Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10
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: 48586650
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2183483 characters in sequence are not A, C, G, or T
File 74 of 145
Found at i:24571402 original size:22 final size:22
Alignment explanation
Indices: 24571377--24571421 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
24571367 AGTCTTGAAA
24571377 ACAAATGCTAAACGATGAATCC
1 ACAAATGCTAAACGATGAATCC
*
24571399 ACAAATGCTAAATGATGAATCC
1 ACAAATGCTAAACGATGAATCC
24571421 A
1 A
24571422 ACTCACTAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.47, C:0.20, G:0.13, T:0.20
Consensus pattern (22 bp):
ACAAATGCTAAACGATGAATCC
Found at i:24576740 original size:59 final size:54
Alignment explanation
Indices: 24576609--24576741 Score: 142
Period size: 54 Copynumber: 2.4 Consensus size: 54
24576599 ATACAGCGGG
* * * *
24576609 ATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCAAAGAGTATTGTCGGG
1 ATTACCAGTCCAGGCTAAATCCCCTGCAATACAAACTCAAAGAGTATGGTCGGA
* * *
24576663 ATTACCAATCCAGGCTAAATCCCCTGCAATGACAATTACTCTAATGAGCT-TGGATCTGA
1 ATTACCAGTCCAGGCTAAATCCCCTGCAAT-ACAA--ACTC-AAAGAG-TATGG-TCGGA
24576722 ATTACCAGTCCAGGCTAAAT
1 ATTACCAGTCCAGGCTAAAT
24576742 TCAAACCTTA
Statistics
Matches: 65, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
54 28 0.43
55 3 0.05
57 4 0.06
58 7 0.11
59 23 0.35
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (54 bp):
ATTACCAGTCCAGGCTAAATCCCCTGCAATACAAACTCAAAGAGTATGGTCGGA
Found at i:24584048 original size:2 final size:2
Alignment explanation
Indices: 24584043--24584068 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
24584033 AATGCATTAA
24584043 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
24584069 CTAAAATGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24585205 original size:29 final size:28
Alignment explanation
Indices: 24585162--24585228 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 28
24585152 TGTGTGTTTT
* * * *
24585162 TATTATTAAATCTTAATTTGTAAATAATGA
1 TATTATTTATTCTT-ATTTCTAAA-AATAA
24585192 TATT-TTTATTCTTATTTCTAAAAATAA
1 TATTATTTATTCTTATTTCTAAAAATAA
24585219 TATTATTTAT
1 TATTATTTAT
24585229 CAAGAAATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
27 8 0.25
28 13 0.41
29 7 0.22
30 4 0.12
ACGTcount: A:0.39, C:0.04, G:0.03, T:0.54
Consensus pattern (28 bp):
TATTATTTATTCTTATTTCTAAAAATAA
Found at i:24587138 original size:28 final size:28
Alignment explanation
Indices: 24587107--24587193 Score: 81
Period size: 28 Copynumber: 3.2 Consensus size: 28
24587097 AGTAATCCTA
*
24587107 AACCCTTAAACCTTAAACCTAAACCTCG
1 AACCCTTAAACCTTAAACCTAAAACTCG
** * * *
24587135 AACCCTTGGACCTTGAACCCAAAACTTG
1 AACCCTTAAACCTTAAACCTAAAACTCG
*
24587163 AACCC--AAACCTTAAACCTTAAA-TCCG
1 AACCCTTAAACCTTAAACCTAAAACT-CG
24587189 AACCC
1 AACCC
24587194 AAACCCTGAA
Statistics
Matches: 46, Mismatches: 12, Indels: 4
0.74 0.19 0.06
Matches are distributed among these distances:
25 1 0.02
26 18 0.39
28 27 0.59
ACGTcount: A:0.38, C:0.36, G:0.07, T:0.20
Consensus pattern (28 bp):
AACCCTTAAACCTTAAACCTAAAACTCG
Found at i:24587179 original size:13 final size:13
Alignment explanation
Indices: 24587144--24587205 Score: 56
Period size: 13 Copynumber: 4.8 Consensus size: 13
24587134 GAACCCTTGG
24587144 ACCTTGAACCCAA
1 ACCTTGAACCCAA
*
24587157 AACTTGAACCCAA
1 ACCTTGAACCCAA
* *
24587170 ACCTTAAACCTTAA
1 ACCTTGAACC-CAA
24587184 ATCC--GAACCCAA
1 A-CCTTGAACCCAA
*
24587196 ACCCTGAACC
1 ACCTTGAACC
24587206 TCAGAGTTTA
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
11 2 0.05
12 3 0.08
13 29 0.74
14 3 0.08
15 2 0.05
ACGTcount: A:0.40, C:0.37, G:0.06, T:0.16
Consensus pattern (13 bp):
ACCTTGAACCCAA
Found at i:24588659 original size:17 final size:17
Alignment explanation
Indices: 24588617--24588659 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 17
24588607 TAGGAAAGGG
24588617 GTTACAAGAAGATGAAAT
1 GTTA-AAGAAGATGAAAT
24588635 GTTTAAAGAAGATGAAAT
1 G-TTAAAGAAGATGAAAT
24588653 GTTAAAG
1 GTTAAAG
24588660 GTTAAATAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.25
18 15 0.62
19 3 0.12
ACGTcount: A:0.49, C:0.02, G:0.23, T:0.26
Consensus pattern (17 bp):
GTTAAAGAAGATGAAAT
Found at i:24588664 original size:24 final size:24
Alignment explanation
Indices: 24588637--24588686 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
24588627 GATGAAATGT
* *
24588637 TTAAAGAAGATGAAATGTTAAAGG
1 TTAAAGAAGATGAAAGGTGAAAGG
*
24588661 TTAAATAAGATGAAAGGTGAAAGG
1 TTAAAGAAGATGAAAGGTGAAAGG
24588685 TT
1 TT
24588687 GAACATCCAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.26, T:0.26
Consensus pattern (24 bp):
TTAAAGAAGATGAAAGGTGAAAGG
Found at i:24600620 original size:33 final size:34
Alignment explanation
Indices: 24600568--24600643 Score: 100
Period size: 33 Copynumber: 2.2 Consensus size: 34
24600558 AAATTTAATA
* * *
24600568 TAAATATAAGTAGTTCCTTAAC-AAACTTTCAAG
1 TAAACATAAGTAATCCCTTAACAAAACTTTCAAG
24600601 TAAACATAAGTAATCCCTTAACAAAACTTTCAAG
1 TAAACATAAGTAATCCCTTAACAAAACTTTCAAG
*
24600635 CATAACATA
1 TA-AACATA
24600644 TTAGGAAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
33 19 0.51
34 12 0.32
35 6 0.16
ACGTcount: A:0.46, C:0.18, G:0.07, T:0.29
Consensus pattern (34 bp):
TAAACATAAGTAATCCCTTAACAAAACTTTCAAG
Found at i:24601095 original size:24 final size:24
Alignment explanation
Indices: 24601061--24601115 Score: 83
Period size: 24 Copynumber: 2.2 Consensus size: 24
24601051 AAGAACATGA
24601061 AAGGTTTAAGGAAGATGAAAGGTGG
1 AAGG-TTAAGGAAGATGAAAGGTGG
* *
24601086 AAGGTTAAGGGAGATTAAAGGTGG
1 AAGGTTAAGGAAGATGAAAGGTGG
24601110 AAGGTT
1 AAGGTT
24601116 GAACATCCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
24 24 0.86
25 4 0.14
ACGTcount: A:0.38, C:0.00, G:0.40, T:0.22
Consensus pattern (24 bp):
AAGGTTAAGGAAGATGAAAGGTGG
Found at i:24603067 original size:14 final size:14
Alignment explanation
Indices: 24603046--24603084 Score: 71
Period size: 14 Copynumber: 2.9 Consensus size: 14
24603036 GAAAATGTAG
24603046 ATTT-CAAAATGGT
1 ATTTCCAAAATGGT
24603059 ATTTCCAAAATGGT
1 ATTTCCAAAATGGT
24603073 ATTTCCAAAATG
1 ATTTCCAAAATG
24603085 ATGATTCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 4 0.16
14 21 0.84
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (14 bp):
ATTTCCAAAATGGT
Found at i:24607989 original size:12 final size:12
Alignment explanation
Indices: 24607972--24608003 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
24607962 AAATAATCTA
*
24607972 AAAATTATAAAT
1 AAAATTAAAAAT
24607984 AAAATTAAAAAT
1 AAAATTAAAAAT
24607996 AAAATTAA
1 AAAATTAA
24608004 TGTTCATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (12 bp):
AAAATTAAAAAT
Found at i:24614949 original size:17 final size:17
Alignment explanation
Indices: 24614922--24614965 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
24614912 TTTGAGCCAC
24614922 TAAATTTGGGCCA-TTTT
1 TAAA-TTGGGCCACTTTT
24614939 TGAAATTGGGCCACCTTTT
1 T-AAATTGGGCCA-CTTTT
24614958 TAAATTGG
1 TAAATTGG
24614966 TTTTGGGCCT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 9 0.38
18 10 0.42
19 5 0.21
ACGTcount: A:0.25, C:0.14, G:0.20, T:0.41
Consensus pattern (17 bp):
TAAATTGGGCCACTTTT
Found at i:24615453 original size:132 final size:132
Alignment explanation
Indices: 24615248--24615531 Score: 480
Period size: 132 Copynumber: 2.2 Consensus size: 132
24615238 TTCAATCTAT
* *
24615248 TCCACTAATGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGGAGT
1 TCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGT
* * *
24615313 AGAATTACTGGCTTCCATGTACTCTATTATAACCACAGGGAGGTAAAATCTGA-CATCTTCGATC
66 AGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCT-ACCATCTTCGATC
24615377 TGC
130 TGC
* *
24615380 TCCAGTACTGCTTAGGGAGATAAGATCTTAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGT
1 TCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGT
*
24615445 AGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCTACCATCTTTGATCT
66 AGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCTACCATCTTCGATCT
24615510 GC
131 GC
24615512 TCCACTACTGCTTAGGGAGA
1 TCCACTACTGCTTAGGGAGA
24615532 NNNNNNNNNN
Statistics
Matches: 142, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
131 1 0.01
132 141 0.99
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (132 bp):
TCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGT
AGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCTACCATCTTCGATCT
GC
Found at i:24617657 original size:11 final size:11
Alignment explanation
Indices: 24617641--24617666 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
24617631 TTTTTTCTTG
24617641 TTTTGTTTTGT
1 TTTTGTTTTGT
24617652 TTTTGTTTTGT
1 TTTTGTTTTGT
24617663 TTTT
1 TTTT
24617667 TTTAATCTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (11 bp):
TTTTGTTTTGT
Found at i:24617657 original size:16 final size:15
Alignment explanation
Indices: 24617631--24617669 Score: 60
Period size: 16 Copynumber: 2.5 Consensus size: 15
24617621 CTATTTTTCC
*
24617631 TTTTTTCTTGTTTTG
1 TTTTTTTTTGTTTTG
24617646 TTTTGTTTTTGTTTTG
1 TTTT-TTTTTGTTTTG
24617662 TTTTTTTT
1 TTTTTTTT
24617670 AATCTGAACT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.00, C:0.03, G:0.13, T:0.85
Consensus pattern (15 bp):
TTTTTTTTTGTTTTG
Found at i:24622100 original size:3 final size:3
Alignment explanation
Indices: 24622087--24622138 Score: 79
Period size: 3 Copynumber: 17.7 Consensus size: 3
24622077 TTGTATGTAC
* *
24622087 ATA AAA ATA ATA ATT A-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
24622134 ATA AT
1 ATA AT
24622139 GAGGAAGATG
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
2 1 0.02
3 43 0.98
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:24623719 original size:14 final size:14
Alignment explanation
Indices: 24623700--24623729 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
24623690 TGGATGTGTT
24623700 ATAATCTAATATAA
1 ATAATCTAATATAA
*
24623714 ATAATCTAGTATAA
1 ATAATCTAATATAA
24623728 AT
1 AT
24623730 TAGTTCAAGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.53, C:0.07, G:0.03, T:0.37
Consensus pattern (14 bp):
ATAATCTAATATAA
Found at i:24624551 original size:37 final size:36
Alignment explanation
Indices: 24624510--24624580 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 36
24624500 CACTTTAATA
*
24624510 TTAATTTAATA-AAATACTATTAAGATAAGTATTAAAT
1 TTAATTTAATATAAA-ACTATTAAAATAA-TATTAAAT
24624547 TTAATTTAATATTAAAACTATTAAAATAATATTA
1 TTAATTTAATA-TAAAACTATTAAAATAATATTA
24624581 TTGTTGGAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
37 16 0.52
38 12 0.39
39 3 0.10
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (36 bp):
TTAATTTAATATAAAACTATTAAAATAATATTAAAT
Found at i:24631676 original size:44 final size:44
Alignment explanation
Indices: 24631625--24632604 Score: 496
Period size: 44 Copynumber: 22.5 Consensus size: 44
24631615 CCACTCTATG
* *
24631625 GCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACT
1 GCAACTTCAGGGAGATAAGATCTATTACTTTAATCTGCTCCACT
* * * ** * *
24631669 ACAACTTCAAGGAGATAGGAT-TATGGGCTTCAATCTACTCCACT
1 GCAACTTCAGGGAGATAAGATCTAT-TACTTTAATCTGCTCCACT
* * * * *
24631713 GGAACTTCAGAGAGATAAGATCTATTTCTTTAACCCGCTCCACT
1 GCAACTTCAGGGAGATAAGATCTATTACTTTAATCTGCTCCACT
* * * * *
24631757 ACAACTTCAGGGAGATAGGAT-TATCGACTTCAATCTACTCCACT
1 GCAACTTCAGGGAGATAAGATCTAT-TACTTTAATCTGCTCCACT
* * * ** *
24631801 GCAACCTCAGGGAGATAAGATTTGCTT-CTTTGGTCTGCCCCACT
1 GCAACTTCAGGGAGATAAGATCT-ATTACTTTAATCTGCTCCACT
** * *
24631845 GTGACTTCAAGGG-GATAAGA-CT-TGT-TTTCTCAGTCTGCTTCCACT
1 GCAACTTC-AGGGAGATAAGATCTAT-TACTT-T-AATCTGC-TCCACT
* * * ** * *
24631890 GCAAC-TCAGGGAGATAAGACCTGA-TGC---GATCCACTCTACG
1 GCAACTTCAGGGAGATAAGATCT-ATTACTTTAATCTGCTCCACT
* * *
24631930 GCAAGTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACT
1 GCAACTTCAGGGAGATAAGATCTATTACTTTAATCTGCTCCACT
* * ** * *
24631974 ACAACTTCAGGGAGATAGGAT-TATCGGCTTCAATCTACTCCACT
1 GCAACTTCAGGGAGATAAGATCTAT-TACTTTAATCTGCTCCACT
* * *
24632018 GCAACTTCAGAGAGATAAGATCTATTTCTTTAACCTGCTCCACT
1 GCAACTTCAGGGAGATAAGATCTATTACTTTAATCTGCTCCACT
* * * * *
24632062 ACAACTTCAGGGAGAT-AGTAT-TATCGACTTCAATCTACTCCACC
1 GCAACTTCAGGGAGATAAG-ATCTAT-TACTTTAATCTGCTCCACT
* * * * * * ** *
24632106 GTAACCTCAGTGAGATAAGATTTGCTT-TTTTGGTCTGCCCCACT
1 GCAACTTCAGGGAGATAAGATCT-ATTACTTTAATCTGCTCCACT
** * *
24632150 GTGACTTCAAGGG-GATAAGA-CTTGTTA-TCTCAATCTGCTCCACT
1 GCAACTTC-AGGGAGATAAGATC-TATTACT-TTAATCTGCTCCACT
* * * ** *
24632194 GCAACCTCAGGGAGATAAGA-CT-TGA-TGCT-ATCCACTCTACT
1 GCAACTTCAGGGAGATAAGATCTATTACT-TTAATCTGCTCCACT
*
24632235 GCAACTTCAGAGAGATAAGATCTATTACTTTAATCCT-CTCCACT
1 GCAACTTCAGGGAGATAAGATCTATTACTTTAAT-CTGCTCCACT
* * ** *
24632279 ACAACTTCAGGGAGATAGGAT-TATCGGCTTCAATCTGCTCCACT
1 GCAACTTCAGGGAGATAAGATCTAT-TACTTTAATCTGCTCCACT
* * * * *
24632323 GCAACTTCAGAGAGATAAGATTTATTACTTTAACCCGCTCTACT
1 GCAACTTCAGGGAGATAAGATCTATTACTTTAATCTGCTCCACT
* * * * * *
24632367 ACAACTTCAGGGAGATAGGAT-TATCGACTTCAATCTACTCCACC
1 GCAACTTCAGGGAGATAAGATCTAT-TACTTTAATCTGCTCCACT
* * * ** *
24632411 GCAACCTCAGGGAGATAAGATTTGCTT-CTTTGGTCTGTTCCACT
1 GCAACTTCAGGGAGATAAGATCT-ATTACTTTAATCTGCTCCACT
* * * * * ** *
24632455 GCAACCTCAGGGTGATAAGACCTGA-TGC---GATCCACTCTACT
1 GCAACTTCAGGGAGATAAGATCT-ATTACTTTAATCTGCTCCACT
** *
24632496 GCAACTTCAAAGAGATATGATCTATTACTTTAAT-TCGCTCCACT
1 GCAACTTCAGGGAGATAAGATCTATTACTTTAATCT-GCTCCACT
* * * ** * *
24632540 ACAACTTTAGGGAGATAGGAT-TATCGGCTTCAATCTGCTCGACT
1 GCAACTTCAGGGAGATAAGATCTAT-TACTTTAATCTGCTCCACT
24632584 GCAACTTCAGGGAGATAAGAT
1 GCAACTTCAGGGAGATAAGAT
24632605 TTGCCATCTT
Statistics
Matches: 690, Mismatches: 195, Indels: 102
0.70 0.20 0.10
Matches are distributed among these distances:
40 10 0.01
41 75 0.11
42 8 0.01
43 43 0.06
44 517 0.75
45 34 0.05
46 3 0.00
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.29
Consensus pattern (44 bp):
GCAACTTCAGGGAGATAAGATCTATTACTTTAATCTGCTCCACT
Found at i:24631729 original size:88 final size:87
Alignment explanation
Indices: 24631625--24632604 Score: 568
Period size: 88 Copynumber: 11.2 Consensus size: 87
24631615 CCACTCTATG
* * *
24631625 GCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTACAACTTCAAGGAGATAGGAT
1 GCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGAT
*
24631690 TATGGGCTTCAATCTACTCCACT
66 TAT-GGCTTCAATCTGCTCCACT
* * * * *
24631713 GGAACTTCAGAGAGATAAGATCTATTTCTTTAACCCGCTCCACTACAACTTCAGGGAGATAGGAT
1 GCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGAT
* *
24631778 TATCGACTTCAATCTACTCCACT
66 TAT-GGCTTCAATCTGCTCCACT
* * * * ** * * **
24631801 GCAACCTCAGGGAGATAAGATTTGCTT-CTTTGGTCTGCCCCACTGTGACTTCAAGGG-GATAAG
1 GCAACTTCAGAGAGATAAGATCT-ATTACTTTAATCCGCTCCACTGCAACTTC-AGGGAGATAAG
* ** *
24631864 ACT-TGTTTTCTCAGTCTGCTTCCACT
64 ATTATG-GCT-TCAATCTGC-TCCACT
* * * * * * * * *
24631890 GCAAC-TCAGGGAGATAAGACCTGA-TGC---GATCCACTCTACGGCAAGTTCAGAGAGATAAGA
1 GCAACTTCAGAGAGATAAGATCT-ATTACTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGA
** * *
24631950 TCTATTACTTTAATCCGCTCCACT
65 T-TATGGCTTCAATCTGCTCCACT
* * * ** * ** *
24631974 ACAACTTCAGGGAGATAGGAT-TATCGGCTTCAATCTACTCCACTGCAACTTCAGAGAGATAAGA
1 GCAACTTCAGAGAGATAAGATCTAT-TACTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGA
** * *
24632038 TCTATTTCTTTAACCTGCTCCACT
65 T-TATGGCTTCAATCTGCTCCACT
* * * * ** * * * *
24632062 ACAACTTCAGGGAGAT-AGTAT-TATCGACTTCAATCTACTCCACCGTAACCTCAGTGAGATAAG
1 GCAACTTCAGAGAGATAAG-ATCTAT-TACTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAG
*** *
24632125 ATT-T-GCTTTTTTGGTCTGCCCCACT
64 ATTATGGC---TTCAATCTGCTCCACT
** * * * * *
24632150 GTGACTTCA-AGGGGATAAGA-CTTGTTA-TCTCAATCTGCTCCACTGCAACCTCAGGGAGATAA
1 GCAACTTCAGA-GAGATAAGATC-TATTACT-TTAATCCGCTCCACTGCAACTTCAGGGAGATAA
*
24632212 GACTTGAT-GCTATCCA-CT-CT--ACT
63 GA-TT-ATGGCT-TCAATCTGCTCCACT
* * *
24632235 GCAACTTCAGAGAGATAAGATCTATTACTTTAATCCTCTCCACTACAACTTCAGGGAGATAGGAT
1 GCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGAT
24632300 TATCGGCTTCAATCTGCTCCACT
66 TAT-GGCTTCAATCTGCTCCACT
* * * * *
24632323 GCAACTTCAGAGAGATAAGATTTATTACTTTAACCCGCTCTACTACAACTTCAGGGAGATAGGAT
1 GCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGAT
* * *
24632388 TATCGACTTCAATCTACTCCACC
66 TAT-GGCTTCAATCTGCTCCACT
* * * * ** * * * *
24632411 GCAACCTCAGGGAGATAAGATTTGCTT-CTTTGGTCTGTTCCACTGCAACCTCAGGGTGATAAGA
1 GCAACTTCAGAGAGATAAGATCT-ATTACTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGA
** * * * ** *
24632475 -CCT-GATGCGATCCACTCTACT
65 TTATGGCTTCAATCTGCTCCACT
* * * * * *
24632496 GCAACTTCAAAGAGATATGATCTATTACTTTAATTCGCTCCACTACAACTTTAGGGAGATAGGAT
1 GCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGAT
*
24632561 TATCGGCTTCAATCTGCTCGACT
66 TAT-GGCTTCAATCTGCTCCACT
*
24632584 GCAACTTCAGGGAGATAAGAT
1 GCAACTTCAGAGAGATAAGAT
24632605 TTGCCATCTT
Statistics
Matches: 700, Mismatches: 150, Indels: 84
0.75 0.16 0.09
Matches are distributed among these distances:
83 3 0.00
84 21 0.03
85 153 0.22
86 10 0.01
87 9 0.01
88 475 0.68
89 26 0.04
91 3 0.00
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.29
Consensus pattern (87 bp):
GCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGAT
TATGGCTTCAATCTGCTCCACT
Found at i:24631800 original size:217 final size:217
Alignment explanation
Indices: 24631409--24631816 Score: 516
Period size: 217 Copynumber: 1.9 Consensus size: 217
24631399 TGTTCTACTA
*
24631409 CAACTTCAGAGAGATAAGATCTATTACTTTAACCCGCTCCACTACAACTTCAGGGAGATAGGATT
1 CAACTTCAGAGAGATAAGATCTATTACTTTAACCCGCTCCACTACAACTTCAAGGAGATAGGATT
* * * *** *
24631474 ATCAAATTCAATCTACTCCACAACAACCTCAGGGAGATAAGATTTGCTTTTTTGGTCTGCCCCAC
66 ATCAAATTCAATCTACTCCACAACAACCTCAGAGAGATAAGATCTGATTTTTTAACCCGCCCCAC
*** * *** * *
24631539 TGTGACTTCAAGGGGATAAGACTTGTTTTCTCAGTCTGCTCCACTGCAACCTCAGGGAGATGAGA
131 TACAACTTCAAGGGGATAAGACTTATCGACTCAATCTACTCCACTGCAACCTCAGGGAGATGAGA
24631604 CCTGATGCGATCCACTCTATGG
196 CCTGATGCGATCCACTCTATGG
*
24631626 CAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTACAACTTCAAGGAGATAGGATT
1 CAACTTCAGAGAGATAAGATCTATTACTTTAACCCGCTCCACTACAACTTCAAGGAGATAGGATT
**** *** * *
24631691 ATGGGCTTCAATCTACTCCACTGGAACTTCAGAGAGATAAGATCT-ATTTCTTTAACCCGCTCCA
66 ATCAAATTCAATCTACTCCACAACAACCTCAGAGAGATAAGATCTGATTT-TTTAACCCGCCCCA
*
24631755 CTACAACTTC-AGGGAGATAGGA-TTATCGACTTCAATCTACTCCACTGCAACCTCAGGGAGAT
130 CTACAACTTCAAGGG-GATAAGACTTATCGAC-TCAATCTACTCCACTGCAACCTCAGGGAGAT
24631817 AAGATTTGCT
Statistics
Matches: 160, Mismatches: 28, Indels: 6
0.82 0.14 0.03
Matches are distributed among these distances:
216 11 0.07
217 149 0.93
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (217 bp):
CAACTTCAGAGAGATAAGATCTATTACTTTAACCCGCTCCACTACAACTTCAAGGAGATAGGATT
ATCAAATTCAATCTACTCCACAACAACCTCAGAGAGATAAGATCTGATTTTTTAACCCGCCCCAC
TACAACTTCAAGGGGATAAGACTTATCGACTCAATCTACTCCACTGCAACCTCAGGGAGATGAGA
CCTGATGCGATCCACTCTATGG
Found at i:24631961 original size:305 final size:305
Alignment explanation
Indices: 24631409--24632447 Score: 1810
Period size: 305 Copynumber: 3.4 Consensus size: 305
24631399 TGTTCTACTA
24631409 CAACTTCAGAGAGATAAGATCTATTACTTTAACCCGCTCCACTACAACTTCAGGGAGATAGGATT
1 CAACTTCAGAGAGATAAGATCTATTACTTTAACCCGCTCCACTACAACTTCAGGGAGATAGGATT
* * ** *
24631474 ATCAAATTCAATCTACTCCACAACAACCTCAGGGAGATAAGATTTGCTTTTTTGGTCTGCCCCAC
66 ATCGACTTCAATCTACTCCACCGCAACCTCAGGGAGATAAGATTTGCTTCTTTGGTCTGCCCCAC
*
24631539 TGTGACTTCAAGGGGATAAGACTTGTTTTCTCAGTCTGCTCCACTGCAACCTCAGGGAGATGAGA
131 TGTGACTTCAAGGGGATAAGACTTGTTTTCTCAGTCTGCTCCACTGCAACCTCAGGGAGATAAGA
*
24631604 CCTGATGCGATCCACTCTATGGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACT
196 CCTGATGCGATCCACTCTACGGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACT
* *
24631669 ACAACTTCAAGGAGATAGGATTATGGGCTTCAATCTACTCCACTG
261 ACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTACTCCACTG
* *
24631714 GAACTTCAGAGAGATAAGATCTATTTCTTTAACCCGCTCCACTACAACTTCAGGGAGATAGGATT
1 CAACTTCAGAGAGATAAGATCTATTACTTTAACCCGCTCCACTACAACTTCAGGGAGATAGGATT
*
24631779 ATCGACTTCAATCTACTCCACTGCAACCTCAGGGAGATAAGATTTGCTTCTTTGGTCTGCCCCAC
66 ATCGACTTCAATCTACTCCACCGCAACCTCAGGGAGATAAGATTTGCTTCTTTGGTCTGCCCCAC
24631844 TGTGACTTCAAGGGGATAAGACTTGTTTTCTCAGTCTGCTTCCACTGCAA-CTCAGGGAGATAAG
131 TGTGACTTCAAGGGGATAAGACTTGTTTTCTCAGTCTGC-TCCACTGCAACCTCAGGGAGATAAG
*
24631908 ACCTGATGCGATCCACTCTACGGCAAGTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCAC
195 ACCTGATGCGATCCACTCTACGGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCAC
24631973 TACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTACTCCACTG
260 TACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTACTCCACTG
* * *
24632019 CAACTTCAGAGAGATAAGATCTATTTCTTTAACCTGCTCCACTACAACTTCAGGGAGATAGTATT
1 CAACTTCAGAGAGATAAGATCTATTACTTTAACCCGCTCCACTACAACTTCAGGGAGATAGGATT
* * *
24632084 ATCGACTTCAATCTACTCCACCGTAACCTCAGTGAGATAAGATTTGCTTTTTTGGTCTGCCCCAC
66 ATCGACTTCAATCTACTCCACCGCAACCTCAGGGAGATAAGATTTGCTTCTTTGGTCTGCCCCAC
* *
24632149 TGTGACTTCAAGGGGATAAGACTTGTTATCTCAATCTGCTCCACTGCAACCTCAGGGAGATAAGA
131 TGTGACTTCAAGGGGATAAGACTTGTTTTCTCAGTCTGCTCCACTGCAACCTCAGGGAGATAAGA
* * * *
24632214 CTTGATGCTATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCTCTCCACT
196 CCTGATGCGATCCACTCTACGGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACT
*
24632279 ACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTG
261 ACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTACTCCACTG
* *
24632324 CAACTTCAGAGAGATAAGATTTATTACTTTAACCCGCTCTACTACAACTTCAGGGAGATAGGATT
1 CAACTTCAGAGAGATAAGATCTATTACTTTAACCCGCTCCACTACAACTTCAGGGAGATAGGATT
24632389 ATCGACTTCAATCTACTCCACCGCAACCTCAGGGAGATAAGATTTGCTTCTTTGGTCTG
66 ATCGACTTCAATCTACTCCACCGCAACCTCAGGGAGATAAGATTTGCTTCTTTGGTCTG
24632448 TTCCACTGCA
Statistics
Matches: 697, Mismatches: 35, Indels: 4
0.95 0.05 0.01
Matches are distributed among these distances:
304 10 0.01
305 677 0.97
306 10 0.01
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (305 bp):
CAACTTCAGAGAGATAAGATCTATTACTTTAACCCGCTCCACTACAACTTCAGGGAGATAGGATT
ATCGACTTCAATCTACTCCACCGCAACCTCAGGGAGATAAGATTTGCTTCTTTGGTCTGCCCCAC
TGTGACTTCAAGGGGATAAGACTTGTTTTCTCAGTCTGCTCCACTGCAACCTCAGGGAGATAAGA
CCTGATGCGATCCACTCTACGGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACT
ACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTACTCCACTG
Found at i:24632123 original size:217 final size:217
Alignment explanation
Indices: 24631715--24632343 Score: 582
Period size: 217 Copynumber: 2.9 Consensus size: 217
24631705 ACTCCACTGG
* *
24631715 AACTTCAGAGAGATAAGATCTATTTCTTTAACCCGCTCCACTACAACTTCAGGGAGATAGGATTA
1 AACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTA
* * * * ** *** *
24631780 TCGACTTCAATCTACTCCACTGCAACCTCAGGGAGATAAGATTTGCTTCTTTGGTCTGCCCCACT
66 TCGGCTTCAATCTACTCCACTGCAACTTCAGAGAGATAAGATCTATTTCTTTAACCTGCTCCACT
*** * *** * *
24631845 GTGACTTCAAGGG-GATAAGACTTGTTTTC-TCAGTCTGCTTCCACTGCAA-CTCAGGGAGATAA
131 ACAACTTC-AGGGAGAT-AGA-TTATCGACTTCAATCTGC-TCCACTGCAACCTCAGAGAGATAA
* *
24631907 GA-CCTGATGCGATCCACTCTACGGC
192 GATCCTGATGCGATCCACCCCACGGC
*
24631932 AAGTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTA
1 AACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTA
24631997 TCGGCTTCAATCTACTCCACTGCAACTTCAGAGAGATAAGATCTATTTCTTTAACCTGCTCCACT
66 TCGGCTTCAATCTACTCCACTGCAACTTCAGAGAGATAAGATCTATTTCTTTAACCTGCTCCACT
* * * *
24632062 ACAACTTCAGGGAGATAGTATTATCGACTTCAATCTACTCCACCGTAACCTCAGTGAGATAAGAT
131 ACAACTTCAGGGAGATAG-ATTATCGACTTCAATCTGCTCCACTGCAACCTCAGAGAGATAAGA-
* ** ** * ** * *
24632127 TTGCTTTTTTGGTCTGCCCCACTGT
194 -TCCTGATGCGATCCACCCCACGGC
* * * * * * * *
24632152 GACTTCA-AGGGGATAAGA-CTTGTTA-TCTCAATCTGCTCCACTGCAACCTCAGGGAGATAAGA
1 AACTTCAGA-GAGATAAGATC-TATTACT-TTAATCCGCTCCACTACAACTTCAGGGAGATAGGA
* * *
24632214 CTTGAT--GC-T--ATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCT-C
63 -TT-ATCGGCTTCAATCTACTCCACTGCAACTTCAGAGAGATAAGATCTATTTCTTTAA-CCTGC
* *
24632273 TCCACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGCAACTTCAGAGAGA
125 TCCACTACAACTTCAGGGAGATA-GATTATCGACTTCAATCTGCTCCACTGCAACCTCAGAGAGA
24632338 TAAGAT
189 TAAGAT
24632344 TTATTACTTT
Statistics
Matches: 343, Mismatches: 55, Indels: 30
0.80 0.13 0.07
Matches are distributed among these distances:
215 1 0.00
216 18 0.05
217 252 0.73
218 4 0.01
219 4 0.01
220 60 0.17
221 2 0.01
222 2 0.01
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (217 bp):
AACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTA
TCGGCTTCAATCTACTCCACTGCAACTTCAGAGAGATAAGATCTATTTCTTTAACCTGCTCCACT
ACAACTTCAGGGAGATAGATTATCGACTTCAATCTGCTCCACTGCAACCTCAGAGAGATAAGATC
CTGATGCGATCCACCCCACGGC
Found at i:24632402 original size:217 final size:217
Alignment explanation
Indices: 24632010--24632430 Score: 537
Period size: 217 Copynumber: 1.9 Consensus size: 217
24632000 GCTTCAATCT
*
24632010 ACTCCACTGCAACTTCAGAGAGATAAGATCTATTTCTTTAACCTGCTCCACTACAACTTCAGGGA
1 ACTCCACTGCAACTTCAGAGAGATAAGATCTATTACTTTAACCTGCTCCACTACAACTTCAGGGA
* * * * * ***
24632075 GATAGTATTATCGACTTCAATCTACTCCACCGTAACCTCAGTGAGATAAGATTTGCTTTTTTGGT
66 GATAGGATTATCGACTTCAATCTACTCCACCGCAACCTCAGAGAGATAAGATTTGATTCTTTAAC
* *** * * * *
24632140 CTGCCCCACTGTGACTTCAAGGGGATAAGACTTGTTATCTCAATCTGCTCCACTGCAACCTCAGG
131 CCGCCCCACTACAACTTCAAGGGGATAAGACTTATGATCTCAATCTACTCCACCGCAACCTCAGG
24632205 GAGATAAGACTTGATGCTATCC
196 GAGATAAGACTTGATGCTATCC
*
24632227 ACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCT-CTCCACTACAACTTCAGGG
1 ACTCCACTGCAACTTCAGAGAGATAAGATCTATTACTTTAA-CCTGCTCCACTACAACTTCAGGG
* * * *
24632291 AGATAGGATTATCGGCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTT-ATTACTTTA
65 AGATAGGATTATCGACTTCAATCTACTCCACCGCAACCTCAGAGAGATAAGATTTGATT-CTTTA
* * *
24632355 ACCCGCTCTACTACAACTTC-AGGGAGATAGGA-TTATCGA-CTTCAATCTACTCCACCGCAACC
129 ACCCGCCCCACTACAACTTCAAGGG-GATAAGACTTAT-GATC-TCAATCTACTCCACCGCAACC
24632417 TCAGGGAGATAAGA
191 TCAGGGAGATAAGA
24632431 TTTGCTTCTT
Statistics
Matches: 174, Mismatches: 25, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
216 10 0.06
217 161 0.93
218 3 0.02
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (217 bp):
ACTCCACTGCAACTTCAGAGAGATAAGATCTATTACTTTAACCTGCTCCACTACAACTTCAGGGA
GATAGGATTATCGACTTCAATCTACTCCACCGCAACCTCAGAGAGATAAGATTTGATTCTTTAAC
CCGCCCCACTACAACTTCAAGGGGATAAGACTTATGATCTCAATCTACTCCACCGCAACCTCAGG
GAGATAAGACTTGATGCTATCC
Found at i:24632762 original size:128 final size:128
Alignment explanation
Indices: 24632596--24632930 Score: 508
Period size: 128 Copynumber: 2.6 Consensus size: 128
24632586 AACTTCAGGG
** * * *
24632596 AGATAAGATTTGCCATCTTCGATCTACTCCGCTACTGCTAAGGGAGACAAGATCTGTAATTTCCA
1 AGATAAGATTCACCGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCA
*
24632661 ACCTATTCCACTGTTGACCAGTGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGA
66 ACCTATTCCACTGTTGACCAGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGA
* * * *
24632724 AGATAAGATTCACCGTCTTCAATCTGCTCTGCTACTGCTTAGGGAGAAAAGATCTGTAATTTCCC
1 AGATAAGATTCACCGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCA
* * * *
24632789 ACCTATTCCACTATTGACCAGGGATATAGGTCTTGTGGCTTAAATCTGCTTTCTTACACTTGA
66 ACCTATTCCACTGTTGACCAGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGA
* * *
24632852 ATATAAGATTCACCGTCTTTGATCTGCTCCGCTACTACTTAGGGAGACAAGATCTGTAATTTCCC
1 AGATAAGATTCACCGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTT-CC
24632917 AACCTATTCCACTG
65 AACCTATTCCACTG
24632931 CTAGTCAGGG
Statistics
Matches: 184, Mismatches: 22, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
