Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008935.1 Hibiscus syriacus cultivar Beakdansim tig00112253_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: 1775090
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 7 of 9
Found at i:1444806 original size:2 final size:2
Alignment explanation
Indices: 1444801--1444871 Score: 101
Period size: 2 Copynumber: 36.0 Consensus size: 2
1444791 TATTTTTTAT
* *
1444801 TA TA TA TA TC T- TA TCA T- TA TG TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA
1444842 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1444872 GATGTATTAA
Statistics
Matches: 63, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
1 2 0.03
2 59 0.94
3 2 0.03
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1445010 original size:39 final size:37
Alignment explanation
Indices: 1444936--1445008 Score: 103
Period size: 37 Copynumber: 2.0 Consensus size: 37
1444926 TTTTATACGT
* *
1444936 TTATATATATATTTTCTTATATTTATTTTTGTTTTTA
1 TTATATATATATATTATTATATTTATTTTTGTTTTTA
*
1444973 TTATATATATATATTATTTTACTTTA-TTTTGTTTTT
1 TTATATATATATATTATTATA-TTTATTTTTGTTTTT
1445009 TTCTATTATT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
37 28 0.88
38 4 0.12
ACGTcount: A:0.25, C:0.03, G:0.03, T:0.70
Consensus pattern (37 bp):
TTATATATATATATTATTATATTTATTTTTGTTTTTA
Found at i:1449700 original size:12 final size:12
Alignment explanation
Indices: 1449683--1449744 Score: 81
Period size: 12 Copynumber: 5.0 Consensus size: 12
1449673 CAATTAGAAC
1449683 AAAAAGAGAAAA
1 AAAAAGAGAAAA
1449695 AAAAAGAGAAAAA
1 AAAAAGAG-AAAA
*
1449708 AACAAAGAGAAAT
1 AA-AAAGAGAAAA
1449721 AAAAAGAGAAAA
1 AAAAAGAGAAAA
1449733 AACAAAG-GAAAA
1 AA-AAAGAGAAAA
1449745 TTGAAGAAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
12 24 0.53
13 15 0.33
14 6 0.13
ACGTcount: A:0.79, C:0.03, G:0.16, T:0.02
Consensus pattern (12 bp):
AAAAAGAGAAAA
Found at i:1449718 original size:26 final size:25
Alignment explanation
Indices: 1449685--1449744 Score: 95
Period size: 26 Copynumber: 2.4 Consensus size: 25
1449675 ATTAGAACAA
1449685 AAAGAGAAAAAAAAAGAGAAAAAAAC
1 AAAGAGAAAAAAAAAGAG-AAAAAAC
*
1449711 AAAGAGAAATAAAAAGAGAAAAAAC
1 AAAGAGAAAAAAAAAGAGAAAAAAC
1449736 AAAG-GAAAA
1 AAAGAGAAAA
1449745 TTGAAGAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
24 4 0.12
25 11 0.34
26 17 0.53
ACGTcount: A:0.78, C:0.03, G:0.17, T:0.02
Consensus pattern (25 bp):
AAAGAGAAAAAAAAAGAGAAAAAAC
Found at i:1449935 original size:69 final size:69
Alignment explanation
Indices: 1449817--1449954 Score: 222
Period size: 69 Copynumber: 2.0 Consensus size: 69
1449807 GATTCAAACT
* * * *
1449817 ATGAGATTGATCAAGCACAATCATTTCCGAATCACTGAACCACTTCACTCGAAGATCCTAGAGCA
1 ATGAGATTGATCAAGCACAATCATTTCCGAATCACTAAACCACTCCACTCAAAGATCATAGAGCA
1449882 TCAA
66 TCAA
* *
1449886 ATGAGATTGATCAAGCACAATCATTTCTGAATCACTAAATCACTCCACTCAAAGATCATAGAGCA
1 ATGAGATTGATCAAGCACAATCATTTCCGAATCACTAAACCACTCCACTCAAAGATCATAGAGCA
1449951 TCAA
66 TCAA
1449955 GAGAGAGACA
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
69 63 1.00
ACGTcount: A:0.38, C:0.25, G:0.13, T:0.24
Consensus pattern (69 bp):
ATGAGATTGATCAAGCACAATCATTTCCGAATCACTAAACCACTCCACTCAAAGATCATAGAGCA
TCAA
Found at i:1450847 original size:32 final size:31
Alignment explanation
Indices: 1450810--1450928 Score: 130
Period size: 32 Copynumber: 3.7 Consensus size: 31
1450800 AGAACAATGA
*
1450810 GGGCATCTTTGAAGATTCAATATCAAATGTTG
1 GGGCATCTTTG-AGATTCAACATCAAATGTTG
* * *
1450842 GGGCATTTTTTAGATTTAACATCAAATGTTG
1 GGGCATCTTTGAGATTCAACATCAAATGTTG
* * * *
1450873 GGGCATTTTTTGAGATTCAACATCGAATATTT
1 GGGCA-TCTTTGAGATTCAACATCAAATGTTG
*
1450905 GGGCATCTTTGGGAATTCAACATC
1 GGGCATCTTTGAG-ATTCAACATC
1450929 CTGATGCAAA
Statistics
Matches: 74, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
31 29 0.39
32 45 0.61
ACGTcount: A:0.29, C:0.13, G:0.21, T:0.37
Consensus pattern (31 bp):
GGGCATCTTTGAGATTCAACATCAAATGTTG
Found at i:1450866 original size:31 final size:32
Alignment explanation
Indices: 1450817--1450928 Score: 129
Period size: 31 Copynumber: 3.5 Consensus size: 32
1450807 TGAGGGCATC
*
1450817 TTTGAAGATTCAATATCAAATGTTGGGGCATTT
1 TTTG-AGATTCAACATCAAATGTTGGGGCATTT
*
1450850 TTT-AGATTTAACATCAAATGTTGGGGCATTT
1 TTTGAGATTCAACATCAAATGTTGGGGCATTT
* * * *
1450881 TTTGAGATTCAACATCGAATATTTGGGCA-TC
1 TTTGAGATTCAACATCAAATGTTGGGGCATTT
*
1450912 TTTGGGAATTCAACATC
1 TTTGAG-ATTCAACATC
1450929 CTGATGCAAA
Statistics
Matches: 69, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
31 35 0.51
32 31 0.45
33 3 0.04
ACGTcount: A:0.29, C:0.12, G:0.20, T:0.38
Consensus pattern (32 bp):
TTTGAGATTCAACATCAAATGTTGGGGCATTT
Found at i:1451706 original size:106 final size:104
Alignment explanation
Indices: 1451386--1451708 Score: 423
Period size: 106 Copynumber: 3.0 Consensus size: 104
1451376 ATATCGTGCC
*
1451386 ACTCGAGACAACACAAGTTTAACTCCACAACGAAGGGACGACTTGTTGTCAACAAACAATTTCCC
1 ACTCGAGACAACACAAG-TTAACTTCACAACGAAGGGACGAC-TGTTGTCAACAAACAATTTCCC
*
1451451 AATTTCAGAGCCAATTTCAACTTCACAGTGAAGGATATTGG
64 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
1451492 ACGCGAGACAACACAAGTTCAACTTCACAACGAAGGGTCGACTGGTTGTCAACAAACAATTTCCC
1 ACTCGAGACAACACAAGTT-AACTTCACAACGAAGGGACGACT-GTTGTCAACAAACAATTTCCC
* *
1451557 AATTTCGGAGCCAATTTGAACTTCACAGCGAAGGATATTGG
64 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * * *
1451598 ACTCGAGACAGCACAAGCTTAACTTCACAGCGAAGGGGCGGCTGACTGTCAACAAACAATTT-CT
1 ACTCGAGACAACACAAG-TTAACTTCACAACGAAGGGACGACTG-TTGTCAACAAACAATTTCCC
* * * * *
1451662 TAGTTCTAGAGCCAATTTTAACTTCACGGCGGAGGATATTGG
64 AATTTC-AGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
1451704 ACTCG
1 ACTCG
1451709 GAACGATACA
Statistics
Matches: 193, Mismatches: 19, Indels: 10
0.87 0.09 0.05
Matches are distributed among these distances:
105 9 0.05
106 182 0.94
107 2 0.01
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.23
Consensus pattern (104 bp):
ACTCGAGACAACACAAGTTAACTTCACAACGAAGGGACGACTGTTGTCAACAAACAATTTCCCAA
TTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
Found at i:1451960 original size:67 final size:65
Alignment explanation
Indices: 1451832--1451997 Score: 187
Period size: 67 Copynumber: 2.5 Consensus size: 65
1451822 GTGCTCACCA
**
1451832 TTGTCTCTCTTGAGACAGTTTTCCTTGAAACAAAATCTTTGAATTTATTTCTCCTAAAAC-AAAT
1 TTGTCTC-CTTGAGACAGTTTTCCTTGAAACAAAATCTTCAAATTTATTTCTCCTAAAACAAAAT
1451896 T
65 T
1451897 TTGTCTCCATTGAGACAG-TTTCTCTTGAAACACAAAATCTTCAAATTTATTTC-CCTTAAAACA
1 TTGTCTCC-TTGAGACAGTTTTC-CTTG-AA-ACAAAATCTTCAAATTTATTTCTCC-TAAAACA
1451960 AAATT
61 AAATT
* * *
1451965 TTGTTTCCCTTGAGACCA-TTTTTCATGAAACAA
1 TTGTCT-CCTTGAGA-CAGTTTTCCTTGAAACAA
1451998 CAGATATCTT
Statistics
Matches: 87, Mismatches: 5, Indels: 17
0.80 0.05 0.16
Matches are distributed among these distances:
64 5 0.06
65 20 0.23
66 8 0.09
67 28 0.32
68 19 0.22
69 7 0.08
ACGTcount: A:0.32, C:0.20, G:0.09, T:0.39
Consensus pattern (65 bp):
TTGTCTCCTTGAGACAGTTTTCCTTGAAACAAAATCTTCAAATTTATTTCTCCTAAAACAAAATT
Found at i:1452949 original size:107 final size:106
Alignment explanation
Indices: 1452706--1453185 Score: 571
Period size: 107 Copynumber: 4.5 Consensus size: 106
1452696 ACGAAGGGGC
* * *
1452706 TTCCAAGTTTCAGAGCCAATTTTAACTTCACAGTGAGGGATATTGGACTCAAGACAACACAAGCT
1 TTCCCAGTTTCAGAGCCAATTTCAACTTCACAGCGAGGGATATTGGACTCAAGACAACACAAGCT
*
1452771 CAACTTCACAACGAATGGGT-GACTGGCTATCAACAAACATT
66 CAACTTCACAACGAA-GGGTGGACTGGCTGTCAACAAACATT
* * *
1452812 TTACCAGTTCCAGAGCCAATTTCAACTTCACAACGAGGGATATTGGACTCAAGACAACACAAGCT
1 TTCCCAGTTTCAGAGCCAATTTCAACTTCACAGCGAGGGATATTGGACTCAAGACAACACAAGCT
**
1452877 CAACTTCACAACGAAGGGATGGTTTGGCTGTCAACAAACATT
66 CAACTTCACAACGAAGGG-TGGACTGGCTGTCAACAAACATT
* *
1452919 TTCCCAGTTTCAGAGCCAATTTCAACTTCACAGCGAGGGATATTGGACTCATGACAACACAATCT
1 TTCCCAGTTTCAGAGCCAATTTCAACTTCACAGCGAGGGATATTGGACTCAAGACAACACAAGCT
**
1452984 CAACTTCACAACGAAGGG-GCGACTGATTGTCAACAAACAAGTT
66 CAACTTCACAACGAAGGGTG-GACTGGCTGTCAACAAAC-A-TT
* * * * * * *
1453027 TT--CAGTTTCATTCAGAGTCAATTTTAACTTCATAGCGAAGGATATTTGAACTCGAGATAACAC
1 TTCCCAG--T--TTCAGAGCCAATTTCAACTTCACAGCGAGGGATA-TTGGACTCAAGACAACAC
* *
1453090 AAGCTCAACTTCACAGCGAAGGG-GCGGCTGGCTGTCAACAAA-ATAT
61 AAGCTCAACTTCACAACGAAGGGTG-GACTGGCTGTCAACAAACAT-T
*
1453136 TTCCCAGTTCCAGAGCCAATTTCAACTTCAC-GACG-GAGGATATTGGACTC
1 TTCCCAGTTTCAGAGCCAATTTCAACTTCACAG-CGAG-GGATATTGGACTC
1453186 GGAACAATAC
Statistics
Matches: 322, Mismatches: 37, Indels: 30
0.83 0.10 0.08
Matches are distributed among these distances:
105 4 0.01
106 100 0.31
107 123 0.38
108 6 0.02
109 5 0.02
110 30 0.09
111 54 0.17
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (106 bp):
TTCCCAGTTTCAGAGCCAATTTCAACTTCACAGCGAGGGATATTGGACTCAAGACAACACAAGCT
CAACTTCACAACGAAGGGTGGACTGGCTGTCAACAAACATT
Found at i:1454089 original size:17 final size:17
Alignment explanation
Indices: 1454067--1454109 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
1454057 CAACCGAGCA
1454067 AGGAGTCTAGTTGCATT
1 AGGAGTCTAGTTGCATT
1454084 AGGAGTCTAGTTGCATT
1 AGGAGTCTAGTTGCATT
*
1454101 AGGATTCTA
1 AGGAGTCTA
1454110 TTGTTAATAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.35
Consensus pattern (17 bp):
AGGAGTCTAGTTGCATT
Found at i:1454587 original size:14 final size:14
Alignment explanation
Indices: 1454568--1454605 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
1454558 TATTCCTTTT
1454568 TTATTTATATTATA
1 TTATTTATATTATA
*
1454582 TTATTTTTATTATA
1 TTATTTATATTATA
1454596 -TATCTTATAT
1 TTAT-TTATAT
1454606 CATTATGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 3 0.14
14 18 0.86
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (14 bp):
TTATTTATATTATA
Found at i:1454594 original size:23 final size:22
Alignment explanation
Indices: 1454536--1454605 Score: 68
Period size: 23 Copynumber: 3.1 Consensus size: 22
1454526 TATATTTTTA
* *
1454536 ATTATATTTTTATTTATTACTAT
1 ATTATTTTTTTATTTA-TATTAT
**
1454559 ATTCCTTTTTTATTTATATTAT
1 ATTATTTTTTTATTTATATTAT
* *
1454581 ATTATTTTTATTATATATCTTAT
1 ATTATTTTT-TTATTTATATTAT
1454604 AT
1 AT
1454606 CATTATGTAT
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
22 12 0.32
23 26 0.68
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.66
Consensus pattern (22 bp):
ATTATTTTTTTATTTATATTAT
Found at i:1454704 original size:36 final size:35
Alignment explanation
Indices: 1454655--1454751 Score: 114
Period size: 36 Copynumber: 2.9 Consensus size: 35
1454645 ATTTACTATG
1454655 TATATATATTTTTCTTAATATTATATTTATATGTTTT
1 TATATATATTTTTCTTAATATTATATTT-T-TGTTTT
*
1454692 TATATATA-TTTTCTTAATATTCTATTTTTGTTTT
1 TATATATATTTTTCTTAATATTATATTTTTGTTTT
* *
1454726 TAT-T-TATTTAT-AT-ATATTATATTTTT
1 TATATATATTTTTCTTAATATTATATTTTT
1454752 ACTTTATTTT
Statistics
Matches: 55, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
31 12 0.22
32 3 0.05
33 4 0.07
34 9 0.16
35 1 0.02
36 18 0.33
37 8 0.15
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.67
Consensus pattern (35 bp):
TATATATATTTTTCTTAATATTATATTTTTGTTTT
Found at i:1454767 original size:47 final size:48
Alignment explanation
Indices: 1454716--1454814 Score: 114
Period size: 47 Copynumber: 2.1 Consensus size: 48
1454706 TAATATTCTA
* *
1454716 TTTTTGTTTTTATTTATTTATATAT-AT-TATATTTTTACTTTAT-TTTG
1 TTTTT-TTATTATTTATTTA-ATATCATGTATATCTTTACTTTATATTTG
* * *
1454763 TTTTTTTATTATTTTTTTAATATCATGTATATCTTTATTTTTTATTTG
1 TTTTTTTATTATTTATTTAATATCATGTATATCTTTACTTTATATTTG
1454811 TTTT
1 TTTT
1454815 ACTTAGTATT
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
45 4 0.09
46 14 0.32
47 18 0.41
48 8 0.18
ACGTcount: A:0.20, C:0.03, G:0.04, T:0.73
Consensus pattern (48 bp):
TTTTTTTATTATTTATTTAATATCATGTATATCTTTACTTTATATTTG
Found at i:1455000 original size:9 final size:9
Alignment explanation
Indices: 1454961--1455001 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
1454951 TTTTTTAACA
1454961 TTTTATTCAT
1 TTTTATT-AT
1454971 TTTGT-TTAT
1 TTT-TATTAT
1454980 TTTTATT-T
1 TTTTATTAT
1454988 TTTTATTAT
1 TTTTATTAT
1454997 TTTTA
1 TTTTA
1455002 CGTGTTTTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
8 9 0.32
9 13 0.46
10 5 0.18
11 1 0.04
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.78
Consensus pattern (9 bp):
TTTTATTAT
Found at i:1456443 original size:421 final size:419
Alignment explanation
Indices: 1455658--1456648 Score: 1326
Period size: 423 Copynumber: 2.4 Consensus size: 419
1455648 TACCTAAGAA
* ** * *
1455658 ACATTTATCGATACATGACAATATAAAATGTTGAAAATTGAGAAAACCAGTTTCAATATGCCAAT
1 ACATGTATCGATACATGACAATATAAAGGGTTGAAAATTGATAAAACCAGTTTCAATATGACAA-
* * * * *
1455723 ACCA-GTAAAGAGATACTGATTTACAAAAAAACAAAACGTCTCGAAAGTATCGATACC-T-TAAA
65 AACAGGT-AA-AGATACCGGTTTACAAAAAAACGAAACGTCTCGAAAGTATCGATACCATACAAA
1455785 AAA-TATCGATACTTAAGTAAGGGTAATGGTATCGATTAAATATAAATAACTTAACAGGTTCAAA
128 AAAGTATCGATACTTAAGTAAGGGTAATGGTATCGATTAAATATAAATAACTTAACAGGTTCAAA
* * * *
