Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009643.1 Hibiscus syriacus cultivar Beakdansim tig00117056_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: 8859806
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 15 of 41
Found at i:3088532 original size:24 final size:24
Alignment explanation
Indices: 3088502--3088598 Score: 95
Period size: 24 Copynumber: 4.0 Consensus size: 24
3088492 ATGAATATTT
*
3088502 TATCTGATTTGAATTCTGTTTTGA
1 TATCTGATCTGAATTCTGTTTTGA
* * * *
3088526 TACCTGACCTGGATTCTGTTATGA
1 TATCTGATCTGAATTCTGTTTTGA
* * * *
3088550 TTTCTGATCTGGATTTTGTTCTGA
1 TATCTGATCTGAATTCTGTTTTGA
* *
3088574 TATCTGATCTAAATTTTGTTTTGA
1 TATCTGATCTGAATTCTGTTTTGA
3088598 T
1 T
3088599 TTCTAATATC
Statistics
Matches: 59, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 59 1.00
ACGTcount: A:0.20, C:0.12, G:0.18, T:0.51
Consensus pattern (24 bp):
TATCTGATCTGAATTCTGTTTTGA
Found at i:3092900 original size:24 final size:24
Alignment explanation
Indices: 3092853--3092945 Score: 98
Period size: 24 Copynumber: 3.9 Consensus size: 24
3092843 TATGATTTGA
* **
3092853 ATTCTGTTCTGA-TACTGACCTGG
1 ATTCTGTTCTGATTTCTGATATGG
3092876 ATTCTGTTCTGATTTCTGATATGG
1 ATTCTGTTCTGATTTCTGATATGG
* * * *
3092900 ATTATGTTCTGATATCTGATCTGA
1 ATTCTGTTCTGATTTCTGATATGG
* *
3092924 ATTCTGTTTTGATTTCTAATAT
1 ATTCTGTTCTGATTTCTGATAT
3092946 CTCCGTTAAC
Statistics
Matches: 57, Mismatches: 12, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
23 12 0.21
24 45 0.79
ACGTcount: A:0.20, C:0.14, G:0.17, T:0.48
Consensus pattern (24 bp):
ATTCTGTTCTGATTTCTGATATGG
Found at i:3095694 original size:21 final size:21
Alignment explanation
Indices: 3095643--3095695 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
3095633 ATTCTGACTA
3095643 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
* * *
3095664 TCACGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTTCCAAAT
*
3095685 TCGCAATGCGA
1 TCGCATTGCGA
3095696 ATACGTAAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.36
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:3095714 original size:20 final size:20
Alignment explanation
Indices: 3095685--3095777 Score: 168
Period size: 20 Copynumber: 4.7 Consensus size: 20
3095675 TTTTCCTAAT
3095685 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
3095705 TCGTAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
3095725 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
3095745 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
3095765 TCGCAACGCGAAT
1 TCGCAATGCGAAT
3095778 CTGACTATAG
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 70 1.00
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.20
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:3096001 original size:22 final size:21
Alignment explanation
Indices: 3095975--3096040 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 21
3095965 GGCGACATCC
*
3095975 GTCCCTATCTCTGACGAAATCA
1 GTCCC-ATCTCCGACGAAATCA
*
3095997 GTCCCCATCTCCGACGATATCA
1 GT-CCCATCTCCGACGAAATCA
**
3096019 GTCTCCATCTCCGGTGAAATCA
1 GTC-CCATCTCCGACGAAATCA
3096041 TTCACGGTCA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 33 0.89
23 3 0.08
ACGTcount: A:0.24, C:0.35, G:0.15, T:0.26
Consensus pattern (21 bp):
GTCCCATCTCCGACGAAATCA
Found at i:3096464 original size:20 final size:20
Alignment explanation
Indices: 3096376--3096466 Score: 94
Period size: 20 Copynumber: 4.6 Consensus size: 20
3096366 GCGATTCTGT
3096376 CGTTGCGATTTTCA-TTTTG
1 CGTTGCGATTTTCATTTTTG
** ** *
3096395 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATTTTCATTTTTG
**
3096415 CGTTGCGATAGTCATTTTTG
1 CGTTGCGATTTTCATTTTTG
*
3096435 TGTTGCGATTTTCATTTTTG
1 CGTTGCGATTTTCATTTTTG
*
3096455 TGTTGCGATTTT
1 CGTTGCGATTTT
3096467 AAGTTTCAGA
Statistics
Matches: 61, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
19 12 0.20
20 49 0.80
ACGTcount: A:0.14, C:0.14, G:0.23, T:0.48
Consensus pattern (20 bp):
CGTTGCGATTTTCATTTTTG
Found at i:3098348 original size:20 final size:20
Alignment explanation
Indices: 3098323--3098479 Score: 117
Period size: 20 Copynumber: 8.5 Consensus size: 20
3098313 AGAATAGTTT
3098323 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
3098343 ACTATCGCAACGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
3098363 ACTATCGCAA--CG-AGA-G
1 ACTATCGCAATGCGAAAATG
*
3098379 A--ATCGCAATGTG-AAATG
1 ACTATCGCAATGCGAAAATG
**
3098396 AAAATCGCAA--C-AACAA--
1 ACTATCGCAATGCGAA-AATG
**
3098412 A--ATCGCAACACGAAAATG
1 ACTATCGCAATGCGAAAATG
3098430 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
* **
3098450 ACTATCGCAATGTGAATTTG
1 ACTATCGCAATGCGAAAATG
3098470 ACTATCGCAA
1 ACTATCGCAA
3098480 CGAAAGAATC
Statistics
Matches: 113, Mismatches: 10, Indels: 28
0.75 0.07 0.19
Matches are distributed among these distances:
14 14 0.12
16 9 0.08
17 7 0.06
18 5 0.04
19 7 0.06
20 71 0.63
ACGTcount: A:0.42, C:0.21, G:0.18, T:0.18
Consensus pattern (20 bp):
ACTATCGCAATGCGAAAATG
Found at i:3098427 original size:14 final size:15
Alignment explanation
Indices: 3098395--3098428 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
3098385 AATGTGAAAT
3098395 GAAAATCGCAACAAC
1 GAAAATCGCAACAAC
3098410 -AAAATCGCAAC-AC
1 GAAAATCGCAACAAC
3098423 GAAAAT
1 GAAAAT
3098429 GACTATCGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 2 0.11
14 16 0.89
ACGTcount: A:0.56, C:0.24, G:0.12, T:0.09
Consensus pattern (15 bp):
GAAAATCGCAACAAC
Found at i:3098549 original size:20 final size:20
Alignment explanation
Indices: 3098524--3098671 Score: 199
Period size: 20 Copynumber: 7.5 Consensus size: 20
3098514 ACGATTCTCT
*
3098524 CATTGCGATAGTCAAATTCG
1 CATTGCGATAGTCAATTTCG
*
3098544 CATTGCGATAGTCAAATTCG
1 CATTGCGATAGTCAATTTCG
*
3098564 CATTGCGATAGTCAAATTCG
1 CATTGCGATAGTCAATTTCG
*
3098584 CATTGCGATAGTCATTTTCG
1 CATTGCGATAGTCAATTTCG
3098604 CATTGCGATAGTC-ATTTCG
1 CATTGCGATAGTCAATTTCG
* *
3098623 CGTTGCGATAGTCATTTTCG
1 CATTGCGATAGTCAATTTCG
** *
3098643 TGTTGCGATAGTCATTTTCG
1 CATTGCGATAGTCAATTTCG
*
3098663 CGTTGCGAT
1 CATTGCGAT
3098672 TTAAGTTTCA
Statistics
Matches: 120, Mismatches: 7, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
19 17 0.14
20 103 0.86
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.36
Consensus pattern (20 bp):
CATTGCGATAGTCAATTTCG
Found at i:3098652 original size:59 final size:60
Alignment explanation
Indices: 3098524--3098671 Score: 208
Period size: 59 Copynumber: 2.5 Consensus size: 60
3098514 ACGATTCTCT
**
3098524 CATTGCGATAGTCAAATTCGCATTGCGATAGTCAAATTCGCATTGCGATAGTCAAATTCG
1 CATTGCGATAGTCATTTTCGCATTGCGATAGTCAAATTCGCATTGCGATAGTCAAATTCG
* * **
3098584 CATTGCGATAGTCATTTTCGCATTGCGATAGTC-ATTTCGCGTTGCGATAGTCATTTTCG
1 CATTGCGATAGTCATTTTCGCATTGCGATAGTCAAATTCGCATTGCGATAGTCAAATTCG
** *
3098643 TGTTGCGATAGTCATTTTCGCGTTGCGAT
1 CATTGCGATAGTCATTTTCGCATTGCGAT
3098672 TTAAGTTTCA
Statistics
Matches: 79, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
59 48 0.61
60 31 0.39
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.36
Consensus pattern (60 bp):
CATTGCGATAGTCATTTTCGCATTGCGATAGTCAAATTCGCATTGCGATAGTCAAATTCG
Found at i:3100715 original size:14 final size:14
Alignment explanation
Indices: 3100696--3100722 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
3100686 TCCCGTGACA
3100696 TTTTCTTTGGGGAC
1 TTTTCTTTGGGGAC
3100710 TTTTCTTTGGGGA
1 TTTTCTTTGGGGA
3100723 TTTCTTCTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.11, G:0.30, T:0.52
Consensus pattern (14 bp):
TTTTCTTTGGGGAC
Found at i:3100732 original size:3 final size:3
Alignment explanation
Indices: 3100724--3100762 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
3100714 CTTTGGGGAT
* *
3100724 TTC TTC TTC TTC TTT TTC TTC TTC TTC TTT TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
3100763 AGGGTTATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (3 bp):
TTC
Found at i:3100741 original size:15 final size:15
Alignment explanation
Indices: 3100723--3100762 Score: 80
Period size: 15 Copynumber: 2.7 Consensus size: 15
3100713 TCTTTGGGGA
3100723 TTTCTTCTTCTTCTT
1 TTTCTTCTTCTTCTT
3100738 TTTCTTCTTCTTCTT
1 TTTCTTCTTCTTCTT
3100753 TTTCTTCTTC
1 TTTCTTCTTC
3100763 AGGGTTATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (15 bp):
TTTCTTCTTCTTCTT
Found at i:3100964 original size:24 final size:24
Alignment explanation
Indices: 3100937--3100996 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
3100927 CTGAAAAATC
3100937 ATCAAAATTCGAGTATTGAACAAG
1 ATCAAAATTCGAGTATTGAACAAG
* * * *
3100961 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATTCGAGTATTGAACAAG
*
3100985 ATCAAATTTCGA
1 ATCAAAATTCGA
3100997 ATACTGACTA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.40, C:0.17, G:0.18, T:0.25
Consensus pattern (24 bp):
ATCAAAATTCGAGTATTGAACAAG
Found at i:3101857 original size:20 final size:20
Alignment explanation
Indices: 3101832--3101898 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
3101822 AAATTCAGTA
3101832 TTGCGATAGTCAGAATCTCG
1 TTGCGATAGTCAGAATCTCG
3101852 TTGCGATAGTCAGAATCTCG
1 TTGCGATAGTCAGAATCTCG
* *
3101872 TTGCGATAGTCAGATTCGCG
1 TTGCGATAGTCAGAATCTCG
3101892 TTGCGAT
1 TTGCGAT
3101899 TTACATATTC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.31
Consensus pattern (20 bp):
TTGCGATAGTCAGAATCTCG
Found at i:3101908 original size:20 final size:20
Alignment explanation
Indices: 3101885--3101997 Score: 181
Period size: 20 Copynumber: 5.7 Consensus size: 20
