Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008136.1 Hibiscus syriacus cultivar Beakdansim tig00110691_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1585607
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 9
Found at i:762631 original size:37 final size:37
Alignment explanation
Indices: 762590--762694 Score: 140
Period size: 37 Copynumber: 2.8 Consensus size: 37
762580 GTGCTTGTGG
*
762590 ATCCTATATTTT-GGAGTTTAAATCATAGTAGAACTCT
1 ATCCTAT-TTTTAGGAGTTTAAATCATAGTAGAACTAT
* * *
762627 ATCCTATTTTTAGGAGTTTAAATCATAGCAAAATTAT
1 ATCCTATTTTTAGGAGTTTAAATCATAGTAGAACTAT
* *
762664 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
1 ATCCTATTTTTAGGAGTTTAAATCATAGTAG
762695 GACGAAAAGG
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
36 4 0.07
37 55 0.93
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.41
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTAAATCATAGTAGAACTAT
Found at i:763058 original size:17 final size:18
Alignment explanation
Indices: 763033--763067 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
763023 TGCGGGCTAG
*
763033 ATTTTATTAT-ATTATGA
1 ATTTAATTATCATTATGA
763050 ATTTAATTATCATTATGA
1 ATTTAATTATCATTATGA
763068 CAATACTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.37, C:0.03, G:0.06, T:0.54
Consensus pattern (18 bp):
ATTTAATTATCATTATGA
Found at i:771025 original size:5 final size:5
Alignment explanation
Indices: 771015--771112 Score: 63
Period size: 5 Copynumber: 18.4 Consensus size: 5
771005 ATGTTTGAAT
* *
771015 AAGAA AAGAAAA AAGAA AAGAA ATGAAA AAGAA AA-AA ATGAA AAGAA
1 AAGAA AAG--AA AAGAA AAGAA AAG-AA AAGAA AAGAA AAGAA AAGAA
* * * * *
771062 AAGAA AATAAA AGAGAA AAGATA AAAAGA AAGAA AATAA AATAA AATAA
1 AAGAA AA-GAA A-AGAA AAGA-A AAGA-A AAGAA AAGAA AAGAA AAGAA
771111 AA
1 AA
771113 AGGGGGTTCA
Statistics
Matches: 76, Mismatches: 10, Indels: 14
0.76 0.10 0.14
Matches are distributed among these distances:
4 3 0.04
5 49 0.64
6 18 0.24
7 6 0.08
ACGTcount: A:0.79, C:0.00, G:0.14, T:0.07
Consensus pattern (5 bp):
AAGAA
Found at i:771053 original size:15 final size:14
Alignment explanation
Indices: 771024--771102 Score: 79
Period size: 15 Copynumber: 5.3 Consensus size: 14
771014 TAAGAAAAGA
771024 AAAAAGAAAAGAAAT
1 AAAAAGAAAA-AAAT
771039 GAAAAAGAAAAAAAT
1 -AAAAAGAAAAAAAT
*
771054 GAAAAGAAAAGAAA-
1 AAAAAGAAAA-AAAT
*
771068 ATAAAAGAGAAAAGAT
1 A-AAAAGA-AAAAAAT
771084 AAAAAGAAAGAAAAT
1 AAAAAGAAA-AAAAT
771099 AAAA
1 AAAA
771103 TAAAATAAAA
Statistics
Matches: 54, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
14 11 0.20
15 29 0.54
16 14 0.26
ACGTcount: A:0.78, C:0.00, G:0.15, T:0.06
Consensus pattern (14 bp):
AAAAAGAAAAAAAT
Found at i:771057 original size:25 final size:23
Alignment explanation
Indices: 771018--771097 Score: 83
Period size: 24 Copynumber: 3.4 Consensus size: 23
771008 TTTGAATAAG
*
771018 AAAAGAAAAAAGAAAAGAAATGA
1 AAAAGAAAAAAGAAAAGAAAAGA
771041 AAAAGAAAAAAATGAAAAGAAAAG-
1 AAAAG-AAAAAA-GAAAAGAAAAGA
* *
771065 AAAATAAAAGAGAAAAGATAAA-A
1 AAAAGAAAAAAGAAAAGA-AAAGA
771088 AGAAAGAAAA
1 A-AAAGAAAA
771098 TAAAATAAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 9
0.79 0.07 0.15
Matches are distributed among these distances:
22 7 0.15
23 14 0.29
24 17 0.35
25 10 0.21
ACGTcount: A:0.79, C:0.00, G:0.16, T:0.05
Consensus pattern (23 bp):
AAAAGAAAAAAGAAAAGAAAAGA
Found at i:771061 original size:30 final size:30
Alignment explanation
Indices: 771016--771102 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
771006 TGTTTGAATA
*
771016 AGAAAAGA-AAAAAGAAAAG-AAATGAAAA-
1 AGAAAAAATAAAAAGAAAAGAAAAT-AAAAG
*
771044 AGAAAAAAATGAAAAGAAAAGAAAATAAAAG
1 AG-AAAAAATAAAAAGAAAAGAAAATAAAAG
*
771075 AGAAAAGATAAAAAG-AAAGAAAATAAAA
1 AGAAAAAATAAAAAGAAAAGAAAATAAAA
771103 TAAAATAAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
28 2 0.04
29 18 0.35
30 25 0.49
31 6 0.12
ACGTcount: A:0.78, C:0.00, G:0.16, T:0.06
Consensus pattern (30 bp):
AGAAAAAATAAAAAGAAAAGAAAATAAAAG
Found at i:771110 original size:25 final size:24
Alignment explanation
Indices: 771030--771114 Score: 73
Period size: 25 Copynumber: 3.2 Consensus size: 24
771020 AAGAAAAAAG
*
771030 AAAAGAAATGAAAA-AGAAAAAAATG
1 AAAAGAAA-GAAAATA-AAAAAAATA
771055 AAAAGAAAAGAAAATAAAAGAGAAAAGATA
1 AAAAG-AAAGAAAAT--AA-A-AAAA-ATA
771085 AAAAGAAAGAAAATAAAATAAAATA
1 AAAAGAAAGAAAATAAAA-AAAATA
771110 AAAAG
1 AAAAG
771115 GGGGTTCAAT
Statistics
Matches: 51, Mismatches: 1, Indels: 16
0.75 0.01 0.24
Matches are distributed among these distances:
25 19 0.37
26 7 0.14
27 3 0.06
28 2 0.04
29 13 0.25
30 7 0.14
ACGTcount: A:0.78, C:0.00, G:0.14, T:0.08
Consensus pattern (24 bp):
AAAAGAAAGAAAATAAAAAAAATA
Found at i:771830 original size:13 final size:12
Alignment explanation
Indices: 771812--771842 Score: 53
Period size: 13 Copynumber: 2.5 Consensus size: 12
771802 TACTACCAAG
771812 GAAAAAGAAAGAA
1 GAAAAAGAAA-AA
771825 GAAAAAGAAAAA
1 GAAAAAGAAAAA
771837 GAAAAA
1 GAAAAA
771843 ATAGGAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 8 0.44
13 10 0.56
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (12 bp):
GAAAAAGAAAAA
Found at i:771832 original size:6 final size:6
Alignment explanation
Indices: 771812--771842 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
771802 TACTACCAAG
771812 GAAAAA GAAAGAA GAAAAA GAAAAA GAAAAA
1 GAAAAA GAAA-AA GAAAAA GAAAAA GAAAAA
771843 ATAGGAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 18 0.75
7 6 0.25
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (6 bp):
GAAAAA
Found at i:771842 original size:25 final size:25
Alignment explanation
Indices: 771812--771867 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
771802 TACTACCAAG
*
771812 GAAAAAGA-AAGAAGAAAAAGAAAAA
1 GAAAAA-ATAAGAAAAAAAAGAAAAA
* *
771837 GAAAAAATAGGAAAAAAAAGAGAAA
1 GAAAAAATAAGAAAAAAAAGAAAAA
771862 GAAAAA
1 GAAAAA
771868 TAGAATAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
24 1 0.04
25 26 0.96
ACGTcount: A:0.79, C:0.00, G:0.20, T:0.02
Consensus pattern (25 bp):
GAAAAAATAAGAAAAAAAAGAAAAA
Found at i:771872 original size:12 final size:12
Alignment explanation
Indices: 771812--771872 Score: 52
Period size: 12 Copynumber: 4.9 Consensus size: 12
771802 TACTACCAAG
*
771812 GAAAAAGAAAGAA
1 GAAAAAGAGA-AA
*
771825 GAAAAAGAAAAA
1 GAAAAAGAGAAA
*
771837 GAAAAAATAGGAAA
1 G-AAAAAGA-GAAA
771851 -AAAAAGAGAAA
1 GAAAAAGAGAAA
*
771862 GAAAAATAGAA
1 GAAAAAGAGAA
771873 TAAAAGACAA
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
11 4 0.10
12 18 0.44
13 16 0.39
14 3 0.07
ACGTcount: A:0.77, C:0.00, G:0.20, T:0.03
Consensus pattern (12 bp):
GAAAAAGAGAAA
Found at i:771877 original size:25 final size:25
Alignment explanation
Indices: 771826--771877 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 25
771816 AAGAAAGAAG
*
771826 AAAAAGAAAAAGAAAAAATAGGAAA
1 AAAAAGAAAAAGAAAAAATAGAAAA
* *
771851 AAAAAGAGAAAG-AAAAATAGAATA
1 AAAAAGAAAAAGAAAAAATAGAAAA
771875 AAA
1 AAA
771878 GACAAAGTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 13 0.54
25 11 0.46
ACGTcount: A:0.79, C:0.00, G:0.15, T:0.06
Consensus pattern (25 bp):
AAAAAGAAAAAGAAAAAATAGAAAA
Found at i:772657 original size:135 final size:135
Alignment explanation
Indices: 772411--773029 Score: 687
Period size: 135 Copynumber: 4.6 Consensus size: 135
772401 GGATTAGTGC
* **
772411 CAATCTTTTGCTCGATTCTTCACAGAAGGAGTTGAATCAGTATAACCTTATTTTTCTCGATTCTA
1 CAATCTTTTGCTCGATTCTTCACAGAATGAGTTGAATCAACATAACCTTATTTTTCTCGATTCTA
* * * * *
772476 TCGCATAAGGAGGTAGATTAGCATCGATATTCTGTTTGATTCTTCACAAAAGGAGTTGGATCAAC
66 TCGCAGAAGGAGGTAGATCAACATCGACATTTTGTTTGATTCTTCACAAAAGGAGTTGGATCAAC
772541 AATGT
131 AATGT
* * * * * *
772546 TAATCTTTTGCTCAATTTTTCACAGAATAAGTTGAATCATCATAACCTTATTTTGCTCGATTCTA
1 CAATCTTTTGCTCGATTCTTCACAGAATGAGTTGAATCAACATAACCTTATTTTTCTCGATTCTA
* * * * * *
772611 CCACAAAAAGAGGTAGATAAACATCGACATTTTGTTTGA-TCTTTCACAGAAGGAGTTGGATCAA
66 TCGCAGAAGGAGGTAGATCAACATCGACATTTTGTTTGATTC-TTCACAAAAGGAGTTGGATCAA
*
772675 CAGTGT
130 CAATGT
** * * * * * *
772681 CAATCTTCCGCTTGATTCATCACAAAATGAGTTGAATCAACGTAACCTTATTTTACTCGATTTTA
1 CAATCTTTTGCTCGATTCTTCACAGAATGAGTTGAATCAACATAACCTTATTTTTCTCGATTCTA
* * * * *
772746 TCGTAGAAGGAGGTAGATCAACATCAACATTATGTTTGATTCTTCATAGAAA-GAATTGGATCAA
66 TCGCAGAAGGAGGTAGATCAACATCGACATTTTGTTTGATTCTTCACA-AAAGGAGTTGGATCAA
772810 CAATGT
130 CAATGT
* **
772816 CAATCTTTTTCTCTTTTCTTCACAGAATGAGTTGAATCAACATAACCTTATTTTTCTCGATTCTA
1 CAATCTTTTGCTCGATTCTTCACAGAATGAGTTGAATCAACATAACCTTATTTTTCTCGATTCTA
* * *
772881 T--CAGAAGGAGGTAGATCAACATCGACATTTTGTTTGAATCTTCACAGAAGGAGTTGAATCAAC
66 TCGCAGAAGGAGGTAGATCAACATCGACATTTTGTTTGATTCTTCACAAAAGGAGTTGGATCAAC
*
772944 AATTT
131 AATGT
* * * * * ** *
772949 TATTC-TAT--TCGATTCTTCACATAAGGAGTTGAATCAATGTAACCTTATTTTGT-TAGATTCT
1 CAATCTTTTGCTCGATTCTTCACAGAATGAGTTGAATCAACATAACCTTATTTT-TCTCGATTCT
***
773010 ATTATAGAAGGAGGTAGATC
65 ATCGCAGAAGGAGGTAGATC
773030 GGCGTTGGAA
Statistics
Matches: 403, Mismatches: 74, Indels: 17
0.82 0.15 0.03
Matches are distributed among these distances:
130 46 0.11
131 1 0.00
132 19 0.05
133 58 0.14
134 2 0.00
135 273 0.68
136 4 0.01
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.36
Consensus pattern (135 bp):
CAATCTTTTGCTCGATTCTTCACAGAATGAGTTGAATCAACATAACCTTATTTTTCTCGATTCTA
TCGCAGAAGGAGGTAGATCAACATCGACATTTTGTTTGATTCTTCACAAAAGGAGTTGGATCAAC
AATGT
Found at i:773951 original size:13 final size:13
Alignment explanation
Indices: 773882--773977 Score: 60
Period size: 13 Copynumber: 7.5 Consensus size: 13
773872 ATAATATTTG
*
773882 CATGTTATTTATT
1 CATGTTATTAATT
*
773895 CATGTGGTA-T-ATG
1 CATGT--TATTAATT
773908 CATGTTATTAATT
1 CATGTTATTAATT
**
773921 CAT-TTGGT-ATT
1 CATGTTATTAATT
773932 GCATGTTATTAATT
1 -CATGTTATTAATT
**
773946 CATG-T-TGCATT
1 CATGTTATTAATT
773957 GCATGTTATTAATT
1 -CATGTTATTAATT
773971 CATGTTA
