Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007805.1 Hibiscus syriacus cultivar Beakdansim tig00110123_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: 2708727
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 11
Found at i:1950809 original size:3 final size:3
Alignment explanation
Indices: 1950801--1950848 Score: 71
Period size: 3 Copynumber: 16.0 Consensus size: 3
1950791 AATTATTTTT
*
1950801 TAA TAA TAA TAA T-A TATA TAA TAA TTA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
1950846 TAA
1 TAA
1950849 AATGAGTAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
2 2 0.05
3 36 0.88
4 3 0.07
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:1951529 original size:113 final size:113
Alignment explanation
Indices: 1951262--1951801 Score: 782
Period size: 113 Copynumber: 4.8 Consensus size: 113
1951252 ATTTATCGAG
* * * *
1951262 TGATGAATTTGAGCGAAAA-GTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTTCTTTTTCAG
1 TGATGAATTTGAGC-AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
* ** *
1951326 ATGAGTTCTTCTCATTATGAACTCTTTCACTGGGGATGCTGATCCATCAAA
65 ATGAGTTCTTCTCATTATGAA--CTTTCTCTGGCAAAGCTGATCCATCAAA
* * *
1951377 TGATGAATTTAAACAAAAGGTTGAACAAATTCTTTTCATTATGAACTTCTTCTTCCTTCTTCAGA
1 TGATGAATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGA
*
1951442 TGAGTTCTTCTCATTATGAACTTTTTCTGG-AGAAGCTGATCCATCAAA
66 TGAGTTCTTCTCATTATGAACTTTCTCTGGCA-AAGCTGATCCATCAAA
* *
1951490 TGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGA
1 TGATGAATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGA
* *
1951555 TGAGTTCTTCTCATTATGAACTTTCTCTGGCAAAGCTAATCCATCAAG
66 TGAGTTCTTCTCATTATGAACTTTCTCTGGCAAAGCTGATCCATCAAA
* * *
1951603 TGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTTAGA
1 TGATGAATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGA
*
1951668 TGAGTTCTTCTTATTATGAACTTTCTCTGGCAAAGCTGATCCATCAAA
66 TGAGTTCTTCTCATTATGAACTTTCTCTGGCAAAGCTGATCCATCAAA
* ** * *
1951716 TAATGAATTCAAGCAAAA-GTTGAACAAGTTCTTCTTATTATGAACTTCTTCTT-CTCTCTTCAG
1 TGATGAATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCT-TCTTCAG
1951779 ATGAGTTCTTCTCATTATGAACT
65 ATGAGTTCTTCTCATTATGAACT
1951802 CTAACTGACA
Statistics
Matches: 389, Mismatches: 32, Indels: 11
0.90 0.07 0.03
Matches are distributed among these distances:
111 2 0.01
112 60 0.15
113 249 0.64
114 5 0.01
115 73 0.19
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.39
Consensus pattern (113 bp):
TGATGAATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGA
TGAGTTCTTCTCATTATGAACTTTCTCTGGCAAAGCTGATCCATCAAA
Found at i:1952701 original size:83 final size:83
Alignment explanation
Indices: 1952561--1952948 Score: 686
Period size: 83 Copynumber: 4.7 Consensus size: 83
1952551 CTGGGTTTTA
*
1952561 TATCAAACCAAATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCC
1 TATCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCC
* * *
1952626 AAATTCAATAACTGGTTT
66 AAATTCAATGATTGATTT
* *
1952644 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTTC
1 TATCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCC
1952709 AAATTCAATGATTGATTT