128 170 0.92
129 14 0.08
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.32
Consensus pattern (128 bp):
AGATAAGATTCACCGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCA
ACCTATTCCACTGTTGACCAGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGA
Found at i:24634204 original size:14 final size:15
Alignment explanation
Indices: 24634185--24634225 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
24634175 AGCCTCTCCA
*
24634185 TTTTCATTTTTTA-T
1 TTTTCATTTTTCATT
*
24634199 TTTTCA-TATTCATT
1 TTTTCATTTTTCATT
24634213 TTTTCATTTTTCA
1 TTTTCATTTTTCA
24634226 CACATTTTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
13 4 0.18
14 13 0.59
15 5 0.23
ACGTcount: A:0.17, C:0.12, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTTCATTTTTCATT
Found at i:24634212 original size:20 final size:21
Alignment explanation
Indices: 24634187--24634225 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
24634177 CCTCTCCATT
24634187 TTCATTTTTT-ATTTTTCATA
1 TTCATTTTTTCATTTTTCATA
24634207 TTCATTTTTTCATTTTTCA
1 TTCATTTTTTCATTTTTCA
24634226 CACATTTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.18, C:0.13, G:0.00, T:0.69
Consensus pattern (21 bp):
TTCATTTTTTCATTTTTCATA
Found at i:24635173 original size:26 final size:26
Alignment explanation
Indices: 24635113--24635173 Score: 61
Period size: 26 Copynumber: 2.3 Consensus size: 26
24635103 CCTTTTTATT
* *
24635113 TTTTCATTTTCATTTTTTGTTTCGAC
1 TTTTCTTTTTCATTTTTTGTTTCGAA
** *
24635139 TTTGATTTTTC-TTTTTTGCTTTTGAA
1 TTTTCTTTTTCATTTTTTG-TTTCGAA
24635165 TTTTCTTTT
1 TTTTCTTTT
24635174 GAATTTCCTT
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
25 7 0.26
26 20 0.74
ACGTcount: A:0.10, C:0.11, G:0.08, T:0.70
Consensus pattern (26 bp):
TTTTCTTTTTCATTTTTTGTTTCGAA
Found at i:24635174 original size:12 final size:12
Alignment explanation
Indices: 24635152--24635185 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
24635142 GATTTTTCTT
24635152 TTTTGCTTTTGAA
1 TTTT-CTTTTGAA
24635165 TTTTCTTTTGAA
1 TTTTCTTTTGAA
*
24635177 TTTCCTTTT
1 TTTTCTTTT
24635186 CTTTTTCTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 16 0.80
13 4 0.20
ACGTcount: A:0.12, C:0.12, G:0.09, T:0.68
Consensus pattern (12 bp):
TTTTCTTTTGAA
Found at i:24643379 original size:46 final size:47
Alignment explanation
Indices: 24643295--24643711 Score: 336
Period size: 46 Copynumber: 8.7 Consensus size: 47
24643285 TTTGAGTACT
* *
24643295 TCTGATCAAGTGACAAAGTGATAAGTGGT-AGCT-TTAGCTACACTTA
1 TCTGATCAAGTGAC-AAGTGATAAGTGATAAGCTATCAGCTACACTTA
** * * *
24643341 TCTGATCAAGTGACAAGTGGGAAGTGATAAGTAATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAAGTGATAAGTGATAAG--CTA---TCAGCTACACTTA
* * *
24643393 TCTGATCAAGTGATAAAGTGATAAGTGAT-AGCT-TCGGCTATACTTA
1 TCTGATCAAGTGA-CAAGTGATAAGTGATAAGCTATCAGCTACACTTA
* * * *
24643439 TCAGATCAAGTGACAAAGTGATAAGTGA-ATGCT-TCGGCTATACTTA
1 TCTGATCAAGTGAC-AAGTGATAAGTGATAAGCTATCAGCTACACTTA
*
24643485 TCTAATCAAGTGACAAAGTGATAAGTGAT-AGCT-TCAGCTACACTTA
1 TCTGATCAAGTGAC-AAGTGATAAGTGATAAGCTATCAGCTACACTTA
* *
24643531 TCTGATCAAGTTACAAGTGGA-AAGTGAGAAGTGATAGCT-TCGGCTACACTTA
1 TCTGATCAAGTGACAAGT-GATAAGT--G-A-T-A-AGCTATCAGCTACACTTA
* * * *
24643583 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAAGTGATAAGTGATAA--GCTA---TCAGCTACACTTA
* *
24643635 TCTGATCAAGAGACAAAGTGATAAGTGAT-AGCT-TTAGCTACACTTA
1 TCTGATCAAGTGAC-AAGTGATAAGTGATAAGCTATCAGCTACACTTA
*
24643681 TCTGATCAAGTGACAAGTGAAAAGTGATAAG
1 TCTGATCAAGTGACAAGTGATAAGTGATAAG
24643712 TGATAGCTTC
Statistics
Matches: 310, Mismatches: 33, Indels: 56
0.78 0.08 0.14
Matches are distributed among these distances:
45 32 0.10
46 150 0.48
47 2 0.01
48 5 0.02
49 2 0.01
50 4 0.01
51 2 0.01
52 88 0.28
53 25 0.08
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (47 bp):
TCTGATCAAGTGACAAGTGATAAGTGATAAGCTATCAGCTACACTTA
Found at i:24643380 original size:52 final size:49
Alignment explanation
Indices: 24643362--24643748 Score: 476
Period size: 46 Copynumber: 8.0 Consensus size: 49
24643352 GACAAGTGGG
*
24643362 AAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTG---ATA
1 AAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAATA
*
24643408 AAGTGATAAGTGATAGCTTCGGCTATACTTATCAGATCAAGTGAC---A
1 AAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAATA
*
24643454 AAGTGATAAGTGA-ATGCTTCGGCTATACTTATCTAATCAAGTGAC---A
1 AAGTGATAAGTGATA-GCTTCGGCTATACTTATCTGATCAAGTGACAATA
* * *
24643500 AAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTTACAAGTGGA
1 AAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAA-T--A
* *
24643552 AAGTGAGAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGAA
1 AAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAA-T--A
*
24643604 AAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC---A
1 AAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAATA
** *
24643650 AAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGAA
1 AAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAA-T--A
*
24643702 AAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGACAA
1 AAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAA
24643749 AGTAAAAAGT
Statistics
Matches: 302, Mismatches: 23, Indels: 26
0.86 0.07 0.07
Matches are distributed among these distances:
45 1 0.00
46 165 0.55
47 1 0.00
52 135 0.45
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (49 bp):
AAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAATA
Found at i:24643750 original size:98 final size:98
Alignment explanation
Indices: 24643301--24643751 Score: 523
Period size: 98 Copynumber: 4.6 Consensus size: 98
24643291 TACTTCTGAT
* ** * *
24643301 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGGGAAGT
1 CAAGTGA-AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC-A-----AAGT
* *
24643366 GATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTG-
59 GATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
* *
24643405 --A-T--AAAGTGATAAGTGATAGCTTCGGCTATACTTATCAGATCAAGTGACAAAGTGATAAGT
1 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGT
* *
24643465 GA-ATGCTTCGGCTATACTTATCTAATCAAGTGA
66 GATA-GCTTCGGCTACACTTATCTGATCAAGTGA
* * **
24643498 C------AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTTACAAGTGGAAAGTG
1 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAG-----AG-ACAAAGTG
*
24643557 AGAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
60 ATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
24643596 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGT
1 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGT
**
24643661 GATAGCTTTAGCTACACTTATCTGATCAAGTGA
66 GATAGCTTCGGCTACACTTATCTGATCAAGTGA
24643694 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGT
1 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGT
24643752 AAAAAGTGGC
Statistics
Matches: 308, Mismatches: 23, Indels: 38
0.83 0.06 0.10
Matches are distributed among these distances:
91 1 0.00
92 78 0.25
97 2 0.01
98 182 0.59
99 3 0.01
101 1 0.00
102 1 0.00
104 40 0.13
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (98 bp):
CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGT
GATAGCTTCGGCTACACTTATCTGATCAAGTGA
Found at i:24643772 original size:37 final size:37
Alignment explanation
Indices: 24643722--24643868 Score: 208
Period size: 37 Copynumber: 4.0 Consensus size: 37
24643712 TGATAGCTTC
* * * *
24643722 GGCTATACTTATCTGATCAAGAGACAAAGTAAAAAGT
1 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
*
24643759 GGCTACACTTATCTGAGCAAGAAACAAAGTGATAAGT
1 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
*
24643796 GGCTACACTTATCTGATCAAGAAACAAAGTGATAGGT
1 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
**
24643833 GGCTACACTTATCTGATC-AGGGAC-AAGTGATAAGT
1 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
24643868 G
1 G
24643869 ATCATACGTA
Statistics
Matches: 100, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 85 0.85
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (37 bp):
GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
Found at i:24649371 original size:46 final size:46
Alignment explanation
Indices: 24649354--24649538 Score: 275
Period size: 46 Copynumber: 4.0 Consensus size: 46
24649344 GACAAGTGGG
* * *
24649354 AAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACA
1 AAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACA
* *
24649400 AAGTGATAAGTGATAGCTTCGGCTATC-CTTATCTGATCATGTGACA
1 AAGTGATAAGTGATAGCTTCAGCTA-CACTTATCTGATCAAGTGACA
* *
24649446 AAGTGATAAGTGA-ATGCTTCGGCTATACTTATCTGATCAAGTGACA
1 AAGTGATAAGTGATA-GCTTCAGCTACACTTATCTGATCAAGTGACA
24649492 AAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACA
1 AAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACA
24649538 A
1 A
24649539 GTGNNNNNNN
Statistics
Matches: 128, Mismatches: 7, Indels: 8
0.90 0.05 0.06
Matches are distributed among these distances:
45 1 0.01
46 126 0.98
47 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (46 bp):
AAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACA
Found at i:24649479 original size:92 final size:92
Alignment explanation
Indices: 24649354--24649538 Score: 320
Period size: 92 Copynumber: 2.0 Consensus size: 92
24649344 GACAAGTGGG
24649354 AAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTGATAGCTT
1 AAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTGATAGCTT
* *
24649419 CGGCTATC-CTTATCTGATCATGTGACA
66 CAGCTA-CACTTATCTGATCAAGTGACA
24649446 AAGTGATAAGTGAAT-GCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTGATAGCT
1 AAGTGATAAGT-AATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTGATAGCT
24649510 TCAGCTACACTTATCTGATCAAGTGACA
65 TCAGCTACACTTATCTGATCAAGTGACA
24649538 A
1 A
24649539 GTGNNNNNNN
Statistics
Matches: 89, Mismatches: 2, Indels: 4
0.94 0.02 0.04
Matches are distributed among these distances:
91 1 0.01
92 85 0.96
93 3 0.03
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (92 bp):
AAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTGATAGCTT
CAGCTACACTTATCTGATCAAGTGACA
Found at i:24666546 original size:22 final size:20
Alignment explanation
Indices: 24666501--24666547 Score: 53
Period size: 22 Copynumber: 2.3 Consensus size: 20
24666491 TAAGATTAAT
24666501 CAAAATAAAATAAATGAATA
1 CAAAATAAAATAAATGAATA
24666521 -AAAATAAAAATAAAAATGAA-A
1 CAAAAT-AAAAT--AAATGAATA
24666542 CAAAAT
1 CAAAAT
24666548 TTAAAATAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
19 5 0.22
20 5 0.22
21 1 0.04
22 12 0.52
ACGTcount: A:0.74, C:0.04, G:0.04, T:0.17
Consensus pattern (20 bp):
CAAAATAAAATAAATGAATA
Found at i:24680451 original size:30 final size:30
Alignment explanation
Indices: 24680415--24680489 Score: 96
Period size: 30 Copynumber: 2.5 Consensus size: 30
24680405 GGTTGATACC
* * *
24680415 TCCCTTTTCGTAATTCCATAATCGAAGTTA
1 TCCCTTTTCATAATTCCATAACCGAAGCTA
* * *
24680445 TCCCTTTTCATAGTTCGATAGCCGAAGCTA
1 TCCCTTTTCATAATTCCATAACCGAAGCTA
24680475 TCCCTTTTCATAATT
1 TCCCTTTTCATAATT
24680490 TGATGGTCGT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.24, C:0.25, G:0.11, T:0.40
Consensus pattern (30 bp):
TCCCTTTTCATAATTCCATAACCGAAGCTA
Found at i:24680508 original size:30 final size:30
Alignment explanation
Indices: 24680474--24680553 Score: 106
Period size: 30 Copynumber: 2.7 Consensus size: 30
24680464 AGCCGAAGCT
*
24680474 ATCCCTTTTCATAATTTGATGGTCGTCACC
1 ATCCCTTTTCATAATTTGATGGCCGTCACC
* ** * *
24680504 ATCCCTCTTCATTGTTCGACGGCCGTCACC
1 ATCCCTTTTCATAATTTGATGGCCGTCACC
24680534 ATCCCTTTTCATAATTTGAT
1 ATCCCTTTTCATAATTTGAT
24680554 AGCCAAAGCT
Statistics
Matches: 39, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.19, C:0.30, G:0.12, T:0.39
Consensus pattern (30 bp):
ATCCCTTTTCATAATTTGATGGCCGTCACC
Found at i:24680508 original size:60 final size:60
Alignment explanation
Indices: 24680444--24680644 Score: 185
Period size: 60 Copynumber: 3.4 Consensus size: 60
24680434 AATCGAAGTT
* *
24680444 ATCCCTTTTCATAGTTCGATAGCCGAAGCTATCCCTTTTCATAATTTGATGGTCGTCACC
1 ATCCCTTTTCATAGATCGATAGCCGAAGCCATCCCTTTTCATAATTTGATGGTCGTCACC
* * * ** * * *** *
24680504 ATCCCTCTTCATTGTTCGACGGCCGTCA-CCATCCCTTTTCATAATTTGATAG-CCAAAGCT
1 ATCCCTTTTCATAGATCGATAGCCG-AAGCCATCCCTTTTCATAATTTGATGGTCGTCA-CC
** ** *
24680564 ATCCCTTTTCATAGATC-AGTAGCCGAAGCCATCTTTTTTCATAGCTCGATGGTCGTCACC
1 ATCCCTTTTCATAGATCGA-TAGCCGAAGCCATCCCTTTTCATAATTTGATGGTCGTCACC
24680624 ATCCCTTTTCATA-ATCGATAG
1 ATCCCTTTTCATAGATCGATAG
24680645 ACGTATCCTT
Statistics
Matches: 108, Mismatches: 27, Indels: 13
0.73 0.18 0.09
Matches are distributed among these distances:
59 10 0.09
60 95 0.88
61 3 0.03
ACGTcount: A:0.22, C:0.28, G:0.14, T:0.35
Consensus pattern (60 bp):
ATCCCTTTTCATAGATCGATAGCCGAAGCCATCCCTTTTCATAATTTGATGGTCGTCACC
Found at i:24680587 original size:30 final size:31
Alignment explanation
Indices: 24680532--24680607 Score: 84
Period size: 30 Copynumber: 2.5 Consensus size: 31
24680522 ACGGCCGTCA
**
24680532 CCATCCCTTTTCATA-ATTTGATAGCCAAAG
1 CCATCCCTTTTCATAGATCAGATAGCCAAAG
* *
24680562 CTATCCCTTTTCATAGATCAG-TAGCCGAAG
1 CCATCCCTTTTCATAGATCAGATAGCCAAAG
**
24680592 CCATCTTTTTTCATAG
1 CCATCCCTTTTCATAG
24680608 CTCGATGGTC
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
30 35 0.92
31 3 0.08
ACGTcount: A:0.26, C:0.26, G:0.12, T:0.36
Consensus pattern (31 bp):
CCATCCCTTTTCATAGATCAGATAGCCAAAG
Found at i:24680596 original size:90 final size:90
Alignment explanation
Indices: 24680444--24680644 Score: 228
Period size: 90 Copynumber: 2.2 Consensus size: 90
24680434 AATCGAAGTT
* * ** * * *
24680444 ATCCCTTTTCATAGTTCGATAGCCGAAGCTATCCCTTTTCATAATTTGATGGTCGTCACCATCCC
1 ATCCCTTTTCATAATTCGATAGCCAAAGCTATCCCTTTTCATAATCAGATAGCCGTAACCATCCC
