Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008082.1 Hibiscus syriacus cultivar Beakdansim tig00110584_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: 6025995
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 21 of 28
Found at i:4275624 original size:36 final size:37
Alignment explanation
Indices: 4275556--4275626 Score: 99
Period size: 36 Copynumber: 1.9 Consensus size: 37
4275546 CACCTATAGG
*
4275556 GTGTATCGATACACCTATAGGGTGTATCGATACACCA
1 GTGTATCGATACACCTACAGGGTGTATCGATACACCA
* * *
4275593 GTGTATGGATACA-CTGCAGGGTGTATGGATACAC
1 GTGTATCGATACACCTACAGGGTGTATCGATACAC
4275627 TGTAGGGTGT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
36 18 0.60
37 12 0.40
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.27
Consensus pattern (37 bp):
GTGTATCGATACACCTACAGGGTGTATCGATACACCA
Found at i:4275890 original size:35 final size:35
Alignment explanation
Indices: 4275851--4275927 Score: 127
Period size: 35 Copynumber: 2.2 Consensus size: 35
4275841 AAAATACTTT
*
4275851 AATTTTGGGTTTATAATGTAATTGAAATATTTTGG
1 AATTTTGGGTTTAGAATGTAATTGAAATATTTTGG
* *
4275886 AATTTTGGGTTTAGAATGTAATTGAAGTGTTTTGG
1 AATTTTGGGTTTAGAATGTAATTGAAATATTTTGG
4275921 AATTTTG
1 AATTTTG
4275928 AACATGAATT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.29, C:0.00, G:0.23, T:0.48
Consensus pattern (35 bp):
AATTTTGGGTTTAGAATGTAATTGAAATATTTTGG
Found at i:4278429 original size:45 final size:45
Alignment explanation
Indices: 4278378--4278467 Score: 153
Period size: 45 Copynumber: 2.0 Consensus size: 45
4278368 TCACCCATAT
* *
4278378 CAATTGTTTAAAGGAAAAGCAATAATATTTGAGTTAGAGATTTGA
1 CAATTGTTTAAACGAAAAGCAATAATACTTGAGTTAGAGATTTGA
*
4278423 CAATTGTTTGAACGAAAAGCAATAATACTTGAGTTAGAGATTTGA
1 CAATTGTTTAAACGAAAAGCAATAATACTTGAGTTAGAGATTTGA
4278468 ACATGAGATT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.41, C:0.07, G:0.20, T:0.32
Consensus pattern (45 bp):
CAATTGTTTAAACGAAAAGCAATAATACTTGAGTTAGAGATTTGA
Found at i:4283686 original size:20 final size:22
Alignment explanation
Indices: 4283666--4283732 Score: 66
Period size: 22 Copynumber: 3.0 Consensus size: 22
4283656 AATTAAATAT
*
4283666 ATATTTTAAA-ATATTTTTATA
1 ATATTATAAATATATTTTTATA
*
4283687 ATATTATAAATATATTTTTAGA
1 ATATTATAAATATATTTTTATA
* *
4283709 ATGATT-TAATATAAAATTTTATA
1 AT-ATTATAA-ATATATTTTTATA
4283732 A
1 A
4283733 AAATATATAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
21 9 0.24
22 15 0.39
23 14 0.37
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (22 bp):
ATATTATAAATATATTTTTATA
Found at i:4285210 original size:31 final size:32
Alignment explanation
Indices: 4285172--4285248 Score: 95
Period size: 32 Copynumber: 2.4 Consensus size: 32
4285162 TTTTTATTAT
*
4285172 TTCGGGTCGGGTCGG-GTTTCTAATTCAT-ATA
1 TTCGGGTCGGGTCGGTGTTTCTAAGT-ATGATA
* * *
4285203 TTCGGGTCGGGTCGGTTTTTTTAAGTGTGATA
1 TTCGGGTCGGGTCGGTGTTTCTAAGTATGATA
4285235 TTCGGGTCGGGTCG
1 TTCGGGTCGGGTCG
4285249 AGTTCGGATT
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
31 16 0.40
32 24 0.60
ACGTcount: A:0.12, C:0.14, G:0.35, T:0.39
Consensus pattern (32 bp):
TTCGGGTCGGGTCGGTGTTTCTAAGTATGATA
Found at i:4288928 original size:16 final size:17
Alignment explanation
Indices: 4288906--4288947 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
4288896 AGAAAAAATA
*
4288906 AAAATATTATAAT-TTT
1 AAAATATTAGAATGTTT
* *
4288922 GAAATATAAGAATGTTT
1 AAAATATTAGAATGTTT
4288939 AAAATATTA
1 AAAATATTA
4288948 AATCTATAAA
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.40
Consensus pattern (17 bp):
AAAATATTAGAATGTTT
Found at i:4289173 original size:23 final size:24
Alignment explanation
Indices: 4289132--4289177 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
4289122 TTGAATTAAA
4289132 TAAATATTATAAAAAATAAAATTT
1 TAAATATTATAAAAAATAAAATTT
4289156 TAAAT-TT-TAAAAATATAAAATT
1 TAAATATTATAAAAA-ATAAAATT
4289178 AAAATTTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 6 0.29
23 10 0.48
24 5 0.24
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (24 bp):
TAAATATTATAAAAAATAAAATTT
Found at i:4289182 original size:22 final size:24
Alignment explanation
Indices: 4289133--4289189 Score: 64
Period size: 23 Copynumber: 2.4 Consensus size: 24
4289123 TGAATTAAAT
* *
4289133 AAATATTATAAAAAATAAAATTTT
1 AAATTTTATAAAAAATAAAATTTA
*
4289157 AAATTTTA-AAAATATAAAA-TTA
1 AAATTTTATAAAAAATAAAATTTA
4289179 AAATTTATATA
1 AAATTT-TATA
4289190 TAAATTATCA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
22 8 0.29
23 12 0.43
24 8 0.29
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (24 bp):
AAATTTTATAAAAAATAAAATTTA
Found at i:4290417 original size:14 final size:15
Alignment explanation
Indices: 4290398--4290428 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
4290388 AAAATAGAAA
4290398 AATAG-AAAAAATAT
1 AATAGAAAAAAATAT
4290412 AATAGAAAAAAATAT
1 AATAGAAAAAAATAT
4290427 AA
1 AA
4290429 AAAATGAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.19
Consensus pattern (15 bp):
AATAGAAAAAAATAT
Found at i:4290449 original size:4 final size:4
Alignment explanation
Indices: 4290440--4290504 Score: 51
Period size: 4 Copynumber: 15.8 Consensus size: 4
4290430 AAATGAACCA
* * * * *
4290440 AAAT AAAT AATT AAAAT AAAA AAAT AAA- AAAT AAAT CAAAG AAGT AAAA
1 AAAT AAAT AAAT -AAAT AAAT AAAT AAAT AAAT AAAT -AAAT AAAT AAAT
4290489 AAAT GAAAT AAAT AAA
1 AAAT -AAAT AAAT AAA
4290505 AAAGGTAAAA
Statistics
Matches: 47, Mismatches: 10, Indels: 8
0.72 0.15 0.12
Matches are distributed among these distances:
3 3 0.06
4 34 0.72
5 10 0.21
ACGTcount: A:0.75, C:0.02, G:0.05, T:0.18
Consensus pattern (4 bp):
AAAT
Found at i:4290488 original size:26 final size:26
Alignment explanation
Indices: 4290439--4290516 Score: 72
Period size: 28 Copynumber: 2.9 Consensus size: 26
4290429 AAAATGAACC
4290439 AAAATAAATAATTAAAA--TAAAAAAAT
1 AAAATAAATAA--AAAAGGTAAAAAAAT
*
4290465 AAAAAATAAATCAAAGAA-GTAAAAAAAT
1 --AAAATAAAT-AAAAAAGGTAAAAAAAT
*
4290493 GAAATAAATAAAAAAGGTAAAAAA
1 AAAATAAATAAAAAAGGTAAAAAA
4290517 TGTTAAATTT
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
25 5 0.11
26 16 0.36
27 3 0.07
28 18 0.41
29 2 0.05
ACGTcount: A:0.76, C:0.01, G:0.06, T:0.17
Consensus pattern (26 bp):
AAAATAAATAAAAAAGGTAAAAAAAT
Found at i:4290851 original size:13 final size:12
Alignment explanation
Indices: 4290826--4290864 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
4290816 AAAAAAAAGT
4290826 AAATAAGAATAA
1 AAATAAGAATAA
4290838 AAATAAGAAATAAA
1 AAATAAG-AAT-AA
4290852 AAATAA-AATAA
1 AAATAAGAATAA
4290863 AA
1 AA
4290865 TAACACAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
11 4 0.16
12 10 0.40
13 3 0.12
14 8 0.32
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.15
Consensus pattern (12 bp):
AAATAAGAATAA
Found at i:4292164 original size:38 final size:37
Alignment explanation
Indices: 4292081--4292206 Score: 109
Period size: 39 Copynumber: 3.4 Consensus size: 37
4292071 AACGTTTTCA
* * **
4292081 AAACTATATATCATATAGTTTT-CAAAA-ATAATTTT
1 AAACTATATATTATATAGTTTTCCAAAATGTTTTTTT
4292116 AAA--A-ATATTATATACGTTTTCCAAAATGTTTTTTT
1 AAACTATATATTATATA-GTTTTCCAAAATGTTTTTTT
* * *
4292151 AAACTATATATTATATAAATTTTTCAAAAATGTTTTTTAA
1 AAACTATATATTATAT--AGTTTTCCAAAATGTTTTTT-T
*
4292191 AAACTATACATTATAT
1 AAACTATATATTATAT
4292207 TTTCAAAATG
Statistics
Matches: 74, Mismatches: 8, Indels: 13
0.78 0.08 0.14
Matches are distributed among these distances:
32 9 0.12
33 6 0.08
34 5 0.07
35 11 0.15
37 1 0.01
38 9 0.12
39 17 0.23
40 16 0.22
ACGTcount: A:0.44, C:0.08, G:0.03, T:0.45
Consensus pattern (37 bp):
AAACTATATATTATATAGTTTTCCAAAATGTTTTTTT
Found at i:4292304 original size:107 final size:107
Alignment explanation
Indices: 4292068--4292314 Score: 256
Period size: 107 Copynumber: 2.3 Consensus size: 107
4292058 TATTATATTT
* ** *
4292068 AAAAACGTTTTC-AAAACTATATATCATATAGTTTTCAAAAATAATTTTAAAAATATTATATACG
1 AAAAACGTTTTCAAAAACTATACAT-ATATAGTTTTCAAAAATAATTCAAAAAATATTATATACA
* *
4292132 TTTTCCAAAATGTTTTTTTAAACTATATATTATATAAATTTTTC
65 TTTTCCAAAATG-TTTTTAAAACTATATATTATATAAAGTTTTC
* * *
4292176 AAAAATGTTTTTTAAAAACTATACAT-TATA-TTTTC-AAAATGATTACAAAAATATATGTTATA
1 AAAAACG-TTTTCAAAAACTATACATATATAGTTTTCAAAAATAATT-CAAAAA-ATA--TTATA
*
4292238 TA-ATTTT-CAAAATG-TTTTAAAACTTATATATTGTATATAAGTTTTC
61 TACATTTTCCAAAATGTTTTTAAAAC-TATATATTATATA-AAGTTTTC
*
4292284 AAAAACGTTTTCAAAAACTATATAATATATA
1 AAAAACGTTTTCAAAAACTATA-CATATATA
4292315 TATTTTCGGA
Statistics
Matches: 116, Mismatches: 13, Indels: 19
0.78 0.09 0.13
Matches are distributed among these distances:
106 16 0.14
107 35 0.30
108 35 0.30
109 12 0.10
110 18 0.16
ACGTcount: A:0.45, C:0.08, G:0.04, T:0.43
Consensus pattern (107 bp):
AAAAACGTTTTCAAAAACTATACATATATAGTTTTCAAAAATAATTCAAAAAATATTATATACAT
TTTCCAAAATGTTTTTAAAACTATATATTATATAAAGTTTTC
Found at i:4292560 original size:5 final size:5
Alignment explanation
Indices: 4292550--4292575 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
4292540 TAAGGCTCTG
4292550 AATTT AATTT AATTT AATTT AATTT A
1 AATTT AATTT AATTT AATTT AATTT A
4292576 TGATCCATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
AATTT
Found at i:4303780 original size:16 final size:16
Alignment explanation
Indices: 4303759--4303792 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
4303749 TGTCTTTCTT
4303759 AAAAATATTATATAAA
1 AAAAATATTATATAAA
4303775 AAAAATATTATATAAA
1 AAAAATATTATATAAA
4303791 AA
1 AA
4303793 TCATTATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
AAAAATATTATATAAA
Found at i:4308827 original size:14 final size:13
Alignment explanation
Indices: 4308809--4308833 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4308799 AGGAGGTTTG
4308809 GAAAAAAATATTT
1 GAAAAAAATATTT
4308822 GAAAAAAATATT
1 GAAAAAAATATT
4308834 ATCAACATGG
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:0.64, C:0.00, G:0.08, T:0.28
Consensus pattern (13 bp):
