303738 GTATA-TATAACCTATATAGTA
1 -TATAGTAT-A--TATAAACTA
* *
1303759 TATGGTATATACAAACTA
1 TATAGTATATATAAACTA
* ***
1303777 TATATTATAT-TGTTC-A
1 TATAGTATATATAAACTA
*
1303793 T-TACTATATATAAACTA
1 TATAGTATATATAAACTA
1303810 TATAGTATATATAAACTA
1 TATAGTATATATAAACTA
1303828 TATA
1 TATA
1303832 TTGAAAAGTT
Statistics
Matches: 229, Mismatches: 51, Indels: 60
0.67 0.15 0.18
Matches are distributed among these distances:
14 4 0.02
15 10 0.04
16 30 0.13
17 34 0.15
18 91 0.40
19 18 0.08
20 15 0.07
21 8 0.03
22 2 0.01
23 7 0.03
25 10 0.04
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.41
Consensus pattern (18 bp):
TATAGTATATATAAACTA
Found at i:1303613 original size:52 final size:49
Alignment explanation
Indices: 1303506--1303642 Score: 202
Period size: 52 Copynumber: 2.7 Consensus size: 49
1303496 ATTTATACTA
*
1303506 TAGTATATATAAACTATATAATATATATAAACTATATATTATATAGTTTAG
1 TAGTATATATAAACTATAT--TATATATAAACTATACATTATATAGTTTAG
*
1303557 TAGTATATATAAACTATATGGTATATATAAAACTATACATTATATAGTTTAT
1 TAGTATATATAAACTATAT--TATATAT-AAACTATACATTATATAGTTTAG
*
1303609 TAGTATATATAAACTATATAATATATAAACTATA
1 TAGTATATATAAACTATATTATATATAAACTATA
1303643 TGGTACATAT
Statistics
Matches: 80, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
49 8 0.10
50 6 0.08
51 26 0.32
52 40 0.50
ACGTcount: A:0.47, C:0.05, G:0.06, T:0.42
Consensus pattern (49 bp):
TAGTATATATAAACTATATTATATATAAACTATACATTATATAGTTTAG
Found at i:1303716 original size:25 final size:25
Alignment explanation
Indices: 1303680--1303786 Score: 106
Period size: 25 Copynumber: 4.0 Consensus size: 25
1303670 TATTTCATTA
*
1303680 GTATATATAAACTATATAGTATATG
1 GTATATACAAACTATATAGTATATG
*
1303705 GTATATACAAACTATATATTATATAG
1 GTATATACAAACTATATAGTATAT-G
*
1303731 TGCATTAGTATATATAACCTATATAGTATATG
1 -G---TA-TATACA-AA-CTATATAGTATATG
*
1303763 GTATATACAAACTATATATTATAT
1 GTATATACAAACTATATAGTATAT
1303787 TGTTCATTAC
Statistics
Matches: 68, Mismatches: 6, Indels: 16
0.76 0.07 0.18
Matches are distributed among these distances:
25 34 0.50
26 3 0.04
27 6 0.09
28 2 0.03
30 2 0.03
31 6 0.09
32 3 0.04
33 12 0.18
ACGTcount: A:0.43, C:0.07, G:0.09, T:0.40
Consensus pattern (25 bp):
GTATATACAAACTATATAGTATATG
Found at i:1303722 original size:69 final size:68
Alignment explanation
Indices: 1303561--1303703 Score: 166
Period size: 69 Copynumber: 2.1 Consensus size: 68
1303551 GTTTAGTAGT
***
1303561 ATATATAAACTATATGGTA-TATATAAAACTATACATTATATAGTTTATTAGTATATATAAACTA
1 ATATATAAACTATATCAAACTATAT-AAACTATACATTATATAGTTTATTAGTATATATAAACTA
1303625 TATA
65 TATA
***
1303629 ATATATAAACTATATGGTAC-ATATAAACTATACATTATACATA-TTTCATTAGTATATATAAAC
1 ATATATAAACTATATCAAACTATATAAACTATACATTAT--ATAGTTT-ATTAGTATATATAAAC
1303692 TATATA
63 TATATA
*
1303698 GTATAT
1 ATATAT
1303704 GGTATATACA
Statistics
Matches: 70, Mismatches: 1, Indels: 7
0.90 0.01 0.09
Matches are distributed among these distances:
67 14 0.20
68 26 0.37
69 30 0.43
ACGTcount: A:0.46, C:0.08, G:0.06, T:0.41
Consensus pattern (68 bp):
ATATATAAACTATATCAAACTATATAAACTATACATTATATAGTTTATTAGTATATATAAACTAT
ATA
Found at i:1303739 original size:58 final size:58
Alignment explanation
Indices: 1303527--1303819 Score: 310
Period size: 58 Copynumber: 5.0 Consensus size: 58
1303517 AACTATATAA
* * * *
1303527 TATATATAAACTATATATTATATAGTTTAGTAGTATATATAAACTATAT-G-GTA---
1 TATATACAAACTATATATTATATAGTTCATTAGTATATATAAACTATATAGTATATGG
* * *
1303580 TATATA-AAACTATACATTATATAGTTTATTAGTATATATAAACTATATAATATATAAACTATAT
1 TATATACAAACTATATATTATATAGTTCATTAGTATATATAAAC-------TATAT--AGTATAT
1303644 GG
57 GG
* * * *
