Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009585.1 Hibiscus syriacus cultivar Beakdansim tig00116962_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: 8285662
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 17 of 35
Found at i:3405608 original size:66 final size:66
Alignment explanation
Indices: 3405515--3405642 Score: 157
Period size: 66 Copynumber: 1.9 Consensus size: 66
3405505 AGAGATGATG
* * **
3405515 CTTCAAAAGAAGCTGTCTCAAAGGAGACAAAATTTTGTTTCCTAAGAAACAAGCTCAAAGATTTT
1 CTTCAAAAGAAACTGTCTCAAAGGAGACAAAACTTTGTTTCAAAAGAAACAAGCTCAAAGATTTT
3405580 T
66 T
* ** * * * *
3405581 CTTCAAAAGAAACTGTCTCGATTGAGACGATACTTTGTTTCAAAAGAAATAATCTCAAAGAT
1 CTTCAAAAGAAACTGTCTCAAAGGAGACAAAACTTTGTTTCAAAAGAAACAAGCTCAAAGAT
3405643 GATCAATAGT
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
66 51 1.00
ACGTcount: A:0.40, C:0.16, G:0.15, T:0.29
Consensus pattern (66 bp):
CTTCAAAAGAAACTGTCTCAAAGGAGACAAAACTTTGTTTCAAAAGAAACAAGCTCAAAGATTTT
T
Found at i:3405758 original size:32 final size:32
Alignment explanation
Indices: 3405710--3405800 Score: 121
Period size: 32 Copynumber: 2.8 Consensus size: 32
3405700 TTCGCATCAG
* * *
3405710 GATGTTAAATCCCCAAAGATGCC-CTAATATTT
1 GATGTTGAATCTCCAAAGATGCCTC-AACATTT
3405742 GATGTTGAATCTCCAAAGATGCCTCAACATTT
1 GATGTTGAATCTCCAAAGATGCCTCAACATTT
*
3405774 GATGTTGAATCTTCAAAGATGTCCTCA
1 GATGTTGAATCTCCAAAGATG-CCTCA
3405801 TTGTTTATTG
Statistics
Matches: 53, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
32 47 0.89
33 6 0.11
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.32
Consensus pattern (32 bp):
GATGTTGAATCTCCAAAGATGCCTCAACATTT
Found at i:3406833 original size:21 final size:22
Alignment explanation
Indices: 3406809--3406853 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
3406799 TTACATGTGC
*
3406809 TTATTGTCCCTTT-TTCTTTGT
1 TTATTGTCCCTTTGTTATTTGT
* *
3406830 TTATTTTCTCTTTGTTATTTGT
1 TTATTGTCCCTTTGTTATTTGT
3406852 TT
1 TT
3406854 CTTTTCTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.07, C:0.13, G:0.09, T:0.71
Consensus pattern (22 bp):
TTATTGTCCCTTTGTTATTTGT
Found at i:3406856 original size:15 final size:15
Alignment explanation
Indices: 3406819--3406857 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
3406809 TTATTGTCCC
3406819 TTTTTCTTTGTTTAT
1 TTTTTCTTTGTTTAT
*
3406834 TTTCTCTTTG-TTAT
1 TTTTTCTTTGTTTAT
3406848 TTGTTTCTTT
1 TT-TTTCTTT
3406858 TCTTTTTTGC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 6 0.29
15 15 0.71
ACGTcount: A:0.05, C:0.10, G:0.08, T:0.77
Consensus pattern (15 bp):
TTTTTCTTTGTTTAT
Found at i:3406871 original size:23 final size:22
Alignment explanation
Indices: 3406825--3406872 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
3406815 TCCCTTTTTC
*
3406825 TTTGTTTATTTTCTCTTTGTTA
1 TTTGTTTATTTTCTCTTTGCTA
* *
3406847 TTTGTTTCTTTTCTTTTTTGCTA
1 TTTGTTTATTTTC-TCTTTGCTA
3406870 TTT
1 TTT
3406873 CTTTGCTTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 12 0.55
23 10 0.45
ACGTcount: A:0.06, C:0.10, G:0.08, T:0.75
Consensus pattern (22 bp):
TTTGTTTATTTTCTCTTTGCTA
Found at i:3408962 original size:63 final size:62
Alignment explanation
Indices: 3408870--3409088 Score: 305
Period size: 63 Copynumber: 3.5 Consensus size: 62
3408860 ATGATCATGC
* * * * * *
3408870 AGAATGCGAAGATGCAAATACAAATGCAAAATTGATGATCCTCTTAAATACAATGCATCATA
1 AGAATGCAAAGATGCAAATGCAGATGCAAAATTGATGATCGTCTAAAATGCAATGCATCATA
* *
3408932 TAGAATGCAAATATGCAAATGCAGATGCAAAATTGATGATCGTCTAAAATGCAATGCATCATGC
1 -AGAATGCAAAGATGCAAATGCAGATGCAAAATTGATGATCGTCTAAAATGCAATGCATCAT-A
*
3408996 AGAATGCAAAGATGCAAATGCAGATGCTAAATTGATGATCGTCTAAAATGCAATGCATCATGA
1 AGAATGCAAAGATGCAAATGCAGATGCAAAATTGATGATCGTCTAAAATGCAATGCATCAT-A
*
3409059 AGAATGCGACA-ATGCAAATGCAGATGCAAA
1 AGAATGC-AAAGATGCAAATGCAGATGCAAA
3409089 TATGCAAATG
Statistics
Matches: 141, Mismatches: 13, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
63 139 0.99
64 2 0.01
ACGTcount: A:0.43, C:0.16, G:0.19, T:0.23
Consensus pattern (62 bp):
AGAATGCAAAGATGCAAATGCAGATGCAAAATTGATGATCGTCTAAAATGCAATGCATCATA
Found at i:3408984 original size:36 final size:34
Alignment explanation
Indices: 3408944--3409052 Score: 92
Period size: 35 Copynumber: 3.3 Consensus size: 34
3408934 GAATGCAAAT
3408944 ATGCAAATGCAGATGCAAAATTGATGATCGTCTAAA
1 ATGC-AATGCAGATGC-AAATTGATGATCGTCTAAA
*
3408980 ATGCAATGCATCATGC--A--GA--AT-G-C-AAA
1 ATGCAATGCA-GATGCAAATTGATGATCGTCTAAA
3409006 GATGCAAATGCAGATGCTAAATTGATGATCGTCTAAA
1 -ATGC-AATGCAGATGC-AAATTGATGATCGTCTAAA
3409043 ATGCAATGCA
1 ATGCAATGCA
3409053 TCATGAAGAA
Statistics
Matches: 58, Mismatches: 2, Indels: 27
0.67 0.02 0.31
Matches are distributed among these distances:
26 3 0.05
27 9 0.16
28 7 0.12
29 2 0.03
30 1 0.02
31 2 0.03
32 2 0.03
33 1 0.02
34 2 0.03
35 13 0.22
36 13 0.22
37 3 0.05
ACGTcount: A:0.40, C:0.16, G:0.20, T:0.24
Consensus pattern (34 bp):
ATGCAATGCAGATGCAAATTGATGATCGTCTAAA
Found at i:3409087 original size:12 final size:12
Alignment explanation
Indices: 3409070--3409108 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
3409060 GAATGCGACA
3409070 ATGCAAATGCAG
1 ATGCAAATGCAG
3409082 ATGCAAAT----
1 ATGCAAATGCAG
3409090 ATGCAAATGCAG
1 ATGCAAATGCAG
3409102 ATGCAAA
1 ATGCAAA
3409109 AATGTAGATC
Statistics
Matches: 23, Mismatches: 0, Indels: 8
0.74 0.00 0.26
Matches are distributed among these distances:
8 8 0.35
12 15 0.65
ACGTcount: A:0.46, C:0.15, G:0.21, T:0.18
Consensus pattern (12 bp):
ATGCAAATGCAG
Found at i:3409093 original size:20 final size:20
Alignment explanation
Indices: 3409070--3409108 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
3409060 GAATGCGACA
3409070 ATGCAAATGCAGATGCAAAT
1 ATGCAAATGCAGATGCAAAT
3409090 ATGCAAATGCAGATGCAAA
1 ATGCAAATGCAGATGCAAA
3409109 AATGTAGATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.46, C:0.15, G:0.21, T:0.18
Consensus pattern (20 bp):
ATGCAAATGCAGATGCAAAT
Found at i:3411168 original size:32 final size:32
Alignment explanation
Indices: 3411132--3411192 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
3411122 TGAAAAATGA
*
3411132 CACAATCAAAAGAAAAGAAA-TAAGTTAGTGTG
1 CACAAACAAAAGAAAAGAAATTAA-TTAGTGTG
3411164 CACAAACAAAAGAAAAGAAATTAATTAGT
1 CACAAACAAAAGAAAAGAAATTAATTAGT
3411193 ACAGGTAAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
32 24 0.89
33 3 0.11
ACGTcount: A:0.57, C:0.10, G:0.15, T:0.18
Consensus pattern (32 bp):
CACAAACAAAAGAAAAGAAATTAATTAGTGTG
Found at i:3412062 original size:6 final size:6
Alignment explanation
Indices: 3412053--3412135 Score: 53
Period size: 6 Copynumber: 13.8 Consensus size: 6
3412043 TACATATACC
* * ** * *
3412053 ATCATT ATCATG ATC-TCT ATCATT CTCAAC ATCAAT ATCATT ATCATG
1 ATCATT ATCATT ATCAT-T ATCATT ATCATT ATCATT ATCATT ATCATT
** *
3412101 ATC-TCT ATCATT ATCAAC ATCAAT ATCATT ATCAT
1 ATCAT-T ATCATT ATCATT ATCATT ATCATT ATCAT
3412136 GAACCCATTT
Statistics
Matches: 59, Mismatches: 14, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
5 2 0.03
6 55 0.93
7 2 0.03
ACGTcount: A:0.35, C:0.23, G:0.02, T:0.40
Consensus pattern (6 bp):
ATCATT
Found at i:3412076 original size:18 final size:18
Alignment explanation
Indices: 3412053--3412137 Score: 89
Period size: 18 Copynumber: 4.7 Consensus size: 18
3412043 TACATATACC
**
3412053 ATCATTATCATGATCTCT
1 ATCATTATCATGATCAAT
* **
3412071 ATCATTCTCAACATCAAT
1 ATCATTATCATGATCAAT
**
3412089 ATCATTATCATGATCTCT
1 ATCATTATCATGATCAAT
**
3412107 ATCATTATCAACATCAAT
1 ATCATTATCATGATCAAT
3412125 ATCATTATCATGA
1 ATCATTATCATGA
3412138 ACCCATTTAA
Statistics
Matches: 51, Mismatches: 16, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 51 1.00
ACGTcount: A:0.35, C:0.22, G:0.04, T:0.39
Consensus pattern (18 bp):
ATCATTATCATGATCAAT
Found at i:3412100 original size:36 final size:36
Alignment explanation
Indices: 3412053--3412137 Score: 161
Period size: 36 Copynumber: 2.4 Consensus size: 36
3412043 TACATATACC
*
3412053 ATCATTATCATGATCTCTATCATTCTCAACATCAAT
1 ATCATTATCATGATCTCTATCATTATCAACATCAAT
3412089 ATCATTATCATGATCTCTATCATTATCAACATCAAT
1 ATCATTATCATGATCTCTATCATTATCAACATCAAT
3412125 ATCATTATCATGA
1 ATCATTATCATGA
3412138 ACCCATTTAA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 48 1.00
ACGTcount: A:0.35, C:0.22, G:0.04, T:0.39
Consensus pattern (36 bp):
ATCATTATCATGATCTCTATCATTATCAACATCAAT
Found at i:3412388 original size:12 final size:12
Alignment explanation
Indices: 3412373--3412425 Score: 54
Period size: 12 Copynumber: 4.5 Consensus size: 12
3412363 TTTATAATAT
*
3412373 CATGCATTAACC
1 CATGTATTAACC
*
3412385 CATGTATTGACC
1 CATGTATTAACC
*
3412397 CATGTATT-AGC
1 CATGTATTAACC
* *
3412408 TATGTATTAGCC
1 CATGTATTAACC
3412420 CATGTA
1 CATGTA
3412426 CAGTACTGAG
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
11 9 0.27
12 24 0.73
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34
Consensus pattern (12 bp):
CATGTATTAACC
Found at i:3412542 original size:38 final size:38
Alignment explanation
Indices: 3412499--3412673 Score: 287
Period size: 38 Copynumber: 4.6 Consensus size: 38
3412489 GCTCGTATAA
* *
3412499 CTGTGTCCCGAAGGACCTATCATCCCAAAGGATGTCAT
1 CTGTGTCCCGAAGGACCTGTCATCCCAAAGGATGTAAT
* *
3412537 CTGTGTCCCGAAGGACCTGTCATCCCGAAGGATGTCAT
1 CTGTGTCCCGAAGGACCTGTCATCCCAAAGGATGTAAT
*
3412575 CTGTGTCCCGAAGGACCTGTCATCCCGAAGGATGTAAT
1 CTGTGTCCCGAAGGACCTGTCATCCCAAAGGATGTAAT
* *
3412613 ATGTGTCCCGAAGGACATGTCATCCCAAAGGATGTAAT
1 CTGTGTCCCGAAGGACCTGTCATCCCAAAGGATGTAAT
3412651 CTGTGTCCCGAAGGACCTGTCAT
1 CTGTGTCCCGAAGGACCTGTCAT
3412674 ATATCCCGAA
Statistics
Matches: 129, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 129 1.00
ACGTcount: A:0.25, C:0.27, G:0.25, T:0.24
Consensus pattern (38 bp):
CTGTGTCCCGAAGGACCTGTCATCCCAAAGGATGTAAT
Found at i:3412550 original size:21 final size:21
Alignment explanation
Indices: 3412521--3412665 Score: 86
Period size: 21 Copynumber: 7.5 Consensus size: 21
3412511 GGACCTATCA
*
3412521 TCCCAAAGGATGTCATCTGTG
1 TCCCGAAGGATGTCATCTGTG
*
3412542 TCCCGAAGGA---C--CTGTCA
1 TCCCGAAGGATGTCATCTGT-G
3412559 TCCCGAAGGATGTCATCTGTG
1 TCCCGAAGGATGTCATCTGTG
*
3412580 TCCCGAAGGA---C--CTGTCA
1 TCCCGAAGGATGTCATCTGT-G
* *
3412597 TCCCGAAGGATGTAATATGTG
1 TCCCGAAGGATGTCATCTGTG
*
3412618 TCCCGAAGGA---CA--TGTCA
1 TCCCGAAGGATGTCATCTGT-G
* *
3412635 TCCCAAAGGATGTAATCTGTG
1 TCCCGAAGGATGTCATCTGTG
3412656 TCCCGAAGGA
1 TCCCGAAGGA
3412666 CCTGTCATAT
Statistics
Matches: 93, Mismatches: 13, Indels: 36
0.65 0.09 0.25
Matches are distributed among these distances:
16 11 0.12
17 29 0.31
18 3 0.03
20 2 0.02
21 38 0.41
22 10 0.11
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.23
Consensus pattern (21 bp):
TCCCGAAGGATGTCATCTGTG
Found at i:3412564 original size:17 final size:17
Alignment explanation
Indices: 3412542--3412606 Score: 69
Period size: 17 Copynumber: 3.6 Consensus size: 17
3412532 GTCATCTGTG
3412542 TCCCGAAGGACCTGTCA
1 TCCCGAAGGACCTGTCA
*
3412559 TCCCGAAGGATGTCATCTGT-G
1 TCCCGAAGGA---C--CTGTCA
3412580 TCCCGAAGGACCTGTCA
1 TCCCGAAGGACCTGTCA
3412597 TCCCGAAGGA
1 TCCCGAAGGA
3412607 TGTAATATGT
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
16 4 0.10
17 20 0.50
18 1 0.03
20 1 0.03
21 10 0.25
22 4 0.10
ACGTcount: A:0.23, C:0.31, G:0.26, T:0.20
Consensus pattern (17 bp):
TCCCGAAGGACCTGTCA
Found at i:3412867 original size:33 final size:33