1 CATGTTA
773978 CATTACATGT
Statistics
Matches: 63, Mismatches: 10, Indels: 20
0.68 0.11 0.22
Matches are distributed among these distances:
11 9 0.14
12 12 0.19
13 32 0.51
14 8 0.13
15 2 0.03
ACGTcount: A:0.25, C:0.09, G:0.16, T:0.50
Consensus pattern (13 bp):
CATGTTATTAATT
Found at i:773974 original size:25 final size:25
Alignment explanation
Indices: 773879--773989 Score: 143
Period size: 25 Copynumber: 4.4 Consensus size: 25
773869 TAAATAATAT
* * *
773879 TTGCATGTTATTTATTCATGTGGTA
1 TTGCATGTTATTAATTCATGTTGCA
*
773904 TATGCATGTTATTAATTCAT-TTGGTA
1 T-TGCATGTTATTAATTCATGTT-GCA
773930 TTGCATGTTATTAATTCATGTTGCA
1 TTGCATGTTATTAATTCATGTTGCA
*
773955 TTGCATGTTATTAATTCATGTTACA
1 TTGCATGTTATTAATTCATGTTGCA
*
773980 TTACATGTTA
1 TTGCATGTTA
773990 AATAATTAGT
Statistics
Matches: 78, Mismatches: 5, Indels: 6
0.88 0.06 0.07
Matches are distributed among these distances:
25 55 0.71
26 23 0.29
ACGTcount: A:0.25, C:0.10, G:0.15, T:0.50
Consensus pattern (25 bp):
TTGCATGTTATTAATTCATGTTGCA
Found at i:774211 original size:13 final size:13
Alignment explanation
Indices: 774193--774217 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
774183 TACATTAGTT
774193 TACATAAGCCCAA
1 TACATAAGCCCAA
774206 TACATAAGCCCA
1 TACATAAGCCCA
774218 CTCTTTTATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.32, G:0.08, T:0.16
Consensus pattern (13 bp):
TACATAAGCCCAA
Found at i:779797 original size:18 final size:18
Alignment explanation
Indices: 779774--779846 Score: 101
Period size: 18 Copynumber: 3.9 Consensus size: 18
779764 ACTGAATATT
*
779774 TGTCCCGAATGACCACTA
1 TGTCCCGAAGGACCACTA
779792 TGTCCCGAAGGACCACTGA
1 TGTCCCGAAGGACCACT-A
* *
779811 TTGTTCCGAAGAACCACTA
1 -TGTCCCGAAGGACCACTA
779830 TGTCCCGAAGGACCACT
1 TGTCCCGAAGGACCACT
779847 GTATATGTCC
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
18 31 0.65
19 2 0.04
20 15 0.31
ACGTcount: A:0.27, C:0.32, G:0.21, T:0.21
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:779856 original size:22 final size:21
Alignment explanation
Indices: 779774--779868 Score: 96
Period size: 18 Copynumber: 4.8 Consensus size: 21
779764 ACTGAATATT
*
779774 TGTCCCGAATGACCAC---TA
1 TGTCCCGAAGGACCACTGATA
779792 TGTCCCGAAGGACCACTGAT-
1 TGTCCCGAAGGACCACTGATA
* *
779812 TGTTCCGAAGAACCAC---TA
1 TGTCCCGAAGGACCACTGATA
779830 TGTCCCGAAGGACCACTGTATA
1 TGTCCCGAAGGACCACTG-ATA
*
779852 TGTCCCGAATGACCACT
1 TGTCCCGAAGGACCACT
779869 CCTTAAGAAC
Statistics
Matches: 63, Mismatches: 6, Indels: 12
0.78 0.07 0.15
Matches are distributed among these distances:
17 1 0.02
18 29 0.46
20 14 0.22
21 1 0.02
22 18 0.29
ACGTcount: A:0.27, C:0.31, G:0.20, T:0.22
Consensus pattern (21 bp):
TGTCCCGAAGGACCACTGATA
Found at i:780122 original size:24 final size:21
Alignment explanation
Indices: 780066--780123 Score: 55
Period size: 24 Copynumber: 2.5 Consensus size: 21
780056 ATATCTTCTC
780066 ATCACTTTTCATATAAACATGT
1 ATCAC-TTTCATATAAACATGT
780088 ATTTCAC-TTCATATACACACATGT
1 A--TCACTTTCATATA-A-ACATGT
780112 GATCACTTTCAT
1 -ATCACTTTCAT
780124 TATTTCACAT
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
22 9 0.30
23 5 0.17
24 15 0.50
25 1 0.03
ACGTcount: A:0.33, C:0.22, G:0.05, T:0.40
Consensus pattern (21 bp):
ATCACTTTCATATAAACATGT
Found at i:780637 original size:19 final size:19
Alignment explanation
Indices: 780609--780660 Score: 86
Period size: 19 Copynumber: 2.7 Consensus size: 19
780599 TTTAAGTAGG
* *
780609 TGCATTGATGCACTCCTCT
1 TGCATCGATGCACTCCTCA
780628 TGCATCGATGCACTCCTCA
1 TGCATCGATGCACTCCTCA
780647 TGCATCGATGCACT
1 TGCATCGATGCACT
780661 AATTGCATTC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.19, C:0.33, G:0.17, T:0.31
Consensus pattern (19 bp):
TGCATCGATGCACTCCTCA
Found at i:786824 original size:18 final size:18
Alignment explanation
Indices: 786801--786873 Score: 85
Period size: 18 Copynumber: 3.9 Consensus size: 18
786791 ACTGAATATT
786801 TGTCCCGAAAGACCACTA
1 TGTCCCGAAAGACCACTA
*
786819 TGTCCCGAAAGAACACTGA
1 TGTCCCGAAAGACCACT-A
*
786838 TTGTTCCG-AAGAACCACTA
1 -TGTCCCGAAAG-ACCACTA
*
786857 TGTCCCGAAGGACCACT
1 TGTCCCGAAAGACCACT
786874 CCTTAAGAAC
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
18 28 0.61
19 7 0.15
20 11 0.24
ACGTcount: A:0.32, C:0.30, G:0.19, T:0.19
Consensus pattern (18 bp):
TGTCCCGAAAGACCACTA
Found at i:787233 original size:2 final size:2
Alignment explanation
Indices: 787226--787259 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
787216 ACTGTATCCA
787226 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
787260 GTTGATGCAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:794818 original size:31 final size:31
Alignment explanation
Indices: 794780--794838 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
794770 ATAACATTCA
794780 TTTTACTATTAAGACCTTATCAAAAGTTACC
1 TTTTACTATTAAGACCTTATCAAAAGTTACC
794811 TTTTACTATTAAGACCTTATCAAAAGTT
1 TTTTACTATTAAGACCTTATCAAAAGTT
794839 TTTAAAATCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.36, C:0.17, G:0.07, T:0.41
Consensus pattern (31 bp):
TTTTACTATTAAGACCTTATCAAAAGTTACC
Found at i:795580 original size:107 final size:109
Alignment explanation
Indices: 795369--795563 Score: 304
Period size: 107 Copynumber: 1.8 Consensus size: 109
795359 TTGAATATAA
* * *
795369 GTATTGACACCTCCAAAGAAGTATTAGTATATCTATTATTTTTCTAAATTTTCTATTTCATTGAA
1 GTATCGACACCTCCAAAGAAATATTAGTACATCTATTATTTTTCTAAATTTTCTATTTCATTGAA
*
795434 CCCTCAAGAATTATCAATATATGAGAAGGATATTGATACTTAAG
66 CCCTCAAGAATTATCAATACATGAGAAGGATATTGATACTTAAG
* *
795478 GTATCGACACCT-C-AAGAAATATTAGTACATGTATTATTTTTCTGAATTTTCTATTTCATTGAA
1 GTATCGACACCTCCAAAGAAATATTAGTACATCTATTATTTTTCTAAATTTTCTATTTCATTGAA
* *
795541 CCTTGAAGAATTATCAATACATG
66 CCCTCAAGAATTATCAATACATG
795564 GAAAGGGTAT
Statistics
Matches: 78, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
107 66 0.85
108 1 0.01
109 11 0.14
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (109 bp):
GTATCGACACCTCCAAAGAAATATTAGTACATCTATTATTTTTCTAAATTTTCTATTTCATTGAA
CCCTCAAGAATTATCAATACATGAGAAGGATATTGATACTTAAG
Found at i:796179 original size:24 final size:25
Alignment explanation
Indices: 796132--796179 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
796122 GCTTTTTCTT
* * *
796132 TTAACTAATACAAACACACTCGAAA
1 TTAAATAATACAAACAAACACGAAA
796157 TTAAATAA-ACAAACAAACACGAA
1 TTAAATAATACAAACAAACACGAA
796180 CAAAATTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.58, C:0.21, G:0.04, T:0.17
Consensus pattern (25 bp):
TTAAATAATACAAACAAACACGAAA
Found at i:797253 original size:14 final size:14
Alignment explanation
Indices: 797234--797260 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
797224 ACCGGTTTGA
797234 ACTGAGTCAACTCG
1 ACTGAGTCAACTCG
797248 ACTGAGTCAACTC
1 ACTGAGTCAACTC
797261 ATCCGAGTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.22
Consensus pattern (14 bp):
ACTGAGTCAACTCG
Found at i:801596 original size:18 final size:18
Alignment explanation
Indices: 801575--801620 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
801565 TGACCGGTTA
801575 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
*
801593 ACCCGACCCGATCCGTTG
1 ACCCGACCCGACCCGTTG
*
801611 ACCCAACCCG
1 ACCCGACCCG
801621 TTGACCGGCG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.20, C:0.50, G:0.20, T:0.11
Consensus pattern (18 bp):
ACCCGACCCGACCCGTTG
Found at i:804170 original size:12 final size:12
Alignment explanation
Indices: 804155--804211 Score: 71
Period size: 12 Copynumber: 4.8 Consensus size: 12
804145 GATATATGAC
*
804155 CTGAATTATGTT
1 CTGAATTCTGTT
*
804167 CTGATTTCT-TAT
1 CTGAATTCTGT-T
*
804179 CTGGATTCTGTT
1 CTGAATTCTGTT
804191 CTGAATTCTGTT
1 CTGAATTCTGTT
804203 CTGAATTCT
1 CTGAATTCT
804212 ATTTTGATTT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
11 1 0.03
12 36 0.95
13 1 0.03
ACGTcount: A:0.18, C:0.16, G:0.16, T:0.51
Consensus pattern (12 bp):
CTGAATTCTGTT
Found at i:804223 original size:24 final size:25
Alignment explanation
Indices: 804132--804230 Score: 78
Period size: 24 Copynumber: 4.0 Consensus size: 25
804122 ATTTCCGACT
* * * *
804132 TGAATTCTGTTCTGATATATG-ACC
1 TGAATTCTATTCTGATTTCTGTATC
* *
804156 TGAATTATGTTCTGATTTCT-TATC
1 TGAATTCTATTCTGATTTCTGTATC
* * *
804180 TGGATTCTGTTCTGAATTCTGT-TC
1 TGAATTCTATTCTGATTTCTGTATC
*
804204 TGAATTCTATTTTGATTTCTGATATC
1 TGAATTCTATTCTGATTTCTG-TATC
804230 T
1 T
804231 CCGTTTAATG
Statistics
Matches: 60, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
24 55 0.92
25 2 0.03
26 3 0.05
ACGTcount: A:0.20, C:0.14, G:0.15, T:0.51
Consensus pattern (25 bp):
TGAATTCTATTCTGATTTCTGTATC
Found at i:806289 original size:18 final size:18
Alignment explanation
Indices: 806266--806311 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
806256 TCACAACTCC
806266 ACCCGACCCGA-CTCGTTG
1 ACCCGACCCGATC-CGTTG
806284 ACCCGACCCGATCCGTTG
1 ACCCGACCCGATCCGTTG
*
806302 ACCCAACCCG
1 ACCCGACCCG
806312 TTGACCGGCG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
18 25 0.96
19 1 0.04
ACGTcount: A:0.20, C:0.48, G:0.20, T:0.13
Consensus pattern (18 bp):
ACCCGACCCGATCCGTTG
Found at i:808841 original size:24 final size:24
Alignment explanation
Indices: 808805--808887 Score: 87
Period size: 24 Copynumber: 3.5 Consensus size: 24
808795 AAATATTTTA
*
808805 TCTGATTTCTGACTTGAATTCTGT
1 TCTGATATCTGACTTGAATTCTGT
* * *
808829 TCTGATATATGACCTGAATTATGT
1 TCTGATATCTGACTTGAATTCTGT
* * *
808853 TCTGATTTCTTATCTAG-ATTCTGT
1 TCTGATATCTGA-CTTGAATTCTGT
808877 TCTGATATCTG
1 TCTGATATCTG
808888 TTCTGAATTC
Statistics
Matches: 46, Mismatches: 12, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
24 44 0.96
25 2 0.04
ACGTcount: A:0.20, C:0.16, G:0.16, T:0.48
Consensus pattern (24 bp):
TCTGATATCTGACTTGAATTCTGT
Found at i:808859 original size:48 final size:48
Alignment explanation
Indices: 808805--808913 Score: 130