1303646 TACATATAAACTATACATTATACATATTTCATTAGTATATATAAACTATATAGTATATGG
1 TATATACAAACTATATATTAT--ATAGTTCATTAGTATATATAAACTATATAGTATATGG
* *
1303706 TATATACAAACTATATATTATATAGTGCATTAGTATATATAACCTATATAGTATATGG
1 TATATACAAACTATATATTATATAGTTCATTAGTATATATAAACTATATAGTATATGG
* *
1303764 TATATACAAACTATATATTATATTGTTCATTACTATATATAAACTATATAGTATAT
1 TATATACAAACTATATATTATATAGTTCATTAGTATATATAAACTATATAGTATAT
1303820 ATAAACTATA
Statistics
Matches: 205, Mismatches: 18, Indels: 29
0.81 0.07 0.12
Matches are distributed among these distances:
52 35 0.17
53 6 0.03
58 86 0.42
59 5 0.02
60 26 0.13
62 5 0.02
63 2 0.01
66 5 0.02
67 14 0.07
69 21 0.10
ACGTcount: A:0.44, C:0.08, G:0.07, T:0.42
Consensus pattern (58 bp):
TATATACAAACTATATATTATATAGTTCATTAGTATATATAAACTATATAGTATATGG
Found at i:1303833 original size:109 final size:114
Alignment explanation
Indices: 1303625--1303865 Score: 280
Period size: 118 Copynumber: 2.1 Consensus size: 114
1303615 ATATAAACTA
* * * * *
1303625 TATAATATATAAACTATATGGTACATATAAACTATACATTATACATATTTCATTAGTATATATAA
1 TATAACATATATAGTATATGGTACATACAAACTATACATTATA-ATATTTCATTACTATATATAA
*
1303690 ACTATATAGTATATGGTATATACAAACTATATATT-ATATAGTGCATTAGTATA-
65 ACTATATAG-ATA--GTATATA-AAACTATATATTGA-AAAGTGCATTAGTATAT
* * *
1303743 TATAACCTATATAGTATATGGTATATACAAACTATATATTAT-AT-TGTTCATTACTATATATAA
1 TATAACATATATAGTATATGGTACATACAAACTATACATTATAATAT-TTCATTACTATATATAA
*
1303806 ACTATATAG-TA-TATAT-AAACTATATATTGAAAAGTTCATTAGTATAT
65 ACTATATAGATAGTATATAAAACTATATATTGAAAAGTGCATTAGTATAT
1303853 TATAACATATATA
1 TATAACATATATA
1303866 TTAATTTATT
Statistics
Matches: 109, Mismatches: 11, Indels: 14
0.81 0.08 0.10
Matches are distributed among these distances:
109 26 0.24
110 13 0.12
111 5 0.05
114 2 0.02
115 1 0.01
116 27 0.25
118 35 0.32
ACGTcount: A:0.44, C:0.08, G:0.07, T:0.41
Consensus pattern (114 bp):
TATAACATATATAGTATATGGTACATACAAACTATACATTATAATATTTCATTACTATATATAAA
CTATATAGATAGTATATAAAACTATATATTGAAAAGTGCATTAGTATAT
Found at i:1303843 original size:51 final size:52
Alignment explanation
Indices: 1303699--1303865 Score: 153
Period size: 58 Copynumber: 3.1 Consensus size: 52
1303689 AACTATATAG
* * * *
1303699 TATATGGTATATACAAACTATATATTATATAGTGCATTAGTATA-TATAACCTATA
1 TATATAGTATATACAAACTATATATTATAAAGTTCATTACTATATTATAA-C---A
**
1303754 TAGTATATGGTATATACAAACTATATATTATATTGTTCATTACTATA-TATAA-A
1 TA-TATA--GTATATACAAACTATATATTATAAAGTTCATTACTATATTATAACA
* *
1303807 CTATATAGTATATATAAACTATATATTGA-AAAGTTCATTAGTATATTATAACA
1 -TATATAGTATATACAAACTATATATT-ATAAAGTTCATTACTATATTATAACA
1303860 TATATA
1 TATATA
1303866 TTAATTTATT
Statistics
Matches: 97, Mismatches: 8, Indels: 17
0.80 0.07 0.14
Matches are distributed among these distances:
51 32 0.33
52 12 0.12
53 6 0.06
54 2 0.02
55 2 0.02
56 3 0.03
58 40 0.41
ACGTcount: A:0.43, C:0.08, G:0.08, T:0.41
Consensus pattern (52 bp):
TATATAGTATATACAAACTATATATTATAAAGTTCATTACTATATTATAACA
Found at i:1304006 original size:61 final size:61
Alignment explanation
Indices: 1303925--1304054 Score: 190
Period size: 61 Copynumber: 2.1 Consensus size: 61
1303915 TATAAGGATC
* * *
1303925 AAATTGAACAAATTTTAAATATGAAGCTTAAATTAATAAACTGTAAT-ATTAAATTTAGACT
1 AAATTGAAAAAAGTTGAAATATGAAGCTTAAATTAATAAACTGT-ATCATTAAATTTAGACT
* * *
1303986 AAATTGAAAAAAGTTGAAATATGAAGCTTAAATTAATATATTGTATCATTAAATTTGGACT
1 AAATTGAAAAAAGTTGAAATATGAAGCTTAAATTAATAAACTGTATCATTAAATTTAGACT
1304047 AAATTGAA
1 AAATTGAA
1304055 CAAATTTAAA
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
60 2 0.03
61 60 0.97
ACGTcount: A:0.48, C:0.05, G:0.11, T:0.35
Consensus pattern (61 bp):