3101875 CGATAGTCAG
* *
3101885 ATTCGCGTTGCGATTTACAT
1 ATTCGCATTGCGATTTACGT
* *
3101905 ATTCGCGTTGCAATTTACGT
1 ATTCGCATTGCGATTTACGT
3101925 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
3101945 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
*
3101965 ATTCGCATTACGATTTACGT
1 ATTCGCATTGCGATTTACGT
3101985 ATTCGCATTGCGA
1 ATTCGCATTGCGA
3101998 ATTAGGAGAA
Statistics
Matches: 87, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 87 1.00
ACGTcount: A:0.21, C:0.20, G:0.19, T:0.39
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:3101914 original size:40 final size:42
Alignment explanation
Indices: 3101872--3101997 Score: 138
Period size: 40 Copynumber: 3.1 Consensus size: 42
3101862 CAGAATCTCG
* *
3101872 TTGCGATAGTCA-G-ATTCGCGTTGCGATTTACATATTCGCG
1 TTGCGATAGTCACGTATTCGCATTGCGATTTACATATTCGCA
* * *
3101912 TTGC-A-ATTTACGTATTCGCATTGCGATTTACGTATTCGCA
1 TTGCGATAGTCACGTATTCGCATTGCGATTTACATATTCGCA
* * *
3101952 TTGCGAT--TTACGTATTCGCATTACGATTTACGTATTCGCA
1 TTGCGATAGTCACGTATTCGCATTGCGATTTACATATTCGCA
3101992 TTGCGA
1 TTGCGA
3101998 ATTAGGAGAA
Statistics
Matches: 76, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
38 3 0.04
39 2 0.03
40 70 0.92
41 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.21, T:0.38
Consensus pattern (42 bp):
TTGCGATAGTCACGTATTCGCATTGCGATTTACATATTCGCA
Found at i:3102574 original size:25 final size:25
Alignment explanation
Indices: 3102540--3102587 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
3102530 CATCATTGAA
3102540 ATTGATGCAGAGGCTGCTGATCGTT
1 ATTGATGCAGAGGCTGCTGATCGTT
3102565 ATTGATGCAGAGGCTGCTGATCG
1 ATTGATGCAGAGGCTGCTGATCG
3102588 ATTTTTTGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (25 bp):
ATTGATGCAGAGGCTGCTGATCGTT
Found at i:3105965 original size:27 final size:27
Alignment explanation
Indices: 3105935--3106015 Score: 162
Period size: 27 Copynumber: 3.0 Consensus size: 27
3105925 CTTGTATTAG
3105935 ATACATATATTAATGATATATCAGCAA
1 ATACATATATTAATGATATATCAGCAA
3105962 ATACATATATTAATGATATATCAGCAA
1 ATACATATATTAATGATATATCAGCAA
3105989 ATACATATATTAATGATATATCAGCAA
1 ATACATATATTAATGATATATCAGCAA
3106016 GTTAAGGGAA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 54 1.00
ACGTcount: A:0.48, C:0.11, G:0.07, T:0.33
Consensus pattern (27 bp):
ATACATATATTAATGATATATCAGCAA
Found at i:3113125 original size:58 final size:58
Alignment explanation
Indices: 3113051--3113192 Score: 150
Period size: 58 Copynumber: 2.5 Consensus size: 58
3113041 TCCTTACGCT
* ** *
3113051 TTTGAATATT-TCAATTTCATCCCCAAACTGTGA-CTCTCATT-TAAAT-GAATCCTTAATC
1 TTTGAATATTCT-AATTTCATCCCCAAACTATGATC-CTCATTCT-AATCG-ATCCCCAAAC
*
3113109 TTTGAATATTCTAATTTTATCCCCAAACTATGATCCTCATTCTAATCGATCCCCAAAC
1 TTTGAATATTCTAATTTCATCCCCAAACTATGATCCTCATTCTAATCGATCCCCAAAC
* *
3113167 TTTGAATTTTC-AATTTCATCTCCAAA
1 TTTGAATATTCTAATTTCATCCCCAAA
3113193 TTCATTCAAA
Statistics
Matches: 72, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
57 13 0.18
58 55 0.76
59 4 0.06
ACGTcount: A:0.31, C:0.24, G:0.06, T:0.39
Consensus pattern (58 bp):
TTTGAATATTCTAATTTCATCCCCAAACTATGATCCTCATTCTAATCGATCCCCAAAC
Found at i:3115931 original size:29 final size:28
Alignment explanation
Indices: 3115839--3115934 Score: 90
Period size: 29 Copynumber: 3.3 Consensus size: 28
3115829 TTCTACAGTG
3115839 ACCAAGGAGGTCGCCATGCACTCTGGG-A
1 ACCAAGGAGGTCGCCATGCACTC-GGGCA
**
3115867 GACCAAGGAGGTCGCCATGCA--CGCCCAA
1 -ACCAAGGAGGTCGCCATGCACTCGGGC-A
*
3115895 ACGACAAGGATGTCGCCATGCACTCGGGGCA
1 AC--CAAGGAGGTCGCCATGCACTC-GGGCA
3115926 ACCAAGGAG
1 ACCAAGGAG
3115935 CGATGCATGT
Statistics
Matches: 54, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
26 1 0.02
27 3 0.06
28 1 0.02
29 43 0.80
31 4 0.07
32 2 0.04
ACGTcount: A:0.28, C:0.30, G:0.31, T:0.10
Consensus pattern (28 bp):
ACCAAGGAGGTCGCCATGCACTCGGGCA
Found at i:3115995 original size:41 final size:41
Alignment explanation
Indices: 3115944--3116028 Score: 129
Period size: 41 Copynumber: 2.1 Consensus size: 41
3115934 GCGATGCATG
*
3115944 TGGGAGATCTCTGCATGGGCATGTGGGAGC-GGAGGCTGTGCA
1 TGGGAGATCTCTACATGGGCATGT-GGAGCGGGA-GCTGTGCA
3115986 TGGG-GATCTCTACATGGGCATGTGGAGCGGGAGCTGTGCA
1 TGGGAGATCTCTACATGGGCATGTGGAGCGGGAGCTGTGCA
3116026 TGG
1 TGG
3116029 CCATGCACGT
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
40 16 0.39
41 21 0.51
42 4 0.10
ACGTcount: A:0.16, C:0.16, G:0.45, T:0.22
Consensus pattern (41 bp):
TGGGAGATCTCTACATGGGCATGTGGAGCGGGAGCTGTGCA
Found at i:3116024 original size:40 final size:42
Alignment explanation
Indices: 3115944--3116028 Score: 131
Period size: 40 Copynumber: 2.1 Consensus size: 42
3115934 GCGATGCATG
*
3115944 TGGGAGATCTCTGCATGGGCATGTGGGAGCGGAGGCTGTGCA
1 TGGGAGATCTCTACATGGGCATGTGGGAGCGGAGGCTGTGCA
3115986 TGGG-GATCTCTACATGGGCATGT-GGAGCGG-GAGCTGTGCA
1 TGGGAGATCTCTACATGGGCATGTGGGAGCGGAG-GCTGTGCA
3116026 TGG
1 TGG
3116029 CCATGCACGT
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
39 1 0.02
40 18 0.44
41 18 0.44
42 4 0.10
ACGTcount: A:0.16, C:0.16, G:0.45, T:0.22
Consensus pattern (42 bp):
TGGGAGATCTCTACATGGGCATGTGGGAGCGGAGGCTGTGCA
Found at i:3116258 original size:20 final size:21
Alignment explanation
Indices: 3116221--3116259 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
3116211 CCTACATTCG
*
3116221 TAGCTGCATGCGTTGCATCTA
1 TAGCTGCATGCATTGCATCTA
3116242 TAGCTGCATG-ATTGCATC
1 TAGCTGCATGCATTGCATC
3116260 ATTAATTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.33
Consensus pattern (21 bp):
TAGCTGCATGCATTGCATCTA
Found at i:3116641 original size:24 final size:23
Alignment explanation
Indices: 3116583--3116658 Score: 95
Period size: 24 Copynumber: 3.4 Consensus size: 23
3116573 ACTAAAATCT
*
3116583 AGTTA-ATTAGTTTGTTAGTATA
1 AGTTATATTAGTTTGTTAGTTTA
* *
3116605 A-AT-TATTACTTTGTTAGTTTA
1 AGTTATATTAGTTTGTTAGTTTA
3116626 AGTTTATATTAGTTTGTTAGTTTA
1 AG-TTATATTAGTTTGTTAGTTTA
3116650 AGTTATATT
1 AGTTATATT
3116659 TATTATATAA
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
21 17 0.38
22 1 0.02
23 8 0.18
24 19 0.42
ACGTcount: A:0.29, C:0.01, G:0.14, T:0.55
Consensus pattern (23 bp):
AGTTATATTAGTTTGTTAGTTTA
Found at i:3116684 original size:8 final size:8
Alignment explanation
Indices: 3116671--3116695 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
3116661 TTATATAAAA
3116671 ATTAGTTT
1 ATTAGTTT
3116679 ATTAGTTT
1 ATTAGTTT
3116687 ATTAGTTT
1 ATTAGTTT
3116695 A
1 A
3116696 AGTTATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (8 bp):
ATTAGTTT
Found at i:3117433 original size:14 final size:14
Alignment explanation
Indices: 3117414--3117443 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
3117404 TAAATTATAT
3117414 TATTAAATCATTAA
1 TATTAAATCATTAA
3117428 TATTAAATCATTAA
1 TATTAAATCATTAA
3117442 TA
1 TA
3117444 ATAATTATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (14 bp):
TATTAAATCATTAA
Found at i:3117454 original size:21 final size:21
Alignment explanation
Indices: 3117428--3117470 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
3117418 AAATCATTAA
3117428 TATTAAATCATTAATAATAAT
1 TATTAAATCATTAATAATAAT
* *
3117449 TATTAAATCATTATTAGTAAT
1 TATTAAATCATTAATAATAAT
3117470 T
1 T
3117471 TAGTAATCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.47
Consensus pattern (21 bp):
TATTAAATCATTAATAATAAT
Found at i:3118478 original size:54 final size:47
Alignment explanation
Indices: 3118347--3118571 Score: 320
Period size: 47 Copynumber: 4.9 Consensus size: 47
3118337 GGCACCCATC
3118347 TATTATTAATATTTAATGATTTGATAGTAATGATTAGTAAATGAAAT
1 TATTATTAATATTTAATGATTTGATAGTAATGATTAGTAAATGAAAT
3118394 TATTATTAATATTTAATGATTTGATAGTAATGATTAGTAATAATGAAAT
1 TATTATTAATATTTAATGATTTGATAGTAATGATTAGT-A-AATGAAAT
* * *
3118443 TATTA-TAATA-TTAATGATTTGATAGTAATTAGTAAT-AATGAAAT
1 TATTATTAATATTTAATGATTTGATAGTAATGATTAGTAAATGAAAT
* *
3118487 TATTATTAATA-TTAATAATTT-ATTAGTAATGTATTAAT-AATGAAAT
1 TATTATTAATATTTAATGATTTGA-TAGTAATG-ATTAGTAAATGAAAT
3118533 TATTATTAATATTTAATGA-TTGATAGTAATGATTAGTAA
1 TATTATTAATATTTAATGATTTGATAGTAATGATTAGTAA
3118572 TTATTAATAA
Statistics
Matches: 162, Mismatches: 8, Indels: 17
0.87 0.04 0.09
Matches are distributed among these distances:
44 14 0.09
45 26 0.16
46 35 0.22
47 68 0.42
48 6 0.04
49 13 0.08
ACGTcount: A:0.44, C:0.00, G:0.11, T:0.45
Consensus pattern (47 bp):
TATTATTAATATTTAATGATTTGATAGTAATGATTAGTAAATGAAAT
Found at i:3118596 original size:17 final size:18
Alignment explanation
Indices: 3118570--3118604 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
3118560 AATGATTAGT
3118570 AATTATTAATAATAATGA
1 AATTATTAATAATAATGA
3118588 AATTA-TAATAATAATGA
1 AATTATTAATAATAATGA
3118605 TTTACTAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (18 bp):
AATTATTAATAATAATGA
Found at i:3118804 original size:12 final size:12
Alignment explanation
Indices: 3118783--3118836 Score: 60
Period size: 12 Copynumber: 4.7 Consensus size: 12
3118773 CATAAAAATG
3118783 ATTTAATAAT-A
1 ATTTAATAATAA
*
3118794 ATTTAAATAAT-G
1 ATTT-AATAATAA
3118806 ATTTAATAATAA
1 ATTTAATAATAA
*
3118818 ATTTAATAATGA
1 ATTTAATAATAA
3118830 A-TTAATA
1 ATTTAATA
3118837 TTTAATGACT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
11 16 0.42
12 22 0.58
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.43
Consensus pattern (12 bp):
ATTTAATAATAA
Found at i:3118806 original size:23 final size:23
Alignment explanation
Indices: 3118775--3119128 Score: 124
Period size: 23 Copynumber: 14.8 Consensus size: 23