Alignment explanation
Indices: 3412825--3412918 Score: 179
Period size: 33 Copynumber: 2.8 Consensus size: 33
3412815 ATCATATAGC
*
3412825 TTGTATAACATTCTTGTATGATCTCATAGATCA
1 TTGTGTAACATTCTTGTATGATCTCATAGATCA
3412858 TTGTGTAACATTCTTGTATGATCTCATAGATCA
1 TTGTGTAACATTCTTGTATGATCTCATAGATCA
3412891 TTGTGTAACATTCTTGTATGATCTCATA
1 TTGTGTAACATTCTTGTATGATCTCATA
3412919 TATCCCTTTT
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 60 1.00
ACGTcount: A:0.28, C:0.15, G:0.14, T:0.44
Consensus pattern (33 bp):
TTGTGTAACATTCTTGTATGATCTCATAGATCA
Found at i:3413828 original size:9 final size:9
Alignment explanation
Indices: 3413811--3413864 Score: 72
Period size: 9 Copynumber: 6.0 Consensus size: 9
3413801 CTTAAATTTT
*
3413811 AAATACCAG
1 AAATTCCAG
3413820 AAATTCCAG
1 AAATTCCAG
*
3413829 TAATTCCAG
1 AAATTCCAG
*
3413838 AAATTCCAT
1 AAATTCCAG
*
3413847 AAATTCAAG
1 AAATTCCAG
3413856 AAATTCCAG
1 AAATTCCAG
3413865 TACTGGAATT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 38 1.00
ACGTcount: A:0.46, C:0.20, G:0.09, T:0.24
Consensus pattern (9 bp):
AAATTCCAG
Found at i:3414103 original size:31 final size:30
Alignment explanation
Indices: 3414066--3414141 Score: 84
Period size: 30 Copynumber: 2.5 Consensus size: 30
3414056 TACAATCATT
* *
3414066 CCCAACTTTTTCTAAAATTACGAATTGGTC
1 CCCAACTTTTTCTAAAATTACAAAATGGTC
* *
3414096 ACTCAAC-TTTTCGAAAATTACAAAATGGTC
1 -CCCAACTTTTTCTAAAATTACAAAATGGTC
3414126 CCCGAA-TTTTTCTAAA
1 CCC-AACTTTTTCTAAA
3414142 GCTTGTAAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
29 2 0.05
30 30 0.81
31 5 0.14
ACGTcount: A:0.34, C:0.22, G:0.09, T:0.34
Consensus pattern (30 bp):
CCCAACTTTTTCTAAAATTACAAAATGGTC
Found at i:3415186 original size:17 final size:17
Alignment explanation
Indices: 3415164--3415214 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
3415154 TTGGTCACTA
3415164 AATAAATCTATTTATGG
1 AATAAATCTATTTATGG
*
3415181 AATAAAAT-TATTTTTGG
1 AAT-AAATCTATTTATGG
* *
3415198 AAAAAATACCATTTATG
1 AATAAAT-CTATTTATG
3415215 TCTTTAAACT
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
16 4 0.15
17 13 0.48
18 10 0.37
ACGTcount: A:0.45, C:0.06, G:0.10, T:0.39
Consensus pattern (17 bp):
AATAAATCTATTTATGG
Found at i:3416283 original size:15 final size:15
Alignment explanation
Indices: 3416265--3416297 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
3416255 ATAAAATACC
3416265 ATAAAA-TAAAACAAA
1 ATAAAAGTAAAA-AAA
3416280 ATAAAAGTAAAAAAA
1 ATAAAAGTAAAAAAA
3416295 ATA
1 ATA
3416298 GTGGAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.79, C:0.03, G:0.03, T:0.15
Consensus pattern (15 bp):
ATAAAAGTAAAAAAA
Found at i:3416742 original size:29 final size:30
Alignment explanation
Indices: 3416677--3416784 Score: 84
Period size: 29 Copynumber: 3.6 Consensus size: 30
3416667 ATATTTAACC
* *
3416677 AAACTTGAAGGCTAAAATAGCTAAAACA-A-
1 AAACTTAAAGGCTAAAATAGGTAAAA-ATAG
*
3416706 AAAATT-AAGGACTAAAAT-GGTAAAAATAG
1 AAACTTAAAGG-CTAAAATAGGTAAAAATAG
*
3416735 AAACTTAAAGGGCT-AAATAAGTAAAAATAG
1 AAACTTAAA-GGCTAAAATAGGTAAAAATAG
*
3416765 AAA-TTGAAGGGGCTAAAATA
1 AAACTT-AA-AGGCTAAAATA
3416785 TAAATAAAAT
Statistics
Matches: 65, Mismatches: 5, Indels: 16
0.76 0.06 0.19
Matches are distributed among these distances:
27 1 0.02
28 11 0.17
29 23 0.35
30 23 0.35
31 7 0.11
ACGTcount: A:0.56, C:0.07, G:0.18, T:0.19
Consensus pattern (30 bp):
AAACTTAAAGGCTAAAATAGGTAAAAATAG
Found at i:3416759 original size:30 final size:30
Alignment explanation
Indices: 3416725--3416781 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
3416715 GACTAAAATG
3416725 GTAAAAATAGAAACTT-AAAGGGCTAAATAA
1 GTAAAAATAGAAA-TTGAAAGGGCTAAATAA
*
3416755 GTAAAAATAGAAATTGAAGGGGCTAAA
1 GTAAAAATAGAAATTGAAAGGGCTAAA
3416782 ATATAAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
29 2 0.08
30 23 0.92
ACGTcount: A:0.54, C:0.05, G:0.21, T:0.19
Consensus pattern (30 bp):
GTAAAAATAGAAATTGAAAGGGCTAAATAA
Found at i:3416788 original size:29 final size:30
Alignment explanation
Indices: 3416712--3416788 Score: 79
Period size: 30 Copynumber: 2.6 Consensus size: 30
3416702 ACAAAAAATT
* **
3416712 AAGGACTAAAATGGTAAAAATAGAAACTTA
1 AAGGGCTAAAATAATAAAAATAGAAACTTA
3416742 AAGGGCT-AAATAAGTAAAAATAGAAA-TTGA
1 AAGGGCTAAAATAA-TAAAAATAGAAACTT-A
*
3416772 AGGGGCTAAAAT-ATAAA
1 AAGGGCTAAAATAATAAA
3416789 TAAAATAAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
29 10 0.25
30 26 0.65
31 4 0.10
ACGTcount: A:0.56, C:0.05, G:0.19, T:0.19
Consensus pattern (30 bp):
AAGGGCTAAAATAATAAAAATAGAAACTTA
Found at i:3417915 original size:17 final size:17
Alignment explanation
Indices: 3417890--3417930 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
3417880 GTGTAAATCA
* *
3417890 GTTGGCCGTTGACCTGC
1 GTTGACCGTTGACCGGC
3417907 GTTGACCGTTGACCGGC
1 GTTGACCGTTGACCGGC
3417924 GTTGACC
1 GTTGACC
3417931 ACTGTTGACC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.10, C:0.29, G:0.34, T:0.27
Consensus pattern (17 bp):
GTTGACCGTTGACCGGC
Found at i:3418885 original size:24 final size:24
Alignment explanation
Indices: 3418849--3418912 Score: 83
Period size: 24 Copynumber: 2.7 Consensus size: 24
3418839 CTTTCCGATT
*
3418849 TGAATTCTATTTTGATACCTGACC
1 TGAATTCTGTTTTGATACCTGACC
* **
3418873 TGGATTCTGTTTTGATATTTGACC
1 TGAATTCTGTTTTGATACCTGACC
*
3418897 TGAATTATGTTTTGAT
1 TGAATTCTGTTTTGAT
3418913 TTCTGATATC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.22, C:0.12, G:0.17, T:0.48
Consensus pattern (24 bp):
TGAATTCTGTTTTGATACCTGACC
Found at i:3423511 original size:24 final size:24
Alignment explanation
Indices: 3423479--3423543 Score: 67
Period size: 24 Copynumber: 2.7 Consensus size: 24
3423469 GATTTCCGAT
* *
3423479 CTGAGTTCTATTTTGATACCTGAC
1 CTGAATTCTGTTTTGATACCTGAC
* * **
3423503 CTGGATTCTGTTCTGATATTTGAC
1 CTGAATTCTGTTTTGATACCTGAC
*
3423527 CTGAATTATGTTTTGAT
1 CTGAATTCTGTTTTGAT
3423544 TTCTGATATC
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.20, C:0.15, G:0.18, T:0.46
Consensus pattern (24 bp):
CTGAATTCTGTTTTGATACCTGAC
Found at i:3423657 original size:6 final size:6
Alignment explanation
Indices: 3423648--3423685 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
3423638 GGTGGAGGAA
*
3423648 GTTACT GTTACC GTTACT GTTACT GTTACT GTTACT GT
1 GTTACT GTTACT GTTACT GTTACT GTTACT GTTACT GT
3423686 AGGCTCATCT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.16, C:0.18, G:0.18, T:0.47
Consensus pattern (6 bp):
GTTACT
Found at i:3432337 original size:16 final size:15
Alignment explanation
Indices: 3432295--3432337 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
3432285 CTCAAAGTTA
3432295 AATATTATTTTAAAT
1 AATATTATTTTAAAT
*
3432310 AATTATTTTTTTACAAT
1 AA-TATTATTTTA-AAT
*
3432327 AATATCATTTT
1 AATATTATTTT
3432338 CACCTCATCA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
15 2 0.09
16 16 0.70
17 5 0.22
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.56
Consensus pattern (15 bp):
AATATTATTTTAAAT
Found at i:3443838 original size:281 final size:282
Alignment explanation
Indices: 3443333--3443897 Score: 1105
Period size: 281 Copynumber: 2.0 Consensus size: 282
3443323 TACTTAGTGA
3443333 GAGAAGCTCCACCTTCTCTCTAAAAATTTAGGCGTTTTTCAAAAATTTCTTTCTCTATCCCCTTC
1 GAGAAGCTCCACCTTCTCTCTAAAAATTTAGGCGTTTTTCAAAAATTTC-TTCTCTATCCCCTTC
3443398 AAATCCTTTAGATGGCGAGTCAGATGAGAAGATCTGTTGGGAAAAATTGCTTTACAGTTATTATT
65 AAATCCTTTAGATGGCGAGTCAGATGAGAAGATCTGTTGGGAAAAATTGCTTTACAGTTATTATT
3443463 TTCAATATTCCAGAGTGTCTTCATCATCAAGGTCTTAGGTTATTGTTCGATAATTATGGCGAGGT
130 TTCAATATTCCAGAGTGTCTTCATCATCAAGGTCTTAGGTTATTGTTCGATAATTATGGCGAGGT
3443528 GGTCGATTCTTTCATCCCTTTCAAAAGAAGCAAGGGAGGAAGCAGGTTCGGTTTTGTCCGCTTTT
195 GGTCGATTCTTTCATCCCTTTCAAAAGAAGCAAGGGAGGAAGCAGGTTCGGTTTTGTCCGCTTTT
3443593 CTAGATTGGAGGACGCGAGGAGG
260 CTAGATTGGAGGACGCGAGGAGG
3443616 GAGAAGCTCCACCTTCTCTCTAAAAATTTAGGCGTTTTTCAAAAATTTC-TCTCTATCCCCTTCA
1 GAGAAGCTCCACCTTCTCTCTAAAAATTTAGGCGTTTTTCAAAAATTTCTTCTCTATCCCCTTCA
3443680 AATCCTTTAGATGGCGAGTCAGATGAGAAGATCTGTTGGGAAAAATTGCTTTACAGTTATTATTT
66 AATCCTTTAGATGGCGAGTCAGATGAGAAGATCTGTTGGGAAAAATTGCTTTACAGTTATTATTT
3443745 TCAATATTCCAGAGTGTCTTCATCATCAAGGTCTTAGGTTATTGTTCGATAATTATGGCGAGGTG
131 TCAATATTCCAGAGTGTCTTCATCATCAAGGTCTTAGGTTATTGTTCGATAATTATGGCGAGGTG
3443810 GTCGATTCTTTCATCCCTTTCAAAAGAAGCAAGGGAGGAAGCAGGTTCGGTTTTGTCCGCTTTTC
196 GTCGATTCTTTCATCCCTTTCAAAAGAAGCAAGGGAGGAAGCAGGTTCGGTTTTGTCCGCTTTTC
*
3443875 TAGATTGGAGGACGCGATGAGG
261 TAGATTGGAGGACGCGAGGAGG
3443897 G
1 G
3443898 CTATCATCCG
Statistics
Matches: 281, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
281 232 0.83
283 49 0.17
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (282 bp):
GAGAAGCTCCACCTTCTCTCTAAAAATTTAGGCGTTTTTCAAAAATTTCTTCTCTATCCCCTTCA
AATCCTTTAGATGGCGAGTCAGATGAGAAGATCTGTTGGGAAAAATTGCTTTACAGTTATTATTT
TCAATATTCCAGAGTGTCTTCATCATCAAGGTCTTAGGTTATTGTTCGATAATTATGGCGAGGTG
GTCGATTCTTTCATCCCTTTCAAAAGAAGCAAGGGAGGAAGCAGGTTCGGTTTTGTCCGCTTTTC
TAGATTGGAGGACGCGAGGAGG
Found at i:3450810 original size:66 final size:66
Alignment explanation
Indices: 3450729--3450855 Score: 227
Period size: 66 Copynumber: 1.9 Consensus size: 66
3450719 CATACTTGCA
* *
3450729 TTGTAAAAATTTATGTATATGTTGAAAAACTTTGTTCCTCTAGTTCTATAATATTCTCTCCTTGT
1 TTGTAAAAATTTATGTATACGTTGAAAAACTTTGTTCCTCTAGTTCAATAATATTCTCTCCTTGT
3450794 T
66 T
*
3450795 TTGTAAAAATTTATGTGTACGTTGAAAAACTTTGTTCCTCTAGTTCAATAATATTCTCTCC
1 TTGTAAAAATTTATGTATACGTTGAAAAACTTTGTTCCTCTAGTTCAATAATATTCTCTCC
3450856 CCTTTATGTA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 58 1.00
ACGTcount: A:0.28, C:0.15, G:0.11, T:0.46
Consensus pattern (66 bp):
TTGTAAAAATTTATGTATACGTTGAAAAACTTTGTTCCTCTAGTTCAATAATATTCTCTCCTTGT
T
Found at i:3451922 original size:29 final size:27
Alignment explanation
Indices: 3451880--3451933 Score: 81
Period size: 29 Copynumber: 1.9 Consensus size: 27
3451870 ACCAACTTGG
*
3451880 GTGCATGTTCTAATTCTGAATCCCATTGT
1 GTGCATGTTATAA-TCT-AATCCCATTGT
3451909 GTGCATGTTATAATCTAATCCCATT
1 GTGCATGTTATAATCTAATCCCATT
3451934 CAATCTGTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 9 0.38
28 3 0.12
29 12 0.50
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.41
Consensus pattern (27 bp):
GTGCATGTTATAATCTAATCCCATTGT
Found at i:3465043 original size:13 final size:13
Alignment explanation
Indices: 3465025--3465050 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3465015 GTCTTTTTGG
3465025 ATGAAAATAAGTA
1 ATGAAAATAAGTA
3465038 ATGAAAATAAGTA
1 ATGAAAATAAGTA
3465051 GTTTATACCA
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:0.62, C:0.00, G:0.15, T:0.23
Consensus pattern (13 bp):
ATGAAAATAAGTA
Found at i:3478606 original size:15 final size:13
Alignment explanation
Indices: 3478586--3478623 Score: 51
Period size: 12 Copynumber: 2.8 Consensus size: 13
3478576 CTTTCTTAGC
3478586 ATTATCATATATATT
1 ATTATCAT-TAT-TT
3478601 ATTATCATTATTT
1 ATTATCATTATTT
3478614 A-TATCATTAT
1 ATTATCATTAT
3478624 CATCAAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 9 0.39
13 3 0.13
14 3 0.13
15 8 0.35
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.55
Consensus pattern (13 bp):
ATTATCATTATTT
Found at i:3478912 original size:23 final size:23
Alignment explanation
Indices: 3478886--3478946 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 23
3478876 CTCGTATAAA
* *
3478886 TGCACCGAAGTGCCGCGTAGAAT