GAAAAAAATATTT
Found at i:4308873 original size:13 final size:13
Alignment explanation
Indices: 4308855--4308879 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4308845 TAACTAATAC
4308855 ATTATTTTTATTA
1 ATTATTTTTATTA
4308868 ATTATTTTTATT
1 ATTATTTTTATT
4308880 TTATTTATGT
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:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
ATTATTTTTATTA
Found at i:4310999 original size:33 final size:33
Alignment explanation
Indices: 4310962--4311024 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
4310952 GATCTTCACC
*
4310962 TAGTTTCTCTCGAACACTAACTATTGAACCACT
1 TAGTTTCTCTCGAACACTAACTAGTGAACCACT
* *
4310995 TAGTTTCTCTTGAACACTAAGTAGTGAACC
1 TAGTTTCTCTCGAACACTAACTAGTGAACC
4311025 TAAGAAACAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.30, C:0.24, G:0.13, T:0.33
Consensus pattern (33 bp):
TAGTTTCTCTCGAACACTAACTAGTGAACCACT
Found at i:4317808 original size:105 final size:105
Alignment explanation
Indices: 4317514--4317819 Score: 425
Period size: 105 Copynumber: 2.9 Consensus size: 105
4317504 AAGGTTGAAC
4317514 AAGTTCTTCTCATTATGAACTTCTTCTCCTTTAGGACGAGTTCTTCTCATTATGAACTCTTCTGG
1 AAGTTCTTCTCATTATGAAC-T-TTCTCCTTTAGGACGAGTTCTTCTCATTATGAACTCTTCTGG
* ** * *
4317579 AAATGTTGATTCACCTAATTCTGAGGTGAATTTGAAAGGAAC
64 AAATGTTGGTTCACCTCCTTCTGAGGTGGATTTGAAAGGAAA
* * * * * *
4317621 AGGCTCTTCTCATTACGAACCTTCTCCTTTAAGACGAGTTCATCTCATTATGAACTCTTCTGGAA
1 AAGTTCTTCTCATTATGAACTTTCTCCTTTAGGACGAGTTCTTCTCATTATGAACTCTTCTGGAA
** *
4317686 ATGTTGGTTCATATCCTTCTGGGGTGGATTTGAAAGGAAA
66 ATGTTGGTTCACCTCCTTCTGAGGTGGATTTGAAAGGAAA
* * *
4317726 AAGTTCTTTTCATTATGAACTTTCTCCTTTAGGGCGAGTTCTTCTCATTATGAACTCTTCTTGAA
1 AAGTTCTTCTCATTATGAACTTTCTCCTTTAGGACGAGTTCTTCTCATTATGAACTCTTCTGGAA
4317791 ATGTTGGTTCACCTCCTTCT-ACGGTGGAT
66 ATGTTGGTTCACCTCCTTCTGA-GGTGGAT
4317820 CATAGTTGTT
Statistics
Matches: 172, Mismatches: 26, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
105 155 0.90
107 17 0.10
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.39
Consensus pattern (105 bp):
AAGTTCTTCTCATTATGAACTTTCTCCTTTAGGACGAGTTCTTCTCATTATGAACTCTTCTGGAA
ATGTTGGTTCACCTCCTTCTGAGGTGGATTTGAAAGGAAA
Found at i:4318772 original size:7 final size:7
Alignment explanation
Indices: 4318745--4318820 Score: 57
Period size: 7 Copynumber: 10.6 Consensus size: 7
4318735 AGAACCCTTA
4318745 TTTTTCT
1 TTTTTCT
4318752 TTTTAT-T
1 TTTT-TCT
4318759 TTATTTCT
1 TT-TTTCT
4318767 TTTTTCT
1 TTTTTCT
*
4318774 ATTTTTCA
1 -TTTTTCT
*
4318782 TTCTT-T
1 TTTTTCT
*
4318788 TTTTTCA
1 TTTTTCT
*
4318795 TTTTTCA
1 TTTTTCT
4318802 TTTTTCAT
1 TTTTTC-T
*
4318810 TTTCTCT
1 TTTTTCT
4318817 TTTT
1 TTTT
4318821 CATTCATTCT
Statistics
Matches: 55, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
6 4 0.07
7 34 0.62
8 17 0.31
ACGTcount: A:0.09, C:0.13, G:0.00, T:0.78
Consensus pattern (7 bp):
TTTTTCT
Found at i:4318790 original size:21 final size:21
Alignment explanation
Indices: 4318766--4318825 Score: 79
Period size: 21 Copynumber: 2.9 Consensus size: 21
4318756 ATTTTATTTC
4318766 TTTTTTCTATTTTTCATTCTT
1 TTTTTTCTATTTTTCATTCTT
4318787 TTTTTTC-ATTTTTCATT-TT
1 TTTTTTCTATTTTTCATTCTT
* *
4318806 TCATTTTCTCTTTTTCATTC
1 T-TTTTTCTATTTTTCATTC
4318826 ATTCTTCCTT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
19 3 0.09
20 15 0.44
21 16 0.47
ACGTcount: A:0.10, C:0.17, G:0.00, T:0.73
Consensus pattern (21 bp):
TTTTTTCTATTTTTCATTCTT
Found at i:4318791 original size:20 final size:20
Alignment explanation
Indices: 4318766--4318825 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 20
4318756 ATTTTATTTC
4318766 TTTTTTCTATTTTTCATTCT
1 TTTTTTCTATTTTTCATTCT
4318786 TTTTTT-TCATTTTTCATT-T
1 TTTTTTCT-ATTTTTCATTCT
*
4318805 TTCATTTTCTCTTTTTCATTC
1 TT--TTTTCTATTTTTCATTC
4318826 ATTCTTCCTT
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
19 4 0.12
20 16 0.47
21 13 0.38
22 1 0.03
ACGTcount: A:0.10, C:0.17, G:0.00, T:0.73
Consensus pattern (20 bp):
TTTTTTCTATTTTTCATTCT
Found at i:4318813 original size:6 final size:7
Alignment explanation
Indices: 4318762--4318824 Score: 69
Period size: 7 Copynumber: 9.0 Consensus size: 7
4318752 TTTTATTTTA
*
4318762 TTTCTTT
1 TTTCATT
4318769 TTTCTATT
1 TTTC-ATT
4318777 TTTCATT
1 TTTCATT
4318784 CTTT--TT
1 -TTTCATT
4318790 TTTCATT
1 TTTCATT
4318797 TTTCATT
1 TTTCATT
4318804 TTTCATT
1 TTTCATT
4318811 TTCTC-TT
1 TT-TCATT
4318818 TTTCATT
1 TTTCATT
4318825 CATTCTTCCT
Statistics
Matches: 49, Mismatches: 1, Indels: 12
0.79 0.02 0.19
Matches are distributed among these distances:
5 3 0.06
6 4 0.08
7 31 0.63
8 11 0.22
ACGTcount: A:0.10, C:0.16, G:0.00, T:0.75
Consensus pattern (7 bp):
TTTCATT
Found at i:4318819 original size:28 final size:27
Alignment explanation
Indices: 4318743--4318824 Score: 85
Period size: 28 Copynumber: 2.9 Consensus size: 27
4318733 CTAGAACCCT
* *
4318743 TATTTTTCTTTTTATTTTATTTCTTTTTTC
1 TATTTTTC-ATTT-TTTT-TTTCATTTTTC
4318773 TATTTTTCATTCTTTTTTTTCATTTTTC
1 TATTTTTCATT-TTTTTTTTCATTTTTC
4318801 -ATTTTTCATTTTCTCTTTTTCATT
1 TATTTTTCATTTT-T-TTTTTCATT
4318825 CATTCTTCCT
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
26 2 0.04
27 11 0.23
28 19 0.40
29 6 0.13
30 9 0.19
ACGTcount: A:0.11, C:0.13, G:0.00, T:0.76
Consensus pattern (27 bp):
TATTTTTCATTTTTTTTTTCATTTTTC
Found at i:4329969 original size:2 final size:2
Alignment explanation
Indices: 4329962--4329994 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
4329952 GGTTGGAAAA
4329962 AT AT AT AT A- 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
4329995 GATTAATTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4331730 original size:65 final size:66
Alignment explanation
Indices: 4331596--4331723 Score: 152
Period size: 65 Copynumber: 2.0 Consensus size: 66
4331586 AAGGTATCGG
* * ** ** *
4331596 TACCCTATGAAGGGGTATCGATACTCCCTTTTAATGAAAAATTACATAATGTCAGTATGGTATAG
1 TACCCTATGAAGGGGTATCGATACGCCCCTGAAATGAAAAATTACATAATGTCAACAGGGTATAG
4331661 A
66 A
* *
4331662 TACCCTAT-AGGGGGTATCGATACGCCCCTGAAGATG-AAAATTTCATAATGTCAACAGGGTAT
1 TACCCTATGAAGGGGTATCGATACGCCCCTGAA-ATGAAAAATTACATAATGTCAACAGGGTAT
4331724 CTATACCATA
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
65 41 0.79
66 11 0.21
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (66 bp):
TACCCTATGAAGGGGTATCGATACGCCCCTGAAATGAAAAATTACATAATGTCAACAGGGTATAG
A
Found at i:4331763 original size:20 final size:20
Alignment explanation
Indices: 4331715--4331770 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
4331705 CATAATGTCA
*
4331715 ACAGGGTATCTATACCATAC
1 ACAGAGTATCTATACCATAC
* *
4331735 ATA-AGGTATCTATACCATAG
1 ACAGA-GTATCTATACCATAC
4331755 ACAGAGTATCTATACC
1 ACAGAGTATCTATACC
4331771 TCAGTTAGGG
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
20 29 0.97
21 1 0.03
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.27
Consensus pattern (20 bp):
ACAGAGTATCTATACCATAC
Found at i:4332516 original size:21 final size:21
Alignment explanation
Indices: 4332487--4332543 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
4332477 GGGTTTAATA
* * *
4332487 GGTCCTTCGAGACAATACTGT
1 GGTCATTCGGGACAATACAGT
4332508 GGTCATTCGGGACAATACAGT
1 GGTCATTCGGGACAATACAGT
* *
4332529 GCTCTTTCGGGACAA
1 GGTCATTCGGGACAA
4332544 ATTTCATATG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (21 bp):
GGTCATTCGGGACAATACAGT
Found at i:4333869 original size:15 final size:15
Alignment explanation
Indices: 4333849--4333891 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
4333839 AAAAGTTACG
4333849 TATCAAAATTAATAT
1 TATCAAAATTAATAT
*
4333864 TATCAAGA-TAA-AT
1 TATCAAAATTAATAT
*
4333877 TATCACAATTAATAT
1 TATCAAAATTAATAT
4333892 CAATTAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
13 8 0.35
14 6 0.26
15 9 0.39
ACGTcount: A:0.51, C:0.09, G:0.02, T:0.37
Consensus pattern (15 bp):
TATCAAAATTAATAT
Found at i:4333911 original size:23 final size:22
Alignment explanation
Indices: 4333883--4333927 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 22
4333873 AAATTATCAC
*
4333883 AATTAATATCAATTAAAAATTAA
1 AATTAATACCAA-TAAAAATTAA
4333906 AATTAATACCAATAAAAATTAA
1 AATTAATACCAATAAAAATTAA
4333928 TGGTTAGTCC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.31
Consensus pattern (22 bp):
AATTAATACCAATAAAAATTAA
Found at i:4334473 original size:20 final size:21
Alignment explanation
Indices: 4334450--4334499 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
4334440 GGGTTTAATA
*
4334450 GGTCCTTCGAGACAATAC-GT
1 GGTCATTCGAGACAATACAGT
* *
4334470 GGTCATTCGGGATAATACAGT
1 GGTCATTCGAGACAATACAGT
*
4334491 GGTCTTTCG
1 GGTCATTCG
4334500 GGAAAATTTC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 15 0.60
21 10 0.40
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (21 bp):
GGTCATTCGAGACAATACAGT
Found at i:4334494 original size:21 final size:20
Alignment explanation
Indices: 4334463--4334502 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
4334453 CCTTCGAGAC
4334463 AATACGTGGTCATTCGGGAT
1 AATACGTGGTCATTCGGGAT
*
4334483 AATACAGTGGTCTTTCGGGA
1 AATAC-GTGGTCATTCGGGA
4334503 AAATTTCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.25, C:0.15, G:0.30, T:0.30
Consensus pattern (20 bp):
AATACGTGGTCATTCGGGAT
Found at i:4335852 original size:23 final size:22
Alignment explanation
Indices: 4335795--4335866 Score: 81
Period size: 25 Copynumber: 3.1 Consensus size: 22
4335785 TTACGTATCA
* *
4335795 AAAATTAATATCAAGATAAATT
1 AAAATTAATATCAATAAAAATT
4335817 ATCACAATTAATATCAATTAAAAATT
1 A--A-AATTAATATCAA-TAAAAATT
*
4335843 AAAATTAATACCAATAAAAATT
1 AAAATTAATATCAATAAAAATT
4335865 AA
1 AA
4335867 TGGTTAGTCC
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
22 11 0.26
23 11 0.26
24 2 0.05
25 12 0.28
26 7 0.16
ACGTcount: A:0.60, C:0.08, G:0.01, T:0.31
Consensus pattern (22 bp):
AAAATTAATATCAATAAAAATT
Found at i:4336404 original size:21 final size:21