3118765 CAATTAACCA
3118775 TAAA-AATGATTTAATAATAATT
1 TAAATAATGATTTAATAATAATT
3118797 TAAATAATGATTTAATAATAAATT
1 TAAATAATGATTTAATAAT-AATT
* *
3118821 T-AATAATGAATTAATATTTAA-T
1 TAAATAATGATTTAATA-ATAATT
* ** * * *
3118843 GACTTGATGATTTAGTAATGATT
1 TAAATAATGATTTAATAATAATT
* * *
3118866 GATAA-AATCATTATAATAATGATT
1 TA-AATAATGATT-TAATAATAATT
* *
3118890 TGATAATAATCATTATAATAATGATT
1 T-A-AATAATGATT-TAATAATAATT
* *
3118916 TAGTAATAATTATTATAATAATGATT
1 TA--AATAATGATT-TAATAATAATT
3118942 T-AATAAT-ATTT-A-AAT-ATT
1 TAAATAATGATTTAATAATAATT
* * *
3118960 TAATGATTTGATGATTTAGTAATGATT
1 TAA--A--TAATGATTTAATAATAATT
*
3118987 TGATAATAATCATTATAATAATAATT
1 T-A-AATAATGATT-TAATAATAATT
*
3119013 T-AATAATAATCATT-ATAATAA-T
1 TAAATAATGAT--TTAATAATAATT
*
3119035 GATAATAATGATTTAATAATAATAAT
1 TA-AATAATGATTTAATAATAAT--T
* * *
3119061 GATAA-AATTATTTAATAGTAATTAT
1 TA-AATAATGATTTAATAATAA-T-T
* * *
3119086 TTAGTAATGATTTTAATAATGATT
1 TAAATAATGA-TTTAATAATAATT
3119110 TATAATAATGATTT-ATAAT
1 TA-AATAATGATTTAATAAT
3119129 TATTACTAAT
Statistics
Matches: 262, Mismatches: 36, Indels: 67
0.72 0.10 0.18
Matches are distributed among these distances:
18 4 0.02
19 4 0.02
20 1 0.00
21 2 0.01
22 13 0.05
23 84 0.32
24 35 0.13
25 40 0.15
26 72 0.27
27 5 0.02
28 1 0.00
29 1 0.00
ACGTcount: A:0.47, C:0.01, G:0.08, T:0.44
Consensus pattern (23 bp):
TAAATAATGATTTAATAATAATT
Found at i:3118904 original size:26 final size:26
Alignment explanation
Indices: 3118858--3119037 Score: 182
Period size: 26 Copynumber: 7.3 Consensus size: 26
3118848 GATGATTTAG
3118858 TAATGA-TTGATAA-AATCATTATAA
1 TAATGATTTGATAATAATCATTATAA
3118882 TAATGATTTGATAATAATCATTATAA
1 TAATGATTTGATAATAATCATTATAA
*
3118908 TAATGATTT-AGTAATAATTATTATAA
1 TAATGATTTGA-TAATAATCATTATAA
*
3118934 TAATGATTTAATAAT-AT--TTA-AA
1 TAATGATTTGATAATAATCATTATAA
* * * * * * *
3118956 TATTTA-ATGAT-TTGATGATT-TAG
1 TAATGATTTGATAATAATCATTATAA
3118979 TAATGATTTGATAATAATCATTATAA
1 TAATGATTTGATAATAATCATTATAA
* *
3119005 TAATAATTTAATAATAATCATTATAA
1 TAATGATTTGATAATAATCATTATAA
3119031 TAATGAT
1 TAATGAT
3119038 AATAATGATT
Statistics
Matches: 128, Mismatches: 17, Indels: 20
0.78 0.10 0.12
Matches are distributed among these distances:
20 1 0.01
21 5 0.04
22 6 0.05
23 10 0.08
24 10 0.08
25 16 0.12
26 79 0.62
27 1 0.01
ACGTcount: A:0.46, C:0.02, G:0.08, T:0.44
Consensus pattern (26 bp):
TAATGATTTGATAATAATCATTATAA
Found at i:3118994 original size:97 final size:97
Alignment explanation
Indices: 3118882--3119128 Score: 270
Period size: 97 Copynumber: 2.5 Consensus size: 97
3118872 ATCATTATAA
* *
3118882 TAATGATTTGATAATAATCATTATAATAATGATTTAGTAATAATTATTATAATAATGATTTAATA
1 TAATGATTTGATAATAATCATTATAATAATGATTTAATAATAATCATTATAATAATGATTTAATA
* *
3118947 ATATTTAAATATTTAATGATTTGATGATTTAG
66 ATATTTAAATATTTAATGATATAATGATTTAG
*
3118979 TAATGATTTGATAATAATCATTATAATAATAATTTAATAATAATCATTATAATAATGA--TAATA
1 TAATGATTTGATAATAATCATTATAATAATGATTTAATAATAATCATTATAATAATGATTTAATA
* * * *
3119042 ATGATTT-AATAATAATAATGATAAAATTATTTAA
66 AT-ATTTAAAT-AT-TTAATGATATAATGATTTAG
* * * * * * *
3119076 TAGTAATTAT-TTAGTAATGATTTTAATAATGATTT-ATAATAATGATTTATAAT
1 TAATGATT-TGATAATAATCATTATAATAATGATTTAATAATAATCA-TTATAAT
3119129 TATTACTAAT
Statistics
Matches: 128, Mismatches: 17, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
95 10 0.08
96 15 0.12
97 102 0.80
98 1 0.01
ACGTcount: A:0.46, C:0.01, G:0.08, T:0.45
Consensus pattern (97 bp):
TAATGATTTGATAATAATCATTATAATAATGATTTAATAATAATCATTATAATAATGATTTAATA
ATATTTAAATATTTAATGATATAATGATTTAG
Found at i:3119007 original size:3 final size:3
Alignment explanation
Indices: 3118989--3119065 Score: 59
Period size: 3 Copynumber: 26.3 Consensus size: 3
3118979 TAATGATTTG
* * * * * *
3118989 ATA ATA ATC ATT ATA ATA ATA AT- TTA ATA ATA ATC ATT ATA ATA ATG
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
3119036 ATA ATA ATG AT- TTA ATA ATA ATA ATG ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
3119066 AATTATTTAA
Statistics
Matches: 57, Mismatches: 15, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
2 2 0.04
3 55 0.96
ACGTcount: A:0.55, C:0.03, G:0.04, T:0.39
Consensus pattern (3 bp):
ATA
Found at i:3119272 original size:26 final size:26
Alignment explanation
Indices: 3119246--3119530 Score: 216
Period size: 26 Copynumber: 11.6 Consensus size: 26
3119236 GATGATTTAG
* *
3119246 TAATGATTTGATAATAATCATTATAG
1 TAATGATTTAATAATAATCATTATAA
*
3119272 TAATGATTTGATAATAATCATTATAA
1 TAATGATTTAATAATAATCATTATAA
* *
3119298 TAATAATTTAGTAATAATCATTATAA
1 TAATGATTTAATAATAATCATTATAA
* *
3119324 TAAT-AATT--TAATAATGATT-T-A
1 TAATGATTTAATAATAATCATTATAA
* * *
3119345 -AAT-ATTTAATGATTTAATGATT-TAG
1 TAATGATTTAAT-A-ATAATCATTATAA
*
3119370 TAATGA-TTG---ATAATCATT-TAA
1 TAATGATTTAATAATAATCATTATAA
3119391 TAATGA-TTAAT-ATAATCATTATAA
1 TAATGATTTAATAATAATCATTATAA
* *
3119415 TAATGATTTAATAATAATAATGATAA
1 TAATGATTTAATAATAATCATTATAA
3119441 TAATGATTTAATAATAAT-A--ATGAA
1 TAATGATTTAATAATAATCATTAT-AA
* * *
3119465 TAATGATTTAATAGT-ATTATT-TAG
1 TAATGATTTAATAATAATCATTATAA
* *
3119489 TAATGATTT-ATAATAATGATTTAATAC
1 TAATGATTTAATAATAATCA-TT-ATAA
3119516 TAATGATTTAATAAT
1 TAATGATTTAATAAT
3119531 TATTACTAAT
Statistics
Matches: 217, Mismatches: 21, Indels: 40
0.78 0.08 0.14
Matches are distributed among these distances:
20 6 0.03
21 18 0.08
22 2 0.01
23 28 0.13
24 48 0.22
25 12 0.06
26 86 0.40
27 12 0.06
28 5 0.02
ACGTcount: A:0.46, C:0.02, G:0.08, T:0.44
Consensus pattern (26 bp):
TAATGATTTAATAATAATCATTATAA
Found at i:3119359 original size:8 final size:8
Alignment explanation
Indices: 3119335--3119368 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
3119325 AATAATTTAA
3119335 TAATGATT
1 TAATGATT
3119343 TAAAT-ATT
1 T-AATGATT
3119351 TAATGATT
1 TAATGATT
3119359 TAATGATT
1 TAATGATT
3119367 TA
1 TA
3119369 GTAATGATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
7 3 0.12
8 18 0.75
9 3 0.12
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (8 bp):
TAATGATT
Found at i:3119388 original size:21 final size:20
Alignment explanation
Indices: 3119323--3119455 Score: 95
Period size: 21 Copynumber: 6.8 Consensus size: 20
3119313 AATCATTATA
*
3119323 ATAATAATTTAATAATGATT
1 ATAATCATTTAATAATGATT
3119343 -TAA--ATATT--TAATGATT
1 ATAATCAT-TTAATAATGATT
* *
3119359 -TAATGATTTAGTAATGATT
1 ATAATCATTTAATAATGATT
3119378 GATAATCATTTAATAATGATTAAT
1 -ATAATCATTTAATAATGA-T--T
3119402 ATAATCATTATAATAATGATT
1 ATAATCATT-TAATAATGATT
* *
3119423 -TAAT-A-ATAATAATGATA
1 ATAATCATTTAATAATGATT
*
3119440 ATAATGATTTAATAAT
1 ATAATCATTTAATAAT
3119456 AATAATGAAT
Statistics
Matches: 94, Mismatches: 5, Indels: 28
0.74 0.04 0.22
Matches are distributed among these distances:
16 11 0.12
17 14 0.15
18 8 0.09
19 13 0.14
20 11 0.12
21 16 0.17
22 1 0.01
23 10 0.11
24 10 0.11
ACGTcount: A:0.47, C:0.02, G:0.08, T:0.44
Consensus pattern (20 bp):
ATAATCATTTAATAATGATT
Found at i:3119429 original size:3 final size:3
Alignment explanation
Indices: 3119388--3119468 Score: 51
Period size: 3 Copynumber: 27.3 Consensus size: 3
3119378 GATAATCATT
* * * * *
3119388 TAA TAA TGAT TAA T-A TAA TCA TTA TAA TAA TGA T-T TAA TAA TAA
1 TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
3119432 TAA TGA TAA TAA TGA T-T TAA TAA TAA TAA TGAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA T
3119469 GATTTAATAG
Statistics
Matches: 60, Mismatches: 13, Indels: 10
0.72 0.16 0.12
Matches are distributed among these distances:
2 4 0.07
3 51 0.85
4 5 0.08
ACGTcount: A:0.53, C:0.01, G:0.06, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:3119431 original size:17 final size:17
Alignment explanation
Indices: 3119413--3119477 Score: 64
Period size: 17 Copynumber: 3.8 Consensus size: 17
3119403 TAATCATTAT
3119413 AATAATGATTTAATAAT-
1 AATAATGA-TTAATAATG
3119430 AATAATGA-TAATAATG
1 AATAATGATTAATAATG
* *
3119446 ATTTAAT-AATAATAATG
1 A-ATAATGATTAATAATG
3119463 AATAATGATTTAATA
1 AATAATGA-TTAATA
3119478 GTATTATTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
15 7 0.17
16 6 0.15
17 22 0.55
18 5 0.12
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (17 bp):
AATAATGATTAATAATG
Found at i:3122127 original size:30 final size:30
Alignment explanation
Indices: 3122075--3122164 Score: 96
Period size: 29 Copynumber: 3.0 Consensus size: 30
3122065 TAACTTTAAC
*
3122075 TTCTTTAATATAACGT-AACTAATAAACTA
1 TTCTTTAATATAACTTAAACTAATAAACTA
3122104 TTCTTTAATATAACTTAAACTAATAAA-TGA
1 TTCTTTAATATAACTTAAACTAATAAACT-A
* * *
3122134 TT-TTTAATTATAATTTATTACTAAAAAACTA
1 TTCTTTAA-TATAACTTA-AACTAATAAACTA
3122165 AAACTAATTT
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
29 21 0.40
30 21 0.40
31 9 0.17
32 1 0.02
ACGTcount: A:0.46, C:0.10, G:0.02, T:0.42
Consensus pattern (30 bp):
TTCTTTAATATAACTTAAACTAATAAACTA
Found at i:3122568 original size:27 final size:28
Alignment explanation
Indices: 3122538--3122601 Score: 71
Period size: 27 Copynumber: 2.3 Consensus size: 28
3122528 CAAATATAAC
3122538 TTAACTATTTA-ACTAACT-ACAAACTAA
1 TTAA-TATTTAGACTAACTAACAAACTAA
* *
3122565 TTAA-AATTAGACTAACTAACACACTAA
1 TTAATATTTAGACTAACTAACAAACTAA
3122592 TTAATTATTT
1 TTAA-TATTT
3122602 TTAATATATA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
25 4 0.13
26 7 0.23
27 16 0.53
29 3 0.10
ACGTcount: A:0.47, C:0.16, G:0.02, T:0.36
Consensus pattern (28 bp):
TTAATATTTAGACTAACTAACAAACTAA
Found at i:3122711 original size:9 final size:9
Alignment explanation