1 TGCACCGTAGTGCCACGTAGAAT
**
3478909 TGCACTTTAGTGCCACGTAGAAT
1 TGCACCGTAGTGCCACGTAGAAT
3478932 TGCACCGTAGTGCCA
1 TGCACCGTAGTGCCA
3478947 TATAATAATG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.25, C:0.26, G:0.26, T:0.23
Consensus pattern (23 bp):
TGCACCGTAGTGCCACGTAGAAT
Found at i:3488028 original size:15 final size:13
Alignment explanation
Indices: 3488008--3488045 Score: 51
Period size: 12 Copynumber: 2.8 Consensus size: 13
3487998 CTTTCTTAGC
3488008 ATTATCATATATATT
1 ATTATCAT-TAT-TT
3488023 ATTATCATTATTT
1 ATTATCATTATTT
3488036 A-TATCATTAT
1 ATTATCATTAT
3488046 CATCAAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 9 0.39
13 3 0.13
14 3 0.13
15 8 0.35
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.55
Consensus pattern (13 bp):
ATTATCATTATTT
Found at i:3488330 original size:23 final size:23
Alignment explanation
Indices: 3488304--3488364 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 23
3488294 CTCGTATAAA
* *
3488304 TGCACCGAAGTGCCGCGTAGAAT
1 TGCACCGTAGTGCCACGTAGAAT
**
3488327 TGCACTTTAGTGCCACGTAGAAT
1 TGCACCGTAGTGCCACGTAGAAT
3488350 TGCACCGTAGTGCCA
1 TGCACCGTAGTGCCA
3488365 TATAATAATG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.25, C:0.26, G:0.26, T:0.23
Consensus pattern (23 bp):
TGCACCGTAGTGCCACGTAGAAT
Found at i:3491435 original size:12 final size:12
Alignment explanation
Indices: 3491415--3491450 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
3491405 ACAGAGATAT
3491415 CAGAAATCAGAG
1 CAGAAATCAGAG
* *
3491427 CAGAGATCAGAA
1 CAGAAATCAGAG
3491439 CAGAAATCAGAG
1 CAGAAATCAGAG
3491451 AAAACATCCA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.50, C:0.17, G:0.25, T:0.08
Consensus pattern (12 bp):
CAGAAATCAGAG
Found at i:3492727 original size:18 final size:19
Alignment explanation
Indices: 3492704--3492742 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
3492694 ACTCTGGTCA
* *
3492704 TTGAATTTGT-TATTTATT
1 TTGAATATGTATATTAATT
3492722 TTGAATATGTATATTAATT
1 TTGAATATGTATATTAATT
3492741 TT
1 TT
3492743 ATTAATTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.28, C:0.00, G:0.10, T:0.62
Consensus pattern (19 bp):
TTGAATATGTATATTAATT
Found at i:3492997 original size:2 final size:2
Alignment explanation
Indices: 3492990--3493037 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
3492980 TAGTCACATG
3492990 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
3493032 AT AT AT
1 AT AT AT
3493038 GCATGTTTCA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3499395 original size:2 final size:2
Alignment explanation
Indices: 3499388--3499415 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
3499378 TTATCCTTTC
3499388 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
3499416 CCCTTGTTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3499715 original size:15 final size:14
Alignment explanation
Indices: 3499697--3499811 Score: 83
Period size: 15 Copynumber: 7.7 Consensus size: 14
3499687 AAAAATATAG
3499697 AAAAAAGAAAGGAAA
1 AAAAAAGAAA-GAAA
*
3499712 AAAAGAAAAAAG-AA
1 AAAA-AAGAAAGAAA
3499726 AAAAAAGAAAGAAA
1 AAAAAAGAAAGAAA
*
3499740 ACATAAAA-ATAGAAA
1 A-A-AAAAGAAAGAAA
*
3499755 AAGAAAA-AAGAGAGCA
1 AA-AAAAGAA-AGA-AA
3499771 AAAAAAGAAAGAGAA
1 AAAAAAGAAAGA-AA
*
3499786 AGGAAAAGAAAGAAA
1 A-AAAAAGAAAGAAA
3499801 GAAAAAAGAAA
1 -AAAAAAGAAA
3499812 ATAAACAGAT
Statistics
Matches: 82, Mismatches: 9, Indels: 18
0.75 0.08 0.17
Matches are distributed among these distances:
13 6 0.07
14 15 0.18
15 36 0.44
16 25 0.30
ACGTcount: A:0.78, C:0.02, G:0.18, T:0.02
Consensus pattern (14 bp):
AAAAAAGAAAGAAA
Found at i:3499720 original size:20 final size:20
Alignment explanation
Indices: 3499695--3499812 Score: 93
Period size: 20 Copynumber: 5.9 Consensus size: 20
3499685 TAAAAAATAT
3499695 AGAAAAAAGAAAGGAAAAAA
1 AGAAAAAAGAAAGGAAAAAA
*
3499715 AGAAAAAAGAAA-AAAAAGAA
1 AGAAAAAAGAAAGGAAAA-AA
** *
3499735 AGAAAACATA-AAAATAGAAAA
1 AGAAAA-A-AGAAAGGAAAAAA
* *
3499756 AGAAAAAAGAGAGCAAAAAA
1 AGAAAAAAGAAAGGAAAAAA
*
3499776 AG-AAAGAGAAAGGAAAAGAA
1 AGAAAAAAGAAAGGAAAA-AA
3499796 AGAAAGAAA-AAA-GAAAA
1 AGAAA-AAAGAAAGGAAAA
3499813 TAAACAGATC
Statistics
Matches: 79, Mismatches: 11, Indels: 16
0.75 0.10 0.15
Matches are distributed among these distances:
19 17 0.22
20 39 0.49
21 17 0.22
22 6 0.08
ACGTcount: A:0.78, C:0.02, G:0.19, T:0.02
Consensus pattern (20 bp):
AGAAAAAAGAAAGGAAAAAA
Found at i:3500480 original size:27 final size:28
Alignment explanation
Indices: 3500450--3500513 Score: 103
Period size: 27 Copynumber: 2.3 Consensus size: 28
3500440 GTAAGAAGAC
3500450 AACCTGAAAAACATTACCT-CCCAAATT
1 AACCTGAAAAACATTACCTCCCCAAATT
* *
3500477 AACCTGAAACACATTACTTCCCCAAATT
1 AACCTGAAAAACATTACCTCCCCAAATT
3500505 AACCTGAAA
1 AACCTGAAA
3500514 TGCTCTACCA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
27 17 0.50
28 17 0.50
ACGTcount: A:0.44, C:0.30, G:0.05, T:0.22
Consensus pattern (28 bp):
AACCTGAAAAACATTACCTCCCCAAATT
Found at i:3501029 original size:33 final size:35
Alignment explanation
Indices: 3500987--3501051 Score: 107
Period size: 34 Copynumber: 1.9 Consensus size: 35
3500977 TCATTTATCA
3500987 AAACAAATTTT-GTCTCACTTGAGACATTTTTTTC
1 AAACAAATTTTCGTCTCACTTGAGACATTTTTTTC
*
3501021 AAAC-AATTTTCGTCTCGCTTGAGACATTTTT
1 AAACAAATTTTCGTCTCACTTGAGACATTTTT
3501052 CCTTTGAGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 6 0.21
34 23 0.79
ACGTcount: A:0.28, C:0.18, G:0.11, T:0.43
Consensus pattern (35 bp):
AAACAAATTTTCGTCTCACTTGAGACATTTTTTTC
Found at i:3501272 original size:36 final size:36
Alignment explanation
Indices: 3501168--3501273 Score: 90
Period size: 36 Copynumber: 3.0 Consensus size: 36
3501158 AATTTTGAAA
* * * *
3501168 TTAAAA-AAAAATGATCTCACATGAGATTGTTTTCC
1 TTAAAACAAAATTAATCTCACTTGAGATTATTTTCC
* ** * * **
3501203 -TAAGAACAAATTTTGTCTCGCTGGAGACAATTTTCC
1 TTAA-AACAAAATTAATCTCACTTGAGATTATTTTCC
3501239 TTAAAACAAAATTAATCTCACTTGAGATTATTTTC
1 TTAAAACAAAATTAATCTCACTTGAGATTATTTTC
3501274 TCCAAAAAAA
Statistics
Matches: 51, Mismatches: 17, Indels: 5
0.70 0.23 0.07
Matches are distributed among these distances:
34 3 0.06
35 2 0.04
36 43 0.84
37 3 0.06
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.36
Consensus pattern (36 bp):
TTAAAACAAAATTAATCTCACTTGAGATTATTTTCC
Found at i:3501442 original size:65 final size:66
Alignment explanation
Indices: 3501287--3501734 Score: 263
Period size: 72 Copynumber: 6.5 Consensus size: 66
3501277 AAAAAAAATT
* * *
3501287 TTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACCAAAATCTTTGAATATGTTTCCCTTGTAACAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAA-CAAAATCTTTGAAAATGTTTCCCTTGAAACAA
3501352 AG
65 AG
* ** **
3501354 TTTTGTCTCCCTTGAGATTGTTTCCCTTGAAACATAAA-CTTTGAAAATGTTTCCCTTGAAATGA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACA-AAATCTTTGAAAATGTTTCCCTTGAAACAA
3501418 A-
65 AG
* ** * * *
3501419 TTTTGTCTCTCTTGAGACAGTTTCCCTTTAAACGAGTTTTGTATCCCTTG-AGATAGTTTCTCTT
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAAC-A-----AAAT-CTTTGAAAAT-GTTTCCCTT
3501483 GAAACAAAG
58 GAAACAAAG
* * * * * * **
3501492 TTTTGTCTCCCTCGAGACAGTTTCTCTTAAAACAAATTTTGTCTCTCTTGAGACA-GTTT-TTTT
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA------ATCT-TTGA-AAATGTTTCCCTT
*
3501555 AAAACAAA-
58 GAAACAAAG
* * *
3501563 --TTGTCTGTCTTGAGACTA-TTTCCCTTGAAACATAAA-CTTTGAAAACGTTTCTCTTGAAACA
1 TTTTGTCTCTCTTGAGAC-AGTTTCCCTTGAAACA-AAATCTTTGAAAATGTTTCCCTTGAAACA
3501624 AAG
64 AAG
* * * *
3501627 CTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAGTTTTGTATCTCTTGAGACA-GTTTCCCTT
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAA------AATCT-TTGA-AAATGTTTCCCTT
3501691 GAAACAAA-
58 GAAACAAAG
* * *
3501699 TTTCGTCTCCCTTAAGACAGTTTCCCTTGAAACAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
3501735 TTTTGTCTCC
Statistics
Matches: 295, Mismatches: 50, Indels: 73
0.71 0.12 0.17
Matches are distributed among these distances:
61 2 0.01
62 8 0.03
63 12 0.04
65 31 0.11
66 54 0.18
67 31 0.11
69 25 0.08
70 5 0.02
71 4 0.01
72 62 0.21
73 57 0.19
74 2 0.01
75 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.14, T:0.39
Consensus pattern (66 bp):
TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAAAATGTTTCCCTTGAAACAAA
G
Found at i:3501503 original size:37 final size:36
Alignment explanation
Indices: 3501402--3501594 Score: 178
Period size: 36 Copynumber: 5.4 Consensus size: 36
3501392 CTTTGAAAAT
** *
3501402 GTTTCCCTTGAAATGAATTTTGTCTCTCTTGAGACA
1 GTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACA
* * * * *
3501438 GTTTCCCTTTAAACGAGTTTTGTATCCCTTGAGATA
1 GTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACA
* *
3501474 GTTTCTCTTGAAACAAAGTTTTGTCTCCCTCGAGACA
1 GTTTCCCTTGAAACAAA-TTTTGTCTCCCTTGAGACA
* * *
3501511 GTTTCTCTTAAAACAAATTTTGTCTCTCTTGAGACA
1 GTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACA
** * **
3501547 GTTT-TTTTAAAACAAA--TTGTCTGTCTTGAGACTA
1 GTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGAC-A
3501581 -TTTCCCTTGAAACA
1 GTTTCCCTTGAAACA
3501595 TAAACTTTGA
Statistics
Matches: 133, Mismatches: 21, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
33 18 0.14
34 8 0.06
35 11 0.08
36 64 0.48
37 32 0.24
ACGTcount: A:0.25, C:0.20, G:0.15, T:0.40
Consensus pattern (36 bp):
GTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACA
Found at i:3501532 original size:73 final size:72
Alignment explanation
Indices: 3501402--3501550 Score: 181
Period size: 73 Copynumber: 2.1 Consensus size: 72
3501392 CTTTGAAAAT
** * * * * *
3501402 GTTTCCCTTGAAATGAATTTTGTCTCTCTTGAGACAGTTTCCCTTTAAACGAGTTTTGTATCCCT
1 GTTTCCCTTGAAACAAATTTTGTCTCCCTCGAGACAGTTTCCCTTAAAACAAATTTTGTATCCCT
*
3501467 TGAGATA
66 TGAGACA
* * * *
3501474 GTTTCTCTTGAAACAAAGTTTTGTCTCCCTCGAGACAGTTTCTCTTAAAACAAATTTTGTCTCTC
1 GTTTCCCTTGAAACAAA-TTTTGTCTCCCTCGAGACAGTTTCCCTTAAAACAAATTTTGTATCCC
3501539 TTGAGACA
65 TTGAGACA
3501547 GTTT
1 GTTT
3501551 TTTTAAAACA
Statistics
Matches: 64, Mismatches: 12, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
72 14 0.22
73 50 0.78
ACGTcount: A:0.23, C:0.20, G:0.15, T:0.41
Consensus pattern (72 bp):
GTTTCCCTTGAAACAAATTTTGTCTCCCTCGAGACAGTTTCCCTTAAAACAAATTTTGTATCCCT
TGAGACA
Found at i:3501572 original size:73 final size:73
Alignment explanation
Indices: 3501419--3501562 Score: 182
Period size: 73 Copynumber: 2.0 Consensus size: 73
3501409 TTGAAATGAA
* * * * * * *
3501419 TTTTGTCTCTCTTGAGACAGTTTCCCTTTAAACGAGTTTTGTATCCCTTGAGATAGTTTCTCTTG
1 TTTTGTCTCCCTCGAGACAGTTTCCCTTAAAACAAATTTTGTATCCCTTGAGACAGTTTCTCTTA
3501484 AAACAAAG
66 AAACAAAG
* * * *
3501492 TTTTGTCTCCCTCGAGACAGTTTCTCTTAAAACAAATTTTGTCTCTCTTGAGACAGTTT-TTTTA
1 TTTTGTCTCCCTCGAGACAGTTTCCCTTAAAACAAATTTTGTATCCCTTGAGACAGTTTCTCTTA
3501556 AAACAAA
66 AAACAAA
3501563 TTGTCTGTCT
Statistics
Matches: 60, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
72 10 0.17
73 50 0.83
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.41
Consensus pattern (73 bp):
TTTTGTCTCCCTCGAGACAGTTTCCCTTAAAACAAATTTTGTATCCCTTGAGACAGTTTCTCTTA
AAACAAAG
Found at i:3501597 original size:207 final size:207
Alignment explanation
Indices: 3501364--3501757 Score: 592
Period size: 207 Copynumber: 1.9 Consensus size: 207
3501354 TTTTGTCTCC
* * * ** *
3501364 CTTGAGATTGTTTCCCTTGAAACATAAACTTTGAAAATGTTTCCCTTGAAATGAA-TTTTGTCTC