* *
24680509 TCTTCATTGTTCGACGGCCGTCACC
66 TCTTCATAGCTCGACGGCCGTCACC
*
24680534 ATCCCTTTTCATAATTTGATAGCCAAAGCTATCCCTTTTCATAGATCAG-TAGCCG-AAGCCATC
1 ATCCCTTTTCATAATTCGATAGCCAAAGCTATCCCTTTTCATA-ATCAGATAGCCGTAA-CCATC
** * * *
24680597 TTTTTTCATAGCTCGATGGTCGTCACC
64 CCTCTTCATAGCTCGACGGCCGTCACC
24680624 ATCCCTTTTCATAA-TCGATAG
1 ATCCCTTTTCATAATTCGATAG
24680645 ACGTATCCTT
Statistics
Matches: 93, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
89 7 0.08
90 83 0.89
91 3 0.03
ACGTcount: A:0.22, C:0.28, G:0.14, T:0.35
Consensus pattern (90 bp):
ATCCCTTTTCATAATTCGATAGCCAAAGCTATCCCTTTTCATAATCAGATAGCCGTAACCATCCC
TCTTCATAGCTCGACGGCCGTCACC
Found at i:24688122 original size:30 final size:31
Alignment explanation
Indices: 24688088--24688164 Score: 106
Period size: 30 Copynumber: 2.5 Consensus size: 31
24688078 ACCCGAAGCT
**
24688088 ATCCCTTTTCATACTTTC-ATGGTTGTCACC
1 ATCCCTTTTCATACTTTCGATGGTCATCACC
24688118 ATCCCTTTTCAT--TGTTCGATGGTCATCACC
1 ATCCCTTTTCATACT-TTCGATGGTCATCACC
24688148 ATCCCTTTTCATACTTT
1 ATCCCTTTTCATACTTT
24688165 GATAGTCGAA
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
28 1 0.02
29 3 0.07
30 34 0.83
31 2 0.05
32 1 0.02
ACGTcount: A:0.17, C:0.30, G:0.09, T:0.44
Consensus pattern (31 bp):
ATCCCTTTTCATACTTTCGATGGTCATCACC
Found at i:24688182 original size:30 final size:30
Alignment explanation
Indices: 24688146--24688219 Score: 96
Period size: 30 Copynumber: 2.5 Consensus size: 30
24688136 ATGGTCATCA
** * *
24688146 CCATCCCTTTTCATACTTTGATAGTCGAAG
1 CCATCCCTTTTCATAAATCGATAGCCGAAG
*
24688176 CTATCCCTTTTCATAAATCGATAGCCGAAG
1 CCATCCCTTTTCATAAATCGATAGCCGAAG
24688206 CCAT-CCTTTTCATA
1 CCATCCCTTTTCATA
24688220 GCTAGATGGT
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
29 10 0.26
30 28 0.74
ACGTcount: A:0.26, C:0.28, G:0.11, T:0.35
Consensus pattern (30 bp):
CCATCCCTTTTCATAAATCGATAGCCGAAG
Found at i:24703497 original size:25 final size:25
Alignment explanation
Indices: 24703460--24703510 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
24703450 AAGGAAGAGG
* *
24703460 GTGACTGGCTCGGGTGGCAAAAATT
1 GTGAATGGCTCGGGTAGCAAAAATT
*
24703485 GTGAATGGGTCGGGTAGCAAAAATT
1 GTGAATGGCTCGGGTAGCAAAAATT
24703510 G
1 G
24703511 ACTTAAATTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.27, C:0.12, G:0.37, T:0.24
Consensus pattern (25 bp):
GTGAATGGCTCGGGTAGCAAAAATT
Found at i:24706107 original size:32 final size:29
Alignment explanation
Indices: 24706055--24706120 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 29
24706045 TATCATCTTA
*
24706055 AATATATATATCAAACTTATAATATAACAT
1 AATATATATATCAAACTTATAACATAA-AT
24706085 AATATATATTAT-AAACAATTATAACATAAAT
1 AATATATA-TATCAAAC--TTATAACATAAAT
24706116 -ATATA
1 AATATA
24706121 AGGAGATGGG
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
30 17 0.53
31 5 0.16
32 10 0.31
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (29 bp):
AATATATATATCAAACTTATAACATAAAT
Found at i:24713008 original size:213 final size:214
Alignment explanation
Indices: 24712630--24713056 Score: 847
Period size: 213 Copynumber: 2.0 Consensus size: 214
24712620 GTTTACTCGA
24712630 GGACTGAGGATAAGCATGATGAGCACCTTTGAGTCGTTCTTCAGACTTTGAGGGAAAAACAGCTC
1 GGACTGAGGATAAGCATGATGAGCACCTTTGAGTCGTTCTTCAGACTTTGAGGGAAAAACAGCTC
24712695 TATGCTAAGTTTAGTAAGTGCAAGTTCTGGCTGCGTAAGGAGACATTTCTTGGTCATGTAGTTTC
66 TATGCTAAGTTTAGTAAGTGCAAGTTCTGGCTGCGTAAGGAGACATTTCTTGGTCATGTAGTTTC
24712760 GCCTGAGGGAATTCAAGTTGATTTTCGAAAAATTGAGGCTGCGTTTGAGTCGAAGCAGCCTAGGA
131 GCCTGAGGGAATTCAAGTTGATTTTCGAAAAATTGAGGCTGCGTTTGAGTCGAAGCAGCCTAGGA
24712825 ACGTGTCTGAGATCTACCG
196 ACGTGTCTGAGATCTACCG
24712844 GGACTGAGGA-AAGCATGATGAGCACCTTTGAGTCGTTCTTCAGACTTTGAGGGAAAAACAGCTC
1 GGACTGAGGATAAGCATGATGAGCACCTTTGAGTCGTTCTTCAGACTTTGAGGGAAAAACAGCTC
24712908 TATGCTAAGTTTAGTAAGTGCAAGTTCTGGCTGCGTAAGGAGACATTTCTTGGTCATGTAGTTTC
66 TATGCTAAGTTTAGTAAGTGCAAGTTCTGGCTGCGTAAGGAGACATTTCTTGGTCATGTAGTTTC
24712973 GCCTGAGGGAATTCAAGTTGATTTTCGAAAAATTGAGGCTGCGTTTGAGTCGAAGCAGCCTAGGA
131 GCCTGAGGGAATTCAAGTTGATTTTCGAAAAATTGAGGCTGCGTTTGAGTCGAAGCAGCCTAGGA
24713038 ACGTGTCTGAGATCTACCG
196 ACGTGTCTGAGATCTACCG
24713057 TTTTCTAGGA
Statistics
Matches: 213, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
213 203 0.95
214 10 0.05
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (214 bp):
GGACTGAGGATAAGCATGATGAGCACCTTTGAGTCGTTCTTCAGACTTTGAGGGAAAAACAGCTC
TATGCTAAGTTTAGTAAGTGCAAGTTCTGGCTGCGTAAGGAGACATTTCTTGGTCATGTAGTTTC
GCCTGAGGGAATTCAAGTTGATTTTCGAAAAATTGAGGCTGCGTTTGAGTCGAAGCAGCCTAGGA
ACGTGTCTGAGATCTACCG
Found at i:24715471 original size:17 final size:18
Alignment explanation
Indices: 24715449--24715483 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
24715439 ATTTGGGTCA
24715449 TGTGGGC-CACACGGGCG
1 TGTGGGCGCACACGGGCG
24715466 TGTGGGCGCACACGGGCG
1 TGTGGGCGCACACGGGCG
24715484 AACATCATGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.11, C:0.29, G:0.49, T:0.11
Consensus pattern (18 bp):
TGTGGGCGCACACGGGCG
Found at i:24719449 original size:11 final size:11
Alignment explanation
Indices: 24719433--24719472 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
24719423 GGCCCAAGAG
*
24719433 AGAAAAAGTAA
1 AGAAAAAGAAA
*
24719444 AGAAAAAGGAA
1 AGAAAAAGAAA
24719455 AGAAAAAGAAA
1 AGAAAAAGAAA
*
24719466 ATAAAAA
1 AGAAAAA
24719473 CAAAGGCCTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.78, C:0.00, G:0.17, T:0.05
Consensus pattern (11 bp):
AGAAAAAGAAA
Found at i:24719956 original size:42 final size:42
Alignment explanation
Indices: 24719866--24720169 Score: 369
Period size: 42 Copynumber: 7.3 Consensus size: 42
24719856 CTTCATATAC
* ** ** *
24719866 AATGCAATGAAAAGTAAATAAACCT-CACAGTTGGGCCTCTA
1 AATGCAATGAAAGGTAAATGGACCTCCACACCTAGGCCTCTA
*
24719907 AATGCAATGAAAGGTAAATGGACCTCCACACCTGGGCCTCTA
1 AATGCAATGAAAGGTAAATGGACCTCCACACCTAGGCCTCTA
* * *
24719949 AATGCAATGAAACGTAAAAGGACCTCCACACTTAGGCCTCTA
1 AATGCAATGAAAGGTAAATGGACCTCCACACCTAGGCCTCTA
* * *
24719991 AATGTAATTAAAGGTAAATAGACCTCCACACCTAGGCCTCTA
1 AATGCAATGAAAGGTAAATGGACCTCCACACCTAGGCCTCTA
* *
24720033 AATGCAATGAAACGTAAATGGGCCTCCACACCT-GAGCCTCTA
1 AATGCAATGAAAGGTAAATGGACCTCCACACCTAG-GCCTCTA
* *
24720075 AATGCAATGAAAGATAAATGGACCTCCACACCTAGGCCTATA
1 AATGCAATGAAAGGTAAATGGACCTCCACACCTAGGCCTCTA
* * * * * * *
24720117 AACGTAATGAAAAGTACATGGACCTCCACAGCTTGGCCTATA
1 AATGCAATGAAAGGTAAATGGACCTCCACACCTAGGCCTCTA
24720159 AATGCAATGAA
1 AATGCAATGAA
24720170 TTATTTCCTT
Statistics
Matches: 227, Mismatches: 33, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
41 23 0.10
42 203 0.89
43 1 0.00
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.20
Consensus pattern (42 bp):
AATGCAATGAAAGGTAAATGGACCTCCACACCTAGGCCTCTA
Found at i:24720050 original size:126 final size:126
Alignment explanation
Indices: 24719871--24720169 Score: 413
Period size: 126 Copynumber: 2.4 Consensus size: 126
24719861 TATACAATGC
* ** * *
24719871 AATGAAAAGTAAATAAACCT-CACAGTTGGGCCTCTAAATGCAATGAAAGGTAAATGGACCTCCA
1 AATGAAAAGTAAATAGACCTCCACACCTAGGCCTCTAAATGCAATGAAACGTAAATGGACCTCCA
* * * *
24719935 CACCTGGGCCTCTAAATGCAATGAAACG-TAAAAGGACCTCCACACTTAGGCCTCTAAATGT
66 CACCTGAGCCTCTAAATGCAATGAAA-GATAAAAGGACCTCCACACCTAGGCCTATAAACGT
* * *
24719996 AATTAAAGGTAAATAGACCTCCACACCTAGGCCTCTAAATGCAATGAAACGTAAATGGGCCTCCA
1 AATGAAAAGTAAATAGACCTCCACACCTAGGCCTCTAAATGCAATGAAACGTAAATGGACCTCCA
*
24720061 CACCTGAGCCTCTAAATGCAATGAAAGATAAATGGACCTCCACACCTAGGCCTATAAACGT
66 CACCTGAGCCTCTAAATGCAATGAAAGATAAAAGGACCTCCACACCTAGGCCTATAAACGT
* * * * *
24720122 AATGAAAAGTACATGGACCTCCACAGCTTGGCCTATAAATGCAATGAA
1 AATGAAAAGTAAATAGACCTCCACACCTAGGCCTCTAAATGCAATGAA
24720170 TTATTTCCTT
Statistics
Matches: 152, Mismatches: 20, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
125 18 0.12
126 134 0.88
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.20
Consensus pattern (126 bp):
AATGAAAAGTAAATAGACCTCCACACCTAGGCCTCTAAATGCAATGAAACGTAAATGGACCTCCA
CACCTGAGCCTCTAAATGCAATGAAAGATAAAAGGACCTCCACACCTAGGCCTATAAACGT
Found at i:24720588 original size:11 final size:11
Alignment explanation
Indices: 24720572--24720642 Score: 62
Period size: 11 Copynumber: 6.6 Consensus size: 11
24720562 TGCTCTCTCC
24720572 CTTTTTTTCTT
1 CTTTTTTTCTT
*
24720583 CTTTTTTTGTTT
1 CTTTTTTT-CTT
24720595 CTTTTTTGT-TT
1 CTTTTTT-TCTT
*
24720606 -TGTTGTTT-TT
1 CT-TTTTTTCTT
24720616 C-TTTTTTCTT
1 CTTTTTTTCTT
24720626 CTTTTTTTCTT
1 CTTTTTTTCTT
24720637 -TTTTTT
1 CTTTTTT
24720643 ATTTAGGGAA
Statistics
Matches: 51, Mismatches: 3, Indels: 13
0.76 0.04 0.19
Matches are distributed among these distances:
9 5 0.10
10 13 0.25
11 23 0.45
12 9 0.18
13 1 0.02
ACGTcount: A:0.00, C:0.11, G:0.06, T:0.83
Consensus pattern (11 bp):
CTTTTTTTCTT
Found at i:24721898 original size:51 final size:51
Alignment explanation
Indices: 24721834--24721935 Score: 161
Period size: 51 Copynumber: 2.0 Consensus size: 51
24721824 AGCATTTTCA
*
24721834 GCACAAGGTAATTCTTTGTTCGATTCTGAGAAGGTTGAAAGG-AGGATGCCG
1 GCACAAGGCAATTCTTTGTTCGATTCTGAGAAGGTTGAAAGGAAGG-TGCCG
* *
24721885 GCACAAGGCAATTCTTTGTTCGGTTCTGATAAGGTTGAAAGGAAGGTGCCG
1 GCACAAGGCAATTCTTTGTTCGATTCTGAGAAGGTTGAAAGGAAGGTGCCG
24721936 AATGTTCTTT
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
51 44 0.94
52 3 0.06
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.27
Consensus pattern (51 bp):
GCACAAGGCAATTCTTTGTTCGATTCTGAGAAGGTTGAAAGGAAGGTGCCG
Found at i:24736580 original size:4 final size:4
Alignment explanation
Indices: 24736564--24736606 Score: 50
Period size: 4 Copynumber: 10.8 Consensus size: 4
24736554 ACAAATTAGC
* * * *
24736564 GAAT GAGT GAAT GAAT GGAT GAAT GAAT GATT GAAT GATT GAA
1 GAAT GAAT GAAT GAAT GAAT GAAT GAAT GAAT GAAT GAAT GAA
24736607 ATTTAGGCAC
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.42, C:0.00, G:0.30, T:0.28
Consensus pattern (4 bp):
GAAT
Found at i:24758031 original size:19 final size:21
Alignment explanation
Indices: 24757980--24758031 Score: 56
Period size: 19 Copynumber: 2.6 Consensus size: 21
24757970 ACCTGAAAAT
*
24757980 AAATCAAAG-TTTTCTTTAAA
1 AAATCAATGTTTTTCTTTAAA
* *
24758000 AAATCACTATTTTTC-TT-AA
1 AAATCAATGTTTTTCTTTAAA
24758019 AAATCAATGTTTT
1 AAATCAATGTTTT
24758032 ATTTCGAAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
19 13 0.50
20 8 0.31
21 5 0.19
ACGTcount: A:0.40, C:0.12, G:0.04, T:0.44
Consensus pattern (21 bp):
AAATCAATGTTTTTCTTTAAA
Found at i:24758375 original size:3 final size:3
Alignment explanation
Indices: 24758367--24758392 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
24758357 ACTAGAATGC
24758367 TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TT
24758393 TTACCTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:24758466 original size:2 final size:2
Alignment explanation
Indices: 24758459--24758486 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
24758449 ATTTCATTTC
24758459 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
24758487 TGTTTTTAAT
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:24774739 original size:46 final size:46
Alignment explanation
Indices: 24774670--24774762 Score: 141
Period size: 46 Copynumber: 2.0 Consensus size: 46
24774660 GACGACAACA
* * *
24774670 ATTAGAGTTTTAGTTTTATTTATTTTCTTTATTGTATCAGATTTTT
1 ATTAGAGTTTTAGTTTTACTTATTTTCTCTATTATATCAGATTTTT
* *
24774716 ATTAGAGTTTTAGTTTTACTTATTTTCTCTATTATATTAGGTTTTT
1 ATTAGAGTTTTAGTTTTACTTATTTTCTCTATTATATCAGATTTTT
24774762 A
1 A
24774763 ATTCCTTTAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.23, C:0.05, G:0.11, T:0.61
Consensus pattern (46 bp):
ATTAGAGTTTTAGTTTTACTTATTTTCTCTATTATATCAGATTTTT
Found at i:24776275 original size:46 final size:46
Alignment explanation
Indices: 24776184--24776278 Score: 129
Period size: 46 Copynumber: 2.1 Consensus size: 46
24776174 GGAGACGATA
* * *
24776184 ATTAGAGTTTTAGTTTTATATATTTTCTTTATTATATCATATTTTT
1 ATTAGAGTTTTAGTTTTATATATTTCCTCTATTATATCAGATTTTT
* *
24776230 ATTAGAGTTTTAGTTTTACT-TATTTCCTCTATTATATTAGGTTTTT
1 ATTAGAGTTTTAGTTTTA-TATATTTCCTCTATTATATCAGATTTTT
24776276 ATT
1 ATT
24776279 TCTTTTATAA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
46 42 0.98
47 1 0.02
ACGTcount: A:0.24, C:0.06, G:0.08, T:0.61
Consensus pattern (46 bp):
ATTAGAGTTTTAGTTTTATATATTTCCTCTATTATATCAGATTTTT
Found at i:24777011 original size:10 final size:9
Alignment explanation
Indices: 24776993--24777035 Score: 50
Period size: 10 Copynumber: 4.4 Consensus size: 9
24776983 AAAACTACTG
*
24776993 TTTTTCTTT
1 TTTTTATTT
24777002 TTTTTACTTT
1 TTTTTA-TTT
24777012 TTTTTATTT
1 TTTTTATTT
24777021 TCTTGTTATTT
1 T-TT-TTATTT
24777032 TTTT
1 TTTT
24777036 CACTATTTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
9 10 0.33
10 13 0.43
11 7 0.23
ACGTcount: A:0.07, C:0.07, G:0.02, T:0.84
Consensus pattern (9 bp):
TTTTTATTT
Found at i:24785741 original size:16 final size:16
Alignment explanation
Indices: 24785698--24785747 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
24785688 AAGTTTTTTT
24785698 TAAATATAATATA--A
1 TAAATATAATATATTA
*
24785712 TAAATCTGAA-ATATTA
1 TAAATAT-AATATATTA
24785728 TAAATATAATATATTTA
1 TAAATATAATATA-TTA
24785745 TAA
1 TAA
24785748 TGTTATGGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
14 9 0.31
15 4 0.14
16 10 0.34
17 6 0.21
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (16 bp):
TAAATATAATATATTA
Found at i:24786108 original size:24 final size:24
Alignment explanation
Indices: 24786057--24786109 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
24786047 TTCAGTATTT
* *
24786057 ATTAGTATAATATATTTAGCATTT
1 ATTAGCATAATATATTTAGCATTG
24786081 ATTAGCATAATATATTT-GACATTG
1 ATTAGCATAATATATTTAG-CATTG
24786105 ATTAG
1 ATTAG
24786110 AATTATGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 1 0.04