Indices: 3122679--3122716 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
3122669 CTAACAAACT
3122679 AATAATTTAA
1 AATAA-TTAA
3122689 AATAA-TAA
1 AATAATTAA
*
3122697 ACTAATTAA
1 AATAATTAA
3122706 AATAATTAA
1 AATAATTAA
3122715 AA
1 AA
3122717 AACTTACCTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
8 7 0.28
9 13 0.52
10 5 0.20
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (9 bp):
AATAATTAA
Found at i:3122783 original size:15 final size:15
Alignment explanation
Indices: 3122763--3122793 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
3122753 TTCTTCTTTT
3122763 CTTTGCTATCTTCTC
1 CTTTGCTATCTTCTC
*
3122778 CTTTGCTATTTTCTC
1 CTTTGCTATCTTCTC
3122793 C
1 C
3122794 CTTTCTTTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.06, C:0.32, G:0.06, T:0.55
Consensus pattern (15 bp):
CTTTGCTATCTTCTC
Found at i:3123069 original size:27 final size:28
Alignment explanation
Indices: 3123018--3123081 Score: 103
Period size: 27 Copynumber: 2.3 Consensus size: 28
3123008 GGATCCCTTG
3123018 GCGACCTACAATGTCGCTAGGATGCCCT
1 GCGACCTACAATGTCGCTAGGATGCCCT
*
3123046 GCGACCTACAAT-TCGCTGGGATGCCCT
1 GCGACCTACAATGTCGCTAGGATGCCCT
*
3123073 GGGACCTAC
1 GCGACCTAC
3123082 CCAACGTTGC
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
27 22 0.65
28 12 0.35
ACGTcount: A:0.20, C:0.33, G:0.27, T:0.20
Consensus pattern (28 bp):
GCGACCTACAATGTCGCTAGGATGCCCT
Found at i:3123171 original size:29 final size:28
Alignment explanation
Indices: 3123137--3123229 Score: 89
Period size: 29 Copynumber: 3.2 Consensus size: 28
3123127 GCCATGCACA
3123137 GCCATGCAGAGACTCCAAGCTCG-CCGGAT
1 GCCATGC-GA-ACTCCAAGCTCGCCCGGAT
* *
3123166 GCCATGGCGACCTCCAAGGTCGCCCGGAT
1 GCCAT-GCGAACTCCAAGCTCGCCCGGAT
* * *
3123195 GCCATGGCGACCTCTAAGGTCGCCCGGAT
1 GCCAT-GCGAACTCCAAGCTCGCCCGGAT
*
3123224 GACATG
1 GCCATG
3123230 GCGACCTACG
Statistics
Matches: 58, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
28 11 0.19
29 45 0.78
30 2 0.03
ACGTcount: A:0.20, C:0.34, G:0.30, T:0.15
Consensus pattern (28 bp):
GCCATGCGAACTCCAAGCTCGCCCGGAT
Found at i:3123230 original size:29 final size:29
Alignment explanation
Indices: 3123149--3123236 Score: 142
Period size: 29 Copynumber: 3.1 Consensus size: 29
3123139 CATGCAGAGA
*
3123149 CTCCAAGCTCG-CCGGATGCCATGGCGAC
1 CTCCAAGGTCGCCCGGATGCCATGGCGAC
3123177 CTCCAAGGTCGCCCGGATGCCATGGCGAC
1 CTCCAAGGTCGCCCGGATGCCATGGCGAC
* *
3123206 CTCTAAGGTCGCCCGGATGACATGGCGAC
1 CTCCAAGGTCGCCCGGATGCCATGGCGAC
3123235 CT
1 CT
3123237 ACGACAACAC
Statistics
Matches: 56, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
28 10 0.18
29 46 0.82
ACGTcount: A:0.18, C:0.36, G:0.30, T:0.16
Consensus pattern (29 bp):
CTCCAAGGTCGCCCGGATGCCATGGCGAC
Found at i:3126274 original size:20 final size:20
Alignment explanation
Indices: 3126219--3126264 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
3126209 CAGTTTGAAA
*
3126219 TCGCAACTCGAATTTCTTTT
1 TCGCAACTCAAATTTCTTTT
3126239 TCGCAACTCAAATTTCTTTT
1 TCGCAACTCAAATTTCTTTT
3126259 TCGCAA
1 TCGCAA
3126265 TGCGATTTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.24, C:0.26, G:0.09, T:0.41
Consensus pattern (20 bp):
TCGCAACTCAAATTTCTTTT
Found at i:3126303 original size:18 final size:19
Alignment explanation
Indices: 3126280--3126317 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
3126270 TTTTCCAAAT
3126280 TCGCAACGC-AATATGTAA
1 TCGCAACGCGAATATGTAA
*
3126298 TCGCAACGCGAATCTGTAA
1 TCGCAACGCGAATATGTAA
3126317 T
1 T
3126318 TCACAACACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (19 bp):
TCGCAACGCGAATATGTAA
Found at i:3127986 original size:40 final size:42
Alignment explanation
Indices: 3127894--3127987 Score: 122
Period size: 40 Copynumber: 2.3 Consensus size: 42
3127884 AACCCCCACT
* *
3127894 CGAGAGCCATCACCTAATCGAGCTGATTCTACAGCTCGACAC
1 CGAGAGCCATCACCTAATCGAGCTGATTCTACACCTCCACAC
* *
3127936 CGAGAGCCATCACCTGATCG-GGTCGA-T-TACACCTCCACAC
1 CGAGAGCCATCACCTAATCGAGCT-GATTCTACACCTCCACAC
3127976 CGAGAGCCATCA
1 CGAGAGCCATCA
3127988 TATTCCATCA
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
40 23 0.49
41 3 0.06
42 21 0.45
ACGTcount: A:0.28, C:0.35, G:0.20, T:0.17
Consensus pattern (42 bp):
CGAGAGCCATCACCTAATCGAGCTGATTCTACACCTCCACAC
Found at i:3128151 original size:21 final size:22
Alignment explanation
Indices: 3128101--3128152 Score: 65
Period size: 19 Copynumber: 2.5 Consensus size: 22
3128091 AGTTAGGGAG
*
3128101 TTACGTGATGAGGGTCAGTGCT
1 TTACGTGATGAGGGTCAGTACT
*
3128123 TT--GTGATGA-GGTCGGTACT
1 TTACGTGATGAGGGTCAGTACT
3128142 TTACGTGATGA
1 TTACGTGATGA
3128153 CAATGGTGCT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 10 0.38
20 7 0.27
21 7 0.27
22 2 0.08
ACGTcount: A:0.19, C:0.12, G:0.35, T:0.35
Consensus pattern (22 bp):
TTACGTGATGAGGGTCAGTACT
Found at i:3128230 original size:42 final size:42
Alignment explanation
Indices: 3128176--3128297 Score: 167
Period size: 42 Copynumber: 3.0 Consensus size: 42
3128166 GTGATGAGGT
*
3128176 ATGGT-CTTTACGTGGTGAGGTAGATATTTTACGCGATGACA
1 ATGGTGCTCTACGTGGTGAGGTAGATATTTTACGCGATGACA
* *
3128217 ATGGTGCTCTACGTGGTGAGGTAGATGTTTTACGCGATGACT
1 ATGGTGCTCTACGTGGTGAGGTAGATATTTTACGCGATGACA
* ** *
3128259 ATGG-GCTCTATGTGGTGAGGTATCTATTTTACGTGATGA
1 ATGGTGCTCTACGTGGTGAGGTAGATATTTTACGCGATGA
3128298 GGTAGACGCT
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
41 35 0.49
42 37 0.51
ACGTcount: A:0.21, C:0.12, G:0.31, T:0.35
Consensus pattern (42 bp):
ATGGTGCTCTACGTGGTGAGGTAGATATTTTACGCGATGACA
Found at i:3128428 original size:12 final size:12
Alignment explanation
Indices: 3128413--3128455 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
3128403 CGGCATTGTT
*
3128413 TTTATTTATTTA
1 TTTATTTATTAA
* *
3128425 TTTACTTACTAA
1 TTTATTTATTAA
*
3128437 TTTATGTATTAA
1 TTTATTTATTAA
3128449 TTTATTT
1 TTTATTT
3128456 TTAGCGGCCC
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.65
Consensus pattern (12 bp):
TTTATTTATTAA
Found at i:3132173 original size:21 final size:22
Alignment explanation
Indices: 3132144--3132223 Score: 92
Period size: 22 Copynumber: 3.7 Consensus size: 22
3132134 CGATTCCCCT
*
3132144 AGGGAAATCGGTT-CCCTTCAA
1 AGGGGAATCGGTTCCCCTTCAA
3132165 AGGGGAATC-GTTCCCCTTCAA
1 AGGGGAATCGGTTCCCCTTCAA
* *
3132186 GGGGGTATCGGTTCCCCTTCAA
1 AGGGGAATCGGTTCCCCTTCAA
* * *
3132208 GGGGGTATCGATTCCC
1 AGGGGAATCGGTTCCC
3132224 TCTGCCCTAT
Statistics
Matches: 53, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
20 3 0.06
21 23 0.43
22 27 0.51
ACGTcount: A:0.20, C:0.26, G:0.29, T:0.25
Consensus pattern (22 bp):
AGGGGAATCGGTTCCCCTTCAA
Found at i:3132224 original size:21 final size:21
Alignment explanation
Indices: 3132125--3132224 Score: 91
Period size: 21 Copynumber: 4.9 Consensus size: 21
3132115 CCAGAACCCT
*
3132125 AGGGGGTATCGATTCCC--CT
1 AGGGGGTATCGATTCCCTTCA
** *
3132144 A-GGGAAATCGGTTCCCTTCA
1 AGGGGGTATCGATTCCCTTCA
* *
3132164 AAGGGGAATCG-TTCCCCTTCA
1 AGGGGGTATCGATT-CCCTTCA
*
3132185 AGGGGGTATCGGTTCCCCTTCA
1 AGGGGGTATCGATT-CCCTTCA
3132207 AGGGGGTATCGATTCCCT
1 AGGGGGTATCGATTCCCT
3132225 CTGCCCTATA
Statistics
Matches: 68, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
18 12 0.18
19 1 0.01
20 4 0.06
21 28 0.41
22 23 0.34
ACGTcount: A:0.19, C:0.26, G:0.29, T:0.26
Consensus pattern (21 bp):
AGGGGGTATCGATTCCCTTCA
Found at i:3135898 original size:21 final size:22
Alignment explanation
Indices: 3135874--3135916 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
3135864 TTTTCTTTTC
3135874 TCATTTTTCA-ATTTT-GAAACA
1 TCATTTTT-ATATTTTAGAAACA
3135895 TCATTTTTATATTTTAGAAACA
1 TCATTTTTATATTTTAGAAACA
3135917 ATTTCTCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 1 0.05
21 13 0.65
22 6 0.30
ACGTcount: A:0.35, C:0.12, G:0.05, T:0.49
Consensus pattern (22 bp):
TCATTTTTATATTTTAGAAACA
Found at i:3139792 original size:18 final size:18
Alignment explanation
Indices: 3139769--3139804 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
3139759 AAGCCGGTTG
3139769 TGATTGAGATTTTGATTT
1 TGATTGAGATTTTGATTT
*
3139787 TGATTGTGATTTTGATTT
1 TGATTGAGATTTTGATTT
3139805 CCTTTTTCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.19, C:0.00, G:0.22, T:0.58
Consensus pattern (18 bp):
TGATTGAGATTTTGATTT
Found at i:3142292 original size:19 final size:19
Alignment explanation
Indices: 3142268--3142319 Score: 95
Period size: 19 Copynumber: 2.7 Consensus size: 19
3142258 ATTGTTCAAT
*
3142268 GTGTATCGATGCACAGGAA
1 GTGTATCGATGCACAAGAA
3142287 GTGTATCGATGCACAAGAA
1 GTGTATCGATGCACAAGAA
3142306 GTGTATCGATGCAC
1 GTGTATCGATGCAC
3142320 CCCTTAAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.23
Consensus pattern (19 bp):
GTGTATCGATGCACAAGAA
Found at i:3146111 original size:24 final size:24
Alignment explanation
Indices: 3146090--3146168 Score: 98
Period size: 22 Copynumber: 3.5 Consensus size: 24
3146080 GCATAAGGAG
3146090 TGCATCGATGCACATGTTAAGGGA
1 TGCATCGATGCACATGTTAAGGGA
3146114 TGCATCGATG--CATGTTAAGGGA
1 TGCATCGATGCACATGTTAAGGGA
* *
3146136 TGCATCGATACAC-TG-T-A-GAA
1 TGCATCGATGCACATGTTAAGGGA
3146156 TGCATCGATGCAC
1 TGCATCGATGCAC
3146169 TTCAAGGGAA
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
20 14 0.28
21 1 0.02
22 22 0.44
23 2 0.04
24 11 0.22
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (24 bp):
TGCATCGATGCACATGTTAAGGGA
Found at i:3146130 original size:22 final size:22
Alignment explanation
Indices: 3146070--3146144 Score: 95
Period size: 22 Copynumber: 3.5 Consensus size: 22