1 CTTGAGACTATTTCCCTTGAAACATAAACTTTGAAAACGTTTCCCTTGAAACAAAGCTTTGTCTC
* * * *
3501428 TCTTGAGACAGTTTCCCTTTAAACGAGTTTTGTATCCCTTGAGATAGTTTCTCTTGAAACAAAGT
66 TCTTGAGACAGTTTCCCTTGAAACAAGTTTTGTATCCCTTGAGACAGTTTCCCTTGAAACAAA-T
* * * *
3501493 TTTGTCTCCCTCGAGACAGTTTCTCTTAAAACAAATTTTGTCTCTCTTGAGACAGTTTTTTTAAA
130 TTCGTCTCCCTCAAGACAGTTTCCCTTAAAACAAATTTTGTCTCCCTTGAGACAGTTTTTTTAAA
3501558 ACAAATTGTCTGT
195 ACAAATTGTCTGT
*
3501571 CTTGAGACTATTTCCCTTGAAACATAAACTTTGAAAACGTTTCTCTTGAAACAAAGCTTTGTCTC
1 CTTGAGACTATTTCCCTTGAAACATAAACTTTGAAAACGTTTCCCTTGAAACAAAGCTTTGTCTC
* *
3501636 TCTTGAGACAGTTTCTCTTGAAACAAGTTTTGTATCTCTTGAGACAGTTTCCCTTGAAACAAATT
66 TCTTGAGACAGTTTCCCTTGAAACAAGTTTTGTATCCCTTGAGACAGTTTCCCTTGAAACAAATT
* * *
3501701 TCGTCTCCCTTAAGACAGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGATAGTTT
131 TCGTCTCCCTCAAGACAGTTTCCCTTAAAACAAATTTTGTCTCCCTTGAGACAGTTT
3501758 CTCTTGAAAC
Statistics
Matches: 166, Mismatches: 20, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
207 101 0.61
208 65 0.39
ACGTcount: A:0.27, C:0.20, G:0.14, T:0.39
Consensus pattern (207 bp):
CTTGAGACTATTTCCCTTGAAACATAAACTTTGAAAACGTTTCCCTTGAAACAAAGCTTTGTCTC
TCTTGAGACAGTTTCCCTTGAAACAAGTTTTGTATCCCTTGAGACAGTTTCCCTTGAAACAAATT
TCGTCTCCCTCAAGACAGTTTCCCTTAAAACAAATTTTGTCTCCCTTGAGACAGTTTTTTTAAAA
CAAATTGTCTGT
Found at i:3501675 original size:36 final size:36
Alignment explanation
Indices: 3501609--3501896 Score: 360
Period size: 36 Copynumber: 7.9 Consensus size: 36
3501599 CTTTGAAAAC
* *
3501609 GTTTCTCTTGAAACAAAGCTTTGTCTCTCTTGAGACA
1 GTTTCTCTTGAAACAAA-TTTTGTCTCCCTTGAGACA
* * *
3501646 GTTTCTCTTGAAACAAGTTTTGTATCTCTTGAGACA
1 GTTTCTCTTGAAACAAATTTTGTCTCCCTTGAGACA
* * *
3501682 GTTTCCCTTGAAACAAATTTCGTCTCCCTTAAGACA
1 GTTTCTCTTGAAACAAATTTTGTCTCCCTTGAGACA
* *
3501718 GTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGATA
1 GTTTCTCTTGAAACAAATTTTGTCTCCCTTGAGACA
* *
3501754 GTTTCTCTTGAAACAAAGTTTTGTCTCTCTTGAGAGA
1 GTTTCTCTTGAAACAAA-TTTTGTCTCCCTTGAGACA
* * * **
3501791 GTTACCCTTGAAACAAATTTTGTCTCCTTTGAGATT
1 GTTTCTCTTGAAACAAATTTTGTCTCCCTTGAGACA
* *
3501827 GTTTCTCTTGAAACAAATTTCGTCTCCCTTGAGACT
1 GTTTCTCTTGAAACAAATTTTGTCTCCCTTGAGACA
* * *
3501863 GTTTCTCTTGAAACGAATTTTATCTCGCTTGAGA
1 GTTTCTCTTGAAACAAATTTTGTCTCCCTTGAGA
3501897 TATTTTCCCT
Statistics
Matches: 220, Mismatches: 30, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
36 172 0.78
37 48 0.22
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.39
Consensus pattern (36 bp):
GTTTCTCTTGAAACAAATTTTGTCTCCCTTGAGACA
Found at i:3501711 original size:21 final size:20
Alignment explanation
Indices: 3501685--3501749 Score: 52
Period size: 21 Copynumber: 3.4 Consensus size: 20
3501675 TGAGACAGTT
3501685 TCCCTTGAAACAAATTTCGTC
1 TCCCTTGAAACAAATTT-GTC
*
3501706 TCCCTT-AAGAC--A---GTT
1 TCCCTTGAA-ACAAATTTGTC
3501721 TCCCTTGAAACAAATTTTGTC
1 TCCCTTGAAACAAA-TTTGTC
3501742 TCCCTTGA
1 TCCCTTGA
3501750 GATAGTTTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 16
0.65 0.04 0.31
Matches are distributed among these distances:
15 10 0.29
16 2 0.06
17 1 0.03
19 1 0.03
20 2 0.06
21 18 0.53
ACGTcount: A:0.26, C:0.28, G:0.11, T:0.35
Consensus pattern (20 bp):
TCCCTTGAAACAAATTTGTC
Found at i:3501785 original size:109 final size:108
Alignment explanation
Indices: 3501402--3501911 Score: 506
Period size: 109 Copynumber: 4.8 Consensus size: 108
3501392 CTTTGAAAAT
* ** * * * * *
3501402 GTTTCCCTTGAAATGAATTTTGTCTCTCTTGAGACAGTTTCCCTTTAAACGAGTTTTGTATCCCT
1 GTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAGTTTTGTCTCTCT
* * * **
3501467 TGAGATAGTTTCTCTTGAAACAAAGTTTTGTCTCCCTCGAGACA
66 TGAGACAGTTTCCCTTGAAACAAA-TTTCGTCTCCCTTAAGACA
* * * * *
3501511 GTTTCTCTTAAAACAAATTTTGTCTCTCTTGAGACAGTTT-TTTTAAAACAA--ATTGTCTGTCT
1 GTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAGTTTTGTCTCTCT
* * *
3501573 TGAGACTA-TTTCCCTTGAAACATAA--AC-T-T---TGAAAAC-
66 TGAGAC-AGTTTCCCTTGAAACA-AATTTCGTCTCCCTTAAGACA
* *
3501609 GTTTCTCTTGAAACAAAGCTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAGTTTTGTATCTC
1 GTTTCTCTTGAAACAAA-TTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAGTTTTGTCTCTC
3501674 TTGAGACAGTTTCCCTTGAAACAAATTTCGTCTCCCTTAAGACA
65 TTGAGACAGTTTCCCTTGAAACAAATTTCGTCTCCCTTAAGACA
* * *
3501718 GTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGATAGTTTCTCTTGAAACAAAGTTTTGTCTCTC
1 GTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAAC-AAGTTTTGTCTCTC
* * * * * **
3501783 TTGAGAGAGTTACCCTTGAAACAAATTTTGTCTCCTTTGAGATT
65 TTGAGACAGTTTCCCTTGAAACAAATTTCGTCTCCCTTAAGACA
* * * * *
3501827 GTTTCTCTTGAAACAAATTTCGTCTCCCTTGAGACTGTTTCTCTTGAAACGAA-TTTTATCTCGC
1 GTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAAC-AAGTTTTGTCTCTC
* * *
3501891 TTGAGATATTTTCCCTCGAAA
65 TTGAGACAGTTTCCCTTGAAA
3501912 TAATTTTTTT
Statistics
Matches: 333, Mismatches: 52, Indels: 33
0.80 0.12 0.08
Matches are distributed among these distances:
98 16 0.05
99 26 0.08
100 9 0.03
101 3 0.01
102 29 0.09
103 2 0.01
104 1 0.00
105 1 0.00
106 25 0.08
107 3 0.01
108 68 0.20
109 150 0.45
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.39
Consensus pattern (108 bp):
GTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAGTTTTGTCTCTCT
TGAGACAGTTTCCCTTGAAACAAATTTCGTCTCCCTTAAGACA
Found at i:3502114 original size:52 final size:51
Alignment explanation
Indices: 3501918--3502110 Score: 208
Period size: 52 Copynumber: 3.7 Consensus size: 51
3501908 GAAATAATTT
* *
3501918 TTTTTAGAAACTAAGCCTGATTTTCAGGGGTTTCTCAATGTTTTCAAATGA
1 TTTTTAGAAACTAAGCCTAATTTTCAGGGGTTTCTTAATGTTTTCAAATGA
* * *
3501969 ATTTGAAAGAACTTAAGCCTAATTTT-AGGGGTTTCTTAATGTTTTCAAATGA
1 TTTTTAGA-AAC-TAAGCCTAATTTTCAGGGGTTTCTTAATGTTTTCAAATGA
* * * * * * *
3502021 TTTTCAAAGAAATTAAGCCTAATTTTTATGGATTTCTTGATGTTTTCATATGA
1 TTTT--TAGAAACTAAGCCTAATTTTCAGGGGTTTCTTAATGTTTTCAAATGA
* *
3502074 GTTTTTAGAAACTAAGCCTGATTTTCATGGGTTTCTT
1 -TTTTTAGAAACTAAGCCTAATTTTCAGGGGTTTCTT
3502111 GATGATGATT
Statistics
Matches: 118, Mismatches: 18, Indels: 11
0.80 0.12 0.07
Matches are distributed among these distances:
51 5 0.04
52 71 0.60
53 36 0.31
54 6 0.05
ACGTcount: A:0.28, C:0.11, G:0.17, T:0.44
Consensus pattern (51 bp):
TTTTTAGAAACTAAGCCTAATTTTCAGGGGTTTCTTAATGTTTTCAAATGA
Found at i:3502265 original size:42 final size:42
Alignment explanation
Indices: 3502218--3502308 Score: 103
Period size: 42 Copynumber: 2.2 Consensus size: 42
3502208 TAATGAGTAT
*
3502218 GTCCTTCGAAACATC-GATAAGTCTTTCAAGCATTATGTGTAA
1 GTCCTTCGAAACATCAG-TAAGTCTTTCAAGCATGATGTGTAA
*** **
3502260 GTCCTTCGGGCCATCAGTAAGTCTTTTGAGCATGATGTGTAA
1 GTCCTTCGAAACATCAGTAAGTCTTTCAAGCATGATGTGTAA
*
3502302 CTCCTTC
1 GTCCTTC
3502309 AGGCCATCCA
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
42 40 0.98
43 1 0.02
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (42 bp):
GTCCTTCGAAACATCAGTAAGTCTTTCAAGCATGATGTGTAA
Found at i:3502314 original size:42 final size:42
Alignment explanation
Indices: 3502235--3502316 Score: 119
Period size: 42 Copynumber: 2.0 Consensus size: 42
3502225 GAAACATCGA
* * *
3502235 TAAGTCTTTCAAGCATTATGTGTAAGTCCTTCGGGCCATCAG
1 TAAGTCTTTCAAGCATGATGTGTAACTCCTTCAGGCCATCAG
**
3502277 TAAGTCTTTTGAGCATGATGTGTAACTCCTTCAGGCCATC
1 TAAGTCTTTCAAGCATGATGTGTAACTCCTTCAGGCCATC
3502317 CATAAGACCT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.34
Consensus pattern (42 bp):
TAAGTCTTTCAAGCATGATGTGTAACTCCTTCAGGCCATCAG
Found at i:3502469 original size:20 final size:20
Alignment explanation
Indices: 3502444--3502519 Score: 80
Period size: 20 Copynumber: 3.7 Consensus size: 20
3502434 TGAATCAACA
*
3502444 TAAGTCATTCGAGCCATCAG
1 TAAGTCTTTCGAGCCATCAG
* * *
3502464 TAAGTCTTTCAAGCATGATGAG
1 TAAGTCTTTCGAGC--CATCAG
* *
3502486 TAAGTCTTTCGGGCCATTAG
1 TAAGTCTTTCGAGCCATCAG
3502506 TAAGTCTTTCGAGC
1 TAAGTCTTTCGAGC
3502520 ATGATGCTTA
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
20 29 0.64
22 16 0.36
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (20 bp):
TAAGTCTTTCGAGCCATCAG
Found at i:3502508 original size:42 final size:41
Alignment explanation
Indices: 3502443--3502585 Score: 153
Period size: 42 Copynumber: 3.4 Consensus size: 41
3502433 TTGAATCAAC
* * * *
3502443 ATAAGTCATTCGAGCCATCAGTAAGTCTTTCAAGCATGATG
1 ATAAGTCCTTCGGGCCATTAGTAAGTCTTTCGAGCATGATG
*
3502484 AGTAAGTCTTTCGGGCCATTAGTAAGTCTTTCGAGCATGATG
1 A-TAAGTCCTTCGGGCCATTAGTAAGTCTTTCGAGCATGATG
* * * * *
3502526 CTTAAATCCTTCAGGTCATCTA-TAAGTCTTTCGAGCAAGATG
1 -ATAAGTCCTTCGGGCCAT-TAGTAAGTCTTTCGAGCATGATG
*
3502568 ACAAGTCCTTCGGGCCAT
1 ATAAGTCCTTCGGGCCAT
3502586 CCATAAGACC
Statistics
Matches: 84, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
41 14 0.17
42 68 0.81
43 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (41 bp):
ATAAGTCCTTCGGGCCATTAGTAAGTCTTTCGAGCATGATG
Found at i:3504044 original size:136 final size:135
Alignment explanation
Indices: 3503572--3504295 Score: 728
Period size: 136 Copynumber: 5.3 Consensus size: 135
3503562 GGGTAAACCA
*
3503572 ATCAACATTTCAAATTGAGAGTTCATAATGAGAAGAACTCATCCGAC--AGAGGTAGAAGAAGTT
1 ATCAACATTTCAAATGGAGAGTTCATAATGAGAAGAACTCATCCGACGAAGA-G-AGAAGAAGTT
* ** * *
3503635 CATAATGAGAAGAACTTGTTCAACCTTA-ACTCGATTCATGACATTTTGAATCAGTGACACCTCA
64 CATAATGAGAAGAGCTTGTTCAA-CTTATACTCGATTCACAATATTTCGAATCAGTGACACCTCA
*
3503699 CTCGAGGG
128 CTTGAGGG
* * * ** * * * *
3503707 ATCAAAACTTCCAGCGGAGAGTTCATAATGAAAAGAACTCATCTGATGATG-GAGAAGAAGTTCA
1 ATCAACATTTCAAATGGAGAGTTCATAATGAGAAGAACTCATCCGACGAAGAGAGAAGAAGTTCA
** * * * *
3503771 TAATGAGAAGAATTTGTTCAACCTTA-GCTCGATTCATCGCATATGGAGTCGAATCAGTAACACC
66 TAATGAGAAGAGCTTGTTCAA-CTTATACTCGATTCA-C-AATAT---TTCGAATCAGTGACACC
* *
3503835 TTACTCGAGGG
125 TCACTTGAGGG
* * * * *
3503846 ATCAACATATCCAATGGGAGAGTTCATAATGAGAAGAACTCATCCGATG-AGGGAGAAAAAGTTC
1 ATCAACATTTCAAAT-GGAGAGTTCATAATGAGAAGAACTCATCCGACGAAGAGAGAAGAAGTTC
* * * ** *
3503910 ATAATGAGAAGAGCTTGTTCAACTTATCACTTGATTAACAATATTTCGAATCAATGACGTCTCGC
65 ATAATGAGAAGAGCTTGTTCAACTTAT-ACTCGATTCACAATATTTCGAATCAGTGACACCTCAC
*
3503975 TTGATGG
129 TTGAGGG
*
3503982 ATCAACATTTCAAATGGAGAGTTCATAATGAGAATAACTCATCCGACGAAGAGAGAAGAAGTTCA
1 ATCAACATTTCAAATGGAGAGTTCATAATGAGAAGAACTCATCCGACGAAGAGAGAAGAAGTTCA
* * * * * *** *
3504047 TAATGAGAAGAGCTTCTTCGACCTATCAATTGATTCATGGTATTTCGAATCAGTG-CAACCTCTC
66 TAATGAGAAGAGCTTGTTCAACTTAT-ACTCGATTCACAATATTTCGAATCAGTGAC-ACCTCAC
3504111 TTGAGGG
129 TTGAGGG
* * *
3504118 AAT-AACATTTCAGATGGAGAGTTCATAATGAGAAGAACTCATCTGAC-AGAGGGAGAAGAAGTT
1 -ATCAACATTTCAAATGGAGAGTTCATAATGAGAAGAACTCATCCGACGA-AGAGAGAAGAAGTT
* * * * **
3504181 CATAACGAGAAGAGCTTGTTCGACCTATTACTCGATTCACAATACTTCGAATCAGCAACACCTCA
64 CATAATGAGAAGAGCTTGTTCAACTTA-TACTCGATTCACAATATTTCGAATCAGTGACACCTCA
3504246 CTTGAGGG
128 CTTGAGGG
* *
3504254 ATTAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCAT
1 ATCAACATTTCAAATGGAGAGTTCATAATGAGAAGAACTCAT
3504296 TCGATAAGAA
Statistics
Matches: 492, Mismatches: 79, Indels: 35
0.81 0.13 0.06
Matches are distributed among these distances:
134 46 0.09
135 74 0.15
136 254 0.52
137 5 0.01
139 43 0.09
140 63 0.13
141 7 0.01
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (135 bp):
ATCAACATTTCAAATGGAGAGTTCATAATGAGAAGAACTCATCCGACGAAGAGAGAAGAAGTTCA
TAATGAGAAGAGCTTGTTCAACTTATACTCGATTCACAATATTTCGAATCAGTGACACCTCACTT
GAGGG
Found at i:3504193 original size:272 final size:271
Alignment explanation