24 25 0.96
ACGTcount: A:0.38, C:0.06, G:0.11, T:0.45
Consensus pattern (24 bp):
ATTAGCATAATATATTTAGCATTG
Found at i:24789946 original size:19 final size:19
Alignment explanation
Indices: 24789922--24789975 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
24789912 AATCTTCAAG
24789922 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
24789941 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
24789960 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
24789976 AGATATGGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:24789951 original size:36 final size:36
Alignment explanation
Indices: 24789911--24789982 Score: 94
Period size: 38 Copynumber: 2.0 Consensus size: 36
24789901 TATGGAAACA
24789911 TAATCTT-CA-AGGATATGCAATCTTAGATATGATATG
1 TAATCTTACATAGGATATGCAATCTTAGA-A-GATATG
* *
24789947 TAATCTTAGATATGATATGCAATCTTAGAAGATATG
1 TAATCTTACATAGGATATGCAATCTTAGAAGATATG
24789983 GTTTTGTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 13 0.41
37 2 0.06
38 17 0.53
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.36
Consensus pattern (36 bp):
TAATCTTACATAGGATATGCAATCTTAGAAGATATG
Found at i:24799240 original size:20 final size:20
Alignment explanation
Indices: 24799215--24799283 Score: 61
Period size: 20 Copynumber: 3.3 Consensus size: 20
24799205 CTTTTTTTGT
24799215 TTATTTTATTTATTATTATA
1 TTATTTTATTTATTATTATA
*
24799235 TTATTTT-TATTATTATGTTAGA
1 TTATTTTAT-TTATTA--TTATA
*
24799257 TTTATTTTA-TTGTTATTATTA
1 -TTATTTTATTTATTATTA-TA
24799278 TTATTT
1 TTATTT
24799284 CCATTTTTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 12
0.73 0.05 0.22
Matches are distributed among these distances:
19 1 0.03
20 22 0.55
21 1 0.03
22 9 0.22
23 7 0.17
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (20 bp):
TTATTTTATTTATTATTATA
Found at i:24799243 original size:17 final size:17
Alignment explanation
Indices: 24799223--24799282 Score: 68
Period size: 17 Copynumber: 3.5 Consensus size: 17
24799213 GTTTATTTTA
*
24799223 TTTATTATTATATTATT
1 TTTATTATTATGTTATT
**
24799240 TTTATTATTATGTTAGA
1 TTTATTATTATGTTATT
24799257 TTTATT-TTATTGTTATT
1 TTTATTATTA-TGTTATT
*
24799274 ATTATTATT
1 TTTATTATT
24799283 TCCATTTTTA
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
16 3 0.09
17 30 0.86
18 2 0.06
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (17 bp):
TTTATTATTATGTTATT
Found at i:24803445 original size:23 final size:23
Alignment explanation
Indices: 24803419--24803465 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 23
24803409 TAATACATCA
24803419 AGAGGGCATGG-AGGTATAAGACC
1 AGAGGGCA-GGAAGGTATAAGACC
24803442 AGAGGGCAGGAAGGTATAAGACC
1 AGAGGGCAGGAAGGTATAAGACC
24803465 A
1 A
24803466 TGTGGGAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 2 0.09
23 21 0.91
ACGTcount: A:0.38, C:0.13, G:0.38, T:0.11
Consensus pattern (23 bp):
AGAGGGCAGGAAGGTATAAGACC
Found at i:24806938 original size:8 final size:8
Alignment explanation
Indices: 24806925--24806959 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
24806915 CTCCTTTTTA
24806925 TTAAATAT
1 TTAAATAT
24806933 TTAAATAT
1 TTAAATAT
*
24806941 CTAATATAT
1 TTAA-ATAT
24806950 TTAAATAT
1 TTAAATAT
24806958 TT
1 TT
24806960 GGCTAATTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
8 17 0.71
9 7 0.29
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (8 bp):
TTAAATAT
Found at i:24808285 original size:114 final size:114
Alignment explanation
Indices: 24808117--24808929 Score: 1176
Period size: 114 Copynumber: 7.1 Consensus size: 114
24808107 AAAATAAGCA
* * * * * **
24808117 TTAGCGGCGTTTTCGA-AAATGCGCCGC-AAAATACCTAAGCCCAATGATGCCGTTTTCCAAGCT
1 TTAGCGGCGTTTTTGATAAA-GCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
24808180 TTCGGGGATTTAGCGGCTTTTTTAA-TAAAGCGCCGCTAATGCTCAGGGCT
65 TTCGGGGATTTAGCGGCTTTTTTAAGT-AAGCGCCGCTAATGCTCAGGGCT
* *
24808230 TTAGCAGCGTTTTTGATAAAGCGCCACAAAAAAACCTAAGCCCAATGACGCCGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTGATAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
24808295 TCGGGGATTTAGCGGCTTTTTTAA-TAAAGCGCCGCTAATGCTCAGGGCT
66 TCGGGGATTTAGCGGCTTTTTTAAGT-AAGCGCCGCTAATGCTCAGGGCT
*
24808344 TTAGCGGCGTTTTTGTTAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTGATAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
** * *
24808409 TCGGGGATTTAGCGG-TGTTTTTAAGTTCGCGCCGCTGATGCTCAAGGCT
66 TCGGGGATTTAGCGGCT-TTTTTAAGTAAGCGCCGCTAATGCTCAGGGCT
* *
24808458 TTAGCGGCGTTTTTGATAAAGCGCCATAAAAAAACCTAAGCCCAACGACACCGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTGATAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
* *
24808523 TCGGGGATTTAGCGGCGTTTTTAAGTAAGTGCCGCTAATGCTCAGGGCT
66 TCGGGGATTTAGCGGCTTTTTTAAGTAAGCGCCGCTAATGCTCAGGGCT
*
24808572 TTAGCGGCGTTTTTGATAAAGCGCCATAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTGATAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
*
24808637 TCGGGGATTT-GCCGGCGTTTTTAAGTAAGCGCCGCTAATGCTCAGGGCT
66 TCGGGGATTTAG-CGGCTTTTTTAAGTAAGCGCCGCTAATGCTCAGGGCT
* * * * * **
24808686 CTAGCAGTGTTTTTGATAAAGCGCCACAGAAAAACCTAAGCCCAAAGATTCCGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTGATAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
* *
24808751 TCGGGGATTTAGCGGCGTTTTTAAGTACGCGCCGCTAATGCTCAGGGCT
66 TCGGGGATTTAGCGGCTTTTTTAAGTAAGCGCCGCTAATGCTCAGGGCT
* *
24808800 TTAGCGGCGTTTTTGGA-AAAGCGCCGC-AAAAAACCTAAGCCCAACGACGCCGTTTTCTTAGCT
1 TTAGCGGCGTTTTT-GATAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
** *
24808863 TTCGGGGATTTAGTAGCATTTTTTAA-TAAAGCGCCGCTAATGCTCAGTGCT
65 TTCGGGGATTTAGCGGC-TTTTTTAAGT-AAGCGCCGCTAATGCTCAGGGCT
*
24808914 TTAGTGGCGTTTTTGA
1 TTAGCGGCGTTTTTGA
24808930 GGATGCGCCG
Statistics
Matches: 641, Mismatches: 49, Indels: 20
0.90 0.07 0.03
Matches are distributed among these distances:
113 71 0.11
114 566 0.88
115 4 0.01
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.29
Consensus pattern (114 bp):
TTAGCGGCGTTTTTGATAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
TCGGGGATTTAGCGGCTTTTTTAAGTAAGCGCCGCTAATGCTCAGGGCT
Found at i:24809127 original size:126 final size:130
Alignment explanation
Indices: 24808990--24809250 Score: 352
Period size: 128 Copynumber: 2.0 Consensus size: 130
24808980 AAAATGGGAA
* *
24808990 AATTAAAATACTATTATTTAA-AATAATTTTAAATTTTTTTGGATACATTACTGATT-TTTTTTA
1 AATTAAAATACTATTA-TTAACAATAATTTTAAATTTTTTTGGATACATGACTGATTGATTTTTA
* * ** *
24809053 GTTTATATATTAAATAATTTCTTATATAATCGTAA-A-A-GAGATAGTATTAATTTTAAAATATT
65 ATTTATATACTAAATAATTTCAAATATAATCGTAAGAGATAAGATAGTATTAATTTTAAAATATT
24809115 G
130 G
* * * *
24809116 AATTAATATACTATTATTAAGCCATAATTTTAATTTTTTTTGGGTACATGACTGATTGATTTTTA
1 AATTAAAATACTATTATTAA-CAATAATTTTAAATTTTTTTGGATACATGACTGATTGATTTTTA
*
24809181 ATTTATATACTAAATAATTTCAAATATAATTGTAAGAGATAAGATAGTATTAATTTTAAAATATT
65 ATTTATATACTAAATAATTTCAAATATAATCGTAAGAGATAAGATAGTATTAATTTTAAAATATT
*
24809246 T
130 G
24809247 AATT
1 AATT
24809251 TAATTATCAT
Statistics
Matches: 116, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
125 4 0.03
126 15 0.13
127 31 0.27
128 36 0.31
129 1 0.01
130 1 0.01
131 28 0.24
ACGTcount: A:0.40, C:0.05, G:0.08, T:0.47
Consensus pattern (130 bp):
AATTAAAATACTATTATTAACAATAATTTTAAATTTTTTTGGATACATGACTGATTGATTTTTAA
TTTATATACTAAATAATTTCAAATATAATCGTAAGAGATAAGATAGTATTAATTTTAAAATATTG
Found at i:24809379 original size:15 final size:14
Alignment explanation
Indices: 24809359--24809402 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
24809349 AAGTTTTATA
24809359 GATTATGGAATTAAG
1 GATTATGG-ATTAAG
*
24809374 GATTATGGATTAGG
1 GATTATGGATTAAG
* *
24809388 GATTCTGGTTTAAG
1 GATTATGGATTAAG
24809402 G
1 G
24809403 GTTAATATGA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
14 17 0.68
15 8 0.32
ACGTcount: A:0.30, C:0.02, G:0.32, T:0.36
Consensus pattern (14 bp):
GATTATGGATTAAG
Found at i:24809556 original size:7 final size:7
Alignment explanation
Indices: 24809546--24809585 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
24809536 ATATATTAAA
*
24809546 TAAGGTT
1 TAAGGGT
24809553 TAAGGGT
1 TAAGGGT
*
24809560 TAGGGGT
1 TAAGGGT
*
24809567 TAGGGGT
1 TAAGGGT
24809574 TAAGGGT
1 TAAGGGT
24809581 TAAGG
1 TAAGG
24809586 ATTCAAGATT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.25, C:0.00, G:0.45, T:0.30
Consensus pattern (7 bp):
TAAGGGT
Found at i:24809712 original size:82 final size:85
Alignment explanation
Indices: 24809603--24809822 Score: 329
Period size: 83 Copynumber: 2.6 Consensus size: 85
24809593 ATTGGGTTAT
*
24809603 GGTTTAGGGTTTAGTTTAATTAGTGTTTTTAATTTATATATTAAATAAAGTTTAGGGGTTAGGGG
1 GGTTTAGGGTTTAGATTAATTAGTGTTTTTAATTTATATATTAAATAAAGTTTAGGGGTTAGGGG
24809668 TTAGGGATTTGAGGTC-G-A
66 TTAGGGATTTGAGGTCGGTA
24809686 -GTTTAGGGTTTAGATTAATTAGTGTTTGTTAATTTATATATTAAATAAAGTTTAGGGGTTAGGG
1 GGTTTAGGGTTTAGATTAATTAGTGTTT-TTAATTTATATATTAAATAAAGTTTAGGGGTTAGGG
*
24809750 GTTAGGGATTTGGGGTCGTGTTA
65 GTTAGGGATTTGAGGTCG-G-TA
* * *
24809773 GGGTTTAAGATTTAGATTAATTAGTACTTTTTAATTTATATATTAAATAA
1 -GGTTTAGGGTTTAGATTAATTAGT-GTTTTTAATTTATATATTAAATAA
24809823 GTTCTTTATA
Statistics
Matches: 124, Mismatches: 5, Indels: 10
0.89 0.04 0.07
Matches are distributed among these distances:
82 26 0.21
83 52 0.42
85 1 0.01
87 1 0.01
89 41 0.33
90 3 0.02
ACGTcount: A:0.29, C:0.01, G:0.25, T:0.45
Consensus pattern (85 bp):
GGTTTAGGGTTTAGATTAATTAGTGTTTTTAATTTATATATTAAATAAAGTTTAGGGGTTAGGGG
TTAGGGATTTGAGGTCGGTA
Found at i:24810302 original size:84 final size:83
Alignment explanation
Indices: 24810230--24810408 Score: 218
Period size: 84 Copynumber: 2.1 Consensus size: 83
24810220 AAATTTTTTT
* **
24810230 GTGGCATTTTTAATAAAAACGCCGCAAG-GATTTATTAAAATTTGCCAGAGT-GGCGCCGTTTCT
1 GTGGCATTTTTAAGAAAAACGCCGCAAGAG-TGAATTAAAATTTGCCA-A-TAGGCGCCGTTTCT
24810293 CTACTGGAATAAAATCTTATA
63 CTACTGGAATAAAATCTTATA
* * * * **
24810314 GTGGCGTTTTTTAGGAAAACGCTGCAAGAGTGAATTAATGTTTGCCAATACGGCGCCGTTTCTCT
1 GTGGCATTTTTAAGAAAAACGCCGCAAGAGTGAATTAAAATTTGCCAATA-GGCGCCGTTTCTCT
24810379 ACTGGAATAAAATCTTATA
65 ACTGGAATAAAATCTTATA
*
24810398 GTGGCGTTTTT
1 GTGGCATTTTT
24810409 TAAGTCGCAA
Statistics
Matches: 83, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
82 1 0.01
83 1 0.01
84 80 0.96
85 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.34
Consensus pattern (83 bp):
GTGGCATTTTTAAGAAAAACGCCGCAAGAGTGAATTAAAATTTGCCAATAGGCGCCGTTTCTCTA
CTGGAATAAAATCTTATA
Found at i:24811989 original size:16 final size:16
Alignment explanation
Indices: 24811945--24812021 Score: 75
Period size: 16 Copynumber: 4.5 Consensus size: 16
24811935 TATAAACTTG
24811945 CATAACTTACATAATAA
1 CATAACTTACATAAT-A
24811962 CATAATAACTTACATAATA
1 C---ATAACTTACATAATA
*
24811981 CACAACTTACATAACTTA
1 CATAACTTACATAA--TA
*
24811999 -ATAACTTACATAGTA
1 CATAACTTACATAATA
24812014 CATAACTT
1 CATAACTT
24812022 TGATAACTAA
Statistics
Matches: 51, Mismatches: 3, Indels: 13
0.76 0.04 0.19
Matches are distributed among these distances:
15 2 0.04
16 19 0.37
17 12 0.24
18 2 0.04
19 2 0.04
20 14 0.27
ACGTcount: A:0.48, C:0.19, G:0.01, T:0.31
Consensus pattern (16 bp):
CATAACTTACATAATA
Found at i:24812004 original size:8 final size:9
Alignment explanation
Indices: 24811939--24812052 Score: 64
Period size: 9 Copynumber: 13.2 Consensus size: 9
24811929 ATTATATATA
*
24811939 AACTTGCAT
1 AACTTACAT
24811948 AACTTACAT
1 AACTTACAT
*
24811957 AA-TAACATAAT
1 AACTTAC---AT
24811968 AACTTACAT
1 AACTTACAT
*
24811977 AA--TACAC
1 AACTTACAT
24811984 AACTTACAT
1 AACTTACAT
24811993 AACTTA-AT
1 AACTTACAT
24812001 AACTTACAT
1 AACTTACAT
*
24812010 -A-GTACAT
1 AACTTACAT
**
24812017 AACTTTGAT
1 AACTTACAT
*
24812026 AACTAACAT
1 AACTTACAT
* *
24812035 TA--TACAC
1 AACTTACAT
24812042 AACTTACAT
1 AACTTACAT
24812051 AA
1 AA
24812053 NNNNNNNNNN
Statistics
Matches: 77, Mismatches: 17, Indels: 22
0.66 0.15 0.19
Matches are distributed among these distances:
7 15 0.19
8 13 0.17
9 42 0.55
11 4 0.05
12 3 0.04
ACGTcount: A:0.47, C:0.19, G:0.03, T:0.31
Consensus pattern (9 bp):
AACTTACAT
Found at i:24812029 original size:33 final size:33
Alignment explanation
Indices: 24811958--24812021 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
24811948 AACTTACATA
*
24811958 ATAACATAATAACTTACATAATACACAACTTAC
1 ATAACTTAATAACTTACATAATACACAACTTAC
* *
24811991 ATAACTTAATAACTTACATAGTACATAACTT
1 ATAACTTAATAACTTACATAATACACAACTT
24812022 TGATAACTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.48, C:0.19, G:0.02, T:0.31
Consensus pattern (33 bp):
ATAACTTAATAACTTACATAATACACAACTTAC
Found at i:24812034 original size:25 final size:24
Alignment explanation
Indices: 24811988--24812052 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 24
24811978 ATACACAACT
*
24811988 TACATAACTTAATAACTTACATAG
1 TACATAACTTAATAACTAACATAG
*
24812012 TACATAACTTTGATAACTAACATTA-
1 TACATAAC-TTAATAACTAACA-TAG
*
24812037 TACACAACTTACATAA
1 TACATAACTTA-ATAA
24812053 NNNNNNNNNN
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
24 10 0.29
25 22 0.65
26 2 0.06
ACGTcount: A:0.46, C:0.18, G:0.03, T:0.32
Consensus pattern (24 bp):
TACATAACTTAATAACTAACATAG
Found at i:24812465 original size:25 final size:26
Alignment explanation
Indices: 24812435--24812498 Score: 103
Period size: 25 Copynumber: 2.5 Consensus size: 26
24812425 CATAATAACT
24812435 TACATAACTTAATAACTCATA-TATA
1 TACATAACTTAATAACTCATATTATA
* *
24812460 TGCATAACTTAATAACTCATATTATT
1 TACATAACTTAATAACTCATATTATA
24812486 TACATAACTTAAT
1 TACATAACTTAAT
24812499 CATTGTAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
25 20 0.57
26 15 0.43
ACGTcount: A:0.44, C:0.16, G:0.02, T:0.39
Consensus pattern (26 bp):
TACATAACTTAATAACTCATATTATA
Found at i:24814148 original size:43 final size:43
Alignment explanation