3146060 AATACAATTA
3146070 ATGCATCGATGCA---TAA-GG
1 ATGCATCGATGCATGTTAAGGG
3146088 AGTGCATCGATGCACATGTTAAGGG
1 A-TGCATCGATG--CATGTTAAGGG
3146113 ATGCATCGATGCATGTTAAGGG
1 ATGCATCGATGCATGTTAAGGG
3146135 ATGCATCGAT
1 ATGCATCGAT
3146145 ACACTGTAGA
Statistics
Matches: 50, Mismatches: 0, Indels: 10
0.83 0.00 0.17
Matches are distributed among these distances:
18 1 0.02
19 10 0.20
21 2 0.04
22 21 0.42
24 13 0.26
25 3 0.06
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.25
Consensus pattern (22 bp):
ATGCATCGATGCATGTTAAGGG
Found at i:3146144 original size:46 final size:39
Alignment explanation
Indices: 3146069--3146167 Score: 101
Period size: 46 Copynumber: 2.4 Consensus size: 39
3146059 GAATACAATT
*
3146069 AATGCATCGATGCATAAGGAGTGCATCGATGCACATGTTAAGG
1 AATGCATCGATGCATAAGGAGTGCATCGATACAC-TG-T-A-G
*
3146112 GATGCATCGATGCATGTTAAGG-GATGCATCGATACACTGTAG
1 AATGCATCGATGCA---TAAGGAG-TGCATCGATACACTGTAG
3146154 AATGCATCGATGCA
1 AATGCATCGATGCA
3146168 CTTCAAGGGA
Statistics
Matches: 49, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
42 14 0.29
43 14 0.29
44 1 0.02
45 3 0.06
46 17 0.35
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.24
Consensus pattern (39 bp):
AATGCATCGATGCATAAGGAGTGCATCGATACACTGTAG
Found at i:3147495 original size:23 final size:22
Alignment explanation
Indices: 3147458--3147519 Score: 106
Period size: 23 Copynumber: 2.8 Consensus size: 22
3147448 GTGACATAAT
*
3147458 CTACGTGCTATGTGAAAGTGAA
1 CTACGTGTTATGTGAAAGTGAA
3147480 CTACGTGTTTATGTGAAAGTGAA
1 CTACGTG-TTATGTGAAAGTGAA
3147503 CTACGTGTTATGTGAAA
1 CTACGTGTTATGTGAAA
3147520 ATGTGAAATG
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
22 17 0.45
23 21 0.55
ACGTcount: A:0.31, C:0.11, G:0.26, T:0.32
Consensus pattern (22 bp):
CTACGTGTTATGTGAAAGTGAA
Found at i:3147783 original size:22 final size:23
Alignment explanation
Indices: 3147726--3147786 Score: 79
Period size: 23 Copynumber: 2.7 Consensus size: 23
3147716 GGACAACCTT
*
3147726 ATGGCACTTCGGTGCATTTCTAC
1 ATGGCACTTCGGTGCAATTCTAC
* *
3147749 ACGGCACTACGGTGCAATTCTA-
1 ATGGCACTTCGGTGCAATTCTAC
*
3147771 GTGGCACTTCGGTGCA
1 ATGGCACTTCGGTGCA
3147787 TTATACGAGC
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 13 0.41
23 19 0.59
ACGTcount: A:0.20, C:0.26, G:0.26, T:0.28
Consensus pattern (23 bp):
ATGGCACTTCGGTGCAATTCTAC
Found at i:3152948 original size:24 final size:23
Alignment explanation
Indices: 3152919--3152967 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
3152909 TTGAAACATC
*
3152919 ATCAAAATCTGAGTATTGACCAAG
1 ATCAAAATCCG-GTATTGACCAAG
*
3152943 ATCAAAGTCCGGTATTGACCAAG
1 ATCAAAATCCGGTATTGACCAAG
3152966 AT
1 AT
3152968 AAATTTCGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 14 0.61
24 9 0.39
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.24
Consensus pattern (23 bp):
ATCAAAATCCGGTATTGACCAAG
Found at i:3152981 original size:23 final size:23
Alignment explanation
Indices: 3152932--3152984 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
3152922 AAAATCTGAG
*
3152932 TATTGACCAAGATCAAAGTCCGG
1 TATTGACCAAGATCAAAGTCCGA
* *
3152955 TATTGACCAAGAT-AAATTTCGAA
1 TATTGACCAAGATCAAAGTCCG-A
3152978 TATTGAC
1 TATTGAC
3152985 TAGTACTCAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 6 0.23
23 20 0.77
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (23 bp):
TATTGACCAAGATCAAAGTCCGA
Found at i:3153922 original size:20 final size:20
Alignment explanation
Indices: 3153899--3153954 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
3153889 TTAAAATTCG
*
3153899 TGTTGAGATTTAGAAAATCT
1 TGTTGCGATTTAGAAAATCT
3153919 TGTTGCGATTTAGAAAATCT
1 TGTTGCGATTTAGAAAATCT
*
3153939 TGTTGCGATTCAGAAA
1 TGTTGCGATTTAGAAA
3153955 TCGAGTGCGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (20 bp):
TGTTGCGATTTAGAAAATCT
Found at i:3155985 original size:2 final size:2
Alignment explanation
Indices: 3155978--3156007 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
3155968 TCTTGCTTAA
3155978 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3156008 GAAAATTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3157683 original size:42 final size:43
Alignment explanation
Indices: 3157538--3157740 Score: 239
Period size: 43 Copynumber: 4.7 Consensus size: 43
3157528 TAATATGTCT
** * **
3157538 AGATCTATAGCGGCATTTGTTCCAA-AAACGCCGCAATATATCG
1 AGATCTATAGCGGCATTT-TTGGAACAAACGCCGCAAAAGGTCG
* **
3157581 AGATCTCTAGCGGCATTTTTGGAACAAACGCTACAAAAGGTCG
1 AGATCTATAGCGGCATTTTTGGAACAAACGCCGCAAAAGGTCG
* * *
3157624 AGATCTATAGCGGCGTTTTTGGAGCAAACGCCGTAAAAGGTC-
1 AGATCTATAGCGGCATTTTTGGAACAAACGCCGCAAAAGGTCG
* * * *
3157666 AGATCTATAGCGGCGTTTTTAGAACAAACGCTGCAGAAGGTCG
1 AGATCTATAGCGGCATTTTTGGAACAAACGCCGCAAAAGGTCG
*
3157709 AGATATATAGCGGCATTTTTGGAACAAACGCC
1 AGATCTATAGCGGCATTTTTGGAACAAACGCC
3157741 TTTAGATCTA
Statistics
Matches: 135, Mismatches: 23, Indels: 4
0.83 0.14 0.02
Matches are distributed among these distances:
42 41 0.30
43 94 0.70
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (43 bp):
AGATCTATAGCGGCATTTTTGGAACAAACGCCGCAAAAGGTCG
Found at i:3157695 original size:85 final size:85
Alignment explanation
Indices: 3157581--3157740 Score: 248
Period size: 85 Copynumber: 1.9 Consensus size: 85
3157571 CAATATATCG
* * * *
3157581 AGATCTCTAGCGGCATTTTTGGAACAAACGCTACAAAAGGTCGAGATCTATAGCGGCGTTTTTGG
1 AGATCTATAGCGGCATTTTTAGAACAAACGCTACAAAAGGTCGAGATATATAGCGGCATTTTTGG
*
3157646 AGCAAACGCCGTAAAAGGTC
66 AACAAACGCCGTAAAAGGTC
* * *
3157666 AGATCTATAGCGGCGTTTTTAGAACAAACGCTGCAGAAGGTCGAGATATATAGCGGCATTTTTGG
1 AGATCTATAGCGGCATTTTTAGAACAAACGCTACAAAAGGTCGAGATATATAGCGGCATTTTTGG
3157731 AACAAACGCC
66 AACAAACGCC
3157741 TTTAGATCTA
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
85 67 1.00
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (85 bp):
AGATCTATAGCGGCATTTTTAGAACAAACGCTACAAAAGGTCGAGATATATAGCGGCATTTTTGG
AACAAACGCCGTAAAAGGTC
Found at i:3164086 original size:27 final size:28
Alignment explanation
Indices: 3164044--3164109 Score: 116
Period size: 28 Copynumber: 2.4 Consensus size: 28
3164034 TAACTATCTG
*
3164044 TCAATATTTGTTA-TTTTTTTATAGAAA
1 TCAATATTTGTCATTTTTTTTATAGAAA
3164071 TCAATATTTGTCATTTTTTTTATAGAAA
1 TCAATATTTGTCATTTTTTTTATAGAAA
3164099 TCAATATTTGT
1 TCAATATTTGT
3164110 AATTGATGCG
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
27 12 0.32
28 25 0.68
ACGTcount: A:0.32, C:0.06, G:0.08, T:0.55
Consensus pattern (28 bp):
TCAATATTTGTCATTTTTTTTATAGAAA
Found at i:3165281 original size:20 final size:22
Alignment explanation
Indices: 3165229--3165285 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
3165219 GTGATTTGAT
*
3165229 TGATATCATTAAAATAATTAAG
1 TGATATGATTAAAATAATTAAG
3165251 TGATATGATTAAAA-AATT-AG
1 TGATATGATTAAAATAATTAAG
*
3165271 TGGTCAT-ATTAAAAT
1 TGAT-ATGATTAAAAT
3165286 CTCTCCAGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
20 12 0.39
21 6 0.19
22 13 0.42
ACGTcount: A:0.47, C:0.04, G:0.12, T:0.37
Consensus pattern (22 bp):
TGATATGATTAAAATAATTAAG
Found at i:3173925 original size:44 final size:44
Alignment explanation
Indices: 3173870--3173988 Score: 220
Period size: 44 Copynumber: 2.7 Consensus size: 44
3173860 ATGATATTTG
*
3173870 GTGTAATTGATTTAATTTGTATGGTGTTGAAATCTACCGTGAAT
1 GTGTAAATGATTTAATTTGTATGGTGTTGAAATCTACCGTGAAT
*
3173914 GTGTAAATGATTTAATTTGTATGGTGTTGAAATCTATCGTGAAT
1 GTGTAAATGATTTAATTTGTATGGTGTTGAAATCTACCGTGAAT
3173958 GTGTAAATGATTTAATTTGTATGGTGTTGAA
1 GTGTAAATGATTTAATTTGTATGGTGTTGAA
3173989 TATATTGAGT
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
44 73 1.00
ACGTcount: A:0.29, C:0.04, G:0.24, T:0.44
Consensus pattern (44 bp):
GTGTAAATGATTTAATTTGTATGGTGTTGAAATCTACCGTGAAT
Found at i:3174173 original size:31 final size:31
Alignment explanation
Indices: 3174138--3174215 Score: 156
Period size: 31 Copynumber: 2.5 Consensus size: 31
3174128 AATTATTTTC
3174138 TTACTTCTATTTTGGTTATTAAAATTTTAAA
1 TTACTTCTATTTTGGTTATTAAAATTTTAAA
3174169 TTACTTCTATTTTGGTTATTAAAATTTTAAA
1 TTACTTCTATTTTGGTTATTAAAATTTTAAA
3174200 TTACTTCTATTTTGGT
1 TTACTTCTATTTTGGT
3174216 CACTATAAGA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.28, C:0.08, G:0.08, T:0.56
Consensus pattern (31 bp):
TTACTTCTATTTTGGTTATTAAAATTTTAAA
Found at i:3176291 original size:39 final size:39
Alignment explanation
Indices: 3176237--3176327 Score: 128
Period size: 39 Copynumber: 2.3 Consensus size: 39
3176227 AAGGACATGT
*
3176237 GGTAAGGACTAACCCTGAGCACAAAGCAGAGGAGTCTGC
1 GGTAAGGACTTACCCTGAGCACAAAGCAGAGGAGTCTGC
* * *
3176276 GGTAAGGACTTACCCTGATCACAAAGTATAGGAGTCTGC
1 GGTAAGGACTTACCCTGAGCACAAAGCAGAGGAGTCTGC
* *
3176315 AGTAAGGTCTTAC
1 GGTAAGGACTTAC
3176328 AAGTCATAGA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.32, C:0.21, G:0.27, T:0.20
Consensus pattern (39 bp):
GGTAAGGACTTACCCTGAGCACAAAGCAGAGGAGTCTGC
Found at i:3178812 original size:12 final size:12
Alignment explanation
Indices: 3178791--3178824 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
3178781 ACGACGGTAA
3178791 CGATGGCAGTGG
1 CGATGGCAGTGG
*
3178803 CGATGACAGTGG
1 CGATGGCAGTGG
*
3178815 TGATGGCAGT
1 CGATGGCAGT
3178825 AACGATAGCG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.21, C:0.15, G:0.44, T:0.21
Consensus pattern (12 bp):
CGATGGCAGTGG
Found at i:3178987 original size:16 final size:17
Alignment explanation
Indices: 3178954--3178989 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
3178944 TAAAATAAGA
3178954 TTATAAAAATTAATATT