66 AAATTCAATGATTGATTT
1952727 TATCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCC
1 TATCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCC
* *
1952792 AAATTAAATTATTGATTT
66 AAATTCAATGATTGATTT
1952810 TATCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCC
1 TATCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCC
1952875 AAATTCAATGATTGATTT
66 AAATTCAATGATTGATTT
* *
1952893 TATCAAACCAGATCAGATAACTCAAAGAACACTTCCAAAAGATGCTATTAGCACAT
1 TATCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACAT
1952949 GGCATTTGTT
Statistics
Matches: 291, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
83 291 1.00
ACGTcount: A:0.39, C:0.23, G:0.11, T:0.27
Consensus pattern (83 bp):
TATCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCC
AAATTCAATGATTGATTT
Found at i:1954361 original size:31 final size:30
Alignment explanation
Indices: 1954308--1954381 Score: 89
Period size: 31 Copynumber: 2.4 Consensus size: 30
1954298 CCTTGACCCC
*
1954308 CTTTTTCTTTT-TTCTTTCTTTTTTTCTTTT
1 CTTTTT-TTTTCTTCCTTCTTTTTTTCTTTT
1954338 CTTTTTTTTTCTTCCTTCTTTTTTTTCTTTT
1 CTTTTTTTTTCTTCCTTC-TTTTTTTCTTTT
*
1954369 -TTCTTTTTCTCTT
1 CTT-TTTTTTTCTT
1954382 TAAGCATAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
29 4 0.10
30 14 0.36
31 21 0.54
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (30 bp):
CTTTTTTTTTCTTCCTTCTTTTTTTCTTTT
Found at i:1954363 original size:26 final size:24
Alignment explanation
Indices: 1954309--1954374 Score: 89
Period size: 26 Copynumber: 2.7 Consensus size: 24
1954299 CTTGACCCCC
1954309 TTTTTCTTTTTTCTTTCTTTTTTT
1 TTTTTCTTTTTTCTTTCTTTTTTT
*
1954333 CTTTTCTTTTTT-TTTCTTCCTTCTTT
1 TTTTTCTTTTTTCTTTCTT--TT-TTT
1954359 TTTTTCTTTTTTCTTT
1 TTTTTCTTTTTTCTTT
1954375 TTCTCTTTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
23 6 0.17
24 11 0.31
25 2 0.06
26 14 0.39
27 3 0.08
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (24 bp):
TTTTTCTTTTTTCTTTCTTTTTTT
Found at i:1954375 original size:13 final size:13
Alignment explanation
Indices: 1954308--1954378 Score: 78
Period size: 12 Copynumber: 5.6 Consensus size: 13
1954298 CCTTGACCCC
1954308 CTTTTTCTTTTTT
1 CTTTTTCTTTTTT
*
1954321 CTTTCT-TTTTTT
1 CTTTTTCTTTTTT
1954333 C-TTTTCTTTTTT
1 CTTTTTCTTTTTT
*
1954345 -TTTCTTCCTTCTTT
1 CTTT-TT-CTTTTTT
1954359 -TTTTTCTTTTTT
1 CTTTTTCTTTTTT
1954371 CTTTTTCT
1 CTTTTTCT
1954379 CTTTAAGCAT
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
11 3 0.06
12 21 0.43
13 16 0.33
14 9 0.18
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (13 bp):
CTTTTTCTTTTTT
Found at i:1961660 original size:15 final size:15
Alignment explanation
Indices: 1961636--1961668 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
1961626 GAAAATCATG
1961636 AAATGAATGTATGCA
1 AAATGAATGTATGCA
*
1961651 AAATGCATGTATGCA
1 AAATGAATGTATGCA
1961666 AAA
1 AAA
1961669 AAAAGTATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.48, C:0.09, G:0.18, T:0.24
Consensus pattern (15 bp):
AAATGAATGTATGCA
Found at i:1965782 original size:15 final size:16
Alignment explanation
Indices: 1965740--1965782 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