Alignment explanation
Indices: 4336375--4336431 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
4336365 GGGTTTAATA
* * *
4336375 GGTCCTTCGAGACAATACTGT
1 GGTCATTCGGGACAATACAGT
4336396 GGTCATTCGGGACAATACAGT
1 GGTCATTCGGGACAATACAGT
*
4336417 GGTCTTTCGGGACAA
1 GGTCATTCGGGACAA
4336432 ATTTCACATG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (21 bp):
GGTCATTCGGGACAATACAGT
Found at i:4337737 original size:15 final size:15
Alignment explanation
Indices: 4337717--4337759 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
4337707 AAAAGTTACG
4337717 TATCAAAATTAATAT
1 TATCAAAATTAATAT
*
4337732 TATCAAGA-TAA-AT
1 TATCAAAATTAATAT
*
4337745 TATCACAATTAATAT
1 TATCAAAATTAATAT
4337760 CAATTAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
13 8 0.35
14 6 0.26
15 9 0.39
ACGTcount: A:0.51, C:0.09, G:0.02, T:0.37
Consensus pattern (15 bp):
TATCAAAATTAATAT
Found at i:4337779 original size:23 final size:22
Alignment explanation
Indices: 4337751--4337795 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 22
4337741 AAATTATCAC
*
4337751 AATTAATATCAATTAAAAATTAA
1 AATTAATACCAA-TAAAAATTAA
4337774 AATTAATACCAATAAAAATTAA
1 AATTAATACCAATAAAAATTAA
4337796 TGGTTAGTCC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.31
Consensus pattern (22 bp):
AATTAATACCAATAAAAATTAA
Found at i:4338337 original size:21 final size:21
Alignment explanation
Indices: 4338308--4338364 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
4338298 GGGTTTAATA
* * *
4338308 GGTCCTTCGAGACAATACTGT
1 GGTCATTCGGGACAATACAGT
4338329 GGTCATTCGGGACAATACAGT
1 GGTCATTCGGGACAATACAGT
*
4338350 GGTCTTTCGGGACAA
1 GGTCATTCGGGACAA
4338365 ATTTCACATG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (21 bp):
GGTCATTCGGGACAATACAGT
Found at i:4339664 original size:15 final size:15
Alignment explanation
Indices: 4339644--4339686 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
4339634 AAAAGTTACG
4339644 TATCAAAATTAATAT
1 TATCAAAATTAATAT
*
4339659 TATCAAGA-TAA-AT
1 TATCAAAATTAATAT
*
4339672 TATCACAATTAATAT
1 TATCAAAATTAATAT
4339687 GAATTAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
13 8 0.35
14 6 0.26
15 9 0.39
ACGTcount: A:0.51, C:0.09, G:0.02, T:0.37
Consensus pattern (15 bp):
TATCAAAATTAATAT
Found at i:4340262 original size:21 final size:21
Alignment explanation
Indices: 4340233--4340278 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
4340223 GGGTTTAATA
* *
4340233 GGTCCTTCGAGACAATACTGT
1 GGTCATTCGAGACAATACAGT
* *
4340254 GGTCATTCGGGATAATACAGT
1 GGTCATTCGAGACAATACAGT
4340275 GGTC
1 GGTC
4340279 TTTTGGGACA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (21 bp):
GGTCATTCGAGACAATACAGT
Found at i:4341536 original size:15 final size:15
Alignment explanation
Indices: 4341516--4341558 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
4341506 AAAAGTTACG
4341516 TATCAAAATTAATAT
1 TATCAAAATTAATAT
*
4341531 TATCAAGA-TAA-AT
1 TATCAAAATTAATAT
*
4341544 TATCACAATTAATAT
1 TATCAAAATTAATAT
4341559 CAATTAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
13 8 0.35
14 6 0.26
15 9 0.39
ACGTcount: A:0.51, C:0.09, G:0.02, T:0.37
Consensus pattern (15 bp):
TATCAAAATTAATAT
Found at i:4341578 original size:23 final size:22
Alignment explanation
Indices: 4341550--4341594 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 22
4341540 AAATTATCAC
*
4341550 AATTAATATCAATTAAAAATTAA
1 AATTAATACCAA-TAAAAATTAA
4341573 AATTAATACCAATAAAAATTAA
1 AATTAATACCAATAAAAATTAA
4341595 TGGTTAGTCC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.31
Consensus pattern (22 bp):
AATTAATACCAATAAAAATTAA
Found at i:4342147 original size:21 final size:21
Alignment explanation
Indices: 4342118--4342174 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
4342108 GGGTTTAATA
* * *
4342118 GGTCCTTCGAGACAATACTGT
1 GGTCATTCGGGACAATACAGT
4342139 GGTCATTCGGGACAATACAGT
1 GGTCATTCGGGACAATACAGT
*
4342160 GGTCTTTCGGGACAA
1 GGTCATTCGGGACAA
4342175 ATTTCATATG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (21 bp):
GGTCATTCGGGACAATACAGT
Found at i:4343503 original size:15 final size:15
Alignment explanation
Indices: 4343483--4343525 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
4343473 AAAAGTTACG
4343483 TATCAAAATTAATAT
1 TATCAAAATTAATAT
*
4343498 TATCAAGA-TAA-AT
1 TATCAAAATTAATAT
*
4343511 TATCACAATTAATAT
1 TATCAAAATTAATAT
4343526 CAATTAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
13 8 0.35
14 6 0.26
15 9 0.39
ACGTcount: A:0.51, C:0.09, G:0.02, T:0.37
Consensus pattern (15 bp):
TATCAAAATTAATAT
Found at i:4343545 original size:23 final size:22
Alignment explanation
Indices: 4343517--4343561 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 22
4343507 AAATTATCAC
*
4343517 AATTAATATCAATTAAAAATTAA
1 AATTAATACCAA-TAAAAATTAA
4343540 AATTAATACCAATAAAAATTAA
1 AATTAATACCAATAAAAATTAA
4343562 TGGTTAGTCC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.31
Consensus pattern (22 bp):
AATTAATACCAATAAAAATTAA
Found at i:4345050 original size:6 final size:6
Alignment explanation
Indices: 4345039--4345067 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
4345029 GATTACTAAA
4345039 CCCGTC CCCGTC CCCGTC CCCGTC CCCGT
1 CCCGTC CCCGTC CCCGTC CCCGTC CCCGT
4345068 TTAACATAAA
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:0.00, C:0.66, G:0.17, T:0.17
Consensus pattern (6 bp):
CCCGTC
Found at i:4345131 original size:35 final size:35
Alignment explanation
Indices: 4345058--4345131 Score: 87
Period size: 35 Copynumber: 2.1 Consensus size: 35
4345048 GTCCCCGTCC
*
4345058 CCGTCCCCGTTTAACATAAACAATTTTTTCCCGTT
1 CCGTCCCCGTTTAACATAAACAAGTTTTTCCCGTT
** * *
4345093 CCGTCCCCGTTTAGTATAAAC-GGTTTTTCCTGTCT
1 CCGTCCCCGTTTAACATAAACAAGTTTTTCCCGT-T
4345128 CCGT
1 CCGT
4345132 TTAATTCGAT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
34 9 0.27
35 24 0.73
ACGTcount: A:0.18, C:0.31, G:0.14, T:0.38
Consensus pattern (35 bp):
CCGTCCCCGTTTAACATAAACAAGTTTTTCCCGTT
Found at i:4348343 original size:20 final size:19
Alignment explanation
Indices: 4348320--4348366 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
4348310 CGATATAACA
4348320 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
* *
4348340 GGTATCAAAATGATGAAACC
1 GGTA-AAAAATGATAAAACC
4348360 GGTAAAA
1 GGTAAAA
4348367 CACTACCGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.51, C:0.11, G:0.19, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:4348644 original size:181 final size:181
Alignment explanation
Indices: 4348109--4348754 Score: 927
Period size: 181 Copynumber: 3.6 Consensus size: 181
4348099 GATCTAAATT
* * * * * **
4348109 AAAAATGTATCGATCCATAACGATATAACA-GCTAAAACTATGACAAAACAGATATTGAAATGAT
1 AAAAATGTATCGATCCACAACGATATAACATG-TAAAAATATGATAAAACCGGTATCAAAATGAT
* * * *
4348173 AAAACCGGTAAAGCGGTACCGGATATATTTAAAGTGTCGGTACTTTAATATAAGGATCGACACTT
65 AAAACCGGTAAAACGCTACCGGATATATTGAAAGTGTCGATACTTT-ATATAAGGATCGACACTT
* *
4348238 CGTT-AATTTAAAAGAGAATCAGTTTTAGCGCCTATAAAGTATCGATACTTT-A
129 -TTTGAATTTAAAAGAGAATCAGTTTTAGCGCCTATAAAGTGTCGATACTTTAA
* * *
4348290 AAAAATGAATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATG
1 AAAAATGTATCGATCCACAACGATATAACATGTAAAAATATGATAAAACCGGTATCAAAATGATA
* * * *
4348355 AAACCGGTAAAACACTACCGG--ATA-T----GTGTTGATACTTTATATAAGGATTGACACTTTG
66 AAACCGGTAAAACGCTACCGGATATATTGAAAGTGTCGATACTTTATATAAGGATCGACACTTTT
*
4348413 TGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATACTTTAA
131 TGAATTTAAAAGAGAATCAGTTTTAGCGCCTATAAAGTGTCGATACTTTAA
* * *
4348464 AAAAATGTATCGATCCACAACGATATAACATGTAAAAATATGATAAAATCGGTACCAAAATGATG
1 AAAAATGTATCGATCCACAACGATATAACATGTAAAAATATGATAAAACCGGTATCAAAATGATA
*
4348529 AAACCGGTAAAACGTTACCGGATATATTGAAAGTGTCGATACTTTATATAAGGATCGACACTTTT
66 AAACCGGTAAAACGCTACCGGATATATTGAAAGTGTCGATACTTTATATAAGGATCGACACTTTT
*
4348594 TGAATTTAAAAGAGAATCAGTTTTAGCGCCTATAAAGTGTCAATACTTTAA
131 TGAATTTAAAAGAGAATCAGTTTTAGCGCCTATAAAGTGTCGATACTTTAA
* *
4348645 AAAAATATATCGATCCACAACGATATAAC-TGGTAAAAATATGATAAAACCGGTATTAAAATGAT
1 AAAAATGTATCGATCCACAACGATATAACAT-GTAAAAATATGATAAAACCGGTATCAAAATGAT
4348709 AAAACCGGTAAAACGCTACCGGATATATTGAAAGTGTCGATACTTT
65 AAAACCGGTAAAACGCTACCGGATATATTGAAAGTGTCGATACTTT
4348755 CGTAAGTACG
Statistics
Matches: 418, Mismatches: 36, Indels: 22
0.88 0.08 0.05
Matches are distributed among these distances:
172 1 0.00
173 62 0.15
174 92 0.22
176 3 0.01
177 1 0.00
178 1 0.00
179 3 0.01
180 1 0.00
181 253 0.61
182 1 0.00
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.28
Consensus pattern (181 bp):
AAAAATGTATCGATCCACAACGATATAACATGTAAAAATATGATAAAACCGGTATCAAAATGATA
AAACCGGTAAAACGCTACCGGATATATTGAAAGTGTCGATACTTTATATAAGGATCGACACTTTT
TGAATTTAAAAGAGAATCAGTTTTAGCGCCTATAAAGTGTCGATACTTTAA
Found at i:4348698 original size:20 final size:19
Alignment explanation
Indices: 4348675--4348721 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
4348665 CGATATAACT
4348675 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
4348695 GGTATTAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
4348715 GGTAAAA
1 GGTAAAA
4348722 CGCTACCGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.53, C:0.09, G:0.17, T:0.21
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:4352262 original size:21 final size:21
Alignment explanation
Indices: 4352236--4352275 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
4352226 TCGCTATCGA
4352236 TTTTGTTATTTTTTTTACCGG
1 TTTTGTTATTTTTTTTACCGG
4352257 TTTTGTTATTTTTTTTACC
1 TTTTGTTATTTTTTTTACC
4352276 TCTTATATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.10, C:0.10, G:0.10, T:0.70
Consensus pattern (21 bp):
TTTTGTTATTTTTTTTACCGG
Found at i:4352289 original size:114 final size:112
Alignment explanation
Indices: 4352141--4352598 Score: 745
Period size: 112 Copynumber: 4.1 Consensus size: 112
4352131 TAATAAAACT
* *
4352141 GGTTTTGTCATTTTTTTTACCTGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGGATCGATA
1 GGTTTTGTTA-TTTTTTTACCTGTTATATTGTAAAGTATCGATCCTTTTTATAAAAGGATCGATA
* *
4352206 CTTTCAATATATCAGGTAAATCGCTATCGATTTTGTTATTTTTTTTACC
65 CTTTCAATATATCAGGTAAAGCGCTACCGATTTTGTTA-TTTTTTTACC
* *
4352255 GGTTTTGTTATTTTTTTTACCTCTTATATTGTAAAGCATCGATCCTTTTTATAAAAGGATCGATA
1 GGTTTTGTTA-TTTTTTTACCTGTTATATTGTAAAGTATCGATCCTTTTTATAAAAGGATCGATA
* *
4352320 CTTTCAATATATCAGGTAAAGCACTACCGGTTTTGTTATTTTTTTACC
65 CTTTCAATATATCAGGTAAAGCGCTACCGATTTTGTTATTTTTTTACC
* *
4352368 GATTTTGTTATTTTTTTACATGTTATATTGTAAAGTATCGATCCTTTTTATAAAAGGATCGATAC
1 GGTTTTGTTATTTTTTTACCTGTTATATTGTAAAGTATCGATCCTTTTTATAAAAGGATCGATAC
*
4352433 TTTCAATATATCAGGTAAAGCGCTACCGGTTTTGTTATTTTTTTACC
66 TTTCAATATATCAGGTAAAGCGCTACCGATTTTGTTATTTTTTTACC
* *
4352480 GGTTTTGTTATTTTTTTACCGGTTATATTGTAAAATATCGATCCTTTTTATAAAAGGATCGATAC
1 GGTTTTGTTATTTTTTTACCTGTTATATTGTAAAGTATCGATCCTTTTTATAAAAGGATCGATAC
* *
4352545 TTTCAATATATTAGGTAAAGCGCTACCGATTTTGTTATTTTTTTTATC
66 TTTCAATATATCAGGTAAAGCGCTACCGATTTTGTTA-TTTTTTTACC
4352593 GGTTTT
1 GGTTTT
4352599 ACCGAAAATG
Statistics
Matches: 323, Mismatches: 20, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
112 194 0.60
113 34 0.11
114 95 0.29
ACGTcount: A:0.26, C:0.13, G:0.14, T:0.48
Consensus pattern (112 bp):
GGTTTTGTTATTTTTTTACCTGTTATATTGTAAAGTATCGATCCTTTTTATAAAAGGATCGATAC
TTTCAATATATCAGGTAAAGCGCTACCGATTTTGTTATTTTTTTACC
Found at i:4352373 original size:20 final size:20
Alignment explanation
Indices: 4352344--4352386 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
4352334 GGTAAAGCAC
*
4352344 TACCGGTTTTGTTATTTTTT
1 TACCGATTTTGTTATTTTTT
4352364 TACCGATTTTGTTATTTTTT
1 TACCGATTTTGTTATTTTTT
4352384 TAC
1 TAC
4352387 ATGTTATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.14, C:0.12, G:0.12, T:0.63
Consensus pattern (20 bp):
TACCGATTTTGTTATTTTTT
Found at i:4352510 original size:23 final size:20
Alignment explanation
Indices: 4352456--4352503 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
4352446 GGTAAAGCGC
4352456 TACCGGTTTTGTTATTTTTT
1 TACCGGTTTTGTTATTTTTT
4352476 TACCGGTTTTGTTATTTTTT
1 TACCGGTTTTGTTATTTTTT
4352496 TACCGGTT
1 TACCGGTT
4352504 ATATTGTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.10, C:0.12, G:0.17, T:0.60
Consensus pattern (20 bp):
TACCGGTTTTGTTATTTTTT
Found at i:4352969 original size:24 final size:25
Alignment explanation
Indices: 4352942--4353010 Score: 76
Period size: 24 Copynumber: 2.9 Consensus size: 25
4352932 AGCATCAAAT
4352942 ACAATAA-AATAATATTATTTATTA
1 ACAATAAGAATAATATTATTTATTA
*
4352966 ACAA-AATAATAATATTATTT-TTA
1 ACAATAAGAATAATATTATTTATTA
4352989 A-AATATTAGAATAAT-TTATTTA
1 ACAATA--AGAATAATATTATTTA
4353011 ATATTATCTA
Statistics
Matches: 39, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
22 2 0.05
23 7 0.18
24 23 0.59
25 7 0.18
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.43
Consensus pattern (25 bp):
ACAATAAGAATAATATTATTTATTA
Found at i:4353044 original size:14 final size:14
Alignment explanation
Indices: 4353025--4353097 Score: 51
Period size: 14 Copynumber: 5.3 Consensus size: 14
4353015 TATCTATGTC
4353025 AATATTATTATTAA
1 AATATTATTATTAA
*
4353039 AATATTA-TATCTAT
1 AATATTATTAT-TAA
* * *
4353053 AATTTTATAAATAA
1 AATATTATTATTAA
* * *
4353067 AAAATTATGATTAT
1 AATATTATTATTAA
*
4353081 TATATT-TTATTAA
1 AATATTATTATTAA
4353094 AATA
1 AATA
4353098 AATTTGCAAT
Statistics
Matches: 42, Mismatches: 15, Indels: 5
0.68 0.24 0.08
Matches are distributed among these distances:
13 11 0.26
14 30 0.71
15 1 0.02
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (14 bp):
AATATTATTATTAA
Found at i:4353060 original size:28 final size:28
Alignment explanation
Indices: 4353025--4353097 Score: 78
Period size: 28 Copynumber: 2.6 Consensus size: 28
4353015 TATCTATGTC
4353025 AATATTATTATTAAAATATTAT-ATCTAT
1 AATATTATTATTAAAATATTATGAT-TAT
* * * *
4353053 AATTTTATAAATAAAAAATTATGATTAT
1 AATATTATTATTAAAATATTATGATTAT
*
4353081 TATATT-TTATTAAAATA
1 AATATTATTATTAAAATA
4353098 AATTTGCAAT
Statistics
Matches: 35, Mismatches: 9, Indels: 3
0.74 0.19 0.06
Matches are distributed among these distances:
27 8 0.23
28 25 0.71
29 2 0.06
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (28 bp):
AATATTATTATTAAAATATTATGATTAT
Found at i:4353260 original size:23 final size:23
Alignment explanation
Indices: 4353225--4353275 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
4353215 CCAGTAATTA
** * *
4353225 ACCTATTTTATTATATAAGCGCT
1 ACCTATTACATTACATAAACGCT
4353248 ACCTATTACATTACATAAACGCT
1 ACCTATTACATTACATAAACGCT
4353271 ACCTA
1 ACCTA
4353276 ATATGTTATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.35, C:0.24, G:0.06, T:0.35
Consensus pattern (23 bp):
ACCTATTACATTACATAAACGCT
Found at i:4353296 original size:87 final size:87
Alignment explanation
Indices: 4353150--4353390 Score: 374
Period size: 87 Copynumber: 2.8 Consensus size: 87
4353140 GAATATGTCA
* * * * *
4353150 ATATAAGTGTTACTTATTACATTATATAAGCACTTCCTAATATGTTATTGTGCTTGATAATGTTT
1 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTGCTTGATAATGTTT
*
4353215 CCAGTAATTAACCTATTTTATT
66 CCAGTAATTAACATATTTTATT
* *
4353237 ATATAAGCGCTACCTATTACATTACATAAACGCTACCTAATATGTTATTGTGCTTGATAATGTTT
1 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTGCTTGATAATGTTT
4353302 CCAGTAATTAACATATTTTATT
66 CCAGTAATTAACATATTTTATT
* * * *
4353324 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATTTGTTATTTTACTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTGCTTGATAATGTTT
4353389 CC
66 CC
4353391 GGTTGAATGA
Statistics
Matches: 140, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
87 140 1.00
ACGTcount: A:0.32, C:0.15, G:0.10, T:0.43
Consensus pattern (87 bp):
ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTGCTTGATAATGTTT
CCAGTAATTAACATATTTTATT
Found at i:4359074 original size:31 final size:31
Alignment explanation
Indices: 4359039--4359097 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
4359029 TATATAATAT
*
4359039 TTGGTCACTTTCATTTTTATTTAATTAAAAC
1 TTGGTCACTTTCAATTTTATTTAATTAAAAC
* *
4359070 TTGGTCACTTTTAATTTTATTTAGTTAA
1 TTGGTCACTTTCAATTTTATTTAATTAA
4359098 GATGTAGTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.27, C:0.10, G:0.08, T:0.54
Consensus pattern (31 bp):
TTGGTCACTTTCAATTTTATTTAATTAAAAC
Found at i:4362202 original size:113 final size:113
Alignment explanation
Indices: 4361997--4362291 Score: 397
Period size: 113 Copynumber: 2.6 Consensus size: 113
4361987 ACAGACCAAT
* * *
4361997 CATTTCCAATGGAAGTG-TTCATAATGAGAAGAACTCGTTCAATGAGAGAG-AGTAACTTCCTAA
1 CATTTCCAATGGAA-TGATTCATAATGAGAAGAACTCGTTCAATGAGGGAGAAG-AAGTTCATAA
* * *
4362060 TGAGAAGAACTTTAGCCTTGACTTGTCTATCACAAAAGGAAGTGGATCAA
64 TGAGAAGAACTTCAACCTTGACTTATCTATCACAAAAGGAAGTGGATCAA
* *
4362110 CATTTCCAATGGAATGATTCATAATGAGAAGAACTCGTCCAATGAGGGAGAAGAAGTTCATAACG
1 CATTTCCAATGGAATGATTCATAATGAGAAGAACTCGTTCAATGAGGGAGAAGAAGTTCATAATG
* * *
4362175 AGAAGAACTTCAACCTTTG-CTTATCTATTACAGAAGGAGGTGGATCAA
66 AGAAGAACTTCAACC-TTGACTTATCTATCACAAAAGGAAGTGGATCAA
*
4362223 CATTTCCAATGGAA-GAGTTCGTAATGAGAAGAACTCGTTC---GAGGGAGAAGAAGTTCATAAT
1 CATTTCCAATGGAATGA-TTCATAATGAGAAGAACTCGTTCAATGAGGGAGAAGAAGTTCATAAT
4362284 GAGAAGAA
65 GAGAAGAA
4362292 ATTGTTCAAC
Statistics
Matches: 164, Mismatches: 14, Indels: 11
0.87 0.07 0.06
Matches are distributed among these distances:
110 28 0.17
112 4 0.02
113 127 0.77
114 5 0.03
ACGTcount: A:0.37, C:0.15, G:0.23, T:0.25
Consensus pattern (113 bp):
CATTTCCAATGGAATGATTCATAATGAGAAGAACTCGTTCAATGAGGGAGAAGAAGTTCATAATG
AGAAGAACTTCAACCTTGACTTATCTATCACAAAAGGAAGTGGATCAA
Found at i:4362325 original size:113 final size:109
Alignment explanation
Indices: 4361997--4362326 Score: 346
Period size: 113 Copynumber: 2.9 Consensus size: 109
4361987 ACAGACCAAT
* * * * *
4361997 CATTTCCAATGGAAGTGTTCATAATGAGAAGAACTCGTTCAATGAGAGAGAGTAACTTCCTAATG
1 CATTTCCAATGGAAGAGTTCATAATGAGAAGAACTCGTTCGA-GGGAGA-AG-AAGTTCATAATG
* *
4362062 AGAAGAACTTT-AGCCTTGACT-TGTCTATCACAAAAGGAAGTGGATCAA
63 AGAAGAA-TTTCAACCTTG-CTGT-TCTATCACAAAAGGAGGTGGATCAA
* *
4362110 CATTTCCAATGGAATGA-TTCATAATGAGAAGAACTCGTCCAATGAGGGAGAAGAAGTTCATAAC
1 CATTTCCAATGGAA-GAGTTCATAATGAGAAGAACTCGTTC---GAGGGAGAAGAAGTTCATAAT
* * *
4362174 GAGAAGAACTTCAACCTTTGCT-TATCTATTACAGAAGGAGGTGGATCAA
62 GAGAAGAATTTCAACC-TTGCTGT-TCTATCACAAAAGGAGGTGGATCAA
*
4362223 CATTTCCAATGGAAGAGTTCGTAATGAGAAGAACTCGTTCGAGGGAGAAGAAGTTCATAATGAGA
1 CATTTCCAATGGAAGAGTTCATAATGAGAAGAACTCGTTCGAGGGAGAAGAAGTTCATAATGAGA
*
4362288 AGAAATTGTTCAACCTTAGCTCGTTC-ATCACATAAGGAG
66 AG-AA-T-TTCAACCTT-GCT-GTTCTATCACAAAAGGAG
4362327 TTGGGTCAGT
Statistics
Matches: 185, Mismatches: 19, Indels: 26
0.80 0.08 0.11
Matches are distributed among these distances:
110 26 0.14
111 2 0.01
112 6 0.03
113 136 0.74
114 8 0.04
115 6 0.03
116 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.25
Consensus pattern (109 bp):
CATTTCCAATGGAAGAGTTCATAATGAGAAGAACTCGTTCGAGGGAGAAGAAGTTCATAATGAGA
AGAATTTCAACCTTGCTGTTCTATCACAAAAGGAGGTGGATCAA
Found at i:4363580 original size:64 final size:63
Alignment explanation
Indices: 4363385--4363616 Score: 195
Period size: 64 Copynumber: 3.6 Consensus size: 63
4363375 TTTTTCAGAG
* * * * * ** *
4363385 TGATGCACCGATGCACCAACTCATGCATCGATGCACCATGAATTAAAT-TGAACATCAAATGCAT
1 TGATGCATCGATGCACC-AC-CATGCACCGATGCACTAAGGATTTTATAAGAACATCAAATGCAT
* *
4363449 TACATGCATCGATGCA-CACCATGCACCGATGCACTAAGGATTTTATAAGAACATCGAATGCATT
1 T-GATGCATCGATGCACCACCATGCACCGATGCACTAAGGATTTTATAAGAACATCAAATGCA-T
* * ** *
4363513 TGATGCATCGATGCACCAGCCATGCATCGATGCAGTCGGGCTATTT-TAA-AACATCAAATGCAC
1 TGATGCATCGATGCACCA-CCATGCACCGATGCACTAAGGAT-TTTATAAGAACATCAAATGCA-
4363576 T
63 T
**
4363577 TGATGCATCGATGCACTC-TTAGTGCACCGATGCACTAAGG
1 TGATGCATCGATGCAC-CACCA-TGCACCGATGCACTAAGG
4363617 TTCCAACGGT
Statistics
Matches: 136, Mismatches: 24, Indels: 16
0.77 0.14 0.09
Matches are distributed among these distances:
62 21 0.15
63 29 0.21
64 49 0.36
65 34 0.25
66 3 0.02
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (63 bp):
TGATGCATCGATGCACCACCATGCACCGATGCACTAAGGATTTTATAAGAACATCAAATGCAT
Found at i:4363592 original size:17 final size:19
Alignment explanation
Indices: 4363570--4363612 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
4363560 AAAACATCAA
*
4363570 ATGCACT-TGA-TGCATCG
1 ATGCACTCTGAGTGCACCG
*
4363587 ATGCACTCTTAGTGCACCG
1 ATGCACTCTGAGTGCACCG
4363606 ATGCACT
1 ATGCACT
4363613 AAGGTTCCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 7 0.32
18 2 0.09
19 13 0.59
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (19 bp):
ATGCACTCTGAGTGCACCG
Found at i:4365074 original size:6 final size:6
Alignment explanation
Indices: 4365063--4365094 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
4365053 AGAGACACCA
*
4365063 AAGGAG AAGGAG AAGGAG AATGAG AAGGAG AA
1 AAGGAG AAGGAG AAGGAG AAGGAG AAGGAG AA
4365095 AAAGAAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.53, C:0.00, G:0.44, T:0.03
Consensus pattern (6 bp):
AAGGAG
Found at i:4365100 original size:18 final size:18
Alignment explanation
Indices: 4365066--4365100 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4365056 GACACCAAAG
**
4365066 GAGAAGGAGAAGGAGAAT
1 GAGAAGGAGAAAAAGAAT
4365084 GAGAAGGAGAAAAAGAA
1 GAGAAGGAGAAAAAGAA
4365101 AAATATTGGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.57, C:0.00, G:0.40, T:0.03
Consensus pattern (18 bp):
GAGAAGGAGAAAAAGAAT
Found at i:4371756 original size:19 final size:19
Alignment explanation
Indices: 4371710--4371747 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
4371700 AAAGGGGGAG
4371710 AAATGTTAAGTGTTGAAAT
1 AAATGTTAAGTGTTGAAAT
4371729 AAATGTTAAGTGTTGAAAT
1 AAATGTTAAGTGTTGAAAT
4371748 GTTTTTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.21, T:0.37
Consensus pattern (19 bp):
AAATGTTAAGTGTTGAAAT
Found at i:4372189 original size:17 final size:17
Alignment explanation
Indices: 4372176--4372208 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
4372166 CGAATGCATT
4372176 CCATGCATCGATGCACA
1 CCATGCATCGATGCACA
*
4372193 CCATGCACCGATGCAC
1 CCATGCATCGATGCAC
4372209 TAAGGATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.39, G:0.18, T:0.15
Consensus pattern (17 bp):
CCATGCATCGATGCACA
Found at i:4372237 original size:63 final size:62
Alignment explanation
Indices: 4372160--4372342 Score: 199
Period size: 64 Copynumber: 2.9 Consensus size: 62
4372150 GAATTAAATT
*
4372160 GAACATCGAATGCATTCCATGCATCGATGCACACCATGCACCGATGCACTAAGGAT-TTTATAA
1 GAACATCGAATGCATT-GATGCATCGATGCACACCATGCACCGATGCACTAAGGATATTT-TAA
* * ** *
4372223 GAACATCGAATGCATTTGATGCATCGATGCACCAGTCATGCATCGATGCACTCGGGCTATTTTAA
1 GAACATCGAATGCA-TTGATGCATCGATGCA-CA-CCATGCACCGATGCACTAAGGATATTTTAA
* * *
4372288 -AACATCGAATGCACTTGATGCATCGGTGCACTCTTAGTGCACCGATGCACTAAGG
1 GAACATCGAATGCA-TTGATGCATCGATGCACAC-CA-TGCACCGATGCACTAAGG
4372343 TTCCAACGGT
Statistics
Matches: 100, Mismatches: 14, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
63 29 0.29
64 47 0.47
65 21 0.21
66 3 0.03
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.25
Consensus pattern (62 bp):
GAACATCGAATGCATTGATGCATCGATGCACACCATGCACCGATGCACTAAGGATATTTTAA
Found at i:4372306 original size:64 final size:63
Alignment explanation
Indices: 4372111--4372342 Score: 195
Period size: 64 Copynumber: 3.6 Consensus size: 63
4372101 TTTTTCACAG
* * * * * ** *
4372111 TGATGCACCGATGCACCAATCCATGCATCGATGCACCATGAATTAAAT-TGAACATCGAATGCAT
1 TGATGCATCGATGCACC-A-CCATGCACCGATGCACTAAGGATTTTATAAGAACATCGAATGCAT
*
4372175 TCCATGCATCGATGCA-CACCATGCACCGATGCACTAAGGATTTTATAAGAACATCGAATGCATT
1 T-GATGCATCGATGCACCACCATGCACCGATGCACTAAGGATTTTATAAGAACATCGAATGCA-T
* * ** *
4372239 TGATGCATCGATGCACCAGTCATGCATCGATGCACTCGGGCTATTT-TAA-AACATCGAATGCAC
1 TGATGCATCGATGCACCA-CCATGCACCGATGCACTAAGGAT-TTTATAAGAACATCGAATGCA-
4372302 T
63 T
* **
4372303 TGATGCATCGGTGCACTC-TTAGTGCACCGATGCACTAAGG
1 TGATGCATCGATGCAC-CACCA-TGCACCGATGCACTAAGG
4372343 TTCCAACGGT
Statistics
Matches: 139, Mismatches: 21, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
62 22 0.16
63 30 0.22
64 50 0.36
65 34 0.24
66 3 0.02
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (63 bp):
TGATGCATCGATGCACCACCATGCACCGATGCACTAAGGATTTTATAAGAACATCGAATGCAT
Found at i:4374450 original size:37 final size:37
Alignment explanation
Indices: 4374400--4374527 Score: 150
Period size: 37 Copynumber: 3.5 Consensus size: 37
4374390 TTCACTCAAT
* * *
4374400 ATTTTATCTCACTTGAGAGTGTTTGTCTTAAAAACAA
1 ATTTCATCTCACTTGAGATTGTTTTTCTTAAAAACAA
* * *
4374437 ATTTTATCTCACTTGATATTGTTTTTCTTAAAAATAA
1 ATTTCATCTCACTTGAGATTGTTTTTCTTAAAAACAA
* * *
4374474 ATGTCGTCTCAATTGAGATTGTTTTTCTT-AAAACAA
1 ATTTCATCTCACTTGAGATTGTTTTTCTTAAAAACAA
* *
4374510 ATTTCATTTCGCTTGAGA
1 ATTTCATCTCACTTGAGA
4374528 CAATTTCCTT
Statistics
Matches: 76, Mismatches: 15, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
36 19 0.25
37 57 0.75
ACGTcount: A:0.30, C:0.13, G:0.12, T:0.45
Consensus pattern (37 bp):
ATTTCATCTCACTTGAGATTGTTTTTCTTAAAAACAA
Found at i:4377187 original size:143 final size:140
Alignment explanation
Indices: 4376902--4377188 Score: 328
Period size: 143 Copynumber: 2.0 Consensus size: 140
4376892 GGATAAATAA
* * *
4376902 TTAGATTAATTTCACTTTTAGTCCCTTAATTTAAGTGAATTTTTTATTTCATCCTCATCTTAATG
1 TTAGATTAATTTCACTTTTAGTCCCTTAATTTAAGTGAATTTTTGATTTCATCATCACCTTAATG
* * *
4376967 TCTGTGGTTCCATTTCGATTATCCAATTCAATGATTGATTAAAATCGAGTAGGATTAATAATTAG
66 TCTGAGGTTCCATTTCGATTATCCAATTCAATAATTGATTAAAATCGAGTAGGATAAATAATTAG
*
4377032 AGCCTCCGAT
131 AGCCTCAGAT
* * ** * *
4377042 TTAGATTAATTTCACTTTTAGTCCCTTAATTTAGGTGGTGGATTTTTGATTTGGTTATCGCCTTA
1 TTAGATTAATTTCACTTTTAGTCCCTTAATTTA---AGTGAATTTTTGATTTCATCATCACCTTA
* * * * *
4377107 ATG-CTCGAGGTTCCATTTTGATTATTCAATTCAGTAATTGATTAAAATTGA-TGATGATAAAT-
63 ATGTCT-GAGGTTCCATTTCGATTATCCAATTCAATAATTGATTAAAATCGAGT-AGGATAAATA
*
4377169 ATTAGAGCCTACATAT
126 ATTAGAGCCT-CAGAT
4377185 TTAG
1 TTAG
4377189 GTTTAGTCCT
Statistics
Matches: 122, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
140 33 0.27
142 13 0.11
143 76 0.62
ACGTcount: A:0.28, C:0.14, G:0.15, T:0.43
Consensus pattern (140 bp):
TTAGATTAATTTCACTTTTAGTCCCTTAATTTAAGTGAATTTTTGATTTCATCATCACCTTAATG
TCTGAGGTTCCATTTCGATTATCCAATTCAATAATTGATTAAAATCGAGTAGGATAAATAATTAG
AGCCTCAGAT
Found at i:4378443 original size:13 final size:13
Alignment explanation
Indices: 4378425--4378449 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4378415 TTATTTTGTA
4378425 TATATATATATAT
1 TATATATATATAT
4378438 TATATATATATA
1 TATATATATATA
4378450 GTAATATAGT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TATATATATATAT
Found at i:4378643 original size:38 final size:38
Alignment explanation
Indices: 4378522--4378665 Score: 150
Period size: 36 Copynumber: 3.8 Consensus size: 38
4378512 CGAAAATAAG
* *
4378522 TATATATTATATATTTTTTGAAAAACA-TTTCAAAATATA
1 TATATATTATATAGTTTTT--AAAACATTTTCAAAACATA
* * * * * *
4378561 TGTATAATATATGGTTTTGAAAAACATTTTTTAAAACATT
1 TATATATTATATAGTTTT-TAAAACA-TTTTCAAAACATA
*
4378601 TATATATTATATAGTTTTTAAAACATTTTGAAAAC--A
1 TATATATTATATAGTTTTTAAAACATTTTCAAAACATA
4378637 TATATATTATATAGTTTTTAAAACATTTT
1 TATATATTATATAGTTTTTAAAACATTTT
4378666 TTATAGTTTT
Statistics
Matches: 88, Mismatches: 14, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
36 29 0.33
38 15 0.17
39 20 0.23
40 24 0.27
ACGTcount: A:0.42, C:0.05, G:0.06, T:0.47
Consensus pattern (38 bp):
TATATATTATATAGTTTTTAAAACATTTTCAAAACATA
Found at i:4378671 original size:21 final size:21
Alignment explanation
Indices: 4378646--4378686 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
4378636 ATATATATTA
4378646 TATAGTTTTTAAAACATTTTT
1 TATAGTTTTTAAAACATTTTT
4378667 TATAGTTTTTAAAACATTTT
1 TATAGTTTTTAAAACATTTT
4378687 GAATATATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.56
Consensus pattern (21 bp):
TATAGTTTTTAAAACATTTTT
Found at i:4378733 original size:35 final size:32
Alignment explanation
Indices: 4378693--4378784 Score: 112
Period size: 37 Copynumber: 2.7 Consensus size: 32
4378683 TTTTGAATAT
*
4378693 ATATATATTATATAGTTTTTAATTTTTTTGAAA
1 ATATATATTATATAGTTTTTAATGTTTTT-AAA
4378726 ACTTATATATAATATATAGTTTTTAAATGTTTTTAAA
1 A--TATATAT--TATATAGTTTTT-AATGTTTTTAAA
*
4378763 ATATATATTATATAGGTTTTAA
1 ATATATATTATATAGTTTTTAA
4378785 AAAATATTTT
Statistics
Matches: 52, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
32 2 0.04
33 12 0.23
35 14 0.27
37 16 0.31
38 8 0.15
ACGTcount: A:0.39, C:0.01, G:0.07, T:0.53
Consensus pattern (32 bp):
ATATATATTATATAGTTTTTAATGTTTTTAAA
Found at i:4378827 original size:32 final size:30
Alignment explanation
Indices: 4378771--4378838 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 30
4378761 AAATATATAT
4378771 TATATA-GGTTTTAAAAAATATTTTTGAAAA
1 TATATATGGTTTTAAAAAATATTTTTG-AAA
** *
4378801 TATATATGGTTTTTTAAAATATTTTTTGAAG
1 TATATATGGTTTTAAAAAATA-TTTTTGAAA
4378832 TATATAT
1 TATATAT
4378839 TATATAGATT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
30 6 0.18
31 21 0.64
32 6 0.18
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (30 bp):
TATATATGGTTTTAAAAAATATTTTTGAAA
Found at i:4379069 original size:21 final size:21
Alignment explanation
Indices: 4379023--4379070 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
4379013 GATTTTGACT
*
4379023 ATCGCATTGCGATTTTCCAAA
1 ATCGCATTGCGATTTTACAAA
* * *
4379044 TTCGCGTTGCGATTTTAGAAA
1 ATCGCATTGCGATTTTACAAA
4379065 ATCGCA
1 ATCGCA
4379071 ATGCAAATAT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (21 bp):
ATCGCATTGCGATTTTACAAA
Found at i:4379109 original size:41 final size:41
Alignment explanation
Indices: 4379064--4379179 Score: 108
Period size: 41 Copynumber: 2.8 Consensus size: 41
4379054 GATTTTAGAA
*
4379064 AATCGCAATGCAAATATGTA-AATCGCAACGCGATAATACAT