Period size: 48 Copynumber: 2.3 Consensus size: 48
808795 AAATATTTTA
* *
808805 TCTGATTTCTGA-CTTGAATTCTGTTCTGATATATGACCTGAATTATGT
1 TCTGATTTCTGATCTAG-ATTCTGTTCTGATATATGACCTGAATTATAT
* * ** *
808853 TCTGATTTCTTATCTAGATTCTGTTCTGATATCTGTTCTGAATTCTAT
1 TCTGATTTCTGATCTAGATTCTGTTCTGATATATGACCTGAATTATAT
*
808901 TTTGATTTCTGAT
1 TCTGATTTCTGAT
808914 ATCTCCATTT
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
48 48 0.94
49 3 0.06
ACGTcount: A:0.20, C:0.15, G:0.15, T:0.50
Consensus pattern (48 bp):
TCTGATTTCTGATCTAGATTCTGTTCTGATATATGACCTGAATTATAT
Found at i:808897 original size:24 final size:24
Alignment explanation
Indices: 808819--808898 Score: 83
Period size: 24 Copynumber: 3.3 Consensus size: 24
808809 ATTTCTGACT
* **
808819 TGAATTCTGTTCTGATATATGACC
1 TGAATTCTGTTCTGATATCTGTTC
* *
808843 TGAATTATGTTCTGATTTCT-TATC
1 TGAATTCTGTTCTGATATCTGT-TC
808867 T-AGATTCTGTTCTGATATCTGTTC
1 TGA-ATTCTGTTCTGATATCTGTTC
808891 TGAATTCT
1 TGAATTCT
808899 ATTTTGATTT
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
23 1 0.02
24 42 0.93
25 2 0.04
ACGTcount: A:0.21, C:0.15, G:0.15, T:0.49
Consensus pattern (24 bp):
TGAATTCTGTTCTGATATCTGTTC
Found at i:812534 original size:20 final size:19
Alignment explanation
Indices: 812484--812535 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
812474 AAATGACCAA
*
812484 CAAATTCGCAACGCAGATT
1 CAAATTCGCAACCCAGATT
* *
812503 CAAATTTTGCAACCCAGGTT
1 CAAA-TTCGCAACCCAGATT
812523 CCAAATTCGCAAC
1 -CAAATTCGCAAC
812536 GCGAAAGTCG
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 4 0.15
20 19 0.70
21 4 0.15
ACGTcount: A:0.35, C:0.29, G:0.13, T:0.23
Consensus pattern (19 bp):
CAAATTCGCAACCCAGATT
Found at i:812549 original size:21 final size:21
Alignment explanation
Indices: 812522--812600 Score: 86
Period size: 21 Copynumber: 3.8 Consensus size: 21
812512 CAACCCAGGT
812522 TCCAAATTCGCAACGCGAAAG
1 TCCAAATTCGCAACGCGAAAG
* *
812543 TCGAAATTCGCAACGCGATAG
1 TCCAAATTCGCAACGCGAAAG
* ** * *
812564 TCCAAAATCGCAACTTGATAC
1 TCCAAATTCGCAACGCGAAAG
*
812585 TCCAAAATCGCAACGC
1 TCCAAATTCGCAACGC
812601 ATTTGTTTCT
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 49 1.00
ACGTcount: A:0.37, C:0.29, G:0.16, T:0.18
Consensus pattern (21 bp):
TCCAAATTCGCAACGCGAAAG
Found at i:814406 original size:51 final size:51
Alignment explanation
Indices: 814325--814435 Score: 206
Period size: 51 Copynumber: 2.2 Consensus size: 51
814315 TATGTAAAAG
*
814325 TTTTCGATATTTTATATTCTAAAACCCCAAACCTTGATTGTTTCTATAATA
1 TTTTGGATATTTTATATTCTAAAACCCCAAACCTTGATTGTTTCTATAATA
814376 TTTTGGATATTTTATATTCTAAAACCCCAAACCTTGATTGTTTCTATAATA
1 TTTTGGATATTTTATATTCTAAAACCCCAAACCTTGATTGTTTCTATAATA
814427 -TTTGGATAT
1 TTTTGGATAT
814436 AATTGGCATG
Statistics
Matches: 59, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
50 9 0.15
51 50 0.85
ACGTcount: A:0.31, C:0.15, G:0.08, T:0.46
Consensus pattern (51 bp):
TTTTGGATATTTTATATTCTAAAACCCCAAACCTTGATTGTTTCTATAATA
Found at i:817009 original size:2 final size:2
Alignment explanation
Indices: 816959--816992 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
816949 GATTCTTAAT
816959 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
816993 AAGCCAAGGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:822676 original size:27 final size:27
Alignment explanation
Indices: 822645--822711 Score: 107
Period size: 27 Copynumber: 2.5 Consensus size: 27
822635 GATACTGGTT
*
822645 CTGAATCATTCAGAATATACTTTAATG
1 CTGAATCATTCAAAATATACTTTAATG
*
822672 CTGAATCATTCAAAATATACTTTGATG
1 CTGAATCATTCAAAATATACTTTAATG
*
822699 TTGAATCATTCAA
1 CTGAATCATTCAA
822712 CATTGTTTTG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.37
Consensus pattern (27 bp):
CTGAATCATTCAAAATATACTTTAATG
Found at i:822743 original size:15 final size:15
Alignment explanation
Indices: 822723--822779 Score: 114
Period size: 15 Copynumber: 3.8 Consensus size: 15
822713 ATTGTTTTGT
822723 TGAATCATTCAGCAC
1 TGAATCATTCAGCAC
822738 TGAATCATTCAGCAC
1 TGAATCATTCAGCAC
822753 TGAATCATTCAGCAC
1 TGAATCATTCAGCAC
822768 TGAATCATTCAG
1 TGAATCATTCAG
822780 AGGTAAGAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 42 1.00
ACGTcount: A:0.33, C:0.25, G:0.14, T:0.28
Consensus pattern (15 bp):
TGAATCATTCAGCAC
Found at i:822880 original size:18 final size:18
Alignment explanation
Indices: 822857--822903 Score: 55
Period size: 15 Copynumber: 2.8 Consensus size: 18
822847 TGATTAAGTG
822857 CTGAATGATTCAGAGGCT
1 CTGAATGATTCAGAGGCT
* *
822875 CTGAATGGTT---TGGCT
1 CTGAATGATTCAGAGGCT
822890 CTGAATGATTCAGA
1 CTGAATGATTCAGA
822904 ATGTACTTCT
Statistics
Matches: 22, Mismatches: 4, Indels: 6
0.69 0.12 0.19
Matches are distributed among these distances:
15 13 0.59
18 9 0.41
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.32
Consensus pattern (18 bp):
CTGAATGATTCAGAGGCT
Found at i:832103 original size:25 final size:25
Alignment explanation
Indices: 832043--832103 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
832033 AAATAAACAA
* * *
832043 TCTTAAATTACGTTATGATTGATTC
1 TCTTGAATTATGTTATGATTAATTC
* *
832068 TCTTGAATTATGTTGTGATTAATTG
1 TCTTGAATTATGTTATGATTAATTC
832093 TCTTGAATTAT
1 TCTTGAATTAT
832104 AAGCATACAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.26, C:0.08, G:0.15, T:0.51
Consensus pattern (25 bp):
TCTTGAATTATGTTATGATTAATTC
Found at i:833165 original size:2 final size:2
Alignment explanation
Indices: 833160--833400 Score: 79
Period size: 2 Copynumber: 123.0 Consensus size: 2
833150 AAACAATTAA
*
833160 AT AT AT A- AT AT AT AT AT AT AT AT AT AT -T A- AT AT AT AT AA
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * *
833199 ACT AT AT AT AGT TT AT AT TT AT A- AT -T TT AT AT AT -T GT AT AT
1 A-T AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
833240 AA AT -T AT GT AGT GT AT AT AT GA- AT -T AT AT AT A- ACT AT AT
1 AT AT AT AT AT A-T AT AT AT AT -AT AT AT AT AT AT AT A-T AT AT
*
833279 -T AT AT AT AT AT A- AA ACT AT AT AT AT AT AGT -T AT -T AGT AT
1 AT AT AT AT AT AT AT AT A-T AT AT AT AT AT A-T AT AT AT A-T AT
* * * *
833318 AT AT AA ACT AT AT AGT TT AT AA AT -T AT AG AT AT AGT CAT -T AGT
1 AT AT AT A-T AT AT A-T AT AT AT AT AT AT AT AT AT A-T -AT AT A-T
* * *
833361 AT AT AT AA ACT AT AT AT -T AT -T A- AT AT AT AA AC AT AT AT AT
1 AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
833401 TAATTGAAAG
Statistics
Matches: 178, Mismatches: 28, Indels: 66
0.65 0.10 0.24
Matches are distributed among these distances:
1 19 0.11
2 142 0.80
3 16 0.09
4 1 0.01
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (2 bp):
AT
Found at i:833883 original size:103 final size:102
Alignment explanation
Indices: 833711--833896 Score: 268
Period size: 103 Copynumber: 1.8 Consensus size: 102
833701 AATTTATCCG
* * *
833711 TGTTCATCTTTTGTTCATCCCAAAAACCCTCATTTGATCTTCACAAACACTAAAACCCAAACCAT
1 TGTTCATCTTGTGTTCATCCCAAAAACCCTAATTTGATCTTCACAAACACCAAAACCCAAACCAT
*
833776 TTCCTGTTTTTTTTATCAAATACCTAAAATTTAAATCGT
66 TTCC--TTTTTTCTATCAAATACCTAAAATTTAAATCGT
* * *
833815 TGTTCATC-TGTGTTCATCCTAAAACCCCTAATTTGATCTTCAGAAACACCAAAACCCAAACTCA
1 TGTTCATCTTGTGTTCATCCCAAAAACCCTAATTTGATCTTCACAAACACCAAAACCCAAAC-CA
833879 -TTCCTTTTTTCTATCAAA
65 TTTCCTTTTTTCTATCAAA
833897 CACAAAAAAT
Statistics
Matches: 74, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
101 13 0.18
103 51 0.69
104 10 0.14
ACGTcount: A:0.32, C:0.26, G:0.05, T:0.36
Consensus pattern (102 bp):
TGTTCATCTTGTGTTCATCCCAAAAACCCTAATTTGATCTTCACAAACACCAAAACCCAAACCAT
TTCCTTTTTTCTATCAAATACCTAAAATTTAAATCGT
Found at i:834221 original size:36 final size:36
Alignment explanation
Indices: 834172--834259 Score: 86
Period size: 36 Copynumber: 2.4 Consensus size: 36
834162 TCACTTTCTA
* * * * *
834172 TCTTTGTTCATCTTCTCTAATCTTAAACCCTAACCTAG
1 TCTTT-TT-ATCTTCTATAACCCTAAACCCAAACCGAG
*
834210 TCTTTTTATCTTCTATAACCCTAAATCCAAACCGAG
1 TCTTTTTATCTTCTATAACCCTAAACCCAAACCGAG
* *
834246 TCTCTTCATCTTCT
1 TCTTTTTATCTTCT
834260 GTCTCTGTTC
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
36 35 0.83
37 2 0.05
38 5 0.12
ACGTcount: A:0.24, C:0.30, G:0.05, T:0.42
Consensus pattern (36 bp):
TCTTTTTATCTTCTATAACCCTAAACCCAAACCGAG
Found at i:836241 original size:21 final size:21
Alignment explanation
Indices: 836199--836241 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
836189 TTTCTGGGCT
*
836199 AGGGGAATCGATACCCATTCA
1 AGGGGAATCGATACCCACTCA
*
836220 AGGGGAATCGATACCCCCTCA
1 AGGGGAATCGATACCCACTCA
836241 A
1 A
836242 ACGAACATGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.28, G:0.23, T:0.16
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:836314 original size:23 final size:22
Alignment explanation
Indices: 836270--836314 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
836260 AATGCCAGAG
* *
836270 GGGAACCGATACCCCCACAGGA
1 GGGAACCAATACCCCCAAAGGA
*
836292 GGGAACCAATTCCCCCTAAAGGA
1 GGGAACCAATACCCCC-AAAGGA
836315 AAAATGTGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.33, C:0.33, G:0.24, T:0.09
Consensus pattern (22 bp):
GGGAACCAATACCCCCAAAGGA
Found at i:837227 original size:31 final size:31
Alignment explanation
Indices: 837189--837328 Score: 244
Period size: 31 Copynumber: 4.5 Consensus size: 31
837179 ATGGTCGAGG
837189 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
837220 GTTTACCTATGTTCTTCGGGACATATAGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
837251 GTTTACCTGTGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
837282 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* *
837313 GATTACCTAGGTTCTT
1 GTTTACCTATGTTCTT
837329 TGGAATCTAT
Statistics
Matches: 103, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 103 1.00
ACGTcount: A:0.19, C:0.19, G:0.22, T:0.39
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:837340 original size:62 final size:62
Alignment explanation