1455849 ATTGAAAAAGTCGTTTCCATAATTGCGCCTATAAGTATCGATACACGTACGCGAAGTATTGATTC
193 ATTGAAAAAGCCGTTTCCATAATTGCACCTATAAGTATCGATACACGTAAGAGAAGTATTGATTC
* ** * * *
1455914 GTAGAACTTCGAAACGGATTACTTTAAATTAATAGGTAAATTTACAATATAAGCGGTAAAAACAT
258 GTAAAACTTCGAAACAAATTACTTTAAAGTAATAGGTAAATTTACAATATAACCAGTAAAAACAT
* ** *
1455979 ACCAGTTTAATGATAAAATACTTTAACATAAAGTATCGATACTTTTTGTCTTGTATGCTTCCAAA
323 ACCAGTTTAATGACAAAATACTTTAACATAAAGTATCGATACTTTTTGTC--CAATACTTCCAAA
* * *
1456044 ACTAGATGCATGC-TAAAGT-GCTGATAC-CA-AC
386 ACTAGATGCATGCAGAAAGTATC-GATACAAATAC
* * *
1456075 ACATGTATCGATACATGACAATATAACGGGTTGAAAATTGATAAAACCGGTTTTAATATGACAAA
1 ACATGTATCGATACATGACAATATAAAGGGTTGAAAATTGATAAAACCAGTTTCAATATGACAAA
*
1456140 ACAGGT-AAGATACCGGTTTACAAAAAAAAAAACGAAACGTCTCAAAAGTATCGATACCATACAA
66 ACAGGTAAAGATACCGGTTTAC----AAAAAAACGAAACGTCTCGAAAGTATCGATACCATACAA
1456204 AAAAGTATCGATACTTAAGTAAGGGTAATGGTATCGATTAAATATAAATAACTTAACAGGTTCAA
127 AAAAGTATCGATACTTAAGTAAGGGTAATGGTATCGATTAAATATAAATAACTTAACAGGTTCAA
*
1456269 AATTGGCAAAA-CCGGTTTCCATAATTGCACCTATAAAGTATCGATACACGTAAGAGAAGTATTG
192 AATT-GAAAAAGCC-GTTTCCATAATTGCACCTAT-AAGTATCGATACACGTAAGAGAAGTATTG
* * *
1456333 ATTCTTAAAACTTTGAAACAAATTACTTTAAAGTAATAGGTAAATTTACAATGTAACCAGT-AAA
254 ATTCGTAAAACTTCGAAACAAATTACTTTAAAGTAATAGGTAAATTTACAATATAACCAGTAAAA
*
1456397 ATATACC-GATTTAATGACAAAATAC-TTAACATAAAGTATCGATACTTTTTGTCCAATACTTCC
319 ACATACCAG-TTTAATGACAAAATACTTTAACATAAAGTATCGATACTTTTTGTCCAATACTTCC
*
1456460 CAAACTAGATGCATGCAGAAAGTATCGATACATAATAC
383 AAAACTAGATGCATGCAGAAAGTATCGATACA-AATAC
* * *
1456498 ACATGTATCGATACATGGCAATATAATAGGG-TGAAAATTGATAAAATCAATTTCAATATGACAA
1 ACATGTATCGATACATGACAATATAA-AGGGTTGAAAATTGATAAAACCAGTTTCAATATGACAA
* *
1456562 AACAGGTAAAAAGATACCGGTTTACACAAAAACGAAACGACTCGAAAGTATCGATACCATACAAA
65 AACAGGT--AAAGATACCGGTTTACAAAAAAACGAAACGTCTCGAAAGTATCGATACCATACAAA
* *
1456627 AAAGTATCAATACTTCAGTAAG
128 AAAGTATCGATACTTAAGTAAG
1456649 AGTATTCAAT
Statistics
Matches: 505, Mismatches: 48, Indels: 37
0.86 0.08 0.06
Matches are distributed among these distances:
414 12 0.02
415 1 0.00
416 3 0.01
417 58 0.11
418 31 0.06
419 23 0.05
420 16 0.03
421 95 0.19
422 106 0.21
423 142 0.28
424 3 0.01
426 15 0.03
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.27
Consensus pattern (419 bp):
ACATGTATCGATACATGACAATATAAAGGGTTGAAAATTGATAAAACCAGTTTCAATATGACAAA
ACAGGTAAAGATACCGGTTTACAAAAAAACGAAACGTCTCGAAAGTATCGATACCATACAAAAAA
GTATCGATACTTAAGTAAGGGTAATGGTATCGATTAAATATAAATAACTTAACAGGTTCAAAATT
GAAAAAGCCGTTTCCATAATTGCACCTATAAGTATCGATACACGTAAGAGAAGTATTGATTCGTA
AAACTTCGAAACAAATTACTTTAAAGTAATAGGTAAATTTACAATATAACCAGTAAAAACATACC
AGTTTAATGACAAAATACTTTAACATAAAGTATCGATACTTTTTGTCCAATACTTCCAAAACTAG
ATGCATGCAGAAAGTATCGATACAAATAC
Found at i:1459594 original size:108 final size:107
Alignment explanation
Indices: 1459260--1459619 Score: 341
Period size: 108 Copynumber: 3.3 Consensus size: 107
1459250 TAACCGGTTA
* *
1459260 TGTTATCGTCGGATTTCTAAGGCTCCATCAGCTTACACTTTGGTAACATTTTAGGCGTTACCTAA
1 TGTTATCATCGGATTTCTAAGGCTCCATCAGCTTAAACTTTGGTAACATTTTAGGCGTTACCTAA
* * *
1459325 TATGTTGATAATATTGATAATAATTAAGTAATTAACATATTT
66 TATGTTGATAATAATAATAATAATTAAGTAATTAACTTATTT
* * * * * * *
1459367 TGTTATCATCAGATTTCTAAGG--CCATCAACTTTAATAATGTGCTACCTATTACGTTCATAAGC
1 TGTTATCATCGGATTTCTAAGGCTCCATCAGC-TTAA-ACTTTGGTAAC-A-T---TT--TAGGC
* * ** ** ** * * *
1459430 GCTACCTAATATGTT-ATTATGGTTGTTAATGTTTCCAGTAATTAACTGATTA
57 GTTACCTAATATGTTGATAAT-AATAATAATAATT-AAGTAATTAACTTATTT
1459482 TGTTATCATCGGATTTCTAAGGCTCCATCAGCTTAAACTTTGGTAACATTTTAGGCGTTACCTAA
1 TGTTATCATCGGATTTCTAAGGCTCCATCAGCTTAAACTTTGGTAACATTTTAGGCGTTACCTAA
*
1459547 TATGTTGATAATAATAATAAAAAATTAAGTAATTAACTTATTT
66 TATGTTGATAATAATAAT-AATAATTAAGTAATTAACTTATTT
* *
1459590 TGTTATCGTCGGATTT-TCAAAGCTCCATCA
1 TGTTATCATCGGATTTCT-AAGGCTCCATCA
1459620 ACTTTAAAAA
Statistics
Matches: 197, Mismatches: 40, Indels: 31
0.74 0.15 0.12
Matches are distributed among these distances:
105 7 0.04
106 3 0.02
107 28 0.14
108 61 0.31
109 9 0.05
110 2 0.01
112 2 0.01
113 5 0.03
114 28 0.14
115 41 0.21
116 4 0.02
117 7 0.04
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.39
Consensus pattern (107 bp):
TGTTATCATCGGATTTCTAAGGCTCCATCAGCTTAAACTTTGGTAACATTTTAGGCGTTACCTAA
TATGTTGATAATAATAATAATAATTAAGTAATTAACTTATTT
Found at i:1459711 original size:225 final size:224
Alignment explanation
Indices: 1459105--1459713 Score: 857
Period size: 222 Copynumber: 2.7 Consensus size: 224
1459095 CATTTTAGGC
* * * * * *
1459105 GATAATACTGATAACAAATTAATTAATTAACCTATTTTGTTATTATCAGATTTCTAAAGCCCCTT
1 GATAATAATGATAAAAAATTAAGTAATTAACATATTTTGTTATCATCAGATTTC-AAAGCCCCAT
** * *
1459170 CCGCTTTAATAATGTGTTACCTATTACGTTACATATGCGCTACCTAATATGTTATTATGGTTGAT
65 CAACTTTAATAATGTGCTACCTATTACGTTACATAAGCGCTACCTAATATGTTATTATGGTTGAT
* *
1459235 AATGTTTCCAGTAATTAACCGGTTATGTTATCGTCGGATTTCTAAGGCTCCATCAGCTTACACTT
130 AATGTTTCCAGTAATTAA-CGGTTATGTTATCATCGGATTTCTAAGGCTCCATCAGCTTAAACTT
1459300 TGGTAACATTTTAGGCGTTACCTAATATGTT
194 TGGTAACATTTTAGGCGTTACCTAATATGTT
* * * *
1459331 GATAATATTGAT-AATAATTAAGTAATTAACATATTTTGTTATCATCAGATTTCTAAG-GCCATC
1 GATAATAATGATAAAAAATTAAGTAATTAACATATTTTGTTATCATCAGATTTCAAAGCCCCATC
*
1459394 AACTTTAATAATGTGCTACCTATTACGTT-CATAAGCGCTACCTAATATGTTATTATGGTTGTTA
66 AACTTTAATAATGTGCTACCTATTACGTTACATAAGCGCTACCTAATATGTTATTATGGTTGATA
*
1459458 ATGTTTCCAGTAATTAACTGATTATGTTATCATCGGATTTCTAAGGCTCCATCAGCTTAAACTTT
131 ATGTTTCCAGTAATTAAC-GGTTATGTTATCATCGGATTTCTAAGGCTCCATCAGCTTAAACTTT
1459523 GGTAACATTTTAGGCGTTACCTAATATGTT
195 GGTAACATTTTAGGCGTTACCTAATATGTT
* * * * *
1459553 GATAATAATAATAAAAAATTAAGTAATTAACTTATTTTGTTATCGTCGGATTTTCAAAGCTCCAT
1 GATAATAATGATAAAAAATTAAGTAATTAACATATTTTGTTATCATCAGA-TTTCAAAGCCCCAT
* * * * * * * *
1459618 CAACTTTAAAAAGGCGGTACCTA-TACATTATATAAGCGCTACCTAATATGTTATTATGCTTAAT
65 CAACTTTAATAATGTGCTACCTATTACGTTACATAAGCGCTACCTAATATGTTATTATGGTTGAT
*
1459682 AATATTTCCAGTAATTAATCGGTTATGTTATC
130 AATGTTTCCAGTAATTAA-CGGTTATGTTATC
1459714 GTCTATAGTT
Statistics
Matches: 341, Mismatches: 36, Indels: 13
0.87 0.09 0.03
Matches are distributed among these distances:
221 1 0.00
222 133 0.39
223 63 0.18
224 15 0.04
225 117 0.34
226 12 0.04
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.39
Consensus pattern (224 bp):
GATAATAATGATAAAAAATTAAGTAATTAACATATTTTGTTATCATCAGATTTCAAAGCCCCATC
AACTTTAATAATGTGCTACCTATTACGTTACATAAGCGCTACCTAATATGTTATTATGGTTGATA
ATGTTTCCAGTAATTAACGGTTATGTTATCATCGGATTTCTAAGGCTCCATCAGCTTAAACTTTG
GTAACATTTTAGGCGTTACCTAATATGTT
Found at i:1461187 original size:14 final size:15
Alignment explanation
Indices: 1461155--1461193 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
1461145 GTAGTAGAGC
1461155 TTTTTAAACTCGTAT
1 TTTTTAAACTCGTAT
1461170 TTTTTAAACTCGTAT
1 TTTTTAAACTCGTAT
*
1461185 TTTTAAAAC
1 TTTTTAAAC
1461194 CATCGTATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.31, C:0.13, G:0.05, T:0.51
Consensus pattern (15 bp):
TTTTTAAACTCGTAT
Found at i:1464021 original size:13 final size:13
Alignment explanation
Indices: 1464005--1464041 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
1463995 GTCAACGGGT
1464005 CGGGTCGGGTCAA
1 CGGGTCGGGTCAA
*
1464018 CGGGTCGGGTAAA
1 CGGGTCGGGTCAA
1464031 CGGGTCGGGTC
1 CGGGTCGGGTC
1464042 GGGTTATAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.14, C:0.22, G:0.49, T:0.16
Consensus pattern (13 bp):
CGGGTCGGGTCAA
Found at i:1468987 original size:18 final size:18
Alignment explanation
Indices: 1468966--1469001 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
1468956 TCGGTCAACG
1468966 GGTCAACGAGTCGGGTCA
1 GGTCAACGAGTCGGGTCA
*
1468984 GGTCAACGATTCGGGTCA
1 GGTCAACGAGTCGGGTCA
1469002 ACGGGTCTGG
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:0.22, C:0.22, G:0.36, T:0.19
Consensus pattern (18 bp):
GGTCAACGAGTCGGGTCA
Found at i:1468990 original size:26 final size:26
Alignment explanation
Indices: 1468958--1469027 Score: 68
Period size: 31 Copynumber: 2.5 Consensus size: 26
1468948 GGTCAATATC
1468958 GGTCAACGGGTCAACGAGTCGGGTCA
1 GGTCAACGGGTCAACGAGTCGGGTCA
* *
1468984 GGTCAACGATTCGGGTCAACGGGTCTGGTCA
1 GGTC-A--A--CGGGTCAACGAGTCGGGTCA
*
1469015 GGTAAACGGGTCA
1 GGTCAACGGGTCA
1469028 GGTAAACGTG
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
26 11 0.31
27 1 0.03
28 1 0.03
29 1 0.03
30 1 0.03
31 21 0.58
ACGTcount: A:0.23, C:0.21, G:0.37, T:0.19
Consensus pattern (26 bp):
GGTCAACGGGTCAACGAGTCGGGTCA
Found at i:1468999 original size:31 final size:31
Alignment explanation
Indices: 1468964--1469022 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
1468954 TATCGGTCAA
*
1468964 CGGGTCAACGAGTCGGGTCAGGTCAACGATT
1 CGGGTCAACGAGTCGGGTCAGGTAAACGATT
* *
1468995 CGGGTCAACGGGTCTGGTCAGGTAAACG
1 CGGGTCAACGAGTCGGGTCAGGTAAACG
1469023 GGTCAGGTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.22, C:0.22, G:0.37, T:0.19
Consensus pattern (31 bp):
CGGGTCAACGAGTCGGGTCAGGTAAACGATT
Found at i:1469026 original size:13 final size:13
Alignment explanation
Indices: 1469010--1469035 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1469000 CAACGGGTCT
1469010 GGTCAGGTAAACG
1 GGTCAGGTAAACG
1469023 GGTCAGGTAAACG
1 GGTCAGGTAAACG
1469036 TGTCGGGTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.38, T:0.15
Consensus pattern (13 bp):
GGTCAGGTAAACG
Found at i:1469174 original size:10 final size:11
Alignment explanation
Indices: 1469148--1469172 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1469138 CCAATGTCGG
1469148 AAAATTCCTAA
1 AAAATTCCTAA
1469159 AAAATTCCTAA
1 AAAATTCCTAA
1469170 AAA
1 AAA
1469173 TTATTTTAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.60, C:0.16, G:0.00, T:0.24
Consensus pattern (11 bp):
AAAATTCCTAA
Found at i:1470271 original size:182 final size:181
Alignment explanation
Indices: 1469810--1470343 Score: 798
Period size: 181 Copynumber: 2.9 Consensus size: 181
1469800 TTAGGATGTT
*
1469810 ACATTGTGAATTTAAAGGAGAAGCAATTTTAGCACCTATAAAGTGTCGATTCTTTATAAATATGT
1 ACATTGTGAATTTAAAGGAGAAGCAGTTTTAGC-CCTATAAAGTGTCGATTCTTTATAAATATGT
* * **
1469875 ATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACTGGTCAGGAAAAGACAAAACCGGT
65 ATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACAGGTCTCGAAAAGACAAAACCGGT
* * * * *
1469940 AAAGAGATATCGGATATTTTACAAGTGTCGATACTTTAATATAAGTATCGAC
130 AAAGCGCTACCGGATATATTAAAAGTGTCGATACTTTAATATAAGTATCGAC
* * * *
1469992 ACATTATGAATATAAAGGAGAATCAGTTTTAGCACTATAAAGTGTCGATTCTTTATAAATATGTA
1 ACATTGTGAATTTAAAGGAGAAGCAGTTTTAGCCCTATAAAGTGTCGATTCTTTATAAATATGTA
1470057 TCGATCCACAACGATATAACAGGTAAAAATATGATAAAACAGGTCTCGAAAAGACAAAACCGGTA
66 TCGATCCACAACGATATAACAGGTAAAAATATGATAAAACAGGTCTCGAAAAGACAAAACCGGTA
* * * * *
1470122 AAGCGCTACCTGATATATTGAGAGTGTCAATAATTTAATATAAGTATCGAC
131 AAGCGCTACCGGATATATTAAAAGTGTCGATACTTTAATATAAGTATCGAC
* * * *
1470173 ACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATACTTTATAAAAATGT
1 ACATTGTGAATTTAAAGGAGAAGCAGTTTTAGC-CCTATAAAGTGTCGATTCTTTATAAATATGT
* * * * *
1470238 ATCGATCCATAACGATATAACATGTAAAAATATGATAAAACCGGTCTCTAAATGACAAAACCGGT
65 ATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACAGGTCTCGAAAAGACAAAACCGGT
1470303 AAAGCGCTACCGGATATATTAAAAGTGTCGATACTTTAATA
130 AAAGCGCTACCGGATATATTAAAAGTGTCGATACTTTAATA
1470344 AGTACGCATA
Statistics
Matches: 314, Mismatches: 37, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
181 161 0.51
182 153 0.49
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (181 bp):
ACATTGTGAATTTAAAGGAGAAGCAGTTTTAGCCCTATAAAGTGTCGATTCTTTATAAATATGTA
TCGATCCACAACGATATAACAGGTAAAAATATGATAAAACAGGTCTCGAAAAGACAAAACCGGTA
AAGCGCTACCGGATATATTAAAAGTGTCGATACTTTAATATAAGTATCGAC
Found at i:1472730 original size:21 final size:21
Alignment explanation
Indices: 1472706--1472749 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
1472696 AAGACAATCA
*
1472706 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCAAAGAGAAACTTGAG
*
1472727 AGAGTCAAAGAGAAACTTTAG
1 AGAGTCAAAGAGAAACTTGAG
1472748 AG
1 AG
1472750 GTATAATGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.45, C:0.09, G:0.30, T:0.16
Consensus pattern (21 bp):
AGAGTCAAAGAGAAACTTGAG
Found at i:1473025 original size:18 final size:18
Alignment explanation
Indices: 1473002--1473090 Score: 119
Period size: 18 Copynumber: 5.1 Consensus size: 18
1472992 AAAAATATTT
1473002 AGAAGAAAAGAGGGAGGA
1 AGAAGAAAAGAGGGAGGA
*
1473020 AGAAG-AAAGAGAGAGGA
1 AGAAGAAAAGAGGGAGGA
* *
1473037 ATAA-AAAAGAGGGAGAA
1 AGAAGAAAAGAGGGAGGA
*
1473054 AGAAAAAAAGAGGGAGGA
1 AGAAGAAAAGAGGGAGGA
*
1473072 AGAAGAAAAGATGGAGGA
1 AGAAGAAAAGAGGGAGGA
1473090 A
1 A
1473091 ATGAGGAGGA
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
17 27 0.44
18 34 0.56
ACGTcount: A:0.60, C:0.00, G:0.38, T:0.02
Consensus pattern (18 bp):
AGAAGAAAAGAGGGAGGA
Found at i:1474685 original size:19 final size:19
Alignment explanation
Indices: 1474640--1474688 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
1474630 AATGTAGAGT
*