AAATTGAAAAAAGTTGAAATATGAAGCTTAAATTAATAAACTGTATCATTAAATTTAGACT
Found at i:1304567 original size:113 final size:112
Alignment explanation
Indices: 1304265--1304588 Score: 468
Period size: 114 Copynumber: 2.9 Consensus size: 112
1304255 AATCAATTGC
* *
1304265 GTTCTTCATTTGTTCATCCAGTTCTTCCCCAAAACCCTCATTTGATATTCAAAAACACCAAAACC
1 GTTCTTCATTTGTTCATCCAGTTCTTCCCCAAAACCCTCATTTGATCTTCAAAAACACCAAACCC
* * *
1304330 AAAATATTTTCATGTTTTTTTCCGATCAAACACCAAAATATTCTTCTGT
66 AAACTA-TTTCATGTTTTTTT-CGATCAAACACCAAAATATTCATCGGT
* * *
1304379 GTTCTTCATTTGTTCACCCAGTTCTTTCCCAAAACCCTCATTTGATCTTCAAAAACACCTAAACA
1 GTTCTTCATTTGTTCATCCAGTTCTTCCCCAAAACCCTCATTTGATCTTCAAAAACACC-AAACC
* * *
1304444 CAAACCATTTCATGTTTTTTTCGATCAAACACCCAAATTTTCATCGGT
65 CAAACTATTTCATGTTTTTTTCGATCAAACACCAAAATATTCATCGGT
* * * *
1304492 GTTCTTCATTTATTCATCACAGTTCTTCCCCAAAACCCTCCTTTGATCTTCAAAAACATCGAACC
1 GTTCTTCATTTGTTCATC-CAGTTCTTCCCCAAAACCCTCATTTGATCTTCAAAAACACCAAACC
*
1304557 CAAACTATTTCGTGTTTTTTTCGATCAAACAC
65 CAAACTATTTCATGTTTTTTTCGATCAAACAC
1304589 TTACAAATTC
Statistics
Matches: 188, Mismatches: 20, Indels: 5
0.88 0.09 0.02
Matches are distributed among these distances:
113 72 0.38
114 108 0.57
115 8 0.04
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.36
Consensus pattern (112 bp):
GTTCTTCATTTGTTCATCCAGTTCTTCCCCAAAACCCTCATTTGATCTTCAAAAACACCAAACCC
AAACTATTTCATGTTTTTTTCGATCAAACACCAAAATATTCATCGGT
Found at i:1304764 original size:12 final size:12
Alignment explanation
Indices: 1304741--1304772 Score: 55
Period size: 12 Copynumber: 2.6 Consensus size: 12
1304731 CATCTTCTTT
1304741 AACCCTTATCCTA
1 AACCC-TATCCTA
1304754 AACCCTATCCTA
1 AACCCTATCCTA
1304766 AACCCTA
1 AACCCTA
1304773 ACCCAGACCC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.34, C:0.41, G:0.00, T:0.25
Consensus pattern (12 bp):
AACCCTATCCTA
Found at i:1304810 original size:6 final size:6
Alignment explanation
Indices: 1304765--1304969 Score: 163
Period size: 6 Copynumber: 35.0 Consensus size: 6
1304755 ACCCTATCCT
* * * * *
1304765 AAACCC TAACCC AGACCC AGACCC AGA-CC AAACCTA AAACCC AAA--C
1 AAACCC AAACCC AAACCC AAACCC AAACCC AAACC-C AAACCC AAACCC
* * * * *
1304811 AAACCC TAACCC AAAACC AAACCC TAACCC ATACCC AAACCG AAACCC
1 AAACCC AAACCC AAACCC AAACCC AAACCC AAACCC AAACCC AAACCC
* * * *
1304859 AAACCC AAACCC AAA-CT GAGCCT AAACCC AAACCC AAACCC AAA-CC
1 AAACCC AAACCC AAACCC AAACCC AAACCC AAACCC AAACCC AAACCC
* * *
1304905 AAACCC AAACCGT AAA-CC AAACCC AAACCC AAA-TC AAACCT AAACCC
1 AAACCC AAACC-C AAACCC AAACCC AAACCC AAACCC AAACCC AAACCC
* * *
1304952 GAACTC GAACCC AAACCC
1 AAACCC AAACCC AAACCC
1304970 GAACTATTCA
Statistics
Matches: 158, Mismatches: 32, Indels: 18
0.76 0.15 0.09
Matches are distributed among these distances:
4 4 0.03
5 18 0.11
6 128 0.81
7 8 0.05
ACGTcount: A:0.47, C:0.43, G:0.04, T:0.05
Consensus pattern (6 bp):
AAACCC
Found at i:1304830 original size:35 final size:35
Alignment explanation
Indices: 1304765--1304969 Score: 150
Period size: 35 Copynumber: 5.7 Consensus size: 35
1304755 ACCCTATCCT
* * * *
1304765 AAACCCTAACCCAGACCCAGACCCAGACCAAACCTA
1 AAACCC-AAACCAAACCCAAACCCAAACCAAACCTA
*
1304801 AAACCCAAA-CAAACCCTAACCCAAAACCAAACCCTA
1 AAACCCAAACCAAACCCAAACCC-AAACCAAA-CCTA
1304837 ACCCATACCCAAACCGAAACCCAAACCCAAACCCAAA-CT-
1 A---A-ACCCAAACC-AAACCCAAACCCAAA-CCAAACCTA
* * * *
1304876 GAGCCTAAACCCAAACCCAAACCCAAACCAAACC-C
1 AAACCCAAA-CCAAACCCAAACCCAAACCAAACCTA
* *
1304911 AAACCGTAAACCAAACCCAAACCCAAATCAAACCT-
1 AAACC-CAAACCAAACCCAAACCCAAACCAAACCTA
* *
1304946 AAACCCGAACTCGAACCCAAACCC
1 AAACCCAAAC-CAAACCCAAACCC
1304970 GAACTATTCA
Statistics