1965730 TAAAAATATT
*
1965740 TAAATATATAAACAAG
1 TAAAAATATAAACAAG
*
1965756 TAAAATTA-AAACAA-
1 TAAAAATATAAACAAG
1965770 TAAAAATATAAAC
1 TAAAAATATAAAC
1965783 TATATATATG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
14 7 0.30
15 10 0.43
16 6 0.26
ACGTcount: A:0.67, C:0.07, G:0.02, T:0.23
Consensus pattern (16 bp):
TAAAAATATAAACAAG
Found at i:1967098 original size:3 final size:3
Alignment explanation
Indices: 1967090--1967152 Score: 92
Period size: 3 Copynumber: 21.0 Consensus size: 3
1967080 AATTATTTTT
* *
1967090 TAA TAA TAA TAA T-A TATA TAA TAA TTA TAA TAA TAA TAA TTA TAA
1 TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
1967135 TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA
1967153 AATGAGTAAA
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
2 2 0.04
3 49 0.91
4 3 0.06
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:1969104 original size:3 final size:3
Alignment explanation
Indices: 1969096--1969175 Score: 110
Period size: 3 Copynumber: 27.0 Consensus size: 3
1969086 TAGTATTTTT
* * *
1969096 TAA TAA TAA TAA TAA TAA TAA TTA TAA TTA TAA -AA TAA TAA TAG TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1969143 TAAA TAA -AA TAA TAA TAA TAA TAA TAA TAA TAA
1 T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1969176 CAAATGGGTG
Statistics
Matches: 68, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
2 4 0.06
3 61 0.90
4 3 0.04
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:1969632 original size:121 final size:115
Alignment explanation
Indices: 1969492--1970260 Score: 672
Period size: 113 Copynumber: 6.7 Consensus size: 115
1969482 ATTTCAATAT
** * *
1969492 GTGATGAATCAAA-TTAAGGTTGAACAAGTTCTTTTCATTATGAACTTCTT-TTCCTTCTTCAGA
1 GTGATGAATCAAACAAAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGA
* **
1969555 TGAGTTCTTCTTATTATGAACACTTCTGGAAATGTTGATACTGATCTATCTCCTTCT
66 TGAGTTCTTCTCATTATGAACACTTCT-GAAATGTTGATACTGATC-A--T-C--AA
* *
1969612 GTGATAGAATCAAAC-AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTTC-TCTTCAG
1 GTGAT-GAATCAAACAAAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
* ** ***
1969675 ATAAGTTCTTCTCATTATG-A-ACTT-T-ACCTGGCAATACTGATCCATCAA
65 ATGAGTTCTTCTCATTATGAACACTTCTGAAATGTTGATACTGAT-CATCAA
* *
1969723 GTGATGAATTAGAGCAAAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
1 GTGATGAATCA-AACAAAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
* * * *
1969788 ATGAGTTCTTCGCATTATGAACTCTACCAGAAATGTTGAT-C----CATCGAA
65 ATGAGTTCTTCTCATTATGAACACT-TCTGAAATGTTGATACTGATCATC-AA
* *
1969836 -TGATGAATTCAAGCAAAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTTTTCCTTCTTCAG
1 GTGATGAA-TCAAACAAAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
* * * * *
1969900 TTGAGTTCTTCTCATTATGAACTTCCTCTGGAACA-ATTGAT-C----CACCGAA
65 ATGAGTTCTTCTCATTATGAAC-ACTTCT-GAA-ATGTTGATACTGATCATC-AA
* * *
1969949 -TGATGAATTCAAGCAAAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTATTTCTTCTTCAG
1 GTGATGAA-TCAAACAAAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
* * *
1970013 ATGAGTTCTTCTCATTATGAACTTCCTCTGGAACA-ATTGAT-C----CATCGAA