1474640 TAATTTTATATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
1474659 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
1474678 TAATTTTGTAT
1 TAATTTTGTAT
1474689 GTGGATGTAA
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:0.35, C:0.02, G:0.08, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:1475450 original size:200 final size:200
Alignment explanation
Indices: 1474953--1476470 Score: 2028
Period size: 200 Copynumber: 7.7 Consensus size: 200
1474943 GTAAGCATAT
* * *
1474953 GTGTCGATACATTTATAAAACGTGTTGATCCCAAAAACATCGAAACAGATAATAATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTGTCGATCCCAAAAACATCGAAACAGATAATTATAATGTAATA
* *
1475018 TGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGTGAGAATAGGTCTACATAATGT
66 GGTAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGTGAGAATAGGTCTACATAATGT
* *
1475083 ATCGACACTTTTTTATTTTGTGTCAATACTTTTTGTCCATAATGAATGCC-AAAATGATGAACGA
131 ATCGACACTTTTTTATTTTGTGTCGATACTTTTTGTCCATGATGAATGCCAAAAATGATGAACGA
1475147 ATAAA
196 ATAAA
* ** * **
1475152 GTGTCGATACATATATAAAAAGTGTCGATCCCAAAAACATTTAAACATATAATTATAGCGTAATA
1 GTGTCGATACATTTATAAAAAGTGTCGATCCCAAAAACATCGAAACAGATAATTATAATGTAATA
*
1475217 GGTAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGTGAGAATAAGTCTACATAATGT
66 GGTAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGTGAGAATAGGTCTACATAATGT
* *
1475282 ATCGACACTTTTTTATTTTGTGTCGATATTTTTTGTCCATGATGAATGCCAAAAATGATGAATGA
131 ATCGACACTTTTTTATTTTGTGTCGATACTTTTTGTCCATGATGAATGCCAAAAATGATGAACGA
1475347 ATAAA
196 ATAAA
* * *
1475352 GTGTCGATACATATATAAAAAGTGTCGATCCTAAAAATATCGAAACAGATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTGTCGATCCCAAAAACATCGAAACAGATAATTATAATGTAATA
* *
1475417 GGTAATTTTGTAATATAACCAGTATAAATATACC-AGTTTTATATGAGAATAGGTCTACATAATG
66 GGTAATTTTGTAATATAACCGGTATAAATATACCGA-TTTTATGTGAGAATAGGTCTACATAATG
* *
1475481 TATCGACACTTTTTTATTTTGTGTCGATACTTTTTGTTCATAATGAATGCCAAAAATGATGAACG
130 TATCGACACTTTTTTATTTTGTGTCGATACTTTTTGTCCATGATGAATGCCAAAAATGATGAACG
*
1475546 AATGAA
195 AATAAA
* *
1475552 GTGTCGATACATATATAAAAAGTGTCGATCCCAAAAACATCGAAACAGATAATTATAATATAATA
1 GTGTCGATACATTTATAAAAAGTGTCGATCCCAAAAACATCGAAACAGATAATTATAATGTAATA
*
1475617 GGTAATTTTGTAATATAACCGGTATAAATATATC-AGTTTTATGTGAGAATAGGTCTACATAATG
66 GGTAATTTTGTAATATAACCGGTATAAATATACCGA-TTTTATGTGAGAATAGGTCTACATAATG
* *
1475681 TATCAACACTTTTTTATTTTGTGTCGATACTTTTTGTCCA-GAATTAATGCCAAAAATGATGAAC
130 TATCGACACTTTTTTATTTTGTGTCGATACTTTTTGTCCATG-ATGAATGCCAAAAATGATGAAC
1475745 GAATAAA
194 GAATAAA
** *
1475752 GTGTCGATACATTTATAAAAAGTGTCGATCTGAAAAACATCGAAACAAATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTGTCGATCCCAAAAACATCGAAACAGATAATTATAATGTAATA
* *
1475817 GGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGTAAGAATAGGTCTACATAATGT
66 GGTAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGTGAGAATAGGTCTACATAATGT
* *
1475882 ATCGACACTTTTTTATTTTGTGTCGTTACTTTTTGTCCA-GAATGAATGCCAAAAAGGATGAACG
131 ATCGACACTTTTTTATTTTGTGTCGATACTTTTTGTCCATG-ATGAATGCCAAAAATGATGAACG
1475946 AATAAA
195 AATAAA
* * *
1475952 GTGTCGATACATTTATAAAAAGTGTCGATCCCAAAAACATCAAAACAAATAATTATAATATAATA
1 GTGTCGATACATTTATAAAAAGTGTCGATCCCAAAAACATCGAAACAGATAATTATAATGTAATA
* * *
1476017 GGTAATTTTGTAATATATACCGGT-T---T-T----A---TA--TAAGAATATGTCTACATAATA
66 GGTAATTTTGTAATATA-ACCGGTATAAATATACCGATTTTATGTGAGAATAGGTCTACATAATG
* *
1476068 TATCGACACTTTTTTATTTTGTATCGATACTTTTTGTCCATAATGAATGCCAAAAATGATGAACG
130 TATCGACACTTTTTTATTTTGTGTCGATACTTTTTGTCCATGATGAATGCCAAAAATGATGAACG
1476133 AATAAA
195 AATAAA
* * * * ** *
1476139 GTGTCGATACATTTATAAAAAGTATCGATACCAGAAACATTGAAACCCATAAATATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTGTCGATCCCAAAAACATCGAAACAGATAATTATAATGTAATA
* ** * * * * * *
1476204 GGTAAATTTACAATGTAACTGGTATAACA-ATACTGGTTTTATGAGAGAATAAGTCTACA-ACAT
66 GGTAATTTTGTAATATAACCGGTATAA-ATATACCGATTTTATGTGAGAATAGGTCTACATA-AT
* * ** * * * *
1476267 GTATCAACACTTGTGGAATTTGTGTCGATACTTTTTGTCCA-GAAGGAAAT-CC-AAAA-GTTGC
129 GTATCGACACTTTTTTATTTTGTGTCGATACTTTTTGTCCATG-ATG-AATGCCAAAAATGATGA
1476328 ACGAATAAA
192 ACGAATAAA
* * * * *
1476337 GTGTCGATACATTTTTAAAAAGTTTCGATCCTAATAACATCGAAACCGATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTGTCGATCCCAAAAACATCGAAACAGATAATTATAATGTAATA
* * ** * * * *
1476402 AGTAAATTTCCAATGTAACCGGTATAAATATATCGATTTTATGAGA-AATAGGTC-ATCATAAAG
66 GGTAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGTGAGAATAGGTCTA-CATAATG
1476465 TATCGA
130 TATCGA
1476471 TAATTGTTAA
Statistics
Matches: 1180, Mismatches: 112, Indels: 56
0.88 0.08 0.04
Matches are distributed among these distances:
186 5 0.00
187 155 0.13
189 2 0.00
191 1 0.00
196 2 0.00
197 18 0.02
198 109 0.09
199 171 0.14
200 708 0.60
201 9 0.01
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.34
Consensus pattern (200 bp):
GTGTCGATACATTTATAAAAAGTGTCGATCCCAAAAACATCGAAACAGATAATTATAATGTAATA
GGTAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGTGAGAATAGGTCTACATAATGT
ATCGACACTTTTTTATTTTGTGTCGATACTTTTTGTCCATGATGAATGCCAAAAATGATGAACGA
ATAAA
Found at i:1476444 original size:198 final size:199
Alignment explanation
Indices: 1476085--1476451 Score: 505
Period size: 198 Copynumber: 1.8 Consensus size: 199
1476075 ACTTTTTTAT
* *
1476085 TTTGTATCGATACTTTTTGTCCATAATGAATGCCAAAAATGATGAACGAATAAAGTGTCGATACA
1 TTTGTATCGATACTTTTTGTCCAGAAGGAATGCCAAAAATGATGAACGAATAAAGTGTCGATACA
* *
1476150 TTTATAAAAAGTATCGATACCAGAAACATTGAAACCCATAAATATAATGTAATAGGTAAATTTAC
66 TTTATAAAAAGTATCGATACCAGAAACATCGAAACCCATAAATATAATGTAATAAGTAAATTTAC
* *
1476215 AATGTAACTGGTATAACAATACTGGTTTTATGAGAGAATAAGTCTACAACATGTATCAACACTTG
131 AATGTAACCGGTATAACAATACTGATTTTATGAGA-AATAAGTCTACAACATGTATCAACACTTG
1476280 TGGAA
195 TGGAA
* * *
1476285 TTTGTGTCGATACTTTTTGTCCAGAAGGAAAT-CC-AAAA-GTTGCACGAATAAAGTGTCGATAC
1 TTTGTATCGATACTTTTTGTCCAGAAGG-AATGCCAAAAATGATGAACGAATAAAGTGTCGATAC
* * * *
1476347 ATTTTTAAAAAGTTTCGAT-CCTA-ATAACATCGAAACCGATAATTATAATGTAATAAGTAAATT
65 ATTTATAAAAAGTATCGATACC-AGA-AACATCGAAACCCATAAATATAATGTAATAAGTAAATT
*
1476410 TCCAATGTAACCGGTATAA-ATATA-TCGATTTTATGAGAAATA
128 TACAATGTAACCGGTATAACA-ATACT-GATTTTATGAGAAATA
1476452 GGTCATCATA
Statistics
Matches: 148, Mismatches: 14, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
197 9 0.06
198 105 0.71
199 4 0.03
200 27 0.18
201 3 0.02
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.32
Consensus pattern (199 bp):
TTTGTATCGATACTTTTTGTCCAGAAGGAATGCCAAAAATGATGAACGAATAAAGTGTCGATACA
TTTATAAAAAGTATCGATACCAGAAACATCGAAACCCATAAATATAATGTAATAAGTAAATTTAC
AATGTAACCGGTATAACAATACTGATTTTATGAGAAATAAGTCTACAACATGTATCAACACTTGT
GGAA
Found at i:1478000 original size:6 final size:6
Alignment explanation
Indices: 1477985--1478030 Score: 56
Period size: 6 Copynumber: 7.7 Consensus size: 6
1477975 CAAGAGGTCA
* * * *
1477985 ATGAAT ATGAAG ATGACG ATGAAG ATGAAG ATGATG ATGATG ATGA
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGA
1478031 TTATGATGAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.43, C:0.02, G:0.30, T:0.24
Consensus pattern (6 bp):
ATGAAG
Found at i:1478006 original size:18 final size:18
Alignment explanation
Indices: 1477985--1478030 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
1477975 CAAGAGGTCA
*
1477985 ATGAATATGAAGATGACG
1 ATGAAGATGAAGATGACG
*
1478003 ATGAAGATGAAGATGATG
1 ATGAAGATGAAGATGACG
*
1478021 ATGATGATGA
1 ATGAAGATGA
1478031 TTATGATGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.43, C:0.02, G:0.30, T:0.24
Consensus pattern (18 bp):
ATGAAGATGAAGATGACG
Found at i:1478031 original size:6 final size:6
Alignment explanation
Indices: 1477991--1478040 Score: 55
Period size: 6 Copynumber: 8.3 Consensus size: 6
1477981 GTCAATGAAT
* * * * *
1477991 ATGAAG ATGACG ATGAAG ATGAAG ATGATG ATGATG ATGATT ATGATG
1 ATGATG ATGATG ATGATG ATGATG ATGATG ATGATG ATGATG ATGATG
1478039 AT
1 AT
1478041 CCAAACAAGT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.40, C:0.02, G:0.30, T:0.28
Consensus pattern (6 bp):
ATGATG
Found at i:1479049 original size:25 final size:25
Alignment explanation
Indices: 1479021--1479073 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
1479011 TTGTGGGTAT
1479021 ATTATTTGAACATTGTTATGTATAA
1 ATTATTTGAACATTGTTATGTATAA
*
1479046 ATTATTTGAACTTTGTTATGTATAA
1 ATTATTTGAACATTGTTATGTATAA
1479071 ATT
1 ATT
1479074 TCTTGTGTAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.34, C:0.04, G:0.11, T:0.51
Consensus pattern (25 bp):
ATTATTTGAACATTGTTATGTATAA
Found at i:1479351 original size:15 final size:15
Alignment explanation
Indices: 1479331--1479384 Score: 81
Period size: 15 Copynumber: 3.6 Consensus size: 15
1479321 TCTCCACAAC
* * *
1479331 AAAGTTTTCATACAT
1 AAAGTTTCCAAACTT
1479346 AAAGTTTCCAAACTT
1 AAAGTTTCCAAACTT
1479361 AAAGTTTCCAAACTT
1 AAAGTTTCCAAACTT
1479376 AAAGTTTCC
1 AAAGTTTCC
1479385 CATAAAGTGT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 36 1.00
ACGTcount: A:0.39, C:0.19, G:0.07, T:0.35
Consensus pattern (15 bp):
AAAGTTTCCAAACTT
Found at i:1479355 original size:29 final size:29
Alignment explanation
Indices: 1479323--1479384 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 29
1479313 TTCTATAATC
* *
1479323 TCCACAAC-AAAGTTTTCATACATAAAGTT
1 TCCA-AACTAAAGTTTCCAAACATAAAGTT
*
1479352 TCCAAACTTAAAGTTTCCAAACTTAAAGTT
1 TCCAAAC-TAAAGTTTCCAAACATAAAGTT
1479382 TCC
1 TCC
1479385 CATAAAGTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 3 0.11
29 4 0.14
30 21 0.75
ACGTcount: A:0.39, C:0.23, G:0.06, T:0.32
Consensus pattern (29 bp):
TCCAAACTAAAGTTTCCAAACATAAAGTT
Found at i:1479727 original size:199 final size:197
Alignment explanation
Indices: 1479385--1480549 Score: 1262
Period size: 199 Copynumber: 5.8 Consensus size: 197
1479375 TAAAGTTTCC
* * * * *
1479385 CATAAAGTGTCGATACAGTTT-TAAAATGTATCGATCCCAGAAACATCGAAATCAATAAATATAA
1 CATAAAGTGTCGATACA-TTTATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAA
* ** * * *
1479449 TGTAATAGGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGTGAGAATAGGTGTAC
65 TGTAATAGGTAAATTTACAATATAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTATAC
* * * * *
1479514 ATAATGTGTCGACACTTGTTAATGTTGTGTCAATATTTTTTGCCATAATGAATGCCCAAAAGGGT
130 ATAATGTATCGACACTT-TTAAT-TTGTGTCGATACTTTTGGCCACAATGAATGCCCAAAAGGGT
1479579 GAACG
193 GAACG
* *
1479584 CATAAAGTGTCGATACAATTATAAAAAGTATCGATCCCAAAAATATCGAAACCGATAATTATAAT
1 CATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAT
* * * * *
1479649 GTAATAGGTAAATTTACAATGTAACCGGTATAAATAAACTGGTTTTTTGAGAAAATAGATATACA
66 GTAATAGGTAAATTTACAATATAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTATACA
* * * ** *
1479714 TAATGTATCGACACTTGTAGAATTTGTGTTGATACTTTTGGTCCACAAGGAAAAT-CAAAAAATG
131 TAATGTATCGACACTT-T-TAATTTGTGTCGATACTTTTGG-CCACAATG--AATGCCCAAAAGG
* *
1479778 GTGCACC
191 GTGAACG
* * * * * * *
1479785 CATAAAGTGTCGATACATTTTTAAACAGTATTGATCCCAGAAACATCAAAATCGATAAATATAAT
1 CATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAT
* ** ** * * *
1479850 GTAATAGGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGTTAGAATAGTTCTACA
66 GTAATAGGTAAATTTACAATATAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTATACA
* * * * *
1479915 TAATGTGTCAACACTTTTGAATGTTGTGTCGATACTTTTTGCTAGAATGAATGCCCAAAAGGGTG
131 TAATGTATCGACACTTTT-AAT-TTGTGTCGATACTTTTGGCCACAATGAATGCCCAAAAGGGTG
1479980 AACG
194 AACG
1479984 CATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAT
1 CATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAT
* * * * * * *
1480049 GTAATAGGTAAATTTACAATGTCACCGGTCTAAATGTACCGATTTTTTGAGAAAATAAGTGA-AC
66 GTAATAGGTAAATTTACAATATAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGT-ATAC
* * *
1480113 ATAATGTATCGACGCGTTTTAGATTTGTGTCGATACTTTTGGTCCACAAGGAAAAT-CCAAAAAG
130 ATAATGTATCGACAC-TTTTA-ATTTGTGTCGATACTTTTGG-CCACAATG--AATGCCCAAAAG
** * *
1480177 ATTGCACC
190 GGTGAACG
* * * * *
1480185 CATAAAGTGTCGATATATTTTTAAACAGTATCGATCCCTAAAACATCGAAACCCATAATTATAAT
1 CATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAT
** * ** * *
1480250 GTAATAGGT-AATTTGTAATATAACCGGTATAAATATACCGATTTTATGTCATAATAGGTCTACA
66 GTAATAGGTAAATTTACAATATAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTATACA
* * * * * * * *
1480314 TAATTTGTCGACACTTTTAAATGATATGTCGTTACTTTTAGCTAGAATGAATGCCCAAAAGGGTG
131 TAATGTATCGACACTTTT-AAT-TTGTGTCGATACTTTTGGCCACAATGAATGCCCAAAAGGGTG
1480379 AACG
194 AACG
* * * **
1480383 CAGAAAGTGTCGATACATTTATAAAAAGTATCAATCCTAAAAACATAAAAACCGATAATTATAAT
1 CATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAT
* * *
1480448 GTAATAGGTAAATTTACAATGTAACCGGTATAAATGTACCGGTTTTATAAGAAAATAGGTGA-AC
66 GTAATAGGTAAATTTACAATATAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGT-ATAC
1480512 ATAATGTATCGACACGTTTTAGATTTGTGTCGATACTT
130 ATAATGTATCGACAC-TTTTA-ATTTGTGTCGATACTT
1480550 GTAAATAATG
Statistics
Matches: 788, Mismatches: 156, Indels: 44
0.80 0.16 0.04
Matches are distributed among these distances:
197 3 0.00
198 80 0.10
199 366 0.46
