Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009001.1 Hibiscus syriacus cultivar Beakdansim tig00112383_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 4740655
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 20 of 24
Found at i:4038841 original size:41 final size:41
Alignment explanation
Indices: 4038796--4038895 Score: 200
Period size: 41 Copynumber: 2.4 Consensus size: 41
4038786 TTTCTTGGAT
4038796 TGTCGTCTTTAAATAAATCATATGAAAGCACTACATATATA
1 TGTCGTCTTTAAATAAATCATATGAAAGCACTACATATATA
4038837 TGTCGTCTTTAAATAAATCATATGAAAGCACTACATATATA
1 TGTCGTCTTTAAATAAATCATATGAAAGCACTACATATATA
4038878 TGTCGTCTTTAAATAAAT
1 TGTCGTCTTTAAATAAAT
4038896 TTTAAAAAAA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 59 1.00
ACGTcount: A:0.40, C:0.14, G:0.10, T:0.36
Consensus pattern (41 bp):
TGTCGTCTTTAAATAAATCATATGAAAGCACTACATATATA
Found at i:4039398 original size:2 final size:2
Alignment explanation
Indices: 4039391--4039417 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4039381 TAACTTACTT
4039391 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
4039418 TCTCTCTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4040224 original size:2 final size:2
Alignment explanation
Indices: 4040219--4040287 Score: 138
Period size: 2 Copynumber: 34.5 Consensus size: 2
4040209 TATAGAAAAG
4040219 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4040261 AT 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 AT A
4040288 GAAGATTTAA
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 67 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4041420 original size:19 final size:19
Alignment explanation
Indices: 4041395--4041440 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
4041385 TCTAGGTTGA
4041395 AAGGAAAATGAGAGGGAAG
1 AAGGAAAATGAGAGGGAAG
*
4041414 TAGGAAAATGAGAGGGAAG
1 AAGGAAAATGAGAGGGAAG
4041433 AAGGAAAA
1 AAGGAAAA
4041441 AAAAGACAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.54, C:0.00, G:0.39, T:0.07
Consensus pattern (19 bp):
AAGGAAAATGAGAGGGAAG
Found at i:4043007 original size:14 final size:14
Alignment explanation
Indices: 4042988--4043089 Score: 71
Period size: 14 Copynumber: 6.9 Consensus size: 14
4042978 TTTGTCCGGG
*
4042988 TTATAAATATTATA
1 TTATAATTATTATA
4043002 TTATAATTATTACTA
1 TTATAATTATTA-TA
4043017 TTATATTATTATTATA
1 TTATA--ATTATTATA
*
4043033 TTATTATTATTACTA
1 TTATAATTATTA-TA
* *
4043048 TAAAAATTA-TATAA
1 TTATAATTATTAT-A
* * *
4043062 TAATAATAATAATAA
1 TTATAATTATTAT-A
*
4043077 TTATTATTATTAT
1 TTATAATTATTAT
4043090 CATCATTTAT
Statistics
Matches: 70, Mismatches: 12, Indels: 11
0.75 0.13 0.12
Matches are distributed among these distances:
13 1 0.01
14 28 0.40
15 28 0.40
16 6 0.09
17 7 0.10
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (14 bp):
TTATAATTATTATA
Found at i:4043012 original size:9 final size:9
Alignment explanation
Indices: 4043000--4043089 Score: 53
Period size: 9 Copynumber: 10.3 Consensus size: 9
4042990 ATAAATATTA
4043000 TATTATAAT
1 TATTATAAT
4043009 TATTACT-AT
1 TATTA-TAAT
*
4043018 TA-TATTAT
1 TATTATAAT
4043026 TATTAT-AT
1 TATTATAAT
*
4043034 TATTATTAT
1 TATTATAAT
* *
4043043 TACTATAAA
1 TATTATAAT
*
4043052 AATTAT-AT
1 TATTATAAT
* *
4043060 AATAATAAT
1 TATTATAAT
* *
4043069 AATAATAAT
1 TATTATAAT
*
4043078 TATTATTAT
1 TATTATAAT
4043087 TAT
1 TAT
4043090 CATCATTTAT
Statistics
Matches: 66, Mismatches: 10, Indels: 10
0.77 0.12 0.12
Matches are distributed among these distances:
7 1 0.02
8 20 0.30
9 44 0.67
10 1 0.02
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (9 bp):
TATTATAAT
Found at i:4043023 original size:11 final size:11
Alignment explanation
Indices: 4042995--4043042 Score: 64
Period size: 11 Copynumber: 4.5 Consensus size: 11
4042985 GGGTTATAAA
4042995 TATTATATTA-
1 TATTATATTAT
* *
4043005 TAAT-TATTAC
1 TATTATATTAT
4043015 TATTATATTAT
1 TATTATATTAT
4043026 TATTATATTAT
1 TATTATATTAT
4043037 TATTAT
1 TATTAT
4043043 TACTATAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
9 5 0.15
10 6 0.18
11 22 0.67
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (11 bp):
TATTATATTAT
Found at i:4043026 original size:3 final size:3
Alignment explanation
Indices: 4042995--4043044 Score: 61
Period size: 3 Copynumber: 17.7 Consensus size: 3
4042985 GGGTTATAAA
* *
4042995 TAT TA- TAT TAT AAT TAT TAC TAT TA- TAT TAT TAT TA- TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
4043040 TAT TA
1 TAT TA
4043045 CTATAAAAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
2 6 0.15
3 34 0.85
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:4047623 original size:31 final size:32
Alignment explanation
Indices: 4047587--4047655 Score: 104
Period size: 32 Copynumber: 2.2 Consensus size: 32
4047577 CCGATCCAAT
*
4047587 TTGACCTG-ACCAAAAATCAAATGATCTGATA
1 TTGACCCGAACCAAAAATCAAATGATCTGATA
* *
4047618 TTGACCCGAATCAAAAATCAACTGATCTGATA
1 TTGACCCGAACCAAAAATCAAATGATCTGATA
4047650 TTGACC
1 TTGACC
4047656 AAAACCAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
31 7 0.21
32 27 0.79
ACGTcount: A:0.39, C:0.22, G:0.13, T:0.26
Consensus pattern (32 bp):
TTGACCCGAACCAAAAATCAAATGATCTGATA
Found at i:4047951 original size:2 final size:2
Alignment explanation
Indices: 4047944--4048005 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
4047934 ATTAATGACG
4047944 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
4047986 TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA
4048006 CACAGTTACT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4056769 original size:21 final size:21
Alignment explanation
Indices: 4056743--4056788 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
4056733 GATACACCCA
* *
4056743 CAATAGCGCCCGCTATGGCTG
1 CAATAGCGCCCACTATGGCCG
*
4056764 CAATAGCGCCTACTATGGCCG
1 CAATAGCGCCCACTATGGCCG
4056785 CAAT
1 CAAT
4056789 CGTGGTAAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.24, C:0.33, G:0.24, T:0.20
Consensus pattern (21 bp):
CAATAGCGCCCACTATGGCCG
Found at i:4068090 original size:21 final size:21
Alignment explanation
Indices: 4068066--4068135 Score: 122
Period size: 21 Copynumber: 3.3 Consensus size: 21
4068056 TGGTAGGAGG
4068066 AGAAAGAATAAAGAAAAGGAA
1 AGAAAGAATAAAGAAAAGGAA
4068087 AGAAAGAATAAAGAAAAGGAA
1 AGAAAGAATAAAGAAAAGGAA
*
4068108 AGAAAGAATAAAGAAAATGAA
1 AGAAAGAATAAAGAAAAGGAA
*
4068129 GGAAAGA
1 AGAAAGA
4068136 GCAGAAGCCG
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 47 1.00
ACGTcount: A:0.70, C:0.00, G:0.24, T:0.06
Consensus pattern (21 bp):
AGAAAGAATAAAGAAAAGGAA
Found at i:4078764 original size:55 final size:51
Alignment explanation
Indices: 4078673--4079076 Score: 306
Period size: 55 Copynumber: 7.6 Consensus size: 51
4078663 TCGACCATCG
* * ** *
4078673 GGTTCGCTCCCTATTGCTTCAGGGAGTATAAAACTCAAACAATCTTAATAAAAC
1 GGTTCGCTCCCTATTCCTTCAGAGAGTATAGGACT--AACAATCTTAA-CAAAC
*
4078727 AGGTTCGTTCCCTATTCCTTCAGAGAGTATAGGACT--CAATCTTCAACAAAC
1 -GGTTCGCTCCCTATTCCTTCAGAGAGTATAGGACTAACAATCTT-AACAAAC
*
4078778 GTGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACT--CAATCTTCAACAAAC
1 G-GTTCGCTCCCTATTCCTTCAGAGAGTATAGGACTAACAATCTT-AACAAAC
* *
4078829 GTGTCCGCTCCCTATTTCTTCAGAGAGTATAGGACT--CAATCTTCAACAAAC
1 G-GTTCGCTCCCTATTCCTTCAGAGAGTATAGGACTAACAATCTT-AACAAAC
** * * * *
4078880 GTGCCCGCTCCCTATTTCTTCAGAGAGTATATGACTTGAACAACCTTTAATAAAC
1 G-GTTCGCTCCCTATTCCTTCAGAGAGTATAGGAC-T-AACAATC-TTAACAAAC
*
4078935 -GTGTCTGCTCCCTATTTCTTCAGAGAGTATAGGACTTGAACAATCTTTAACAAA-
1 GGT-TC-GCTCCCTATTCCTTCAGAGAGTATAGGAC-T-AACAATC-TTAACAAAC
* * * * * *
4078989 TGTGTCTACTCCTTATTCCTTCAGAGAGTATAAGACTCGAACAAGCTTAAACAATC
1 GGT-TC-GCTCCCTATTCCTTCAGAGAGTATAGGACT--AACAATCTT-AACAAAC
4079045 -GTGTCTGCTCCCTATTCCTTCAG-GAAGTATAG
1 GGT-TC-GCTCCCTATTCCTTCAGAG-AGTATAG
4079077 AACTCGAATA
Statistics
Matches: 308, Mismatches: 27, Indels: 28
0.85 0.07 0.08
Matches are distributed among these distances:
50 1 0.00
51 141 0.46
52 3 0.01
53 1 0.00
54 5 0.02
55 155 0.50
56 2 0.01
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (51 bp):
GGTTCGCTCCCTATTCCTTCAGAGAGTATAGGACTAACAATCTTAACAAAC
Found at i:4079048 original size:110 final size:105
Alignment explanation
Indices: 4078677--4079081 Score: 437
Period size: 102 Copynumber: 3.8 Consensus size: 105
4078667 CCATCGGGTT
* * * * * *
4078677 CGCTCCCTATTGCTTCAGGGAGTATAAAACTCAAACAATCTTAATA-AAACAG-GT-TCGTTCCC
1 CGCTCCCTATTCCTTCAGAGAGTATAAGACT-GAACAACCTTAA-ACAAAC-GTGTCT-GCTCCC
4078739 TATTCCTTCAGAGAGTATAGGACTCAATCTTCAACAAACGTGTC
62 TATTCCTTCAGAGAGTATAGGACTCAATCTTCAACAAACGTGTC
* * * *
4078783 CGCTCCCTATTCCTTCAGAGAGTATAGGACT---CAATCTTCAACAAACGTGTCCGCTCCCTATT
1 CGCTCCCTATTCCTTCAGAGAGTATAAGACTGAACAACCTTAAACAAACGTGTCTGCTCCCTATT
* *
4078845 TCTTCAGAGAGTATAGGACTCAATCTTCAACAAACGTGCC
66 CCTTCAGAGAGTATAGGACTCAATCTTCAACAAACGTGTC
* * * *
4078885 CGCTCCCTATTTCTTCAGAGAGTATATGACTTGAACAACCTTTAATAAACGTGTCTGCTCCCTAT
1 CGCTCCCTATTCCTTCAGAGAGTATAAGAC-TGAACAACCTTAAACAAACGTGTCTGCTCCCTAT
* * *
4078950 TTCTTCAGAGAGTATAGGACTTGAACAATCTTTAACAAATGTGTC
65 TCCTTCAGAGAGTATAGGAC-T---CAATCTTCAACAAACGTGTC
** * * *
4078995 TACTCCTTATTCCTTCAGAGAGTATAAGACTCGAACAAGCTTAAACAATCGTGTCTGCTCCCTAT
1 CGCTCCCTATTCCTTCAGAGAGTATAAGACT-GAACAACCTTAAACAAACGTGTCTGCTCCCTAT
*
4079060 TCCTTCAG-GAAGTATAGAACTC
65 TCCTTCAGAG-AGTATAGGACTC
4079082 GAATATATTC
Statistics
Matches: 257, Mismatches: 29, Indels: 26
0.82 0.09 0.08
Matches are distributed among these distances:
101 2 0.01
102 89 0.35
103 1 0.00
106 74 0.29
107 1 0.00
109 3 0.01
110 87 0.34
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (105 bp):
CGCTCCCTATTCCTTCAGAGAGTATAAGACTGAACAACCTTAAACAAACGTGTCTGCTCCCTATT
CCTTCAGAGAGTATAGGACTCAATCTTCAACAAACGTGTC
Found at i:4079084 original size:55 final size:54
Alignment explanation
Indices: 4078735--4079076 Score: 407
Period size: 55 Copynumber: 6.4 Consensus size: 54
4078725 ACAGGTTCGT
*
4078735 TCCCTATTCCTTCAGAGAGTATAGGACT---CAATCTTCAACAAACGTGTCCGC
1 TCCCTATTCCTTCAGAGAGTATAGGACTGAACAATCTTCAACAAACGTGTCTGC
*
4078786 TCCCTATTCCTTCAGAGAGTATAGGACT---CAATCTTCAACAAACGTGTCCGC
1 TCCCTATTCCTTCAGAGAGTATAGGACTGAACAATCTTCAACAAACGTGTCTGC
* * *
4078837 TCCCTATTTCTTCAGAGAGTATAGGACT---CAATCTTCAACAAACGTGCCCGC
1 TCCCTATTCCTTCAGAGAGTATAGGACTGAACAATCTTCAACAAACGTGTCTGC
* * * * *
4078888 TCCCTATTTCTTCAGAGAGTATATGACTTGAACAACCTTTAATAAACGTGTCTGC
1 TCCCTATTCCTTCAGAGAGTATAGGAC-TGAACAATCTTCAACAAACGTGTCTGC
* * * *
4078943 TCCCTATTTCTTCAGAGAGTATAGGACTTGAACAATCTTTAACAAATGTGTCTAC
1 TCCCTATTCCTTCAGAGAGTATAGGAC-TGAACAATCTTCAACAAACGTGTCTGC
* * * * *
4078998 TCCTTATTCCTTCAGAGAGTATAAGACTCGAACAAGCTTAAACAATCGTGTCTGC
1 TCCCTATTCCTTCAGAGAGTATAGGACT-GAACAATCTTCAACAAACGTGTCTGC
4079053 TCCCTATTCCTTCAG-GAAGTATAG
1 TCCCTATTCCTTCAGAG-AGTATAG
4079077 AACTCGAATA
Statistics
Matches: 262, Mismatches: 23, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
51 126 0.48
52 1 0.00
54 2 0.01
55 133 0.51