1 TTATAAAAATTAATATT
*
3178971 TTATAAATATT-ATATT
1 TTATAAAAATTAATATT
3178987 TTA
1 TTA
3178990 AGTAAATTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTATAAAAATTAATATT
Found at i:3179050 original size:15 final size:15
Alignment explanation
Indices: 3179032--3179067 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
3179022 TACTTATGCG
3179032 TTTAATACTTTATAA
1 TTTAATACTTTATAA
*
3179047 TTTAATATTTTATAA
1 TTTAATACTTTATAA
*
3179062 ATTAAT
1 TTTAAT
3179068 TTAATAGTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.56
Consensus pattern (15 bp):
TTTAATACTTTATAA
Found at i:3179315 original size:15 final size:16
Alignment explanation
Indices: 3179289--3179342 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 16
3179279 TATAGATAAA
*
3179289 TTTTAATTTAATTATT
1 TTTTAATATAATTATT
3179305 TTTTAA-ATAATTAATT
1 TTTTAATATAATT-ATT
*
3179321 TATTAATATAAAATTATT
1 TTTTAATAT--AATTATT
3179339 TTTT
1 TTTT
3179343 TAGTTTTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
15 5 0.16
16 14 0.45
17 2 0.06
18 6 0.19
19 4 0.13
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTTAATATAATTATT
Found at i:3187961 original size:18 final size:18
Alignment explanation
Indices: 3187940--3187979 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
3187930 GATTATGTTC
*
3187940 GTTCGTTTATGTT-GTTAT
1 GTTCGATTATGTTCGTT-T
3187958 GTTCGATTATGTTCGTTT
1 GTTCGATTATGTTCGTTT
3187976 GTTC
1 GTTC
3187980 ATTCATTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 17 0.85
19 3 0.15
ACGTcount: A:0.10, C:0.10, G:0.23, T:0.57
Consensus pattern (18 bp):
GTTCGATTATGTTCGTTT
Found at i:3188705 original size:16 final size:16
Alignment explanation
Indices: 3188682--3188736 Score: 92
Period size: 16 Copynumber: 3.4 Consensus size: 16
3188672 GGGTCTCCAA
3188682 CGTTTATGTTCGTGTT
1 CGTTTATGTTCGTGTT
* *
3188698 CATTTATGTTCGTATT
1 CGTTTATGTTCGTGTT
3188714 CGTTTATGTTCGTGTT
1 CGTTTATGTTCGTGTT
3188730 CGTTTAT
1 CGTTTAT
3188737 TTATTAAATG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.11, C:0.13, G:0.20, T:0.56
Consensus pattern (16 bp):
CGTTTATGTTCGTGTT
Found at i:3191052 original size:134 final size:133
Alignment explanation
Indices: 3190868--3191318 Score: 606
Period size: 134 Copynumber: 3.4 Consensus size: 133
3190858 ACTGTCACTC
* *
3190868 AGGGAATATTAGATGT-GAGGATGTTGATCCATTCCGCTGTCACTCAGGGAATATTGAATCGGGG
1 AGGGAATATCAGATCTGGAGGA-GTTGATCCATTCCGCTGTCACTCAGGGAATATTGAATCGGGG
* * * *
3190932 CAGACTTGTTTTGTTGTCACTCAGGGAATATCAAATCAT-GAAAGAGAGAGATC-TGTTCCGCTT
65 CAGACTTGTTATGCTGTCACTCAGGGAATATCAAATCTTGGAAA-AGAGGGA-CATGTTCCGCTT
3190995 CTTTGA
128 CTTTGA
* * * *
3191001 AGGGAGTATCAGATCTAGGGGGAGTTGATCCATTCCGTTATCACTCAGGGAATATTGAATCGGGG
1 AGGGAATATCAGATCT-GGAGGAGTTGATCCATTCCGCTGTCACTCAGGGAATATTGAATCGGGG
** * *
3191066 CAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGGAAAAGAGGGACATGTTTCGTTTCT
65 CAGACTTGTTATGCTGTCACTCAGGGAATATCAAATCTTGGAAAAGAGGGACATGTTCCGCTTC-
3191131 TTTGA
129 TTTGA
* * * *
3191136 AGGGAATATCATATTTGGAGGAGTTGATCCATTCCACTGTCACTCAGGGAAGA-TGAATCGGGGC
1 AGGGAATATCAGATCTGGAGGAGTTGATCCATTCCGCTGTCACTCAGGGAATATTGAATCGGGGC
*
3191200 AGACTTGTTATGCTGTCACTCA-GGAATATCAAATCTTGGAAAAAAGGGACATGTTCCGCTTCTT
66 AGACTTGTTATGCTGTCACTCAGGGAATATCAAATCTTGGAAAAGAGGGACATGTTCCGCTTCTT
3191264 CTGA
131 -TGA
* * * *
3191268 AGGGAATATCAGATCTGGAGGAGTTGATACATTCTGCTGTCAATAAGGGAA
1 AGGGAATATCAGATCTGGAGGAGTTGATCCATTCCGCTGTCACTCAGGGAA
3191319 GATTTCACTG
Statistics
Matches: 279, Mismatches: 33, Indels: 13
0.86 0.10 0.04
Matches are distributed among these distances:
131 2 0.01
132 84 0.30
133 45 0.16
134 122 0.44
135 26 0.09
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (133 bp):
AGGGAATATCAGATCTGGAGGAGTTGATCCATTCCGCTGTCACTCAGGGAATATTGAATCGGGGC
AGACTTGTTATGCTGTCACTCAGGGAATATCAAATCTTGGAAAAGAGGGACATGTTCCGCTTCTT
TGA
Found at i:3201916 original size:17 final size:16
Alignment explanation
Indices: 3201894--3201928 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 16
3201884 ATTATAAAAA
3201894 AATTATAATAAAAATAT
1 AATTATAAT-AAAATAT
3201911 AATTATAATAAAATAT
1 AATTATAATAAAATAT
3201927 AA
1 AA
3201929 AACGTAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
AATTATAATAAAATAT
Found at i:3208417 original size:20 final size:20
Alignment explanation
Indices: 3208380--3208419 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
3208370 ATTTATAAAT
**
3208380 AATCAAATTTATTCAATTTA
1 AATCAAATTTATAAAATTTA
*
3208400 AATCGAATTTATAAAATTTA
1 AATCAAATTTATAAAATTTA
3208420 TGTATGGGCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.07, G:0.03, T:0.42
Consensus pattern (20 bp):
AATCAAATTTATAAAATTTA
Found at i:3208889 original size:15 final size:15
Alignment explanation
Indices: 3208869--3208897 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
3208859 TTTATTATTA
3208869 ATATTTAATGATTTG
1 ATATTTAATGATTTG
3208884 ATATTTAATGATTT
1 ATATTTAATGATTT
3208898 ATTAATGATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (15 bp):
ATATTTAATGATTTG
Found at i:3208902 original size:26 final size:25
Alignment explanation
Indices: 3208855--3208939 Score: 77
Period size: 26 Copynumber: 3.4 Consensus size: 25
3208845 GATGCTACTA
* * *
3208855 ATGATTTATTATTAATATTTAATGAT
1 ATGATTTATAATGATTA-TTAATGAT
*
3208881 TTGATATT-TAATGATTTATTAATGAT
1 ATGAT-TTATAATGA-TTATTAATGAT
3208907 ATGATTTAGTAATGATTATTAAT-A-
1 ATGATTTA-TAATGATTATTAATGAT
3208931 ATGATTTAT
1 ATGATTTAT
3208940 TATTAATATT
Statistics
Matches: 50, Mismatches: 5, Indels: 11
0.76 0.08 0.17
Matches are distributed among these distances:
23 1 0.02
24 8 0.16
25 3 0.06
26 28 0.56
27 10 0.20
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.52
Consensus pattern (25 bp):
ATGATTTATAATGATTATTAATGAT
Found at i:3208912 original size:16 final size:16
Alignment explanation
Indices: 3208891--3208922 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
3208881 TTGATATTTA
*
3208891 ATGATTTATTAATGAT
1 ATGATTTAGTAATGAT
3208907 ATGATTTAGTAATGAT
1 ATGATTTAGTAATGAT
3208923 TATTAATAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.38, C:0.00, G:0.16, T:0.47
Consensus pattern (16 bp):
ATGATTTAGTAATGAT
Found at i:3208971 original size:59 final size:63
Alignment explanation
Indices: 3208853--3208993 Score: 175
Period size: 59 Copynumber: 2.3 Consensus size: 63
3208843 CCGATGCTAC
* * * *
3208853 TAATGATTTATTATTAAT-ATTTAATGATTTGATATTTAATGATTTATTAATGATATGATTTAG
1 TAATGA-TTATTAATAATGATTTAATGATTTAATATTTAATGATTTAATAATGATATGATTTAA
* *
3208916 TAATGATTATTAATAATGATTT-ATTA-TTAATATTTAATGATTTAATACT-AT-TGATTTAA
1 TAATGATTATTAATAATGATTTAATGATTTAATATTTAATGATTTAATAATGATATGATTTAA
*
3208975 TAATGATTACTAATAATGA
1 TAATGATTATTAATAATGA
3208994 AATTATAATA
Statistics
Matches: 70, Mismatches: 7, Indels: 6
0.84 0.08 0.07
Matches are distributed among these distances:
59 25 0.36
60 2 0.03
61 20 0.29
62 13 0.19
63 10 0.14
ACGTcount: A:0.40, C:0.01, G:0.09, T:0.50
Consensus pattern (63 bp):
TAATGATTATTAATAATGATTTAATGATTTAATATTTAATGATTTAATAATGATATGATTTAA
Found at i:3209007 original size:24 final size:22
Alignment explanation
Indices: 3208974--3209048 Score: 80
Period size: 24 Copynumber: 3.3 Consensus size: 22
3208964 TATTGATTTA
*
3208974 ATAATGATTACTAATAATGAAATT
1 ATAATAATTACTAATAATG--ATT
3208998 ATAATAATTACTAATAATGATT
1 ATAATAATTACTAATAATGATT
* *
3209020 ACTAATAATTATTTAATAATAATT
1 A-TAATAATTA-CTAATAATGATT
3209044 A-AATA
1 ATAATA
3209049 TTTAAATAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
22 8 0.17
23 9 0.20
24 29 0.63
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.40
Consensus pattern (22 bp):
ATAATAATTACTAATAATGATT
Found at i:3209041 original size:14 final size:13
Alignment explanation
Indices: 3208972--3209044 Score: 51
Period size: 13 Copynumber: 5.7 Consensus size: 13
3208962 ACTATTGATT
* *
3208972 TAATAATGATTAC
1 TAATAATTATTAA
*
3208985 TAATAATGA--AA
1 TAATAATTATTAA
* * *
3208996 TTATAATAATTAC
1 TAATAATTATTAA
* *
3209009 TAATAATGATTAC
1 TAATAATTATTAA
3209022 TAATAATTATTTAA
1 TAATAATTA-TTAA
3209036 TAATAATTA
1 TAATAATTA
3209045 AATATTTAAA
Statistics
Matches: 49, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
11 8 0.16
13 29 0.59
14 12 0.24
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.41
Consensus pattern (13 bp):
TAATAATTATTAA
Found at i:3209123 original size:22 final size:22
Alignment explanation
Indices: 3209095--3209137 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
3209085 AAATAGTTGA
* *
3209095 ATTTATAACTAGTCGAATTTAT
1 ATTTATAAATAGTCAAATTTAT
3209117 ATTTATAAATAGTCAAATTTA
1 ATTTATAAATAGTCAAATTTA
3209138 AGTTGAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.42, C:0.07, G:0.07, T:0.44
Consensus pattern (22 bp):
ATTTATAAATAGTCAAATTTAT
Found at i:3209136 original size:16 final size:16
Alignment explanation
Indices: 3209075--3209117 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
3209065 TCAATTTAAA
3209075 TCGAATTTATAAATAG
1 TCGAATTTATAAATAG
* *
3209091 TTGAATTTATAACTAG
1 TCGAATTTATAAATAG
3209107 TCGAATTTATA
1 TCGAATTTATA
3209118 TTTATAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.40, C:0.07, G:0.12, T:0.42
Consensus pattern (16 bp):
TCGAATTTATAAATAG
Found at i:3209484 original size:21 final size:21
Alignment explanation
Indices: 3209460--3209554 Score: 75
Period size: 21 Copynumber: 4.3 Consensus size: 21
3209450 TTTTTACTAC
*
3209460 TAATGATTTATTATTAATATT
1 TAATAATTTATTATTAATATT
* *
3209481 TAATAATTTAGTAATGATTACTA-A