200 103 0.13
201 230 0.29
202 6 0.01
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (197 bp):
CATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAT
GTAATAGGTAAATTTACAATATAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTATACA
TAATGTATCGACACTTTTAATTTGTGTCGATACTTTTGGCCACAATGAATGCCCAAAAGGGTGAA
CG
Found at i:1480123 original size:400 final size:399
Alignment explanation
Indices: 1479383--1480549 Score: 1801
Period size: 400 Copynumber: 2.9 Consensus size: 399
1479373 CTTAAAGTTT
*
1479383 CCCATAAAGTGTCGATACAGTTTTAAA-ATGTATCGATCCCAGAAACATCGAAATCAATAAATAT
1 CCCATAAAGTGTCGATACATTTTTAAACA-GTATCGATCCCAGAAACATCGAAATCAATAAATAT
* *
1479447 AATGTAATAGGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGTGAGAATAGGTGT
65 AATGTAATAGGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGTCAGAATAGGTCT
* * * *
1479512 ACATAATGTGTCGACACTTGTTAATGTTGTGTCAATATTTTTTGCCATAATGAATGCCCAAAAGG
130 ACATAATGTGTCGACACTT-TTAATGTTGTGTCGATACTTTTTGCTAGAATGAATGCCCAAAAGG
* *
1479577 GTGAACGCATAAAGTGTCGATACAATTATAAAAAGTATCGATCCCAAAAATATCGAAACCGATAA
194 GTGAACGCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAA
** *
1479642 TTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATAAACTGGTTTTTTGAGAAAAT-A
259 TTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATGTACCGGTTTTTTGAGAAAATAA
* *
1479706 GAT-ATACATAATGTATCGACAC-TTGTAGAATTTGTGTTGATACTTTTGGTCCACAAGGAAAAT
324 G-TGA-ACATAATGTATCGACACGTTTTAG-ATTTGTGTCGATACTTTTGGTCCACAAGGAAAAT
1479769 -CAAAAA-ATGGTGCA
386 CCAAAAAGAT--TGCA
* * *
1479783 CCCATAAAGTGTCGATACATTTTTAAACAGTATTGATCCCAGAAACATCAAAATCGATAAATATA
1 CCCATAAAGTGTCGATACATTTTTAAACAGTATCGATCCCAGAAACATCGAAATCAATAAATATA
* *
1479848 ATGTAATAGGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGTTAGAATAGTTCTA
66 ATGTAATAGGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGTCAGAATAGGTCTA
*
1479913 CATAATGTGTCAACACTTTTGAATGTTGTGTCGATACTTTTTGCTAGAATGAATGCCCAAAAGGG
131 CATAATGTGTCGACACTTTT-AATGTTGTGTCGATACTTTTTGCTAGAATGAATGCCCAAAAGGG
1479978 TGAACGCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAAT
195 TGAACGCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAAT
* * *
1480043 TATAATGTAATAGGTAAATTTACAATGTCACCGGTCTAAATGTACCGATTTTTTGAGAAAATAAG
260 TATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATGTACCGGTTTTTTGAGAAAATAAG
*
1480108 TGAACATAATGTATCGACGCGTTTTAGATTTGTGTCGATACTTTTGGTCCACAAGGAAAATCCAA
325 TGAACATAATGTATCGACACGTTTTAGATTTGTGTCGATACTTTTGGTCCACAAGGAAAATCCAA
1480173 AAAGATTGCA
390 AAAGATTGCA
* * * *
1480183 CCCATAAAGTGTCGATATATTTTTAAACAGTATCGATCCCTA-AAACATCGAAACCCATAATTAT
1 CCCATAAAGTGTCGATACATTTTTAAACAGTATCGATCCC-AGAAACATCGAAATCAATAAATAT
* *
1480247 AATGTAATAGGTAA-TTTGTAATATAACCGGTATAAATATACCGATTTTATGTCATAATAGGTCT
65 AATGTAATAGGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGTCAGAATAGGTCT
* * * * *
1480311 ACATAATTTGTCGACACTTTTAAATGATATGTCGTTACTTTTAGCTAGAATGAATGCCCAAAAGG
130 ACATAATGTGTCGACACTTTT-AATGTTGTGTCGATACTTTTTGCTAGAATGAATGCCCAAAAGG
* * * **
1480376 GTGAACGCAGAAAGTGTCGATACATTTATAAAAAGTATCAATCCTAAAAACATAAAAACCGATAA
194 GTGAACGCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAA
* * *
1480441 TTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATGTACCGGTTTTATAAGAAAATAG
259 TTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATGTACCGGTTTTTTGAGAAAATAA
1480506 GTGAACATAATGTATCGACACGTTTTAGATTTGTGTCGATACTT
324 GTGAACATAATGTATCGACACGTTTTAGATTTGTGTCGATACTT
1480550 GTAAATAATG
Statistics
Matches: 707, Mismatches: 52, Indels: 17
0.91 0.07 0.02
Matches are distributed among these distances:
399 268 0.38
400 421 0.60
401 16 0.02
402 2 0.00
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (399 bp):
CCCATAAAGTGTCGATACATTTTTAAACAGTATCGATCCCAGAAACATCGAAATCAATAAATATA
ATGTAATAGGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGTCAGAATAGGTCTA
CATAATGTGTCGACACTTTTAATGTTGTGTCGATACTTTTTGCTAGAATGAATGCCCAAAAGGGT
GAACGCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATT
ATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATGTACCGGTTTTTTGAGAAAATAAGT
GAACATAATGTATCGACACGTTTTAGATTTGTGTCGATACTTTTGGTCCACAAGGAAAATCCAAA
AAGATTGCA
Found at i:1484327 original size:199 final size:197
Alignment explanation
Indices: 1483884--1484608 Score: 825
Period size: 199 Copynumber: 3.6 Consensus size: 197
1483874 ACCTAAATAT
* * * *
1483884 GTGTCGATGCATTT-TCTAAAAGTATCGACCCAAAAAACATCGAAACCAATAATTATAATGTAAT
1 GTGTCGATACATTTAT-AAAAAGTATCGATCCAAAAAACATCGAAACCGATAATTATAATGTAAT
* * * * * *
1483948 AGGTAAATTAACAATGTAACCGGTATAAATATACCGGTTAATTAGAAAACATGTCAACATAATGT
65 AGGTAAATTTACAATATAACCGGTATAAATATACCGGTTTATGAGAAAATAGGTCAACATAATGT
* * *
1484013 ATCGACACTTGTGTAATTTGTGTCGATACT-TATTGTCTATAATGAATGCCCAAACGTGGTGCAC
130 ATCGAAACTT-T-TAATTTGTGTCGATA-TATTTTGTCCATAATGAATGCCCAAACG-GGTGCAC
1484077 GCATAAA
191 GCATAAA
* * * *
1484084 GTGTCGATACAATTATTAAAAGTATCGATCCCAATAAA-ATCGAAACCGATAATTATAATGTAAC
1 GTGTCGATACATTTATAAAAAGTATCGAT-CCAAAAAACATCGAAACCGATAATTATAATGTAAT
* * * * *
1484148 ATGTAAATTTACAATATAACCAGTATAAATATATCGGTTTTATGAGAAAATAGGTCATCATAAAG
65 AGGTAAATTTACAATATAACCGGTATAAATATACCGG-TTTATGAGAAAATAGGTCAACATAATG
* *
1484213 TATCGAAACTTATTAAATTTGTGTCGATATATTTTGTCCATAATGAATG-CCAGACGGGTGCACT
129 TATCGAAACTT-TT-AATTTGTGTCGATATATTTTGTCCATAATGAATGCCCAAACGGGTGCACG
1484277 CATAAA
192 CATAAA
* *
1484283 GTGTCGATACATTTATAAAAAGTATCGATCCTAAAAACATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCAAAAAACATCGAAACCGATAATTATAATGTAATA
* ** ** * * *
1484348 GGTAATTTTGTAATATAACCGGTATATTTATACCGGTTTTATGTA-AGAATAGGTCTACAGAATG
66 GGTAAATTTACAATATAACCGGTATAAATATACCGG-TTTATG-AGAAAATAGGTCAACATAATG
* * * * * * *
1484412 TGTCGACACCTTTTAATGTTGTGT-TA-ATACTTTTTTCCAAAATGAATGCCCAAAAGGGTGAAC
129 TATCGA-AACTTTTAAT-TTGTGTCGATATA-TTTTGTCCATAATGAATGCCCAAACGGGTGCAC
*
1484475 GCATATA
191 GCATAAA
*
1484482 GTGTCGATACATTTATAAAAAGTATCGATCCAAAAAACATCGAAACCGATAATTATAATGCAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCAAAAAACATCGAAACCGATAATTATAATGTAATA
* ** * * *
1484547 GGTAAATTTGCAACGTTACCGGTATAAATATACCGGTTTACTTATAAAATAGGTCAACATAA
66 GGTAAATTTACAATATAACCGGTATAAATATACCGGTTTA-TGAGAAAATAGGTCAACATAA
1484609 GCGCTACCTA
Statistics
Matches: 446, Mismatches: 66, Indels: 27
0.83 0.12 0.05
Matches are distributed among these distances:
197 3 0.01
198 31 0.07
199 249 0.56
200 93 0.21
201 70 0.16
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.31
Consensus pattern (197 bp):
GTGTCGATACATTTATAAAAAGTATCGATCCAAAAAACATCGAAACCGATAATTATAATGTAATA
GGTAAATTTACAATATAACCGGTATAAATATACCGGTTTATGAGAAAATAGGTCAACATAATGTA
TCGAAACTTTTAATTTGTGTCGATATATTTTGTCCATAATGAATGCCCAAACGGGTGCACGCATA
AA
Found at i:1484701 original size:87 final size:87
Alignment explanation
Indices: 1484605--1484765 Score: 304
Period size: 87 Copynumber: 1.9 Consensus size: 87
1484595 ATAGGTCAAC
1484605 ATAAGCGCTACCTATTACATTATATAAACGTTACCTAATATGTTATTGTACTTGATAATATTTCC
1 ATAAGCGCTACCTATTACATTATATAAACGTTACCTAATATGTTATTGTACTTGATAATATTTCC
*
1484670 GGTTAAATACCTATTTTAGTAT
66 GATTAAATACCTATTTTAGTAT
*
1484692 ATAAGCGCTACCTATTACATTATATAAGCGTTACCTAATATGTTATTGTACTTGATAATATTTCC
1 ATAAGCGCTACCTATTACATTATATAAACGTTACCTAATATGTTATTGTACTTGATAATATTTCC
1484757 GATTAAATA
66 GATTAAATA
1484766 ATATAACATA
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
87 72 1.00
ACGTcount: A:0.34, C:0.15, G:0.11, T:0.40
Consensus pattern (87 bp):
ATAAGCGCTACCTATTACATTATATAAACGTTACCTAATATGTTATTGTACTTGATAATATTTCC
GATTAAATACCTATTTTAGTAT
Found at i:1484707 original size:23 final size:23
Alignment explanation
Indices: 1484677--1484728 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
1484667 TCCGGTTAAA
**
1484677 TACCTATTTTAGTATATAAGCGC
1 TACCTATTACAGTATATAAGCGC
* *
1484700 TACCTATTACATTATATAAGCGT
1 TACCTATTACAGTATATAAGCGC
1484723 TACCTA
1 TACCTA
1484729 ATATGTTATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.33, C:0.19, G:0.10, T:0.38
Consensus pattern (23 bp):
TACCTATTACAGTATATAAGCGC
Found at i:1489455 original size:215 final size:216
Alignment explanation
Indices: 1488764--1489679 Score: 1563
Period size: 216 Copynumber: 4.3 Consensus size: 216
1488754 ATTTAAGAAT
1488764 TAAATTGAACAAATATGAAATTACAAATTAAAATTTAAATAAATTAAACAACACACATTGATGAG
1 TAAATTGAACAAATATGAAATTACAAATTAAAATTTAAATAAATTAAACAACACACATTGATGAG
* * *
1488829 GGATCAAATCGAAATAATTTTAAATTATGATGTTGAAATTAATACAAAAAAGTAATAAATTATAC
66 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATAC
* *
1488894 CCATTTAAAAAGTTATGGGCTAATTAAAAAATATAAATAAGTAATAAGTATGGGTCAATTTCAGA
131 CCATTTAAAAAGTTATGGGCCAATTAAAAAATATAAATAAGTAATAAGTATGGATCAATTTCAGA
*
1488959 TGCAAATATAATTTGGGGGAC
196 TGCAAATATAATTTGGAGGAC
*
1488980 TAAATTGAACAAATATGAAATTACAAATTAAAATTTAAATAAATTAAATAACACACATTGATGAG
1 TAAATTGAACAAATATGAAATTACAAATTAAAATTTAAATAAATTAAACAACACACATTGATGAG
* *
1489045 GGATCAAATCGAAATAATTTTAAATTGAGAGGTTGAAATTAATACAAAAAA-TGCTAAATTATAC
66 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATAC
*
1489109 CCATTTAAAAAGTTATGGGACAATT-AAAAATATAAATAAGTAATAAGTAT-GAGTCAATTTCAG
131 CCATTTAAAAAGTTATGGGCCAATTAAAAAATATAAATAAGTAATAAGTATGGA-TCAATTTCAG
1489172 ATGCAAATATAATTTGGAGGAC
195 ATGCAAATATAATTTGGAGGAC
*
1489194 TAAATTGAACAAATATGAAATTA-AAAATATAAATTTAAATAAATTAAACAACACACATTGATGA
1 TAAATTGAACAAATATGAAATTACAAATTA-AAATTTAAATAAATTAAACAACACACATTGATGA
* * * *
1489258 GGGATCAAATCAAAAAAATTTTAAATTGTGAGGATGAAATTAATACAAAAAA-TACTAAATTATG
65 GGGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATA
* * *
1489322 CACATCTAAAAAGTTATGGGCCAATTAAAAAATATAAATAAGTAATAAGTATGGATCAATTTCAT
130 CCCATTTAAAAAGTTATGGGCCAATTAAAAAATATAAATAAGTAATAAGTATGGATCAATTTCAG
**
1489387 ATGCAAATATAATTTTAAGGAC
195 ATGCAAATATAATTTGGAGGAC
1489409 TAAATTGAACAAATATGAAATTACAAATTAAAATTTAAATAAATTAAACAACACACATTGATGAG
1 TAAATTGAACAAATATGAAATTACAAATTAAAATTTAAATAAATTAAACAACACACATTGATGAG
*
1489474 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTTAAATTAATACAAAAAAGTACTAAATTATAC
66 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATAC
* * *
1489539 TCATTTAAAAAGTTATGGGCCAATTAAAAAATAAAAATAAGTAATAAGTATGGGTCAATTTCAGA
131 CCATTTAAAAAGTTATGGGCCAATTAAAAAATATAAATAAGTAATAAGTATGGATCAATTTCAGA
1489604 TGCAAATATAATTTGGAGGAC
196 TGCAAATATAATTTGGAGGAC
1489625 TAAATTGAACAAATATGAAATTACAAATTAAAATTTAAATAAATTAAACAACACA
1 TAAATTGAACAAATATGAAATTACAAATTAAAATTTAAATAAATTAAACAACACA
1489680 AAGGGATCAA
Statistics
Matches: 657, Mismatches: 37, Indels: 12
0.93 0.05 0.02
Matches are distributed among these distances:
213 6 0.01
214 193 0.29
215 193 0.29
216 265 0.40
ACGTcount: A:0.50, C:0.08, G:0.12, T:0.29
Consensus pattern (216 bp):
TAAATTGAACAAATATGAAATTACAAATTAAAATTTAAATAAATTAAACAACACACATTGATGAG
GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATAC
CCATTTAAAAAGTTATGGGCCAATTAAAAAATATAAATAAGTAATAAGTATGGATCAATTTCAGA
TGCAAATATAATTTGGAGGAC
Found at i:1489783 original size:2 final size:2
Alignment explanation
Indices: 1489778--1490133 Score: 167
Period size: 2 Copynumber: 178.0 Consensus size: 2
1489768 TTGAAACAAC
* * *
1489778 TA TA TA TA TA TA TA TA TA TA -A TA TA AA CTA TA TA GTT TA TA TT
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA
* *
1489821 TA TA T- TA T- TA TA AA CTA TA TA T- TA TA TA TA TA TA T- TA TG
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
1489860 TA TA AA CTA TA TA TA CCA TA TA TA AA CTA TA -A TA CTA TA TA GTT
1 TA TA TA -TA TA TA TA -TA TA TA TA TA -TA TA TA TA -TA TA TA -TA
* * * *
1489904 TA TA TA TGA -A CTA T- TGA -A CTA TA TA GA AA CTA CA TA GTT TA
1 TA TA TA T-A TA -TA TA T-A TA -TA TA TA TA TA -TA TA TA -TA TA
* * * *
1489945 TA TA TA AA T- TA TA TA TGA -A T- TA TA TA -A AA CTA TA CA -A TT
1 TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA -TA TA TA TA TA
* * * *
1489984 TA TA TT TA TA T- TA TG TA TA -A T- TA TA AA TA -A TA TA TA TG
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
1490022 TA TA AA TA TA TA GTT TA T- TA -A TA AA CTA TA TA GTT TA TA TA
1 TA TA TA TA TA TA -TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA
1490063 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1490105 TA TA TA TA TA TA TA TA TA TA TA GTA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA
1490134 AGTTTAAGGT
Statistics
Matches: 267, Mismatches: 47, Indels: 80
0.68 0.12 0.20
Matches are distributed among these distances:
1 20 0.07
2 226 0.85
3 21 0.08
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.46
Consensus pattern (2 bp):
TA
Found at i:1490305 original size:14 final size:14
Alignment explanation
Indices: 1490286--1490326 Score: 66
Period size: 14 Copynumber: 3.0 Consensus size: 14
1490276 TACATATGAA
1490286 CTATATGTATAAAC
1 CTATATGTATAAAC
1490300 CTATATGTATAAA-
1 CTATATGTATAAAC
*
1490313 CTATATATATAAAC
1 CTATATGTATAAAC
1490327 TATGTAAACT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 12 0.48
14 13 0.52
ACGTcount: A:0.46, C:0.12, G:0.05, T:0.37
Consensus pattern (14 bp):
CTATATGTATAAAC