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.30
Consensus pattern (54 bp):
TCCCTATTCCTTCAGAGAGTATAGGACTGAACAATCTTCAACAAACGTGTCTGC
Found at i:4079196 original size:54 final size:54
Alignment explanation
Indices: 4079070--4079199 Score: 179
Period size: 54 Copynumber: 2.4 Consensus size: 54
4079060 TCCTTCAGGA
* * *
4079070 AGTATAGAACTCGAATATATTCTGCTAACGAGTTCGCTCCCTCTTTCTCTAAGG
1 AGTATAGAACTCGAACATCTTCTGCAAACGAGTTCGCTCCCTCTTTCTCTAAGG
* * * * *
4079124 AGTATAGAACTCAAACATCTTCTTCAAACGGGTTCGTTCCCTCTTTCTCTAGGG
1 AGTATAGAACTCGAACATCTTCTGCAAACGAGTTCGCTCCCTCTTTCTCTAAGG
*
4079178 AGTATGGAACTCGAACATCTTC
1 AGTATAGAACTCGAACATCTTC
4079200 ATCTGCTCCA
Statistics
Matches: 66, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 66 1.00
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (54 bp):
AGTATAGAACTCGAACATCTTCTGCAAACGAGTTCGCTCCCTCTTTCTCTAAGG
Found at i:4080378 original size:9 final size:9
Alignment explanation
Indices: 4080350--4080438 Score: 70
Period size: 9 Copynumber: 9.6 Consensus size: 9
4080340 GAACCCTCTA
4080350 TTTTTCTTT
1 TTTTTCTTT
* *
4080359 TTCTTCATT
1 TTTTTCTTT
*
4080368 TTTTTGTTT
1 TTTTTCTTT
* *
4080377 TTCTTATTT
1 TTTTTCTTT
* *
4080386 TTCTTATTT
1 TTTTTCTTT
4080395 TTTTTCCTTT
1 TTTTT-CTTT
*
4080405 TTTTCCTTT
1 TTTTTCTTT
*
4080414 TTTTCCTTTTT
1 TTTT--TCTTT
4080425 TTTTTCTTT
1 TTTTTCTTT
4080434 TTTTT
1 TTTTT
4080439 AAGCAAAATA
Statistics
Matches: 64, Mismatches: 13, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
9 50 0.78
10 7 0.11
11 7 0.11
ACGTcount: A:0.03, C:0.13, G:0.01, T:0.82
Consensus pattern (9 bp):
TTTTTCTTT
Found at i:4080400 original size:21 final size:19
Alignment explanation
Indices: 4080350--4080438 Score: 74
Period size: 21 Copynumber: 4.4 Consensus size: 19
4080340 GAACCCTCTA
**
4080350 TTTTTCTTTTTCTTCATTT-
1 TTTTT-TTTTTCTTTTTTTC
*
4080369 TTTTGTTTTTCTTATTTTTC
1 TTTTTTTTTTCTT-TTTTTC
4080389 TTATTTTTTTTCCTTTTTTTCC
1 TT-TTTTTTTT-CTTTTTTT-C
4080411 TTTTTTTCCTTT-TTTTTTTC
1 TTTTTTT--TTTCTTTTTTTC
4080431 TTTTTTTT
1 TTTTTTTT
4080439 AAGCAAAATA
Statistics
Matches: 59, Mismatches: 4, Indels: 15
0.76 0.05 0.19
Matches are distributed among these distances:
18 9 0.15
19 7 0.12
20 10 0.17
21 24 0.41
22 6 0.10
23 3 0.05
ACGTcount: A:0.03, C:0.13, G:0.01, T:0.82
Consensus pattern (19 bp):
TTTTTTTTTTCTTTTTTTC
Found at i:4080417 original size:30 final size:30
Alignment explanation
Indices: 4080374--4080438 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
4080364 CATTTTTTTG
4080374 TTTTTCTTATTTTT-CTTATTTTTTTTCCTT
1 TTTTTCTTATTTTTCCTT-TTTTTTTTCCTT
*
4080404 TTTTTCCTT-TTTTTCCTTTTTTTTTTCTTT
1 TTTTT-CTTATTTTTCCTTTTTTTTTTCCTT
4080434 TTTTT
1 TTTTT
4080439 AAGCAAAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
30 26 0.81
31 6 0.19
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.83
Consensus pattern (30 bp):
TTTTTCTTATTTTTCCTTTTTTTTTTCCTT
Found at i:4099832 original size:55 final size:53
Alignment explanation
Indices: 4099773--4100207 Score: 242
Period size: 54 Copynumber: 7.8 Consensus size: 53
4099763 CCGATACAGT
* * * *
4099773 AATTCACAAACTCATTAGGAATTACGTGGGATTGTACACATAGTGCAATTATGGA
1 AATTCATAAACTCATTATGAATTTCGTGGG-TTGTACACATAGTGCAA-TACGGA
*
4099828 AATTCATAAACTCATTATGAATTTCGTGAGGTTATACACATAGTGCCAATACGGA
1 AATTCATAAACTCATTATGAATTTCGTG-GGTTGTACACATAGTG-CAATACGGA
* * * * **
4099883 AATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTGCCAATACAAA
1 AATTCATAAACTCATTATGAATTTCGTGGGTTGTACACATAGTG-CAATACGGA
* * * * ** * * * **
4099937 AATTCGT-AACTTATTATGAACTTCTTAAGTTGCACACACAGTGCCGATACAAA
1 AATTCATAAACTCATTATGAATTTCGTGGGTTGTACACATAGTG-CAATACGGA
* ** * ** * *
4099990 AATTCATAAACTTATTATGAATTTATTAGGTTACACACATAGTGCCAATAAGAA
1 AATTCATAAACTCATTATGAATTTCGTGGGTTGTACACATAGTG-CAATACGGA
* * ** * * * *
4100044 AATTCATAAACTTATTATGAACTTCTTATGAACTTCTTAAGTTGCACACACAGTGCCAAAACAGA
1 AATTCATAAACTCATTATG-A------AT----TTCGTGGGTTGTACACATAGTG-CAATACGGA
* * * * *
4100109 AATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTGCCAATACGAA
1 AATTCATAAACTCATTATGAATTTCGTGGGTTGTACACATAGTG-CAATACGGA
* * ** * *
4100163 AATTTATAAACTTATTATGAATTTATTAGGTTGCACACATAGTGC
1 AATTCATAAACTCATTATGAATTTCGTGGGTTGTACACATAGTGC
4100208 CCATTCAGTA
Statistics
Matches: 325, Mismatches: 41, Indels: 30
0.82 0.10 0.08
Matches are distributed among these distances:
53 49 0.15
54 154 0.47
55 69 0.21
56 5 0.02
58 2 0.01
61 2 0.01
64 1 0.00
65 43 0.13
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (53 bp):
AATTCATAAACTCATTATGAATTTCGTGGGTTGTACACATAGTGCAATACGGA
Found at i:4099940 original size:54 final size:54
Alignment explanation
Indices: 4099827--4100208 Score: 453
Period size: 54 Copynumber: 6.9 Consensus size: 54
4099817 GCAATTATGG
* * ** **
4099827 AAATTCATAAACTCATTATGAATTTCGTGAGGTTATACACATAGTGCCAATACGG
1 AAATTCATAAACTTATTATGAATTTC-TTAGGTTGCACACATAGTGCCAATACAA
4099882 AAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTGCCAATACAA
1 AAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTGCCAATACAA
* * * * *
4099936 AAATTCGT-AACTTATTATGAACTTCTTAAGTTGCACACACAGTGCCGATACAA
1 AAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTGCCAATACAA
* *
4099989 AAATTCATAAACTTATTATGAATTTATTAGGTTACACACATAGTGCCAATA-AGA
1 AAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTGCCAATACA-A
* * * *
4100043 AAATTCATAAACTTATTATGAACTTCTTATGAACTTCTTAAGTTGCACACACAGTGCCAAAACAG
1 AAATTCATAAACTTATTATG-A------AT----TTCTTAGGTTGCACACATAGTGCCAATACAA
*
4100108 AAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTGCCAATACGA
1 AAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTGCCAATACAA
* *
4100162 AAATTTATAAACTTATTATGAATTTATTAGGTTGCACACATAGTGCC
1 AAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTGCC
4100209 CATTCAGTAA
Statistics
Matches: 282, Mismatches: 31, Indels: 29
0.82 0.09 0.08
Matches are distributed among these distances:
53 49 0.17
54 158 0.56
55 26 0.09
58 2 0.01
61 2 0.01
64 1 0.00
65 43 0.15
66 1 0.00
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.33
Consensus pattern (54 bp):
AAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTGCCAATACAA
Found at i:4100072 original size:11 final size:11
Alignment explanation
Indices: 4100052--4100082 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
4100042 AAAATTCATA
*
4100052 AACTTATTATG
1 AACTTCTTATG
4100063 AACTTCTTATG
1 AACTTCTTATG
4100074 AACTTCTTA
1 AACTTCTTA
4100083 AGTTGCACAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.32, C:0.16, G:0.06, T:0.45
Consensus pattern (11 bp):
AACTTCTTATG
Found at i:4100074 original size:65 final size:65
Alignment explanation
Indices: 4099998--4100136 Score: 190
Period size: 65 Copynumber: 2.1 Consensus size: 65
4099988 AAAATTCATA
* * * * *
4099998 AACTTATTATGAATTTATTAGGTTACACACATAGTGCCAATA-AGAAAATTCATAAACTTATTAT
1 AACTTCTTATGAACTTATTAAGTTACACACACAGTGCCAAAACAG-AAATTCATAAACTTATTAT
4100062 G
65 G
* *
4100063 AACTTCTTATGAACTTCTTAAGTTGCACACACAGTGCCAAAACAGAAATTCATAAACTTATTATG
1 AACTTCTTATGAACTTATTAAGTTACACACACAGTGCCAAAACAGAAATTCATAAACTTATTATG
*
4100128 AATTTCTTA
1 AACTTCTTA
4100137 GGTTGCACAC
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
65 63 0.97
66 2 0.03
ACGTcount: A:0.40, C:0.16, G:0.10, T:0.35
Consensus pattern (65 bp):
AACTTCTTATGAACTTATTAAGTTACACACACAGTGCCAAAACAGAAATTCATAAACTTATTATG
Found at i:4100092 original size:119 final size:119
Alignment explanation
Indices: 4099944--4100190 Score: 413
Period size: 119 Copynumber: 2.1 Consensus size: 119
4099934 AAAAATTCGT
* *
4099944 AACTTATTATGAACTTCTTAAGTTGCACACACAGTGCCGATACAAAAATTCATAAACTTATTATG
1 AACTTATTATGAACTTCTTAAGTTGCACACACAGTGCCAAAACAAAAATTCATAAACTTATTATG
4100009 AATTTATTAGGTTACACACATAGTGCCAATAAGAAAATTCATAAACTTATTATG
66 AATTTATTAGGTTACACACATAGTGCCAATAAGAAAATTCATAAACTTATTATG
* *
4100063 AACTTCTTATGAACTTCTTAAGTTGCACACACAGTGCCAAAACAGAAATTCATAAACTTATTATG
1 AACTTATTATGAACTTCTTAAGTTGCACACACAGTGCCAAAACAAAAATTCATAAACTTATTATG
* * * *
4100128 AATTTCTTAGGTTGCACACATAGTGCCAATACGAAAATTTATAAACTTATTATG
66 AATTTATTAGGTTACACACATAGTGCCAATAAGAAAATTCATAAACTTATTATG
*
4100182 AATTTATTA
1 AACTTATTA
4100191 GGTTGCACAC
Statistics
Matches: 118, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
119 118 1.00
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.34
Consensus pattern (119 bp):
AACTTATTATGAACTTCTTAAGTTGCACACACAGTGCCAAAACAAAAATTCATAAACTTATTATG
AATTTATTAGGTTACACACATAGTGCCAATAAGAAAATTCATAAACTTATTATG
Found at i:4100185 original size:173 final size:172
Alignment explanation
Indices: 4099891--4100208 Score: 501
Period size: 173 Copynumber: 1.8 Consensus size: 172
4099881 GAAATTCATA
* * * * *
4099891 AACTTATTATGAATTTCTTAGGTTGCACACATAGTGCCAATACAAAAATTCGTAACTTATTATGA
1 AACTTATTATGAACTTCTTAAGTTGCACACACAGTGCCAAAACAAAAATTCATAACTTATTATGA
*
4099956 ACTTCTTAAGTTGCACACACAGTGCCGATACAAAAATTCATAAACTTATTATGAATTTATTAGGT
66 ACTTCTTAAGTTGCACACACAGTGCCAATACAAAAATTCATAAACTTATTATGAATTTATTAGGT
4100021 TACACACATAGTGCCAATAAGAAAATTCATAAACTTATTATG
131 TACACACATAGTGCCAATAAGAAAATTCATAAACTTATTATG
* *
4100063 AACTTCTTATGAACTTCTTAAGTTGCACACACAGTGCCAAAACAGAAATTCATAAACTTATTATG
1 AACTTATTATGAACTTCTTAAGTTGCACACACAGTGCCAAAACAAAAATTCAT-AACTTATTATG
* * * * *
4100128 AATTTCTTAGGTTGCACACATAGTGCCAATACGAAAATTTATAAACTTATTATGAATTTATTAGG
65 AACTTCTTAAGTTGCACACACAGTGCCAATACAAAAATTCATAAACTTATTATGAATTTATTAGG
*
4100193 TTGCACACATAGTGCC
130 TTACACACATAGTGCC
4100209 CATTCAGTAA
Statistics
Matches: 131, Mismatches: 14, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
172 46 0.35
173 85 0.65
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (172 bp):
AACTTATTATGAACTTCTTAAGTTGCACACACAGTGCCAAAACAAAAATTCATAACTTATTATGA
ACTTCTTAAGTTGCACACACAGTGCCAATACAAAAATTCATAAACTTATTATGAATTTATTAGGT
TACACACATAGTGCCAATAAGAAAATTCATAAACTTATTATG
Found at i:4107232 original size:54 final size:54
Alignment explanation
Indices: 4106786--4107234 Score: 600
Period size: 54 Copynumber: 8.3 Consensus size: 54
4106776 AATTACGTGG
* * * *
4106786 GGTTGCACACATAATGCCAATACGGAAATTCACAAACTCATTATGAATTT-TGTGA
1 GGTTGCACACATAGTGCCAATACGAAAATTCATAAACTTATTATGAATTTCT-T-A
* *
4106841 GGTTGCACACATTGTGCCAATAC-AGAAATTCAT-AAGTTCATTATGAATTTCTTA
1 GGTTGCACACATAGTGCCAATACGA-AAATTCATAAACTT-ATTATGAATTTCTTA
* * * *
4106895 TGTTGCACACATATTGACAATACGAAAATTCATAAACTTATTATGAACTTCTTA
1 GGTTGCACACATAGTGCCAATACGAAAATTCATAAACTTATTATGAATTTCTTA
* * *
4106949 AGTTGCACACAAAGTGCCAATAC-AGAAATTCATAAACATATTATGAATTTCTTA
1 GGTTGCACACATAGTGCCAATACGA-AAATTCATAAACTTATTATGAATTTCTTA
* * *
4107003 GGTTGCACACATTGTGGCAATACGAAAATTCAAAAACTTATTATGAATTTCTTA
1 GGTTGCACACATAGTGCCAATACGAAAATTCATAAACTTATTATGAATTTCTTA
* *
4107057 GGTTGCACACATAGTGCCAATACGGAAATTCATAAACTTATTATGAACTTCTTA
1 GGTTGCACACATAGTGCCAATACGAAAATTCATAAACTTATTATGAATTTCTTA
* * * *
4107111 AGTTGCACACACAGTGCCAATACGAAAATTCATAAACTTATTATAAATTTCATA
1 GGTTGCACACATAGTGCCAATACGAAAATTCATAAACTTATTATGAATTTCTTA
* *
4107165 GGTTGCACACATAGTTCCAATACGAAAATTCATAAACTTATTATTAATTTCTTA