Matches: 139, Mismatches: 15, Indels: 31
0.75 0.08 0.17
Matches are distributed among these distances:
34 18 0.13
35 73 0.53
36 18 0.13
39 1 0.01
40 9 0.06
41 4 0.03
42 16 0.12
ACGTcount: A:0.47, C:0.43, G:0.04, T:0.05
Consensus pattern (35 bp):
AAACCCAAACCAAACCCAAACCCAAACCAAACCTA
Found at i:1304835 original size:64 final size:64
Alignment explanation
Indices: 1304765--1304951 Score: 209
Period size: 64 Copynumber: 2.9 Consensus size: 64
1304755 ACCCTATCCT
* * * *
1304765 AAACCCTAACCCAGACCCAGACCCAGACCAAACCTAAAACCCAAACAAACCCT-AACCCAAAACC
1 AAACCCTAACCCAAACCCAAACCCAAACCAAACC-CAAACCCAAACAAACCCTAAACCCAAAACC
* * ** * *
1304829 AAACCCTAACCCATACCCAAACCGAAACCCAAACCCAAACCCAAACTGAGCCTAAACCCAAACCC
1 AAACCCTAACCCAAACCCAAACCCAAA-CCAAACCCAAACCCAAACAAACCCTAAACCCAAAACC
* *
1304894 AAACCC-AAACCAAACCCAAACCGTAAACCAAACCCAAACCCAAATCAAA-CCTAAACCC
1 AAACCCTAACCCAAACCCAAACC-CAAACCAAACCCAAACCCAAA-CAAACCCTAAACCC
1304952 GAACTCGAAC
Statistics
Matches: 105, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
64 77 0.73
65 28 0.27
ACGTcount: A:0.48, C:0.43, G:0.04, T:0.05
Consensus pattern (64 bp):
AAACCCTAACCCAAACCCAAACCCAAACCAAACCCAAACCCAAACAAACCCTAAACCCAAAACC
Found at i:1305235 original size:31 final size:31
Alignment explanation
Indices: 1305203--1305622 Score: 633
Period size: 31 Copynumber: 13.5 Consensus size: 31
1305193 TATATATATA
*
1305203 TACTGGTTTATTGCTGTTGATGTAAATGATA
1 TACTGGTTTATTGCTGTTGATGTAAATGATG
*
1305234 TACTGGTTTATTACTGTTGATGTAAATGATG
1 TACTGGTTTATTGCTGTTGATGTAAATGATG
*
1305265 TACTGGTTTATTGATGTTGATGTAAATGATG
1 TACTGGTTTATTGCTGTTGATGTAAATGATG
*
1305296 TACTGGTTTATTGTTGTTGATGTAAATGATG
1 TACTGGTTTATTGCTGTTGATGTAAATGATG
1305327 TACTGGTTTATTGCTGTTGATGTAAATGATG
1 TACTGGTTTATTGCTGTTGATGTAAATGATG
* * *
1305358 TATTGATTTATTGTTGTTGATGTAAATGATG
1 TACTGGTTTATTGCTGTTGATGTAAATGATG
* *
1305389 TATTGGTTTATTTCTGTTGATGTAAATGATG
1 TACTGGTTTATTGCTGTTGATGTAAATGATG
* *
1305420 TATTGATTTATTGCTGTTGATGTAAATGATG
1 TACTGGTTTATTGCTGTTGATGTAAATGATG
* *
1305451 TATTGGTTTATTGTTGTTGATGTAAATGATG
1 TACTGGTTTATTGCTGTTGATGTAAATGATG
1305482 TACTGGTTTATTGCTGTTGATGTAAATGATG
1 TACTGGTTTATTGCTGTTGATGTAAATGATG
* * *
1305513 TATTGGTTTATTGTTGTTGATGTAAATGATA
1 TACTGGTTTATTGCTGTTGATGTAAATGATG
* * ** *
1305544 TATTGTTTTATTATTGTTGATGTAAATGATA
1 TACTGGTTTATTGCTGTTGATGTAAATGATG
*
1305575 TACTGGTTTATTGCTGTTGATGTAAATGATA
1 TACTGGTTTATTGCTGTTGATGTAAATGATG
*
1305606 TACTAGTTTATTGCTGT
1 TACTGGTTTATTGCTGT
1305623 AATATAAACT
Statistics
Matches: 361, Mismatches: 28, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 361 1.00
ACGTcount: A:0.25, C:0.04, G:0.23, T:0.49
Consensus pattern (31 bp):
TACTGGTTTATTGCTGTTGATGTAAATGATG
Found at i:1307958 original size:20 final size:20
Alignment explanation
Indices: 1307942--1307979 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1307932 TTTATATTGT
**
1307942 TTGCTTCTGTTTGATATTAC
1 TTGCTTCTACTTGATATTAC
1307962 TTGCTTCTACTTGATATT
1 TTGCTTCTACTTGATATT
1307980 TGTAAGGGTT
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:0.16, C:0.16, G:0.13, T:0.55
Consensus pattern (20 bp):
TTGCTTCTACTTGATATTAC
Found at i:1308121 original size:23 final size:23
Alignment explanation
Indices: 1308072--1308127 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
1308062 CTTAATGCAG
*
1308072 GATGCTTGCTGAATAGATGCAAC
1 GATGCTTGCTGAATAGATACAAC
* * **
1308095 GATGCTTGCTGAATTGGTACATT
1 GATGCTTGCTGAATAGATACAAC
1308118 GATGCTTGCT
1 GATGCTTGCT
1308128 ATTGCTACTG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.34
Consensus pattern (23 bp):
GATGCTTGCTGAATAGATACAAC