Indices: 3503572--3504295 Score: 836
Period size: 272 Copynumber: 2.6 Consensus size: 271
3503562 GGGTAAACCA
* *
3503572 ATCAACATTTCAAATTGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGTAGAAGAAGTTCA
1 ATCAACATTTC-AATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCA
* ** * *
3503637 TAATGAGAAGAACTTGTTCAACCTTA-ACTCGATTCATGACATTTTGAATCAGTGACACCTCACT
65 TAATGAGAAGAGCTTGTTCAA-CTTATACTCGATTCACAATATTTCGAATCAGTGACACCTCACT
* * * ** * * * *
3503701 CGAGGGATCAAAACTTCCAGCGGAGAGTTCATAATGAAAAGAACTCATCTGATGATGGAGAAGAA
129 TGAGGGATCAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACGAAGGAGAAGAA
* * *
3503766 GTTCATAATGAGAAGAATTTGTTCAACCTTAGCTCGATTCATCGCATATGGAGTCGAATCAGTAA
194 GTTCATAATGAGAAGAACTTCTTCAACCTTAGATCGATTCATCGCATAT-G-GTCGAATCAGTAA
3503831 CACCTTACTCGAGGG
257 CACCTTACTCGAGGG
* * *
3503846 ATCAACATATCCAATGGGAGAGTTCATAATGAGAAGAACTCATCCGA-TGAGGGAGAAAAAGTTC
1 ATCAACAT-TTCAAT-GGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTC
* * * ** *
3503910 ATAATGAGAAGAGCTTGTTCAACTTATCACTTGATTAACAATATTTCGAATCAATGACGTCTCGC
64 ATAATGAGAAGAGCTTGTTCAACTTAT-ACTCGATTCACAATATTTCGAATCAGTGACACCTCAC
* * *
3503975 TTGATGGATCAACATTTCAAATGGAGAGTTCATAATGAGAATAACTCATCCGACGAAGAGAGAAG
128 TTGAGGGATCAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACGAAG-GAGAAG
* * * * *
3504040 AAGTTCATAATGAGAAGAGCTTCTTCGACCTATCA-ATTGATTCAT-G-GTAT-TTCGAATCAGT
192 AAGTTCATAATGAGAAGAACTTCTTCAACCT-T-AGATCGATTCATCGCATATGGTCGAATCAGT
* *
3504101 -GCAACCTCT-CTTGAGGG
255 AAC-ACCT-TACTCGAGGG
*
3504118 AAT-AACATTTCAGATGGAGAGTTCATAATGAGAAGAACTCATCTGACAGAGGGAGAAGAAGTTC
1 -ATCAACATTTCA-ATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTC
* * * * **
3504182 ATAACGAGAAGAGCTTGTTCGACCTATTACTCGATTCACAATACTTCGAATCAGCAACACCTCAC
64 ATAATGAGAAGAGCTTGTTCAACTTA-TACTCGATTCACAATATTTCGAATCAGTGACACCTCAC
*
3504247 TTGAGGGATTAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCAT
128 TTGAGGGATCAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCAT
3504296 TCGATAAGAA
Statistics
Matches: 379, Mismatches: 58, Indels: 28
0.82 0.12 0.06
Matches are distributed among these distances:
271 34 0.09
272 139 0.37
273 8 0.02
274 46 0.12
275 108 0.28
276 34 0.09
277 9 0.02
278 1 0.00
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (271 bp):
ATCAACATTTCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCAT
AATGAGAAGAGCTTGTTCAACTTATACTCGATTCACAATATTTCGAATCAGTGACACCTCACTTG
AGGGATCAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACGAAGGAGAAGAAGT
TCATAATGAGAAGAACTTCTTCAACCTTAGATCGATTCATCGCATATGGTCGAATCAGTAACACC
TTACTCGAGGG
Found at i:3507384 original size:27 final size:27
Alignment explanation
Indices: 3507327--3507384 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
3507317 ACTTTAAGTT
** *
3507327 ATTTTACACTTTAGGGGCATTTTGGTC
1 ATTTTACACTTTAGGGGCATTTTCATA
3507354 ATTTTACACTTTAGGGGCATTTTCATA
1 ATTTTACACTTTAGGGGCATTTTCATA
3507381 ATTT
1 ATTT
3507385 ATCCATGATG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.22, C:0.14, G:0.17, T:0.47
Consensus pattern (27 bp):
ATTTTACACTTTAGGGGCATTTTCATA
Found at i:3509960 original size:21 final size:22
Alignment explanation
Indices: 3509936--3509982 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
3509926 TAAAAAAATT
*
3509936 AATAATTT-TTGTAACATTTTA
1 AATAATTTCTTGTAACATTTCA
* *
3509957 AAT-ATTTCTTTTTACATTTCA
1 AATAATTTCTTGTAACATTTCA
3509978 AATAA
1 AATAA
3509983 AATGATGAGC
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
20 4 0.19
21 16 0.76
22 1 0.05
ACGTcount: A:0.38, C:0.09, G:0.02, T:0.51
Consensus pattern (22 bp):
AATAATTTCTTGTAACATTTCA
Found at i:3512865 original size:18 final size:18
Alignment explanation
Indices: 3512842--3512891 Score: 91
Period size: 18 Copynumber: 2.8 Consensus size: 18
3512832 GCTAACTCGA
*
3512842 CCCGACCTGACCCGATTG
1 CCCGACCTGACCCGACTG
3512860 CCCGACCTGACCCGACTG
1 CCCGACCTGACCCGACTG
3512878 CCCGACCTGACCCG
1 CCCGACCTGACCCG
3512892 TTGACTTTGA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.16, C:0.50, G:0.22, T:0.12
Consensus pattern (18 bp):
CCCGACCTGACCCGACTG
Found at i:3514107 original size:23 final size:22
Alignment explanation
Indices: 3514081--3514149 Score: 93
Period size: 23 Copynumber: 3.0 Consensus size: 22
3514071 CACCACAACT
3514081 CGTATAAATGCACCGAAGTGCCA
1 CGTA-AAATGCACCGAAGTGCCA
* *
3514104 CGTAAAATTGCACCGTAGTGCCG
1 CGTAAAA-TGCACCGAAGTGCCA
3514127 CGTAGAAATGCACCGAAGTGCCA
1 CGTA-AAATGCACCGAAGTGCCA
3514150 TACAATATGT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
22 3 0.08
23 34 0.85
24 3 0.08
ACGTcount: A:0.32, C:0.26, G:0.25, T:0.17
Consensus pattern (22 bp):
CGTAAAATGCACCGAAGTGCCA
Found at i:3518125 original size:24 final size:24
Alignment explanation
Indices: 3518080--3518165 Score: 66
Period size: 24 Copynumber: 3.6 Consensus size: 24
3518070 TTGAATAATG
* * *
3518080 TTATGATA-CTTGACCTGAATTCTG
1 TTATGATATC-TGACATGGATTCTA
* *
3518104 TTATGATATCTGATATGGATTCTT
1 TTATGATATCTGACATGGATTCTA
* * * *
3518128 TTCTAATACCTAACATGGATTCTA
1 TTATGATATCTGACATGGATTCTA
*
3518152 TTATGATTTCTGAC
1 TTATGATATCTGAC
3518166 CTGAATTATG
Statistics
Matches: 46, Mismatches: 15, Indels: 2
0.73 0.24 0.03
Matches are distributed among these distances:
24 45 0.98
25 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.14, T:0.44
Consensus pattern (24 bp):
TTATGATATCTGACATGGATTCTA
Found at i:3522444 original size:24 final size:24
Alignment explanation
Indices: 3522354--3522441 Score: 104
Period size: 24 Copynumber: 3.7 Consensus size: 24
3522344 ATTTGAATAA
* *
3522354 TGTTATGATACTTGACATAGATTC
1 TGTTATGATACCTGACATGGATTC
* *
3522378 TGTTATGATACCTGATATGGATTT
1 TGTTATGATACCTGACATGGATTC
* * *
3522402 TGTTCTAATACCTGACCTGGATTC
1 TGTTATGATACCTGACATGGATTC
*
3522426 TGTTATGATATCTGAC
1 TGTTATGATACCTGAC
3522442 CTGAATTATG
Statistics
Matches: 52, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 52 1.00
ACGTcount: A:0.25, C:0.15, G:0.18, T:0.42
Consensus pattern (24 bp):
TGTTATGATACCTGACATGGATTC
Found at i:3522458 original size:24 final size:24
Alignment explanation
Indices: 3522347--3522451 Score: 61
Period size: 24 Copynumber: 4.4 Consensus size: 24
3522337 ATTTCTGATT
* *
3522347 TGAATAATGTTATGATA-CTTGACA
1 TGAATTATGTTATGATATC-TGACC
* * **
3522371 T-AGATTCTGTTATGATACCTGATA
1 TGA-ATTATGTTATGATATCTGACC
* * * * *
3522395 TGGATTTTGTTCTAATACCTGACC
1 TGAATTATGTTATGATATCTGACC
* *
3522419 TGGATTCTGTTATGATATCTGACC
1 TGAATTATGTTATGATATCTGACC
3522443 TGAATTATG
1 TGAATTATG
3522452 CTTTGATTTT
Statistics
Matches: 63, Mismatches: 15, Indels: 6
0.75 0.18 0.07
Matches are distributed among these distances:
23 1 0.02
24 61 0.97
25 1 0.02
ACGTcount: A:0.28, C:0.13, G:0.18, T:0.41
Consensus pattern (24 bp):
TGAATTATGTTATGATATCTGACC
Found at i:3523045 original size:22 final size:21
Alignment explanation
Indices: 3523020--3523061 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
3523010 ATTCAAAGAG
*
3523020 GGGAACCGATTCCCCTGCTACA
1 GGGAACCGA-TACCCTGCTACA
*
3523042 GGGAACTGATACCCTGCTAC
1 GGGAACCGATACCCTGCTAC
3523062 GGTACTGCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.24, C:0.33, G:0.24, T:0.19
Consensus pattern (21 bp):
GGGAACCGATACCCTGCTACA
Found at i:3523843 original size:23 final size:23
Alignment explanation
Indices: 3523817--3523860 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
3523807 AAGGACCGCG
3523817 TAGAAATGCACCGAAGTGCCACA
1 TAGAAATGCACCGAAGTGCCACA
* * *
3523840 TAGAATTGCACTGTAGTGCCA
1 TAGAAATGCACCGAAGTGCCA
3523861 TATAAGATTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (23 bp):
TAGAAATGCACCGAAGTGCCACA
Found at i:3528069 original size:26 final size:26
Alignment explanation
Indices: 3528040--3528091 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
3528030 GTTTCGTTCG
3528040 TTTATGTTCACGAACAAACTCGTTTA
1 TTTATGTTCACGAACAAACTCGTTTA
* * **
3528066 TTTATGTTTATGAACAAGTTCGTTTA
1 TTTATGTTCACGAACAAACTCGTTTA
3528092 CCCGGTTCTC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.29, C:0.13, G:0.13, T:0.44
Consensus pattern (26 bp):
TTTATGTTCACGAACAAACTCGTTTA
Found at i:3528330 original size:12 final size:12
Alignment explanation
Indices: 3528269--3528332 Score: 69
Period size: 11 Copynumber: 5.5 Consensus size: 12
3528259 AAAACTAAGT
*
3528269 TGAATATATAAA
1 TGAACATATAAA
*
3528281 TGAAC-GATAAA
1 TGAACATATAAA
3528292 TGAACA-ATAAA
1 TGAACATATAAA
* * *
3528303 TGAACATGTTAC
1 TGAACATATAAA
3528315 TGAACATATAAA
1 TGAACATATAAA
3528327 TGAACA
1 TGAACA
3528333 CATTCGCGAA
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
11 21 0.50
12 21 0.50
ACGTcount: A:0.53, C:0.09, G:0.12, T:0.25
Consensus pattern (12 bp):
TGAACATATAAA
Found at i:3528699 original size:15 final size:16
Alignment explanation
Indices: 3528681--3528716 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
3528671 AATTTATGAA
3528681 AATTTTCTTTT-TTAT
1 AATTTTCTTTTCTTAT
*
3528696 AATTTTCTTTTCTTTT
1 AATTTTCTTTTCTTAT
3528712 AATTT
1 AATTT
3528717 AATCTTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.58
16 8 0.42
ACGTcount: A:0.19, C:0.08, G:0.00, T:0.72
Consensus pattern (16 bp):
AATTTTCTTTTCTTAT
Found at i:3528822 original size:22 final size:22
Alignment explanation
Indices: 3528796--3528860 Score: 130
Period size: 22 Copynumber: 3.0 Consensus size: 22
3528786 TTTTTATCTT
3528796 CTAAAATTTTATAAATCTGTCC
1 CTAAAATTTTATAAATCTGTCC
3528818 CTAAAATTTTATAAATCTGTCC
1 CTAAAATTTTATAAATCTGTCC
3528840 CTAAAATTTTATAAATCTGTC
1 CTAAAATTTTATAAATCTGTC
3528861 ACTTCTTAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.37, C:0.17, G:0.05, T:0.42
Consensus pattern (22 bp):
CTAAAATTTTATAAATCTGTCC
Found at i:3528888 original size:24 final size:26
Alignment explanation
Indices: 3528841--3528893 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
3528831 AATCTGTCCC
* *
3528841 TAAAATTTTATAAATCTGTCACTTCT
1 TAAAATTTTAAAAATCTGTAACTTCT
3528867 TAAAATTTTAAAAAT-T-TAACTTCT
1 TAAAATTTTAAAAATCTGTAACTTCT
3528891 TAA
1 TAA
3528894 TATAAAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 10 0.40
25 1 0.04
26 14 0.56
ACGTcount: A:0.42, C:0.11, G:0.02, T:0.45
Consensus pattern (26 bp):
TAAAATTTTAAAAATCTGTAACTTCT
Found at i:3534308 original size:3 final size:3
Alignment explanation
Indices: 3534300--3534393 Score: 73
Period size: 3 Copynumber: 30.0 Consensus size: 3
3534290 ATACTTTTAC
* * * *
3534300 TTA TTA TTA TATA CTA TTA TTA CTA TTTA TTA TTA TTA TTA TCA TCA
1 TTA TTA TTA T-TA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA
* * *
3534347 GTA TTTA TTA TTA TATA TTA CTAA TTA TTA TTA TTA TTG TTA -TA TTA
1 TTA -TTA TTA TTA T-TA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA
3534394 AGCATATATA
Statistics
Matches: 73, Mismatches: 12, Indels: 12
0.75 0.12 0.12
Matches are distributed among these distances:
2 2 0.03
3 60 0.82
4 11 0.15
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:3534321 original size:16 final size:17
Alignment explanation
Indices: 3534296--3534382 Score: 81
Period size: 16 Copynumber: 5.2 Consensus size: 17
3534286 TTTTATACTT
3534296 TTACTTATTATTATATA
1 TTACTTATTATTATATA
* * *
3534313 CTA-TTATTACTATTTA
1 TTACTTATTATTATATA
3534329 TTA-TTATTATTATCATCA
1 TTACTTATTATTAT-AT-A
* *
3534347 GTATTTATTATTATATA
1 TTACTTATTATTATATA
*
3534364 TTACTAATTATTAT-TA
1 TTACTTATTATTATATA
3534380 TTA