1 GGTTGCACACATAGTGCCAATACGAAAATTCATAAACTTATTATGAATTTCTTA
*
4107219 GGTTGCAAACATAGTG
1 GGTTGCACACATAGTG
4107235 TCCATTCGGT
Statistics
Matches: 345, Mismatches: 42, Indels: 15
0.86 0.10 0.04
Matches are distributed among these distances:
53 1 0.00
54 297 0.86
55 46 0.13
56 1 0.00
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.32
Consensus pattern (54 bp):
GGTTGCACACATAGTGCCAATACGAAAATTCATAAACTTATTATGAATTTCTTA
Found at i:4108859 original size:20 final size:21
Alignment explanation
Indices: 4108834--4108887 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 21
4108824 AATATAACAA
4108834 TAGTATCGATACTCGAG-GG-T
1 TAGTATCGATACT-GAGAGGCT
*
4108854 TAGTATCAATACTGAGAGGCT
1 TAGTATCGATACTGAGAGGCT
*
4108875 TGGTATCGATACT
1 TAGTATCGATACT
4108888 AATGTACATT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 3 0.10
20 14 0.48
21 12 0.41
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (21 bp):
TAGTATCGATACTGAGAGGCT
Found at i:4110839 original size:21 final size:21
Alignment explanation
Indices: 4110813--4110860 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
4110803 GGGTATTGTG
4110813 GAGTCCCGCCTTGATCGATTA
1 GAGTCCCGCCTTGATCGATTA
4110834 GAGTCCCGCCTTGATCGATTA
1 GAGTCCCGCCTTGATCGATTA
4110855 GAGTCC
1 GAGTCC
4110861 ATGGAGGGCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.19, C:0.29, G:0.25, T:0.27
Consensus pattern (21 bp):
GAGTCCCGCCTTGATCGATTA
Found at i:4113404 original size:56 final size:54
Alignment explanation
Indices: 4113342--4113448 Score: 126
Period size: 56 Copynumber: 1.9 Consensus size: 54
4113332 CTTAGGTCCG
* * *
4113342 AGACATTGGTGTAAGTGTCCGACAGA-GAGGTTCAAGACAGAGGATCGGGCTTGCCA
1 AGACATTGGCGCAAGTATCCGACA-ATGA-GTT-AAGACAGAGGATCGGGCTTGCCA
* * *
4113398 AGACATTGGCGCAAGTATCCGATAATGAGTTAAGATAGAGTATCGGGCTTG
1 AGACATTGGCGCAAGTATCCGACAATGAGTTAAGACAGAGGATCGGGCTTG
4113449 GTGCAAGAGT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
54 18 0.41
55 4 0.09
56 22 0.50
ACGTcount: A:0.30, C:0.16, G:0.32, T:0.22
Consensus pattern (54 bp):
AGACATTGGCGCAAGTATCCGACAATGAGTTAAGACAGAGGATCGGGCTTGCCA
Found at i:4120877 original size:30 final size:30
Alignment explanation
Indices: 4120809--4120895 Score: 93
Period size: 31 Copynumber: 2.9 Consensus size: 30
4120799 AGAGTCGAGG
* * * *
4120809 GTTACCTATGTCTTTCGATACATATGGACA
1 GTTACCTATGTCCTTCGAGACATATGCAAA
*
4120839 GTTTACCTATGTCCTTCGAGATATATGCAAA
1 G-TTACCTATGTCCTTCGAGACATATGCAAA
* * *
4120870 GTTACCTATGTTCTTCAAAACATATG
1 GTTACCTATGTCCTTCGAGACATATG
4120896 GATAGGTCAT
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
30 22 0.47
31 25 0.53
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.37
Consensus pattern (30 bp):
GTTACCTATGTCCTTCGAGACATATGCAAA
Found at i:4122913 original size:31 final size:31
Alignment explanation
Indices: 4122867--4122952 Score: 91
Period size: 31 Copynumber: 2.8 Consensus size: 31
4122857 CCAAATACTA
* * *
4122867 GTCATGTTTGCATTCATATAATGCACAGTAC
1 GTCAAGTTTGCATTCATATAATGCAAAATAC
* * * *
4122898 GTCAAGTTTGTATTCAAATAATGAAAAATAT
1 GTCAAGTTTGCATTCATATAATGCAAAATAC
* *
4122929 GTCAGGTTCGCATTCATATAATGC
1 GTCAAGTTTGCATTCATATAATGC
4122953 GTAACATGTT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Consensus pattern (31 bp):
GTCAAGTTTGCATTCATATAATGCAAAATAC
Found at i:4127668 original size:220 final size:223
Alignment explanation
Indices: 4127273--4127703 Score: 751
Period size: 220 Copynumber: 1.9 Consensus size: 223
4127263 CTTAAACCTT
4127273 AATCTATAAATTCACTCACCATCATCATCAATAGCACATAGTCTTCTCATCTTGTCGTGCACGCC
1 AATCTATAAATTCACTCACCATCATCATCAATAGCACATAGTCTTCTCATCTTGTCGT---CGCC
4127338 ATTCGCCATTCGTCATTAGCACATCGATCGATCGTCATTCATAGTTAGACTAAAATATTTCACAT
63 A-TCGCCATTCGTCATTAGCACATCGATCGATCGTCATTCATAGTTAGACTAAAATATTTCACAT
* *
4127403 TTTGGTGTTTCATGATCAATTAACACACTGTTCTTCGATATTCGACGACAGGAGAGTAGGGTAAT
127 TTTGATGTTTCATGATCAATTAACACACTGTTCTTCGATATTCGACAACAGGAGAGTAGGGTAAT
4127468 TGTAGTAAGGATTCAATGACAGAAGTGGTGGG
192 TGTAGTAAGGATTCAATGACAGAAGTGGTGGG
*
4127500 AATCTCTAAATTCACTCACCATCATCATCAATAGCACATAGTCTTCTCATCTTGTCGT-G-CA-C
1 AATCTATAAATTCACTCACCATCATCATCAATAGCACATAGTCTTCTCATCTTGTCGTCGCCATC
* * *
4127562 GCCATTCGTCATTCGCACATCGATCGATCGTCATTTATGGTTAGACTAAAATATTTCACATTTTG
66 GCCATTCGTCATTAGCACATCGATCGATCGTCATTCATAGTTAGACTAAAATATTTCACATTTTG
4127627 ATGTTTCATGATCAATTAACACACTGTTCTTCGATATTCGACAACAGGAGAGTAGGGTAATTGTA
131 ATGTTTCATGATCAATTAACACACTGTTCTTCGATATTCGACAACAGGAGAGTAGGGTAATTGTA
4127692 GTAAGGATTCAA
196 GTAAGGATTCAA
4127704 CGATGACAAT
Statistics
Matches: 198, Mismatches: 6, Indels: 7
0.94 0.03 0.03
Matches are distributed among these distances:
220 138 0.70
222 2 0.01
223 1 0.01
227 57 0.29
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (223 bp):
AATCTATAAATTCACTCACCATCATCATCAATAGCACATAGTCTTCTCATCTTGTCGTCGCCATC
GCCATTCGTCATTAGCACATCGATCGATCGTCATTCATAGTTAGACTAAAATATTTCACATTTTG
ATGTTTCATGATCAATTAACACACTGTTCTTCGATATTCGACAACAGGAGAGTAGGGTAATTGTA
GTAAGGATTCAATGACAGAAGTGGTGGG
Found at i:4127852 original size:13 final size:13
Alignment explanation
Indices: 4127834--4127940 Score: 65
Period size: 13 Copynumber: 7.7 Consensus size: 13
4127824 AATCATAAAA
4127834 AATATTATATATT
1 AATATTATATATT
*
4127847 AATATTATTTA-T
1 AATATTATATATT
4127859 AATATTATA-ATAT
1 AATATTATATAT-T
*
4127872 AATATATTTATATT
1 AATAT-TATATATT
* **
4127886 ATTTATTATATAAA
1 A-ATATTATATATT
4127900 AAGTATACATATATATT
1 AA-TAT---TATATATT
4127917 AATATATAATATATT
1 AATAT-T-ATATATT
*
4127932 TATATTATA
1 AATATTATA
4127941 AATATTATTT
Statistics
Matches: 73, Mismatches: 11, Indels: 20
0.70 0.11 0.19
Matches are distributed among these distances:
11 1 0.01
12 9 0.12
13 19 0.26
14 17 0.23
15 16 0.22
16 3 0.04
17 8 0.11
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (13 bp):
AATATTATATATT
Found at i:4127869 original size:20 final size:20
Alignment explanation
Indices: 4127846--4127948 Score: 62
Period size: 20 Copynumber: 5.5 Consensus size: 20
4127836 TATTATATAT
*
4127846 TAATATTATTTATAATATTA
1 TAATATTATATATAATATTA
* *
4127866 TAATATAATATATTTATATTA
1 TAATATTATATA-TAATATTA
* * *
4127887 T-TTATTATATA-AAAAGTA
1 TAATATTATATATAATATTA
4127905 TACATA-TATAT-TAATA-TA
1 TA-ATATTATATATAATATTA
4127923 TAATA-TAT-T-T-ATATTA
1 TAATATTATATATAATATTA
4127939 TAAATATTAT
1 T-AATATTAT
4127949 TTTTAATTTT
Statistics
Matches: 66, Mismatches: 10, Indels: 16
0.72 0.11 0.17
Matches are distributed among these distances:
15 3 0.05
16 5 0.08
17 10 0.15
18 12 0.18
19 8 0.12
20 20 0.30
21 8 0.12
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (20 bp):
TAATATTATATATAATATTA
Found at i:4127877 original size:33 final size:33
Alignment explanation
Indices: 4127834--4127896 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
4127824 AATCATAAAA
*
4127834 AATATTATATATTAATATTATTTATAATATTAT
1 AATATAATATATTAATATTATTTATAATATTAT
* *
4127867 AATATAATATATTTATATTATTTATTATAT
1 AATATAATATATTAATATTATTTATAATAT
4127897 AAAAAGTATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (33 bp):
AATATAATATATTAATATTATTTATAATATTAT
Found at i:4127891 original size:25 final size:24
Alignment explanation
Indices: 4127838--4127939 Score: 89
Period size: 25 Copynumber: 4.0 Consensus size: 24
4127828 ATAAAAAATA
*
4127838 TTATATATTAATATTATTTATAATA-
1 TTATATA-TAATA-TATTTATATTAT
4127863 TTATAATATAATATATTTATATTAT
1 TTAT-ATATAATATATTTATATTAT
* **
4127888 TTATTATATAAAAAGTATACATATATAT
1 TTA-TATAT-AATA-TATTTATAT-TAT
*
4127916 TAATATATAATATATTTATATTAT
1 TTATATATAATATATTTATATTAT
4127940 AAATATTATT
Statistics
Matches: 63, Mismatches: 8, Indels: 13
0.75 0.10 0.15
Matches are distributed among these distances:
24 13 0.21
25 23 0.37
26 10 0.16
27 12 0.19
28 5 0.08
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (24 bp):
TTATATATAATATATTTATATTAT
Found at i:4131856 original size:133 final size:134
Alignment explanation
Indices: 4131682--4131933 Score: 339
Period size: 133 Copynumber: 1.9 Consensus size: 134
4131672 TTATTATAAT
* * * *
4131682 TTTAAGAAAATTTATTAATTTATATATATACAAATAAGATATTTATTTATTTAGAAATATCAGAA
1 TTTAAGAAAATATATTAATATATATAAATACAAATAAGATATTTATTTATTTAAAAATATCAGAA
* * * *
4131747 AAT-GACTTCTAGGTGCTTTAAGACAGCTTTTTTCTTAATATTAAAAAATAAATAAATATTACTA
66 AATGGACATCCAGGTACTTTAAGACAGC-TCTTTCTTAATATTAAAAAATAAATAAATATTACTA
4131811 CAACA
130 CAACA
* *
4131816 TTTAA-AAAATATATTAATATATATAAATTA-AAGTATGATATTTATTTATTTAAAAATATCAGA
1 TTTAAGAAAATATATTAATATATATAAA-TACAAATAAGATATTTATTTATTTAAAAATATCAGA
* * * *
4131879 AAATGGACATCCAGTTATTTTAAGACTGCTCTTTCTTAATATTGAAAAATAAATA
65 AAATGGACATCCAGGTACTTTAAGACAGCTCTTTCTTAATATTAAAAAATAAATA
4131934 TTAAAATATG
Statistics
Matches: 102, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
133 77 0.75
134 25 0.25
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.40
Consensus pattern (134 bp):
TTTAAGAAAATATATTAATATATATAAATACAAATAAGATATTTATTTATTTAAAAATATCAGAA
AATGGACATCCAGGTACTTTAAGACAGCTCTTTCTTAATATTAAAAAATAAATAAATATTACTAC
AACA
Found at i:4134090 original size:122 final size:120
Alignment explanation
Indices: 4133877--4134160 Score: 392
Period size: 123 Copynumber: 2.3 Consensus size: 120
4133867 TGTTGAACAA
* * *
4133877 ATTCTTCTTTTTTGGGATTAGTTCTTCTCATTATGAACACTTTTAGAAATGTTGATGATGATATA
1 ATTCTTC-TTTTT-AGATAAGTTCTTCTCATTATGAAC-TTTTTAGAAATGTTGATGATGATATA
*
4133942 TCTCCTTCTGTAATAGAGTCATGC-AAAGGTTGAACAAGTTCTTCTCATTATGAACTT
63 TCTCCTTCTGCAATAGAGTCATGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTT
* * * *
4133999 CTTCTTCTTCTTTAGATAAGTTCTTCTCATTATGAACTTTCTCTGGAAATGTTGATGCTGATCTA
1 ATTCTTCTT-TTTAGATAAGTTCTTCTCATTATGAACTTT-T-TAGAAATGTTGATGATGATATA
*
4134064 TCTCCTTCTGCGATAGAGTCGA-GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTT
63 TCTCCTTCTGCAATAGAGTC-ATGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTT
*
4134122 ATTCTTCCTTTTCAGATAAGTTCTTCTCATTATGAACTT
1 ATTCTT-CTTTTTAGATAAGTTCTTCTCATTATGAACTT
4134161 CTTCTTCCTT
Statistics
Matches: 145, Mismatches: 11, Indels: 11
0.87 0.07 0.07
Matches are distributed among these distances:
120 2 0.01
121 25 0.17
122 48 0.33
123 67 0.46
124 3 0.02
ACGTcount: A:0.25, C:0.18, G:0.15, T:0.42
Consensus pattern (120 bp):
ATTCTTCTTTTTAGATAAGTTCTTCTCATTATGAACTTTTTAGAAATGTTGATGATGATATATCT
CCTTCTGCAATAGAGTCATGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTT
Found at i:4134126 original size:20 final size:20
Alignment explanation
Indices: 4134103--4134167 Score: 55
Period size: 20 Copynumber: 3.3 Consensus size: 20
4134093 GTTGAACAAG
4134103 TTCTTCTCATTATGAACTTA
1 TTCTTCTCATTATGAACTTA
* * *
4134123 TTCTTC-C-TTTTCAGA-TAA
1 TTCTTCTCATTATGA-ACTTA
*
4134141 GTTCTTCTCATTATGAACTTC
1 -TTCTTCTCATTATGAACTTA
4134162 TTCTTC
1 TTCTTC
4134168 CTTTTCAGAT
Statistics
Matches: 33, Mismatches: 7, Indels: 10
0.66 0.14 0.20
Matches are distributed among these distances:
18 6 0.18
19 8 0.24
20 14 0.42
21 5 0.15
ACGTcount: A:0.20, C:0.23, G:0.06, T:0.51
Consensus pattern (20 bp):
TTCTTCTCATTATGAACTTA