Indices: 837191--837344 Score: 222
Period size: 62 Copynumber: 2.5 Consensus size: 62
837181 GGTCGAGGGT
* * *
837191 TTACCTATGTTCTTCGGGACATATGGACTGTTTACCTATGTTCTTCGGGACATATAGACTGT
1 TTACCTGTGTTCTTCGGAACATATGGACTGTTTACCTATGTTCTTCGGGACATATAGACTGA
* *
837253 TTACCTGTGTTCTTCGGGACATATGGACTGTTTACCTATGTTCTTCGGGACATATGGACTGA
1 TTACCTGTGTTCTTCGGAACATATGGACTGTTTACCTATGTTCTTCGGGACATATAGACTGA
*
837315 TTACCTAG-GTTCTTTGGAATC-TATGGACTG
1 TTACCT-GTGTTCTTCGGAA-CATATGGACTG
837345 GTCCTTCGGG
Statistics
Matches: 85, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
62 83 0.98
63 2 0.02
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.38
Consensus pattern (62 bp):
TTACCTGTGTTCTTCGGAACATATGGACTGTTTACCTATGTTCTTCGGGACATATAGACTGA
Found at i:839533 original size:2 final size:2
Alignment explanation
Indices: 839526--839572 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
839516 CATGATATGA
*
839526 AT AT AT AT AT AT AT AT AT AT AT AT CT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
839568 AT AT A
1 AT AT A
839573 AAGGAAAGGT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:840489 original size:21 final size:21
Alignment explanation
Indices: 840447--840489 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
840437 TTTCTGGGCT
*
840447 AGGGGAATCGATACCCATTCA
1 AGGGGAATCGATACCCACTCA
*
840468 AGGGGAATCGATACCCCCTCA
1 AGGGGAATCGATACCCACTCA
840489 A
1 A
840490 ACGAACATGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.28, G:0.23, T:0.16
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:840562 original size:23 final size:22
Alignment explanation
Indices: 840518--840562 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
840508 AATGCCAGAG
*
840518 GGGAACCAATACCCCCACAGGA
1 GGGAACCAATACCCCCAAAGGA
* *
840540 GGGAACCGATTCCCCCTAAAGGA
1 GGGAACCAATACCCCC-AAAGGA
840563 AAAATGTGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.33, C:0.33, G:0.24, T:0.09
Consensus pattern (22 bp):
GGGAACCAATACCCCCAAAGGA
Found at i:841495 original size:31 final size:31
Alignment explanation
Indices: 841457--841612 Score: 242
Period size: 31 Copynumber: 5.0 Consensus size: 31
841447 AGGGTCGAGG
*
841457 GTTTACCTATGTTCTTCGGGACATATGAACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
841488 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
841519 GTTTACCTGTGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
841550 GTTTACCTATGTTCTTCAGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* * *
841581 GATTACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
841612 G
1 G
841613 GTCCTTCAGG
Statistics
Matches: 116, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
31 115 0.99
32 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.38
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:843989 original size:17 final size:17
Alignment explanation
Indices: 843967--844001 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
843957 AATGTGGAAA
* *
843967 TGTTGGTTGTTGTTACC
1 TGTTGGCTGTTGCTACC
843984 TGTTGGCTGTTGCTACC
1 TGTTGGCTGTTGCTACC
844001 T
1 T
844002 TGTAATTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.06, C:0.17, G:0.29, T:0.49
Consensus pattern (17 bp):
TGTTGGCTGTTGCTACC
Found at i:844820 original size:32 final size:32
Alignment explanation
Indices: 844784--844851 Score: 84
Period size: 32 Copynumber: 2.1 Consensus size: 32
844774 TCAGGTCAAT
* *
844784 AACAAGTTA-GATCATTTACAAGTCAGGTTGAA
1 AACAAGTCATGATCA-TAACAAGTCAGGTTGAA
* *
844816 AACAAGTCATGTTCATAACAGGTCAGGTTGAA
1 AACAAGTCATGATCATAACAAGTCAGGTTGAA
844848 AACA
1 AACA
844852 GGTCGGATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 27 0.87
33 4 0.13
ACGTcount: A:0.41, C:0.15, G:0.19, T:0.25
Consensus pattern (32 bp):
AACAAGTCATGATCATAACAAGTCAGGTTGAA
Found at i:844852 original size:16 final size:16
Alignment explanation
Indices: 844805--844855 Score: 66
Period size: 16 Copynumber: 3.2 Consensus size: 16
844795 TCATTTACAA
*
844805 GTCAGGTTGAAAACAA
1 GTCAGGTTGAAAACAG
* * *
844821 GTCATGTTCATAACAG
1 GTCAGGTTGAAAACAG
844837 GTCAGGTTGAAAACAG
1 GTCAGGTTGAAAACAG
844853 GTC
1 GTC
844856 GGATAATACC
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.35, C:0.16, G:0.25, T:0.24
Consensus pattern (16 bp):
GTCAGGTTGAAAACAG
Found at i:847271 original size:90 final size:89
Alignment explanation
Indices: 847118--847291 Score: 312
Period size: 90 Copynumber: 1.9 Consensus size: 89
847108 CTAACATACA
*
847118 CTTTTATAACCAAGTTACCCTAATCATATTAGGGTTTTTATTATTTCAAATTAATTAAATCTATA
1 CTTTTATAACCAAGTTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATCTATA
*
847183 TTTAATTAATTAGAATTTAATAATC
66 TTTAATTAATT-GAAATTAATAATC
*
847208 CTTTTATATCCAAGTTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATCTATA
1 CTTTTATAACCAAGTTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATCTATA
847273 TTTAATTAATTGAAATTAA
66 TTTAATTAATTGAAATTAA
847292 ATATTCGAGA
Statistics
Matches: 81, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
89 7 0.09
90 74 0.91
ACGTcount: A:0.38, C:0.11, G:0.06, T:0.45
Consensus pattern (89 bp):
CTTTTATAACCAAGTTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATCTATA
TTTAATTAATTGAAATTAATAATC
Found at i:848183 original size:2 final size:2
Alignment explanation
Indices: 848176--848208 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
848166 TATGTTAAAC
848176 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
848209 ACTGAAAGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:852032 original size:19 final size:19
Alignment explanation
Indices: 852008--852047 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
851998 GAGTGGGTAG
*
852008 TTATTTTGAGATGAATAAA
1 TTATTTTAAGATGAATAAA
852027 TTATTTTAAGATGAATAAA
1 TTATTTTAAGATGAATAAA
852046 TT
1 TT
852048 TTATTGGTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.45
Consensus pattern (19 bp):
TTATTTTAAGATGAATAAA
Found at i:854277 original size:6 final size:6
Alignment explanation
Indices: 854266--854294 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
854256 CGTCTTTCTT
854266 CTTCCA CTTCCA CTTCCA CTTCCA CTTCC
1 CTTCCA CTTCCA CTTCCA CTTCCA CTTCC
854295 GGAAGAACAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.14, C:0.52, G:0.00, T:0.34
Consensus pattern (6 bp):
CTTCCA
Found at i:856921 original size:3 final size:3
Alignment explanation
Indices: 856913--856963 Score: 61
Period size: 3 Copynumber: 16.7 Consensus size: 3
856903 AATCAACTGT
856913 TAA TAA TAA -AA TAA TAAA TAA TAGA -AA TAA TAA TAAA TAA TAA TAA
1 TAA TAA TAA TAA TAA T-AA TAA TA-A TAA TAA TAA T-AA TAA TAA TAA
856959 TAA TA
1 TAA TA
856964 TTTTTTTCGA
Statistics
Matches: 43, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
2 3 0.07
3 33 0.77
4 7 0.16
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:856946 original size:19 final size:19
Alignment explanation
Indices: 856913--856963 Score: 79
Period size: 19 Copynumber: 2.7 Consensus size: 19
856903 AATCAACTGT
856913 TAATAATAA-AATAATAAA
1 TAATAATAATAATAATAAA
856931 TAATAGA-AATAATAATAAA
1 TAATA-ATAATAATAATAAA
856950 TAATAATAATAATA
1 TAATAATAATAATA
856964 TTTTTTTCGA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.27
19 22 0.73
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (19 bp):
TAATAATAATAATAATAAA
Found at i:856951 original size:16 final size:15
Alignment explanation
Indices: 856913--856963 Score: 61
Period size: 16 Copynumber: 3.3 Consensus size: 15
856903 AATCAACTGT
856913 TAAT-AATAAAATAA
1 TAATAAATAAAATAA
856927 TAA-ATAATAGAAATAA
1 TAATA-AATA-AAATAA
856943 TAATAAATAATAATAA
1 TAATAAATAA-AATAA
856959 TAATA
1 TAATA
856964 TTTTTTTCGA
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
14 3 0.09
15 5 0.16
16 23 0.72
17 1 0.03
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (15 bp):
TAATAAATAAAATAA
Found at i:857371 original size:134 final size:132
Alignment explanation
Indices: 857155--857457 Score: 358
Period size: 134 Copynumber: 2.3 Consensus size: 132
857145 GTCATCTAAG
* * * * *
857155 GGTGACACGACTCCTACGTGATGAGG-AGATATGGTCGATGGATGACATGGTTCCTATACGATGA
1 GGTGACAAGACTCCTACGTGATGAGGAAG-TCTGGTCGATAGATGACACGGTTCCTATACGATAA
* * *
857219 GGACGACTGGCCATCTTTAGGGAGTGTGATAACACATTTCCTACGCGATGAGGACGACTGGTTAT
65 GGACGACAGGCCATCTTTAGGGA---TGATAACACAGTTCCTACGCGATGAGGACAACTGGTTAT
857284 CTA-GA
127 CTAGGA
* * * * **
857289 GGTGGCAAGGCTCCTACATGATGAGGAAGTCTGGTCGGTAGATGACACGGTTCCTATGTGATAAG
1 GGTGACAAGACTCCTACGTGATGAGGAAGTCTGGTCGATAGATGACACGGTTCCTATACGATAAG
* * * * *
857354 GATGGCAGGCCATCTTTAGGGATGATAACACGGTTCCTATGTGATGAGGACAACTGGTTATCTAG
66 GACGACAGGCCATCTTTAGGGATGATAACACAGTTCCTACGCGATGAGGACAACTGGTTATCTAG
*
857419 GG
131 GA
* *
857421 GGTGACATGACTCCTACGTGATGAGGAGGTCTGGTCG
1 GGTGACAAGACTCCTACGTGATGAGGAAGTCTGGTCG
857458 TGGGATGACA
Statistics
Matches: 142, Mismatches: 25, Indels: 6
0.82 0.14 0.03
Matches are distributed among these distances:
131 37 0.26
132 33 0.23
134 70 0.49
135 2 0.01
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.25
Consensus pattern (132 bp):
GGTGACAAGACTCCTACGTGATGAGGAAGTCTGGTCGATAGATGACACGGTTCCTATACGATAAG
GACGACAGGCCATCTTTAGGGATGATAACACAGTTCCTACGCGATGAGGACAACTGGTTATCTAG
GA
Found at i:857605 original size:14 final size:15
Alignment explanation
Indices: 857578--857651 Score: 53
Period size: 15 Copynumber: 4.8 Consensus size: 15
857568 CAAAGATTTA
857578 TGTTTCAAGAGAAAT
1 TGTTTCAAGAGAAAT
857593 TGTTTCAATGA-AAA-
1 TGTTTCAA-GAGAAAT
* ***
857607 TGATCTCAAAGATGGTTT
1 TG-TTTC-AAGA-GAAAT
857625 TGTTTCAAGAGAAAT
1 TGTTTCAAGAGAAAT
*
857640 TGTCTCAAGAGA
1 TGTTTCAAGAGA
857652 GATAAAATTT
Statistics
Matches: 44, Mismatches: 9, Indels: 12
0.68 0.14 0.18
Matches are distributed among these distances:
14 2 0.05
15 29 0.66
16 8 0.18
17 3 0.07
18 2 0.05
ACGTcount: A:0.36, C:0.09, G:0.20, T:0.34
Consensus pattern (15 bp):
TGTTTCAAGAGAAAT