65 ATGAGTTCTTCTCATTATGAAC-ACTTCT-GAA-ATGTTGATACTGATCATC-AA
* *
1970062 -TAATGAATTCAAGCAAAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
1 GTGATGAA-TCAAACAAAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
* *
1970126 ATGAGTTCTTCTCATTATGAACTTCCTCTAGAACA-GTTG--A-T--TCATCGAA
65 ATGAGTTCTTCTCATTATGAAC-ACTTCT-GAA-ATGTTGATACTGATCATC-AA
* *
1970175 -TGATGAATTCAAGCAAAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTGTTCCTTCTTCAG
1 GTGATGAA-TCAAACAAAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
*
1970239 ATGAGTTATTCTCATTATGAAC
65 ATGAGTTCTTCTCATTATGAAC
1970261 TTCCTATGGA
Statistics
Matches: 582, Mismatches: 47, Indels: 47
0.86 0.07 0.07
Matches are distributed among these distances:
110 5 0.01
111 7 0.01
112 123 0.21
113 343 0.59
114 3 0.01
115 2 0.00
116 12 0.02
117 2 0.00
118 6 0.01
119 4 0.01
120 6 0.01
121 66 0.11
122 3 0.01
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.38
Consensus pattern (115 bp):
GTGATGAATCAAACAAAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGA
TGAGTTCTTCTCATTATGAACACTTCTGAAATGTTGATACTGATCATCAA
Found at i:1969998 original size:113 final size:113
Alignment explanation
Indices: 1969627--1970299 Score: 1017
Period size: 113 Copynumber: 6.0 Consensus size: 113
1969617 AGAATCAAAC
* *
1969627 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTT-C-TCTTCAGATAAGTTCTTCTCAT
1 AAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTT-TTTCCTTCTTCAGATGAGTTCTTCTCAT
*
1969690 TATGAACTTTAC-CTGG--CAATACTGATCCATC-AAGTGATGAATT-AGAGCA
65 TATGAAC-TTCCTCTGGAACAAT--TGATCCATCGAA-TGATGAATTCA-AGCA
* *
1969739 AAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCGCATT
1 AAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTTTTCCTTCTTCAGATGAGTTCTTCTCATT
** *
1969804 ATGAAC-T-CTACCAGAA-ATGTTGATCCATCGAATGATGAATTCAAGCA
66 ATGAACTTCCT-CTGGAACA-ATTGATCCATCGAATGATGAATTCAAGCA
*
1969851 AAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTTTTCCTTCTTCAGTTGAGTTCTTCTCATT
1 AAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTTTTCCTTCTTCAGATGAGTTCTTCTCATT
*
1969916 ATGAACTTCCTCTGGAACAATTGATCCACCGAATGATGAATTCAAGCA
66 ATGAACTTCCTCTGGAACAATTGATCCATCGAATGATGAATTCAAGCA
1969964 AAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTATTT-CTTCTTCAGATGAGTTCTTCTCAT
1 AAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTT-TTTCCTTCTTCAGATGAGTTCTTCTCAT
*
1970028 TATGAACTTCCTCTGGAACAATTGATCCATCGAATAATGAATTCAAGCA
65 TATGAACTTCCTCTGGAACAATTGATCCATCGAATGATGAATTCAAGCA
*
1970077 AAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTTTTCCTTCTTCAGATGAGTTCTTCTCATT
* * *
1970142 ATGAACTTCCTCTAGAACAGTTGATTCATCGAATGATGAATTCAAGCA
66 ATGAACTTCCTCTGGAACAATTGATCCATCGAATGATGAATTCAAGCA
* *
1970190 AAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTGTTCCTTCTTCAGATGAGTTATTCTCATT
1 AAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTTTTCCTTCTTCAGATGAGTTCTTCTCATT
* *
1970255 ATGAACTTCCTATGGAACAATTGATCCATCGAATGATGGATTCAA
66 ATGAACTTCCTCTGGAACAATTGATCCATCGAATGATGAATTCAA
1970300 ATCTTTGCTA
Statistics
Matches: 518, Mismatches: 29, Indels: 27
0.90 0.05 0.05