Found at i:1308839 original size:17 final size:17
Alignment explanation
Indices: 1308817--1308906 Score: 60
Period size: 17 Copynumber: 5.3 Consensus size: 17
1308807 TCAAAAAGTA
1308817 ATCATATTAATTTAATT
1 ATCATATTAATTTAATT
* *
1308834 ATCATAATAATTT-ATG
1 ATCATATTAATTTAATT
* * * *
1308850 ATAAAATTTCAA--AAAGT
1 ATCATA-TT-AATTTAATT
1308867 ATTCATATTAATTTAATT
1 A-TCATATTAATTTAATT
* *
1308885 GTCATAATAATTTAATT
1 ATCATATTAATTTAATT
1308902 ATCAT
1 ATCAT
1308907 TAGTTTACTA
Statistics
Matches: 52, Mismatches: 15, Indels: 12
0.66 0.19 0.15
Matches are distributed among these distances:
16 8 0.15
17 36 0.69
18 8 0.15
ACGTcount: A:0.44, C:0.07, G:0.03, T:0.46
Consensus pattern (17 bp):
ATCATATTAATTTAATT
Found at i:1308858 original size:51 final size:51
Alignment explanation
Indices: 1308802--1308898 Score: 176
Period size: 51 Copynumber: 1.9 Consensus size: 51
1308792 ATATAAAACT
1308802 AAATTTCAAAAAGTAATCATATTAATTTAATTATCATAATAATTTATGATA
1 AAATTTCAAAAAGTAATCATATTAATTTAATTATCATAATAATTTATGATA
* *
1308853 AAATTTCAAAAAGTATTCATATTAATTTAATTGTCATAATAATTTA
1 AAATTTCAAAAAGTAATCATATTAATTTAATTATCATAATAATTTA
1308899 ATTATCATTA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 44 1.00
ACGTcount: A:0.47, C:0.06, G:0.04, T:0.42
Consensus pattern (51 bp):
AAATTTCAAAAAGTAATCATATTAATTTAATTATCATAATAATTTATGATA
Found at i:1319060 original size:3 final size:3
Alignment explanation
Indices: 1319052--1319124 Score: 146
Period size: 3 Copynumber: 24.3 Consensus size: 3
1319042 GTAAAATGTA
1319052 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1319100 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
1319125 TAGACCCGGA
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 70 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:1319937 original size:37 final size:36
Alignment explanation
Indices: 1319815--1319939 Score: 121
Period size: 37 Copynumber: 3.4 Consensus size: 36
1319805 TGTCTGAAGT
* *
1319815 GAGAC-AAATTT-TTTTTTAGAGAAATTGTCT-TAAGC
1 GAGACAAAATTTGTTTTTAAGA-AAACTGTCTCT-AGC
* * * *
1319850 AAGACAAAATTTATTTTTAGATAAAACTGTCTCAAGC
1 GAGACAAAATTTGTTTTTA-AGAAAACTGTCTCTAGC
*
1319887 GAGACAAAATTTGTTTTTAAGAAAACTGTCTCTAGT
1 GAGACAAAATTTGTTTTTAAGAAAACTGTCTCTAGC
*
1319923 GAGACAATATTTTGTTT
1 GAGACAA-AATTTGTTT
1319940 CGATAGAAAC
Statistics
Matches: 74, Mismatches: 11, Indels: 8
0.80 0.12 0.09
Matches are distributed among these distances:
35 4 0.05
36 27 0.36
37 41 0.55
38 2 0.03
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.38
Consensus pattern (36 bp):
GAGACAAAATTTGTTTTTAAGAAAACTGTCTCTAGC
Found at i:1321131 original size:12 final size:13
Alignment explanation
Indices: 1321112--1321169 Score: 64
Period size: 13 Copynumber: 4.4 Consensus size: 13
1321102 TGCTCCTTAT
*
1321112 CTTTTTTTCTTTG
1 CTTTTTTTCTTTA
1321125 CTTTTTTT-TTTA
1 CTTTTTTTCTTTA
1321137 CTTTTTTTCTTTA
1 CTTTTTTTCTTTA
* *
1321150 TTTTTCTTTTCTTTT
1 -CTTT-TTTTCTTTA
1321165 CTTTT
1 CTTTT
1321170 CCTTTTCTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
12 11 0.29
13 13 0.34
14 6 0.16
15 8 0.21
ACGTcount: A:0.03, C:0.14, G:0.02, T:0.81
Consensus pattern (13 bp):
CTTTTTTTCTTTA
Found at i:1321134 original size:5 final size:5
Alignment explanation
Indices: 1321116--1321180 Score: 55
Period size: 5 Copynumber: 12.8 Consensus size: 5
1321106 CCTTATCTTT
* *
1321116 TTTTC TTTGC TTTTTT TTTTAC TTTT- -TTTC TTTAT- TTTTC TTTTC
1 TTTTC TTTTC -TTTTC TTTT-C TTTTC TTTTC TTT-TC TTTTC TTTTC
1321161 TTTTC TTTTCC TTTTC TTTT
1 TTTTC TTTT-C TTTTC TTTT
1321181 TTCTCTCTCT
Statistics
Matches: 49, Mismatches: 4, Indels: 14