Found at i:857715 original size:30 final size:29
Alignment explanation
Indices: 857655--857731 Score: 84
Period size: 30 Copynumber: 2.7 Consensus size: 29
857645 CAAGAGAGAT
*
857655 AAAATTT-TGTTTTAAGAGAAAAAAACTC
1 AAAATTTGTGTTTTAAGGGAAAAAAACTC
* **
857683 AAAGATTTGTGTTTTAAGGGAAACAATTTC
1 AAA-ATTTGTGTTTTAAGGGAAAAAAACTC
* *
857713 AAAATTTGTATTTCAAGGG
1 AAAATTTGTGTTTTAAGGG
857732 GAAATGTCTC
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
28 3 0.07
29 18 0.44
30 20 0.49
ACGTcount: A:0.42, C:0.06, G:0.17, T:0.35
Consensus pattern (29 bp):
AAAATTTGTGTTTTAAGGGAAAAAAACTC
Found at i:858051 original size:36 final size:37
Alignment explanation
Indices: 858011--858116 Score: 108
Period size: 37 Copynumber: 2.9 Consensus size: 37
858001 CAGAAAATCA
* ** *
858011 TCTCAAGTAAGATGAAATTTATTTTGAGA-AAAATTG
1 TCTCAAGCAAGACAAAATTTATTTTGAGAGAAAACTG
* * *
858047 TCTCAAGCGAGACAAAATTTGTTTTTAGAGAAAACTG
1 TCTCAAGCAAGACAAAATTTATTTTGAGAGAAAACTG
* * *
858084 TCTCAAGCGAGACAAAATTGATTTTTA-AGAAAA
1 TCTCAAGCAAGACAAAATTTATTTTGAGAGAAAA
858117 ATTATCTCTA
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
36 29 0.48
37 31 0.52
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.31
Consensus pattern (37 bp):
TCTCAAGCAAGACAAAATTTATTTTGAGAGAAAACTG
Found at i:858130 original size:37 final size:36
Alignment explanation
Indices: 858025--858133 Score: 139
Period size: 37 Copynumber: 3.0 Consensus size: 36
858015 AAGTAAGATG
* *
858025 AAATTTATTTTGAGAAAAATTGTCTCAAGCGAGACA
1 AAATTTGTTTTTAGAAAAATTGTCTCAAGCGAGACA
*
858061 AAATTTGTTTTTAGAGAAAACTGTCTCAAGCGAGACA
1 AAATTTGTTTTTAGA-AAAATTGTCTCAAGCGAGACA
* *
858098 AAA-TTGATTTTTAAGAAAAATTATCTCTAGCGAGAC
1 AAATTTG-TTTTT-AGAAAAATTGTCTCAAGCGAGAC
858134 GACACTTTTT
Statistics
Matches: 64, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
36 16 0.25
37 45 0.70
38 3 0.05
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.31
Consensus pattern (36 bp):
AAATTTGTTTTTAGAAAAATTGTCTCAAGCGAGACA
Found at i:859342 original size:22 final size:22
Alignment explanation
Indices: 859300--859350 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
859290 TTTTATTGTC
* *
859300 TTCTTTTATTTCTTTTATTTTG
1 TTCTTTTAGTTCTTTGATTTTG
*
859322 TTCTTTT-GTTCTTTGATTTTTT
1 TTCTTTTAGTTCTTTGA-TTTTG
859344 TTCTTTT
1 TTCTTTT
859351 TTTTCCTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 7 0.28
22 18 0.72
ACGTcount: A:0.06, C:0.10, G:0.06, T:0.78
Consensus pattern (22 bp):
TTCTTTTAGTTCTTTGATTTTG
Found at i:859360 original size:17 final size:18
Alignment explanation
Indices: 859340--859378 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
859330 TTCTTTGATT
* *
859340 TTTTTTCTTTTT-TTTCC
1 TTTTCTCTTTTTCTTTAC
859357 TTTTCTCTTTTTCTTTAC
1 TTTTCTCTTTTTCTTTAC
859375 TTTT
1 TTTT
859379 ATCCCCTCCC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTTCTCTTTTTCTTTAC
Found at i:863971 original size:3 final size:3
Alignment explanation
Indices: 863963--864002 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
863953 AATCAATTGT
*
863963 TAA TAA TAA -AA TAA TAA TAA TAG TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
864003 TTTTTCGACC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:868492 original size:65 final size:64
Alignment explanation
Indices: 868416--868539 Score: 189
Period size: 65 Copynumber: 1.9 Consensus size: 64
868406 AATGCATTTT
868416 ATGCATCGATGCACT-CAGAATT-TTATGGAAACATCGAATGCATTTTATGCATCGATGCACAGA
1 ATGCATCGATGCACTCCAGAATTGTT-T-GAAACATCGAATGCA-TTTATGCATCGATGCACAGA
868479 CC
63 CC
**
868481 ATGCATCGATGCACTCCAGGCTTGTTTGAAACATCGAATGCATTTATGCATCGATGCAC
1 ATGCATCGATGCACTCCAGAATTGTTTGAAACATCGAATGCATTTATGCATCGATGCAC
868540 CCTTAGTGCA
Statistics
Matches: 55, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
64 17 0.31
65 30 0.55
66 6 0.11
67 2 0.04
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (64 bp):
ATGCATCGATGCACTCCAGAATTGTTTGAAACATCGAATGCATTTATGCATCGATGCACAGACC
Found at i:872227 original size:3 final size:3
Alignment explanation
Indices: 872219--872292 Score: 76
Period size: 3 Copynumber: 24.0 Consensus size: 3
872209 TCATTTAAAT
** * *
872219 TTA TTA TTA TTA TTA AAA TTA TTA TTA TTA GTA TTA TTA TTA TAA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
872267 TAA TTA TAA TTA TATA TTA TTTA TTA
1 TTA TTA TTA TTA T-TA TTA -TTA TTA
872293 AATATTACAA
Statistics
Matches: 57, Mismatches: 12, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
3 51 0.89
4 6 0.11
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:876053 original size:7 final size:7
Alignment explanation
Indices: 876018--876058 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
876008 TTTTCATACA
876018 TGCATTT
1 TGCATTT
876025 T-CATTT
1 TGCATTT
876031 TGCATCTT
1 TGCAT-TT
876039 TGCATTT
1 TGCATTT
*
876046 TTCATTT
1 TGCATTT
876053 TGCATT
1 TGCATT
876059 CATACTTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
6 6 0.20
7 17 0.57
8 7 0.23
ACGTcount: A:0.15, C:0.17, G:0.10, T:0.59
Consensus pattern (7 bp):
TGCATTT
Found at i:878328 original size:2 final size:2
Alignment explanation
Indices: 878321--878354 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
878311 TTATCCTTTA
878321 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
878355 CGTTGTGCCC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:878375 original size:19 final size:19
Alignment explanation
Indices: 878351--878389 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
878341 ATATATATAT
878351 ATATCGTTGTGCCCACTTG
1 ATATCGTTGTGCCCACTTG
878370 ATATCGTTGTGCCCACTTG
1 ATATCGTTGTGCCCACTTG
878389 A
1 A
878390 GCCTGAATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.18, C:0.26, G:0.21, T:0.36
Consensus pattern (19 bp):
ATATCGTTGTGCCCACTTG
Found at i:878686 original size:26 final size:27
Alignment explanation
Indices: 878656--878709 Score: 101
Period size: 26 Copynumber: 2.0 Consensus size: 27
878646 TATTATACTC
878656 ATCCAGCAAAGAAA-GAAAAAAGAAAA
1 ATCCAGCAAAGAAAGGAAAAAAGAAAA
878682 ATCCAGCAAAGAAAGGAAAAAAGAAAA
1 ATCCAGCAAAGAAAGGAAAAAAGAAAA
878709 A
1 A
878710 AGAGGAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 14 0.52
27 13 0.48
ACGTcount: A:0.69, C:0.11, G:0.17, T:0.04
Consensus pattern (27 bp):
ATCCAGCAAAGAAAGGAAAAAAGAAAA
Found at i:878717 original size:17 final size:17
Alignment explanation
Indices: 878695--878727 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
878685 CAGCAAAGAA
878695 AGGAAAAAAGAAAAAAG
1 AGGAAAAAAGAAAAAAG
878712 AGGAAAAAAGAAAAAA
1 AGGAAAAAAGAAAAAA
878728 AAGGGAAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (17 bp):
AGGAAAAAAGAAAAAAG
Found at i:878719 original size:10 final size:9
Alignment explanation
Indices: 878698--878748 Score: 50
Period size: 10 Copynumber: 5.6 Consensus size: 9
878688 CAAAGAAAGG
878698 AAAAA-AGA
1 AAAAAGAGA
878706 AAAAAGAGGA
1 AAAAAGA-GA
*
878716 AAAAAGAAA
1 AAAAAGAGA
*
878725 AAAAAGGGA
1 AAAAAGAGA
*
878734 AAGAAATAGA
1 AA-AAAGAGA
878744 AAAAA
1 AAAAA
878749 AACAAAAAGA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
8 5 0.14
9 14 0.40
10 16 0.46
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (9 bp):
AAAAAGAGA
Found at i:878744 original size:21 final size:20
Alignment explanation
Indices: 878700--878770 Score: 67
Period size: 21 Copynumber: 3.6 Consensus size: 20
878690 AAGAAAGGAA
*
878700 AAAAGAAAAAAGA-GG-AA-
1 AAAAGAAAAAAAAGGGAAAG
878717 AAAAGAAAAAAAAGGGAAAG
1 AAAAGAAAAAAAAGGGAAAG
***
878737 AAATAGAAAAAAAACAAAAAG
1 AAA-AGAAAAAAAAGGGAAAG
878758 AAAAAGAAAAAAA
1 -AAAAGAAAAAAA
878771 TTGAATCAAG
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
17 12 0.27
18 2 0.04
19 2 0.04
20 3 0.07
21 23 0.51
22 3 0.07
ACGTcount: A:0.80, C:0.01, G:0.17, T:0.01
Consensus pattern (20 bp):
AAAAGAAAAAAAAGGGAAAG
Found at i:881189 original size:115 final size:114
Alignment explanation
Indices: 881023--881367 Score: 539
Period size: 115 Copynumber: 3.0 Consensus size: 114
881013 AGAAAGTGTC
881023 ATGTGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTG
1 ATGTGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTG
881088 ATCTGGTTTGGTATGAACCCTAAAAACCAATCATTGGATTTGAAAGATGA
66 ATCTGGTTTGGTATGAACCC-AAAAACCAATCATTGGATTTGAAAGATGA
* *
881138 ATGTGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTAGAAATGTTCTTTGAGTTATCTG
1 ATGTGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTG
*
881203 ATCTGGTTTGGTATGAACCCCAAAAACCAATCATTAGATTTGAAAGATGA
66 ATCTGGTTTGGTATGAA-CCCAAAAACCAATCATTGGATTTGAAAGATGA
* * * * *
881253 ATTTGCTCCTGGTAGAAATAAGGAGGCCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTG
1 ATGTGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTG
* * * * *
881318 ATCTGGTTCGGTAGGAA-CCACAGAACCAATCATTGGAATTAAAAGATGA
66 ATCTGGTTTGGTATGAACCCA-AAAACCAATCATTGGATTTGAAAGATGA
881367 A
1 A
881368 CTGCATGATC
Statistics
Matches: 212, Mismatches: 16, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
113 3 0.01
114 25 0.12
115 181 0.85
116 3 0.01
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (114 bp):
ATGTGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTG
ATCTGGTTTGGTATGAACCCAAAAACCAATCATTGGATTTGAAAGATGA
Found at i:884754 original size:76 final size:76
Alignment explanation
Indices: 884610--885324 Score: 1227
Period size: 76 Copynumber: 9.4 Consensus size: 76
884600 CTATTTCCCA
* * *
884610 CATCTGTAAGTCATGCAGTGCATGATGTTTCCAAAAAAGCCTTTGGGAGCTTTTTGATGTTTTCA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCC-AAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
*
884675 AA-CCTTCGGGT
65 AAGCCTTAGGGT
* *
884686 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGTTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
884751 AACCTTAGGGT
66 AGCCTTAGGGT
884762 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
884827 AGCCTTAGGGT
66 AGCCTTAGGGT
*