1 AATCGCAACGCAAATATG-ACAATCGCAACGCGATAATACAT
** * * *
4379105 AATCGCAACGTGATTCTGACTATCGCAACGCGATAATACAT
1 AATCGCAACGCAAATATGACAATCGCAACGCGATAATACAT
* * * * * *
4379146 AAGCGCAACTCGATTCTGACTATCGCAACGCGAT
1 AATCGCAACGCAAATATGACAATCGCAACGCGAT
4379180 TCTGACTGTC
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
40 1 0.02
41 64 0.98
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.22
Consensus pattern (41 bp):
AATCGCAACGCAAATATGACAATCGCAACGCGATAATACAT
Found at i:4379110 original size:21 final size:21
Alignment explanation
Indices: 4379084--4379159 Score: 84
Period size: 21 Copynumber: 3.7 Consensus size: 21
4379074 CAAATATGTA
4379084 AATCGCAACGCGATAATACAT
1 AATCGCAACGCGATAATACAT
* **
4379105 AATCGCAACGTGATTCTGAC-T
1 AATCGCAACGCGATAAT-ACAT
4379126 -ATCGCAACGCGATAATACAT
1 AATCGCAACGCGATAATACAT
* *
4379146 AAGCGCAACTCGAT
1 AATCGCAACGCGAT
4379160 TCTGACTATC
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
19 2 0.05
20 14 0.32
21 26 0.59
22 2 0.05
ACGTcount: A:0.37, C:0.25, G:0.17, T:0.21
Consensus pattern (21 bp):
AATCGCAACGCGATAATACAT
Found at i:4379131 original size:20 final size:20
Alignment explanation
Indices: 4379106--4379196 Score: 103
Period size: 20 Copynumber: 4.5 Consensus size: 20
4379096 ATAATACATA
*
4379106 ATCGCAACGTGATTCTGACT
1 ATCGCAACGCGATTCTGACT
**
4379126 ATCGCAACGCGATAAT-ACAT
1 ATCGCAACGCGATTCTGAC-T
* *
4379146 AAGCGCAACTCGATTCTGACT
1 -ATCGCAACGCGATTCTGACT
4379167 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
*
4379187 GTCGCAACGC
1 ATCGCAACGC
4379197 TGAATTTCAA
Statistics
Matches: 58, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
19 2 0.03
20 41 0.71
21 13 0.22
22 2 0.03
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:4379937 original size:24 final size:24
Alignment explanation
Indices: 4379910--4379963 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
4379900 GTATTCAAAA
4379910 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* * *
4379934 TTTGATCTTGGTTAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
4379958 TTTGAT
1 TTTGAT
4379964 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:4382550 original size:129 final size:129
Alignment explanation
Indices: 4382320--4382578 Score: 464
Period size: 129 Copynumber: 2.0 Consensus size: 129
4382310 TATGTGTATT
* *
4382320 TTATGTGTAAACTTTTAACATTTTCAGTTAGACATGTATTAGTAACTTTAGTTTGAACATTTCTA
1 TTATGTGTAAACTTTTAACATTTTCAGTTAGACATGTATTAGTAACTTGAGTTTGAACATTGCTA
4382385 TGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAAAGCGAATTTGACTA
66 TGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAAAGCGAATTTGACTA
*
4382449 TTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGCTA
1 TTATGTGTAAACTTTTAACATTTTCAGTTAGACATGTATTAGTAACTTGAGTTTGAACATTGCTA
* * *
4382514 TGATCTGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATTGCAACGCGAATTTGACTA
66 TGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAAAGCGAATTTGACTA
4382578 T
1 T
4382579 CGCAACGCAA
Statistics
Matches: 124, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
129 124 1.00
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (129 bp):
TTATGTGTAAACTTTTAACATTTTCAGTTAGACATGTATTAGTAACTTGAGTTTGAACATTGCTA
TGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAAAGCGAATTTGACTA
Found at i:4382574 original size:20 final size:20
Alignment explanation
Indices: 4382549--4382679 Score: 96
Period size: 20 Copynumber: 6.8 Consensus size: 20
4382539 TTACACATTC
*
4382549 ATTTGAATATTGCAACGCGA
1 ATTTGAATATCGCAACGCGA
*
4382569 ATTTGACTATCGCAACGC-A
1 ATTTGAATATCGCAACGCGA
*
4382588 A----AA-ATCGCAACGCCA
1 ATTTGAATATCGCAACGCGA
*
4382603 ATTTGACTATCGCAACGCGA
1 ATTTGAATATCGCAACGCGA
* * *
4382623 ATTTGACTATCTCTACTG-GA
1 ATTTGAATATCGCAAC-GCGA
* * *
4382643 AGTTGATTATCGCAACGGGA
1 ATTTGAATATCGCAACGCGA
* *
4382663 AGTTGACTATCGCAACG
1 ATTTGAATATCGCAACG
4382680 AGAAAAATTG
Statistics
Matches: 91, Mismatches: 12, Indels: 16
0.76 0.10 0.13
Matches are distributed among these distances:
14 10 0.11
15 3 0.03
19 4 0.04
20 73 0.80
21 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (20 bp):
ATTTGAATATCGCAACGCGA
Found at i:4382723 original size:94 final size:94
Alignment explanation
Indices: 4382551--4382724 Score: 244
Period size: 94 Copynumber: 1.9 Consensus size: 94
4382541 ACACATTCAT
* * * *
4382551 TTGAATATTGCAACGCGAATTTGACTATCGCAACGCAAAAATCGCAACGCCAATTTGACTATCGC
1 TTGAATATCGCAACGCGAAGTTGACTATCGCAACGCAAAAATCGCAAAGCCAATTAGACTATCGC
4382616 AACGCGAATTTGACTATCTCTACTGGAAG
66 AACGCGAATTTGACTATCTCTACTGGAAG
* * * *
4382645 TTGATTATCGCAACGGGAAGTTGACTATCGCAACGAGAAAAATTGCAAAG-CATATTAGACTATC
1 TTGAATATCGCAACGCGAAGTTGACTATCGCAACG-CAAAAATCGCAAAGCCA-ATTAGACTATC
4382709 GCAACGCGAA-TTGACT
64 GCAACGCGAATTTGACT
4382725 TTCGCGTTGC
Statistics
Matches: 70, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
94 39 0.56
95 31 0.44
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.25
Consensus pattern (94 bp):
TTGAATATCGCAACGCGAAGTTGACTATCGCAACGCAAAAATCGCAAAGCCAATTAGACTATCGC
AACGCGAATTTGACTATCTCTACTGGAAG
Found at i:4382748 original size:20 final size:20
Alignment explanation
Indices: 4382719--4382782 Score: 83
Period size: 20 Copynumber: 3.2 Consensus size: 20
4382709 GCAACGCGAA
* *
4382719 TTGACTTTCGCGTTGCGATT
1 TTGACTTTCGCATTACGATT
*
4382739 TTGGCTTTCGCATTACGATT
1 TTGACTTTCGCATTACGATT
* *
4382759 TTGACTTTTGCATTATGATT
1 TTGACTTTCGCATTACGATT
4382779 TTGA
1 TTGA
4382783 GTTTAGCGTT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.16, C:0.16, G:0.20, T:0.48
Consensus pattern (20 bp):
TTGACTTTCGCATTACGATT
Found at i:4384380 original size:42 final size:42
Alignment explanation
Indices: 4384321--4384443 Score: 133
Period size: 42 Copynumber: 2.9 Consensus size: 42
4384311 GTGAATCGGG
* * *
4384321 CTCTTGAATGGTGGGAGGGACCTCTTCAACGATGACAGGGGC
1 CTCTTGAACGATGGGAGGGACCTCTTAAACGATGACAGGGGC
* ** *
4384363 CTCTTGAACGATGGGAGGGGA-CTCTTGAGGGATGATAGGGGC
1 CTCTTGAACGATGGGA-GGGACCTCTTAAACGATGACAGGGGC
* *
4384405 CTCTTGAACGATAGGAGAGG-CCTCTTAAATGATGACAGG
1 CTCTTGAACGATGGGAG-GGACCTCTTAAACGATGACAGG
4384444 TGAGTCGGGC
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
41 1 0.01
42 62 0.93
43 4 0.06
ACGTcount: A:0.24, C:0.18, G:0.36, T:0.22
Consensus pattern (42 bp):
CTCTTGAACGATGGGAGGGACCTCTTAAACGATGACAGGGGC
Found at i:4384381 original size:21 final size:21
Alignment explanation
Indices: 4384321--4384430 Score: 103
Period size: 21 Copynumber: 5.2 Consensus size: 21
4384311 GTGAATCGGG
* * *
4384321 CTCTTGAATGGTGGGAGGGAC
1 CTCTTGAACGATGGGAGGGGC
* **
4384342 CTCTTCAACGATGACAGGGGC
1 CTCTTGAACGATGGGAGGGGC
*
4384363 CTCTTGAACGATGGGAGGGGA
1 CTCTTGAACGATGGGAGGGGC
** **
4384384 CTCTTGAGGGATGATAGGGGC
1 CTCTTGAACGATGGGAGGGGC
* *
4384405 CTCTTGAACGATAGGAGAGGC
1 CTCTTGAACGATGGGAGGGGC
4384426 CTCTT
1 CTCTT
4384431 AAATGATGAC
Statistics
Matches: 68, Mismatches: 21, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 68 1.00
ACGTcount: A:0.22, C:0.19, G:0.36, T:0.23
Consensus pattern (21 bp):
CTCTTGAACGATGGGAGGGGC
Found at i:4384944 original size:20 final size:20
Alignment explanation
Indices: 4384919--4384961 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
4384909 AATAGTTTCT
*
4384919 GAAACTTAAAATCGCAACAC
1 GAAACTTAAAATCACAACAC
*
4384939 GAAACTTAAAATCACAACGC
1 GAAACTTAAAATCACAACAC
4384959 GAA
1 GAA
4384962 TTTAACTATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.51, C:0.23, G:0.12, T:0.14
Consensus pattern (20 bp):
GAAACTTAAAATCACAACAC
Found at i:4385086 original size:33 final size:34
Alignment explanation
Indices: 4385025--4385100 Score: 100
Period size: 33 Copynumber: 2.3 Consensus size: 34
4385015 ACTAAATTCG
* * *
4385025 CGTTGCTATTTTCATTTTTGCATTGCGATTTTCA
1 CGTTGCGATTTTCATTTTCGCATTGCGATTATCA
* *
4385059 CGTTGCGATTTTTA-TTTCGCATTGCGATTATCC
1 CGTTGCGATTTTCATTTTCGCATTGCGATTATCA
4385092 CGTTGCGAT
1 CGTTGCGAT
4385101 AGTCAAATTC
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
33 25 0.68
34 12 0.32
ACGTcount: A:0.14, C:0.20, G:0.18, T:0.47
Consensus pattern (34 bp):
CGTTGCGATTTTCATTTTCGCATTGCGATTATCA
Found at i:4385117 original size:20 final size:20
Alignment explanation
Indices: 4385092--4385140 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
4385082 GCGATTATCC
4385092 CGTTGCGATAGTCAAATT-CG
1 CGTTGCGATAGTC-AATTCCG
*
4385112 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCAATTCCG
4385132 CGTTGCGAT
1 CGTTGCGAT
4385141 TTTAAGTTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 3 0.11
20 24 0.89
ACGTcount: A:0.18, C:0.22, G:0.27, T:0.33
Consensus pattern (20 bp):
CGTTGCGATAGTCAATTCCG
Found at i:4387073 original size:20 final size:20
Alignment explanation
Indices: 4387050--4387135 Score: 95
Period size: 20 Copynumber: 4.4 Consensus size: 20
4387040 TCTGAAACTT
4387050 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
*
4387070 AAAATCACAACACGAAAATG
1 AAAATCGCAACACGAAAATG
** * *
4387090 ACTATCGTAACGCG-AAATG
1 AAAATCGCAACACGAAAATG
* *
4387109 AAAATCGCAACGCGAAACT-
1 AAAATCGCAACACGAAAATG
4387128 AAAATCGC
1 AAAATCGC
4387136 GTTGCGATTT
Statistics
Matches: 55, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
19 24 0.44
20 31 0.56
ACGTcount: A:0.50, C:0.22, G:0.15, T:0.13
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:4387729 original size:21 final size:21
Alignment explanation
Indices: 4387705--4387835 Score: 112
Period size: 20 Copynumber: 6.4 Consensus size: 21
4387695 GAAAATTGCA
*
4387705 TTGCGATTTTGTATTATCGCG
1 TTGCGATTATGTATTATCGCG
** *
4387726 TTGCGA-TA-GTCAGAATCGTG
1 TTGCGATTATGT-ATTATCGCG
4387746 TTGCGATTATGTATTATCGCG
1 TTGCGATTATGTATTATCGCG
**
4387767 TTGCGA-TA-GTTAGAATCGCG
1 TTGCGATTATG-TATTATCGCG
*
4387787 TTGCGATTATGTATTATCGTG
1 TTGCGATTATGTATTATCGCG
**
4387808 TTGCGA-TA-GTCAGAATCGCG
1 TTGCGATTATGT-ATTATCGCG
4387828 TTGCGATT
1 TTGCGATT
4387836 TACATATTCA
Statistics
Matches: 87, Mismatches: 15, Indels: 16