Indices: 24814063--24814360 Score: 314
Period size: 43 Copynumber: 6.9 Consensus size: 43
24814053 GCGTTTTTAG
** * **
24814063 GAAAAGCGCCGCTAAAGGTCATCAGACAATAGCGGCGTTTGTGA
1 GAAAAGCGCCGCTAAAGAACATGA-ACTTTAGCGGCGTTTGTGA
**
24814107 GGGAAGCGCCGCTAAAGAACATGAACTTTAGCGGCGTTTGTGA
1 GAAAAGCGCCGCTAAAGAACATGAACTTTAGCGGCGTTTGTGA
*** *
24814150 GAAAAGCGCATTTAAAGAACATG-ACATTTAGCGGGGTTTGTGA
1 GAAAAGCGCCGCTAAAGAACATGAAC-TTTAGCGGCGTTTGTGA
* * *
24814193 -AAGAGGCGCCGCTAAAGAACATGACCTTTAGCGGCGCTTGTGA
1 GAA-AAGCGCCGCTAAAGAACATGAACTTTAGCGGCGTTTGTGA
* * *
24814236 GAGAGGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTGTGA
1 GAAAAGCGCCGCTAAAGAACATGAACTTTAGCGGCGTTTGTGA
* * * *
24814279 GAAATGCGCCGCTAAGGAACATG-ACTATTAGCAGCGTTTGTGG
1 GAAAAGCGCCGCTAAAGAACATGAACT-TTAGCGGCGTTTGTGA
* * **
24814322 GAAAAGCACCGCTAAAAAACATGTTCTTTAGCGGCGTTT
1 GAAAAGCGCCGCTAAAGAACATGAACTTTAGCGGCGTTT
24814361 ATTTCTATAA
Statistics
Matches: 214, Mismatches: 34, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
42 6 0.03
43 185 0.86
44 23 0.11
ACGTcount: A:0.30, C:0.19, G:0.29, T:0.22
Consensus pattern (43 bp):
GAAAAGCGCCGCTAAAGAACATGAACTTTAGCGGCGTTTGTGA
Found at i:24814334 original size:129 final size:129
Alignment explanation
Indices: 24814092--24814357 Score: 349
Period size: 129 Copynumber: 2.1 Consensus size: 129
24814082 CATCAGACAA
* *
24814092 TAGCGGCGTTTGTGAGGGAAGCGCCGCTAAAGAACATGAACTTTAGCGGCGTTTGTGAGAAAAGC
1 TAGCGGCGCTTGTGAGAGAAGCGCCGCTAAAGAACATGAACTTTAGCGGCGTTTGTGAGAAAAGC
** * * * *
24814157 GCATTTAAAGAACATGACATTTAGCGGGGTTTGTGAAAGAGGCGCCGCTAAAGAACATGACCTT
66 GCAGCTAAAGAACATGACATTTAGCAGCGTTTGTGAAAGAGGCACCGCTAAAAAACATGACCTT
* * *
24814221 TAGCGGCGCTTGTGAGAGAGGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTGTGAGAAATGC
1 TAGCGGCGCTTGTGAGAGAAGCGCCGCTAAAGAACATGAACTTTAGCGGCGTTTGTGAGAAAAGC
* * **
24814286 GCCGCTAAGGAACATGAC-TATTAGCAGCGTTTGTGGGAAA-A-GCACCGCTAAAAAACATGTTC
66 GCAGCTAAAGAACATGACAT-TTAGCAGCGTTTGT--GAAAGAGGCACCGCTAAAAAACATGACC
24814348 TT
128 TT
24814350 TAGCGGCG
1 TAGCGGCG
24814358 TTTATTTCTA
Statistics
Matches: 119, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
128 1 0.01
129 113 0.95
130 1 0.01
131 4 0.03
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.22
Consensus pattern (129 bp):
TAGCGGCGCTTGTGAGAGAAGCGCCGCTAAAGAACATGAACTTTAGCGGCGTTTGTGAGAAAAGC
GCAGCTAAAGAACATGACATTTAGCAGCGTTTGTGAAAGAGGCACCGCTAAAAAACATGACCTT
Found at i:24817384 original size:26 final size:26
Alignment explanation
Indices: 24817355--24817404 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
24817345 TGAGAATAGC
24817355 TTTTAAAAAATACTGTGAAAAAATAA
1 TTTTAAAAAATACTGTGAAAAAATAA
* * *
24817381 TTTTGAAAAATACTTTTAAAAAAT
1 TTTTAAAAAATACTGTGAAAAAAT
24817405 TTAGTTTAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.54, C:0.04, G:0.06, T:0.36
Consensus pattern (26 bp):
TTTTAAAAAATACTGTGAAAAAATAA
Found at i:24817389 original size:13 final size:13
Alignment explanation
Indices: 24817355--24817404 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
24817345 TGAGAATAGC
*
24817355 TTTTAAAAAATAC
1 TTTTAAAAAATAA
* *
24817368 TGTGAAAAAATAA
1 TTTTAAAAAATAA
* *
24817381 TTTTGAAAAATAC
1 TTTTAAAAAATAA
24817394 TTTTAAAAAAT
1 TTTTAAAAAAT
24817405 TTAGTTTAAG
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.54, C:0.04, G:0.06, T:0.36
Consensus pattern (13 bp):
TTTTAAAAAATAA
Found at i:24820387 original size:24 final size:25
Alignment explanation
Indices: 24820360--24820407 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
24820350 ATAGGAAAGT
24820360 TTAAACAACATAAAA-GAAAAAAAA
1 TTAAACAACATAAAACGAAAAAAAA
** *
24820384 TTAAATTACTTAAAACGAAAAAAA
1 TTAAACAACATAAAACGAAAAAAA
24820408 TATGGGAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.69, C:0.08, G:0.04, T:0.19
Consensus pattern (25 bp):
TTAAACAACATAAAACGAAAAAAAA
Found at i:24821729 original size:8 final size:9
Alignment explanation
Indices: 24821706--24821732 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
24821696 ACAATATGAA
24821706 ATAAAAATT
1 ATAAAAATT
24821715 ATAAAAATT
1 ATAAAAATT
24821724 ATAAAAATT
1 ATAAAAATT
24821733 TTTAGAAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (9 bp):
ATAAAAATT
Found at i:24824974 original size:17 final size:18
Alignment explanation
Indices: 24824948--24824981 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
24824938 CTAATGAACA
*
24824948 AATAATCAAT-CAATACC
1 AATAAGCAATACAATACC
24824965 AATAAGCAATACAATAC
1 AATAAGCAATACAATAC
24824982 ACATGAGGGC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.56, C:0.21, G:0.03, T:0.21
Consensus pattern (18 bp):
AATAAGCAATACAATACC
Found at i:24825444 original size:3 final size:3
Alignment explanation
Indices: 24825436--24825482 Score: 51
Period size: 3 Copynumber: 15.3 Consensus size: 3
24825426 ATAATCAAAT
* *
24825436 ATA ATA AT- ATCA ATA ATA ATA AGA GTA ATA ATTA ATA ATA ATA ATA
1 ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA
24825482 A
1 A
24825483 ATTAATTAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
2 2 0.05
3 30 0.81
4 5 0.14
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:24825502 original size:21 final size:21
Alignment explanation
Indices: 24825464--24825503 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
24825454 ATAAGAGTAA
* *
24825464 TAATTAATAATAATAATAAAT
1 TAATTAATAACAAAAATAAAT
*
24825485 TAATTAATAGCAAAAATAA
1 TAATTAATAACAAAAATAA
24825504 CAAACAGGAC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (21 bp):
TAATTAATAACAAAAATAAAT
Found at i:24827033 original size:45 final size:42
Alignment explanation
Indices: 24826960--24827078 Score: 134
Period size: 41 Copynumber: 2.8 Consensus size: 42
24826950 TCTGTAACCC
* *
24826960 GTCTTCAATCTGCTCCACTGTAATTTCAGGGAAGTGAGATCTGCT
1 GTCTTCAATCTGCTCCACTGCAACTTCAGGG-AG-GAGA-CTGCT
* *
24827005 GTCTTCAGTCTGCTCCATTGCAACTTCAGGG-GGAGACTGCT
1 GTCTTCAATCTGCTCCACTGCAACTTCAGGGAGGAGACTGCT
* *
24827046 GTTTTTAAT-TCGCTCCACTGCAACTTCAGGGAG
1 GTCTTCAATCT-GCTCCACTGCAACTTCAGGGAG
24827079 ATAGAATTGT
Statistics
Matches: 64, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
40 1 0.02
41 30 0.47
42 5 0.08
43 1 0.02
45 27 0.42
ACGTcount: A:0.20, C:0.24, G:0.24, T:0.32
Consensus pattern (42 bp):
GTCTTCAATCTGCTCCACTGCAACTTCAGGGAGGAGACTGCT
Found at i:24827157 original size:41 final size:43
Alignment explanation
Indices: 24827057--24827158 Score: 122
Period size: 44 Copynumber: 2.4 Consensus size: 43
24827047 TTTTTAATTC
*
24827057 GCTCCACTGCAACTTCAGGGAGATAGAATTGTAGGATGTAATAT
1 GCTCCACTGCAACTTCAGGGAGATAGAATTGTAGCATG-AATAT
*
24827101 GCTCCACTGCAACTTCAGGGAGATA-AGATT-T-GCCATG-ATTT
1 GCTCCACTGCAACTTCAGGGAGATAGA-ATTGTAG-CATGAATAT
*
24827142 GCTCTACTGCAACTTCA
1 GCTCCACTGCAACTTCA
24827159 TAGACATAAG
Statistics
Matches: 53, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
41 19 0.36
42 1 0.02
43 5 0.09
44 28 0.53
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (43 bp):
GCTCCACTGCAACTTCAGGGAGATAGAATTGTAGCATGAATAT
Found at i:24827350 original size:223 final size:222
Alignment explanation
Indices: 24826876--24827532 Score: 755
Period size: 223 Copynumber: 3.0 Consensus size: 222
24826866 ACTTGATTTC
* * *
24826876 AATTTGTCCCGCTGCAACTTCAGGGAGATAAGATTCACTATGATCTGCTCTACTGCAACTTCAGA
1 AATTTGTTCCGCTGCAACTTCAGGGAGATAAGATTCGCCATGATCTGCTCTACTGCAACTTCAGA
* *** * * ** * *
24826941 GAGATAAGATCTGTAACCCGT-CTTCAATCTGCTCCACTGTAATTTCAGGGAAGTGAGA-TCTGC
66 GAGATAAGATCTGTGATTTGTACTTTAATCTGTTCCACTACAATTTCAGGGAAATAAGATTC-GC
* * * * * * * * * *
24827004 TGTCTTCAGTCTGCTCCATTGCAACTTCAGGGGGAGACTGCTGT--TTTTAATTCGCTCCACTGC
130 TATCTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAATACT-TCACTTCAATCCGCTCCACTGC
* *
24827067 AACTTCAGGGAGATAGAATTGTAGGATGT
194 AACTTCAGGGAGATAGGATTATAGGATGT
* * * * * *
24827096 AATATGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATGATTTGCTCTACTGCAACTTCATA
1 AATTTGTTCCGCTGCAACTTCAGGGAGATAAGATTCGCCATGATCTGCTCTACTGCAACTTCAGA
* * * *
24827161 GACATAAGATCTGTGATTTGTAACTTTAATTTATTCCACTACAACTTCAGGGAAATAAGATTCGC
66 GAGATAAGATCTGTGATTTGT-ACTTTAATCTGTTCCACTACAATTTCAGGGAAATAAGATTCGC
* * *
24827226 TATCTTTAATCTGCTCCACTGCAACTTCAGGAAGATAATACTTCACTTCAATCCGCTCCATTGCA
130 TATCTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAATACTTCACTTCAATCCGCTCCACTGCA
* * *
24827291 ACTTCAGGGAGATAGGATTATTGGCTTT
195 ACTTCAGGGAGATAGGATTATAGGATGT
* * * * *
24827319 AATTTGTTCCGGTGCAAATTCAGGGAGATAAGATTCGCCATGATCTGCTCTATTGCAATTTTAGA
1 AATTTGTTCCGCTGCAACTTCAGGGAGATAAGATTCGCCATGATCTGCTCTACTGCAACTTCAGA
* * * *
24827384 GAGATAAGATCTGTGATTTATAGCTTTAATCTGTTTCACTACAATTTTAGGGAAATAAGATTCGT
66 GAGATAAGATCTGTGATTTGTA-CTTTAATCTGTTCCACTACAATTTCAGGGAAATAAGATTCGC
* * * *
24827449 TATCTTTAGTCTACTCCACTACAACTTCAGGGAGATAAAACTTCACTTCAATCCACTCCACTGCA
130 TATCTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAATACTTCACTTCAATCCGCTCCACTGCA
*
24827514 ACTTCAGGGAGATAAGATT
195 ACTTCAGGGAGATAGGATT
24827533 CGCAATGATC
Statistics
Matches: 363, Mismatches: 68, Indels: 9
0.82 0.15 0.02
Matches are distributed among these distances:
220 72 0.20
221 1 0.00
222 64 0.18
223 226 0.62
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (222 bp):
AATTTGTTCCGCTGCAACTTCAGGGAGATAAGATTCGCCATGATCTGCTCTACTGCAACTTCAGA
GAGATAAGATCTGTGATTTGTACTTTAATCTGTTCCACTACAATTTCAGGGAAATAAGATTCGCT
ATCTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAATACTTCACTTCAATCCGCTCCACTGCAA
CTTCAGGGAGATAGGATTATAGGATGT
Found at i:24827532 original size:179 final size:179
Alignment explanation
Indices: 24827331--24827711 Score: 602
Period size: 179 Copynumber: 2.1 Consensus size: 179
24827321 TTTGTTCCGG
* * * * *
24827331 TGCAAATTCAGGGAGATAAGATTCGCCATGATCTGCTCTATTGCAATTTTAGAGAGATAAGATCT
1 TGCAACTTCAGGGAGATAAGATTCGCAATGATCTGCTCTATTGCAACTTCAGAGAGATAAGATAT
* * * * * *
24827396 GTGATTTATAGCTTTAATCTGTTTCACTACAATTTTAGGGAAATAAGATTCGTTATCTTTAGTCT
66 GTGATTTATAGCTTTAATCTATTCCACTACAATTTCAAGGAAATAAGATTCGCTATCTTCAGTCT
24827461 ACTCCACTACAACTTCAGGGAGATAAAACTTCACTTCAATC-CACTCCAC
131 ACTCCACTACAACTTCAGGGAGATAAAACTTCACTTCAATCTCA-TCCAC
24827510 TGCAACTTCAGGGAGATAAGATTCGCAATGATCTGCTCTATTGCAACTTCAGAGAGATAAGATAT
1 TGCAACTTCAGGGAGATAAGATTCGCAATGATCTGCTCTATTGCAACTTCAGAGAGATAAGATAT
*
24827575 GTGATTTATAGCTTTAATCTATTCCACTGCAATTTCAAGGAAATAAGATTCGCTATCTTCAGTCT
66 GTGATTTATAGCTTTAATCTATTCCACTACAATTTCAAGGAAATAAGATTCGCTATCTTCAGTCT
* * *
24827640 ACTCCACTGCAACTTCAGGGAGATAAGACTTCACTTCAATCTGATCCAC
131 ACTCCACTACAACTTCAGGGAGATAAAACTTCACTTCAATCTCATCCAC
*
24827689 TGCAACTTCAGGGAGATAGGATT
1 TGCAACTTCAGGGAGATAAGATT
24827712 ATTGGCTTTA
Statistics
Matches: 185, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
179 184 0.99
180 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32
Consensus pattern (179 bp):
TGCAACTTCAGGGAGATAAGATTCGCAATGATCTGCTCTATTGCAACTTCAGAGAGATAAGATAT
GTGATTTATAGCTTTAATCTATTCCACTACAATTTCAAGGAAATAAGATTCGCTATCTTCAGTCT
ACTCCACTACAACTTCAGGGAGATAAAACTTCACTTCAATCTCATCCAC
Found at i:24827581 original size:402 final size:402
Alignment explanation
Indices: 24827102--24827934 Score: 1265
Period size: 402 Copynumber: 2.1 Consensus size: 402
24827092 ATGTAATATG
* * * *
24827102 CTCCACTGCAACTTCAGGGAGATAAGATTTGCCATGATTTGCTCTACTGCAACTTCATAGACATA
1 CTCCACTGCAACTTCAGGGAGATAAGATTCGCAATGATCTGCTCTACTGCAACTTCAGAGACATA
* * * *
24827167 AGATCTGTGATTTGTAACTTTAATTTATTCCACTACAACTTCAGGGAAATAAGATTCGCTATCTT
66 AGATATGTGATTTATAACTTTAATCTATTCCACTACAACTTCAAGGAAATAAGATTCGCTATCTT
* * * * *
24827232 TAATCTGCTCCACTGCAACTTCAGGAAGATAATACTTCACTTCAATCCGCTCCATTGCAACTTCA
131 CAATCTACTCCACTGCAACTTCAGGAAGATAAGACTTCACTTCAATCCGATCCACTGCAACTTCA
* * **
24827297 GGGAGATAGGATTATTGGCTTTAATTTGTTCCGGTGCAAATTCAGGGAGATAAGATTCGCCATGA
196 GGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAAATTCAGGGAGATAAGATTCGCCATGA
* * *
24827362 TCTGCTCTATTGCAATTTTAGAGAGATAAGATCTGTGATTTATAGCTTTAATCTGTT-TCACTAC
261 TCTGCTCTACTACAACTTTAGAGAGATAAGATCTGTGATTTATAGCTTTAATCTGTTCT-ACTAC
* ** *
24827426 AATTTTAGGGAAATAAGATTC-GTTATCTTTAGTCTACTCCACTACAACTTCAGGGAGATAAAAC
325 AATTTCAAAGAAATAAGATTCAG-TATCTTCAGTCTACTCCACTACAACTTCAGGGAGATAAAAC
24827490 TTCACTTCAATCCA
389 TTCACTTCAATCCA
* *
24827504 CTCCACTGCAACTTCAGGGAGATAAGATTCGCAATGATCTGCTCTATTGCAACTTCAGAGAGATA
1 CTCCACTGCAACTTCAGGGAGATAAGATTCGCAATGATCTGCTCTACTGCAACTTCAGAGACATA
* * *
24827569 AGATATGTGATTTATAGCTTTAATCTATTCCACTGCAATTTCAAGGAAATAAGATTCGCTATCTT
66 AGATATGTGATTTATAACTTTAATCTATTCCACTACAACTTCAAGGAAATAAGATTCGCTATCTT
* * *
24827634 CAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTTCACTTCAATCTGATCCACTGCAACTTCA
131 CAATCTACTCCACTGCAACTTCAGGAAGATAAGACTTCACTTCAATCCGATCCACTGCAACTTCA
* *
24827699 GGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGTAACTTCAGGGAGATAAGATTCGCCATGA
196 GGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAAATTCAGGGAGATAAGATTCGCCATGA
* *
24827764 TTTGCTCTACTACAACTTTAGAGAGATAAGATCTGTGATTTATAGCTTTAATCTGTTCTACTGCA
261 TCTGCTCTACTACAACTTTAGAGAGATAAGATCTGTGATTTATAGCTTTAATCTGTTCTACTACA
* * *
24827829 ATTTCAAAGAAATAAGATTCAGTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTT
326 ATTTCAAAGAAATAAGATTCAGTATCTTCAGTCTACTCCACTACAACTTCAGGGAGATAAAACTT
24827894 CACTTCAATCCA
391 CACTTCAATCCA
* *
24827906 CTCTACTGCAACTTCAGGGAGATAGGATT
1 CTCCACTGCAACTTCAGGGAGATAAGATT
24827935 ATTGGCTTTA
Statistics
Matches: 388, Mismatches: 41, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
402 386 0.99
403 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (402 bp):
CTCCACTGCAACTTCAGGGAGATAAGATTCGCAATGATCTGCTCTACTGCAACTTCAGAGACATA
AGATATGTGATTTATAACTTTAATCTATTCCACTACAACTTCAAGGAAATAAGATTCGCTATCTT
CAATCTACTCCACTGCAACTTCAGGAAGATAAGACTTCACTTCAATCCGATCCACTGCAACTTCA
GGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAAATTCAGGGAGATAAGATTCGCCATGA