884838 CATCTGTAAGTCCTACAGTGCATGATGTTTCTAAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTC-CAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
884903 AAGCCTTAGGGT
65 AAGCCTTAGGGT
*
884915 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAATAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
884980 AGCCTTAGGGC
66 AGCCTTAGGGT
* *
884991 CATCTGTAAGTCTTACAGTGCATGATGTTTCCAAAAAGCCTTTGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
885056 AGCCTTAGGGT
66 AGCCTTAGGGT
*
885067 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
885132 AGCCTTAGGGT
66 AGCCTTAGGGT
885143 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
885208 A-CCTTCGGGT
66 AGCCTTAGGGT
885218 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC-A
* *
885283 AAACCTTCGGGT
65 AAGCCTTAGGGT
* *
885295 CATCTGTAAGCCCTTCAGTGCATGATGTTT
1 CATCTGTAAGTCCTACAGTGCATGATGTTT
885325 TCAACATTTC
Statistics
Matches: 613, Mismatches: 22, Indels: 7
0.95 0.03 0.01
Matches are distributed among these distances:
75 103 0.17
76 398 0.65
77 112 0.18
ACGTcount: A:0.23, C:0.19, G:0.22, T:0.35
Consensus pattern (76 bp):
CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGT
Found at i:885161 original size:305 final size:301
Alignment explanation
Indices: 884610--885324 Score: 1223
Period size: 305 Copynumber: 2.3 Consensus size: 301
884600 CTATTTCCCA
* * *
884610 CATCTGTAAGTCATGCAGTGCATGATGTTTCCAAAAAAGCCTTTGGGAGCTTTTTGATGTTTTCA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCC-AAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
* *
884675 AACCTTCGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGTTTTTT
65 AACCTTCGGGTCATCTGTAAGT-CTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
884740 GATGTTTTCAAAACCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTC
129 GATGTTTTCAAAACCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTC
884805 GGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCT
194 GGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTC-
884870 AAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGT
258 AAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA-CCTTAGGGT
*
884915 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAATAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* * *
884980 AGCCTTAGGGCCATCTGTAAGTCTTACAGTGCATGATGTTTCCAAAAAGCCTTTGGGAGCTTTTT
66 A-CCTTCGGGTCATCTGTAAGTCTT-CAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
*
885045 GATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTC
129 GATGTTTTCAAAACCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTC
* *
885110 GGGAGCTTTTTGATGTTTTTAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCC
194 GGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCA
*
885175 AAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAACCTTCGGGT
259 AAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAACCTTAGGGT
885218 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC--
*
885283 AAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTT
64 AAACCTTCGGGTCATCTGTAAG-TCTTCAGTGCATGATGTTT
885325 TCAACATTTC
Statistics
Matches: 388, Mismatches: 17, Indels: 11
0.93 0.04 0.03
Matches are distributed among these distances:
303 70 0.18
304 100 0.26
305 218 0.56
ACGTcount: A:0.23, C:0.19, G:0.22, T:0.35
Consensus pattern (301 bp):
CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
ACCTTCGGGTCATCTGTAAGTCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGA
TGTTTTCAAAACCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGG
GAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCAAA
AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAACCTTAGGGT
Found at i:885463 original size:3 final size:3
Alignment explanation
Indices: 885455--885522 Score: 73
Period size: 3 Copynumber: 22.0 Consensus size: 3
885445 TCATTTAAAT
** * * *
885455 TTA TTA TTA TTA TTA AAA TTA TTA TTA TTA GTA TTA TTA TTA TAA ATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
885503 TTA TTA TATA TTA TTTA TTA
1 TTA TTA T-TA TTA -TTA TTA
885523 AATATTACAA
Statistics
Matches: 53, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
3 47 0.89
4 6 0.11
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:885476 original size:18 final size:18
Alignment explanation
Indices: 885449--885484 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
885439 ATTTTTTCAT
*
885449 TTAAATTTATTATTATTA
1 TTAAAATTATTATTATTA
885467 TTAAAATTATTATTATTA
1 TTAAAATTATTATTATTA
885485 GTATTATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
TTAAAATTATTATTATTA
Found at i:890880 original size:15 final size:15
Alignment explanation
Indices: 890860--890889 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
890850 ATCCTACTAG
890860 TGTAAGCATAGAATT
1 TGTAAGCATAGAATT
890875 TGTAAGCATAGAATT
1 TGTAAGCATAGAATT
890890 GAAATGCTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.07, G:0.20, T:0.33
Consensus pattern (15 bp):
TGTAAGCATAGAATT
Found at i:896062 original size:2 final size:2
Alignment explanation
Indices: 896055--896088 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
896045 ATGGGAATTG
896055 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
896089 GACTGAATCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:898107 original size:2 final size:2
Alignment explanation
Indices: 898100--898126 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
898090 GGGTGTTACA
898100 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
898127 GTTCAACTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:898882 original size:21 final size:21
Alignment explanation
Indices: 898858--898900 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
898848 GATGATTTTG
* *
898858 TTTTGGTTGATGATGACTTCA
1 TTTTGATTGATGATGACATCA
*
898879 TTTTGATTGGTGATGACATCA
1 TTTTGATTGATGATGACATCA
898900 T
1 T
898901 CATTTATGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.21, C:0.09, G:0.23, T:0.47
Consensus pattern (21 bp):
TTTTGATTGATGATGACATCA
Found at i:908176 original size:10 final size:10
Alignment explanation
Indices: 908161--908185 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
908151 CAATTATAAC
908161 CTAAATGCAA
1 CTAAATGCAA
908171 CTAAATGCAA
1 CTAAATGCAA
908181 CTAAA
1 CTAAA
908186 ATGATATGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.52, C:0.20, G:0.08, T:0.20
Consensus pattern (10 bp):
CTAAATGCAA
Found at i:915410 original size:23 final size:23
Alignment explanation
Indices: 915384--915447 Score: 85
Period size: 23 Copynumber: 2.8 Consensus size: 23
915374 CAGCTCATAT
915384 AATTACACCGAAGTGCCACGTAG
1 AATTACACCGAAGTGCCACGTAG
*
915407 AATTACACC-AGAGTGCCGCGTAG
1 AATTACACCGA-AGTGCCACGTAG
* *
915430 AATTGCACCGTAGTGCCA
1 AATTACACCGAAGTGCCA
915448 TATAATAATG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
22 1 0.03
23 34 0.97
ACGTcount: A:0.31, C:0.27, G:0.23, T:0.19
Consensus pattern (23 bp):
AATTACACCGAAGTGCCACGTAG
Found at i:925777 original size:64 final size:67
Alignment explanation
Indices: 925669--925796 Score: 192
Period size: 64 Copynumber: 2.0 Consensus size: 67
925659 ATTTTCATCT
925669 TTTAATGGAGGTATGCATCGATGCACTACACCATGCATCGATGCATAAATCATATTCGATGTTTG
1 TTTAATGGAGGTATGCATCGATGCACTACACCATGCATCGATGCATAAATCATATTCGATGTTTG
925734 TA
66 TA
* * *
925736 TTTAATGG-GG-ATGCATCGATGCAGT-C-CTTATGCATCGATGCATAAATCCTATTCGATGTTT
1 TTTAATGGAGGTATGCATCGATGCACTACAC-CATGCATCGATGCATAAATCATATTCGATGTTT
925797 TCTTTTTAAA
Statistics
Matches: 57, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
63 1 0.02
64 32 0.56
65 14 0.25
66 2 0.04
67 8 0.14
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.34
Consensus pattern (67 bp):
TTTAATGGAGGTATGCATCGATGCACTACACCATGCATCGATGCATAAATCATATTCGATGTTTG
TA
Found at i:925814 original size:64 final size:63
Alignment explanation
Indices: 925681--925841 Score: 180
Period size: 64 Copynumber: 2.5 Consensus size: 63
925671 TAATGGAGGT
* * * *
925681 ATGCATCGATGCACTACACCATGCATCGATGCATAAATCATATTCGATGTTTGTATTTAATGGGG
1 ATGCATCGATGCACTCCA-TATGCATCGATGCATAAATCATATTCGATGTTTCTATTTAAT-GGA
* * * * *
925746 ATGCATCGATGCAGTCCTTATGCATCGATGCATAAATCCTATTCGATGTTTTCTTTTTAAAT-TA
1 ATGCATCGATGCACTCCATATGCATCGATGCATAAATCATATTCGATG-TTTCTATTT-AATGGA
* *
925810 ATGCATCGATGCACTGCATGTGCATCGATGCA
1 ATGCATCGATGCACTCCATATGCATCGATGCA
925842 CCTTAAACAA
Statistics
Matches: 81, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
64 56 0.69
65 22 0.27
66 3 0.04
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (63 bp):
ATGCATCGATGCACTCCATATGCATCGATGCATAAATCATATTCGATGTTTCTATTTAATGGA
Found at i:925908 original size:29 final size:29
Alignment explanation
Indices: 925866--925933 Score: 127
Period size: 29 Copynumber: 2.3 Consensus size: 29
925856 TGGGATTTAT
*
925866 CATCGATGCATCGGTGCACAATGAATGTG
1 CATCGATGCATCGGTGCACAATGAATATG
925895 CATCGATGCATCGGTGCACAATGAATATG
1 CATCGATGCATCGGTGCACAATGAATATG
925924 CATCGATGCA
1 CATCGATGCA
925934 CATTGCCCAG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.24
Consensus pattern (29 bp):
CATCGATGCATCGGTGCACAATGAATATG
Found at i:926852 original size:20 final size:21
Alignment explanation
Indices: 926814--926852 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
926804 CATCAAGGTC
*
926814 TTTGTGGAGGCCATGAAATCT
1 TTTGTCGAGGCCATGAAATCT
926835 TTTGTCGAGGCCAT-AAAT
1 TTTGTCGAGGCCATGAAAT
926853 TCCTATAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.33
Consensus pattern (21 bp):
TTTGTCGAGGCCATGAAATCT
Found at i:933361 original size:37 final size:39
Alignment explanation
Indices: 933287--933384 Score: 139
Period size: 37 Copynumber: 2.6 Consensus size: 39
933277 ATTCCCAATT
933287 CCCAAATTATTTCACCCAAACATACTAGATCTCTTTTTC
1 CCCAAATTATTTCACCCAAACATACTAGATCTCTTTTTC
* *
933326 CCCAAATTATTTCGCCC-AACAT-CTAGATCTCTTTTTT
1 CCCAAATTATTTCACCCAAACATACTAGATCTCTTTTTC
* *