1 TTA
3534383 TTGTTATATT
Statistics
Matches: 57, Mismatches: 10, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
16 27 0.47
17 15 0.26
18 5 0.09
19 10 0.18
ACGTcount: A:0.34, C:0.07, G:0.01, T:0.57
Consensus pattern (17 bp):
TTACTTATTATTATATA
Found at i:3534389 original size:9 final size:9
Alignment explanation
Indices: 3534300--3534393 Score: 73
Period size: 10 Copynumber: 10.0 Consensus size: 9
3534290 ATACTTTTAC
3534300 TTATTATTA
1 TTATTATTA
*
3534309 TATACTATTA
1 T-TATTATTA
*
3534319 TTACTATTTA
1 TTATTA-TTA
3534329 TTATTATTA
1 TTATTATTA
* *
3534338 TTATCATCA
1 TTATTATTA
*
3534347 GTATTTATTA
1 TTA-TTATTA
3534357 TTATATATTA
1 TTAT-TATTA
*
3534367 CTAATTATTA
1 -TTATTATTA
*
3534377 TTATTATTG
1 TTATTATTA
3534386 TTA-TATTA
1 TTATTATTA
3534394 AGCATATATA
Statistics
Matches: 68, Mismatches: 12, Indels: 11
0.75 0.13 0.12
Matches are distributed among these distances:
8 4 0.06
9 29 0.43
10 32 0.47
11 3 0.04
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (9 bp):
TTATTATTA
Found at i:3534404 original size:2 final size:2
Alignment explanation
Indices: 3534397--3534424 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
3534387 TATATTAAGC
3534397 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
3534425 GCAGAAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3536020 original size:5 final size:5
Alignment explanation
Indices: 3536010--3536052 Score: 86
Period size: 5 Copynumber: 8.6 Consensus size: 5
3536000 TCAATTGACT
3536010 CCCTC CCCTC CCCTC CCCTC CCCTC CCCTC CCCTC CCCTC CCC
1 CCCTC CCCTC CCCTC CCCTC CCCTC CCCTC CCCTC CCCTC CCC
3536053 AAGAAAAGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 38 1.00
ACGTcount: A:0.00, C:0.81, G:0.00, T:0.19
Consensus pattern (5 bp):
CCCTC
Found at i:3543496 original size:21 final size:23
Alignment explanation
Indices: 3543466--3543512 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
3543456 TGAATATCTA
*
3543466 TAAAAATATT-AT-ATTATATTT
1 TAAAAATATTAATAAATATATTT
*
3543487 TAAAATTATTAATAAATATATTT
1 TAAAAATATTAATAAATATATTT
3543510 TAA
1 TAA
3543513 GGAATTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 9 0.41
22 2 0.09
23 11 0.50
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
TAAAAATATTAATAAATATATTT
Found at i:3543527 original size:23 final size:22
Alignment explanation
Indices: 3543466--3543528 Score: 58
Period size: 23 Copynumber: 2.8 Consensus size: 22
3543456 TGAATATCTA
* *
3543466 TAAAAATA-TTATATTATATTT
1 TAAAATTATTTATAATATATTT
*
3543487 TAAAATTATTAATAAATATATTT
1 TAAAATTATTTAT-AATATATTT
3543510 TAAGGAATT-TTTATAATAT
1 TAA--AATTATTTATAATAT
3543529 TATTAGACTA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
21 7 0.21
22 3 0.09
23 16 0.47
24 4 0.12
25 4 0.12
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (22 bp):
TAAAATTATTTATAATATATTT
Found at i:3546694 original size:94 final size:94
Alignment explanation
Indices: 3546533--3546705 Score: 312
Period size: 94 Copynumber: 1.8 Consensus size: 94
3546523 ATAGTTATTA
3546533 TGTTAAACTACCAGTTAAATCTGATGACGACTACTTAGAGTTAGAAGTAGAACCCTCCCCAATCC
1 TGTTAAACTACCAGTTAAATCTGATGACGACTACTTAGAGTTAGAAGTAGAACCCTCCCCAATCC
3546598 AGAGCCATGGTTCCCTTACCAAATCGATG
66 AGAGCCATGGTTCCCTTACCAAATCGATG
* *
3546627 TGTTAAACTACCA-TCTAAATCTGATGATGGCTACTTAGAGTTAGAAGTAGAACCCTCCCCAATC
1 TGTTAAACTACCAGT-TAAATCTGATGACGACTACTTAGAGTTAGAAGTAGAACCCTCCCCAATC
3546691 CAGAGCCATGGTTCC
65 CAGAGCCATGGTTCC
3546706 TGTAACATCC
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
93 1 0.01
94 75 0.99
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.26
Consensus pattern (94 bp):
TGTTAAACTACCAGTTAAATCTGATGACGACTACTTAGAGTTAGAAGTAGAACCCTCCCCAATCC
AGAGCCATGGTTCCCTTACCAAATCGATG
Found at i:3547582 original size:20 final size:18
Alignment explanation
Indices: 3547557--3547623 Score: 59
Period size: 20 Copynumber: 3.7 Consensus size: 18
3547547 TCTTCATGGG
3547557 GTATCGATACCGAAGTGGTA
1 GTATCGATACC-AAGTGG-A
*
3547577 GTATCGGTACC-A-TGG-
1 GTATCGATACCAAGTGGA
*
3547592 GTATCGATACCAATGTAGAA
1 GTATCGATACCAA-GT-GGA
3547612 GTATCGATACCA
1 GTATCGATACCA
3547624 TTTTTAGAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
15 10 0.26
16 1 0.03
17 3 0.08
18 2 0.05
19 1 0.03
20 22 0.56
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.25
Consensus pattern (18 bp):
GTATCGATACCAAGTGGA
Found at i:3547598 original size:35 final size:35
Alignment explanation
Indices: 3547555--3547624 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 35
3547545 ATTCTTCATG
* * *
3547555 GGGTATCGATACCGAA-GTGGTAGTATCGGTACCAT
1 GGGTATCGATACC-AATGTAGAAGTATCGATACCAT
3547590 GGGTATCGATACCAATGTAGAAGTATCGATACCAT
1 GGGTATCGATACCAATGTAGAAGTATCGATACCAT
3547625 TTTTAGAATG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
34 2 0.06
35 29 0.94
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.26
Consensus pattern (35 bp):
GGGTATCGATACCAATGTAGAAGTATCGATACCAT
Found at i:3550069 original size:25 final size:27
Alignment explanation
Indices: 3550040--3550098 Score: 95
Period size: 27 Copynumber: 2.3 Consensus size: 27
3550030 CGGACGAAAG
3550040 GAAATGA-T-TAATACACTCGATCTGT
1 GAAATGATTGTAATACACTCGATCTGT
*
3550065 GAAATGATTGTAATACACTGGATCTGT
1 GAAATGATTGTAATACACTCGATCTGT
3550092 GAAATGA
1 GAAATGA
3550099 CCAAAATACC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
25 7 0.23
26 1 0.03
27 23 0.74
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (27 bp):
GAAATGATTGTAATACACTCGATCTGT
Found at i:3550106 original size:27 final size:27
Alignment explanation
Indices: 3550049--3550107 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
3550039 GGAAATGATT
****
3550049 AATACACTCGATCTGTGAAATGATTGT
1 AATACACTCGATCTGTGAAATGACCAA
*
3550076 AATACACTGGATCTGTGAAATGACCAA
1 AATACACTCGATCTGTGAAATGACCAA
3550103 AATAC
1 AATAC
3550108 CCCTGGAATA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.27
Consensus pattern (27 bp):
AATACACTCGATCTGTGAAATGACCAA
Found at i:3551317 original size:24 final size:24
Alignment explanation
Indices: 3551276--3551384 Score: 121
Period size: 24 Copynumber: 4.5 Consensus size: 24
3551266 GAATGTTTTA
* *
3551276 TCTGATTTAC-GATTTGAATTTTGT
1 TCTGATTT-CTGATCTGAATTCTGT
* * *
3551300 TCTGATTTCTTATCTGAATTATGA
1 TCTGATTTCTGATCTGAATTCTGT
*
3551324 TCTGATTTCTGATCTGGATTCTGT
1 TCTGATTTCTGATCTGAATTCTGT
*
3551348 TCTGATGTCTGATCTGAATTCTGT
1 TCTGATTTCTGATCTGAATTCTGT
* *
3551372 TTTGATTTTTGAT
1 TCTGATTTCTGAT
3551385 ATCTCTGTTT
Statistics
Matches: 71, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
23 1 0.01
24 70 0.99
ACGTcount: A:0.18, C:0.12, G:0.17, T:0.52
Consensus pattern (24 bp):
TCTGATTTCTGATCTGAATTCTGT
Found at i:3551326 original size:12 final size:12
Alignment explanation
Indices: 3551290--3551370 Score: 74
Period size: 12 Copynumber: 6.8 Consensus size: 12
3551280 ATTTACGATT
* *
3551290 TGAATTTTGTTC
1 TGAATTCTGATC
* *
3551302 TGATTTCTTATC
1 TGAATTCTGATC
*
3551314 TGAATTATGATC
1 TGAATTCTGATC
*
3551326 TGATTTCTGATC
1 TGAATTCTGATC
* *
3551338 TGGATTCTGTTC
1 TGAATTCTGATC
3551350 TG-ATGTCTGATC
1 TGAAT-TCTGATC
3551362 TGAATTCTG
1 TGAATTCTG
3551371 TTTTGATTTT
Statistics
Matches: 54, Mismatches: 13, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
11 2 0.04
12 50 0.93
13 2 0.04
ACGTcount: A:0.19, C:0.14, G:0.19, T:0.49
Consensus pattern (12 bp):
TGAATTCTGATC
Found at i:3552366 original size:21 final size:21
Alignment explanation
Indices: 3552342--3552421 Score: 99
Period size: 21 Copynumber: 3.8 Consensus size: 21
3552332 GTCCTTCAGG
*
3552342 ACATATATGTGATCCTTTGGA
1 ACATATATGTGGTCCTTTGGA
* *
3552363 ACATATGTGCGGTCCTTTAGG-
1 ACATATATGTGGTCCTTT-GGA
* *
3552384 ACATATATTTGGTCATTTGGA
1 ACATATATGTGGTCCTTTGGA
3552405 ACATATATGTGGTCCTT
1 ACATATATGTGGTCCTT
3552422 CGGGACAATT
Statistics
Matches: 48, Mismatches: 9, Indels: 4
0.79 0.15 0.07
Matches are distributed among these distances:
20 2 0.04
21 44 0.92
22 2 0.04
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.39
Consensus pattern (21 bp):
ACATATATGTGGTCCTTTGGA
Found at i:3552391 original size:42 final size:42
Alignment explanation
Indices: 3552332--3552428 Score: 131
Period size: 42 Copynumber: 2.3 Consensus size: 42
3552322 GTTCTACCCA
* *
3552332 GTCCTTCAGGACATATATGTGATCCTTTGGAACATATGTGCG
1 GTCCTTCAGGACATATATGTGATCATTTGGAACATATATGCG
* * * *
3552374 GTCCTTTAGGACATATATTTGGTCATTTGGAACATATATGTG
1 GTCCTTCAGGACATATATGTGATCATTTGGAACATATATGCG
*
3552416 GTCCTTCGGGACA
1 GTCCTTCAGGACA
3552429 ATTCTACGAG
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.35
Consensus pattern (42 bp):
GTCCTTCAGGACATATATGTGATCATTTGGAACATATATGCG
Found at i:3552736 original size:23 final size:23
Alignment explanation
Indices: 3552690--3552736 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
3552680 GATTGTATGA
* **
3552690 TATGAAAGTATGTAAATATGTGT
1 TATGAAAGTATATAAATACATGT
*
3552713 TATGAAAGTATATAACTACATGT
1 TATGAAAGTATATAAATACATGT
3552736 T
1 T
3552737 TTATTAGTTC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.40, C:0.04, G:0.17, T:0.38
Consensus pattern (23 bp):
TATGAAAGTATATAAATACATGT
Found at i:3557755 original size:14 final size:13
Alignment explanation
Indices: 3557736--3557818 Score: 57
Period size: 14 Copynumber: 6.4 Consensus size: 13
3557726 AATTTTTTTC
3557736 ATATTATATTATA
1 ATATTATATTATA
*
3557749 GATATTA-ATTTTA
1 -ATATTATATTATA
*
3557762 ATATTAGTTTTATA
1 ATATTA-TATTATA
*
3557776 A-A-TAAATTA-A
1 ATATTATATTATA
* *
3557786 ATATTAATTTTTTA
1 ATATT-ATATTATA
3557800 ATATTATATTATA
1 ATATTATATTATA
3557813 GATATT
1 -ATATT
3557819 TAATTTTATA
Statistics
Matches: 52, Mismatches: 10, Indels: 14
0.68 0.13 0.18
Matches are distributed among these distances:
10 2 0.04
11 4 0.08
12 9 0.17
13 15 0.29
14 22 0.42
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (13 bp):
ATATTATATTATA
Found at i:3557756 original size:36 final size:35
Alignment explanation
Indices: 3557716--3557878 Score: 108
Period size: 35 Copynumber: 4.7 Consensus size: 35
3557706 TTTTAAATAA
3557716 ATTAAATTTTAATTTTTTTCATATTATATTATAGAT
1 ATTAAATTTTAATTTTTTT-ATATTATATTATAGAT
* ** *
3557752 ATT-AATTTTAATATTAGT-T-TTATA-AATA-A-
1 ATTAAATTTTAATTTTTTTATATTATATTATAGAT
* *
3557781 ATTAAATATTAATTTTTTAATATTATATTATAGAT
1 ATTAAATTTTAATTTTTTTATATTATATTATAGAT
* ** * * * *
3557816 ATTTAATTTT-ATATCATATAAATTATTTTATATATT
1 ATTAAATTTTAAT-TTTTTTATATTATATTATAGA-T
3557852 ATTAAATTTTATATTTATTTTA-ATTAT
1 ATTAAATTTTA-ATTT-TTTTATATTAT
3557879 TTTGATTTAA
Statistics
Matches: 93, Mismatches: 23, Indels: 21
0.68 0.17 0.15
Matches are distributed among these distances:
29 3 0.03
30 11 0.12
31 4 0.04
32 10 0.11
33 4 0.04
34 3 0.03
35 34 0.37
36 13 0.14
37 6 0.06
38 5 0.05
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.57
Consensus pattern (35 bp):
ATTAAATTTTAATTTTTTTATATTATATTATAGAT
Found at i:3557761 original size:65 final size:65
Alignment explanation
Indices: 3557687--3557826 Score: 212
Period size: 65 Copynumber: 2.2 Consensus size: 65
3557677 CATATTTGAT
* *
3557687 TTTAATTTTAAAATTAATATTT-TAAATAAATTAAATTTTAATTTTTTTCATATTATATTATAGA
1 TTTAATTTTAAAATTAAT-TTTATAAATAAATTAAATATTAA-TTTTTTAATATTATATTATAGA
3557751 TA
64 TA
* *
3557753 -TTAATTTTAATATTAGTTTTATAAATAAATTAAATATTAATTTTTTAATATTATATTATAGATA
1 TTTAATTTTAAAATTAATTTTATAAATAAATTAAATATTAATTTTTTAATATTATATTATAGATA