TCTGCTCTACTACAACTTTAGAGAGATAAGATCTGTGATTTATAGCTTTAATCTGTTCTACTACA
ATTTCAAAGAAATAAGATTCAGTATCTTCAGTCTACTCCACTACAACTTCAGGGAGATAAAACTT
CACTTCAATCCA
Found at i:24827733 original size:223 final size:222
Alignment explanation
Indices: 24827504--24828207 Score: 1045
Period size: 223 Copynumber: 3.2 Consensus size: 222
24827494 CTTCAATCCA
* * *
24827504 CTCCACTGCAACTTCAGGGAGATAAGATTCGCAATGATCTGCTCTATTGCAACTTCAGAGAGATA
1 CTCCACTACAACTTCAGGGAGATAAGATTCGCCATGATCTGCTCTAATGCAACTTCAGAGAGATA
24827569 AGATATGTGATTTATAGCTTTAATCTATTCCACTGCAATTTCAAGGAAATAAGATTCGCTATCTT
66 AGATATGTGATTTATAGCTTTAATCTATTCCACTGCAATTTCAAGGAAATAAGATTCGCTATCTT
24827634 CAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTTCACTTCAATCTGATCCACTGCAACTTCA
131 CAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTTCACTTCAATC-GATCCACTGCAACTTCA
24827699 GGGAGATAGGATTATTGGCTTTAATCTG
195 GGGAGATAGGATTATTGGCTTTAATCTG
** * * * *
24827727 CTCCACTGTAACTTCAGGGAGATAAGATTCGCCATGATTTGCTCTACTACAACTTTAGAGAGATA
1 CTCCACTACAACTTCAGGGAGATAAGATTCGCCATGATCTGCTCTAATGCAACTTCAGAGAGATA
* * * *
24827792 AGATCTGTGATTTATAGCTTTAATCTGTTCTACTGCAATTTCAAAGAAATAAGATTCAG-TATCT
66 AGATATGTGATTTATAGCTTTAATCTATTCCACTGCAATTTCAAGGAAATAAGATTC-GCTATCT
* * *
24827856 TCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTCACTTCAATCCACTCTACTGCAACTTC
130 TCAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTTCACTTCAATCGA-TCCACTGCAACTTC
24827921 AGGGAGATAGGATTATTGGCTTTAATCTG
194 AGGGAGATAGGATTATTGGCTTTAATCTG
* * *
24827950 CTCCACTACAACTTTAGGGAGATAAGATTCACCATGATCTGTTCTAATGCAACTTCAGAGAGATA
1 CTCCACTACAACTTCAGGGAGATAAGATTCGCCATGATCTGCTCTAATGCAACTTCAGAGAGATA
* * * *
24828015 AGATTTGTGATTTATAGCTTTAATCTATTTCATTGCAACTTC-AGGAAAATAAGATTCGCTATCT
66 AGATATGTGATTTATAGCTTTAATCTATTCCACTGCAATTTCAAGG-AAATAAGATTCGCTATCT
* * * * * * **
24828079 TTAGTCTACTCCATTGCAACTTTAGGGAGATAATACTTCACTTCAATCCGCTTCACTAAAACTTC
130 TCAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTTCACTTCAAT-CGATCCACTGCAACTTC
*
24828144 AGGGAGAT-GGAATTATTGGCTTTAATTTG
194 AGGGAGATAGG-ATTATTGGCTTTAATCTG
24828173 CTCCACTACAACTTCAGGGAGATAAGATTCGCCAT
1 CTCCACTACAACTTCAGGGAGATAAGATTCGCCAT
24828208 CTTCTTCAAT
Statistics
Matches: 432, Mismatches: 43, Indels: 12
0.89 0.09 0.02
Matches are distributed among these distances:
222 6 0.01
223 424 0.98
224 2 0.00
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.32
Consensus pattern (222 bp):
CTCCACTACAACTTCAGGGAGATAAGATTCGCCATGATCTGCTCTAATGCAACTTCAGAGAGATA
AGATATGTGATTTATAGCTTTAATCTATTCCACTGCAATTTCAAGGAAATAAGATTCGCTATCTT
CAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTTCACTTCAATCGATCCACTGCAACTTCAG
GGAGATAGGATTATTGGCTTTAATCTG
Found at i:24827740 original size:44 final size:44
Alignment explanation
Indices: 24827195--24827978 Score: 273
Period size: 42 Copynumber: 17.6 Consensus size: 44
24827185 TTTAATTTAT
* * ** *
24827195 TCCACTACAACTTCAGGGAAATAAGATT-CGCTATCTTTAATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTATTC-A-CTTCAATCTGC
* *
24827240 TCCACTGCAACTTCAGGAAGAT-A-A-TACTTCACTTCAATCCGC
1 TCCACTGCAACTTCAGGGAGATAAGATTA-TTCACTTCAATCTGC
* * ** * * *
24827282 TCCATTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATTTGT
1 TCCACTGCAACTTCAGGGAGATAAGATTATTCACTTCAATCTGC
** * ** * *
24827326 TCCGGTGCAAATTCAGGGAGATAAGATT-CGC-CAT-GATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTATTCACTTCAATCTGC
* * * * * * * *
24827367 TCTATTGCAATTTTAGAGAGATAAGATCTGTGATTTATAGCTTTAATCTGT
1 TCCACTGCAACTTCAGGGAGATAAGA--T-T-A-TT-CA-CTTCAATCTGC
* * * * * * * * *
24827418 TTCACTACAATTTTAGGGAAATAAGATTCGTT-ATCTTTAGTCTAC
1 TCCACTGCAACTTCAGGGAGATAAGATT-ATTCA-CTTCAATCTGC
* **
24827463 TCCACTACAACTTCAGGGAGATAA-A--ACTTCACTTCAATCCAC
1 TCCACTGCAACTTCAGGGAGATAAGATTA-TTCACTTCAATCTGC
** * *
24827505 TCCACTGCAACTTCAGGGAGATAAGATT-CGCA-AT-GATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTATTCACTTCAATCTGC
* * * * * **
24827546 TCTATTGCAACTTCAGAGAGATAAGATATGTGATTTATAGCTTTAATCTAT
1 TCCACTGCAACTTCAGGGAGATAAG--AT-T-A-TT-CA-CTTCAATCTGC
* * * ** * *
24827597 TCCACTGCAATTTCAAGGAAATAAGATT-CGCTATCTTCAGTCTAC
1 TCCACTGCAACTTCAGGGAGATAAGATTATTC-A-CTTCAATCTGC
* *
24827642 TCCACTGCAACTTCAGGGAGATAAGA--CTTCACTTCAATCTGA
1 TCCACTGCAACTTCAGGGAGATAAGATTATTCACTTCAATCTGC
* ** *
24827684 TCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTATTCACTTCAATCTGC
* ** * * *
24827728 TCCACTGTAACTTCAGGGAGATAAGATT-CGC-CAT-GATTTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTATTCACTTCAATCTGC
* * * * * * *
24827769 TCTACTACAACTTTAGAGAGATAAGATCTGTGATTTATAGCTTTAATCTGT
1 TCCACTGCAACTTCAGGGAGATAAGA--T-T-A-TT-CA-CTTCAATCTGC
* * ** * * *
24827820 TCTACTGCAATTTCAAAGAAATAAGATTCAGT-ATCTTCAGTCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATT-ATTCA-CTTCAATCTGC
* **
24827865 TCCACTGCAACTTCAGGGAGATAAGA--CTTCACTTCAATCCAC
1 TCCACTGCAACTTCAGGGAGATAAGATTATTCACTTCAATCTGC
* * ** *
24827907 TCTACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTATTCACTTCAATCTGC
* *
24827951 TCCACTACAACTTTAGGGAGATAAGATT
1 TCCACTGCAACTTCAGGGAGATAAGATT
24827979 CACCATGATC
Statistics
Matches: 536, Mismatches: 156, Indels: 95
0.68 0.20 0.12
Matches are distributed among these distances:
41 76 0.14
42 134 0.25
43 12 0.02
44 112 0.21
45 112 0.21
47 3 0.01
48 5 0.01
49 4 0.01
50 5 0.01
51 73 0.14
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (44 bp):
TCCACTGCAACTTCAGGGAGATAAGATTATTCACTTCAATCTGC
Found at i:24828026 original size:625 final size:621
Alignment explanation
Indices: 24826887--24828151 Score: 1692
Period size: 625 Copynumber: 2.0 Consensus size: 621
24826877 ATTTGTCCCG
* *
24826887 CTGCAACTTCAGGGAGATAAGATTCACTATGATCTGCTCTACTGCAACTTCAGAGAGATAAGATC
1 CTGCAACTTCAGGGAGATAAGATTCACAATGATCTGCTCTACTGCAACTTCAGAGAGATAAGATA
* * * * * * * *
24826952 TGTAACCCGTCTTCAATCTGCTCCACTGTAATTTCAGGGAAGTGAGATCTGCTGTCTTCAGTCTG
66 TGTAACCCATCTTCAATCTACTCCACTGCAATTTCAAGGAAATAAGATCTGCTATCTTCAGTCTA
* * *** * *
24827017 CTCCATTGCAACTTCAGGGGGAGACTGCTGTTTTTAATTCGCTCCACTGCAACTTCAGGGAGATA
131 CTCCACTGCAACTTCAGGGGAAGACT-CTCACTTCAATTCGATCCACTGCAACTTCAGGGAGATA
* *
24827082 GAATTGTAGGATGTAATATGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATGATTTGCTCT
195 GAATTATAGGATGTAATATGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATGATTTGCTCT
* * * * **
24827147 ACTGCAACTTCATAGACATAAGATCTGTGATTTGTAACTTTAATTTATTCCACTACAACTTCAGG
260 ACTACAACTTCAGAGACATAAGATCTGTGATTTATAACTTTAATCTATTCCACTACAACTTCAAA
* *
24827212 GAAATAAGATTCGCTATCTTTAATCTGCTCCACTGCAACTTCAGGAAGATAATACTTCACTTCAA
325 GAAATAAGATTCGCTATCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGACTTCACTTCAA
* * * * ** *
24827277 TCCGCTCCATTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATTTGTTCCGGTGCAAATTCAG
390 TCCACTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTACAAATTCAG
* * * *
24827342 GGAGATAAGATTCGCCATGATCTGCTCTATTGCAATTTTAGAGAGATAAGATCTGTGATTTATAG
455 GGAGATAAGATTCACCATGATCTGCTCTAATGCAACTTCAGAGAGATAAGATCTGTGATTTATAG
* * * * *
24827407 CTTTAATCTGTTTCACTACAATTTTAGGGAAATAAGATTCGTTATCTTTAGTCTACTCCACTACA
520 CTTTAATCTATTTCACTACAACTTCAGGAAAATAAGATTCGCTATCTTTAGTCTACTCCACTACA
24827472 ACTTCAGGGAGATAAAACTTCACTTCAATCCACTCCA
585 ACTTCAGGGAGATAAAACTTCACTTCAATCCACTCCA
* *
24827509 CTGCAACTTCAGGGAGATAAGATTCGCAATGATCTGCTCTATTGCAACTTCAGAGAGATAAGATA
1 CTGCAACTTCAGGGAGATAAGATTCACAATGATCTGCTCTACTGCAACTTCAGAGAGATAAGATA
* *** * *
24827574 TGTGATTTATAGCTTTAATCTATTCCACTGCAATTTCAAGGAAATAAGAT-TCGCTATCTTCAGT
66 TGTAACCCAT--CTTCAATCTACTCCACTGCAATTTCAAGGAAATAAGATCT-GCTATCTTCAGT
24827638 CTACTCCACTGCAACTTCAGGGAGATAAGACT-TCACTTCAA-TCTGATCCACTGCAACTTCAGG
128 CTACTCCACTGCAACTTCAGGG-G--AAGACTCTCACTTCAATTC-GATCCACTGCAACTTCAGG
* * * * * *
24827701 GAGATAGGATTATTGGCTTTAATCTGCTCCACTGTAACTTCAGGGAGATAAGATTCGCCATGATT
189 GAGATAGAATTATAGGATGTAATATGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATGATT
* * * * * * *
24827766 TGCTCTACTACAACTTTAGAGAGATAAGATCTGTGATTTATAGCTTTAATCTGTTCTACTGCAAT
254 TGCTCTACTACAACTTCAGAGACATAAGATCTGTGATTTATAACTTTAATCTATTCCACTACAAC
* *
24827831 TTCAAAGAAATAAGATTCAG-TATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTC
319 TTCAAAGAAATAAGATTC-GCTATCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGACTTC
*
24827895 ACTTCAATCCACTCTACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTACA
383 ACTTCAATCCACTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTACA
* * * *
24827960 ACTTTAGGGAGATAAGATTCACCATGATCTGTTCTAATGCAACTTCAGAGAGATAAGATTTGTGA
448 AATTCAGGGAGATAAGATTCACCATGATCTGCTCTAATGCAACTTCAGAGAGATAAGATCTGTGA
* *
24828025 TTTATAGCTTTAATCTATTTCATTGCAACTTCAGGAAAATAAGATTCGCTATCTTTAGTCTACTC
513 TTTATAGCTTTAATCTATTTCACTACAACTTCAGGAAAATAAGATTCGCTATCTTTAGTCTACTC
* * * * * *
24828090 CATTGCAACTTTAGGGAGATAATACTTCACTTCAATCCGCTTCA
578 CACTACAACTTCAGGGAGATAAAACTTCACTTCAATCCACTCCA
**
24828134 CTAAAACTTCAGGGAGAT
1 CTGCAACTTCAGGGAGAT
24828152 GGAATTATTG
Statistics
Matches: 554, Mismatches: 81, Indels: 13
0.85 0.12 0.02
Matches are distributed among these distances:
622 66 0.12
623 1 0.00
624 64 0.12
625 417 0.75
626 1 0.00
627 5 0.01
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (621 bp):
CTGCAACTTCAGGGAGATAAGATTCACAATGATCTGCTCTACTGCAACTTCAGAGAGATAAGATA
TGTAACCCATCTTCAATCTACTCCACTGCAATTTCAAGGAAATAAGATCTGCTATCTTCAGTCTA
CTCCACTGCAACTTCAGGGGAAGACTCTCACTTCAATTCGATCCACTGCAACTTCAGGGAGATAG
AATTATAGGATGTAATATGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATGATTTGCTCTA
CTACAACTTCAGAGACATAAGATCTGTGATTTATAACTTTAATCTATTCCACTACAACTTCAAAG
AAATAAGATTCGCTATCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGACTTCACTTCAAT
CCACTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTACAAATTCAGG
GAGATAAGATTCACCATGATCTGCTCTAATGCAACTTCAGAGAGATAAGATCTGTGATTTATAGC
TTTAATCTATTTCACTACAACTTCAGGAAAATAAGATTCGCTATCTTTAGTCTACTCCACTACAA
CTTCAGGGAGATAAAACTTCACTTCAATCCACTCCA
Found at i:24828144 original size:402 final size:396
Alignment explanation
Indices: 24827102--24828151 Score: 965
Period size: 402 Copynumber: 2.6 Consensus size: 396
24827092 ATGTAATATG
* * * * * * * *
24827102 CTCCACTGCAACTTCAGGGAGATAAGATTTGCCATGATTTGCTCTACTGCAACTTCATAGACATA
1 CTCCACTGCAACTTCAGGGAGATAAGATTCGCAATAATCTGCTCCACTACAACTTCAGAGAGATA
* * *** * * * * *
24827167 AGATCTGTGATTTGTAACTTTAATTTATTCCACTACAACTTCAGGGAAATAAGATTCGCTATCTT
66 AGA-ATGTCATCCAT-A--GT-ATCTATTCCAATGCAACTTCAAGGAAATAAGATTCGCTATCTT
* * * * * * *
24827232 TAATCTGCTCCACTGCAACTTCAGGAAGATAATACTTCACTTCAATCCGCTCCATTGCAACTTCA
126 CAATCTACTCCACTGCAACTTCAGGAAAATAAGACTTCACTTCAATCTGATCCACTGCAACTTCA
** * ** * ** *
24827297 GGGAGATAGGATTATTGGCTTTAATTTGTTCCGGTGCAAA-TTCAGGGAGATAAGATTCGCCATG
191 GGGAGATA-GATTATTCACTTCAATCCGCTCCACT-AAAACTTCAGGGAGATAAGATTCGCCATG
* * *
24827361 ATCTGCTCTATTGCAATTTTAGAGAGATAAGATCTGTGATTTATAGCTTTAATCTGTTTCACTAC
254 ATCTGCTCTACTACAACTTTAGAGAGATAAGATCTGTGATTTATAGCTTTAATCTGTTTCACTAC
* ** *
24827426 AATTTTAGGGAAATAAGATTCGTTATCTTTAGTCTACTCCACTACAACTTCAGGGAGATAAAACT
319 AATTTCAAAGAAATAAGATTCGTTATCTTCAGTCTACTCCACTACAACTTCAGGGAGATAAAACT
24827491 TCACTTCAATCCA
384 TCACTTCAATCCA
* * * *
24827504 CTCCACTGCAACTTCAGGGAGATAAGATTCGCAATGATCTGCTCTATTGCAACTTCAGAGAGATA
1 CTCCACTGCAACTTCAGGGAGATAAGATTCGCAATAATCTGCTCCACTACAACTTCAGAGAGATA
* ** * *
24827569 AGATATGTGATTTATAGCTTTAATCTATTCCACTGCAATTTCAAGGAAATAAGATTCGCTATCTT
66 AGA-ATGTCATCCATAG---T-ATCTATTCCAATGCAACTTCAAGGAAATAAGATTCGCTATCTT
* * *
24827634 CAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTTCACTTCAATCTGATCCACTGCAACTTCA
126 CAATCTACTCCACTGCAACTTCAGGAAAATAAGACTTCACTTCAATCTGATCCACTGCAACTTCA
** * * **
24827699 GGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGTAACTTCAGGGAGATAAGATTCGCCATGA
191 GGGAGATA-GATTATTCACTTCAATCCGCTCCACTAAAACTTCAGGGAGATAAGATTCGCCATGA
* *
24827764 TTTGCTCTACTACAACTTTAGAGAGATAAGATCTGTGATTTATAGCTTTAATCTG-TTCTACTGC
255 TCTGCTCTACTACAACTTTAGAGAGATAAGATCTGTGATTTATAGCTTTAATCTGTTTC-ACTAC
* * *
24827828 AATTTCAAAGAAATAAGATTCAG-TATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGAC
319 AATTTCAAAGAAATAAGATTC-GTTATCTTCAGTCTACTCCACTACAACTTCAGGGAGATAAAAC
24827892 TTCACTTCAATCCA
383 TTCACTTCAATCCA
* * * ** * *
24827906 CTCTACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTACAACTTTAGGGAG
1 CTCCACTGCAACTTCAGGGAGATA--A-GATTCGCAATAATCTGCTCCACTACAACTTCAGAGAG
* * * * *
24827971 ATAAG-AT-TCA-CCAT-G-ATCTGTTCTAATGCAACTTC-AGAGAGATAAGATTTGTGATTTAT
63 ATAAGAATGTCATCCATAGTATCTATTCCAATGCAACTTCAAG-GAAATAAGA-TT-CG--CTAT
* * * * * * *
24828030 AGCTTTAATCTATTTCATTGCAACTTCAGGAAAATAAGA-TTCGCTATCTTTAGTCT-ACTCCAT
123 --CTTCAATCTACTCCACTGCAACTTCAGGAAAATAAGACTT--C-A-CTTCAATCTGA-TCCAC
* *
24828093 TGCAACTTTAGGGAGATA-A-TACTTCACTTCAATCCGCTTCACTAAAACTTCAGGGAGAT
181 TGCAACTTCAGGGAGATAGATTA-TTCACTTCAATCCGCTCCACTAAAACTTCAGGGAGAT
24828152 GGAATTATTG
Statistics
Matches: 548, Mismatches: 78, Indels: 44
0.82 0.12 0.07
Matches are distributed among these distances:
394 2 0.00
395 24 0.04
396 2 0.00
397 1 0.00
399 3 0.01
400 3 0.01
401 40 0.07
402 407 0.74
403 5 0.01
404 29 0.05
405 32 0.06
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (396 bp):
CTCCACTGCAACTTCAGGGAGATAAGATTCGCAATAATCTGCTCCACTACAACTTCAGAGAGATA
AGAATGTCATCCATAGTATCTATTCCAATGCAACTTCAAGGAAATAAGATTCGCTATCTTCAATC
TACTCCACTGCAACTTCAGGAAAATAAGACTTCACTTCAATCTGATCCACTGCAACTTCAGGGAG
ATAGATTATTCACTTCAATCCGCTCCACTAAAACTTCAGGGAGATAAGATTCGCCATGATCTGCT
CTACTACAACTTTAGAGAGATAAGATCTGTGATTTATAGCTTTAATCTGTTTCACTACAATTTCA
AAGAAATAAGATTCGTTATCTTCAGTCTACTCCACTACAACTTCAGGGAGATAAAACTTCACTTC
AATCCA
Found at i:24829488 original size:49 final size:45
Alignment explanation
Indices: 24829429--24829555 Score: 164
Period size: 45 Copynumber: 2.7 Consensus size: 45
24829419 CCCCTTTCGT
* *
24829429 CTCAAGGCGCCCTTTGCGGGTTTTCACCTTGGCCTCTTTTTTTTTAGGA