Found at i:4134143 original size:39 final size:39
Alignment explanation
Indices: 4134100--4134199 Score: 191
Period size: 39 Copynumber: 2.6 Consensus size: 39
4134090 AAGGTTGAAC
4134100 AAGTTCTTCTCATTATGAACTTATTCTTCCTTTTCAGAT
1 AAGTTCTTCTCATTATGAACTTATTCTTCCTTTTCAGAT
*
4134139 AAGTTCTTCTCATTATGAACTTCTTCTTCCTTTTCAGAT
1 AAGTTCTTCTCATTATGAACTTATTCTTCCTTTTCAGAT
4134178 AAGTTCTTCTCATTATGAACTT
1 AAGTTCTTCTCATTATGAACTT
4134200 TCTCTGGAAA
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 60 1.00
ACGTcount: A:0.23, C:0.21, G:0.08, T:0.48
Consensus pattern (39 bp):
AAGTTCTTCTCATTATGAACTTATTCTTCCTTTTCAGAT
Found at i:4134147 original size:19 final size:19
Alignment explanation
Indices: 4134123--4134186 Score: 51
Period size: 19 Copynumber: 3.3 Consensus size: 19
4134113 TATGAACTTA
4134123 TTCTTCCTTTTCAGATAAG
1 TTCTTCCTTTTCAGATAAG
* * **
4134142 TTCTTCTCATTATGA-ACT-TC
1 TTCTTC-C-TTTTCAGA-TAAG
4134162 TTCTTCCTTTTCAGATAAG
1 TTCTTCCTTTTCAGATAAG
4134181 TTCTTC
1 TTCTTC
4134187 TCATTATGAA
Statistics
Matches: 32, Mismatches: 8, Indels: 10
0.64 0.16 0.20
Matches are distributed among these distances:
18 5 0.16
19 14 0.44
20 8 0.25
21 5 0.16
ACGTcount: A:0.19, C:0.23, G:0.08, T:0.50
Consensus pattern (19 bp):
TTCTTCCTTTTCAGATAAG
Found at i:4134210 original size:162 final size:163
Alignment explanation
Indices: 4133977--4134322 Score: 597
Period size: 162 Copynumber: 2.1 Consensus size: 163
4133967 AAGGTTGAAC
*
4133977 AAGTTCTTCTCATTATGAACTTCTTCTTCTTCTTTAGATAAGTTCTTCTCATTATGAACTTTCTC
1 AAGTTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTC
* *
4134042 TGGAAATGTTGATGCTGATCTATCTCCTTCTGCGATAGAGTCGAGCAAAAGGTTGAACAAGTTCT
66 TGGAAATGTTGATACTGATCTATCTCCTTCTGCGATAGAGTCGAGCAAAAAGTTGAACAAGTTCT
4134107 TCTCATTATGAACTTATTCTTCCTT-TTCAGAT
131 TCTCATTATGAACTTATTCTTCCTTCTTCAGAT
4134139 AAGTTCTTCTCATTATGAACTTCTTCTTCCTT-TTCAGATAAGTTCTTCTCATTATGAACTTTCT
1 AAGTTCTTCTCATTATGAACTTCTTCTT-CTTCTTCAGATAAGTTCTTCTCATTATGAACTTTCT
* * *
4134203 CTGGAAATGTTGATATTGATCTATCTCCTTCTGTGATAGAGTTGAGCAAAAAGTTGAACAAGTTC
65 CTGGAAATGTTGATACTGATCTATCTCCTTCTGCGATAGAGTCGAGCAAAAAGTTGAACAAGTTC
*
4134268 TTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT
130 TTCTCATTATGAACTTATTCTTCCTTCTTCAGAT
*
4134302 GAGTTCTTCTCATTATGAACT
1 AAGTTCTTCTCATTATGAACT
4134323 CTACCTGACA
Statistics
Matches: 174, Mismatches: 8, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
162 144 0.83
163 30 0.17
ACGTcount: A:0.24, C:0.20, G:0.14, T:0.42
Consensus pattern (163 bp):
AAGTTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTC
TGGAAATGTTGATACTGATCTATCTCCTTCTGCGATAGAGTCGAGCAAAAAGTTGAACAAGTTCT
TCTCATTATGAACTTATTCTTCCTTCTTCAGAT
Found at i:4134857 original size:22 final size:22
Alignment explanation
Indices: 4134823--4134902 Score: 115
Period size: 22 Copynumber: 3.6 Consensus size: 22
4134813 AAATCCAATA
* *
4134823 AATCTTTCTTCTTTGAAAAGAG
1 AATCTATCATCTTTGAAAAGAG
* *
4134845 AATGTATCATCTTTGAAGAGAG
1 AATCTATCATCTTTGAAAAGAG
*
4134867 AATCTATCATCTTTGAAAATAG
1 AATCTATCATCTTTGAAAAGAG
4134889 AATCTATCATCTTT
1 AATCTATCATCTTT
4134903 AAAGAATGTA
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 51 1.00
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (22 bp):
AATCTATCATCTTTGAAAAGAG
Found at i:4135302 original size:20 final size:20
Alignment explanation
Indices: 4135236--4135301 Score: 96
Period size: 20 Copynumber: 3.3 Consensus size: 20
4135226 ATCACAACAT
4135236 TGGTTCAGCACCATAATTAC
1 TGGTTCAGCACCATAATTAC
*
4135256 TGGTTCAGTACCATAATTAC
1 TGGTTCAGCACCATAATTAC
* * *
4135276 TAGTTCGGCACCATAATTAA
1 TGGTTCAGCACCATAATTAC
4135296 TGGTTC
1 TGGTTC
4135302 GTAAAACATT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (20 bp):
TGGTTCAGCACCATAATTAC
Found at i:4135955 original size:25 final size:28
Alignment explanation
Indices: 4135927--4135979 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
4135917 CTATATTTTT
4135927 TTTTCA-TCATTTTTT-TTTTT-ATTTA
1 TTTTCATTCATTTTTTCTTTTTCATTTA
4135952 TTTTCATTTCATTTTTTCTTTTTCATTT
1 TTTTCA-TTCATTTTTTCTTTTTCATTT
4135980 TTCATTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
25 6 0.25
27 9 0.38
28 5 0.21
29 4 0.17
ACGTcount: A:0.13, C:0.11, G:0.00, T:0.75
Consensus pattern (28 bp):
TTTTCATTCATTTTTTCTTTTTCATTTA
Found at i:4135966 original size:21 final size:20
Alignment explanation
Indices: 4135952--4135989 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
4135942 TTTTTATTTA
4135952 TTTTCA-TTTCATTTTTTCT
1 TTTTCATTTTCATTTTTTCT
4135971 TTTTCATTTTTCATTTTTT
1 TTTTCA-TTTTCATTTTTT
4135990 TCTTCTTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 6 0.35
21 11 0.65
ACGTcount: A:0.11, C:0.13, G:0.00, T:0.76
Consensus pattern (20 bp):
TTTTCATTTTCATTTTTTCT
Found at i:4135988 original size:14 final size:14
Alignment explanation
Indices: 4135933--4135981 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
4135923 TTTTTTTTCA
4135933 TCATTTTTT-TTTT
1 TCATTTTTTCTTTT
*
4135946 T-ATTTATTT-TCATT
1 TCATTT-TTTCT-TTT
4135960 TCATTTTTTCTTTT
1 TCATTTTTTCTTTT
4135974 TCATTTTT
1 TCATTTTT
4135982 CATTTTTTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
12 4 0.13
13 5 0.17
14 16 0.53
15 5 0.17
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.78
Consensus pattern (14 bp):
TCATTTTTTCTTTT
Found at i:4135988 original size:22 final size:21
Alignment explanation
Indices: 4135958--4135998 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
4135948 TTTATTTTCA
*
4135958 TTTCATTTTTTCTTTTTCATT
1 TTTCATTTTTTCTTCTTCATT
4135979 TTTCATTTTTTTCTTCTTCA
1 TTTCA-TTTTTTCTTCTTCA
4135999 AGCATAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.10, C:0.17, G:0.00, T:0.73
Consensus pattern (21 bp):
TTTCATTTTTTCTTCTTCATT
Found at i:4146219 original size:6 final size:7
Alignment explanation
Indices: 4146202--4146232 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
4146192 CTATAATAAA
4146202 AAAAAGG
1 AAAAAGG
4146209 AAAAAGG
1 AAAAAGG
4146216 AAAAAGG
1 AAAAAGG
4146223 -AAAAGG
1 AAAAAGG
4146229 AAAA
1 AAAA
4146233 TTTGAATCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.26
7 17 0.74
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (7 bp):
AAAAAGG
Found at i:4146221 original size:14 final size:13
Alignment explanation
Indices: 4146202--4146232 Score: 53
Period size: 13 Copynumber: 2.3 Consensus size: 13
4146192 CTATAATAAA
4146202 AAAAAGGAAAAAGG
1 AAAAAGG-AAAAGG
4146216 AAAAAGGAAAAGG
1 AAAAAGGAAAAGG
4146229 AAAA
1 AAAA
4146233 TTTGAATCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.59
14 7 0.41
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (13 bp):
AAAAAGGAAAAGG
Found at i:4147000 original size:135 final size:134
Alignment explanation
Indices: 4146766--4147019 Score: 309
Period size: 135 Copynumber: 1.9 Consensus size: 134
4146756 TTATTATAAT
* * * *
4146766 TTTAAGAAAATTTATTAATTTATATATATACAAATAATATATTTATTTATTTAGAAATATCAGAA
1 TTTAAAAAAATATATTAATATATATATATACAAATAATATATTTATTTATTTAAAAATATCAGAA
* * * * *
4146831 AATGACTTCTAGGTTCTTTAAGACAGTTCTTTTCTTAATATTAAAAAATAAATAAATATTAATAA
66 AATGACATCCAGGTTCTTTAAGACAGTCCCTTTCTAAATATTAAAAAATAAATAAATATTAATAA
4146896 AACA
131 AACA
*
4146900 TTTAAAAAAATATATTAATATATATAATTTA-AAAGT-ATGATATTTATTTATTTAAAAATATCA
1 TTTAAAAAAATATATTAATATATAT-ATATACAAA-TAAT-ATATTTATTTATTTAAAAATATCA
* * * *
4146963 GAAAATTGGCATCCA-GTTATTTTAAGACTG-CCCTTTCTAAATATTAATAAATAAATA
63 GAAAA-TGACATCCAGGTT-CTTTAAGACAGTCCCTTTCTAAATATTAAAAAATAAATA
4147020 TTAAAACATG
Statistics
Matches: 101, Mismatches: 14, Indels: 9
0.81 0.11 0.07
Matches are distributed among these distances:
134 27 0.27
135 59 0.58
136 15 0.15
ACGTcount: A:0.46, C:0.07, G:0.06, T:0.41
Consensus pattern (134 bp):
TTTAAAAAAATATATTAATATATATATATACAAATAATATATTTATTTATTTAAAAATATCAGAA
AATGACATCCAGGTTCTTTAAGACAGTCCCTTTCTAAATATTAAAAAATAAATAAATATTAATAA
AACA
Found at i:4154481 original size:16 final size:16
Alignment explanation
Indices: 4154460--4154492 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
4154450 TGGAGAAACT
4154460 TGTAGAAAACAGACTG
1 TGTAGAAAACAGACTG
4154476 TGTAGAAAACAGACTG
1 TGTAGAAAACAGACTG
4154492 T
1 T
4154493 AGAAAATAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.42, C:0.12, G:0.24, T:0.21
Consensus pattern (16 bp):
TGTAGAAAACAGACTG
Found at i:4154495 original size:14 final size:15
Alignment explanation
Indices: 4154460--4154503 Score: 63
Period size: 16 Copynumber: 2.9 Consensus size: 15
4154450 TGGAGAAACT
4154460 TGTAGAAAACAGACTG
1 TGTAGAAAACAGAC-G
4154476 TGTAGAAAACAGAC-
1 TGTAGAAAACAGACG
*
4154490 TGTAGAAAATAGAC
1 TGTAGAAAACAGAC
4154504 AAGTCTGTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
14 13 0.48
16 14 0.52
ACGTcount: A:0.48, C:0.11, G:0.23, T:0.18
Consensus pattern (15 bp):
TGTAGAAAACAGACG
Found at i:4154737 original size:11 final size:11
Alignment explanation
Indices: 4154721--4154751 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
4154711 CCCCTCAAAC
4154721 TGGTGTATATA
1 TGGTGTATATA
4154732 TGGTGTATATA
1 TGGTGTATATA
*
4154743 TGTTGTATA
1 TGGTGTATA
4154752 AACCCAGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.48
Consensus pattern (11 bp):
TGGTGTATATA
Found at i:4158584 original size:14 final size:15
Alignment explanation
Indices: 4158549--4158592 Score: 72
Period size: 14 Copynumber: 2.9 Consensus size: 15
4158539 CCTGATACCA
4158549 TGTAGAAAACAGACTG
1 TGTAGAAAACAGAC-G
4158565 TGTAGAAAACAGAC-
1 TGTAGAAAACAGACG
4158579 TGTAGAAAACAGAC
1 TGTAGAAAACAGAC
4158593 AAATCTGTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
14 14 0.50
16 14 0.50
ACGTcount: A:0.48, C:0.14, G:0.23, T:0.16
Consensus pattern (15 bp):
TGTAGAAAACAGACG
Found at i:4159047 original size:21 final size:22
Alignment explanation
Indices: 4159015--4159057 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
4159005 AATTCTCTAT
4159015 ATAGTTGCAATCCATG-TTTAA
1 ATAGTTGCAATCCATGATTTAA
4159036 ATAGATTG-AATCCATGATTTAA
1 ATAG-TTGCAATCCATGATTTAA
4159058 TTTTTTGTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (22 bp):
ATAGTTGCAATCCATGATTTAA
Found at i:4164181 original size:49 final size:48
Alignment explanation
Indices: 4164128--4164236 Score: 112
Period size: 50 Copynumber: 2.2 Consensus size: 48
4164118 AATGAATATG
***
4164128 AAACTTATCATTTTGGGTGA-AGAATTTTAATAAAAAATATTTTTTATTT
1 AAACTTATCATTCAAGGTGATA-AATTTTAATAAAAAATATTTTTTA-TT
** * * *
4164177 AAACTCGTCACTTCAATGTGATAAATTTTAATAAGATATATTTTTTATT
1 AAACTTATCA-TTCAAGGTGATAAATTTTAATAAAAAATATTTTTTATT
4164226 AAACTTATCAT
1 AAACTTATCAT
4164237 ATTAAACTTA
Statistics
Matches: 48, Mismatches: 10, Indels: 5
0.76 0.16 0.08
Matches are distributed among these distances:
48 1 0.02
49 18 0.38
50 28 0.58
51 1 0.02
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.45
Consensus pattern (48 bp):
AAACTTATCATTCAAGGTGATAAATTTTAATAAAAAATATTTTTTATT
Found at i:4165247 original size:19 final size:20
Alignment explanation