Matches are distributed among these distances:
110 1 0.00
111 3 0.01
112 130 0.25
113 377 0.73
114 7 0.01
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.37
Consensus pattern (113 bp):
AAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTTTTCCTTCTTCAGATGAGTTCTTCTCATT
ATGAACTTCCTCTGGAACAATTGATCCATCGAATGATGAATTCAAGCA
Found at i:1971865 original size:15 final size:15
Alignment explanation
Indices: 1971845--1971887 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
1971835 CCTTTTCTAT
* *
1971845 ATTTTTCTTTTTCATT
1 ATTTTT-TTCTTCATC
1971861 ATTTTTTTCTTCATC
1 ATTTTTTTCTTCATC
1971876 ATTTTTTTCTTC
1 ATTTTTTTCTTC
1971888 TTCAAGCATA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 19 0.76
16 6 0.24
ACGTcount: A:0.12, C:0.16, G:0.00, T:0.72
Consensus pattern (15 bp):
ATTTTTTTCTTCATC
Found at i:1971869 original size:18 final size:17
Alignment explanation
Indices: 1971846--1971891 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
1971836 CTTTTCTATA
**
1971846 TTTTTCTTTTTCATTATT
1 TTTTTCTTCATCATT-TT
1971864 TTTTTCTTCATCATTTT
1 TTTTTCTTCATCATTTT
1971881 TTTCTTCTTCA
1 TTT-TTCTTCA
1971892 AGCATAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 5 0.20
18 20 0.80
ACGTcount: A:0.11, C:0.17, G:0.00, T:0.72
Consensus pattern (17 bp):
TTTTTCTTCATCATTTT
Found at i:1979095 original size:14 final size:16
Alignment explanation
Indices: 1979078--1979109 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1979068 ATTATTTTTT
1979078 TGAAT-TTTAT-TTAA
1 TGAATGTTTATCTTAA
1979092 TGAATGTTTATCTTAA
1 TGAATGTTTATCTTAA
1979108 TG
1 TG
1979110 TAAAATAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.31
15 5 0.31
16 6 0.38
ACGTcount: A:0.31, C:0.03, G:0.12, T:0.53
Consensus pattern (16 bp):
TGAATGTTTATCTTAA
Found at i:1982368 original size:19 final size:19
Alignment explanation
Indices: 1982344--1982388 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
1982334 ACAAACAAAT
*
1982344 AAATAATAAA-ATTTAATAA
1 AAATAATAAACA-TAAATAA
1982363 AAATAA-AAACATAAATAA
1 AAATAATAAACATAAATAA
1982381 AAA-AATAA
1 AAATAATAA
1982389 TAATAACAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
17 2 0.09
18 14 0.61
19 7 0.30
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (19 bp):
AAATAATAAACATAAATAA
Found at i:1984681 original size:3 final size:3
Alignment explanation
Indices: 1984666--1984748 Score: 62
Period size: 3 Copynumber: 28.0 Consensus size: 3
1984656 ATAGTATTTG
* * * * * * * *
1984666 TAA TAA CAA TAA TAA TAA TTA TTA TTA TTA TTA TAA -AA TAA CAA TAG
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
1984713 TAA TGAA TAA -AA TAA TAA TAA CAA TAA TAA TAA TAA
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1984749 AAACAAATGG
Statistics
Matches: 67, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
2 4 0.06
3 60 0.90
4 3 0.04
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:1988659 original size:22 final size:22
Alignment explanation
Indices: 1988631--1988732 Score: 107
Period size: 22 Copynumber: 4.6 Consensus size: 22
1988621 TGACTTTTTT
1988631 GTCAAAGTCAACAGTCAGACCA
1 GTCAAAGTCAACAGTCAGACCA