0.74 0.13 0.14
Matches are distributed among these distances:
19 5 0.06
20 43 0.49
21 36 0.41
22 3 0.03
ACGTcount: A:0.21, C:0.15, G:0.27, T:0.38
Consensus pattern (21 bp):
TTGCGATTATGTATTATCGCG
Found at i:4387762 original size:41 final size:41
Alignment explanation
Indices: 4387705--4387873 Score: 234
Period size: 41 Copynumber: 4.1 Consensus size: 41
4387695 GAAAATTGCA
* *
4387705 TTGCGATTTTGTATTATCGCGTTGCGATAGTCAGAATCGTG
1 TTGCGATTATGTATTATCGCGTTGCGATAGTCAGAATCGCG
*
4387746 TTGCGATTATGTATTATCGCGTTGCGATAGTTAGAATCGCG
1 TTGCGATTATGTATTATCGCGTTGCGATAGTCAGAATCGCG
*
4387787 TTGCGATTATGTATTATCGTGTTGCGATAGTCAGAATCGCG
1 TTGCGATTATGTATTATCGCGTTGCGATAGTCAGAATCGCG
** * * *
4387828 TTGCGATT-TACA-TATTCACATTGCGATAGTCAAAATCGCG
1 TTGCGATTATGTATTA-TCGCGTTGCGATAGTCAGAATCGCG
4387868 TTGCGA
1 TTGCGA
4387874 ATCTGGAAAT
Statistics
Matches: 116, Mismatches: 11, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
39 2 0.02
40 29 0.25
41 85 0.73
ACGTcount: A:0.23, C:0.16, G:0.25, T:0.36
Consensus pattern (41 bp):
TTGCGATTATGTATTATCGCGTTGCGATAGTCAGAATCGCG
Found at i:4387871 original size:20 final size:20
Alignment explanation
Indices: 4387720--4387873 Score: 125
Period size: 20 Copynumber: 7.6 Consensus size: 20
4387710 ATTTTGTATT
4387720 ATCGCGTTGCGATAGTCAGA
1 ATCGCGTTGCGATAGTCAGA
* **
4387740 ATCGTGTTGCGATTATGT-ATT
1 ATCGCGTTGCGA-TA-GTCAGA
*
4387761 ATCGCGTTGCGATAGTTAGA
1 ATCGCGTTGCGATAGTCAGA
**
4387781 ATCGCGTTGCGATTATGT-ATT
1 ATCGCGTTGCGA-TA-GTCAGA
*
4387802 ATCGTGTTGCGATAGTCAGA
1 ATCGCGTTGCGATAGTCAGA
* *
4387822 ATCGCGTTGCGAT-TTACATA
1 ATCGCGTTGCGATAGT-CAGA
* * * *
4387842 TTCACATTGCGATAGTCAAA
1 ATCGCGTTGCGATAGTCAGA
4387862 ATCGCGTTGCGA
1 ATCGCGTTGCGA
4387874 ATCTGGAAAT
Statistics
Matches: 104, Mismatches: 22, Indels: 16
0.73 0.15 0.11
Matches are distributed among these distances:
19 5 0.05
20 66 0.63
21 29 0.28
22 4 0.04
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.34
Consensus pattern (20 bp):
ATCGCGTTGCGATAGTCAGA
Found at i:4387911 original size:20 final size:19
Alignment explanation
Indices: 4387888--4387933 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
4387878 GGAAATTGAT
* *
4387888 TTGCGATACTAGAGATCGCG
1 TTGCGAT-CTAGAGATCACA
*
4387908 TTGCGATTTAGAGATCACA
1 TTGCGATCTAGAGATCACA
4387927 TTGCGAT
1 TTGCGAT
4387934 TTTGTTGGTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.30
Consensus pattern (19 bp):
TTGCGATCTAGAGATCACA
Found at i:4387921 original size:19 final size:19
Alignment explanation
Indices: 4387897--4387935 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
4387887 TTTGCGATAC
* *
4387897 TAGAGATCGCGTTGCGATT
1 TAGAGATCACATTGCGATT
4387916 TAGAGATCACATTGCGATT
1 TAGAGATCACATTGCGATT
4387935 T
1 T
4387936 TGTTGGTCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.33
Consensus pattern (19 bp):
TAGAGATCACATTGCGATT
Found at i:4389402 original size:27 final size:27
Alignment explanation
Indices: 4389372--4389423 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
4389362 ATTTAATTTT
* *
4389372 TTTTATTTTTTTATTTACTTTTTTCCC
1 TTTTAGTTTATTATTTACTTTTTTCCC
* *
4389399 TTTTGGTTTATTATTTTCTTTTTTC
1 TTTTAGTTTATTATTTACTTTTTTC
4389424 TTTGATTTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.10, C:0.12, G:0.04, T:0.75
Consensus pattern (27 bp):
TTTTAGTTTATTATTTACTTTTTTCCC
Found at i:4389427 original size:24 final size:26
Alignment explanation
Indices: 4389382--4389434 Score: 65
Period size: 27 Copynumber: 2.1 Consensus size: 26
4389372 TTTTATTTTT
*
4389382 TTATTTACTTTTTTCCCTTTTGGTTTA
1 TTATTTACTTTTTT-CCTTTTGATTTA
*
4389409 TTATTTTCTTTTTT-C-TTTGATTTA
1 TTATTTACTTTTTTCCTTTTGATTTA
4389433 TT
1 TT
4389435 TAATATTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 10 0.42
25 1 0.04
27 13 0.54
ACGTcount: A:0.11, C:0.11, G:0.06, T:0.72
Consensus pattern (26 bp):
TTATTTACTTTTTTCCTTTTGATTTA
Found at i:4389555 original size:12 final size:13
Alignment explanation
Indices: 4389533--4389561 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
4389523 AGAATCTGGT
4389533 TTTTAAATTTTAA
1 TTTTAAATTTTAA
4389546 TTTT-AATTTTAA
1 TTTTAAATTTTAA
4389558 TTTT
1 TTTT
4389562 CGTAAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTTAAATTTTAA
Found at i:4393224 original size:2 final size:2
Alignment explanation
Indices: 4393217--4393242 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4393207 AAATTATAAT
4393217 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
4393243 CAATAAAGCT
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:4393413 original size:95 final size:95
Alignment explanation
Indices: 4393233--4393493 Score: 362
Period size: 95 Copynumber: 2.7 Consensus size: 95
4393223 TATATATATA
* * *
4393233 TATATATATACAATAAAGCTTGAGCTGTCCCTCTAGAGCAATTGGTTAAACGCCCCAACTTTATG
1 TATA-ATATTCAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGACTTTATG
* * *
4393298 GATAAGATTTAGCTAGCCTGATAAAGGCGAT
65 GATAAGATTCAACTAACCTGATAAAGGCGAT
* *
4393329 TGTAATATTCAATAAAGCTTGAGTTGTCCCTCTAGAGAAATTGGTTAAACGCCCCGACTTTATGG
1 TATAATATTCAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGACTTTATGG
*
4393394 ATAATATTCAACTAACCTGATAAAGGCGAT
66 ATAAGATTCAACTAACCTGATAAAGGCGAT
* * *
4393424 TATAATA-TCTATACAATGATATTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTT
1 TATAATATTCAATA-AA-G--CTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGACTTT
4393488 ATGGAT
62 ATGGAT
4393494 CCAGCTAGCC
Statistics
Matches: 147, Mismatches: 14, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
94 5 0.03
95 91 0.62
96 4 0.03
98 47 0.32
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.31
Consensus pattern (95 bp):
TATAATATTCAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGACTTTATGG
ATAAGATTCAACTAACCTGATAAAGGCGAT
Found at i:4394780 original size:84 final size:84
Alignment explanation
Indices: 4394615--4394834 Score: 273
Period size: 84 Copynumber: 2.6 Consensus size: 84
4394605 GAAACTATTG
* * *
4394615 GCAGTATAACTCAAG-GCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCAACTACACTT
1 GCAGCATAACTCAAGCG-TAGAAGGGTTATCTACCAACAAAAGACCTTCGAGTTCAACTACACTC
4394679 AGCTCCAAGACACATCATTT
65 AGCTCCAAGACACATCATTT
* * * * **
4394699 GCAGCATAGCTTAAGTCG-AGAAGGGTTATCTACCATCAAAAGACCTTCGAGTTCGACTATGCTC
1 GCAGCATAACTCAAG-CGTAGAAGGGTTATCTACCAACAAAAGACCTTCGAGTTCAACTACACTC
* * *
4394763 AGTTCCAAGGCATATCATTT
65 AGCTCCAAGACACATCATTT
* * *
4394783 GCAGTATAACTCAAGGGTAGAAGGGTTATCTACCAACAAAAGACCTTTGAGT
1 GCAGCATAACTCAAGCGTAGAAGGGTTATCTACCAACAAAAGACCTTCGAGT
4394835 AGGGTTTTTC
Statistics
Matches: 115, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
83 1 0.01
84 113 0.98
86 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (84 bp):
GCAGCATAACTCAAGCGTAGAAGGGTTATCTACCAACAAAAGACCTTCGAGTTCAACTACACTCA
GCTCCAAGACACATCATTT
Found at i:4396054 original size:84 final size:83
Alignment explanation
Indices: 4395910--4396429 Score: 421
Period size: 84 Copynumber: 6.3 Consensus size: 83
4395900 TCCAATACAT
* * * *
4395910 ATCATTTGCAGTATAACTCAAGTCTAGAAGGGTTATCTTCCAACAAAAGACCTTCAAGTTCGACT
1 ATCATTTGCAGCATAACTCAAGT-TAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACT
** *
4395975 ACGTTCAACTCAAAGGCAC
65 ACACTCAGCTCAAAGGCAC
* * * *
4395994 ACCATTTGCAGTATAACTTAAGTTGAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGTTCGACT
1 ATCATTTGCAGCATAACTCAAGTT-AGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACT
* * * *
4396059 ACGCTTAGCTCCAAGGCAT
65 ACACTCAGCTCAAAGGCAC
* * * * * * *
4396078 ATCATTTGCAACATAACTCAAGGCTAGAAGGGTTTTCTTCCAACAAAAGATCTTCGAGTTCGATT
1 ATCATTTGCAGCATAACTCAA-GTTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACT
*
4396143 ACACTCAGGTCAAAGGCAC
65 ACACTCAGCTCAAAGGCAC
* * * * * * *
4396162 A--A-TTGCAACATAACTTAAGTCGAGAAGGGCTATCTGCCAACCAAAAACCTTCGAGTTTGATT
1 ATCATTTGCAGCATAACTCAAGT-TAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACT
* *
4396224 ACACTCAGCTTCGAGGGCAC
65 ACACTCAGC-TCAAAGGCAC
* * * * *
4396244 ATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAA-CAAAGACTTTTGAGTTTGATT
1 ATCATTTGCAGCATAACTCAA-GTTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACT
* * * *
4396308 GCACTTAGCTCAACGGCAT
65 ACACTCAGCTCAAAGGCAC
* * * *
4396327 ATCATTTAC-GATATAACTCAAGGCTAGAAGGGTTATCTG----TCAAAGACCATT-GAGTTCGA
1 ATCATTTGCAG-CATAACTCAA-GTTAGAAGGGTTATCTGCCAACCAAAGACC-TTCGAGTTCGA
* * * * *
4396386 TTACACTCAGCTTCGAGGGTAT
63 CTACACTCAGC-TCAAAGGCAC
*
4396408 ATCATTTGCAGCATAGCTCAAG
1 ATCATTTGCAGCATAACTCAAG
4396430 GAAAGAAGGG
Statistics
Matches: 358, Mismatches: 65, Indels: 30
0.79 0.14 0.07
Matches are distributed among these distances:
80 25 0.07
81 81 0.23
82 12 0.03
83 43 0.12
84 163 0.46
85 33 0.09
86 1 0.00
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.27
Consensus pattern (83 bp):
ATCATTTGCAGCATAACTCAAGTTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTA
CACTCAGCTCAAAGGCAC
Found at i:4396439 original size:249 final size:248
Alignment explanation
Indices: 4395908--4396446 Score: 565
Period size: 249 Copynumber: 2.2 Consensus size: 248
4395898 GCTCCAATAC
* * * *
4395908 ATATCATTTGCAGTATAACTCAAGTCTAGAAGGGTTATCTTCCAACAAAAGACCTTCAAGTTCGA
1 ATATCATTTGCAGCATAACTCAAGTCAAGAAGGGCTATCTGCCAACAAAAGACCTTCAAGTTCGA
** * * *
4395973 CTACGTTCAACTCAAAGGCACACCATTTGCAGTATAACTTAAGTTGAGAAGGGCTATCTGCCAAC
66 CTACACTCAACTCAAAGGCACACCATTTGCAGCATAACTCAAGCTGAGAAGGGCTATCTGCCAAC
* *
4396038 CAAAGACCTTCGAGTTCGACTACGCTTAGCTCCAAGGCATATCATTTGCAACATAACTCAAGGCT
131 CAAAGACCTTCGAGTTCGACTACACTTAGCTCCAAGGCATATCATTTACAACATAACTCAAGGCT
* *
4396103 AGAAGGGTTTTCTTCCAACAAAAGATCTTCGAGTTCGATTACACTCAGGTCAAAGG
196 AGAAGGGTTATCTT---ACAAAAGACCTTCGAGTTCGATTACACTCAGGTCAAAGG
* * * * * * *
4396159 -CA-CAATTGCAACATAACTTAAGTCGAGAAGGGCTATCTGCCAACCAAAA-ACCTTCGAGTTTG
1 ATATCATTTGCAGCATAACTCAAGTCAAGAAGGGCTATCTGCCAA-CAAAAGACCTTCAAGTTCG
* * * * * *