Indices: 4165215--4165260 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
4165205 GTACGACCCG
4165215 AAATAATATATTTATT-AAT
1 AAATAATATATTTATTCAAT
* *
4165234 AAATATTATTTTTATTCAAT
1 AAATAATATATTTATTCAAT
4165254 AAA-AATA
1 AAATAATA
4165261 GAGATTTAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 17 0.74
20 6 0.26
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (20 bp):
AAATAATATATTTATTCAAT
Found at i:4166111 original size:21 final size:21
Alignment explanation
Indices: 4166085--4166133 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
4166075 TTATCGGAAA
* *
4166085 TATTATTATTTCTATCGGTTT
1 TATTATTATTTCTACCGATTT
* *
4166106 TGTTATTTTTTCTACCGATTT
1 TATTATTATTTCTACCGATTT
4166127 TATTATT
1 TATTATT
4166134 GTTGGGTACT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.18, C:0.10, G:0.08, T:0.63
Consensus pattern (21 bp):
TATTATTATTTCTACCGATTT
Found at i:4167734 original size:16 final size:16
Alignment explanation
Indices: 4167713--4167743 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
4167703 ACATGTATCA
4167713 AATTATTAAGCCAAGC
1 AATTATTAAGCCAAGC
4167729 AATTATTAAGCCAAG
1 AATTATTAAGCCAAG
4167744 ACCATTGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.45, C:0.16, G:0.13, T:0.26
Consensus pattern (16 bp):
AATTATTAAGCCAAGC
Found at i:4169526 original size:70 final size:70
Alignment explanation
Indices: 4169434--4169586 Score: 252
Period size: 70 Copynumber: 2.2 Consensus size: 70
4169424 TATGATTAAA
* *
4169434 AAACATAGAAGAGCATCACAAAAGTCTAAAGAGTAAAAATATGAGAACAAAACAATATCACATGG
1 AAACATAGAAGAGAATCACAAAAGTCTAAAGAGTAAAAATATGAGAACAAAACAATACCACATGG
*
4169499 CTAAT
66 CTAAG
* * *
4169504 AAATATAGAAGAGAATCCCAAAAGTCTAAAGAGTAAAAATATGAGAACAAAACAATCCCACATGG
1 AAACATAGAAGAGAATCACAAAAGTCTAAAGAGTAAAAATATGAGAACAAAACAATACCACATGG
4169569 CTAAG
66 CTAAG
4169574 AAACATAGAAGAG
1 AAACATAGAAGAG
4169587 CATCGCAACT
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
70 76 1.00
ACGTcount: A:0.54, C:0.14, G:0.16, T:0.16
Consensus pattern (70 bp):
AAACATAGAAGAGAATCACAAAAGTCTAAAGAGTAAAAATATGAGAACAAAACAATACCACATGG
CTAAG
Found at i:4169544 original size:36 final size:37
Alignment explanation
Indices: 4169432--4169550 Score: 101
Period size: 36 Copynumber: 3.4 Consensus size: 37
4169422 CATATGATTA
* *
4169432 AAAAACAT-AGAAGAGCATCACAAAAGTCTAAAGAGT
1 AAAAATATGAGAAGAGAATCACAAAAGTCTAAAGAGT
* * *
4169468 AAAAATATGAGAACA-AA--ACAATA-TC-ACATG-GCT
1 AAAAATATGAGAAGAGAATCACAAAAGTCTA-AAGAG-T
*
4169501 AATAAATAT-AGAAGAGAATCCCAAAAGTCTAAAGAGT
1 AA-AAATATGAGAAGAGAATCACAAAAGTCTAAAGAGT
4169538 AAAAATATGAGAA
1 AAAAATATGAGAA
4169551 CAAAACAATC
Statistics
Matches: 63, Mismatches: 9, Indels: 21
0.68 0.10 0.23
Matches are distributed among these distances:
32 2 0.03
33 12 0.19
34 13 0.21
36 18 0.29
37 16 0.25
38 2 0.03
ACGTcount: A:0.56, C:0.12, G:0.15, T:0.17
Consensus pattern (37 bp):
AAAAATATGAGAAGAGAATCACAAAAGTCTAAAGAGT
Found at i:4171129 original size:19 final size:18
Alignment explanation
Indices: 4171105--4171140 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
4171095 TTTATAAAAA
*
4171105 TATTAAAACTAATATATTT
1 TATTAAAA-TAAAATATTT
4171124 TATTAAAATAAAATATT
1 TATTAAAATAAAATATT
4171141 ATAAATTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (18 bp):
TATTAAAATAAAATATTT
Found at i:4172153 original size:2 final size:2
Alignment explanation
Indices: 4172146--4172170 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4172136 TCACCCATGT
4172146 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
4172171 GGAGGAAAAA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4174876 original size:22 final size:22
Alignment explanation
Indices: 4174834--4174877 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
4174824 TGTCCCCCCC
*
4174834 CCCCTTAATATAAGGATCAATG
1 CCCCTTAATATAAGGAACAATG
4174856 CCCC-TAATATAAGGAGACAATG
1 CCCCTTAATATAAGGA-ACAATG
4174878 AAGAGGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.39, C:0.23, G:0.16, T:0.23
Consensus pattern (22 bp):
CCCCTTAATATAAGGAACAATG
Found at i:4175517 original size:34 final size:35
Alignment explanation
Indices: 4175479--4175550 Score: 103
Period size: 34 Copynumber: 2.1 Consensus size: 35
4175469 AGATCATCAT
4175479 ATCATATCGAGTTAG-GTTT-TCGTACTCAAATCTG
1 ATCATATCGAGTTAGAGTTTATC-TACTCAAATCTG
*
4175513 ATCATATCGAGTTAGATTTTAATCTACTCAAATCTG
1 ATCATATCGAGTTAGAGTTT-ATCTACTCAAATCTG
4175549 AT
1 AT
4175551 TCGAGTATAA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
34 15 0.44
35 3 0.09
36 14 0.41
37 2 0.06
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.39
Consensus pattern (35 bp):
ATCATATCGAGTTAGAGTTTATCTACTCAAATCTG
Found at i:4177509 original size:14 final size:13
Alignment explanation
Indices: 4177490--4177552 Score: 81
Period size: 14 Copynumber: 4.5 Consensus size: 13
4177480 ATAAATAAGG
4177490 AACCAGAGATCAGA
1 AACCAGA-ATCAGA
4177504 AACCAGTAATCAGA
1 AACCAG-AATCAGA
*
4177518 AATCAGAGATCAGA
1 AACCAGA-ATCAGA
4177532 AACCAGTAATCAGA
1 AACCAG-AATCAGA
4177546 AACCAGA
1 AACCAGA
4177553 TATAAGAAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
13 2 0.05
14 40 0.91
15 2 0.05
ACGTcount: A:0.51, C:0.21, G:0.17, T:0.11
Consensus pattern (13 bp):
AACCAGAATCAGA
Found at i:4177521 original size:7 final size:7
Alignment explanation
Indices: 4177493--4177564 Score: 63
Period size: 7 Copynumber: 10.3 Consensus size: 7
4177483 AATAAGGAAC
*
4177493 CAGAGAT
1 CAGAAAT
*
4177500 CAGAAAC
1 CAGAAAT
*
4177507 CAGTAAT
1 CAGAAAT
4177514 CAGAAAT
1 CAGAAAT
*
4177521 CAGAGAT
1 CAGAAAT
*
4177528 CAGAAAC
1 CAGAAAT
*
4177535 CAGTAAT
1 CAGAAAT
*
4177542 CAGAAAC
1 CAGAAAT
*
4177549 CAGATAT
1 CAGAAAT
*
4177556 AAGAAAT
1 CAGAAAT
4177563 CA
1 CA
4177565 TACATTATAT
Statistics
Matches: 48, Mismatches: 17, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
7 48 1.00
ACGTcount: A:0.51, C:0.18, G:0.17, T:0.14
Consensus pattern (7 bp):
CAGAAAT
Found at i:4177525 original size:28 final size:28
Alignment explanation
Indices: 4177490--4177561 Score: 117
Period size: 28 Copynumber: 2.6 Consensus size: 28
4177480 ATAAATAAGG
4177490 AACCAGAGATCAGAAACCAGTAATCAGA
1 AACCAGAGATCAGAAACCAGTAATCAGA
*
4177518 AATCAGAGATCAGAAACCAGTAATCAGA
1 AACCAGAGATCAGAAACCAGTAATCAGA
* *
4177546 AACCAGATATAAGAAA
1 AACCAGAGATCAGAAA
4177562 TCATACATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.53, C:0.18, G:0.17, T:0.12
Consensus pattern (28 bp):
AACCAGAGATCAGAAACCAGTAATCAGA
Found at i:4177560 original size:14 final size:14
Alignment explanation
Indices: 4177490--4177561 Score: 76
Period size: 14 Copynumber: 5.1 Consensus size: 14
4177480 ATAAATAAGG
*
4177490 AACCAGAGATCAGA
1 AACCAGATATCAGA
4177504 AACCAG-TAATCAGA
1 AACCAGAT-ATCAGA
* *
4177518 AATCAGAGATCAGA
1 AACCAGATATCAGA
4177532 AACCAG-TAATCAGA
1 AACCAGAT-ATCAGA
*
4177546 AACCAGATATAAGA
1 AACCAGATATCAGA
4177560 AA
1 AA
4177562 TCATACATTA
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
14 47 0.98
15 1 0.02
ACGTcount: A:0.53, C:0.18, G:0.17, T:0.12
Consensus pattern (14 bp):
AACCAGATATCAGA
Found at i:4179828 original size:29 final size:30
Alignment explanation
Indices: 4179777--4179833 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 30
4179767 CAACCCATAA
* **
4179777 GTCGCCATGCCCTCCGGGAGACC-TTGTAG
1 GTCGCCATGCACTCCCAGAGACCATTGTAG
*
4179806 GTCGCCATGCACTCCCAGCGACCATTGT
1 GTCGCCATGCACTCCCAGAGACCATTGT
4179834 CTCCTCTTGC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 19 0.83
30 4 0.17
ACGTcount: A:0.16, C:0.37, G:0.26, T:0.21
Consensus pattern (30 bp):
GTCGCCATGCACTCCCAGAGACCATTGTAG
Found at i:4180112 original size:26 final size:25
Alignment explanation
Indices: 4180083--4180143 Score: 86
Period size: 26 Copynumber: 2.4 Consensus size: 25
4180073 TAAAAGAAAA
*
4180083 AAAGGGAGAAGAGATTGCAGCCGAAG
1 AAAGAGAGAAGAGATTGCAGCCG-AG
*
4180109 AAAGAGAGAAGATATTGCAGCCGAG
1 AAAGAGAGAAGAGATTGCAGCCGAG
*
4180134 AAAGAAAGAA
1 AAAGAGAGAA
4180144 AGAAAGAAAG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
25 11 0.34
26 21 0.66
ACGTcount: A:0.49, C:0.10, G:0.33, T:0.08
Consensus pattern (25 bp):
AAAGAGAGAAGAGATTGCAGCCGAG
Found at i:4182973 original size:59 final size:56
Alignment explanation
Indices: 4182890--4183010 Score: 170
Period size: 59 Copynumber: 2.1 Consensus size: 56
4182880 TATTATAATT
* * *
4182890 TCATTACTAGTAATAATTAGTAAATCATTAGTATCAACTAATTAAATATTAATAATAAA
1 TCATTACTAATAATAATTACTAAATCATTAGTATCAAATAATTAAATATT--TAA-AAA
* *
4182949 TCATTATTAATAATAATTACTAAATCATTAGTATCAAATCATTAAATATTTAAAAA
1 TCATTACTAATAATAATTACTAAATCATTAGTATCAAATAATTAAATATTTAAAAA
4183005 TCATTA
1 TCATTA
4183011 ATAAATTCGA
Statistics
Matches: 57, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
56 9 0.16
57 3 0.05
59 45 0.79
ACGTcount: A:0.49, C:0.09, G:0.03, T:0.39
Consensus pattern (56 bp):
TCATTACTAATAATAATTACTAAATCATTAGTATCAAATAATTAAATATTTAAAAA
Found at i:4183116 original size:14 final size:14
Alignment explanation
Indices: 4183095--4183275 Score: 160
Period size: 14 Copynumber: 14.1 Consensus size: 14
4183085 ATTAGAAATA
4183095 ATTATTAAATCATT
1 ATTATTAAATCATT
*
4183109 AGTATTAAATCATT
1 ATTATTAAATCATT
*
4183123 ATTA-TAAA--ATC
1 ATTATTAAATCATT
4183134 ATTATTAAATCATT
1 ATTATTAAATCATT
*
4183148 ACTATTAAATCATT
1 ATTATTAAATCATT
*
4183162 ATTA-T-AATGATT
1 ATTATTAAATCATT
4183174 ATTATTAAATC---
1 ATTATTAAATCATT
4183185 ATTATT--ATCATT
1 ATTATTAAATCATT
*
4183197 ATTA-T-AATGATT
1 ATTATTAAATCATT
*
4183209 ATTACTAAATCATT
1 ATTATTAAATCATT
*
4183223 ATTA-T-AATGATT
1 ATTATTAAATCATT
*
4183235 ATTATCAAATCATT
1 ATTATTAAATCATT
*
4183249 ATTA-T-AATGATT
1 ATTATTAAATCATT
*
4183261 ATTATCAAATCATT
1 ATTATTAAATCATT
4183275 A
1 A
4183276 CTAAATCATC
Statistics
Matches: 135, Mismatches: 17, Indels: 30
0.74 0.09 0.16
Matches are distributed among these distances:
9 3 0.02
11 13 0.10
12 47 0.35
13 8 0.06
14 64 0.47
ACGTcount: A:0.43, C:0.08, G:0.03, T:0.46
Consensus pattern (14 bp):
ATTATTAAATCATT
Found at i:4183202 original size:35 final size:35
Alignment explanation
Indices: 4183117--4183236 Score: 143
Period size: 35 Copynumber: 3.3 Consensus size: 35
4183107 TTAGTATTAA
* *
4183117 ATCATTATTATAA-AATCATTATTAAATCATTACTATT
1 ATCATTATTATAATGATTATTATTAAATCA-T--TATT
4183154 AAATCATTATTATAATGATTATTATTAAATCATTATT
1 --ATCATTATTATAATGATTATTATTAAATCATTATT
*
4183191 ATCATTATTATAATGATTATTACTAAATCATTATT
1 ATCATTATTATAATGATTATTATTAAATCATTATT
* *
4183226 ATAATGATTAT
1 ATCATTATTAT
4183237 TATCAAATCA
Statistics
Matches: 75, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
35 43 0.57
37 4 0.05
39 14 0.19
40 14 0.19
ACGTcount: A:0.42, C:0.07, G:0.03, T:0.47
Consensus pattern (35 bp):
ATCATTATTATAATGATTATTATTAAATCATTATT
Found at i:4183220 original size:26 final size:25
Alignment explanation
Indices: 4183082--4183419 Score: 227
Period size: 26 Copynumber: 13.7 Consensus size: 25
4183072 TTATTCCAAA
* * *
4183082 ATTATTAGAAATAATTATTA-AATC