933363 CCCTAATTA-TTCACCCTAACAT
1 CCCAAATTATTTCACCCAAACAT
933385 TCTAAATTAT
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
36 6 0.11
37 27 0.50
38 5 0.09
39 16 0.30
ACGTcount: A:0.29, C:0.32, G:0.03, T:0.37
Consensus pattern (39 bp):
CCCAAATTATTTCACCCAAACATACTAGATCTCTTTTTC
Found at i:933546 original size:35 final size:35
Alignment explanation
Indices: 933457--933548 Score: 109
Period size: 35 Copynumber: 2.6 Consensus size: 35
933447 CTATTTTTTT
* *
933457 TGGACTTTTAAGTTTTATCTTTGGATTATGTAATT
1 TGGACTTTTAAGTTTTATGTTTGGATTATGTAATA
*
933492 TGGA-TTTCTAA-TTTCTATGTTTGGTTTATGT-ATCA
1 TGGACTTT-TAAGTTT-TATGTTTGGATTATGTAAT-A
933527 TGGACTTTTAAGTTTTATGTTT
1 TGGACTTTTAAGTTTTATGTTT
933549 TTTCCATGGT
Statistics
Matches: 49, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
34 8 0.16
35 35 0.71
36 6 0.12
ACGTcount: A:0.21, C:0.07, G:0.17, T:0.55
Consensus pattern (35 bp):
TGGACTTTTAAGTTTTATGTTTGGATTATGTAATA
Found at i:934657 original size:18 final size:18
Alignment explanation
Indices: 934634--934682 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
934624 AAACTATATA
*
934634 TATAAACTATAT-TTGTAT
1 TATAAACTATATAAT-TAT
934652 TATAAACTATATAATTAT
1 TATAAACTATATAATTAT
*
934670 TATAAGCTATATA
1 TATAAACTATATA
934683 TAAATTATGT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 27 0.96
19 1 0.04
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.45
Consensus pattern (18 bp):
TATAAACTATATAATTAT
Found at i:934710 original size:2 final size:2
Alignment explanation
Indices: 934703--934840 Score: 128
Period size: 2 Copynumber: 70.5 Consensus size: 2
934693 TTATATGAAC
* * *
934703 TA TA TA TA TA -A AA TA TA TA TG TA TA CTA TA TA TG TA TA -A CTA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA -TA
* * * *
934745 TA -A AA TA TA TA GTT TA TA AA CTA TA -A TT TA TA T- TA -A TA TA
1 TA TA TA TA TA TA -TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA
934785 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
934826 TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
934841 TCACATGAGT
Statistics
Matches: 113, Mismatches: 12, Indels: 22
0.77 0.08 0.15
Matches are distributed among these distances:
1 7 0.06
2 101 0.89
3 5 0.04
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (2 bp):
TA
Found at i:935293 original size:2 final size:2
Alignment explanation
Indices: 935286--935360 Score: 107
Period size: 2 Copynumber: 37.5 Consensus size: 2
935276 TATGTTTAAT
* * *
935286 TA TA TA TA TA TA TA AA TT TA TG TA TA TA CT- TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA
935328 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
935361 TATCAAAGTG
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
1 1 0.02
2 63 0.97
3 1 0.02
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (2 bp):
TA
Found at i:935675 original size:2 final size:2
Alignment explanation
Indices: 935670--935849 Score: 182
Period size: 2 Copynumber: 93.0 Consensus size: 2
935660 TCTAATTACT
935670 TA TA TA TA TA TA TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
935711 TA TA TA TA TA AA CTA TA TA TA TA AA CTA TA TA AA TA GT- TA TA
1 TA TA TA TA TA TA -TA TA TA TA TA TA -TA TA TA TA TA -TA TA TA
* * *
935753 -A GT- TA TA -A TT TA TA -A TA TA TA TG TA TA TA TA TA TA TA TG
1 TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
935792 TA TC TA -A T- TA TA TA TA TA GA TA TA TA TA TA T- TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
935831 TA TA TA TA T- TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA
935850 GAGAGAGAGA
Statistics
Matches: 148, Mismatches: 16, Indels: 28
0.77 0.08 0.15
Matches are distributed among these distances:
1 10 0.07
2 135 0.91
3 3 0.02
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:935854 original size:2 final size:2
Alignment explanation
Indices: 935849--935888 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
935839 TTATATATAT
935849 AG AG AG AG AG AG AG AG AG AG AG AG AG A- AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
935889 AACTATGCAC
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:936051 original size:14 final size:14
Alignment explanation
Indices: 936022--936058 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
936012 CCATGTATAG
936022 TATATATA-AACTA
1 TATATATATAACTA
*
936035 TATATATATACCTA
1 TATATATATAACTA
936049 TATATATATA
1 TATATATATA
936059 TATACTATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 8 0.36
14 14 0.64
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.43
Consensus pattern (14 bp):
TATATATATAACTA
Found at i:936087 original size:2 final size:2
Alignment explanation
Indices: 936017--936069 Score: 52
Period size: 2 Copynumber: 25.0 Consensus size: 2
936007 ATAAACCATG
* **
936017 TA TA GTA TA TA TA AA CTA TA TA TA TA TA CC TA TA TA TA TA TA TA
1 TA TA -TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA
936061 TA CTA TA TA
1 TA -TA TA TA
936070 AAGTAAATTA
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
2 37 0.88
3 5 0.12
ACGTcount: A:0.47, C:0.08, G:0.02, T:0.43
Consensus pattern (2 bp):
TA
Found at i:936162 original size:21 final size:21
Alignment explanation
Indices: 936102--936155 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
936092 ATAGAAACCC
* *
936102 TAAATCATAAACT-CTAAACTT
1 TAAACCATAAA-TACTAAACAT
936123 TAAACCATAAATACTAAACAT
1 TAAACCATAAATACTAAACAT
*
936144 TAAACCCTAAAT
1 TAAACCATAAAT
936156 CACAAACCCT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 1 0.03
21 28 0.97
ACGTcount: A:0.52, C:0.20, G:0.00, T:0.28
Consensus pattern (21 bp):
TAAACCATAAATACTAAACAT
Found at i:936561 original size:20 final size:20
Alignment explanation
Indices: 936509--936561 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 20
936499 TAAATAATGT
*
936509 TATATAATATGTATGTATAAAC
1 TATATAA-A-GTATATATAAAC
* * *
936531 CATGTATAGTATATATAAAC
1 TATATAAAGTATATATAAAC
936551 TATATAAAGTA
1 TATATAAAGTA
936562 AATTACTTAT
Statistics
Matches: 24, Mismatches: 7, Indels: 2
0.73 0.21 0.06
Matches are distributed among these distances:
20 19 0.79
21 1 0.04
22 4 0.17
ACGTcount: A:0.47, C:0.06, G:0.09, T:0.38
Consensus pattern (20 bp):
TATATAAAGTATATATAAAC
Found at i:936660 original size:21 final size:21
Alignment explanation
Indices: 936631--936683 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
936621 TAGTTTATAA
* *
936631 AAACTCTAAACTTTAAACCAT
1 AAACACTAAACATTAAACCAT
*
936652 AAACACTAAACATTAAACCCT
1 AAACACTAAACATTAAACCAT
936673 AAATCAC-AAAC
1 AAA-CACTAAAC
936684 CCTAATGTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 25 0.89
22 3 0.11
ACGTcount: A:0.53, C:0.26, G:0.00, T:0.21
Consensus pattern (21 bp):
AAACACTAAACATTAAACCAT
Found at i:936987 original size:23 final size:22
Alignment explanation
Indices: 936935--936981 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 22
936925 TAATTTACAT
*
936935 TTAAATAATTTTATTAATTTTA
1 TTAAATAATTTTATTAATTGTA
936957 TTAAATAATTTTATATAATATGTA
1 TTAAATAATTTTAT-TAAT-TGTA
936981 T
1 T
936982 ATATAAACCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 14 0.64
23 4 0.18
24 4 0.18
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (22 bp):
TTAAATAATTTTATTAATTGTA
Found at i:937023 original size:19 final size:18
Alignment explanation
Indices: 936974--937044 Score: 88
Period size: 19 Copynumber: 3.7 Consensus size: 18
936964 ATTTTATATA
*
936974 ATATGTATATATAAACCAT
1 ATATATATATATAAACC-T
*
936993 GTATAGTATATATAAACTCT
1 ATATA-TATATATAAAC-CT
937013 ATATATATATATATAACCT
1 ATATATATATATA-AACCT
937032 ATATATATATATA
1 ATATATATATATA
937045 TATATAAACT
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
19 26 0.57
20 19 0.41
21 1 0.02
ACGTcount: A:0.46, C:0.08, G:0.04, T:0.41
Consensus pattern (18 bp):
ATATATATATATAAACCT
Found at i:937038 original size:23 final size:23
Alignment explanation
Indices: 936994--937059 Score: 91
Period size: 23 Copynumber: 2.9 Consensus size: 23
936984 ATAAACCATG
*
936994 TATAGTATATATAAAC--TCTATA
1 TATA-TATATATAAACTATATATA
*
937016 TATATATATATAACCTATATATA
1 TATATATATATAAACTATATATA
937039 TATATATATATAAACTATATA
1 TATATATATATAAACTATATA
937060 AAGTAAATTA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
21 10 0.26
22 4 0.10
23 25 0.64
ACGTcount: A:0.48, C:0.08, G:0.02, T:0.42
Consensus pattern (23 bp):
TATATATATATAAACTATATATA
Found at i:937057 original size:21 final size:21
Alignment explanation
Indices: 936968--937059 Score: 96
Period size: 21 Copynumber: 4.3 Consensus size: 21
936958 TAAATAATTT
*
936968 TATATAATATGTATATATAAAC
1 TATAT-ATATATATATATAAAC
* * *
936990 CATGTATA-GTATATATAAAC
1 TATATATATATATATATAAAC
* *
937010 TCTATATATATATATATAACC
1 TATATATATATATATATAAAC
937031 TATATATATATATATATATAAAC
1 --TATATATATATATATATAAAC
937054 TATATA
1 TATATA
937060 AAGTAAATTA
Statistics
Matches: 58, Mismatches: 9, Indels: 7
0.78 0.12 0.09
Matches are distributed among these distances:
20 17 0.29
21 19 0.33
22 3 0.05
23 19 0.33
ACGTcount: A:0.48, C:0.08, G:0.03, T:0.41
Consensus pattern (21 bp):
TATATATATATATATATAAAC
Found at i:937059 original size:2 final size:2
Alignment explanation
Indices: 937012--937050 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
937002 ATATAAACTC
**
937012 TA TA TA TA TA TA TA TA -A CC TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
937051 AACTATATAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:937151 original size:49 final size:49
Alignment explanation
Indices: 937048--937152 Score: 131
Period size: 49 Copynumber: 2.1 Consensus size: 49
937038 ATATATATAT
* * * **
937048 ATAAACTATATAAAGTAAATTACTTATATAGTTTATAGAAACATTATGC
1 ATAAACTATATAAAGTAAATAAATTATATAGTTTATAGAAACATAAACC
*
937097 ATAAACTATATAAAGT-AATAAATTATATAGTTTATAGAAACCCTAAACC
1 ATAAACTATATAAAGTAAATAAATTATATAGTTTATAGAAA-CATAAACC
*
937146 CTAAACT
1 ATAAACT
937153 TTAAACTTTA