1 CTCAAAGCGCCCTTTGCGGGTTTTCACCTTGG----TTTCTTTTTAGGA
* *
24829478 CTCAAAGCGCCCTTTGTGAGTTTTCACCTTGGTTTCTTTTTAGGA
1 CTCAAAGCGCCCTTTGCGGGTTTTCACCTTGGTTTCTTTTTAGGA
* *
24829523 CTTAAAGCACCCTTTGCGGGTTTTCACCTTGGT
1 CTCAAAGCGCCCTTTGCGGGTTTTCACCTTGGT
24829556 CCCTTCTCCT
Statistics
Matches: 70, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
45 41 0.59
49 29 0.41
ACGTcount: A:0.13, C:0.25, G:0.21, T:0.40
Consensus pattern (45 bp):
CTCAAAGCGCCCTTTGCGGGTTTTCACCTTGGTTTCTTTTTAGGA
Found at i:24830532 original size:11 final size:11
Alignment explanation
Indices: 24830516--24830559 Score: 54
Period size: 11 Copynumber: 4.0 Consensus size: 11
24830506 GGCCTCTCCT
24830516 TTTTCTTTTCC
1 TTTTCTTTTCC
*
24830527 TTTTCTTTT-T
1 TTTTCTTTTCC
*
24830537 TTTCTCTTTTTC
1 TTT-TCTTTTCC
24830549 TTTTCTTTTCC
1 TTTTCTTTTCC
24830560 ATCATTTTCA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
10 3 0.11
11 22 0.79
12 3 0.11
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTTCTTTTCC
Found at i:24830534 original size:5 final size:5
Alignment explanation
Indices: 24830516--24830558 Score: 50
Period size: 5 Copynumber: 8.0 Consensus size: 5
24830506 GGCCTCTCCT
*
24830516 TTTTC TTTTCC TTTTC TTTTT TTTCTC TTTTTC TTTTC TTTTC
1 TTTTC TTTT-C TTTTC TTTTC TTT-TC -TTTTC TTTTC TTTTC
24830559 CATCATTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
5 22 0.67
6 8 0.24
7 3 0.09
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTTC
Found at i:24830551 original size:22 final size:21
Alignment explanation
Indices: 24830515--24830557 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
24830505 TGGCCTCTCC
24830515 TTTTTCTTTTCCTTTTCTTTT
1 TTTTTCTTTTCCTTTTCTTTT
*
24830536 TTTTCTCTTTTTCTTTTCTTTT
1 TTTT-TCTTTTCCTTTTCTTTT
24830558 CCATCATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (21 bp):
TTTTTCTTTTCCTTTTCTTTT
Found at i:24830567 original size:28 final size:25
Alignment explanation
Indices: 24830516--24830584 Score: 65
Period size: 22 Copynumber: 2.8 Consensus size: 25
24830506 GGCCTCTCCT
*
24830516 TTTTCTTTTCCTTTTCTTTT--T--
1 TTTTCTTTTTCTTTTCTTTTCATCA
24830537 TTTCTCTTTTTCTTTTCTTTTCCATCA
1 TTT-TCTTTTTCTTTTCTTTT-CATCA
*
24830564 TTTTCATTTTCATTTTCTTTT
1 TTTTCTTTTTC-TTTTCTTTT
24830585 TAAAATATAT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
21 3 0.08
22 16 0.41
25 1 0.03
26 7 0.18
27 12 0.31
ACGTcount: A:0.06, C:0.20, G:0.00, T:0.74
Consensus pattern (25 bp):
TTTTCTTTTTCTTTTCTTTTCATCA
Found at i:24830585 original size:6 final size:6
Alignment explanation
Indices: 24830514--24830585 Score: 51
Period size: 6 Copynumber: 12.0 Consensus size: 6
24830504 TTGGCCTCTC
* *
24830514 CTTTTT C-TTTT CCTTTT CTTTTT -TTTCT CTTTTT C-TTTT CTTTTCCAT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTT---T
* * *
24830562 CATTTT CATTTT CATTTT CTTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT
24830586 AAAATATATA
Statistics
Matches: 55, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
5 14 0.25
6 36 0.65
9 5 0.09
ACGTcount: A:0.06, C:0.21, G:0.00, T:0.74
Consensus pattern (6 bp):
CTTTTT
Found at i:24833509 original size:19 final size:18
Alignment explanation
Indices: 24833467--24833509 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
24833457 TCTTTTGGTG
* *
24833467 GAATTTAATGCATATGAT
1 GAATGTAATGCAAATGAT
24833485 GTAATGTAATGCAAATGCAT
1 G-AATGTAATGCAAATG-AT
24833505 GAATG
1 GAATG
24833510 CAAAAAGAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 1 0.05
19 17 0.81
20 3 0.14
ACGTcount: A:0.40, C:0.07, G:0.21, T:0.33
Consensus pattern (18 bp):
GAATGTAATGCAAATGAT
Found at i:24834865 original size:12 final size:12
Alignment explanation
Indices: 24834848--24834872 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
24834838 GATAAATCTT
24834848 TAAATATTTGTA
1 TAAATATTTGTA
24834860 TAAATATTTGTA
1 TAAATATTTGTA
24834872 T
1 T
24834873 CCCGTAAGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (12 bp):
TAAATATTTGTA
Found at i:24835433 original size:17 final size:18
Alignment explanation
Indices: 24835407--24835440 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
24835397 CTAATGAATA
*
24835407 AATAATCAAT-CAATACC
1 AATAAGCAATACAATACC
24835424 AATAAGCAATACAATAC
1 AATAAGCAATACAATAC
24835441 ACATGAGGGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.56, C:0.21, G:0.03, T:0.21
Consensus pattern (18 bp):
AATAAGCAATACAATACC
Found at i:24839773 original size:33 final size:33
Alignment explanation
Indices: 24839705--24839778 Score: 96
Period size: 33 Copynumber: 2.2 Consensus size: 33
24839695 TTCTTGATTG
*
24839705 CTTTCTTCACTCGTTTCTTTTGAAAACTCTTTTT
1 CTTT-TTCACTCGTTTCTTTTGAAAACTCTATTT
* *
24839739 CTTTTTCATTCGATTTCTTTT-CAAACTCTATTT
1 CTTTTTCACTCG-TTTCTTTTGAAAACTCTATTT
24839772 CTTTTTC
1 CTTTTTC
24839779 TTTTCTTTCA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
33 24 0.67
34 12 0.33
ACGTcount: A:0.15, C:0.23, G:0.04, T:0.58
Consensus pattern (33 bp):
CTTTTTCACTCGTTTCTTTTGAAAACTCTATTT
Found at i:24839784 original size:28 final size:27
Alignment explanation
Indices: 24839752--24839838 Score: 68
Period size: 27 Copynumber: 3.1 Consensus size: 27
24839742 TTTCATTCGA
24839752 TTTCTTTTCAAACTCTATTTCTTTTTCT
1 TTTCTTTTCAAACTCT-TTTCTTTTTCT
** *
24839780 TTTC-TTTCAATTTCTTTTTCATTTTCAT
1 TTTCTTTTCAAACTC-TTTTCTTTTTC-T
*** *
24839808 TTTCTCGCCTACACTCTTTTCTTTTTCT
1 TTTCTTTTC-AAACTCTTTTCTTTTTCT
24839836 TTT
1 TTT
24839839 GCCTCACTTG
Statistics
Matches: 45, Mismatches: 10, Indels: 8
0.71 0.16 0.13
Matches are distributed among these distances:
27 17 0.38
28 14 0.31
29 11 0.24
30 3 0.07
ACGTcount: A:0.11, C:0.23, G:0.01, T:0.64
Consensus pattern (27 bp):
TTTCTTTTCAAACTCTTTTCTTTTTCT
Found at i:24846989 original size:15 final size:16
Alignment explanation
Indices: 24846963--24846992 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
24846953 ACGTGATGAA
24846963 AAATTGAAAAAAAATT
1 AAATTGAAAAAAAATT
24846979 AAATT-AAAAAAAAT
1 AAATTGAAAAAAAAT
24846993 AGGAAAAAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.23
Consensus pattern (16 bp):
AAATTGAAAAAAAATT
Found at i:24849527 original size:23 final size:23
Alignment explanation
Indices: 24849497--24849543 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
24849487 ATAAGCGGAC
24849497 TAAAATTTGTTGTTACTCTTTAT
1 TAAAATTTGTTGTTACTCTTTAT
24849520 TAAAATTTGTTGTTACTCTTTAT
1 TAAAATTTGTTGTTACTCTTTAT
24849543 T
1 T
24849544 TGAAATACTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.26, C:0.09, G:0.09, T:0.57
Consensus pattern (23 bp):
TAAAATTTGTTGTTACTCTTTAT
Found at i:24858413 original size:27 final size:27
Alignment explanation
Indices: 24858381--24858470 Score: 112
Period size: 27 Copynumber: 3.3 Consensus size: 27
24858371 AGGGGTATAA
24858381 CAGTCATTTTACCCTTCGAGGGTATTT
1 CAGTCATTTTACCCTTCGAGGGTATTT
* *
24858408 CGGTCATTTTACCCCTCGAGGGTATTT
1 CAGTCATTTTACCCTTCGAGGGTATTT
**
24858435 CTA-TCATTTTA-CCTTTTAGGGGTATTT
1 C-AGTCATTTTACCCTTCGA-GGGTATTT
24858462 CAGTCATTT
1 CAGTCATTT
24858471 AACAACCTTT
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
26 5 0.09
27 49 0.91
ACGTcount: A:0.18, C:0.21, G:0.18, T:0.43
Consensus pattern (27 bp):
CAGTCATTTTACCCTTCGAGGGTATTT
Found at i:24865060 original size:41 final size:40
Alignment explanation
Indices: 24865015--24865113 Score: 126
Period size: 41 Copynumber: 2.4 Consensus size: 40
24865005 TCAGAACACT
** *
24865015 GGCATTAAGTCTGCTAGACATAAAGTCTGAAATATTTCGCC
1 GGCATTAAG-CTGCTAGACATAAAGTCCAAAATATTTCACC
*
24865056 GGCATTAAGCTTGCTAGACGTAAAGTCCAAAATATTTCACC
1 GGCATTAAGC-TGCTAGACATAAAGTCCAAAATATTTCACC
*
24865097 GCCATTAAGCCTGCTAG
1 GGCATTAAG-CTGCTAG
24865114 GCACAGAGCC
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
40 1 0.02
41 49 0.96
42 1 0.02
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.27
Consensus pattern (40 bp):
GGCATTAAGCTGCTAGACATAAAGTCCAAAATATTTCACC
Found at i:24865511 original size:67 final size:63
Alignment explanation
Indices: 24865325--24865514 Score: 145
Period size: 67 Copynumber: 2.9 Consensus size: 63
24865315 CATGTATAAT
* * * *
24865325 TATATAT-AA-TTACTAACATTAAGTTCAGCTCAAAGAAACTTGTAGCT-TACATTCGAACCTCT
1 TATATATAAATTTA-TAACATGAAGTTCAACTCAAAG-AA-TTGTA-TTATACATTCGAACCACT
24865387 TA
62 TA
* * * * * * **
24865389 TATATATATATTTGATAACATTGCA-TTAAATTCAAAGACATTGCATCATTTATTCGAACCACAT
1 TATATATAAATTT-ATAACA-TGAAGTTCAACTCAAAGA-ATTGTATTATACATTCGAACCAC-T
24865453 ATA
62 -TA
24865456 TATATATACAATTTATAACATGAAGTTCAACTCAAAGAATTTGTATTATACATTCGAAC
1 TATATATA-AATTTATAACATGAAGTTCAACTCAAAGAA-TTGTATTATACATTCGAAC
24865515 ATAATGTTCA
Statistics
Matches: 95, Mismatches: 20, Indels: 19
0.71 0.15 0.14
Matches are distributed among these distances:
64 7 0.07
65 17 0.18
66 22 0.23
67 45 0.47
68 4 0.04
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (63 bp):
TATATATAAATTTATAACATGAAGTTCAACTCAAAGAATTGTATTATACATTCGAACCACTTA
Found at i:24865524 original size:40 final size:40
Alignment explanation
Indices: 24865472--24865559 Score: 160
Period size: 40 Copynumber: 2.2 Consensus size: 40
24865462 TACAATTTAT
24865472 AACATGAA-GTTCAACTCAAAGAATTTGTATTATACATTCG
1 AACAT-AATGTTCAACTCAAAGAATTTGTATTATACATTCG
24865512 AACATAATGTTCAACTCAAAGAATTTGTATTATACATTCG
1 AACATAATGTTCAACTCAAAGAATTTGTATTATACATTCG
24865552 AACATAAT
1 AACATAAT
24865560 CATATATTTA
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
39 2 0.04
40 45 0.96
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (40 bp):
AACATAATGTTCAACTCAAAGAATTTGTATTATACATTCG
Found at i:24873038 original size:2 final size:2
Alignment explanation
Indices: 24873031--24873056 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
24873021 AACATACATG
24873031 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
24873057 CAATCACCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:24873488 original size:41 final size:41
Alignment explanation
Indices: 24873443--24873545 Score: 170
Period size: 41 Copynumber: 2.5 Consensus size: 41
24873433 TGATTCAGAA
*
24873443 CACCGACATTAAGCCTGCTAGACATAAAGTCTGAAATATTT
1 CACCGGCATTAAGCCTGCTAGACATAAAGTCTGAAATATTT
*
24873484 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAAATATTT
1 CACCGGCATTAAGCCTGCTAGACATAAAGTCTGAAATATTT
* *
24873525 AACTGGCATTAAGCCTGCTAG
1 CACCGGCATTAAGCCTGCTAG
24873546 GCAGAGAGCC
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 58 1.00
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.26
Consensus pattern (41 bp):
CACCGGCATTAAGCCTGCTAGACATAAAGTCTGAAATATTT
Found at i:24873939 original size:63 final size:63
Alignment explanation
Indices: 24873757--24873942 Score: 171
Period size: 63 Copynumber: 2.9 Consensus size: 63
24873747 CATGTATAAT
* * * * *
24873757 TATATATAATTACTAACATTAAGTTCAGCTCAAAGAAACTTGTATCT-TACATTTGAACCTCTTA
1 TATATACAATTA-TAACATTAAGTTCAACTCAAAG-AA-TTGTAT-TATACATTCGAACCACATA
24873821 TA
62 TA
* * * * * **
24873823 TATATATATTTCATAACATTACA-TTCAATTCAAAGACATTGCATCATTTATTCGAACCACATAT
1 TATATACAATT-ATAACATTA-AGTTCAACTCAAAGA-ATTGTATTATACATTCGAACCACATAT
24873887 A
63 A
24873888 TATATACAATT-TAACATTAAGTTCAACTCAAAGAATTTGTATTATACATTCGAAC
1 TATATACAATTATAACATTAAGTTCAACTCAAAGAA-TTGTATTATACATTCGAAC
24873943 ATCATCACAT
Statistics
Matches: 97, Mismatches: 17, Indels: 15
0.75 0.13 0.12
Matches are distributed among these distances:
62 2 0.02
63 35 0.36
65 29 0.30
66 29 0.30
67 2 0.02
ACGTcount: A:0.40, C:0.17, G:0.06, T:0.37
Consensus pattern (63 bp):
TATATACAATTATAACATTAAGTTCAACTCAAAGAATTGTATTATACATTCGAACCACATATA
Found at i:24880992 original size:27 final size:27
Alignment explanation
Indices: 24880961--24881024 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 27
24880951 TTCTCTCAAT
*
24880961 GTTCGTCATATACACTATTTCTTT-AGA
1 GTTCGTCATATACACCA-TTCTTTCAGA
* **
24880988 GTTCGCCATATGTACCATTCTTTCAGA
1 GTTCGTCATATACACCATTCTTTCAGA
*
24881015 GTTCATCATA
1 GTTCGTCATA
24881025 CCATTTAGTC
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
26 6 0.20
27 24 0.80
ACGTcount: A:0.25, C:0.22, G:0.12, T:0.41
Consensus pattern (27 bp):
GTTCGTCATATACACCATTCTTTCAGA
Found at i:24881248 original size:26 final size:26
Alignment explanation
Indices: 24881213--24881274 Score: 79
Period size: 26 Copynumber: 2.4 Consensus size: 26
24881203 TTTCATTAAT
*
24881213 TGCCACAAAGCCTTACATTTTAGATA
1 TGCCACAAAGCCTTACATTTCAGATA
* *
24881239 TGCCACAAAGGCTTTCATTTCAGATA
1 TGCCACAAAGCCTTACATTTCAGATA
**
24881265 CACCACAAAG
1 TGCCACAAAG
24881275 GGTTTTGTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.35, C:0.26, G:0.13, T:0.26
Consensus pattern (26 bp):
TGCCACAAAGCCTTACATTTCAGATA
Found at i:24881337 original size:53 final size:53
Alignment explanation
Indices: 24881191--24881423 Score: 195
Period size: 53 Copynumber: 4.4 Consensus size: 53
24881181 TAGATCACCG
* * *
24881191 CAAAGGCTTCCATTTCATTAAT-TGCCACAAAGCCTTAC-ATTT--TAGATATGCCA
1 CAAAGGCTTCCATTTCA--AATACGCCACAAAGGCTT-CTGTTTCATAGAT-TGCCA
* * * * * * *
24881244 CAAAGGCTTTCATTTCAGATACACCACAAAGGGTTTTGTTTCAAATATTGCCA
1 CAAAGGCTTCCATTTCAAATACGCCACAAAGGCTTCTGTTTCATAGATTGCCA
* ** **
24881297 CAAAGACTTCCATTTCAAATACGCCATGAAGGCTTCTGTTTCATAGATTTTCA
1 CAAAGGCTTCCATTTCAAATACGCCACAAAGGCTTCTGTTTCATAGATTGCCA
* * ** * * *
24881350 TAAAGGCTTCCATTTTAAATTTGCCACAAATGCTTCCGTTTCATAGATTGCTA
1 CAAAGGCTTCCATTTCAAATACGCCACAAAGGCTTCTGTTTCATAGATTGCCA
*
24881403 CAAAGGCTTCCATTTCTAATA
1 CAAAGGCTTCCATTTCAAATA
24881424 AACTACAAAG
Statistics
Matches: 138, Mismatches: 38, Indels: 8
0.75 0.21 0.04
Matches are distributed among these distances:
51 2 0.01
52 13 0.09
53 120 0.87
54 3 0.02
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.34
Consensus pattern (53 bp):
CAAAGGCTTCCATTTCAAATACGCCACAAAGGCTTCTGTTTCATAGATTGCCA
Done.