1 ATTATTATAAATCATTATTATAATG
* *
4183106 ATTAGTATTAAATCATTATTATAA-A
1 ATTATTA-TAAATCATTATTATAATG
* * *
4183131 ATCATTATTAAATCATTACTATTAAATC
1 ATTATTA-TAAATCATTATTA-T-AATG
*
4183159 ATTATTAT-AATGATTATTATTAA--
1 ATTATTATAAATCATTATTA-TAATG
* *
4183182 ATCATTAT-TATCATTATTATAATG
1 ATTATTATAAATCATTATTATAATG
4183206 ATTATTACTAAATCATTATTATAATG
1 ATTATTA-TAAATCATTATTATAATG
4183232 ATTATTATCAAATCATTATTATAATG
1 ATTATTAT-AAATCATTATTATAATG
* *
4183258 ATTATTATCAAATCATTACTA-AATC
1 ATTATTAT-AAATCATTATTATAATG
* * * * * * *
4183283 ATCA-GATCAATGAATATTAAAATC
1 ATTATTATAAATCATTATTATAATG
4183307 ATTA-T-TAAATCATTATTATAATG
1 ATTATTATAAATCATTATTATAATG
* *
4183330 ATTATTATCAAATCATTACTA-AATC
1 ATTATTAT-AAATCATTATTATAATG
* * * * * * *
4183355 ATCA-GATCAATAAATATTAAAATC
1 ATTATTATAAATCATTATTATAATG
4183379 ATTA-T-TAAATCATTATTATAATG
1 ATTATTATAAATCATTATTATAATG
4183402 ATTATTATCAAATCATTA
1 ATTATTAT-AAATCATTA
4183420 CTAAATCATC
Statistics
Matches: 250, Mismatches: 46, Indels: 34
0.76 0.14 0.10
Matches are distributed among these distances:
22 3 0.01
23 66 0.26
24 32 0.13
25 47 0.19
26 93 0.37
27 3 0.01
28 6 0.02
ACGTcount: A:0.45, C:0.09, G:0.03, T:0.43
Consensus pattern (25 bp):
ATTATTATAAATCATTATTATAATG
Found at i:4183250 original size:72 final size:71
Alignment explanation
Indices: 4183235--4183435 Score: 339
Period size: 72 Copynumber: 2.8 Consensus size: 71
4183225 TATAATGATT
* *
4183235 ATTATCAAATCATTATTATAATGATTATTATCAAATCATTACTAAATCATCAGATCAATGAATAT
1 ATTATTAAATCATTATTATAATGATTATTAT-AAATCATTACTAAATCATCAGATCAATCAATAT
4183300 TAAAATC
65 TAAAATC
*
4183307 ATTATTAAATCATTATTATAATGATTATTATCAAATCATTACTAAATCATCAGATCAATAAATAT
1 ATTATTAAATCATTATTATAATGATTATTAT-AAATCATTACTAAATCATCAGATCAATCAATAT
4183372 TAAAATC
65 TAAAATC
*
4183379 ATTATTAAATCATTATTATAATGATTATTATCAAATCATTACTAAATCATCAAATCA
1 ATTATTAAATCATTATTATAATGATTATTAT-AAATCATTACTAAATCATCAGATCA
4183436 TTATAAATGT
Statistics
Matches: 126, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
72 126 1.00
ACGTcount: A:0.46, C:0.12, G:0.03, T:0.39
Consensus pattern (71 bp):
ATTATTAAATCATTATTATAATGATTATTATAAATCATTACTAAATCATCAGATCAATCAATATT
AAAATC
Found at i:4183281 original size:11 final size:11
Alignment explanation
Indices: 4183090--4183428 Score: 151
Period size: 11 Copynumber: 27.6 Consensus size: 11
4183080 AAATTATTAG
*
4183090 AAATAATTATT
1 AAATCATTATT
4183101 AAATCATTAGTATT
1 AAATCA-T--TATT
4183115 AAATCATTATTAT
1 AAATCATTA-T-T
4183128 AAAATCATTATT
1 -AAATCATTATT
4183140 AAATCATTACTATT
1 AAATCA-T--TATT
4183154 AAATCATTATTAT
1 AAATCATTA-T-T
*
4183167 AATGATTATTATT
1 AA--ATCATTATT
4183180 AAATCATTATT
1 AAATCATTATT
4183191 --ATCATTATT
1 AAATCATTATT
*
4183200 ATAATGATTATTACT
1 A-AATCATTA-T--T
4183215 AAATCATTATT
1 AAATCATTATT
*
4183226 ATAATGATTATTAT
1 A-AATCATTA-T-T
4183240 CAAATCATTATT
1 -AAATCATTATT
*
4183252 ATAATGATTATTAT
1 A-AATCATTA-T-T
*
4183266 CAAATCATTACT
1 -AAATCATTATT
* *
4183278 AAATCATCAGAT
1 AAATCATTA-TT
* * *
4183290 CAATGAATATT
1 AAATCATTATT
4183301 AAAATCATTATT
1 -AAATCATTATT
4183313 AAATCATTATT
1 AAATCATTATT
*
4183324 ATAATGATTATTAT
1 A-AATCATTA-T-T
*
4183338 CAAATCATTACT
1 -AAATCATTATT
* *
4183350 AAATCATCAGAT
1 AAATCATTA-TT
* * *
4183362 CAATAAATATT
1 AAATCATTATT
4183373 AAAATCATTATT
1 -AAATCATTATT
4183385 AAATCATTATT
1 AAATCATTATT
*
4183396 ATAATGATTATTAT
1 A-AATCATTA-T-T
*
4183410 CAAATCATTACT
1 -AAATCATTATT
4183422 AAATCAT
1 AAATCAT
4183429 CAAATCATTA
Statistics
Matches: 253, Mismatches: 36, Indels: 78
0.69 0.10 0.21
Matches are distributed among these distances:
9 9 0.04
11 75 0.30
12 71 0.28
13 17 0.07
14 69 0.27
15 12 0.05
ACGTcount: A:0.45, C:0.09, G:0.03, T:0.42
Consensus pattern (11 bp):
AAATCATTATT
Found at i:4183654 original size:49 final size:49
Alignment explanation
Indices: 4183591--4183863 Score: 401
Period size: 49 Copynumber: 5.6 Consensus size: 49
4183581 ATTACTAATA
4183591 ATTACTAAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATT
1 ATTACT-AATCATTACTATCAAATCATTAAATATTAATAATAATTTCATT
* *
4183641 ATTACTAATCATTACTACCAAATCATTAAATATTAATAATAATTTTATT
1 ATTACTAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATT
*
4183690 ATTACTAATCATTACTACCAAATCATTAAATATTAATAATAATTTCATT
1 ATTACTAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATT
4183739 ATTACTAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATT
1 ATTACTAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATT
* * * *
4183788 ATTACTAATCATTACTA-AATAATTATTATAATTTTAA-ATATAAATTCATT
1 ATTACTAATCATTACTATCA-AATCATTA-AATATTAATA-ATAATTTCATT
* *
4183838 ATTA--AATCATGATTATCAAATCATTA
1 ATTACTAATCATTACTATCAAATCATTA
4183864 CTAAATCAAT
Statistics
Matches: 207, Mismatches: 12, Indels: 10
0.90 0.05 0.04
Matches are distributed among these distances:
48 17 0.08
49 163 0.79
50 27 0.13
ACGTcount: A:0.45, C:0.12, G:0.00, T:0.42
Consensus pattern (49 bp):
ATTACTAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATT
Found at i:4183737 original size:22 final size:22
Alignment explanation
Indices: 4183712--4183788 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
4183702 TACTACCAAA
4183712 TCATTAAATATTAATAATAATT
1 TCATTAAATATTAATAATAATT
* *
4183734 TCATTATTACTAATCATTACT-ATCAA-A
1 TC---ATTA--AAT-ATTAATAAT-AATT
4183761 TCATTAAATATTAATAATAATT
1 TCATTAAATATTAATAATAATT
4183783 TCATTA
1 TCATTA
4183789 TTACTAATCA
Statistics
Matches: 42, Mismatches: 4, Indels: 18
0.66 0.06 0.28
Matches are distributed among these distances:
21 7 0.17
22 13 0.31
24 4 0.10
25 4 0.10
27 7 0.17
28 7 0.17
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.44
Consensus pattern (22 bp):
TCATTAAATATTAATAATAATT
Found at i:4183879 original size:25 final size:25
Alignment explanation
Indices: 4183825--4183880 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 25
4183815 ATAATTTTAA
* *
4183825 ATAT-AAATTCATTATTAAATCATG
1 ATATCAAATTCATTACTAAATCATC
4183849 ATTATCAAA-TCATTACTAAATCAATC
1 A-TATCAAATTCATTACTAAATC-ATC
4183875 ATATCA
1 ATATCA
4183881 TTATTACAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 1 0.04
25 20 0.74
26 6 0.22
ACGTcount: A:0.46, C:0.14, G:0.02, T:0.38
Consensus pattern (25 bp):
ATATCAAATTCATTACTAAATCATC
Found at i:4184312 original size:29 final size:29
Alignment explanation
Indices: 4184270--4184328 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
4184260 GATCTGTCTG
*
4184270 AACGCATAGCTGTATACATTTAATATCCT
1 AACGCATAGCTGTAGACATTTAATATCCT
4184299 AACGCATAGCTGTAGACATTTAATATCCT
1 AACGCATAGCTGTAGACATTTAATATCCT
4184328 A
1 A
4184329 CGTAGGTGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.36, C:0.20, G:0.12, T:0.32
Consensus pattern (29 bp):
AACGCATAGCTGTAGACATTTAATATCCT
Found at i:4186485 original size:17 final size:17
Alignment explanation
Indices: 4186430--4186490 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
4186420 ATAATATAAA
*
4186430 TTAAACAAAATATTTTT
1 TTAAACACAATATTTTT
* *
4186447 TTAAAACAACACTAAATATTT
1 TT-AAAC-ACA--ATATTTTT
4186468 TTAAACACAATATTTTT
1 TTAAACACAATATTTTT
4186485 TTAAAC
1 TTAAAC
4186491 GGAAATTATC
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
17 14 0.40
18 4 0.11
19 5 0.14
20 4 0.11
21 8 0.23
ACGTcount: A:0.48, C:0.11, G:0.00, T:0.41
Consensus pattern (17 bp):
TTAAACACAATATTTTT
Found at i:4187021 original size:28 final size:30
Alignment explanation
Indices: 4186973--4187035 Score: 112
Period size: 28 Copynumber: 2.2 Consensus size: 30
4186963 TTTTTTTATA
4186973 TAATATAATATATAACTTAAACTAACAAAC
1 TAATATAATATATAACTTAAACTAACAAAC
4187003 TAATAT-A-ATATAACTTAAACTAACAAAC
1 TAATATAATATATAACTTAAACTAACAAAC
4187031 TAATA
1 TAATA
4187036 ATTTATACTA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 26 0.79
29 1 0.03
30 6 0.18
ACGTcount: A:0.57, C:0.13, G:0.00, T:0.30
Consensus pattern (30 bp):
TAATATAATATATAACTTAAACTAACAAAC
Found at i:4187042 original size:28 final size:28
Alignment explanation
Indices: 4186977--4187042 Score: 107
Period size: 28 Copynumber: 2.4 Consensus size: 28
4186967 TTTATATAAT
4186977 ATAATATATAACTTAAACTAACAAACTA
1 ATAATATATAACTTAAACTAACAAACTA
4187005 AT-ATAATATAACTTAAACTAACAAACTA
1 ATAAT-ATATAACTTAAACTAACAAACTA
*
4187033 ATAATTTATA
1 ATAATATATA
4187043 CTAACAAACT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
27 2 0.06
28 31 0.89
29 2 0.06
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (28 bp):
ATAATATATAACTTAAACTAACAAACTA
Found at i:4187045 original size:21 final size:21
Alignment explanation
Indices: 4187012--4187060 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
4187002 CTAATATAAT
4187012 ATAACTTAAACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
* *
4187033 ATAATTTATACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
4187054 ATTAACT
1 A-TAACT
4187061 AAATTTTAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (21 bp):
ATAACTTAAACTAACAAACTA
Found at i:4187574 original size:29 final size:29
Alignment explanation
Indices: 4187542--4187605 Score: 110
Period size: 29 Copynumber: 2.2 Consensus size: 29
4187532 GTGTATGGAG
*
4187542 ACCTACCATGTCGTCCAGCGTGCATGGCA
1 ACCTACCATGTCGCCCAGCGTGCATGGCA
*
4187571 ACCTACCATGTCGCCCAGCGTGCATGGCG
1 ACCTACCATGTCGCCCAGCGTGCATGGCA
4187600 ACCTAC
1 ACCTAC
4187606 ACCAAGAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.20, C:0.38, G:0.23, T:0.19
Consensus pattern (29 bp):
ACCTACCATGTCGCCCAGCGTGCATGGCA
Found at i:4188556 original size:39 final size:40
Alignment explanation
Indices: 4188442--4188560 Score: 122
Period size: 39 Copynumber: 3.1 Consensus size: 40
4188432 TAAATTTGTT
*
4188442 ATTCATAA-TTCTCAAATTATTTCAC-TATAACATTCTAA
1 ATTCATAATTTCTTAAATTATTTCACATATAACATTCTAA
* ** *
4188480 AATCCCAATTTCTTAAA-T-TTTGACATCATAACATTCTAA
1 ATTCATAATTTCTTAAATTATTTCACAT-ATAACATTCTAA
* * *
4188519 ATTCTTAATTTCTTAAATTATTTTACAT-TAACGTTCTAA
1 ATTCATAATTTCTTAAATTATTTCACATATAACATTCTAA
4188558 ATT
1 ATT
4188561 ATTTTTTAAA
Statistics
Matches: 66, Mismatches: 10, Indels: 9
0.78 0.12 0.11
Matches are distributed among these distances:
37 5 0.08
38 7 0.11
39 46 0.70
40 1 0.02
41 7 0.11
ACGTcount: A:0.37, C:0.17, G:0.02, T:0.45
Consensus pattern (40 bp):
ATTCATAATTTCTTAAATTATTTCACATATAACATTCTAA
Found at i:4188819 original size:15 final size:16
Alignment explanation
Indices: 4188799--4188829 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
4188789 TGTGACCTGG
4188799 ATTATATATA-ATATA
1 ATTATATATATATATA
4188814 ATTATATATATATATA
1 ATTATATATATATATA
4188830 TTAATTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
ATTATATATATATATA
Found at i:4189593 original size:46 final size:46
Alignment explanation
Indices: 4189535--4189624 Score: 144
Period size: 46 Copynumber: 2.0 Consensus size: 46
4189525 ATTTTTGGTA
* *
4189535 GAGCGCTACCTAAAATGTTATGTTTTCTACCGGAAATATTAATAAC
1 GAGCACTACCTAAAATGCTATGTTTTCTACCGGAAATATTAATAAC
* *
4189581 GAGCACTACCTAAAATGCTATTTTTTCTACCGGAAATGTTAATA
1 GAGCACTACCTAAAATGCTATGTTTTCTACCGGAAATATTAATA