0.73 0.06 0.21
Matches are distributed among these distances:
3 3 0.06
4 1 0.02
5 32 0.65
6 13 0.27
ACGTcount: A:0.03, C:0.15, G:0.02, T:0.80
Consensus pattern (5 bp):
TTTTC
Found at i:1321141 original size:10 final size:9
Alignment explanation
Indices: 1321113--1321182 Score: 63
Period size: 10 Copynumber: 7.6 Consensus size: 9
1321103 GCTCCTTATC
1321113 TTTTTTTCT
1 TTTTTTTCT
**
1321122 TTGCTTT-T
1 TTTTTTTCT
*
1321130 TTTTTTAC-
1 TTTTTTTCT
1321138 TTTTTTTCT
1 TTTTTTTCT
1321147 TTATTTTTCT
1 TT-TTTTTCT
1321157 TTTCTTTTCT
1 TTT-TTTTCT
1321167 TTTCCTTTTCT
1 TTT--TTTTCT
1321178 TTTTT
1 TTTTT
1321183 CTCTCTCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
8 12 0.24
9 10 0.20
10 18 0.36
11 10 0.20
ACGTcount: A:0.03, C:0.14, G:0.01, T:0.81
Consensus pattern (9 bp):
TTTTTTTCT
Found at i:1321142 original size:25 final size:23
Alignment explanation
Indices: 1321111--1321184 Score: 78
Period size: 23 Copynumber: 3.1 Consensus size: 23
1321101 GTGCTCCTTA
1321111 TCTTTTTTTCTTTGCTTTTTTTTT
1 TCTTTTTTTCTTT-CTTTTTTTTT
* *
1321135 TACTTTTTTTCTTTATTTTTCTTT
1 T-CTTTTTTTCTTTCTTTTTTTTT
* *
1321159 TCTTTTCTT-TTCCTTTTCTTTTT
1 TCTTTTTTTCTTTCTTTT-TTTTT
1321182 TCT
1 TCT
1321185 CTCTCTTTGT
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
22 6 0.14
23 14 0.33
24 10 0.24
25 12 0.29
ACGTcount: A:0.03, C:0.16, G:0.01, T:0.80
Consensus pattern (23 bp):
TCTTTTTTTCTTTCTTTTTTTTT
Found at i:1321199 original size:14 final size:14
Alignment explanation
Indices: 1321175--1321210 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
1321165 CTTTTCCTTT
1321175 TCTTT-TTTCTCTC
1 TCTTTGTTTCTCTC
1321188 TCTTTGTTTCTCTC
1 TCTTTGTTTCTCTC
1321202 TCTTTGTTT
1 TCTTTGTTT
1321211 TGATGTGATC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 5 0.23
14 17 0.77
ACGTcount: A:0.00, C:0.25, G:0.06, T:0.69
Consensus pattern (14 bp):
TCTTTGTTTCTCTC
Found at i:1325183 original size:15 final size:16
Alignment explanation
Indices: 1325165--1325194 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
1325155 AACATTAACA
1325165 AGAATAACAT-ACTAT
1 AGAATAACATGACTAT
1325180 AGAATAACATGACTA
1 AGAATAACATGACTA
1325195 AATTACAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.53, C:0.13, G:0.10, T:0.23
Consensus pattern (16 bp):
AGAATAACATGACTAT
Found at i:1327042 original size:60 final size:59
Alignment explanation
Indices: 1326859--1327046 Score: 202
Period size: 60 Copynumber: 3.1 Consensus size: 59
1326849 CACATGTCCT
* * *
1326859 CAAATTATGATCC-TCATTCTAAATTAGTCCCTAAACTTTTAAACATTTCAATTTCATAAT-
1 CAAACTATGA-CCTTCATTCTAAATAAGTCCCTAAACTTTTGAACATTTCAATTTCAT--TC
* * * * **
1326919 TAAACTATGA-CTATCATTCTAAATAAGTCCATAAACTTTTGAACAATTCAATTCCAACCC
1 CAAACTATGACCT-TCATTCTAAATAAGTCCCTAAACTTTTGAACATTTCAATTTC-ATTC
* *
1326979 CAAACTATGACCTTCATTCTAAATCAGTCCCTAAACTTTTGGAATATTTCAATTTCATTC
1 CAAACTATGACCTTCATTCTAAATAAGTCCCTAAACTTTT-GAACATTTCAATTTCATTC
1327039 CAAACTAT
1 CAAACTAT
1327047 ATATATATAC
Statistics
Matches: 105, Mismatches: 17, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
58 1 0.01
60 89 0.85
61 15 0.14
ACGTcount: A:0.37, C:0.22, G:0.05, T:0.36
Consensus pattern (59 bp):
CAAACTATGACCTTCATTCTAAATAAGTCCCTAAACTTTTGAACATTTCAATTTCATTC
Found at i:1327421 original size:2 final size:2
Alignment explanation
Indices: 1327414--1327439 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1327404 TAAAAAGAAC
1327414 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
1327440 TAAAAACAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1327923 original size:24 final size:24