Found at i:1490318 original size:13 final size:13
Alignment explanation
Indices: 1490284--1490329 Score: 74
Period size: 13 Copynumber: 3.5 Consensus size: 13
1490274 TTTACATATG
1490284 AACTATATGTATA
1 AACTATATGTATA
1490297 AACCTATATGTATA
1 AA-CTATATGTATA
*
1490311 AACTATATATATA
1 AACTATATGTATA
1490324 AACTAT
1 AACTAT
1490330 GTAAACTATA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
13 18 0.58
14 13 0.42
ACGTcount: A:0.48, C:0.11, G:0.04, T:0.37
Consensus pattern (13 bp):
AACTATATGTATA
Found at i:1490382 original size:24 final size:24
Alignment explanation
Indices: 1490336--1490416 Score: 67
Period size: 24 Copynumber: 3.2 Consensus size: 24
1490326 CTATGTAAAC
* *
1490336 TATATAGTTTACATA-TGACCTATA
1 TATATAGTTTA-TTAGTGAACTATA
1490360 TATATAGTTTATTAGTGAACTATA
1 TATATAGTTTATTAGTGAACTATA
* *
1490384 TAAACTA-TTTATATAGTATATACTATA
1 TATA-TAGTTTAT-TAGT-GA-ACTATA
1490411 TATATA
1 TATATA
1490417 AATTATAGTT
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
23 2 0.04
24 27 0.57
25 6 0.13
26 3 0.06
27 9 0.19
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.44
Consensus pattern (24 bp):
TATATAGTTTATTAGTGAACTATA
Found at i:1490405 original size:7 final size:6
Alignment explanation
Indices: 1490393--1490537 Score: 53
Period size: 7 Copynumber: 22.8 Consensus size: 6
1490383 ATAAACTATT
* * * * *
1490393 TATATA GTATATA CTATATA TATAAA T-TATA GTTTATA TTTACA TACTACA
1 TATATA -TATATA -TATATA TATATA TATATA -TATATA TATATA TA-TATA
* * * *
1490444 TACTATA GTTTATA TTTATA TACTATA TATATT TATATA CTATAT- TTTATA
1 TA-TATA -TATATA TATATA TA-TATA TATATA TATATA -TATATA TATATA
* * * *
1490495 T-TATT TATATA AACTATA GTTTATA TTTATA TACTATA TATAT
1 TATATA TATATA TA-TATA -TATATA TATATA TA-TATA TATAT
1490538 GAACTATAGT
Statistics
Matches: 110, Mismatches: 17, Indels: 23
0.73 0.11 0.15
Matches are distributed among these distances:
5 11 0.10
6 43 0.39
7 55 0.50
8 1 0.01
ACGTcount: A:0.40, C:0.06, G:0.03, T:0.51
Consensus pattern (6 bp):
TATATA
Found at i:1490405 original size:9 final size:8
Alignment explanation
Indices: 1490393--1490537 Score: 53
Period size: 9 Copynumber: 17.1 Consensus size: 8
1490383 ATAAACTATT
1490393 TATATAGTA
1 TATATA-TA
1490402 TATACTATA
1 TATA-TATA
*
1490411 TATATAAA
1 TATATATA
*
1490419 T-TATAGTT
1 TATATA-TA
*
1490427 TATATTTA
1 TATATATA
* *
1490435 CATACTACA
1 TATA-TATA
*
1490444 TACTATAGTT
1 TA-TATA-TA
*
1490454 TATATTTA
1 TATATATA
1490462 TATACTATA
1 TATA-TATA
*
1490471 TATATTTA
1 TATATATA
1490479 TATACTATA
1 TATA-TATA
*
1490488 T-TTTATA
1 TATATATA
*
1490495 T-TATTTA
1 TATATATA
*
1490502 TATAAACTA
1 TATATA-TA
*
1490511 TAGTTTATA
1 TA-TATATA
*
1490520 TTTATATA
1 TATATATA
1490528 CTATATATA
1 -TATATATA
1490537 T
1 T
1490538 GAACTATAGT
Statistics
Matches: 98, Mismatches: 26, Indels: 25
0.66 0.17 0.17
Matches are distributed among these distances:
7 14 0.14
8 30 0.31
9 46 0.47
10 8 0.08
ACGTcount: A:0.40, C:0.06, G:0.03, T:0.51
Consensus pattern (8 bp):
TATATATA
Found at i:1490430 original size:27 final size:26
Alignment explanation
Indices: 1490400--1490520 Score: 64
Period size: 29 Copynumber: 4.2 Consensus size: 26
1490390 ATTTATATAG
*
1490400 TATATACTATATATATAAATTATAGTT
1 TATATACTATATATATAAACTATA-TT
* **
1490427 TATATTTACATACTACATACTATAGTTTATATT
1 TATA--TAC-TA-TATATA-TA-AACT-ATATT
1490460 TATATACTATATATATTTATATACTATATT
1 TATATACTATATATA--TA-A-ACTATATT
* *
1490490 T-TATATTATTTATATAAACTATAGTT
1 TATATACTATATATATAAACTATA-TT
1490516 TATAT
1 TATAT
1490521 TTATATACTA
Statistics
Matches: 75, Mismatches: 8, Indels: 22
0.71 0.08 0.21
Matches are distributed among these distances:
25 6 0.08
26 4 0.05
27 9 0.12
29 19 0.25
30 14 0.19
31 9 0.12
32 2 0.03
33 9 0.12
34 3 0.04
ACGTcount: A:0.40, C:0.07, G:0.02, T:0.51
Consensus pattern (26 bp):
TATATACTATATATATAAACTATATT
Found at i:1490555 original size:18 final size:18
Alignment explanation
Indices: 1490534--1490619 Score: 90
Period size: 18 Copynumber: 4.8 Consensus size: 18
1490524 TATACTATAT
1490534 ATATGAACTATAGTTTAC
1 ATATGAACTATAGTTTAC
1490552 ATATGAACTATA-TATATA-
1 ATATGAACTATAGT-T-TAC
* *
1490570 ATAT-AATTGATA-TTTAT
1 ATATGAACT-ATAGTTTAC
1490587 ATATGAACTATAGTTTAC
1 ATATGAACTATAGTTTAC
*
1490605 ATATTAACTATAGTT
1 ATATGAACTATAGTT
1490620 GATATTTACA
Statistics
Matches: 58, Mismatches: 4, Indels: 12
0.78 0.05 0.16
Matches are distributed among these distances:
16 2 0.03
17 12 0.21
18 42 0.72
19 2 0.03
ACGTcount: A:0.42, C:0.07, G:0.08, T:0.43
Consensus pattern (18 bp):
ATATGAACTATAGTTTAC
Found at i:1490562 original size:31 final size:32
Alignment explanation
Indices: 1490400--1490570 Score: 112
Period size: 33 Copynumber: 5.6 Consensus size: 32
1490390 ATTTATATAG
*
1490400 TATATACTATATATATAAATTATAGTTT--A-
1 TATATACTATATATATAAACTATAGTTTACAT
* * *
1490429 TATTTAC-ATACTACAT--ACTATAGTTTATATT
1 TATATACTATA-TATATAAACTATAGTTTACA-T
** * *
1490460 TATATACTATATATATTTA-TATA--CTATAT
1 TATATACTATATATATAAACTATAGTTTACAT
* * * *
1490489 TTTATATTATTTATATAAACTATAGTTTATATT
1 TATATACTATATATATAAACTATAGTTTACA-T
*
1490522 TATATACTATATATATGAACTATAGTTTACA-
1 TATATACTATATATATAAACTATAGTTTACAT
1490553 TATGA-ACTATATATATAA
1 TAT-ATACTATATATATAA
1490571 TATAATTGAT
Statistics
Matches: 111, Mismatches: 18, Indels: 24
0.73 0.12 0.16
Matches are distributed among these distances:
27 9 0.08
28 3 0.03
29 26 0.23
30 8 0.07
31 25 0.23
32 12 0.11
33 28 0.25
ACGTcount: A:0.41, C:0.07, G:0.04, T:0.49
Consensus pattern (32 bp):
TATATACTATATATATAAACTATAGTTTACAT
Found at i:1490591 original size:35 final size:36
Alignment explanation
Indices: 1490547--1490646 Score: 121
Period size: 42 Copynumber: 2.6 Consensus size: 36
1490537 TGAACTATAG
1490547 TTTACATATGAACTATATATATAA-TATAATTGATA
1 TTTACATATGAACTATATATATAACTATAATTGATA
* *
1490582 TTTATATATGAACTATAGTTTACATATTAACTATAGTTGATA
1 TTTACATATGAACTATA---T--ATA-TAACTATAATTGATA
1490624 TTTACATATGAACTATATATATA
1 TTTACATATGAACTATATATATA
1490647 GTTTATTAGT
Statistics
Matches: 55, Mismatches: 3, Indels: 13
0.77 0.04 0.18
Matches are distributed among these distances:
35 16 0.29
36 2 0.04
37 3 0.05
38 1 0.02
39 1 0.02
40 3 0.05
41 3 0.05
42 26 0.47
ACGTcount: A:0.42, C:0.07, G:0.07, T:0.44
Consensus pattern (36 bp):
TTTACATATGAACTATATATATAACTATAATTGATA
Found at i:1490598 original size:24 final size:24
Alignment explanation
Indices: 1490571--1490640 Score: 71
Period size: 24 Copynumber: 3.2 Consensus size: 24
1490561 ATATATATAA
*
1490571 TATAATTGATATTTATATATGAAC
1 TATAATTGATATTTACATATGAAC
*
1490595 TAT-A--G---TTTACATATTAAC
1 TATAATTGATATTTACATATGAAC
*
1490613 TATAGTTGATATTTACATATGAAC
1 TATAATTGATATTTACATATGAAC
1490637 TATA
1 TATA
1490641 TATATAGTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 12
0.69 0.08 0.23
Matches are distributed among these distances:
18 14 0.39
21 2 0.06
23 1 0.03
24 19 0.53
ACGTcount: A:0.40, C:0.07, G:0.09, T:0.44
Consensus pattern (24 bp):
TATAATTGATATTTACATATGAAC
Found at i:1490641 original size:53 final size:50
Alignment explanation
Indices: 1490501--1490643 Score: 132
Period size: 53 Copynumber: 2.7 Consensus size: 50
1490491 TATATTATTT
1490501 ATATAAACTATAGTTTATATTT-ATAT-ACTATATATATGAACTATAGTTTAC
1 ATATAAACTATAG-TTATATTTAATATGA--ATATATATGAACTATAGTTTAC
* *
1490552 ATATGAACTATA-TATATAATATAAT-TGATATTTATATATGAACTATAGTTTAC
1 ATATAAACTATAGT-TAT-ATTTAATATGA-A--TATATATGAACTATAGTTTAC
*
1490605 ATATTAACTATAGTTGATATTTACATATGAACTATATAT
1 ATATAAACTATAGTT-ATATTTA-ATATGAA-TATATAT
1490644 ATAGTTTATT
Statistics
Matches: 77, Mismatches: 5, Indels: 18
0.77 0.05 0.18
Matches are distributed among these distances:
49 1 0.01
50 3 0.04
51 17 0.22
52 3 0.04
53 44 0.57
54 6 0.08
55 3 0.04
ACGTcount: A:0.42, C:0.07, G:0.07, T:0.44
Consensus pattern (50 bp):
ATATAAACTATAGTTATATTTAATATGAATATATATGAACTATAGTTTAC
Found at i:1490675 original size:2 final size:2
Alignment explanation
Indices: 1490670--1490896 Score: 56
Period size: 2 Copynumber: 107.0 Consensus size: 2
1490660 TTATATACAC
* * * *
1490670 TA TA TA GTA TA TA CTA TA AA TA TA -A AA TA TA GTT TA TA TT TA
1 TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA -TA TA TA TA TA
* * *
1490712 TA TA CTA CA TA CTA TA GTT TA TA TT TA TA TA CTA TA TA T- TA TA
1 TA TA -TA TA TA -TA TA -TA TA TA TA TA TA TA -TA TA TA TA TA TA
* * *
1490755 TA TA TA AA CTA TA TA TA CTA TA TA GTA TA -A TT TA CA TA TGA -A
1 TA TA TA TA -TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA T-A TA
* * * * *
1490797 CTA TA TA TA AA AA CCA TA TA AA CTA TA TA CTA TA GT- TGA TA TT
1 -TA TA TA TA TA TA -TA TA TA TA -TA TA TA -TA TA -TA T-A TA TA
* *
1490840 TA TA TA CTA TA TA -A TA TA -A TT TA TA CTA TA GTA TA TA TA AA
1 TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA TA -TA TA TA TA TA
1490881 CTA TA TA -A TA TA TA TA
1 -TA TA TA TA TA TA TA TA
1490897 AACTATACAT
Statistics
Matches: 166, Mismatches: 30, Indels: 58
0.65 0.12 0.23
Matches are distributed among these distances:
1 8 0.05
2 126 0.76
3 32 0.19
ACGTcount: A:0.46, C:0.07, G:0.04, T:0.43
Consensus pattern (2 bp):
TA
Found at i:1490727 original size:20 final size:20
Alignment explanation
Indices: 1490704--1490756 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
1490694 AAATATAGTT
1490704 TATATTTATATACTACATAC
1 TATATTTATATACTACATAC
* *
1490724 TATAGTTTATAT-TTATATAC
1 TATA-TTTATATACTACATAC
1490744 TATATATTATATA
1 TATAT-TTATATA
1490757 TATAAACTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
19 1 0.04
20 20 0.71
21 7 0.25
ACGTcount: A:0.40, C:0.08, G:0.02, T:0.51
Consensus pattern (20 bp):
TATATTTATATACTACATAC
Found at i:1490727 original size:27 final size:27
Alignment explanation
Indices: 1490697--1490754 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
1490687 AAATATAAAA
1490697 TATAGTTTATATTTATATACTACATAC
1 TATAGTTTATATTTATATACTACATAC
* *
1490724 TATAGTTTATATTTATATACTATATAT
1 TATAGTTTATATTTATATACTACATAC
1490751 TATA
1 TATA
1490755 TATATAAACT
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:0.38, C:0.07, G:0.03, T:0.52
Consensus pattern (27 bp):
TATAGTTTATATTTATATACTACATAC
Found at i:1490800 original size:34 final size:36
Alignment explanation
Indices: 1490737--1490805 Score: 97
Period size: 34 Copynumber: 2.0 Consensus size: 36
1490727 AGTTTATATT
*
1490737 TATATACTATATATTATATATATAAACTATATATAC
1 TATATACTATATATTATACATATAAACTATATATAC
* *
1490773 TATATAGTATA-ATT-TACATATGAACTATATATA
1 TATATACTATATATTATACATATAAACTATATATA
1490806 AAAACCATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
34 17 0.57
35 3 0.10
36 10 0.33
ACGTcount: A:0.46, C:0.07, G:0.03, T:0.43
Consensus pattern (36 bp):
TATATACTATATATTATACATATAAACTATATATAC
Found at i:1490803 original size:103 final size:102
Alignment explanation
Indices: 1490656--1490892 Score: 230
Period size: 103 Copynumber: 2.3 Consensus size: 102
1490646 AGTTTATTAG
* * ** * ** *
1490656 TAAATTATATACACTATATAGTATATACTATAAATATAAAATATAGTTTATA-TTTATATACTAC
1 TAAACTATATATACTATATAGTATATACTATAAATATAAAATATA-TAAAAACCATATAAACTAC
* *
1490720 ATACTATAGTTTATATTTATATACTATATATTATATATA
65 ATACTATAGTTGATATTTATATACTATATAATATA-ATA
* * *
1490759 TAAACTATATATACTATATAGTATA-A-TTTACATATGAACTATATATAAAAACCATATAAACTA
1 TAAACTATATATACTATATAGTATATACTATAAATAT-AA-AATATATAAAAACCATATAAACTA
* *
1490822 TATACTATAGTTGATATTTATATACTATATAATATAATT
64 CATACTATAGTTGATATTTATATACTATATAATATAATA
* * * *
1490861 TATACTATAGTATA-TATAAACTATATAATATA
1 TAAACTATA-TATACTATATAGTATATACTATA
1490893 TATAAACTAT
Statistics
Matches: 109, Mismatches: 19, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
101 7 0.06
102 25 0.23
103 74 0.68
104 3 0.03
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.43
Consensus pattern (102 bp):
TAAACTATATATACTATATAGTATATACTATAAATATAAAATATATAAAAACCATATAAACTACA
TACTATAGTTGATATTTATATACTATATAATATAATA
Found at i:1490890 original size:35 final size:38
Alignment explanation
Indices: 1490822--1490892 Score: 103
Period size: 35 Copynumber: 1.9 Consensus size: 38
1490812 ATATAAACTA
*
1490822 TATACTATAGTTGATATTTATATACTATATAATATAATT
1 TATACTATAGTTGATA-TTATAAACTATATAATATAATT
1490861 TATACTATAG-T-ATA-TATAAACTATATAATATA
1 TATACTATAGTTGATATTATAAACTATATAATATA
1490893 TATAAACTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
35 17 0.55
37 3 0.10
38 1 0.03
39 10 0.32
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.45
Consensus pattern (38 bp):
TATACTATAGTTGATATTATAAACTATATAATATAATT
Found at i:1490903 original size:53 final size:52
Alignment explanation
Indices: 1490835--1490998 Score: 181
Period size: 53 Copynumber: 3.1 Consensus size: 52
1490825 ACTATAGTTG
* * * *
1490835 ATATTTATATACTATATAATATAATTTATACTATAGTATATATAAACTATATA
1 ATATATATAAACTATACATTAT-ATTTATACTATAGTATATATAAACTATATA
* *
1490888 ATATATATAAACTATACATTATATTGTTTA-T-TAGTATATATAAACTATATG
1 ATATATATAAACTATACATTATATT-TATACTATAGTATATATAAACTATATA
* * *