4396221 ATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTCAAGGCT-AGAAGGGTTATCTGCC
65 ACTACACTCAAC-TCAAAGGCACACCATTTGCAGCATAACTCAA-GCTGAGAAGGGCTATCTGCC
* * * * * * *
4396285 AA-CAAAGACTTTTGAGTTTGATTGCACTTAGCT-CAACGGCATATCATTTACGATATAACTCAA
128 AACCAAAGACCTTCGAGTTCGACTACACTTAGCTCCAA-GGCATATCATTTACAACATAACTCAA
* * *
4396348 GGCTAGAAGGGTTATCTGT-C-AAAGACCATT-GAGTTCGATTACACTCAGCTTCGAGGG
192 GGCTAGAAGGGTTATCT-TACAAAAGACC-TTCGAGTTCGATTACACTCAG-GTCAAAGG
* **
4396405 TATATCATTTGCAGCATAGCTCAAGGAAAGAAGGGCTATCTG
1 -ATATCATTTGCAGCATAACTCAAGTCAAGAAGGGCTATCTG
4396447 TTAATAAAAT
Statistics
Matches: 235, Mismatches: 43, Indels: 22
0.78 0.14 0.07
Matches are distributed among these distances:
245 24 0.10
246 8 0.03
248 4 0.02
249 147 0.63
250 50 0.21
251 2 0.01
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.26
Consensus pattern (248 bp):
ATATCATTTGCAGCATAACTCAAGTCAAGAAGGGCTATCTGCCAACAAAAGACCTTCAAGTTCGA
CTACACTCAACTCAAAGGCACACCATTTGCAGCATAACTCAAGCTGAGAAGGGCTATCTGCCAAC
CAAAGACCTTCGAGTTCGACTACACTTAGCTCCAAGGCATATCATTTACAACATAACTCAAGGCT
AGAAGGGTTATCTTACAAAAGACCTTCGAGTTCGATTACACTCAGGTCAAAGG
Found at i:4396445 original size:81 final size:81
Alignment explanation
Indices: 4396214--4396447 Score: 274
Period size: 83 Copynumber: 2.9 Consensus size: 81
4396204 AAAAACCTTC
*
4396214 GAGTTTGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTA
1 GAGTTTGATTACACTCAGCTTCGAGGGCATATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTA
* **
4396279 TCTGCCAACAAAGACTTTT
66 TCTG---TCAAAGACCATT
* * * * * *
4396298 GAGTTTGATTGCACTTAGC-TCAACGGCATATCATTTAC-GATATAACTCAAGGCTAGAAGGGTT
1 GAGTTTGATTACACTCAGCTTCGAGGGCATATCATTTGCAG-CATAACTCAAGGCTAGAAGGGTT
4396361 ATCTGTCAAAGACCATT
65 ATCTGTCAAAGACCATT
* * * ** *
4396378 GAGTTCGATTACACTCAGCTTCGAGGGTATATCATTTGCAGCATAGCTCAAGGAAAGAAGGGCTA
1 GAGTTTGATTACACTCAGCTTCGAGGGCATATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTA
4396443 TCTGT
66 TCTGT
4396448 TAATAAAATT
Statistics
Matches: 125, Mismatches: 22, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
80 25 0.20
81 39 0.31
82 2 0.02
83 42 0.34
84 17 0.14
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (81 bp):
GAGTTTGATTACACTCAGCTTCGAGGGCATATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTA
TCTGTCAAAGACCATT
Found at i:4397119 original size:40 final size:40
Alignment explanation
Indices: 4397016--4397193 Score: 168
Period size: 40 Copynumber: 4.4 Consensus size: 40
4397006 TATATATATG
*
4397016 TATATAGTAATATAT--TTTTTGAAAATATTTTTGACAAAATA
1 TATATA-TAATATATAGTTTTTGAAAACATTTTT--CAAAATA
*
4397057 TAATGTATATATTATATAGTTTTTGAAAACATTTTTCAAAATA
1 T-A--TATATAATATATAGTTTTTGAAAACATTTTTCAAAATA
* * *
4397100 TATATATAATATAT-GGTTTTGAAAAACATTTTTGAAAACA
1 TATATATAATATATAGTTTTTG-AAAACATTTTTCAAAATA
* * * *
4397140 TTTATATATTATATAGTTTTT-AAAACA-TTTTGAATATA
1 TATATATAATATATAGTTTTTGAAAACATTTTTCAAAATA
4397178 TATATATATATATATA
1 TATATATA-ATATATA
4397194 TATATATTAA
Statistics
Matches: 116, Mismatches: 13, Indels: 18
0.79 0.09 0.12
Matches are distributed among these distances:
38 16 0.14
39 18 0.16
40 39 0.34
41 6 0.05
42 2 0.02
43 15 0.13
44 4 0.03
45 16 0.14
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.47
Consensus pattern (40 bp):
TATATATAATATATAGTTTTTGAAAACATTTTTCAAAATA
Found at i:4397180 original size:2 final size:2
Alignment explanation
Indices: 4397173--4397200 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4397163 AACATTTTGA
4397173 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
4397201 TAAATAATTT
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:4397296 original size:39 final size:36
Alignment explanation
Indices: 4397225--4397312 Score: 113
Period size: 39 Copynumber: 2.4 Consensus size: 36
4397215 AATATTTTTT
* * *
4397225 TATAGTTTTTAAATTTTTTTTAATATATATATATTA
1 TATAGTTTTTAAATTTTTTTTAAAATAAATATAATA
*
4397261 TATAGTTTTTAATTTTTTTTTGAAAACTTAAATATAATA
1 TATAGTTTTTAAATTTTTTTT-AAAA--TAAATATAATA
4397300 TATAGTTTTTAAA
1 TATAGTTTTTAAA
4397313 ATATATATAT
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
36 20 0.45
37 3 0.07
39 21 0.48
ACGTcount: A:0.38, C:0.01, G:0.05, T:0.57
Consensus pattern (36 bp):
TATAGTTTTTAAATTTTTTTTAAAATAAATATAATA
Found at i:4397308 original size:27 final size:27
Alignment explanation
Indices: 4397289--4397343 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
4397279 TTTGAAAACT
4397289 TAAATATAATATATAGTTTTTAAAATA
1 TAAATATAATATATAGTTTTTAAAATA
* * *
4397316 TATATATTATATATATTTTTTAAAATA
1 TAAATATAATATATAGTTTTTAAAATA
4397343 T
1 T
4397344 TTTTGAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (27 bp):
TAAATATAATATATAGTTTTTAAAATA
Found at i:4397425 original size:3 final size:3
Alignment explanation
Indices: 4397419--4397490 Score: 85
Period size: 3 Copynumber: 24.0 Consensus size: 3
4397409 TTTGAAATAT
* * *
4397419 TTA TTA TTA TTA TTA TTA TTA TTA CTA TTA CTA TTA TTA TTA GTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
4397467 TTA TTA -TA TCTA TTTA TTA -TA TTA
1 TTA TTA TTA T-TA -TTA TTA TTA TTA
4397491 ATTAATTAAT
Statistics
Matches: 59, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
2 4 0.07
3 50 0.85
4 4 0.07
5 1 0.02
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:4398749 original size:15 final size:16
Alignment explanation
Indices: 4398738--4398767 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4398728 AACTTATTTC
4398738 TATT-TTTTTTATTAT
1 TATTCTTTTTTATTAT
4398753 TATTCTTTTTTATTA
1 TATTCTTTTTTATTA
4398768 AATTGTATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (16 bp):
TATTCTTTTTTATTAT
Found at i:4401406 original size:36 final size:36
Alignment explanation
Indices: 4401295--4401406 Score: 170
Period size: 36 Copynumber: 3.1 Consensus size: 36
4401285 GAAACGCCAA
*** *
4401295 GCTTGATATAAATTGTCATAAACACCCCATTGCTCT
1 GCTTGATATAAACCATCATAAACGCCCCATTGCTCT
*
4401331 GCTCGATATAAACCATCATAAACGCCCCATTGCTCT
1 GCTTGATATAAACCATCATAAACGCCCCATTGCTCT
*
4401367 GCTTGATATAAACCATCATAAACGCCCCATAGCTCT
1 GCTTGATATAAACCATCATAAACGCCCCATTGCTCT
4401403 GCTT
1 GCTT
4401407 CAAGGATGTT
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 69 1.00
ACGTcount: A:0.30, C:0.29, G:0.12, T:0.29
Consensus pattern (36 bp):
GCTTGATATAAACCATCATAAACGCCCCATTGCTCT
Found at i:4402928 original size:26 final size:26
Alignment explanation
Indices: 4402892--4402949 Score: 116
Period size: 26 Copynumber: 2.2 Consensus size: 26
4402882 TACAGTTAAA
4402892 TACAACAAGATGCATCACTTTTCACT
1 TACAACAAGATGCATCACTTTTCACT
4402918 TACAACAAGATGCATCACTTTTCACT
1 TACAACAAGATGCATCACTTTTCACT
4402944 TACAAC
1 TACAAC
4402950 TCACGTGAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.36, C:0.28, G:0.07, T:0.29
Consensus pattern (26 bp):
TACAACAAGATGCATCACTTTTCACT
Found at i:4407188 original size:6 final size:6
Alignment explanation
Indices: 4407177--4407207 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
4407167 TTATCTCCTT
4407177 TGCTAC TGCTAC TGCTAC TGCTAC TGCTAC T
1 TGCTAC TGCTAC TGCTAC TGCTAC TGCTAC T
4407208 ACTCCCTCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.16, C:0.32, G:0.16, T:0.35
Consensus pattern (6 bp):
TGCTAC
Found at i:4408229 original size:17 final size:18
Alignment explanation
Indices: 4408193--4408233 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
4408183 ATATTATGTA
*
4408193 TTTAATTTATTTAAGCAT
1 TTTACTTTATTTAAGCAT
*
4408211 TTTACTTTATTTAA-TAT
1 TTTACTTTATTTAAGCAT
4408228 TTTACT
1 TTTACT
4408234 AATATAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.29, C:0.07, G:0.02, T:0.61
Consensus pattern (18 bp):
TTTACTTTATTTAAGCAT
Found at i:4413331 original size:11 final size:12
Alignment explanation
Indices: 4413305--4413333 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
4413295 CCAAAGATGA
4413305 AAAGGTATGTTG
1 AAAGGTATGTTG
4413317 AAAGGTATG-TG
1 AAAGGTATGTTG
4413328 AAAGGT
1 AAAGGT
4413334 GTTTAGTATG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 8 0.47
12 9 0.53
ACGTcount: A:0.38, C:0.00, G:0.34, T:0.28
Consensus pattern (12 bp):
AAAGGTATGTTG
Found at i:4416973 original size:18 final size:18
Alignment explanation
Indices: 4416933--4416973 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
4416923 CACAGCAGCC
*
4416933 ACCACAGCCATTTATAAT
1 ACCACAGCCATATATAAT
* *
4416951 GCCACAGCCATATATGAT
1 ACCACAGCCATATATAAT
4416969 ACCAC
1 ACCAC
4416974 CGCCTTTCCA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.37, C:0.32, G:0.10, T:0.22
Consensus pattern (18 bp):
ACCACAGCCATATATAAT
Found at i:4419804 original size:51 final size:51
Alignment explanation
Indices: 4419728--4419838 Score: 136
Period size: 51 Copynumber: 2.2 Consensus size: 51
4419718 TTACGTGGCG
* **
4419728 TATAGCGCGGATCAAGGGGCGCGCTATA-CCCACGTGTAAGCCATGTCAGCA
1 TATAGCGCGGATCAAGGGGAGCGCTATACCCCACGTG-AAGCCAAATCAGCA
* **
4419779 TATAGCGCGG-TACAGGGGGAGCGCTATACCCCACGTGGCGCCAAATCAGCA
1 TATAGCGCGGAT-CAAGGGGAGCGCTATACCCCACGTGAAGCCAAATCAGCA
4419830 TATAGCGCG
1 TATAGCGCG
4419839 TGGCAGGAAG
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
50 1 0.02
51 43 0.83
52 8 0.15
ACGTcount: A:0.25, C:0.28, G:0.31, T:0.16
Consensus pattern (51 bp):
TATAGCGCGGATCAAGGGGAGCGCTATACCCCACGTGAAGCCAAATCAGCA
Found at i:4419854 original size:51 final size:51
Alignment explanation
Indices: 4419746--4419854 Score: 114
Period size: 51 Copynumber: 2.1 Consensus size: 51
4419736 GGATCAAGGG
** **
4419746 GCGCGCTATACCCACGTGTAAGCCATGTCAGCATATAGCGCGGTACAGGGG
1 GCGCGCTATACCCACGTGTAAGCCAAATCAGCATATAGCGCGGTACAGGAA
* ** *
4419797 GAGCGCTATACCCCACGTG-GCGCCAAATCAGCATATAGCGC-GTGGCAGGAA
1 GCGCGCTATA-CCCACGTGTAAGCCAAATCAGCATATAGCGCGGT-ACAGGAA
4419848 GCGCGCT
1 GCGCGCT
4419855 TTACTACTAC
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
50 2 0.04
51 37 0.79
52 8 0.17
ACGTcount: A:0.24, C:0.29, G:0.31, T:0.16
Consensus pattern (51 bp):
GCGCGCTATACCCACGTGTAAGCCAAATCAGCATATAGCGCGGTACAGGAA
Done.