4189625 TCAGAAATAT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.33
Consensus pattern (46 bp):
GAGCACTACCTAAAATGCTATGTTTTCTACCGGAAATATTAATAAC
Found at i:4189660 original size:21 final size:22
Alignment explanation
Indices: 4189636--4189693 Score: 64
Period size: 24 Copynumber: 2.6 Consensus size: 22
4189626 CAGAAATATT
4189636 CATTTTAGGTAGCAAAAT-TAA
1 CATTTTAGGTAGCAAAATATAA
* *
4189657 CATTTTCGGTAGAAAAAATAATAA
1 CATTTTAGGTAG-CAAAAT-ATAA
*
4189681 TATTTTAGGTAGC
1 CATTTTAGGTAGC
4189694 GCTCTACCGA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
21 11 0.38
22 5 0.17
24 13 0.45
ACGTcount: A:0.41, C:0.09, G:0.16, T:0.34
Consensus pattern (22 bp):
CATTTTAGGTAGCAAAATATAA
Found at i:4191728 original size:2 final size:2
Alignment explanation
Indices: 4191721--4191752 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
4191711 GTGGATACAC
4191721 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4191753 TAAAAATACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4193502 original size:29 final size:28
Alignment explanation
Indices: 4193470--4193617 Score: 93
Period size: 29 Copynumber: 5.1 Consensus size: 28
4193460 ATTCAATTTT
*
4193470 ATAATACATAAATTAAAATAAACTTTTAA
1 ATAATACA-AAACTAAAATAAACTTTTAA
* * * **
4193499 ATAATATGAAAACTGAATTATTCATTTT-A
1 ATAATA-CAAAACTAAAATAAAC-TTTTAA
*
4193528 ATAATACAAAAACTAAAATAAAATTTTAA
1 ATAATAC-AAAACTAAAATAAACTTTTAA
* * * * **
4193557 ATAATATGAGAACTTAATTATTCATTTT-A
1 ATAATA-CAAAACTAAAATAAAC-TTTTAA
*
4193586 ATAATACAAAAACTAAAATAAAATTTTAA
1 ATAATAC-AAAACTAAAATAAACTTTTAA
4193615 ATA
1 ATA
4193618 TAATATATGG
Statistics
Matches: 85, Mismatches: 26, Indels: 16
0.67 0.20 0.13
Matches are distributed among these distances:
28 8 0.09
29 68 0.80
30 9 0.11
ACGTcount: A:0.55, C:0.07, G:0.03, T:0.35
Consensus pattern (28 bp):
ATAATACAAAACTAAAATAAACTTTTAA
Found at i:4193521 original size:58 final size:58
Alignment explanation
Indices: 4193459--4193617 Score: 257
Period size: 58 Copynumber: 2.7 Consensus size: 58
4193449 GACACTACAA
* * *
4193459 TATTCAATTTT-ATAATACATAAATTAAAATAAACTTTTAAATAATATGAAAACTGAAT
1 TATTC-ATTTTAATAATACAAAAACTAAAATAAAATTTTAAATAATATGAAAACTGAAT
* *
4193517 TATTCATTTTAATAATACAAAAACTAAAATAAAATTTTAAATAATATGAGAACTTAAT
1 TATTCATTTTAATAATACAAAAACTAAAATAAAATTTTAAATAATATGAAAACTGAAT
4193575 TATTCATTTTAATAATACAAAAACTAAAATAAAATTTTAAATA
1 TATTCATTTTAATAATACAAAAACTAAAATAAAATTTTAAATA
4193618 TAATATATGG
Statistics
Matches: 95, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
57 5 0.05
58 90 0.95
ACGTcount: A:0.53, C:0.07, G:0.03, T:0.37
Consensus pattern (58 bp):
TATTCATTTTAATAATACAAAAACTAAAATAAAATTTTAAATAATATGAAAACTGAAT
Found at i:4193528 original size:30 final size:29
Alignment explanation
Indices: 4193493--4193602 Score: 105
Period size: 29 Copynumber: 3.8 Consensus size: 29
4193483 TAAAATAAAC
*
4193493 TTTTAAATAATATGAAAACTGAATTATTCA
1 TTTT-AATAATATGAAAACTAAATTATTCA
** * **
4193523 TTTTAATAATACAAAAACTAAAATA-AAA
1 TTTTAATAATATGAAAACTAAATTATTCA
* *
4193551 TTTTAAATAATATGAGAACTTAATTATTCA
1 TTTT-AATAATATGAAAACTAAATTATTCA
**
4193581 TTTTAATAATACAAAAACTAAA
1 TTTTAATAATATGAAAACTAAA
4193603 ATAAAATTTT
Statistics
Matches: 61, Mismatches: 17, Indels: 5
0.73 0.20 0.06
Matches are distributed among these distances:
28 5 0.08
29 47 0.77
30 9 0.15
ACGTcount: A:0.53, C:0.07, G:0.04, T:0.36
Consensus pattern (29 bp):
TTTTAATAATATGAAAACTAAATTATTCA
Found at i:4194343 original size:21 final size:21
Alignment explanation
Indices: 4194319--4194369 Score: 50
Period size: 22 Copynumber: 2.4 Consensus size: 21
4194309 ACTAACATCC
4194319 TTAAAATATAATTT-ATTACTT
1 TTAAAATATAATTTAATTA-TT
* *
4194340 TTAATAATTTATTTTAATTATT
1 TTAA-AATATAATTTAATTATT
*
4194362 TAAAAATA
1 TTAAAATA
4194370 AATAAAATTC
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
21 7 0.29
22 13 0.54
23 4 0.17
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (21 bp):
TTAAAATATAATTTAATTATT
Found at i:4194466 original size:15 final size:16
Alignment explanation
Indices: 4194427--4194467 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
4194417 TATAAAATAT
4194427 TTTTTATTATGATTATA
1 TTTTTATTAT-ATTATA
4194444 -TTTT-TTAT-TTATA
1 TTTTTATTATATTATA
4194457 TTTTTATTATA
1 TTTTTATTATA
4194468 GTTTAAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 7
0.75 0.00 0.25
Matches are distributed among these distances:
13 5 0.24
14 4 0.19
15 8 0.38
16 4 0.19
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (16 bp):
TTTTTATTATATTATA
Found at i:4194620 original size:24 final size:24
Alignment explanation
Indices: 4194591--4194638 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
4194581 TAGCAACCCA
4194591 AATAATTAAATTTTAAACTACACT
1 AATAATTAAATTTTAAACTACACT
4194615 AATAATTAAATTTTAAACTACACT
1 AATAATTAAATTTTAAACTACACT
4194639 TTTATACAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (24 bp):
AATAATTAAATTTTAAACTACACT
Found at i:4195197 original size:2 final size:2
Alignment explanation
Indices: 4195190--4195251 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
4195180 ATTATACCAA
4195190 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4195232 AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
4195252 GGGGCATGGT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4196091 original size:19 final size:19
Alignment explanation
Indices: 4196067--4196109 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
4196057 ATTAATATTC
4196067 ATATATTGATTTTTTTAAA
1 ATATATTGATTTTTTTAAA
4196086 ATATATTGATTTTTTTAAA
1 ATATATTGATTTTTTTAAA
4196105 ATATA
1 ATATA
4196110 GTAAAATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.56
Consensus pattern (19 bp):
ATATATTGATTTTTTTAAA
Found at i:4197318 original size:2 final size:2
Alignment explanation
Indices: 4197311--4197337 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4197301 CTTTGTATCT
4197311 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
4197338 CACATACGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4197768 original size:482 final size:483
Alignment explanation
Indices: 4196863--4197817 Score: 1894
Period size: 482 Copynumber: 2.0 Consensus size: 483
4196853 AAATAACAAG
4196863 GTTTCAGAACTTCTTTAAACTTTTTTTTATGGGATTCAAGTGACGTGTTTTGTGGGTTTAGCATC
1 GTTTCAGAACTTCTTTAAACTTTTTTTTATGGGATTCAAGTGACGTGTTTTGTGGGTTTAGCATC
4196928 TTTTTCTTTTTGTGGGTTATACATGTATGTGCTCCTCTAACTTTAAAGTTAATACCATTTAGGTC
66 TTTTTCTTTTTGTGGGTTATACATGTATGTGCTCCTCTAACTTTAAAGTTAATACCATTTAGGTC
4196993 CTTGTTTTTGAGATTGTACAACTTGTGATTCGGCCTTTCATTTTATATTTTCCTTGCGCATAAAT
131 CTTGTTTTTGAGATTGTACAACTTGTGATTCGGCCTTTCATTTTATATTTTCCTTGCGCATAAAT
4197058 GTTTTAATGTTTTGCACATATTTTTATAAACGTCAATATGTATGGTGCTATTCAACACATATATT
196 GTTTTAATGTTTTGCACATATTTTTATAAACGTCAATATGTATGGTGCTATTCAACACATATATT
4197123 ATGAATTTTATAGTTAGATTCGTATATATTATGAATTTTATAGTTTTGTGCCCACTGTTTGACTC
261 ATGAATTTTATAGTTAGATTCGTATATATTATGAATTTTATAGTTTTGTGCCCACTGTTTGACTC
4197188 ATTTTAATTTCAATATATTATGTTCACTTCTTATGTAATGCATACATGTGCTATCATATGCCTTC
326 ATTTTAATTTCAATATATTATGTTCACTTCTTATGTAATGCATACATGTGCTATCATATGCCTTC
4197253 TGCCTCGTATTGCATGTAATATATCATATTATACGTATGTTAAATGAGCTTTGTATCTTATATAT
391 TGCCTCGTATTGCATGTAATATATCATATTATACGTATGTTAAATGAGCTTTGTATCTTATATAT
4197318 ATATATATATAT-ATATATATCACATAC
456 ATATATATATATCATATATATCACATAC
4197345 GTTTCAGAACTTCTTTAAACTTTTTTTTATGGGATTCAAGTGACGTGTTTTGTGGGTTTAGCATC
1 GTTTCAGAACTTCTTTAAACTTTTTTTTATGGGATTCAAGTGACGTGTTTTGTGGGTTTAGCATC
4197410 TTTTTCTTTTTGTGGGTTATACATGTATGTGCTCCTCTAACTTTAAAGTTAATACCATTTAGGTC
66 TTTTTCTTTTTGTGGGTTATACATGTATGTGCTCCTCTAACTTTAAAGTTAATACCATTTAGGTC
*
4197475 CTTGTTTTTGAGATTTTACAACTTGTGATTCGGCCTTTCATTTTATATTTTCCTTGCGCATAAAT
131 CTTGTTTTTGAGATTGTACAACTTGTGATTCGGCCTTTCATTTTATATTTTCCTTGCGCATAAAT
4197540 GTTTTAATGTTTTGCACATATTTTTATAAACGTCAATATGTATGGTGCTATTCAACACATATATT
196 GTTTTAATGTTTTGCACATATTTTTATAAACGTCAATATGTATGGTGCTATTCAACACATATATT
4197605 ATGAATTTTATAGTTAGATTCGTATATATTATGAATTTTATAGTTTTGTGCCCACTGTTTGACTC
261 ATGAATTTTATAGTTAGATTCGTATATATTATGAATTTTATAGTTTTGTGCCCACTGTTTGACTC
4197670 ATTTTAATTTCAATATATTATGTTCACTTCTTATGTAATGCATACATGTGCTATCATATGCCTTC
326 ATTTTAATTTCAATATATTATGTTCACTTCTTATGTAATGCATACATGTGCTATCATATGCCTTC
4197735 TGCCTCGTATTGCATGTAATATATCATATTATACGTATGTTAAATGAGCTTTGTATCTTATATAT
391 TGCCTCGTATTGCATGTAATATATCATATTATACGTATGTTAAATGAGCTTTGTATCTTATATAT
4197800 ATATATATATATCATATA
456 ATATATATATATCATATA
4197818 CGTTTCTTAT
Statistics
Matches: 471, Mismatches: 1, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
482 466 0.99
483 5 0.01
ACGTcount: A:0.26, C:0.14, G:0.14, T:0.46
Consensus pattern (483 bp):
GTTTCAGAACTTCTTTAAACTTTTTTTTATGGGATTCAAGTGACGTGTTTTGTGGGTTTAGCATC
TTTTTCTTTTTGTGGGTTATACATGTATGTGCTCCTCTAACTTTAAAGTTAATACCATTTAGGTC
CTTGTTTTTGAGATTGTACAACTTGTGATTCGGCCTTTCATTTTATATTTTCCTTGCGCATAAAT
GTTTTAATGTTTTGCACATATTTTTATAAACGTCAATATGTATGGTGCTATTCAACACATATATT
ATGAATTTTATAGTTAGATTCGTATATATTATGAATTTTATAGTTTTGTGCCCACTGTTTGACTC
ATTTTAATTTCAATATATTATGTTCACTTCTTATGTAATGCATACATGTGCTATCATATGCCTTC
TGCCTCGTATTGCATGTAATATATCATATTATACGTATGTTAAATGAGCTTTGTATCTTATATAT
ATATATATATATCATATATATCACATAC
Found at i:4203408 original size:43 final size:43
Alignment explanation
Indices: 4203347--4203524 Score: 188
Period size: 43 Copynumber: 4.2 Consensus size: 43
4203337 ACTTTGATGC
*
4203347 CCCTAATTTTTTTCAATCTCACTTTTTACTTTTATAATTGAGG
1 CCCTAATTTTTTTCAATCTCACTTTTTACATTTATAATTGAGG
* * *
4203390 TCCCTAATTCTTTT-AATCTCACTTTTTACCTTTATAATTAAGG
1 -CCCTAATTTTTTTCAATCTCACTTTTTACATTTATAATTGAGG
* * *
4203433 -CCTATAATTTTTTCAGTCTTACTTTTTACATTTATAATTGAGG
1 CCCTA-ATTTTTTTCAATCTCACTTTTTACATTTATAATTGAGG
* * *
4203476 CTCCTAATTTTTTT-AATCT-AATTTTT--ATTTAAAATTCAGG
1 C-CCTAATTTTTTTCAATCTCACTTTTTACATTTATAATTGAGG
4203516 CCTCTAATT
1 CC-CTAATT
4203525 CAATCACTTT
Statistics
Matches: 115, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
39 1 0.01
40 19 0.17
41 4 0.03
42 12 0.10
43 56 0.49
44 19 0.17
45 4 0.03
ACGTcount: A:0.26, C:0.17, G:0.06, T:0.51
Consensus pattern (43 bp):
CCCTAATTTTTTTCAATCTCACTTTTTACATTTATAATTGAGG
Found at i:4203444 original size:86 final size:83
Alignment explanation
Indices: 4203354--4203524 Score: 227
Period size: 86 Copynumber: 2.0 Consensus size: 83
4203344 TGCCCCTAAT
* *
4203354 TTTTTTCAATCTCACTTTTTACTTTTATAATTGAGG-TCCCTAATTCTTTTAATCTCACTTTTTA
1 TTTTTTCAATCTCACTTTTTACATTTATAATTGAGGCT-CCTAATTCTTTTAATCT-AATTTTTA
*
4203418 CCTTTATAATTAAGGCCTATAA
64 --TTTAAAATTAAGGCCTATAA
* * *
4203440 TTTTTTCAGTCTTACTTTTTACATTTATAATTGAGGCTCCTAATTTTTTTAATCTAATTTTTATT
1 TTTTTTCAATCTCACTTTTTACATTTATAATTGAGGCTCCTAATTCTTTTAATCTAATTTTTATT
* *
4203505 TAAAATTCAGGCCTCTAA
66 TAAAATTAAGGCCTATAA
4203523 TT
1 TT
4203525 CAATCACTTT
Statistics
Matches: 76, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
83 19 0.25
85 7 0.09
86 49 0.64
87 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.06, T:0.51
Consensus pattern (83 bp):