Alignment explanation
Indices: 1327886--1327933 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
1327876 AGCTATAAGG
*
1327886 AACGTGCCATAAGAAAATAGAAAA
1 AACGTGCCATAAGAAAAGAGAAAA
*
1327910 AACGTGCC-TCAAGAGAAGAGAAAA
1 AACGTGCCAT-AAGAAAAGAGAAAA
1327934 CAATATGACA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.54, C:0.15, G:0.21, T:0.10
Consensus pattern (24 bp):
AACGTGCCATAAGAAAAGAGAAAA
Found at i:1331245 original size:23 final size:23
Alignment explanation
Indices: 1331217--1331267 Score: 93
Period size: 23 Copynumber: 2.2 Consensus size: 23
1331207 TTTAAATATT
1331217 AAGTTGTTGATTTTTAATTTAGG
1 AAGTTGTTGATTTTTAATTTAGG
1331240 AAGTTGTTGATTTTTAATTTAGG
1 AAGTTGTTGATTTTTAATTTAGG
*
1331263 TAGTT
1 AAGTT
1331268 TTTAAGCAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.25, C:0.00, G:0.22, T:0.53
Consensus pattern (23 bp):
AAGTTGTTGATTTTTAATTTAGG
Found at i:1333473 original size:2 final size:2
Alignment explanation
Indices: 1333468--1333528 Score: 113
Period size: 2 Copynumber: 30.5 Consensus size: 2
1333458 GTATATAAAG
*
1333468 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT CT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1333510 AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT A
1333529 ATACTCTTTC
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1336010 original size:4 final size:4
Alignment explanation
Indices: 1336001--1336026 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
1335991 ATAAAAAAGT
1336001 ATTA ATTA ATTA ATTA ATTA ATTA AT
1 ATTA ATTA ATTA ATTA ATTA ATTA AT
1336027 AATAATAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
ATTA
Found at i:1336040 original size:14 final size:14
Alignment explanation
Indices: 1336019--1336051 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
1336009 ATTAATTAAT
1336019 TAAT-TAATAATAA
1 TAATATAATAATAA
*
1336032 TAATATAATGATAA
1 TAATATAATAATAA
1336046 TAATAT
1 TAATAT
1336052 TAAAAACGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (14 bp):
TAATATAATAATAA
Found at i:1336464 original size:133 final size:132
Alignment explanation
Indices: 1336249--1336769 Score: 470
Period size: 133 Copynumber: 3.9 Consensus size: 132
1336239 ATTGTTCTTT
* * * * * * * *
1336249 AGGGAAGATGGAATCGAGGTAGAGTTGTTCCACTGTTACTCATGGGAAGATCAAATTTTGAAAGA
1 AGGGAAGATTGAATCGAAGCATACTTGTTTCACTGTTACTCA-GGGAATATCAAATCTTGAAAGA
* * * *
1336314 GAGGGATTTGTTCCACTTCTTCTTGAGGGTAAATCAGATCTGGGGACGTTGATTCATTCTCTGTC
65 GAGGGATATGTTTCACTTCTTCTTGAGGGAAAATCAGATCTGGGGACGTTGATTCATTC-CTATC
1336379 ACTC
129 ACTC
1336383 AGGGAAGATTGAATC-AAGCATTACTTGTTTCACTGTTACTCAGGGAATATCAAATCTTGAAAGA
1 AGGGAAGATTGAATCGAAGCA-TACTTGTTTCACTGTTACTCAGGGAATATCAAATCTTGAAAGA
* *
1336447 GAGGGATATGTTTCACTTTTTATTGAGGGAAAATCAGATCTGGGGACGTTGATTCATTCCACTAT
65 GAGGGATATGTTTCACTTCTTCTTGAGGGAAAATCAGATCTGGGGACGTTGATTCATT-C-CTA-
*
1336512 TC-TTC
127 TCACTC
* * *
1336517 ATGGAAGATTGAATCGAGGCATACTTG-TTCTACTGTTACTCAAGGAATATCAAATC-TGAAAGA
1 AGGGAAGATTGAATCGAAGCATACTTGTTTC-ACTGTTACTCAGGGAATATCAAATCTTGAAAGA
* * * * * *
1336580 GATGGATATG-TTCTGCTTCTTCTTAAGGGAAAATCATG-TATGGGGATGTTGATTTATTCCATT
65 GAGGGATATGTTTC-ACTTCTTCTTGAGGGAAAATCA-GATCTGGGGACGTTGATTCATTCC--T
*
1336643 ATTACTC
126 ATCACTC
* * * * * ** * *
1336650 AGAGAAGATTGAATCGAGGTAGA-TTG-TTCTACTATTAAACATGGAATATC---TTTTGAAAGA
1 AGGGAAGATTGAATCGAAGCATACTTGTTTC-ACTGTTACTCAGGGAATATCAAATCTTGAAAGA
* ** * * * ** *
1336710 GAAGGATATGTTTTGCTTCTTCCTGAGGGAAAATAAAATCTGGAAATGTTGATTCATTCC
65 GAGGGATATGTTTCACTTCTTCTTGAGGGAAAATCAGATCTGGGGACGTTGATTCATTCC
1336770 ATATTGTCTT
Statistics
Matches: 326, Mismatches: 48, Indels: 30