1 TAATAATTTA-T--T-ATTAATATT
3209505 TAATAATTTATTATTAATATT
1 TAATAATTTATTATTAATATT
* * * *
3209526 TAATGATTTAATACTAATGAGT
1 TAATAATTTATTATTAAT-ATT
3209548 TAATAAT
1 TAATAAT
3209555 AATTACTAAT
Statistics
Matches: 58, Mismatches: 10, Indels: 11
0.73 0.13 0.14
Matches are distributed among these distances:
20 6 0.10
21 25 0.43
22 9 0.16
23 1 0.02
24 11 0.19
25 6 0.10
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.48
Consensus pattern (21 bp):
TAATAATTTATTATTAATATT
Found at i:3209577 original size:24 final size:25
Alignment explanation
Indices: 3209547--3209617 Score: 110
Period size: 24 Copynumber: 2.9 Consensus size: 25
3209537 TACTAATGAG
3209547 TTAATAATAATTACTAATAATGAAA
1 TTAATAATAATTACTAATAATGAAA
*
3209572 TT-ATAATAATTACTAATAATG-AT
1 TTAATAATAATTACTAATAATGAAA
*
3209595 TTAATAATGATTACTAATAATGA
1 TTAATAATAATTACTAATAATGA
3209618 TTAAATATTA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
23 3 0.07
24 37 0.88
25 2 0.05
ACGTcount: A:0.51, C:0.04, G:0.06, T:0.39
Consensus pattern (25 bp):
TTAATAATAATTACTAATAATGAAA
Found at i:3209624 original size:24 final size:24
Alignment explanation
Indices: 3209540--3209624 Score: 104
Period size: 24 Copynumber: 3.5 Consensus size: 24
3209530 GATTTAATAC
3209540 TAATGAGTT-AATAATAATTACTAA
1 TAATGA-TTAAATAATAATTACTAA
3209564 TAATGA--AATTATAATAATTACTAA
1 TAATGATTAA--ATAATAATTACTAA
* *
3209588 TAATGATTTAATAATGATTACTAA
1 TAATGATTAAATAATAATTACTAA
3209612 TAATGATTAAATA
1 TAATGATTAAATA
3209625 TTAAAATAGA
Statistics
Matches: 53, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
22 1 0.02
24 51 0.96
26 1 0.02
ACGTcount: A:0.51, C:0.04, G:0.07, T:0.39
Consensus pattern (24 bp):
TAATGATTAAATAATAATTACTAA
Found at i:3209687 original size:22 final size:23
Alignment explanation
Indices: 3209659--3209703 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
3209649 AATCGAATTA
**
3209659 ATAAATAGTTGAATTTA-TATTT
1 ATAAATAGTCAAATTTATTATTT
3209681 ATAAATAGTCAAATTTATTATTT
1 ATAAATAGTCAAATTTATTATTT
3209704 TTACATTTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (23 bp):
ATAAATAGTCAAATTTATTATTT
Found at i:3209761 original size:17 final size:16
Alignment explanation
Indices: 3209727--3209772 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 16
3209717 AGAGGCATGC
3209727 ATATTT-AATATTATA
1 ATATTTAAATATTATA
*
3209742 ATATTTAAATTTTAATA
1 ATATTTAAATATT-ATA
3209759 ATATTTAACATATT
1 ATATTTAA-ATATT
3209773 TAAGTTTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
15 6 0.23
16 5 0.19
17 11 0.42
18 4 0.15
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (16 bp):
ATATTTAAATATTATA
Found at i:3212201 original size:36 final size:35
Alignment explanation
Indices: 3212151--3212228 Score: 104
Period size: 36 Copynumber: 2.2 Consensus size: 35
3212141 ACTATTTTTT
* *
3212151 ATATCACTTAAACTAATAAA-ATATTTATTTATTATA
1 ATATAACTTAAACTAATAAACAAATTT-TTTA-TATA
3212187 ATATAACTTAAACTAATAAACTAAATTTTTTATATA
1 ATATAACTTAAACTAATAAAC-AAATTTTTTATATA
3212223 ATATAA
1 ATATAA
3212229 ATTCAACAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
36 29 0.76
37 4 0.11
38 5 0.13
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (35 bp):
ATATAACTTAAACTAATAAACAAATTTTTTATATA
Found at i:3212298 original size:33 final size:34
Alignment explanation
Indices: 3212259--3212322 Score: 121
Period size: 33 Copynumber: 1.9 Consensus size: 34
3212249 TTAAACTATT
3212259 TAACTAACAAACTAATTAAAT-ATTTTTTATATA
1 TAACTAACAAACTAATTAAATAATTTTTTATATA
3212292 TAACTAACAAACTAATTAAATAATTTTTTAT
1 TAACTAACAAACTAATTAAATAATTTTTTAT
3212323 TTATGTGTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
33 21 0.70
34 9 0.30
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.42
Consensus pattern (34 bp):
TAACTAACAAACTAATTAAATAATTTTTTATATA
Found at i:3212356 original size:23 final size:23
Alignment explanation
Indices: 3212330--3212384 Score: 103
Period size: 23 Copynumber: 2.4 Consensus size: 23
3212320 TATTTATGTG
3212330 TAATATAACTTAAACTAACAAAC
1 TAATATAACTTAAACTAACAAAC
3212353 TAATATAACTTAAACTAACAAAC
1 TAATATAACTTAAACTAACAAAC
3212376 TAAT-TAACT
1 TAATATAACT
3212385 AAAATTTTGT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 5 0.16
23 27 0.84
ACGTcount: A:0.55, C:0.16, G:0.00, T:0.29
Consensus pattern (23 bp):
TAATATAACTTAAACTAACAAAC
Found at i:3212720 original size:16 final size:17
Alignment explanation
Indices: 3212695--3212734 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
3212685 CCGAGATGTC
*
3212695 ACATTGACTT-TTCAAA
1 ACATTGACTTGTACAAA
*
3212711 ACATTTACTTGTACAAA
1 ACATTGACTTGTACAAA
3212728 ACATTGA
1 ACATTGA
3212735 ATAATTTTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 9 0.45
17 11 0.55
ACGTcount: A:0.40, C:0.17, G:0.07, T:0.35
Consensus pattern (17 bp):
ACATTGACTTGTACAAA
Found at i:3213075 original size:18 final size:18
Alignment explanation
Indices: 3213052--3213114 Score: 81
Period size: 18 Copynumber: 3.5 Consensus size: 18
3213042 ACATATATCC
3213052 TCATTATCAACATCAATA
1 TCATTATCAACATCAATA
** **
3213070 TCATTATCATGATCTCTA
1 TCATTATCAACATCAATA
*
3213088 TCATTCTCAACATCAATA
1 TCATTATCAACATCAATA
3213106 TCATTATCA
1 TCATTATCA
3213115 TGTAATACAT
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.37, C:0.24, G:0.02, T:0.38
Consensus pattern (18 bp):
TCATTATCAACATCAATA
Found at i:3216417 original size:18 final size:18
Alignment explanation
Indices: 3216394--3216431 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
3216384 GGAATTTTAA
3216394 AAAATATATATATTA-ATT
1 AAAATAT-TATATTACATT
*
3216412 AAAATATTTTATTACATT
1 AAAATATTATATTACATT
3216430 AA
1 AA
3216432 CTCAAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (18 bp):
AAAATATTATATTACATT
Found at i:3218109 original size:5 final size:5
Alignment explanation
Indices: 3218099--3218134 Score: 72
Period size: 5 Copynumber: 7.2 Consensus size: 5
3218089 AATTGTTATT
3218099 ATATC ATATC ATATC ATATC ATATC ATATC ATATC A
1 ATATC ATATC ATATC ATATC ATATC ATATC ATATC A
3218135 CATTAGACAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.42, C:0.19, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATC
Found at i:3223018 original size:149 final size:149
Alignment explanation
Indices: 3222703--3223007 Score: 574
Period size: 149 Copynumber: 2.0 Consensus size: 149
3222693 GAGTCGAGGG
3222703 TTCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGTAAGACACA
1 TTCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGTAAGACACA
*
3222768 TACTTGATCCCTAGTATATGTATATTATTCTTAAGGAATAATATGTGGTCCTTACGGACATTATT
66 TACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTACGGACATTATT
3222833 ATATGGCACTACGGTGCAA
131 ATATGGCACTACGGTGCAA
3222852 TTCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGTAAGACACA
1 TTCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGTAAGACACA
*
3222917 TACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATT
66 TACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTACGGACATTATT
* *
3222982 ATATGGCACTATGGTGTAA
131 ATATGGCACTACGGTGCAA
3223001 TTCTACG
1 TTCTACG
3223008 TGGCACTTCG
Statistics
Matches: 152, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
149 152 1.00
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.36
Consensus pattern (149 bp):
TTCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGTAAGACACA
TACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTACGGACATTATT
ATATGGCACTACGGTGCAA
Found at i:3225351 original size:17 final size:18
Alignment explanation
Indices: 3225329--3225366 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
3225319 ATTTGTATAA
*
3225329 GGAATAAA-TAAGGAAAT
1 GGAATAAAGAAAGGAAAT
3225346 GGAATAAAGAAAGGAAAT
1 GGAATAAAGAAAGGAAAT
3225364 GGA
1 GGA
3225367 TTGAGGTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.58, C:0.00, G:0.29, T:0.13
Consensus pattern (18 bp):
GGAATAAAGAAAGGAAAT
Found at i:3228114 original size:22 final size:23
Alignment explanation
Indices: 3228076--3228120 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
3228066 CATTATTATA
*
3228076 TGGCACTACGGTGCAATTCTACG
1 TGGCACTACGGTGCAATTATACG
*
3228099 TGGCACTTC-GTGCAATTATACG
1 TGGCACTACGGTGCAATTATACG
3228121 AGCTGTGGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.29
Consensus pattern (23 bp):
TGGCACTACGGTGCAATTATACG
Found at i:3231407 original size:23 final size:23
Alignment explanation
Indices: 3231381--3231433 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
3231371 AATATACCAG
* * *
3231381 AGTGCCACGTATAATTGCATCGA
1 AGTGCCACGTAGAAATGCACCGA
* *
3231404 AGTGCCGCGTAGAAATGCACCGT
1 AGTGCCACGTAGAAATGCACCGA
3231427 AGTGCCA
1 AGTGCCA
3231434 TATAAGATGT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.28, C:0.25, G:0.26, T:0.21
Consensus pattern (23 bp):
AGTGCCACGTAGAAATGCACCGA
Found at i:3235012 original size:43 final size:44
Alignment explanation
Indices: 3234965--3235065 Score: 116
Period size: 43 Copynumber: 2.3 Consensus size: 44
3234955 GCACTACCCA
* * *
3234965 TGCATCGATACACAAATCACCTTCGATG-TT-TTCATTTAAGGGG
1 TGCATCGATACACAAATCACATTCGATGTTTCTTC-TTTAAAGAG
* * **
3235008 TGCATCGATGCACTAATTGCATTCGATGTTTCTTCTTTAAAGAG
1 TGCATCGATACACAAATCACATTCGATGTTTCTTCTTTAAAGAG
3235052 TGCATCGATACACA
1 TGCATCGATACACA
3235066 TTGAATGTGC
Statistics
Matches: 47, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
43 23 0.49
44 21 0.45
45 3 0.06
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.34
Consensus pattern (44 bp):