TTTTTTCAATCTCACTTTTTACATTTATAATTGAGGCTCCTAATTCTTTTAATCTAATTTTTATT
TAAAATTAAGGCCTATAA
Found at i:4206136 original size:20 final size:19
Alignment explanation
Indices: 4206091--4206140 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
4206081 TGTACATGAG
* *
4206091 GTAGTATCGATACTGGCTT
1 GTAGTATCGATACTGACCT
*
4206110 ATCAGTATCGATACTGACACT
1 GT-AGTATCGATACTGAC-CT
4206131 GTAGTATCGA
1 GTAGTATCGA
4206141 ACCTTCACTG
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
19 1 0.04
20 22 0.88
21 2 0.08
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (19 bp):
GTAGTATCGATACTGACCT
Found at i:4208666 original size:27 final size:28
Alignment explanation
Indices: 4208628--4208682 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
4208618 GTCACAAGAT
4208628 AAATAAATAAAAATGAAGAAAACGTTAA
1 AAATAAATAAAAATGAAGAAAACGTTAA
* * *
4208656 AAATAAA-AAAATTTAAGAAAATGTTAA
1 AAATAAATAAAAATGAAGAAAACGTTAA
4208683 TTTCTAAAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 17 0.71
28 7 0.29
ACGTcount: A:0.67, C:0.02, G:0.09, T:0.22
Consensus pattern (28 bp):
AAATAAATAAAAATGAAGAAAACGTTAA
Found at i:4208734 original size:3 final size:3
Alignment explanation
Indices: 4208726--4208755 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
4208716 AAAATCAGGA
4208726 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
4208756 TTTTATTCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:4208922 original size:32 final size:32
Alignment explanation
Indices: 4208861--4208924 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
4208851 AAAATTAAAA
* *
4208861 GACCAAAATAAAAGAACATAATTTACATTAGT
1 GACCAAAATAAAACAACATAACTTACATTAGT
*
4208893 GACCAAAATAAAACACGCATAACTT-CATTAGT
1 GACCAAAATAAAACA-ACATAACTTACATTAGT
4208925 CAGATTTGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 21 0.75
33 7 0.25
ACGTcount: A:0.50, C:0.17, G:0.09, T:0.23
Consensus pattern (32 bp):
GACCAAAATAAAACAACATAACTTACATTAGT
Found at i:4209020 original size:22 final size:20
Alignment explanation
Indices: 4208963--4209016 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 20
4208953 CAAAATGCAA
4208963 AAATTAAAATAACAGTAGCT
1 AAATTAAAATAACAGTAGCT
*
4208983 AAATAAGAAATTAACAGT-GACT
1 AAATTA-AAA-TAACAGTAG-CT
4209005 AAATTAAAATAA
1 AAATTAAAATAA
4209017 AACAACGTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
20 8 0.28
21 7 0.24
22 14 0.48
ACGTcount: A:0.59, C:0.07, G:0.09, T:0.24
Consensus pattern (20 bp):
AAATTAAAATAACAGTAGCT
Found at i:4209061 original size:21 final size:21
Alignment explanation
Indices: 4209035--4209075 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
4209025 CAACATGCAT
4209035 AATCGGAATAAAATAAAAAAA
1 AATCGGAATAAAATAAAAAAA
4209056 AATCGGAATAAAATAAAAAA
1 AATCGGAATAAAATAAAAAA
4209076 GGGTGACCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.71, C:0.05, G:0.10, T:0.15
Consensus pattern (21 bp):
AATCGGAATAAAATAAAAAAA
Found at i:4209766 original size:14 final size:13
Alignment explanation
Indices: 4209733--4209764 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
4209723 GAATTATACA
4209733 TTTTTTCTTGTTT
1 TTTTTTCTTGTTT
4209746 TTTTTTCTTGTTT
1 TTTTTTCTTGTTT
4209759 TTTTTT
1 TTTTTT
4209765 TCAACATGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.00, C:0.06, G:0.06, T:0.88
Consensus pattern (13 bp):
TTTTTTCTTGTTT
Found at i:4210338 original size:84 final size:83
Alignment explanation
Indices: 4210197--4210437 Score: 290
Period size: 84 Copynumber: 2.9 Consensus size: 83
4210187 GATATGTCCA
*
4210197 TGAGCTAAATGTAATCGAACTCGAAGG--TTTGTT-GATAGATAACCCTTCTTGCCTTGAGATAT
1 TGAGCTAAATGTAATCGAACTCGAAGGTTTTTGTTGGA-AAATAACCCTTCTTGCCTTGAGATAT
4210259 GCTGCAAATGATGCGCATT
65 GCTGCAAATGATGCGCATT
* * * *
4210278 TGAGCTGATTGTAATCGAACTCGAAGGTTTTTTGTTGGCAAATAACCCTTCTTGCCTTGAGTTAT
1 TGAGCTAAATGTAATCGAACTCGAAGG-TTTTTGTTGGAAAATAACCCTTCTTGCCTTGAGATAT
* *
4210343 GCTGCAAATGATGTGCCTT
65 GCTGCAAATGATGCGCATT
*** * * * * *
4210362 TGAGCTAAGCATAGTCAAACTCGAAGGTCTTTTGTTTGAAAATAGCCCTTCTTGCCTTGAGCTAT
1 TGAGCTAAATGTAATCGAACTCGAAGGT-TTTTGTTGGAAAATAACCCTTCTTGCCTTGAGATAT
*
4210427 GTTGCAAATGA
65 GCTGCAAATGA
4210438 ACACGATATC
Statistics
Matches: 137, Mismatches: 18, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
81 25 0.18
83 1 0.01
84 110 0.80
85 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (83 bp):
TGAGCTAAATGTAATCGAACTCGAAGGTTTTTGTTGGAAAATAACCCTTCTTGCCTTGAGATATG
CTGCAAATGATGCGCATT
Found at i:4210658 original size:124 final size:124
Alignment explanation
Indices: 4210501--4210734 Score: 378
Period size: 124 Copynumber: 1.9 Consensus size: 124
4210491 GGAACGACAT
* * *
4210501 CCTTCGTCGTGAAGTTGAAATCGTAGAGGGCCCATTCGTTGTGAAGTTGAGCCTTGAATTGGATA
1 CCTTCATCGTGAAGTTGAAACCATAGAGGGCCCATTCGTTGTGAAGTTGAGCCTTGAATTGGATA
* * *
4210566 TCCTTCGTCATGAAGTTGAAATACAATCTAAAGATGAATGTTGCTGGTGGGCACGATTC
66 TCATTCATCATGAAATTGAAATACAATCTAAAGATGAATGTTGCTGGTGGGCACGATTC
*
4210625 CCTTCATCGTGAAGTTGAAACCATAGATGGCCCATTCGTTGTGAAGTTGAGCCTTGAATTGGATA
1 CCTTCATCGTGAAGTTGAAACCATAGAGGGCCCATTCGTTGTGAAGTTGAGCCTTGAATTGGATA
* * *
4210690 TCATTCATCGTGAAATTGAAATCCAATCTCAAGATGAATGTTGCT
66 TCATTCATCATGAAATTGAAATACAATCTAAAGATGAATGTTGCT
4210735 TCGAGTCCAA
Statistics
Matches: 100, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
124 100 1.00
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (124 bp):
CCTTCATCGTGAAGTTGAAACCATAGAGGGCCCATTCGTTGTGAAGTTGAGCCTTGAATTGGATA
TCATTCATCATGAAATTGAAATACAATCTAAAGATGAATGTTGCTGGTGGGCACGATTC
Found at i:4210841 original size:64 final size:64
Alignment explanation
Indices: 4210737--4210968 Score: 270
Period size: 64 Copynumber: 3.6 Consensus size: 64
4210727 ATGTTGCTTC
* * * ** * *
4210737 GAGTCCAATATCATTCGCCGTGAAGTTGAATTTGGTTCTGAATGAAACTGGGAAGCCGTTTGTT
1 GAGTCTAATATCATTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTCGTTTGTT
* * * * *
4210801 GAGTCTAATATCCTTCGTTGTGATGTTGAAATTGACTCTGAATGAAACTGAAAAGTCATTTGTT
1 GAGTCTAATATCATTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTCGTTTGTT
* *
4210865 GAGT-TCAATATCATTCACTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTT
1 GAGTCT-AATATCATTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTCGTTTGTT
* * *
4210929 GAGTCCAAATATTC-TTCGTTGTAAAGTTGAAATTGACTCT
1 GAGT-CTAATA-TCATTCGCTGTGAAGTTGAAATTGACTCT
4210969 AAAAGCTGCA
Statistics
Matches: 141, Mismatches: 23, Indels: 7
0.82 0.13 0.04
Matches are distributed among these distances:
63 1 0.01
64 111 0.79
65 27 0.19
66 2 0.01
ACGTcount: A:0.29, C:0.13, G:0.22, T:0.36
Consensus pattern (64 bp):
GAGTCTAATATCATTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTCGTTTGTT
Found at i:4210888 original size:128 final size:129
Alignment explanation
Indices: 4210737--4210968 Score: 340
Period size: 128 Copynumber: 1.8 Consensus size: 129
4210727 ATGTTGCTTC
* * ** *
4210737 GAGTCCAATATCATTCGCCGTGAAGTTGAATTTGGTTCTGAATGAAACTGGGAAGCCGTTTGTTG
1 GAGTCCAATATCATTCACCGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGCCGTTTGTTG
* * *
4210802 AGT-CTAATATCCTTCGTTGTGATGTTGAAATTGACTCTGAATGAAACTGAAAAGTCATTTGTT
66 AGTCCAAATATCCTTCGTTGTAAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTCATTTGTT
* * **
4210865 GAGTTCAATATCATTCACTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTTG
1 GAGTCCAATATCATTCACCGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGCCGTTTGTTG
*
4210930 AGTCCAAATATTCTTCGTTGTAAAGTTGAAATTGACTCT
66 AGTCCAAATATCCTTCGTTGTAAAGTTGAAATTGACTCT
4210969 AAAAGCTGCA
Statistics
Matches: 90, Mismatches: 13, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
128 59 0.66
129 31 0.34
ACGTcount: A:0.29, C:0.13, G:0.22, T:0.36
Consensus pattern (129 bp):
GAGTCCAATATCATTCACCGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGCCGTTTGTTG
AGTCCAAATATCCTTCGTTGTAAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTCATTTGTT
Found at i:4215246 original size:20 final size:20
Alignment explanation
Indices: 4215209--4215246 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
4215199 AAAATCAAAC
*
4215209 AAAATATTATATGGTAAAAT
1 AAAATATTATATGCTAAAAT
4215229 AAAATATTGA-ATGCTAAA
1 AAAATATT-ATATGCTAAA
4215247 CAAAAAGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 15 0.94
21 1 0.06
ACGTcount: A:0.55, C:0.03, G:0.11, T:0.32
Consensus pattern (20 bp):
AAAATATTATATGCTAAAAT
Found at i:4215357 original size:28 final size:28
Alignment explanation
Indices: 4215324--4215379 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
4215314 GTCACAAGAT
*
4215324 AAATAAATAAAAATGAAGAAAACGTTAA
1 AAATAAAAAAAAATGAAGAAAACGTTAA
* *
4215352 AAATAAAAAAAAATTAAGAAAATGTTAA
1 AAATAAAAAAAAATGAAGAAAACGTTAA
4215380 TTTCTAAAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.70, C:0.02, G:0.09, T:0.20
Consensus pattern (28 bp):
AAATAAAAAAAAATGAAGAAAACGTTAA
Found at i:4215433 original size:3 final size:3
Alignment explanation
Indices: 4215425--4215454 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
4215415 AAAATTAGGA
*
4215425 AAT AAT AAT AAT AAT AGT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
4215455 TTTTATTCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:4226832 original size:167 final size:168
Alignment explanation
Indices: 4226555--4226889 Score: 663
Period size: 167 Copynumber: 2.0 Consensus size: 168
4226545 GCAAAGAAAA
4226555 GGGGTTTTAAAATTGAGAAAGATAAAAAGAAAAAGCAATTATAATTAACTAAGAATTTAGAGAAA
1 GGGGTTTTAAAATTGAGAAAGATAAAAAGAAAAAGCAATTATAATTAACTAAGAATTTAGAGAAA
4226620 TTAATATTAAGCAAATATCCAACTAAAGGTGTAATTTCAGAATTGATTCAGAGAATTGATCATAT
66 TTAATATTAAGCAAATATCCAACTAAAGGTGTAATTTCAGAATTGATTCAGAGAATTGATCATAT
4226685 ATGCAATGATAAAATCTTCTACTTTTCACTAAATTGGT
131 ATGCAATGATAAAATCTTCTACTTTTCACTAAATTGGT
4226723 GGGGTTTTAAAATTGAGAAAGAT-AAAAGAAAAAGCAATTATAATTAACTAAGAATTTAGAGAAA
1 GGGGTTTTAAAATTGAGAAAGATAAAAAGAAAAAGCAATTATAATTAACTAAGAATTTAGAGAAA
4226787 TTAATATTAAGCAAATATCCAACTAAAGGTGTAATTTCAGAATTGATTCAGAGAATTGATCATAT
66 TTAATATTAAGCAAATATCCAACTAAAGGTGTAATTTCAGAATTGATTCAGAGAATTGATCATAT
4226852 ATGCAATGATAAAATCTTCTACTTTTCACTAAATTGGT
131 ATGCAATGATAAAATCTTCTACTTTTCACTAAATTGGT
4226890 TATGGTTATT
Statistics
Matches: 167, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
167 144 0.86
168 23 0.14
ACGTcount: A:0.44, C:0.09, G:0.15, T:0.32
Consensus pattern (168 bp):
GGGGTTTTAAAATTGAGAAAGATAAAAAGAAAAAGCAATTATAATTAACTAAGAATTTAGAGAAA
TTAATATTAAGCAAATATCCAACTAAAGGTGTAATTTCAGAATTGATTCAGAGAATTGATCATAT
ATGCAATGATAAAATCTTCTACTTTTCACTAAATTGGT
Found at i:4227418 original size:12 final size:12
Alignment explanation
Indices: 4227401--4227434 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
4227391 GAAAACAAAG
4227401 AAAACTTAATGT
1 AAAACTTAATGT
*
4227413 AAAACTTGATGT
1 AAAACTTAATGT
4227425 AAAAC-TAATG
1 AAAACTTAATG
4227435 GCCCTAGCTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 4 0.20
12 16 0.80
ACGTcount: A:0.50, C:0.09, G:0.12, T:0.29
Consensus pattern (12 bp):
AAAACTTAATGT
Done.