0.81 0.12 0.07
Matches are distributed among these distances:
129 1 0.00
130 53 0.16
131 3 0.01
132 28 0.09
133 153 0.47
134 82 0.25
135 6 0.02
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (132 bp):
AGGGAAGATTGAATCGAAGCATACTTGTTTCACTGTTACTCAGGGAATATCAAATCTTGAAAGAG
AGGGATATGTTTCACTTCTTCTTGAGGGAAAATCAGATCTGGGGACGTTGATTCATTCCTATCAC
TC
Found at i:1337849 original size:29 final size:28
Alignment explanation
Indices: 1337806--1337869 Score: 94
Period size: 29 Copynumber: 2.3 Consensus size: 28
1337796 ATTACTCTTA
*
1337806 TTTAAGA-TAGAATAAGCCTTAACAACT
1 TTTAAGATTAGAATAAGCCTCAACAACT
1337833 TTTAAGATGTAGAATAAGCCTCAACAACT
1 TTTAAGAT-TAGAATAAGCCTCAACAACT
*
1337862 TCTAAGAT
1 TTTAAGAT
1337870 CTCCATCATT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
27 7 0.21
29 26 0.79
ACGTcount: A:0.42, C:0.16, G:0.12, T:0.30
Consensus pattern (28 bp):
TTTAAGATTAGAATAAGCCTCAACAACT
Found at i:1338563 original size:43 final size:43
Alignment explanation
Indices: 1338516--1338598 Score: 96
Period size: 43 Copynumber: 1.9 Consensus size: 43
1338506 TTTTCAATTT
* * *
1338516 TCCTTATTCTC-TTTCTTATCTATCTTTTTTTTTCTTTTTTTTG
1 TCCTTATTCTCTTTTCCT-TCTATCTTCTTCTTTCTTTTTTTTG
* * *
1338559 TCCTTTTTTTCTTTTCCTTCTTTCTTCTTCTTTCTTTTTT
1 TCCTTATTCTCTTTTCCTTCTATCTTCTTCTTTCTTTTTT
1338599 ATTCTTTTCC
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
43 28 0.85
44 5 0.15
ACGTcount: A:0.04, C:0.22, G:0.01, T:0.73
Consensus pattern (43 bp):
TCCTTATTCTCTTTTCCTTCTATCTTCTTCTTTCTTTTTTTTG
Found at i:1338567 original size:14 final size:14
Alignment explanation
Indices: 1338550--1338620 Score: 72
Period size: 14 Copynumber: 4.8 Consensus size: 14
1338540 TTTTTTTTTC
*
1338550 TTTTTT-TTGTCCT
1 TTTTTTCTTTTCCT
1338563 TTTTTTCTTTTCCT
1 TTTTTTCTTTTCCT
*
1338577 TCTTTCTTCTTCTTTCTT
1 T-TTT-TTC-T-TTTCCT
1338595 TTTTATTCTTTTCCT
1 TTTT-TTCTTTTCCT
1338610 TTTTTTCTTTT
1 TTTTTTCTTTT
1338621 TTTGAGTGTG
Statistics
Matches: 49, Mismatches: 4, Indels: 9
0.79 0.06 0.15
Matches are distributed among these distances:
13 6 0.12
14 14 0.29
15 12 0.24
16 4 0.08
17 7 0.14
18 6 0.12
ACGTcount: A:0.01, C:0.20, G:0.01, T:0.77
Consensus pattern (14 bp):
TTTTTTCTTTTCCT
Found at i:1338603 original size:24 final size:24
Alignment explanation
Indices: 1338539--1338622 Score: 72
Period size: 24 Copynumber: 3.6 Consensus size: 24
1338529 TCTTATCTAT
*
1338539 CTTTTTTT-TTCTTTT-TT-TTGTC
1 CTTTTTTTCTT-TTTTATTCTTTTC
**
1338561 CTTTTTTTC-TTTTCCTTC-TTT-
1 CTTTTTTTCTTTTTTATTCTTTTC
1338582 CTTCTTCTTTCTTTTTTATTCTTTTC
1 CTT-TT-TTTCTTTTTTATTCTTTTC
1338608 CTTTTTTTCTTTTTT
1 CTTTTTTTCTTTTTT
1338623 TGAGTGTGGT
Statistics
Matches: 50, Mismatches: 4, Indels: 14
0.74 0.06 0.21
Matches are distributed among these distances:
21 6 0.12
22 15 0.30
23 4 0.08
24 17 0.34
25 5 0.10
26 3 0.06
ACGTcount: A:0.01, C:0.19, G:0.01, T:0.79
Consensus pattern (24 bp):
CTTTTTTTCTTTTTTATTCTTTTC
Found at i:1338623 original size:10 final size:10
Alignment explanation
Indices: 1338538--1338606 Score: 59
Period size: 10 Copynumber: 6.6 Consensus size: 10
1338528 TTCTTATCTA
1338538 TCTTTTTTTT
1 TCTTTTTTTT
1338548 TCTTTTTTTT
1 TCTTTTTTTT
*
1338558 GTC-CTTTTTT
1 -TCTTTTTTTT
1338568 TCTTTTCCTTCTT
1 TCTTTT--TT-TT
* *
1338581 TCTTCTTCTT
1 TCTTTTTTTT
*
1338591 TCTTTTTTAT
1 TCTTTTTTTT
1338601 TCTTTT
1 TCTTTT
1338607 CCTTTTTTTC
Statistics
Matches: 47, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
9 2 0.04
10 33 0.70
11 3 0.06
12 2 0.04
13 7 0.15
ACGTcount: A:0.01, C:0.19, G:0.01, T:0.78
Consensus pattern (10 bp):
TCTTTTTTTT
Done.