3557817 TTTAATTTTA
1 TTTAATTTTA
3557827 TATCATATAA
Statistics
Matches: 68, Mismatches: 4, Indels: 5
0.88 0.05 0.06
Matches are distributed among these distances:
64 26 0.38
65 42 0.62
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.55
Consensus pattern (65 bp):
TTTAATTTTAAAATTAATTTTATAAATAAATTAAATATTAATTTTTTAATATTATATTATAGATA
Found at i:3557856 original size:64 final size:61
Alignment explanation
Indices: 3557709--3557838 Score: 174
Period size: 64 Copynumber: 2.1 Consensus size: 61
3557699 ATTAATATTT
* * *
3557709 TAAATAAATTAAATTTTAATTTTTTTCATATTATATTATAGATATTAATTTTAATATTAGTTTTA
1 TAAATAAATTAAATATTAA-TTTTTTAATATTATATTATAGATATTAATTTTAATATCA---TTA
3557774 TAAATAAATTAAATATTAATTTTTTAATATTATATTATAGATATTTAATTTT-ATATCA-TA
1 TAAATAAATTAAATATTAATTTTTTAATATTATATTATAGATA-TTAATTTTAATATCATTA
3557834 TAAAT
1 TAAAT
3557839 TATTTTATAT
Statistics
Matches: 61, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
60 7 0.11
64 28 0.46
65 26 0.43
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (61 bp):
TAAATAAATTAAATATTAATTTTTTAATATTATATTATAGATATTAATTTTAATATCATTA
Found at i:3558435 original size:30 final size:30
Alignment explanation
Indices: 3558371--3558428 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
3558361 GGGCTGGCAA
* *
3558371 TGAACCGGCTGAAAACCGGTAAAATCGGGG
1 TGAACCGGCTGAAAACCGGTAAAACCGAGG
3558401 TGAACCGGCTGAAAACCGGTAAAACCGA
1 TGAACCGGCTGAAAACCGGTAAAACCGA
3558429 TTTGAACGCC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.36, C:0.22, G:0.29, T:0.12
Consensus pattern (30 bp):
TGAACCGGCTGAAAACCGGTAAAACCGAGG
Found at i:3559421 original size:31 final size:31
Alignment explanation
Indices: 3559384--3559443 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
3559374 TAGTTGTATG
* * *
3559384 AATTATTTAAATTTCTGTATTGTAAAACTAA
1 AATTATTTAAATCTCAGTATTGCAAAACTAA
3559415 AATTATTTAAATCTCAGTATTGCAAAACT
1 AATTATTTAAATCTCAGTATTGCAAAACT
3559444 CTTTTAAGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.42
Consensus pattern (31 bp):
AATTATTTAAATCTCAGTATTGCAAAACTAA
Found at i:3560408 original size:3 final size:3
Alignment explanation
Indices: 3560400--3560490 Score: 107
Period size: 3 Copynumber: 31.3 Consensus size: 3
3560390 CCATTTTAAA
* *
3560400 ATT ATT ATT A-T ATT ATT ATT A-T AAT ATT ATT ATT ATT ACT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * *
3560446 ATC ATT ATT ATT AAT ATT AAT ATT AAT ATT -TT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
3560491 AATTATAAAT
Statistics
Matches: 74, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
2 6 0.08
3 68 0.92
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:3562002 original size:14 final size:14
Alignment explanation
Indices: 3561975--3562017 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
3561965 TTTAAATAAA
*
3561975 TAAAATATTATATT
1 TAAATTATTATATT
* *
3561989 TAATTTATTTTATT
1 TAAATTATTATATT
*
3562003 TAAATTATCATATT
1 TAAATTATTATATT
3562017 T
1 T
3562018 TCTAATATTT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (14 bp):
TAAATTATTATATT
Found at i:3570185 original size:54 final size:54
Alignment explanation
Indices: 3570096--3570255 Score: 232
Period size: 54 Copynumber: 3.0 Consensus size: 54
3570086 GCTTCACTGG
* *
3570096 CGAACATCTGGGCAGAAGCCACAGGAAATGATGAATTTGTTGTCAAATGATTTA
1 CGAACATCTGGGCAGAAGCCACAAGAAATGATGAATGTGTTGTCAAATGATTTA
* * * * *
3570150 CGAACATCTGGGCAGAAACCACAAGAAAGGGTGAATGTGTTATCAAATGTTTTA
1 CGAACATCTGGGCAGAAGCCACAAGAAATGATGAATGTGTTGTCAAATGATTTA
* *
3570204 CAAACATCTGGGCAGAAGCCACATGAAATGATGAATGTGTTGTCAAAT-ATTT
1 CGAACATCTGGGCAGAAGCCACAAGAAATGATGAATGTGTTGTCAAATGATTT
3570256 TATGAAACAG
Statistics
Matches: 92, Mismatches: 14, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
53 3 0.03
54 89 0.97
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (54 bp):
CGAACATCTGGGCAGAAGCCACAAGAAATGATGAATGTGTTGTCAAATGATTTA
Found at i:3571502 original size:116 final size:116
Alignment explanation
Indices: 3571297--3572142 Score: 1428
Period size: 116 Copynumber: 7.3 Consensus size: 116
3571287 CTATTTCCCA
* * *
3571297 CATCCATAAGACATACAGTTCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTTAAG
1 CATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTAAAG
**
3571362 CCT-CCGAAACATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGC
66 CCTCCCG-GTCATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGC
* * *
3571413 TATCCATAAGACCTACATTGTAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTAAAG
1 CATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTAAAG
3571478 CCTCCCGGTCATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGC
66 CCTCCCGGTCATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGC
*
3571529 CATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGAGAGCTTTTTGATATTTAAAG
1 CATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTAAAG
3571594 CCT-CCGTGTCATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGC
66 CCTCCCG-GTCATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGC
* * *
3571645 CATCCATAAGACCTACAGTGCATGATGTTTTCAAAAAGCTTTCAGGAGCTTTTTGATATTTAAAG
1 CATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTAAAG
*
3571710 CCTCCAGGTCATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGC
66 CCTCCCGGTCATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGC
*
3571761 CATCCATAAGACCTAAAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTAAAG
1 CATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTAAAG
** * *
3571826 CCTCCATGTTATCTGTAAGACCTACAGTGCAATATGATAAGACCTCAGGG-
66 CCTCCCGGTCATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGC
3571876 CATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTAAAG
1 CATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTAAAG
* * *
3571941 CCTCCGGGTCATCTGTAAGACTTACAGTGCAAGATGATAAGACCTCAGGGT
66 CCTCCCGGTCATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGC
** *
3571992 CATCCATATTACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCAGGAGCTTTTTGATATTTAAAG
1 CATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTAAAG
*
3572057 CCTCCGGGTCATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGC
66 CCTCCCGGTCATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGC
3572108 CATCCATAAGACCTACAGTGCAGGATGTTTTCAAA
1 CATCCATAAGACCTACAGTGCAGGATGTTTTCAAA
3572143 TGAGATTTTA
Statistics
Matches: 689, Mismatches: 37, Indels: 8
0.94 0.05 0.01
Matches are distributed among these distances:
115 112 0.16
116 572 0.83
117 5 0.01
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (116 bp):
CATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTAAAG
CCTCCCGGTCATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGC
Found at i:3571521 original size:22 final size:21
Alignment explanation
Indices: 3571493--3571551 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
3571483 CGGTCATCTG
3571493 TAAGACCTACAGTGCAAGATGA
1 TAAGACCTACAGTGC-AGATGA
* * *
3571515 TAAGACCT-CAGGGC-CATCCA
1 TAAGACCTACAGTGCAGAT-GA
3571535 TAAGACCTACAGTGCAG
1 TAAGACCTACAGTGCAG
3571552 GATGTTTTCA
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
19 2 0.07
20 9 0.31
21 10 0.34
22 8 0.28
ACGTcount: A:0.36, C:0.25, G:0.22, T:0.17
Consensus pattern (21 bp):
TAAGACCTACAGTGCAGATGA
Found at i:3571637 original size:22 final size:21
Alignment explanation
Indices: 3571609--3571671 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
3571599 GTGTCATCTG
3571609 TAAGACCTACAGTGCAAGATGA
1 TAAGACCTACAGTGC-AGATGA
* * *
3571631 TAAGACCT-CAGGGC-CATCCA
1 TAAGACCTACAGTGCAGAT-GA
3571651 TAAGACCTACAGTGCATGATG
1 TAAGACCTACAGTGCA-GATG
3571672 TTTTCAAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 8
0.69 0.13 0.18
Matches are distributed among these distances:
19 2 0.06
20 9 0.29
21 10 0.32
22 8 0.26
23 2 0.06
ACGTcount: A:0.35, C:0.24, G:0.22, T:0.19
Consensus pattern (21 bp):
TAAGACCTACAGTGCAGATGA
Found at i:3571869 original size:22 final size:21
Alignment explanation
Indices: 3571841--3571897 Score: 64
Period size: 19 Copynumber: 2.8 Consensus size: 21
3571831 ATGTTATCTG
**
3571841 TAAGACCTACAGTGCAATATGA
1 TAAGACCTACAGTGCAAT-CCA
*
3571863 TAAGACCT-CAGGGC-ATCCA
1 TAAGACCTACAGTGCAATCCA
3571882 TAAGACCTACAGTGCA
1 TAAGACCTACAGTGCA
3571898 GGATGTTTTC
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
19 9 0.31
20 7 0.24
21 5 0.17
22 8 0.28
ACGTcount: A:0.37, C:0.25, G:0.19, T:0.19
Consensus pattern (21 bp):
TAAGACCTACAGTGCAATCCA
Found at i:3572053 original size:347 final size:347
Alignment explanation
Indices: 3571297--3572142 Score: 1460
Period size: 347 Copynumber: 2.4 Consensus size: 347
3571287 CTATTTCCCA
* * * *
3571297 CATCCATAAGACATACAGTTCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTTAAG
1 CATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCAGGAGCTTTTTGATATTTAAAG
** *
3571362 CCTCCGAAACATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGCTATCCATAAGACCT
66 CCTCCG-GTCATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCATAAGACCT
* * *
3571427 ACATTGTAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTAAAGCCTCCCGGTCATCT
130 ACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTAAAGCCTCCAGGTCATCT
3571492 GTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCATAAGACCTACAGTGCAGGATGT
195 GTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCATAAGACCTACAGTGCAGGATGT
*
3571557 TTTCAAAAAGCCTTCGAGAGCTTTTTGATATTTAAAGCCTCCGTGTCATCTGTAAGACCTACAGT
260 TTTCAAAAAGCCTTCGAGAGCTTTTTGATATTTAAAGCCTCCGGGTCATCTGTAAGACCTACAGT
3571622 GCAAGATGATAAGACCTCAGGGC
325 GCAAGATGATAAGACCTCAGGGC
* *
3571645 CATCCATAAGACCTACAGTGCATGATGTTTTCAAAAAGCTTTCAGGAGCTTTTTGATATTTAAAG
1 CATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCAGGAGCTTTTTGATATTTAAAG
3571710 CCTCCAGGTCATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCATAAGACCT
66 CCTCC-GGTCATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCATAAGACCT
* * *
3571775 AAAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTAAAGCCTCCATGTTATCT
130 ACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTAAAGCCTCCAGGTCATCT
*
3571840 GTAAGACCTACAGTGCAATATGATAAGACCTCAGGG-CATCCATAAGACCTACAGTGCAGGATGT
195 GTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCATAAGACCTACAGTGCAGGATGT
* *
3571904 TTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTAAAGCCTCCGGGTCATCTGTAAGACTTACAGT
260 TTTCAAAAAGCCTTCGAGAGCTTTTTGATATTTAAAGCCTCCGGGTCATCTGTAAGACCTACAGT
*
3571969 GCAAGATGATAAGACCTCAGGGT
325 GCAAGATGATAAGACCTCAGGGC
**
3571992 CATCCATATTACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCAGGAGCTTTTTGATATTTAAAG
1 CATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCAGGAGCTTTTTGATATTTAAAG
3572057 CCTCCGGGTCATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCATAAGACCT
66 CCTCC-GGTCATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCATAAGACCT
3572122 ACAGTGCAGGATGTTTTCAAA
130 ACAGTGCAGGATGTTTTCAAA
3572143 TGAGATTTTA
Statistics
Matches: 471, Mismatches: 26, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
347 257 0.55
348 213 0.45
349 1 0.00
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (347 bp):
CATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCAGGAGCTTTTTGATATTTAAAG
CCTCCGGTCATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCATAAGACCTA
CAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTAAAGCCTCCAGGTCATCTG
TAAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCATAAGACCTACAGTGCAGGATGTT
TTCAAAAAGCCTTCGAGAGCTTTTTGATATTTAAAGCCTCCGGGTCATCTGTAAGACCTACAGTG
CAAGATGATAAGACCTCAGGGC
Found at i:3572100 original size:22 final size:21
Alignment explanation
Indices: 3572072--3572130 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
3572062 GGGTCATCTG
3572072 TAAGACCTACAGTGCAAGATGA
1 TAAGACCTACAGTGC-AGATGA
* * *
3572094 TAAGACCT-CAGGGC-CATCCA
1 TAAGACCTACAGTGCAGAT-GA
3572114 TAAGACCTACAGTGCAG
1 TAAGACCTACAGTGCAG
3572131 GATGTTTTCA
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
19 2 0.07
20 9 0.31
21 10 0.34
22 8 0.28
ACGTcount: A:0.36, C:0.25, G:0.22, T:0.17
Consensus pattern (21 bp):
TAAGACCTACAGTGCAGATGA
Found at i:3572404 original size:3 final size:3
Alignment explanation
Indices: 3572396--3572448 Score: 92
Period size: 3 Copynumber: 18.3 Consensus size: 3
3572386 CCATTTTAAA
3572396 ATT ATT ATT A-T ATT ATT ATT ATT ATT ATT -TT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
3572442 ATT ATT A
1 ATT ATT A
3572449 AATTATAAAT
Statistics
Matches: 48, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
2 4 0.08
3 44 0.92
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:3572421 original size:20 final size:20
Alignment explanation
Indices: 3572396--3572446 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
3572386 CCATTTTAAA
3572396 ATTATTATTATATTATTATT
1 ATTATTATTATATTATTATT
*
3572416 ATTATTATTTTATTATTATT
1 ATTATTATTATATTATTATT
3572436 ATTATTATTAT
1 ATTATTATTAT
3572447 TAAATTATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (20 bp):
ATTATTATTATATTATTATT
Found at i:3572454 original size:20 final size:18
Alignment explanation
Indices: 3572396--3572448 Score: 92
Period size: 17 Copynumber: 3.1 Consensus size: 18
3572386 CCATTTTAAA
3572396 ATTATTATTA-TATTATT
1 ATTATTATTATTATTATT
3572413 ATTATTATTATT-TTATT
1 ATTATTATTATTATTATT
3572430 ATTATTATTATTATTATT
1 ATTATTATTATTATTATT
3572448 A
1 A
3572449 AATTATAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
17 27 0.79
18 7 0.21
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
ATTATTATTATTATTATT
Found at i:3574120 original size:128 final size:128
Alignment explanation
Indices: 3573863--3574108 Score: 275
Period size: 128 Copynumber: 1.9 Consensus size: 128
3573853 TTTTATTAAA
*
3573863 AAATGGGTTGTCTTAAAGTAACTAAATGTCCTTTTCAGATATTTTTAAATAAATAATATATTATA
1 AAATGGGTTGTCTTAAAGTAACTAAATGTCATTTTCAGATATTTTTAAATAAATAATATATTATA
* * * * *** * *
3573928 TTTAATTTAGTTTTATTTAAATTATCATATTTTCTAATATTTATTTATTTTTTATTATCAAAG
66 TTTAATTTAGTATTATTTAAATTATCATATTTTCTAAGAATTATTGATTGAATATGATAAAAG
* * *
3573991 AAATGGGTTGTCTTAAAGTAACTAGATGTCATTTTCTGATATTTTTAAATAAATAA-ATATTTTA
1 AAATGGGTTGTCTTAAAGTAACTAAATGTCATTTTCAGATATTTTTAAATAAATAATATATTATA
* * * *
3574055 TTTAGTTTTA-TAAATTATTTCAA-TAT-ATATTTTTTTAGAATTATTCGATTGAAT
66 TTTA-ATTTAGT--ATTATTTAAATTATCATATTTTCTAAGAATTATT-GATTGAAT
3574109 CTGAAATAAG
Statistics
Matches: 99, Mismatches: 15, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
127 27 0.27
128 64 0.65
129 8 0.08
ACGTcount: A:0.36, C:0.06, G:0.09, T:0.50
Consensus pattern (128 bp):
AAATGGGTTGTCTTAAAGTAACTAAATGTCATTTTCAGATATTTTTAAATAAATAATATATTATA
TTTAATTTAGTATTATTTAAATTATCATATTTTCTAAGAATTATTGATTGAATATGATAAAAG
Found at i:3575020 original size:30 final size:31
Alignment explanation
Indices: 3574981--3575038 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 31
3574971 ATTTCTTTAG
*
3574981 TTCGGTTAATACTTTAA-AAAAAAAATTCAA
1 TTCGGTTAATACTTAAAGAAAAAAAATTCAA
* **
3575011 TTCGTTTAATGGTTAAAGAAAAAAAATT
1 TTCGGTTAATACTTAAAGAAAAAAAATT
3575039 TGAGTAATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
30 13 0.57
31 10 0.43
ACGTcount: A:0.48, C:0.07, G:0.10, T:0.34
Consensus pattern (31 bp):
TTCGGTTAATACTTAAAGAAAAAAAATTCAA
Found at i:3575581 original size:24 final size:24
Alignment explanation
Indices: 3575554--3575617 Score: 119
Period size: 24 Copynumber: 2.7 Consensus size: 24
3575544 AACACCCAGA
3575554 TCCACCACCATACCCACCTCCTCT
1 TCCACCACCATACCCACCTCCTCT
3575578 TCCACCACCATACCCACCTCCTCT
1 TCCACCACCATACCCACCTCCTCT
*
3575602 TCCTCCACCATACCCA
1 TCCACCACCATACCCA
3575618 GCCCCACCAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.22, C:0.58, G:0.00, T:0.20
Consensus pattern (24 bp):
TCCACCACCATACCCACCTCCTCT
Found at i:3591236 original size:14 final size:14
Alignment explanation
Indices: 3591200--3591238 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
3591190 TCACTAACTC
*
3591200 TTTTCAATTTTGTTT
1 TTTTC-ATTTTATTT
3591215 TCTTTCATTTTATTT
1 T-TTTCATTTTATTT
3591230 TTTTCATTT
1 TTTTCATTT
3591239 GCATCAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 8 0.36
15 10 0.45
16 4 0.18
ACGTcount: A:0.13, C:0.10, G:0.03, T:0.74
Consensus pattern (14 bp):
TTTTCATTTTATTT
Found at i:3594198 original size:2 final size:2
Alignment explanation
Indices: 3594188--3594225 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
3594178 CCAACAAAAA
3594188 AT AT A- AT AT AT 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 AT AT AT AT AT AT A
3594226 CAATAAAGCT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:3595907 original size:83 final size:82
Alignment explanation
Indices: 3595751--3596044 Score: 333
Period size: 83 Copynumber: 3.6 Consensus size: 82
3595741 TCGTGCCCAG
* * * * * *
3595751 TGCAGCATAACTCAATGCTAGAAGGGTTAGCTGTCATCAAAGACCTTCGAGTTCGACTACGCTCA
1 TGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGATTACACTCA
3595816 ACTCCAAGGCACATCATT
66 ACT-CAAGGCACATCATT
* * *
3595834 TGTAACATAACTCAAGGCTAGAAGGGTTATTTGCCAACAAAAGACCTTCGAGTTCGATTACACTC
1 TGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAAC-AAAGACCTTCGAGTTCGATTACACTC
* *
3595899 ATCTCAAGGTACATCATT
65 AACTCAAGGCACATCATT
* * * * *
3595917 TGCAGCATAGCTTAAGGCAAGAAAGGATATCTG-C--CAAAGACCTTCGAGTTCGATTACACTCA
1 TGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGATTACACTCA
*
3595979 GCTCAAAGGCACATCATT
66 ACTC-AAGGCACATCATT
* * * * *
3595997 TGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCTT
1 TGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAA-CAAAGACCTT
3596045 TTGAGGCACA
Statistics
Matches: 180, Mismatches: 25, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
79 30 0.17
80 42 0.23
81 1 0.01
82 1 0.01
83 69 0.38
84 37 0.21
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.24
Consensus pattern (82 bp):
TGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGATTACACTCA
ACTCAAGGCACATCATT
Found at i:3596031 original size:80 final size:79
Alignment explanation
Indices: 3595788--3596033 Score: 294
Period size: 80 Copynumber: 3.0 Consensus size: 79
3595778 TAGCTGTCAT
* * * * * * *
3595788 CAAAGACCTTCGAGTTCGACTACGCTCAACTCCAAGGCACATCATTTGTAACATAACTCAAGGCT
1 CAAAGACCTTCGAGTTCGATTACACTCAACT-CAAGGCACATCATTTGCAGCATAGCTTAAGGCA
* *
3595853 AGAAGGGTTATTTGCC
65 AGAAGGGATATCTG-C
* *
3595869 AACAAAAGACCTTCGAGTTCGATTACACTCATCTCAAGGTACATCATTTGCAGCATAGCTTAAGG
1 --C-AAAGACCTTCGAGTTCGATTACACTCAACTCAAGGCACATCATTTGCAGCATAGCTTAAGG
*
3595934 CAAGAAAGGATATCTGC
63 CAAGAAGGGATATCTGC
* * *
3595951 CAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTTAAGTCG
1 CAAAGACCTTCGAGTTCGATTACACTCAACTC-AAGGCACATCATTTGCAGCATAGCTTAAGGCA
*
3596016 AGAAGGGCTATCTGC
65 AGAAGGGATATCTGC
3596031 CAA
1 CAA
3596034 CCAAAGACCT
Statistics
Matches: 143, Mismatches: 18, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
79 30 0.21
80 46 0.32
82 1 0.01
83 39 0.27
84 27 0.19
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (79 bp):
CAAAGACCTTCGAGTTCGATTACACTCAACTCAAGGCACATCATTTGCAGCATAGCTTAAGGCAA
GAAGGGATATCTGC
Found at i:3596330 original size:310 final size:309
Alignment explanation
Indices: 3595753--3596332 Score: 799
Period size: 310 Copynumber: 1.9 Consensus size: 309
3595743 GTGCCCAGTG
* * * *
3595753 CAGCATAACTCAATGCTAGAAGGGTTAGCTGTCATCAAAGACCTTCGAGTTCGACTACGCTCAAC
1 CAGCATAACTCAAGGCGAGAAGGGCTAGCTGTCAT-AAAGACCTTCGAGTTCGACTACACTCAAC
* * * *
3595818 TCCAAGGCACATCATTTGTAACATAACTCAAGGCTAGAAGGGTTATTTGCCAACAAAAGACCTTC
65 TCAAAGGCACATCATTTGCAACATAACTCAAGGCGAGAAGGGTTATCTGCCAACAAAAGACCTTC
* * * *
3595883 GAGTTCGATTACACTCATCTCAAGGTACATCATTTGCAGCATAGCTTAAGGCAAGAAAGGATATC
130 GAGTTCGATTACACTCAGCTCAAGGTACATCATTTGCAACATAACTCAAGGCAAGAAAGGATATC
* *
3595948 TGCCAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTTAAG
195 TGCCAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAG
*
3596013 TCGAGAAGGGCTATCTGCCAACCAAAGACCTTTTGAGGCACATCATTTTA
260 GCGAGAAGGGCTATCTGCCAACCAAAGACCTTTTGAGGCACATCATTTTA
* * * * *
3596063 CAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAGT-AA-ACCTTCGATTTCGATTACACTCAGC
1 CAGCATAACTCAAGGCGAGAAGGGCTAGCTGTCA-TAAAGACCTTCGAGTTCGACTACACTCAAC
* * ** *
3596126 TCAAAGGCACATCATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGTCGTC-AAAGACCTTT
65 TCAAAGGCACATCATTTGCAACATAACTCAAGGCGAGAAGGGTTATCTGCCAACAAAAGACCTTC
* * *
3596190 GAGTTCGA-TACACTCAGCTCAAAGGTACATCATTTGCAACATAACTCAAGGCGAGAAGGGTTAT
130 GAGTTCGATTACACTCAGCTC-AAGGTACATCATTTGCAACATAACTCAAGGCAAGAAAGGATAT
* * *
3596254 TTGTCGTCAAAGACCTTTGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCGTAACT
194 CTG-C--CAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAACT
3596319 CAAGGCGAGAAGGG
256 CAAGGCGAGAAGGG
3596333 ATATTTATCA
Statistics
Matches: 234, Mismatches: 31, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
306 11 0.05
307 56 0.24
308 68 0.29
309 2 0.01
310 96 0.41
311 1 0.00
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (309 bp):
CAGCATAACTCAAGGCGAGAAGGGCTAGCTGTCATAAAGACCTTCGAGTTCGACTACACTCAACT
CAAAGGCACATCATTTGCAACATAACTCAAGGCGAGAAGGGTTATCTGCCAACAAAAGACCTTCG
AGTTCGATTACACTCAGCTCAAGGTACATCATTTGCAACATAACTCAAGGCAAGAAAGGATATCT
GCCAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGG
CGAGAAGGGCTATCTGCCAACCAAAGACCTTTTGAGGCACATCATTTTA
Found at i:3596338 original size:83 final size:83
Alignment explanation
Indices: 3596048--3596364 Score: 462
Period size: 82 Copynumber: 3.8 Consensus size: 83
3596038 AGACCTTTTG
* * * * *
3596048 AGGCACATCATTTTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAGT--AA-ACCTTCGAT
1 AGGCACATCA-TTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGTC-GTCAAAGACCTTTGAG
3596110 TTCGATTACACTCAGCTCAA
64 TTCGATTACACTCAGCTCAA
3596130 AGGCACATCATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGTCGTCAAAGACCTTTGAGTT
1 AGGCACATCATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGTCGTCAAAGACCTTTGAGTT
3596195 CGA-TACACTCAGCTCAA
66 CGATTACACTCAGCTCAA
* * *
3596212 AGGTACATCATTTGCAACATAACTCAAGGCGAGAAGGGTTATTTGTCGTCAAAGACCTTTGAGTT
1 AGGCACATCATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGTCGTCAAAGACCTTTGAGTT
3596277 CGATTACACTCAGCTCAA
66 CGATTACACTCAGCTCAA
* * * * * *
3596295 AGGCACATCATTTGCAGCGTAACTCAAGGCGAGAAGGGATATTTATCATCAAAGACCTTTAAGTT
1 AGGCACATCATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGTCGTCAAAGACCTTTGAGTT
3596360 CGATT
66 CGATT
3596365 GTATTCAACT
Statistics
Matches: 216, Mismatches: 15, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
80 2 0.01
81 34 0.16
82 91 0.42
83 89 0.41
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (83 bp):
AGGCACATCATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGTCGTCAAAGACCTTTGAGTT
CGATTACACTCAGCTCAA
Done.