TGCATCGATACACAAATCACATTCGATGTTTCTTCTTTAAAGAG
Found at i:3238439 original size:23 final size:23
Alignment explanation
Indices: 3238374--3238442 Score: 61
Period size: 23 Copynumber: 3.0 Consensus size: 23
3238364 CACCAGAGCT
* *
3238374 CGTATAAATGCACCGGAGTGCCA
1 CGTAAAAATGCACCGTAGTGCCA
* * *
3238397 CGTAAAATTGCATC-TAAGTGCCG
1 CGTAAAAATGCACCGT-AGTGCCA
3238420 CG-AAGAAATGCACCGTAGTGCCA
1 CGTAA-AAATGCACCGTAGTGCCA
3238443 TATAAGATGT
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
22 2 0.06
23 32 0.91
24 1 0.03
ACGTcount: A:0.32, C:0.25, G:0.25, T:0.19
Consensus pattern (23 bp):
CGTAAAAATGCACCGTAGTGCCA
Found at i:3240068 original size:64 final size:63
Alignment explanation
Indices: 3239945--3240081 Score: 143
Period size: 64 Copynumber: 2.2 Consensus size: 63
3239935 CCTTTAACAT
* * *
3239945 GTGCATCGATGCACTACCCATACATCGATACACCAATCACCTTCGATGTTTTCATTTTAAGGGG
1 GTGCATCGATGCACTACCCATACATCGATACACCAATCACATTCGATGTTTTCATTTTAA-AGA
* * * * ** *
3240009 GTGCATCGATGCACT-CCTTATGCATCGATGCACTAATTGCATTCGATG-TTTCTTCTTTAAAGA
1 GTGCATCGATGCACTACC-CATACATCGATACACCAATCACATTCGATGTTTTCAT-TTTAAAGA
3240072 GTGCATCGAT
1 GTGCATCGAT
3240082 ACACATTGAA
Statistics
Matches: 61, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
63 18 0.30
64 43 0.70
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (63 bp):
GTGCATCGATGCACTACCCATACATCGATACACCAATCACATTCGATGTTTTCATTTTAAAGA
Found at i:3244762 original size:15 final size:16
Alignment explanation
Indices: 3244742--3244775 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
3244732 TGGAGCTGTT
3244742 GACATT-AAAAATACA
1 GACATTAAAAAATACA
3244757 GACATTAAAAAATACA
1 GACATTAAAAAATACA
3244773 GAC
1 GAC
3244776 GGGACGATCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.59, C:0.15, G:0.09, T:0.18
Consensus pattern (16 bp):
GACATTAAAAAATACA
Found at i:3246569 original size:24 final size:24
Alignment explanation
Indices: 3246542--3246594 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
3246532 TGACCCGACT
*
3246542 CCTGATCAGCACCGTTCTGAGACA
1 CCTGATCAGCACCGTTCTGACACA
* *
3246566 CCTGATCCGCACCGTTCTGACACC
1 CCTGATCAGCACCGTTCTGACACA
3246590 CCTGA
1 CCTGA
3246595 ATATCCACCT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.21, C:0.40, G:0.19, T:0.21
Consensus pattern (24 bp):
CCTGATCAGCACCGTTCTGACACA
Found at i:3252910 original size:2 final size:2
Alignment explanation
Indices: 3252903--3252935 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
3252893 AGGAAAACAA
3252903 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
3252936 GTATTACTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:3258682 original size:18 final size:18
Alignment explanation
Indices: 3258659--3258701 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
3258649 AAAGCTAACT
3258659 ATTCTTCAGCACATAGAG
1 ATTCTTCAGCACATAGAG
3258677 ATTCTTCAGCACATAGAG
1 ATTCTTCAGCACATAGAG
3258695 ATTCTTC
1 ATTCTTC
3258702 TTAAGAGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (18 bp):
ATTCTTCAGCACATAGAG
Found at i:3259453 original size:24 final size:24
Alignment explanation
Indices: 3259417--3259466 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
3259407 TTAATATCGT
* *
3259417 TTGGTCCGTACAATAAGTTACAAC
1 TTGGTCCGAACAAGAAGTTACAAC
* *
3259441 TTGGTTCGAACAAGAAGTTACGAC
1 TTGGTCCGAACAAGAAGTTACAAC
3259465 TT
1 TT
3259467 TGAATAGATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (24 bp):
TTGGTCCGAACAAGAAGTTACAAC
Found at i:3261758 original size:93 final size:93
Alignment explanation
Indices: 3261617--3262148 Score: 715
Period size: 93 Copynumber: 5.7 Consensus size: 93
3261607 AGAAAACATT
* * * * * * **
3261617 GTTGATTCTGATACAAGCCACAAGTTTGATGGTGATTCGGGAAGGGGTCCGGAACCGGTGACAGA
1 GTTGATTCTGATTCAAGCTACAAGCTTGATGGTGATTCCGAAAAGGGTCCGGAACCGGTGGGAGA
3261682 AAACAAAGCTGATAAGAAACATTTGTCC
66 AAACAAAGCTGATAAGAAACATTTGTCC
* * **
3261710 GTTGATTTTGATTCAAGCTACAAGCTTGATGATGATTCCGGGAAGGGTCCGGAACCGGTGGGAGA
1 GTTGATTCTGATTCAAGCTACAAGCTTGATGGTGATTCCGAAAAGGGTCCGGAACCGGTGGGAGA
*
3261775 AAACCAAGCTGATAAGAAACATTTGTCC
66 AAACAAAGCTGATAAGAAACATTTGTCC
* * * * *
3261803 GTTGATTCTGATTCAAGCTACAAGCTTGAAGGTGATCCCGAAAAAGGTCTGGAACCGATGGGAGA
1 GTTGATTCTGATTCAAGCTACAAGCTTGATGGTGATTCCGAAAAGGGTCCGGAACCGGTGGGAGA
* *
3261868 AAACCAAGCTGATAAGAAATATTTGTCC
66 AAACAAAGCTGATAAGAAACATTTGTCC
* * * *
3261896 GTTGATTCTGAGTCAAGCTACAAGCTTGATGGTAATCCCGAAAAGGGTCCGGAACCGGTGGCAGA
1 GTTGATTCTGATTCAAGCTACAAGCTTGATGGTGATTCCGAAAAGGGTCCGGAACCGGTGGGAGA
*
3261961 AAACAAAGCTGATAATAAACATTTGTCC
66 AAACAAAGCTGATAAGAAACATTTGTCC
** *
3261989 GTTGATTCTGATTCAAGCTACAAGCTTGATATTGATTCCGAAAATGGTCCGGAACCGGTGGGAGA
1 GTTGATTCTGATTCAAGCTACAAGCTTGATGGTGATTCCGAAAAGGGTCCGGAACCGGTGGGAGA
* * *
3262054 AAACAAAGATGAAAAGAAATATTTGTCC
66 AAACAAAGCTGATAAGAAACATTTGTCC
* * * * * *
3262082 GTTGCTTCTGATTTAAGCTACAAGCATGATGGTGA-TCCTGAAAAGAGTCCGGAACAGATGGGAG
1 GTTGATTCTGATTCAAGCTACAAGCTTGATGGTGATTCC-GAAAAGGGTCCGGAACCGGTGGGAG
3262146 AAA
65 AAA
3262149 TTGCTTCTGG
Statistics
Matches: 387, Mismatches: 51, Indels: 2
0.88 0.12 0.00
Matches are distributed among these distances:
92 3 0.01
93 384 0.99
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.24
Consensus pattern (93 bp):
GTTGATTCTGATTCAAGCTACAAGCTTGATGGTGATTCCGAAAAGGGTCCGGAACCGGTGGGAGA
AAACAAAGCTGATAAGAAACATTTGTCC
Found at i:3262118 original size:279 final size:279
Alignment explanation
Indices: 3261617--3262148 Score: 800
Period size: 279 Copynumber: 1.9 Consensus size: 279
3261607 AGAAAACATT
* * * * * *
3261617 GTTGATTCTGATACAAGCCACAAGTTTGATGGTGATTCGGGAAGGGGTCCGGAACCGGTGACAGA
1 GTTGATTCTGATACAAGCCACAAGCTTGATGGTAATCCCGAAAAGGGTCCGGAACCGGTGACAGA
*
3261682 AAACAAAGCTGATAAGAAACATTTGTCCGTTGATTTTGATTCAAGCTACAAGCTTGATGATGATT
66 AAACAAAGCTGATAAGAAACATTTGTCCGTTGATTCTGATTCAAGCTACAAGCTTGATGATGATT
** * * *
3261747 CCGGGAAGGGTCCGGAACCGGTGGGAGAAAACCAAGCTGATAAGAAACATTTGTCCGTTGATTCT
131 CCGAAAAGGGTCCGGAACCGGTGGGAGAAAACAAAGATGAAAAGAAACATTTGTCCGTTGATTCT
* * *
3261812 GATTCAAGCTACAAGCTTGAAGGTGATCCCGAAAA-AGGTCTGGAACCGATGGGAGAAAACCAAG
196 GATTCAAGCTACAAGCATGAAGGTGATCCCGAAAAGA-GTCCGGAACAGATGGGAGAAAACCAAG
3261876 CTGATAAGAAATATTTGTCC
260 CTGATAAGAAATATTTGTCC
* *
3261896 GTTGATTCTGAGT-CAAGCTACAAGCTTGATGGTAATCCCGAAAAGGGTCCGGAACCGGTGGCAG
1 GTTGATTCTGA-TACAAGCCACAAGCTTGATGGTAATCCCGAAAAGGGTCCGGAACCGGTGACAG
*
3261960 AAAACAAAGCTGATAATAAACATTTGTCCGTTGATTCTGATTCAAGCTACAAGCTTGAT-ATTGA
65 AAAACAAAGCTGATAAGAAACATTTGTCCGTTGATTCTGATTCAAGCTACAAGCTTGATGA-TGA
* * *
3262024 TTCCGAAAATGGTCCGGAACCGGTGGGAGAAAACAAAGATGAAAAGAAATATTTGTCCGTTGCTT
129 TTCCGAAAAGGGTCCGGAACCGGTGGGAGAAAACAAAGATGAAAAGAAACATTTGTCCGTTGATT
* * *
3262089 CTGATTTAAGCTACAAGCATGATGGTGATCCTGAAAAGAGTCCGGAACAGATGGGAGAAA
194 CTGATTCAAGCTACAAGCATGAAGGTGATCCCGAAAAGAGTCCGGAACAGATGGGAGAAA
3262149 TTGCTTCTGG
Statistics
Matches: 226, Mismatches: 24, Indels: 6
0.88 0.09 0.02
Matches are distributed among these distances:
278 1 0.00
279 223 0.99
280 2 0.01
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.24
Consensus pattern (279 bp):
GTTGATTCTGATACAAGCCACAAGCTTGATGGTAATCCCGAAAAGGGTCCGGAACCGGTGACAGA
AAACAAAGCTGATAAGAAACATTTGTCCGTTGATTCTGATTCAAGCTACAAGCTTGATGATGATT
CCGAAAAGGGTCCGGAACCGGTGGGAGAAAACAAAGATGAAAAGAAACATTTGTCCGTTGATTCT
GATTCAAGCTACAAGCATGAAGGTGATCCCGAAAAGAGTCCGGAACAGATGGGAGAAAACCAAGC
TGATAAGAAATATTTGTCC
Found at i:3262191 original size:66 final size:66
Alignment explanation
Indices: 3262083--3262214 Score: 158
Period size: 66 Copynumber: 2.0 Consensus size: 66
3262073 TATTTGTCCG
* * * *
3262083 TTGCTTCTGATTTAAGCTACAAGCATGATGGTGATCCTGAAAAGAGTCCGGAACAGATGGGAGAA
1 TTGCTTCTGATTCAAGCTACAAGCATAATAGTGATCCTGAAAAGAGTCAGGAACAGATGGGAGAA
3262148 A
66 A
* * * * * *
3262149 TTGCTTCTGGTTCAAGCTACAAGCTTAATATTGATTCC-GAAAAGGGTCAGGAACCGGTGGGAGA
1 TTGCTTCTGATTCAAGCTACAAGCATAATAGTGA-TCCTGAAAAGAGTCAGGAACAGATGGGAGA
3262213 AA
65 AA
3262215 ACAAAGCTGA
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
66 52 0.95
67 3 0.05
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.25
Consensus pattern (66 bp):
TTGCTTCTGATTCAAGCTACAAGCATAATAGTGATCCTGAAAAGAGTCAGGAACAGATGGGAGAA
A
Found at i:3264353 original size:15 final size:15
Alignment explanation
Indices: 3264333--3264362 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
3264323 TCTATTTTCC
3264333 CGCACCTGCCCTTTA
1 CGCACCTGCCCTTTA
3264348 CGCACCTGCCCTTTA
1 CGCACCTGCCCTTTA
3264363 GGTGAACTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.47, G:0.13, T:0.27
Consensus pattern (15 bp):
CGCACCTGCCCTTTA
Found at i:3268706 original size:96 final size:96
Alignment explanation
Indices: 3268588--3268778 Score: 294
Period size: 96 Copynumber: 2.0 Consensus size: 96
3268578 TATAAACTAT
* *
3268588 AAATTAATGAATAAACTTTCTTCTTACTTTTATTCCGGTCATTGTATTTAAAAAAAT-TTCAATT
1 AAATTAATGAATAAACTTTCTTCTTACTCTTATTCCGGTCATTATATTT-AAAAAATGTTCAATT
3268652 TAATAACTAAACTTTATACATTAAACTTTTTA
65 TAATAACTAAACTTTATACATTAAACTTTTTA
* * * *
3268684 AAATTAATGATTGAACTTTCTTCTTACTCTTATTTCGGTCATTATATTTTAAAAATGTTCAATTT
1 AAATTAATGAATAAACTTTCTTCTTACTCTTATTCCGGTCATTATATTTAAAAAATGTTCAATTT
* *
3268749 AATAACTAAAGTTTATACATTAGACTTTTT
66 AATAACTAAACTTTATACATTAAACTTTTT
3268779 GGGTCACTTC
Statistics
Matches: 86, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
95 6 0.07
96 80 0.93
ACGTcount: A:0.36, C:0.12, G:0.06, T:0.46
Consensus pattern (96 bp):
AAATTAATGAATAAACTTTCTTCTTACTCTTATTCCGGTCATTATATTTAAAAAATGTTCAATTT
AATAACTAAACTTTATACATTAAACTTTTTA
Done.