1490939 GTATATATAAACTATACATTATATGTAGTTC-ATTAGTATATATAAACTATATA
1 ATATATATAAACTATACATTATATTTA-TACTA-TAGTATATATAAACTATATA
*
1490992 TTATATA
1 ATATATA
1490999 GTTCATTAGT
Statistics
Matches: 94, Mismatches: 12, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
50 1 0.01
51 43 0.46
52 4 0.04
53 46 0.49
ACGTcount: A:0.45, C:0.06, G:0.05, T:0.45
Consensus pattern (52 bp):
ATATATATAAACTATACATTATATTTATACTATAGTATATATAAACTATATA
Found at i:1490923 original size:51 final size:53
Alignment explanation
Indices: 1490868--1490998 Score: 212
Period size: 51 Copynumber: 2.5 Consensus size: 53
1490858 ATTTATACTA
*
1490868 TAGTATATATAAACTATATAATATATATAAACTATACATTATAT-T-GTTTAT
1 TAGTATATATAAACTATATAATATATATAAACTATACATTATATGTAGTTCAT
**
1490919 TAGTATATATAAACTATATGGTATATATAAACTATACATTATATGTAGTTCAT
1 TAGTATATATAAACTATATAATATATATAAACTATACATTATATGTAGTTCAT
*
1490972 TAGTATATATAAACTATATATTATATA
1 TAGTATATATAAACTATATAATATATA
1490999 GTTCATTAGT
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
51 42 0.58
52 1 0.01
53 30 0.41
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (53 bp):
TAGTATATATAAACTATATAATATATATAAACTATACATTATATGTAGTTCAT
Found at i:1491001 original size:33 final size:33
Alignment explanation
Indices: 1490939--1491060 Score: 174
Period size: 33 Copynumber: 3.6 Consensus size: 33
1490929 AAACTATATG
*
1490939 GTATATATAAACTATACATTATATGTAGTTCATTA
1 GTATATATAAACTATATATTATA--TAGTTCATTA
1490974 GTATATATAAACTATATATTATATAGTTCATTA
1 GTATATATAAACTATATATTATATAGTTCATTA
* *
1491007 GTATATATAAACTATATATTGA-AAAGTTCTTTA
1 GTATATATAAACTATATATT-ATATAGTTCATTA
*
1491040 GTATATATAACCTATATATTA
1 GTATATATAAACTATATATTA
1491061 ATTTATTAAT
Statistics
Matches: 82, Mismatches: 4, Indels: 5
0.90 0.04 0.05
Matches are distributed among these distances:
32 1 0.01
33 58 0.71
34 1 0.01
35 22 0.27
ACGTcount: A:0.42, C:0.07, G:0.07, T:0.43
Consensus pattern (33 bp):
GTATATATAAACTATATATTATATAGTTCATTA
Found at i:1491015 original size:17 final size:17
Alignment explanation
Indices: 1490958--1491015 Score: 50
Period size: 17 Copynumber: 3.5 Consensus size: 17
1490948 AACTATACAT
*
1490958 TATATGTAGTTCATTAG
1 TATATATAGTTCATTAG
**
1490975 TATATATA-AAC-TATA-
1 TATATATAGTTCAT-TAG
1490990 TATTATATAGTTCATTAG
1 TA-TATATAGTTCATTAG
1491008 TATATATA
1 TATATATA
1491016 AACTATATAT
Statistics
Matches: 31, Mismatches: 5, Indels: 10
0.67 0.11 0.22
Matches are distributed among these distances:
15 3 0.10
16 9 0.29
17 16 0.52
18 3 0.10
ACGTcount: A:0.40, C:0.05, G:0.09, T:0.47
Consensus pattern (17 bp):
TATATATAGTTCATTAG
Found at i:1491065 original size:26 final size:26
Alignment explanation
Indices: 1491036--1491089 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
1491026 TGAAAAGTTC
*
1491036 TTTAGT-ATATATAACCTATATATTAA
1 TTTAGTAATATA-AACATATATATTAA
*
1491062 TTTATTAATATAAACATATATATTAA
1 TTTAGTAATATAAACATATATATTAA
1491088 TT
1 TT
1491090 GAAAGAATTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 20 0.80
27 5 0.20
ACGTcount: A:0.44, C:0.06, G:0.02, T:0.48
Consensus pattern (26 bp):
TTTAGTAATATAAACATATATATTAA
Found at i:1491187 original size:61 final size:61
Alignment explanation
Indices: 1491106--1491235 Score: 206
Period size: 61 Copynumber: 2.1 Consensus size: 61
1491096 ATTGGAAATC
* * * *
1491106 AAATTGAACAAATTTTAAATATGAAGCTTAAATTAATAAATTGTAACATTAAATTTGGACT
1 AAATTGAAAAAAGTTGAAATATGAAGCTTAAATTAATAAATTGCAACATTAAATTTGGACT
* *
1491167 AAATTGAAAAAAGTTGAAATATGAAGCTTAAATTAATATATTGCATCATTAAATTTGGACT
1 AAATTGAAAAAAGTTGAAATATGAAGCTTAAATTAATAAATTGCAACATTAAATTTGGACT
1491228 AAATTGAA
1 AAATTGAA
1491236 CAAATTTAAA
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
61 63 1.00
ACGTcount: A:0.48, C:0.06, G:0.12, T:0.35
Consensus pattern (61 bp):
AAATTGAAAAAAGTTGAAATATGAAGCTTAAATTAATAAATTGCAACATTAAATTTGGACT
Found at i:1491470 original size:11 final size:11
Alignment explanation
Indices: 1491448--1491483 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
1491438 TCTCTAGAAA
1491448 TTCATC-CGTG
1 TTCATCACGTG
1491458 TTCATCACGTG
1 TTCATCACGTG
*
1491469 TTCATCACTTG
1 TTCATCACGTG
1491480 TTCA
1 TTCA
1491484 CCCCAGTTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 6 0.25
11 18 0.75
ACGTcount: A:0.17, C:0.28, G:0.14, T:0.42
Consensus pattern (11 bp):
TTCATCACGTG
Found at i:1491643 original size:102 final size:101
Alignment explanation
Indices: 1491497--1491782 Score: 423
Period size: 102 Copynumber: 2.8 Consensus size: 101
1491487 CAGTTCTTCC
* *
1491497 CCAAAACCCAAACCATTTC-ATTTTTTTCGATCAAACACCAAAAAATTCATCCGTGTTCATTCCA
1 CCAAAACCCAAACCATTTCGTTTTTTTTCGATCAAACACCCAAAAATTCATCCGTGTTCATTCCA
1491561 GTTCTTCCCCAAACCCTCATTTGATCTTCAAAAACA
66 GTTCTTCCCCAAACCCTCATTTGATCTTCAAAAACA
1491597 CCAAAACCCAAACCATTTCGTGTTTTTTTCGATCAAACACCCAAAAATTCATCCGTGTTCA-TCC
1 CCAAAACCCAAACCATTTCGT-TTTTTTTCGATCAAACACCCAAAAATTCATCCGTGTTCATTCC
*
1491661 AGTTCTTCCCAAAAACCCTCATTTGATCTTCAAAAACA
65 AGTTCTTCCC-CAAACCCTCATTTGATCTTCAAAAACA
* * ** *
1491699 CCAAAACCCAAACCATTTCGTTTTTTTTCCTATCAAACACCCATAAATTCATTCATTGTTCATTT
1 CCAAAACCCAAACCATTTCGTTTTTTTT-CGATCAAACACCCAAAAATTCA-TCCGTGTTCATTC
***
1491764 GTTTTCTTCCCCAAACCCT
64 CAGTTCTTCCCCAAACCCT
1491783 TACAAACACC
Statistics
Matches: 168, Mismatches: 12, Indels: 9
0.89 0.06 0.05
Matches are distributed among these distances:
100 19 0.11
101 20 0.12
102 105 0.62
103 15 0.09
104 9 0.05
ACGTcount: A:0.32, C:0.31, G:0.05, T:0.32
Consensus pattern (101 bp):
CCAAAACCCAAACCATTTCGTTTTTTTTCGATCAAACACCCAAAAATTCATCCGTGTTCATTCCA
GTTCTTCCCCAAACCCTCATTTGATCTTCAAAAACA
Found at i:1492009 original size:23 final size:23
Alignment explanation
Indices: 1491977--1492030 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
1491967 CTCGAACCTT
* * *
1491977 AACCCTAATCCGAACCCGACCCA
1 AACCCAAATCCAAACCCAACCCA
*
1492000 AACCCAAATCCAAACCCAACCCG
1 AACCCAAATCCAAACCCAACCCA
1492023 AACCCAAA
1 AACCCAAA
1492031 ATTGAATCTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.43, C:0.46, G:0.06, T:0.06
Consensus pattern (23 bp):
AACCCAAATCCAAACCCAACCCA
Found at i:1494868 original size:23 final size:23
Alignment explanation
Indices: 1494816--1494868 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
1494806 TTCTTAATGC
*
1494816 ATAATGCTTGCTGAATTGATGCA
1 ATAATGCTTGCTGAATTGATACA
* *
1494839 ATGATGCTTGCTGAATTGGTACA
1 ATAATGCTTGCTGAATTGATACA
*
1494862 TTAATGC
1 ATAATGC
1494869 ATGTCGGTTG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.36
Consensus pattern (23 bp):
ATAATGCTTGCTGAATTGATACA
Found at i:1495439 original size:12 final size:12
Alignment explanation
Indices: 1495422--1495451 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
1495412 TACGTCCATT
1495422 AGTTTTACATCA
1 AGTTTTACATCA
*
1495434 AGTTTTACATTA
1 AGTTTTACATCA
1495446 AGTTTT
1 AGTTTT
1495452 CTTTATTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (12 bp):
AGTTTTACATCA
Found at i:1500343 original size:1 final size:1
Alignment explanation
Indices: 1500337--1500371 Score: 52
Period size: 1 Copynumber: 35.0 Consensus size: 1
1500327 TCTTTCATTG
* *
1500337 AAAAAAAAAAAAAAAAGAAAAAAAAAGAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1500372 GAGAAGCAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:0.94, C:0.00, G:0.06, T:0.00
Consensus pattern (1 bp):
A
Found at i:1500352 original size:10 final size:10
Alignment explanation
Indices: 1500337--1500376 Score: 64
Period size: 10 Copynumber: 4.0 Consensus size: 10
1500327 TCTTTCATTG
1500337 AAAAAAA-AA
1 AAAAAAAGAA
1500346 AAAAAAAGAA
1 AAAAAAAGAA
1500356 AAAAAAAGAA
1 AAAAAAAGAA
1500366 AAAAAAGAGAA
1 AAAAAA-AGAA
1500377 GCAAAATTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
9 7 0.24
10 18 0.62
11 4 0.14
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (10 bp):
AAAAAAAGAA
Found at i:1500361 original size:19 final size:19
Alignment explanation
Indices: 1500337--1500373 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
1500327 TCTTTCATTG
1500337 AAAAAAAAAAAAAAAAGAA
1 AAAAAAAAAAAAAAAAGAA
*
1500356 AAAAAAAGAAAAAAAAGA
1 AAAAAAAAAAAAAAAAGA
1500374 GAAGCAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (19 bp):
AAAAAAAAAAAAAAAAGAA
Found at i:1500372 original size:9 final size:9
Alignment explanation
Indices: 1500336--1500373 Score: 60
Period size: 9 Copynumber: 4.2 Consensus size: 9
1500326 CTCTTTCATT
1500336 GAAAAAAAA
1 GAAAAAAAA
1500345 -AAAAAAAA
1 GAAAAAAAA
1500353 GAAAAAAAAA
1 G-AAAAAAAA
1500363 GAAAAAAAA
1 GAAAAAAAA
1500372 GA
1 GA
1500374 GAAGCAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
8 8 0.30
9 10 0.37
10 9 0.33
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (9 bp):
GAAAAAAAA
Found at i:1500382 original size:21 final size:21
Alignment explanation
Indices: 1500337--1500376 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1500327 TCTTTCATTG
1500337 AAAAAAAAAAAAAAAAGAAAA
1 AAAAAAAAAAAAAAAAGAAAA
* *
1500358 AAAAAGAAAAAAAAGAGAA
1 AAAAAAAAAAAAAAAAGAA
1500377 GCAAAATTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (21 bp):
AAAAAAAAAAAAAAAAGAAAA
Found at i:1504388 original size:18 final size:18
Alignment explanation
Indices: 1504365--1504411 Score: 85
Period size: 18 Copynumber: 2.6 Consensus size: 18
1504355 TATCATATTC
*
1504365 CAATTCTTTCACAGATTT
1 CAATTCCTTCACAGATTT
1504383 CAATTCCTTCACAGATTT
1 CAATTCCTTCACAGATTT
1504401 CAATTCCTTCA
1 CAATTCCTTCA
1504412 GAAATATTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.28, C:0.28, G:0.04, T:0.40
Consensus pattern (18 bp):
CAATTCCTTCACAGATTT
Found at i:1506170 original size:37 final size:36
Alignment explanation
Indices: 1506121--1506194 Score: 112
Period size: 37 Copynumber: 2.0 Consensus size: 36
1506111 ATATAATTAG
*
1506121 AAAATTATTTGTAAGGATTATGAGTCAATTATACAT
1 AAAATTATTTGTAAGGATTAGGAGTCAATTATACAT
**
1506157 AAAATTTATTTGTAAGGATTAGGAGTTGATTATACAT
1 AAAA-TTATTTGTAAGGATTAGGAGTCAATTATACAT
1506194 A
1 A
1506195 GGGAAAGTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
36 4 0.12
37 30 0.88
ACGTcount: A:0.41, C:0.04, G:0.16, T:0.39
Consensus pattern (36 bp):
AAAATTATTTGTAAGGATTAGGAGTCAATTATACAT
Found at i:1526329 original size:17 final size:18
Alignment explanation
Indices: 1526300--1526335 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
1526290 TAAATCAGTT
1526300 AATTTTATTAAAAATATA
1 AATTTTATTAAAAATATA
*
1526318 AATTTT-TTAAAATTATA
1 AATTTTATTAAAAATATA
1526335 A
1 A
1526336 TAAAGATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
AATTTTATTAAAAATATA
Found at i:1530899 original size:23 final size:23
Alignment explanation
Indices: 1530872--1530918 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
1530862 TATATTTTAT
1530872 TTATCTTGTTT-TAATCTTGTTTC
1 TTATCTTGTTTCTAATCTT-TTTC
*
1530895 TTATCTTGTTTCTTATCTTTTTC
1 TTATCTTGTTTCTAATCTTTTTC
1530918 T
1 T
1530919 AGCACCTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 16 0.73
24 6 0.27
ACGTcount: A:0.11, C:0.15, G:0.06, T:0.68
Consensus pattern (23 bp):
TTATCTTGTTTCTAATCTTTTTC
Found at i:1530902 original size:12 final size:12
Alignment explanation
Indices: 1530872--1530918 Score: 71
Period size: 12 Copynumber: 4.1 Consensus size: 12
1530862 TATATTTTAT
1530872 TTATCTTGTTT-
1 TTATCTTGTTTC
*
1530883 TAATCTTGTTTC
1 TTATCTTGTTTC
1530895 TTATCTTGTTTC
1 TTATCTTGTTTC
1530907 TTATCTT-TTTC
1 TTATCTTGTTTC
1530918 T
1 T
1530919 AGCACCTAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
11 15 0.45
12 18 0.55
ACGTcount: A:0.11, C:0.15, G:0.06, T:0.68
Consensus pattern (12 bp):
TTATCTTGTTTC
Found at i:1533561 original size:36 final size:36
Alignment explanation
Indices: 1533514--1533585 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
1533504 GTCGTGACGC
1533514 ATCTTAATGACGAAACATGATTTGAACAACACTACA
1 ATCTTAATGACGAAACATGATTTGAACAACACTACA
1533550 ATCTTAATGACGAAACATGATTTGAACAACACTACA
1 ATCTTAATGACGAAACATGATTTGAACAACACTACA
1533586 GGCTTTATAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.44, C:0.19, G:0.11, T:0.25
Consensus pattern (36 bp):
ATCTTAATGACGAAACATGATTTGAACAACACTACA
Found at i:1535622 original size:12 final size:12
Alignment explanation
Indices: 1535592--1535626 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
1535582 TATATTTTAT
1535592 TTATCTTGTTT-
1 TTATCTTGTTTC
*
1535603 TAATCTTGTTTC
1 TTATCTTGTTTC
1535615 TTATCTTGTTTC
1 TTATCTTGTTTC
1535627 CATCACTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.11, C:0.14, G:0.09, T:0.66
Consensus pattern (12 bp):
TTATCTTGTTTC
Found at i:1548279 original size:28 final size:31
Alignment explanation
Indices: 1548223--1548283 Score: 83
Period size: 28 Copynumber: 2.1 Consensus size: 31
1548213 CCGCTCTGCC
*
1548223 TATTTTGACCAAAAAGATAACTTTAGGTACT
1 TATTTTGACCAAAAAGATAACTTCAGGTACT
*
1548254 TATTTTGACC-CAAA-A-AACTTCAGGTACT
1 TATTTTGACCAAAAAGATAACTTCAGGTACT
1548282 TA
1 TA
1548284 AATGAAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 14 0.50
29 1 0.04
30 3 0.11