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
48 22 0.46
49 26 0.54
ACGTcount: A:0.49, C:0.11, G:0.07, T:0.33
Consensus pattern (49 bp):
ATAAACTATATAAAGTAAATAAATTATATAGTTTATAGAAACATAAACC
Found at i:937157 original size:14 final size:14
Alignment explanation
Indices: 937140--937191 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 14
937130 ATAGAAACCC
*
937140 TAAACCCTAAACTT
1 TAAACCCTAAACAT
**
937154 TAAACTTTAAACCA-
1 TAAACCCTAAA-CAT
*
937168 TAAACACTAAACAT
1 TAAACCCTAAACAT
937182 TAAACCCTAA
1 TAAACCCTAA
937192 TGTAAATGAA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
13 2 0.07
14 27 0.90
15 1 0.03
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (14 bp):
TAAACCCTAAACAT
Found at i:937164 original size:21 final size:21
Alignment explanation
Indices: 937140--937191 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
937130 ATAGAAACCC
** *
937140 TAAACCCTAAACTTTAAACTT
1 TAAACCCTAAACACTAAACAT
*
937161 TAAACCATAAACACTAAACAT
1 TAAACCCTAAACACTAAACAT
937182 TAAACCCTAA
1 TAAACCCTAA
937192 TGTAAATGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (21 bp):
TAAACCCTAAACACTAAACAT
Found at i:937585 original size:28 final size:28
Alignment explanation
Indices: 937531--937585 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 28
937521 ATATTATATA
* * * *
937531 ATATGTATGTATAAACCATGTATAGTAT
1 ATATATATATATAAACCATATAAAGTAT
*
937559 ATATATATATATAAACTATATAAAGTA
1 ATATATATATATAAACCATATAAAGTA
937586 AATTACTTAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.47, C:0.05, G:0.09, T:0.38
Consensus pattern (28 bp):
ATATATATATATAAACCATATAAAGTAT
Found at i:937697 original size:14 final size:14
Alignment explanation
Indices: 937680--937724 Score: 65
Period size: 14 Copynumber: 3.2 Consensus size: 14
937670 CCTTAGACTT
*
937680 TAAATCATAAACAC
1 TAAATCATAAACCC
937694 TAAAT-ATTAAACCC
1 TAAATCA-TAAACCC
937708 TAAATCATAAACCC
1 TAAATCATAAACCC
937722 TAA
1 TAA
937725 TATGAATAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
13 1 0.04
14 26 0.93
15 1 0.04
ACGTcount: A:0.53, C:0.22, G:0.00, T:0.24
Consensus pattern (14 bp):
TAAATCATAAACCC
Found at i:937780 original size:533 final size:513
Alignment explanation
Indices: 936159--938044 Score: 1682
Period size: 533 Copynumber: 3.6 Consensus size: 513
936149 CCTAAATCAC
* * * *
936159 AAACCCTAATGTAAATGAACTAGCACTAATGCATATATATTTGTAATAAAAGAGTGGGTTTATGT
1 AAACCCTAATCTAAATGAACTAGCACTAATGCATATATATTTATAATAAAAGAATGGGCTTATGT
* *
936224 ATTGGGCTTATGTAAACTAATGTAAATGGAC-AGCACTAATGCAAAT-GAACTTATTTTTTG-GT
66 ATTGGGCATATGTAAACTAATGTAAATGGACTAGCACTAATACAAATAG-ACTTA-TTTTTGAGT
* *
936286 TTTATTAGTACTTATTCATAACAACAAAATAAATGGGCTATTAATGTGAATTAACCTAACATGCA
129 TTTATTATTACTTATTCATAACAACAAAATAAAAGGGCTATTAATGTGAATTAACCTAACATGCA
*
936351 ACTAAAATACTAATTATGCAAATGAAATTAATATGAAATGTACTACTATTTATGAACCATATAAT
194 ACT-AAATACTAATTATGC-AATG-AA-T--TATGACATGTACTACTATTTATGAACCATATAAT
* *
936416 ATGCAATGTGACATACTAATTATTTAACACCTAATTAATCATGTTTTATATAATTTACATTTAAA
253 ATGCAATGTGACATACTAATTATTTAACACCTAATTAATCACGTTTTATATAAATTACA-TT---
*
936481 TAATTCTATTAATTTTATTAAATAATGTTATATAATATGTATGTATAAACCATG------TATA-
314 TAA----A-TAATTTTATTAAATAATATTATATAATATGTATGTATAAACCATGTATATATATAT
* *
936539 GTATATATAAACTATATAAAGTAAATTACTTATATAGTTTATAGAAACATTATGCATAAACTATA
374 ATATATATAAACTATATAAAGTAAATTACTTATATAGTTTATAGAAACATTATGCATAAACGATA
* * * ** * **
936604 TAAAGTAATAAATTATATAGTTTATAAAAACTCTAAACTTTAAACCATAAACACTAAA-CATTAA
439 TAAAGTAATAAA-TATATAGTTTATAGAAACCCAAAACCCTAAACCTTAAACTTTAAACCA-TAA
* *
936668 ACCCTAAATCA-C
502 ACACTAAA-CATT
* * ** *
936680 AAACCCTAATGTAAATGAACTAACACTAATG--TATATA--TATAAT-GCA-AATGGACTTAT-T
1 AAACCCTAATCTAAATGAACTAGCACTAATGCATATATATTTATAATAAAAGAATGGGCTTATGT
* ** * * * * * * * * **
936738 TTTGGGTTTTAT-TATTACTTAT-T-CAT-AAC-A--AC-AAAATAAATGGGC-TATTAAT--G-
66 ATTGGG-CATATGTA-AACTAATGTAAATGGACTAGCACTAATACAAATAGACTTATTTTTGAGT
** * * * * * * ** ** *
936791 TGAATTA--ACCTA-ACAT-GCAACTAAAATACTAA---TTATGAAAATGAAATTAATATGACAT
129 TTTATTATTACTTATTCATAACAAC-AAAATA-AAAGGGCTATTAATGTG-AATTAACCTAACAT
* * * * * ** * * *
936849 G-TACT-ACTATTTATGAACCATAT-AA-TATG-CAATGTGACATACTAATTATTTAACACCTA-
191 GCAACTAAATACTAATTATGCA-ATGAATTATGAC-ATGT-AC-TACTATTTA-TGAAC-CATAT
* *** * * *
936908 ATTAAT-C-ATGTTTTATA-TAATTTACATTTAA-A--TAATTTTATTA-ATTTTAT-TAAA-TA
250 AAT-ATGCAATGTGACATACTAA-TT--ATTTAACACCTAA-TTAATCACGTTTTATATAAATTA
* * * ** * * *
936964 -ATTTTATATAATATGTA-TATATAA-ACCATGT-ATA-GTATATATAAACTCTATATATATATA
310 CA-TTTAAATAAT-TTTATTAAATAATATTATATAATATGTATGTATAAAC-C---ATGTATATA
*
937024 TATAACCTATATATATATATATATATAAACTATATAAAGTAAATTACTTATATAGTTTATAGAAA
369 TAT-A--TATATATATA-A-A-CTAT-------ATAAAGTAAATTACTTATATAGTTTATAGAAA
* * *
937089 CATTATGCATAAACTATATAAAGTAATAAATTATATAGTTTATAGAAACCCTAAACCCTAAACTT
421 CATTATGCATAAACGATATAAAGTAATAAA-TATATAGTTTATAGAAACCCAAAACCCTAAACCT
937154 TAAACTTTAAACCATAAACACTAAACATT
485 TAAACTTTAAACCATAAACACTAAACATT
* *
937183 AAACCCTAATGTAAATGAACTAGCACTAATGCATATATATTTATAATAAAAGAGTGGGCTTATGT
1 AAACCCTAATCTAAATGAACTAGCACTAATGCATATATATTTATAATAAAAGAATGGGCTTATGT
* * *
937248 ATTGGGTC-TATGTAAACTAATGTAAATGGACTAGCTCTAATGCAAATGGACTTAATTTTT-AGT
66 ATTGGG-CATATGTAAACTAATGTAAATGGACTAGCACTAATACAAATAGACTT-ATTTTTGAGT
* *
937311 TTTATTATTACTTATTCATAACAACAAAATAAATGGGTTATTAATGTGAATTAACCTAACATGCA
129 TTTATTATTACTTATTCATAACAACAAAATAAAAGGGCTATTAATGTGAATTAACCTAACATGCA
937376 ACTAAAATACTAATTATGCAAATGAAATTAATATGACATGTACTACTATTTATGAACCATATAAT
194 ACT-AAATACTAATTATGC-AATG-AA-T--TATGACATGTACTACTATTTATGAACCATATAAT
*
937441 ATGCAATGTGACATACTAATTATTTAACACCTAATTAATCATGTTTTAGT-TAAATTACATTTAA
253 ATGCAATGTGACATACTAATTATTTAACACCTAATTAATCACGTTTTA-TATAAATTACATTTAA
937505 ATAATTTTATTAAATAATATTATATAATATGTATGTATAAACCATGTATAGTATATATATATATA
317 ATAATTTTATTAAATAATATTATATAATATGTATGTATAAACCATGTATA-TATATATATATATA
937570 TAAACTATATAAAGTAAATTACTTATATAGTTTATAGAAACATTATGCATAAACGATATAAAGTA
381 TAAACTATATAAAGTAAATTACTTATATAGTTTATAGAAACATTATGCATAAACGATATAAAGTA
* ** * * *
937635 ATAAA-ATGTTTTTTATAGAAACCCAAAACCCTAAACCTTAGACTTTAAATCATAAACACTAAAT
446 ATAAATATATAGTTTATAGAAACCCAAAACCCTAAACCTTAAACTTTAAACCATAAACACTAAAC
937699 ATT
511 ATT
*
937702 AAACCCTAAATCATAAACCCTAATATGAATAGACTAGCACTAATGCATATATATTTGTAATAAAA
1 AAACCCT--A--AT-----CTAA-ATG---A-ACTAGCACTAATGCATATATATTTATAATAAAA
*
937767 GAATGGGCTTATGTATTGGGCATATGTAAACTAATGTAAATGGACTAGCACTAATATAAATAGAC
52 GAATGGGCTTATGTATTGGGCATATGTAAACTAATGTAAATGGACTAGCACTAATACAAATAGAC
*
937832 TTATTTTTGGGTTTTATTATTACTTATTCATAACAACAAAATAAAAGGGCTATTAATGTGAATTA
117 TTATTTTTGAGTTTTATTATTACTTATTCATAACAACAAAATAAAAGGGCTATTAATGTGAATTA
*
937897 ACCTAATATGCAACTAAATACTAATTATGCAATGAATTATGACATGTACTACTATTTATGAACCA
182 ACCTAACATGCAACTAAATACTAATTATGCAATGAATTATGACATGTACTACTATTTATGAACCA
* *
937962 TATAATATGTAATGTGACATACTAATTATTTAACACCTAATTAATCACGTTTTATATAATTTACA
247 TATAATATGCAATGTGACATACTAATTATTTAACACCTAATTAATCACGTTTTATATAAATTACA
938027 TTTAAATAATTTTATTAA
312 TTTAAATAATTTTATTAA
938045 TTTTATTAAA
Statistics
Matches: 1098, Mismatches: 153, Indels: 222
0.75 0.10 0.15
Matches are distributed among these distances:
479 11 0.01
480 4 0.00
481 3 0.00
482 10 0.01
483 6 0.01
487 2 0.00
489 3 0.00
490 5 0.00
491 2 0.00
492 11 0.01
493 22 0.02
494 23 0.02
495 9 0.01
496 16 0.01
497 1 0.00
498 10 0.01
500 10 0.01
501 16 0.01
502 11 0.01
503 145 0.13
504 2 0.00
505 11 0.01
506 1 0.00
507 9 0.01
508 3 0.00
509 24 0.02
510 13 0.01
511 2 0.00
512 5 0.00
513 3 0.00
514 9 0.01
515 18 0.02
516 10 0.01
517 6 0.01
518 4 0.00
519 68 0.06
520 5 0.00
521 92 0.08
522 5 0.00
523 11 0.01
524 16 0.01
525 11 0.01
526 1 0.00
527 116 0.11
528 7 0.01
529 18 0.02
530 11 0.01
531 36 0.03
532 36 0.03
533 182 0.17
534 23 0.02
535 5 0.00
536 4 0.00
537 11 0.01
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.36
Consensus pattern (513 bp):
AAACCCTAATCTAAATGAACTAGCACTAATGCATATATATTTATAATAAAAGAATGGGCTTATGT
ATTGGGCATATGTAAACTAATGTAAATGGACTAGCACTAATACAAATAGACTTATTTTTGAGTTT
TATTATTACTTATTCATAACAACAAAATAAAAGGGCTATTAATGTGAATTAACCTAACATGCAAC
TAAATACTAATTATGCAATGAATTATGACATGTACTACTATTTATGAACCATATAATATGCAATG
TGACATACTAATTATTTAACACCTAATTAATCACGTTTTATATAAATTACATTTAAATAATTTTA
TTAAATAATATTATATAATATGTATGTATAAACCATGTATATATATATATATATATAAACTATAT
AAAGTAAATTACTTATATAGTTTATAGAAACATTATGCATAAACGATATAAAGTAATAAATATAT
AGTTTATAGAAACCCAAAACCCTAAACCTTAAACTTTAAACCATAAACACTAAACATT
Found at i:940956 original size:23 final size:22
Alignment explanation
Indices: 940913--940960 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 22
940903 AATTATATTC
940913 CTTTTCTTTTCTTTATTTTCTCT
1 CTTTTCTTTTCTTTATTTTCT-T
940936 CTTTTCTTTAT-TTT-TTATTCTT
1 CTTTTCTTT-TCTTTATT-TTCTT
940958 CTT
1 CTT
940961 CCACCTTCCA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
22 6 0.26
23 16 0.70
24 1 0.04
ACGTcount: A:0.06, C:0.19, G:0.00, T:0.75
Consensus pattern (22 bp):
CTTTTCTTTTCTTTATTTTCTT
Found at i:941260 original size:2 final size:2
Alignment explanation
Indices: 941253--941319 Score: 134
Period size: 2 Copynumber: 33.5 Consensus size: 2
941243 TGTAGAATTT
941253 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
941295 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
941320 CGAGTGACCT
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 65 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:947795 original size:20 final size:22
Alignment explanation
Indices: 947762--947809 Score: 64
Period size: 20 Copynumber: 2.3 Consensus size: 22
947752 ATCCAACACG
*
947762 AAATAGTATATTTATT-AA-AA
1 AAATATTATATTTATTCAATAA
*
947782 AAATATTATTTTTATTCAATAA
1 AAATATTATATTTATTCAATAA
947804 AAATAT
1 AAATAT
947810 GGATTTAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 14 0.58
21 2 0.08
22 8 0.33
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (22 bp):
AAATATTATATTTATTCAATAA
Done.