31 10 0.36
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.34
Consensus pattern (31 bp):
TATTTTGACCAAAAAGATAACTTCAGGTACT
Found at i:1548992 original size:31 final size:30
Alignment explanation
Indices: 1548946--1549025 Score: 83
Period size: 30 Copynumber: 2.6 Consensus size: 30
1548936 TAAAATTTAA
*
1548946 TATAGATTTTAAAAATTTTGATAG-GGCCAAAT
1 TATA-ATTTTTAAAATTTT-A-AGAGGCCAAAT
* *
1548978 TA-AATTTTTGAAAATTTTAAGAGTCTAAAT
1 TATAATTTTT-AAAATTTTAAGAGGCCAAAT
1549008 TATAATTTTTAAAATTTT
1 TATAATTTTTAAAATTTT
1549026 TGGGGGGCCA
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
29 2 0.05
30 22 0.52
31 16 0.38
32 2 0.05
ACGTcount: A:0.41, C:0.04, G:0.10, T:0.45
Consensus pattern (30 bp):
TATAATTTTTAAAATTTTAAGAGGCCAAAT
Found at i:1554931 original size:23 final size:23
Alignment explanation
Indices: 1554895--1554948 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
1554885 TTTATATGGT
*
1554895 ACTTCGATGCAATTCTACGCGGC
1 ACTTCGGTGCAATTCTACGCGGC
* * *
1554918 ACTTCGGTGTAATTCTATGTGGC
1 ACTTCGGTGCAATTCTACGCGGC
1554941 ACTTCGGT
1 ACTTCGGT
1554949 ACATTTATAC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.33
Consensus pattern (23 bp):
ACTTCGGTGCAATTCTACGCGGC
Found at i:1557121 original size:26 final size:26
Alignment explanation
Indices: 1557086--1557146 Score: 122
Period size: 26 Copynumber: 2.3 Consensus size: 26
1557076 AGTATGGATA
1557086 ATAAAGTTATAAGATTTGAAGAAAAG
1 ATAAAGTTATAAGATTTGAAGAAAAG
1557112 ATAAAGTTATAAGATTTGAAGAAAAG
1 ATAAAGTTATAAGATTTGAAGAAAAG
1557138 ATAAAGTTA
1 ATAAAGTTA
1557147 AGTTAATCAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.54, C:0.00, G:0.18, T:0.28
Consensus pattern (26 bp):
ATAAAGTTATAAGATTTGAAGAAAAG
Found at i:1560157 original size:23 final size:23
Alignment explanation
Indices: 1560066--1560149 Score: 125
Period size: 23 Copynumber: 3.7 Consensus size: 23
1560056 ACATTTTATA
1560066 TGGCACTTCGGTGCAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
1560089 TGGCACTTCGGTGCAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
* *
1560112 CGGCACGTT-AGTGCAATTCTACG
1 TGGCAC-TTCGGTGCAATTCTACG
*
1560135 TGTCACTTCGGTGCA
1 TGGCACTTCGGTGCA
1560150 TTTATACGAG
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
22 2 0.04
23 50 0.93
24 2 0.04
ACGTcount: A:0.18, C:0.26, G:0.26, T:0.30
Consensus pattern (23 bp):
TGGCACTTCGGTGCAATTCTACG
Found at i:1560348 original size:21 final size:21
Alignment explanation
Indices: 1560324--1560366 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 21
1560314 ATTAAGAAGG
1560324 TTAAAT-ATATGTG-CTATATGA
1 TTAAATGATA-GTGACTA-ATGA
1560345 TTAAATGATAGTGACTAATGA
1 TTAAATGATAGTGACTAATGA
1560366 T
1 T
1560367 GATTTATATG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.40, C:0.05, G:0.16, T:0.40
Consensus pattern (21 bp):
TTAAATGATAGTGACTAATGA
Found at i:1561102 original size:59 final size:59
Alignment explanation
Indices: 1561039--1561164 Score: 252
Period size: 59 Copynumber: 2.1 Consensus size: 59
1561029 ATTTTCAAAG
1561039 TGAAATATTCACCATTGAGTTTGACGGTGAAGCGGTGAAGTTTGATGTTTACAAAGCCA
1 TGAAATATTCACCATTGAGTTTGACGGTGAAGCGGTGAAGTTTGATGTTTACAAAGCCA
1561098 TGAAATATTCACCATTGAGTTTGACGGTGAAGCGGTGAAGTTTGATGTTTACAAAGCCA
1 TGAAATATTCACCATTGAGTTTGACGGTGAAGCGGTGAAGTTTGATGTTTACAAAGCCA
1561157 TGAAATAT
1 TGAAATAT
1561165 CCTAATTCTA
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 67 1.00
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.31
Consensus pattern (59 bp):
TGAAATATTCACCATTGAGTTTGACGGTGAAGCGGTGAAGTTTGATGTTTACAAAGCCA
Found at i:1562941 original size:23 final size:21
Alignment explanation
Indices: 1562890--1562941 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 21
1562880 ATACGGTTTA
1562890 AGAATTTGTTATTACAAATTT
1 AGAATTTGTTATTACAAATTT
1562911 AGAGATTTGTTAATT-CAATATTT
1 AGA-ATTTGTT-ATTACAA-ATTT
1562934 ATGAATTT
1 A-GAATTT
1562942 TAGGGTTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
21 3 0.11
22 10 0.37
23 12 0.44
24 2 0.07
ACGTcount: A:0.37, C:0.04, G:0.12, T:0.48
Consensus pattern (21 bp):
AGAATTTGTTATTACAAATTT
Found at i:1563243 original size:34 final size:34
Alignment explanation
Indices: 1563200--1563267 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
1563190 ATATAAAAAG
1563200 GAAACCTAAGAGAGAGAAGGCAAAGTGAGCGAAA
1 GAAACCTAAGAGAGAGAAGGCAAAGTGAGCGAAA
1563234 GAAACCTAAGAGAGAGAAGGCAAAGTGAGCGAAA
1 GAAACCTAAGAGAGAGAAGGCAAAGTGAGCGAAA
1563268 ATGTGAAAGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.50, C:0.12, G:0.32, T:0.06
Consensus pattern (34 bp):
GAAACCTAAGAGAGAGAAGGCAAAGTGAGCGAAA
Found at i:1563453 original size:20 final size:21
Alignment explanation
Indices: 1563407--1563453 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 21
1563397 AATTGTTTAA
*
1563407 TTAAATT--TTTATATATTTT
1 TTAAATTAATTTATATATTTC
1563426 TTAAATTAATTTATA-ATTTC
1 TTAAATTAATTTATATATTTC
*
1563446 TTATATTA
1 TTAAATTA
1563454 TAAATTTACG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 7 0.29
20 11 0.46
21 6 0.25
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (21 bp):
TTAAATTAATTTATATATTTC
Found at i:1564744 original size:15 final size:16
Alignment explanation
Indices: 1564714--1564747 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
1564704 TTCTTATGTA
1564714 TTTATTTATTTATTAT
1 TTTATTTATTTATTAT
*
1564730 TTTATTT-TTTGTTAT
1 TTTATTTATTTATTAT
1564745 TTT
1 TTT
1564748 CTTTCTCATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (16 bp):
TTTATTTATTTATTAT
Found at i:1564851 original size:36 final size:35
Alignment explanation
Indices: 1564793--1565069 Score: 254
Period size: 35 Copynumber: 7.7 Consensus size: 35
1564783 TTTGCAAATG
* * * *
1564793 ATTTTGAAATAAATACAATATATAGTTTTTGAAAGC
1 ATTTTGAAACATATATAATATATAGTTTTT-AAAAC
* * * *
1564829 ATTTCGAAACCTATATATTATATAGTCTTTAAAAC
1 ATTTTGAAACATATATAATATATAGTTTTTAAAAC
*
1564864 ATTTGGAAACATATATAATATATAGTTTTTAAAAC
1 ATTTTGAAACATATATAATATATAGTTTTTAAAAC
1564899 ATTTTGAAAACATATATATATTATATAGTTTTTAAAAC
1 ATTTTG-AAACATATATA-A-TATATAGTTTTTAAAAC
* *
1564937 ATTTTGAATATATATATAATATATAGTTTTTAAAAAAA
1 ATTTTGAA-ACATATATAATATATAGTTTTT--AAAAC
* * *
1564975 AATTTGAAA-ATATATATATTATATAGTTTTGAAAATT
1 ATTTTGAAACATATATA-A-TATATAGTTTTTAAAA-C
* * * **
1565012 ATTTTTAAA-ATATATATTATATAGTTTTGAAATT
1 ATTTTGAAACATATATAATATATAGTTTTTAAAAC
*
1565046 ATTTTTAAA-ATATATATATATATA
1 ATTTTGAAACATATATA-ATATATA
1565070 TATTATTAAT
Statistics
Matches: 208, Mismatches: 23, Indels: 21
0.83 0.09 0.08
Matches are distributed among these distances:
34 17 0.08
35 61 0.29
36 57 0.27
37 20 0.10
38 53 0.25
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.44
Consensus pattern (35 bp):
ATTTTGAAACATATATAATATATAGTTTTTAAAAC
Found at i:1564924 original size:38 final size:37
Alignment explanation
Indices: 1564811--1565071 Score: 254
Period size: 36 Copynumber: 7.2 Consensus size: 37
1564801 ATAAATACAA
* * *
1564811 TATATAGTTTTTGAAAGCATTTCGAAAC--CTATATAT
1 TATATAGTTTTT-AAAACATTTTGAAACATATATATAT
* *
1564847 TATATAGTCTTTAAAACATTTGGAAACATATATA-A-
1 TATATAGTTTTTAAAACATTTTGAAACATATATATAT
1564882 TATATAGTTTTTAAAACATTTTGAAAACATATATATAT
1 TATATAGTTTTTAAAACATTTTG-AAACATATATATAT
* *
1564920 TATATAGTTTTTAAAACATTTTG-AATATATATATAA
1 TATATAGTTTTTAAAACATTTTGAAACATATATATAT
* *
1564956 TATATAGTTTTTAAAAAAAAATTTGAAA-ATATATATAT
1 TATATAGTTTTT--AAAACATTTTGAAACATATATATAT
* * *
1564994 TATATAGTTTTGAAAATTATTTT-TAA-A-ATATATAT
1 TATATAGTTTTTAAAA-CATTTTGAAACATATATATAT
* ** *
1565029 TATATAGTTTTGAAATTATTTTTAAA-ATATATATAT
1 TATATAGTTTTTAAAACATTTTGAAACATATATATAT
1565065 ATATATA
1 -TATATA
1565072 TTATTAATTT
Statistics
Matches: 196, Mismatches: 17, Indels: 23
0.83 0.07 0.10
Matches are distributed among these distances:
34 6 0.03
35 60 0.31
36 61 0.31
37 15 0.08
38 52 0.27
39 2 0.01
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.45
Consensus pattern (37 bp):
TATATAGTTTTTAAAACATTTTGAAACATATATATAT
Found at i:1565104 original size:4 final size:4
Alignment explanation
Indices: 1565090--1565154 Score: 64
Period size: 4 Copynumber: 16.2 Consensus size: 4
1565080 TTAAAAATGT
* *
1565090 TTTA TTTTA TTTA -TTA TTT- TTCTA CTTC TTTA TTTA TTTA TTTTA TTTA
1 TTTA -TTTA TTTA TTTA TTTA TT-TA TTTA TTTA TTTA TTTA -TTTA TTTA
1565139 TTTA -TTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA T
1565155 CGTTTTAGGT
Statistics
Matches: 51, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
3 8 0.16
4 34 0.67
5 9 0.18
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:1566372 original size:20 final size:19
Alignment explanation
Indices: 1566349--1566416 Score: 61
Period size: 17 Copynumber: 3.6 Consensus size: 19
1566339 ATTTTCCCCC
1566349 TATTTCATATTTTTTTCCTT
1 TATTT-ATATTTTTTTCCTT
* *
1566369 TA-TTAT-TATTTTTAC-T
1 TATTTATATTTTTTTCCTT
*
1566385 TATTTGATATTCTTTTCCTT
1 TATTT-ATATTTTTTTCCTT
1566405 TGATTTATATTT
1 T-ATTTATATTT
1566417 ATATATATAT
Statistics
Matches: 37, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
16 3 0.08
17 9 0.24
18 4 0.11
19 8 0.22
20 9 0.24
21 4 0.11
ACGTcount: A:0.19, C:0.10, G:0.03, T:0.68
Consensus pattern (19 bp):
TATTTATATTTTTTTCCTT
Found at i:1569022 original size:20 final size:21
Alignment explanation
Indices: 1568947--1569023 Score: 61
Period size: 20 Copynumber: 3.8 Consensus size: 21
1568937 TTTTTGGCTC
*
1568947 AAAGGATCGATCCC-TTAACA
1 AAAGGATCGATCCCTTTGACA
* * *
1568967 AAAGGATTGGTCCATTTGATC-
1 AAAGGATCGATCCCTTTGA-CA
* *
1568988 AAAGGATCAACCCCTTTGA-A
1 AAAGGATCGATCCCTTTGACA
*
1569008 AAAGGATTGATCCCTT
1 AAAGGATCGATCCCTT
1569024 ATATTCCAGA
Statistics
Matches: 42, Mismatches: 12, Indels: 6
0.70 0.20 0.10
Matches are distributed among these distances:
20 24 0.57
21 17 0.40
22 1 0.02
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.26
Consensus pattern (21 bp):
AAAGGATCGATCCCTTTGACA
Found at i:1569249 original size:14 final size:14
Alignment explanation
Indices: 1569230--1569262 Score: 52
Period size: 12 Copynumber: 2.5 Consensus size: 14
1569220 TGCCACATCC
1569230 ATATTTTTTAAATA
1 ATATTTTTTAAATA
1569244 ATA--TTTTAAATA
1 ATATTTTTTAAATA
1569256 ATATTTT
1 ATATTTT
1569263 ATTTTTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 4
0.81 0.00 0.19
Matches are distributed among these distances:
12 12 0.71
14 5 0.29
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
ATATTTTTTAAATA
Found at i:1569252 original size:12 final size:12
Alignment explanation
Indices: 1569235--1569263 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
1569225 CATCCATATT
1569235 TTTTAAATAATA
1 TTTTAAATAATA
1569247 TTTTAAATAATA
1 TTTTAAATAATA
1569259 TTTTA
1 TTTTA
1569264 TTTTTTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (12 bp):
TTTTAAATAATA
Found at i:1570741 original size:42 final size:42
Alignment explanation
Indices: 1570704--1570790 Score: 129
Period size: 42 Copynumber: 2.1 Consensus size: 42
1570694 TATCATAAGT
* *
1570704 ATGCAACAAGTTTCTTACATCTAGCGAAGGAGTATCATATAC
1 ATGCAACAAGTTACTTACACCTAGCGAAGGAGTATCATATAC
* * *
1570746 ATGCTATAAGTTACTTATACCTAGCGAAGGAGTATCATATAC
1 ATGCAACAAGTTACTTACACCTAGCGAAGGAGTATCATATAC
1570788 ATG
1 ATG
1570791 TAGTTATATT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (42 bp):
ATGCAACAAGTTACTTACACCTAGCGAAGGAGTATCATATAC
Found at i:1572488 original size:15 final size:14
Alignment explanation
Indices: 1572456--1572503 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
1572446 ATACATATAT
*
1572456 GCATGCTGATTAGC
1 GCATGGTGATTAGC
1572470 GCATGGTGATTAGGC
1 GCATGGTGATTA-GC
**
1572485 GCATGGTGACAAGC
1 GCATGGTGATTAGC
1572499 GCATG
1 GCATG
1572504 ATAATTTGCC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
14 18 0.60
15 12 0.40
ACGTcount: A:0.23, C:0.19, G:0.35, T:0.23
Consensus pattern (14 bp):
GCATGGTGATTAGC
Found at i:1572736 original size:14 final size:15
Alignment explanation
Indices: 1572705--1572737 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
1572695 TTAATCATGA
1572705 TATTGTTCATGATAT
1 TATTGTTCATGATAT
*
1572720 TATTGTT-ATGGTAT
1 TATTGTTCATGATAT
1572734 TATT
1 TATT
1572738 ATCATATAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.24, C:0.03, G:0.15, T:0.58
Consensus pattern (15 bp):
TATTGTTCATGATAT
Found at i:1573151 original size:58 final size:58
Alignment explanation
Indices: 1573077--1573367 Score: 315
Period size: 58 Copynumber: 5.0 Consensus size: 58
1573067 AATCTTATGT
* **
1573077 TGATTCTAACTTTGTAAGGAAAATAGTTTGTTGAATTTA-TTTCATTGAGAAACTTAAA
1 TGATTCTAACTTTGTAAGAAAAATAAATTGTTGAATTTATTTTC-TTGAGAAACTTAAA
* *
1573135 TGATTCTAACTTTGTAAGAAAAATAAATTGTTGAATTTATTTCCTTG-GAAATCTTGAA
1 TGATTCTAACTTTGTAAGAAAAATAAATTGTTGAATTTATTTTCTTGAGAAA-CTTAAA
* * *
1573193 TGATTTTAACTTTGTAAGAAAAATAAATTGTCGAATTTATTTTCTTGAGAATCTTAAA
1 TGATTCTAACTTTGTAAGAAAAATAAATTGTTGAATTTATTTTCTTGAGAAACTTAAA
* * * *
1573251 TAATTCT-ATTTTGTAA-AAATTAATAAATTGTTAAATTTATTTTCTTGAGAATCTTAAA
1 TGATTCTAACTTTGTAAGAAA--AATAAATTGTTGAATTTATTTTCTTGAGAAACTTAAA
* * * * * * *
1573309 CGATTCT-ATTTTGTTAA-AGGAAATGAATTGTTAAATTTATTTTCTTGGGAATCTTAAA
1 TGATTCTAACTTTG-TAAGA-AAAATAAATTGTTGAATTTATTTTCTTGAGAAACTTAAA
1573367 T
1 T
1573368 AAAGAAATAA
Statistics
Matches: 205, Mismatches: 21, Indels: 14
0.85 0.09 0.06
Matches are distributed among these distances:
56 3 0.01
57 12 0.06
58 179 0.87
59 10 0.05
60 1 0.00
ACGTcount: A:0.36, C:0.07, G:0.13, T:0.44
Consensus pattern (58 bp):
TGATTCTAACTTTGTAAGAAAAATAAATTGTTGAATTTATTTTCTTGAGAAACTTAAA
Found at i:1573486 original size:46 final size:47
Alignment explanation
Indices: 1573368--1573489 Score: 192
Period size: 48 Copynumber: 2.6 Consensus size: 47
1573358 AATCTTAAAT
* * *
1573368 AAAGAAATAAATTATTGAATTTATTTTCTTGTATGATTATATTTTTA
1 AAAGAAATAAATTGTTGGATTTATTTTCTTATATGATTATATTTTTA
*
1573415 AAAGGAAATAAATTGTTGGATTTATTTTCTTATATGATTCTA-TTTTA
1 AAA-GAAATAAATTGTTGGATTTATTTTCTTATATGATTATATTTTTA
1573462 AAAGAAATAAATTGTTGGATTTATTTTC
1 AAAGAAATAAATTGTTGGATTTATTTTC
1573490 CTGTTTTGTA
Statistics
Matches: 70, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
46 25 0.36
47 11 0.16
48 34 0.49
ACGTcount: A:0.37, C:0.03, G:0.11, T:0.48
Consensus pattern (47 bp):
AAAGAAATAAATTGTTGGATTTATTTTCTTATATGATTATATTTTTA
Found at i:1573513 original size:39 final size:37
Alignment explanation
Indices: 1573456--1573568 Score: 156
Period size: 39 Copynumber: 3.0 Consensus size: 37
1573446 ATATGATTCT
*
1573456 ATTTTAAAAGAAATAAATTGTTGGATTTATTTTCCTG
1 ATTTTAAAAGAAATAAATTGTTGAATTTATTTTCCTG
* *
1573493 TTTTGTAAAAGGAAATAAATTATTGAATTTATTTTCCT-
1 ATTT-TAAAA-GAAATAAATTGTTGAATTTATTTTCCTG
* *
1573531 ATTTTAAAAAAAATAAATTGATGAATTTATTTTCCTG
1 ATTTTAAAAGAAATAAATTGTTGAATTTATTTTCCTG
1573568 A
1 A
1573569 GAATATCACA
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
36 24 0.36
37 9 0.14
38 8 0.12
39 25 0.38
ACGTcount: A:0.39, C:0.05, G:0.11, T:0.45
Consensus pattern (37 bp):
ATTTTAAAAGAAATAAATTGTTGAATTTATTTTCCTG
Found at i:1573556 original size:36 final size:36
Alignment explanation
Indices: 1573454--1573566 Score: 147
Period size: 36 Copynumber: 3.1 Consensus size: 36
1573444 TTATATGATT
* *
1573454 CTATTTTAAAAGAAATAAATTGTTGGATTTATTTTC
1 CTATTTTAAAAGAAATAAATTGATGAATTTATTTTC
*
1573490 CTGTTTTGTAAAAGGAAATAAATT-ATTGAATTTATTTTC
1 CT-ATTT-TAAAA-GAAATAAATTGA-TGAATTTATTTTC
*
1573529 CTATTTTAAAAAAAATAAATTGATGAATTTATTTTC
1 CTATTTTAAAAGAAATAAATTGATGAATTTATTTTC
1573565 CT
1 CT
1573567 GAGAATATCA
Statistics
Matches: 67, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
36 26 0.39
37 9 0.13
38 8 0.12
39 24 0.36
ACGTcount: A:0.38, C:0.06, G:0.10, T:0.46
Consensus pattern (36 bp):
CTATTTTAAAAGAAATAAATTGATGAATTTATTTTC
Found at i:1573747 original size:39 final size:39
Alignment explanation
Indices: 1573688--1573915 Score: 178
Period size: 39 Copynumber: 5.6 Consensus size: 39
1573678 TTCTCATATA
* *
1573688 TAAAAGGAAATAAATAGTTGGATTTA-TTTATCTATTTTAG
1 TAAAAGGAAATAAATCGTTGGATTTAGTTT-CCTATTTT-G
*
1573728 -AAAAGGAATTAAATCGTTGGATTTAGTTTCCTATTTTG
1 TAAAAGGAAATAAATCGTTGGATTTAGTTTCCTATTTTG
* * *
1573766 TAAAAGAAAATAAATCGAAACAAATCGTTTGATTTATTTTCCTATTTTG
1 TAAAAG----------GAAATAAATCGTTGGATTTAGTTTCCTATTTTG
* * *
1573815 TAAAA-GAAATAAATTGTTAGATTTATTTTCCTATTTTG
1 TAAAAGGAAATAAATCGTTGGATTTAGTTTCCTATTTTG
* *
1573853 TAAAAGAAAATAAATCGTTGGATTTA-TTT-TTATGATTTG
1 TAAAAGGAAATAAATCGTTGGATTTAGTTTCCTAT--TTTG
* *
1573892 TAAAAGAAAATAAATCGGTGGATT
1 TAAAAGGAAATAAATCGTTGGATT
1573916 GAATTTATTT
Statistics
Matches: 158, Mismatches: 15, Indels: 31
0.77 0.07 0.15
Matches are distributed among these distances:
37 3 0.02
38 39 0.25
39 79 0.50
40 3 0.02
49 34 0.22
ACGTcount: A:0.39, C:0.06, G:0.14, T:0.41
Consensus pattern (39 bp):
TAAAAGGAAATAAATCGTTGGATTTAGTTTCCTATTTTG
Found at i:1573752 original size:97 final size:95
Alignment explanation
Indices: 1573498--1573760 Score: 273
Period size: 97 Copynumber: 2.8 Consensus size: 95
1573488 TCCTGTTTTG
*
1573498 TAAAAGGAAATAAATTA-TTGAATTTATTTTCCTATTTTA-AAAA-AAATAAATTGATGAATTTA
1 TAAAAGGAAATAAA-TAGTTGAATTTATTTTCCTATTTTAGAAAAGAAATAAATCGATGAATTTA
* * *
1573560 TTTTCCTGAGAATATCACATGTTCTGATATG
65 TTTTCCTAAGAATATCACATGTTCTCATATA
* * * * * * *
1573591 TAAAAGGAAATAAATCGTAGAATATATTTTCCTGTTTTGAAAAAAGAAATAAATCAATAAATTTA
1 TAAAAGGAAATAAATAGTTGAATTTATTTTCCTATTTT-AGAAAAGAAATAAATCGATGAATTTA
* ***
1573656 TTTTCCTAAGAATCTTGTATGATTCTCATATA
65 TTTTCCTAAGAATATCACATG-TTCTCATATA
* * * *
1573688 TAAAAGGAAATAAATAGTTGGATTTATTTAT-CTATTTTAGAAAAGGAATTAAATCGTTGGATTT
1 TAAAAGGAAATAAATAGTTGAATTTATTT-TCCTATTTTAGAAAA-GAAATAAATCGATGAATTT
*
1573752 AGTTTCCTA
64 ATTTTCCTA
1573761 TTTTGTAAAA
Statistics
Matches: 137, Mismatches: 26, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
92 1 0.01
93 32 0.23
94 1 0.01
95 4 0.03
96 37 0.27
97 61 0.45
98 1 0.01
ACGTcount: A:0.41, C:0.08, G:0.12, T:0.39
Consensus pattern (95 bp):
TAAAAGGAAATAAATAGTTGAATTTATTTTCCTATTTTAGAAAAGAAATAAATCGATGAATTTAT
TTTCCTAAGAATATCACATGTTCTCATATA
Found at i:1573855 original size:87 final size:88
Alignment explanation
Indices: 1573694--1573869 Score: 250
Period size: 87 Copynumber: 2.0 Consensus size: 88
1573684 TATATAAAAG
* * *
1573694 GAAATAAATAGTTGGATTTATTTATCTATTTTAGAAAAGGAATTAAATCGTTGGATTTAGTTTCC
1 GAAACAAATAGTTGGATTTATTTATCTATTTTAGAAAAGGAAATAAATCGTTAGATTTAGTTTCC
1573759 TATTTTGTAAAAGAAAATAAATC
66 TATTTTGTAAAAGAAAATAAATC
* * * *
1573782 GAAACAAATCGTTTGATTTATTT-TCCTATTTT-GTAAAA-GAAATAAATTGTTAGATTTATTTT
1 GAAACAAATAGTTGGATTTATTTAT-CTATTTTAG-AAAAGGAAATAAATCGTTAGATTTAGTTT
1573844 CCTATTTTGTAAAAGAAAATAAATC
64 CCTATTTTGTAAAAGAAAATAAATC
1573869 G
1 G
1573870 TTGGATTTAT
Statistics
Matches: 79, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
87 48 0.61
88 31 0.39
ACGTcount: A:0.39, C:0.07, G:0.13, T:0.41
Consensus pattern (88 bp):
GAAACAAATAGTTGGATTTATTTATCTATTTTAGAAAAGGAAATAAATCGTTAGATTTAGTTTCC
TATTTTGTAAAAGAAAATAAATC
Found at i:1582835 original size:2 final size:2
Alignment explanation
Indices: 1582828--1582852 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1582818 AAATAGGGGA
1582828 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
1582853 CCTTAGATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1589272 original size:273 final size:274
Alignment explanation
Indices: 1588763--1589305 Score: 824
Period size: 273 Copynumber: 2.0 Consensus size: 274
1588753 GATACGCATA
*
1588763 GGAGCAGACAACATGGGGTATCTCTTGTGTATGACATTACAAAACTAACTAGCCTAAAATTTGTA
1 GGAGCAGACAACATGGGGTATCTCTTGTGTATGACATTACAAAACTAACTAGACTAAAATTTGTA
* * * * *
1588828 GAAAAAGTTCAGTTATGATCCTAATCTTCACAAATGGAATGGTAGAGTAGACGGATTTAGTATGG
66 GAAAAAGTTCAGTGATAATCCTAATCTTCACAAATGGAATAGTAGAGTAGACAGATTTAGTATAG
1588893 GTCAGTTATTTGAGGACTGAATTCTAAATATGGGATTGTCTGACCATCAAAAACACATACTATAA
131 GTCAGTTATTTGAGGACTGAATTCTAAATATGGGATTGTCTGACCATCAAAAACACATACTATAA
* *
1588958 CAGGTTCTTCTTGATGAACTTAAGAACATAATCTGAATACTCAAAAGGTTGATAAATTTATTATA
196 CAGGTTCTTCTTGATGAACTTAAGAACATAATATAAATACTCAAAAGGTTGATAAATTTATTATA
1589023 GATTATACAATATG
261 GATTATACAATATG
* * * * * *
1589037 GGAGCGGACAACAT-GGG-ATCTCTTGTGTATGATATTGCAAAACTAACTAGACTACACTTATTT
1 GGAGCAGACAACATGGGGTATCTCTTGTGTATGACATTACAAAACTAACTAGACTAAAATT-TGT
* * * * * *
1589100 TGAAGACGTTCAGTGATAATTCTAATCTTCACAAATGGAATAGTGGAGTAGATAGATTT-GTATA
65 AGAAAAAGTTCAGTGATAATCCTAATCTTCACAAATGGAATAGTAGAGTAGACAGATTTAGTATA
*
1589164 GGTCAGTTATTTGAGGACTGAATTCTAAATATGGGATTGT-TGACCATCAAAAACATATAGACTA
130 GGTCAGTTATTTGAGGACTGAATTCTAAATATGGGATTGTCTGACCATCAAAAACACAT--ACTA
* *
1589228 TAACATGTTCTTCTTGATGAACTTAAGAACATAATATAAATACTCAAAAGGTTGATAGATTTATT
193 TAACAGGTTCTTCTTGATGAACTTAAGAACATAATATAAATACTCAAAAGGTTGATAAATTTATT
1589293 ATAGATTATACAA
258 ATAGATTATACAA
1589306 GAAAGCTAAG
Statistics
Matches: 243, Mismatches: 23, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
271 17 0.07
272 81 0.33
273 132 0.54
274 13 0.05
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.32
Consensus pattern (274 bp):
GGAGCAGACAACATGGGGTATCTCTTGTGTATGACATTACAAAACTAACTAGACTAAAATTTGTA
GAAAAAGTTCAGTGATAATCCTAATCTTCACAAATGGAATAGTAGAGTAGACAGATTTAGTATAG
GTCAGTTATTTGAGGACTGAATTCTAAATATGGGATTGTCTGACCATCAAAAACACATACTATAA
CAGGTTCTTCTTGATGAACTTAAGAACATAATATAAATACTCAAAAGGTTGATAAATTTATTATA
GATTATACAATATG
Found at i:1591015 original size:41 final size:42
Alignment explanation
Indices: 1590929--1591008 Score: 101
Period size: 42 Copynumber: 1.9 Consensus size: 42
1590919 ATTTGGGCCA
* * *
1590929 TAAGTCTTTTGAGCATGATGATTAAATTCTTTGGGTCATATG
1 TAAGTCTTTCGAGCAAGATGATTAAATTCTTTGGGCCATATG
*
1590971 TAAGTCTTTCGAGCAAGATGA-T-AAGTCTTTTGGGCCAT
1 TAAGTCTTTCGAGCAAGATGATTAAATTC-TTTGGGCCAT
1591009 TCGTAAGACC
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
40 4 0.12
41 10 0.30
42 19 0.58
ACGTcount: A:0.26, C:0.12, G:0.23, T:0.39
Consensus pattern (42 bp):
TAAGTCTTTCGAGCAAGATGATTAAATTCTTTGGGCCATATG
Found at i:1591643 original size:38 final size:38
Alignment explanation
Indices: 1591577--1592055 Score: 641
Period size: 38 Copynumber: 12.8 Consensus size: 38
1591567 AAGTTTCTAC
*
1591577 TGAC-TCCTCGCGAAGAGGAA-TCAATCTTTGTTATTCT
1 TGACTTCCTCGTGAAGA-GAAGTCAATCTTTGTTATTCT
* *
1591614 TAACTTCCTCGTGAAGAGAAGTCAGTCTTTGTTATTCT
1 TGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCT
* * *
1591652 TAACTTCCTCGTGAAGAGAAATCAATATTTGTTATTCT
1 TGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCT
* *
1591690 TGACTTCCTCGTTAAGAGAAGT-AAGTCTTTATTATTCT
1 TGACTTCCTCGTGAAGAGAAGTCAA-TCTTTGTTATTCT
*
1591728 TGACTTCCTCGTGAAGAGAAGTCAGTCTTTGTTATTCT
1 TGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCT
* * *
1591766 TTACTTCCTCGTGAAGATAAGTTAATCTTTGTTATTCT
1 TGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCT
* *
1591804 TGACTTCCTCGTGAAGATAAGTCAGTCTTTGTTATTCT
1 TGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCT
* * * * *
1591842 TGACTTACTCATTAAGAGAAGTCTATCTTAGTTATTCT
1 TGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCT
* *
1591880 TGACTTCCTCATG-AGAGAA-TCAATCTTTTTTATTCT
1 TGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCT
1591916 TGAC-TCCTCGTGAAGAGAAGTCAATCTTTGTTATTCT
1 TGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCT
* * * *
1591953 TGACTTCCTCGTAAAGAGAAATCAGTCGTTGTTATT-T
1 TGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCT
*
1591990 CGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTC-
1 TGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCT
*
1592027 TGACTTTCTCGTGAAGAGAAGTCAATCTT
1 TGACTTCCTCGTGAAGAGAAGTCAATCTT
1592056 CTCGCGAAGA
Statistics
Matches: 388, Mismatches: 46, Indels: 16
0.86 0.10 0.04
Matches are distributed among these distances:
35 7 0.02
36 24 0.06
37 93 0.24
38 263 0.68
39 1 0.00
ACGTcount: A:0.25, C:0.18, G:0.17, T:0.40
Consensus pattern (38 bp):
TGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCT
Found at i:1592064 original size:22 final size:22
Alignment explanation
Indices: 1592032--1592074 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
1592022 TATTCTGACT
*
1592032 TTCTCGTGAAGAGAAGTCAATC
1 TTCTCGCGAAGAGAAGTCAATC
*
1592054 TTCTCGCGAAGAGGAGTCAAT
1 TTCTCGCGAAGAGAAGTCAAT
1592075 ATTTCAGATT
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:0.30, C:0.19, G:0.26, T:0.26
Consensus pattern (22 bp):
TTCTCGCGAAGAGAAGTCAATC
Found at i:1593529 original size:14 final size:14
Alignment explanation
Indices: 1593510--1593539 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
1593500 ATAGGGAAAA
1593510 TATATATATAATAT
1 TATATATATAATAT
*
1593524 TATATATATATTAT
1 TATATATATAATAT
1593538 TA
1 TA
1593540 CCTTAGGTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TATATATATAATAT
Found at i:1595836 original size:154 final size:154
Alignment explanation
Indices: 1595556--1595864 Score: 593
Period size: 154 Copynumber: 2.0 Consensus size: 154
1595546 GGCAACGGCC
1595556 ACTCCGTCACGGTCAGGCGATGAACGATGGAGGCCTCGTGATAGACATGCGTTACCGGAGGAAAA
1 ACTCCGTCACGGTCAGGCGATGAACGATGGAGGCCTCGTGATAGACATGCGTTACCGGAGGAAAA
*
1595621 TCTTTTTCCTTCCGCTATTACATCGATGTCTGGCGGGGCATTATGGGAAGTGTCTTGACACGGTG
66 TCTTTTTCCTTCCGCTATTACATCGATGTCTGGCGGGGCATTATGGGAAGCGTCTTGACACGGTG
1595686 CATTTGGAGTTCGGCATGGCACCG
131 CATTTGGAGTTCGGCATGGCACCG
1595710 ACTCCGTCACGGTCAGGCGATGAACGATGGAGGCCTCGTGATAGACATGCGTTACACGGAGGAAA
1 ACTCCGTCACGGTCAGGCGATGAACGATGGAGGCCTCGTGATAGACATGCGTTAC-CGGAGGAAA
1595775 ATCTTTTTCCTTCCGCTATTACATCGATGTCTGGCGGGGCATTATGGGAA-CGTCTTGACACGGT
65 ATCTTTTTCCTTCCGCTATTACATCGATGTCTGGCGGGGCATTATGGGAAGCGTCTTGACACGGT
1595839 GCATTTGGAGTTCGGCATGGCACCG
130 GCATTTGGAGTTCGGCATGGCACCG
1595864 A
1 A
1595865 GGTCGTGGAC
Statistics
Matches: 153, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
154 94 0.61
155 59 0.39
ACGTcount: A:0.21, C:0.23, G:0.30, T:0.26
Consensus pattern (154 bp):
ACTCCGTCACGGTCAGGCGATGAACGATGGAGGCCTCGTGATAGACATGCGTTACCGGAGGAAAA
TCTTTTTCCTTCCGCTATTACATCGATGTCTGGCGGGGCATTATGGGAAGCGTCTTGACACGGTG
CATTTGGAGTTCGGCATGGCACCG
Done.