** *
1988653 GTCAAAGTCAATGGTCAGACCG
1 GTCAAAGTCAACAGTCAGACCA
* ** *
1988675 GTTAAAGTCAATGGTAAGACCA
1 GTCAAAGTCAACAGTCAGACCA
*
1988697 GTCAAAGTCAACAGTCATACC-
1 GTCAAAGTCAACAGTCAGACCA
*
1988718 GATTAAAGTCAACAG
1 G-TCAAAGTCAACAG
1988733 GTCGGGTCGG
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
21 1 0.01
22 66 0.99
ACGTcount: A:0.39, C:0.22, G:0.21, T:0.19
Consensus pattern (22 bp):
GTCAAAGTCAACAGTCAGACCA
Found at i:1995007 original size:31 final size:31
Alignment explanation
Indices: 1994956--1995037 Score: 119
Period size: 31 Copynumber: 2.6 Consensus size: 31
1994946 TGTCATTTAA
* * *
1994956 ATCATATCACTGGTATTTTTCACATATTCAC
1 ATCATATAACTTGTACTTTTCACATATTCAC
*
1994987 TTCATATAACTTGTACTTTTCACATATTCAC
1 ATCATATAACTTGTACTTTTCACATATTCAC
*
1995018 ATCATATAACATGTACTTTT
1 ATCATATAACTTGTACTTTT
1995038 TATTTCATTT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.30, C:0.21, G:0.05, T:0.44
Consensus pattern (31 bp):
ATCATATAACTTGTACTTTTCACATATTCAC
Found at i:1995294 original size:24 final size:24
Alignment explanation
Indices: 1995267--1995313 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
1995257 TACTTATATG
1995267 AGAGTGCACAAATACACTAATACA
1 AGAGTGCACAAATACACTAATACA
*
1995291 AGAGTGCACAAATGCACTAATAC
1 AGAGTGCACAAATACACTAATAC
1995314 TAGATCAATC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.47, C:0.21, G:0.15, T:0.17
Consensus pattern (24 bp):
AGAGTGCACAAATACACTAATACA
Found at i:1998713 original size:12 final size:12
Alignment explanation
Indices: 1998682--1998742 Score: 52
Period size: 13 Copynumber: 4.8 Consensus size: 12
1998672 AAAGTAATTT
1998682 ATTA-TTTAATAA
1 ATTATTTTAAT-A
1998694 ATTATTTTAATA
1 ATTATTTTAATA
*
1998706 ATTATTTTGATTA
1 ATTATTTT-AATA
*
1998719 TTTATTACTTAATA
1 ATTATT--TTAATA
1998733 ATTTATTTTA
1 A-TTATTTTA
1998743 TATTTTATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
12 13 0.32
13 17 0.43
14 3 0.08
15 7 0.17
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (12 bp):
ATTATTTTAATA
Found at i:1998885 original size:13 final size:13
Alignment explanation
Indices: 1998863--1998909 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
1998853 ATTTTAACTG
*
1998863 CACTTCTAAACAA-
1 CACTTTTAAA-AAT
1998876 CACTTTTAAAAAT
1 CACTTTTAAAAAT
*
1998889 CATTTTTAAAAAGT
1 CACTTTTAAAAA-T
1998903 CACTTTT
1 CACTTTT
1998910 CTACCGCACT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
12 2 0.07
13 20 0.69
14 7 0.24
ACGTcount: A:0.40, C:0.19, G:0.02, T:0.38
Consensus pattern (13 bp):
CACTTTTAAAAAT
Found at i:1998932 original size:13 final size:14
Alignment explanation
Indices: 1998876--1998943 Score: 61
Period size: 13 Copynumber: 5.1 Consensus size: 14
1998866 TTCTAAACAA
*
1998876 CACTTTT-AAAAAT
1 CACTTTTCAAAAGT
* *
1998889 CATTTTTAAAAAGT
1 CACTTTTCAAAAGT
* **
1998903 CACTTTTCTACCG-
1 CACTTTTCAAAAGT
1998916 CACTTTT-AAAAGT
1 CACTTTTCAAAAGT
1998929 CACTTTTCAAAAGT
1 CACTTTTCAAAAGT
1998943 C
1 C
1998944 CTGCCAAACT
Statistics
Matches: 42, Mismatches: 10, Indels: 5
0.74 0.18 0.09
Matches are distributed among these distances:
12 2 0.05
13 20 0.48
14 20 0.48
ACGTcount: A:0.35, C:0.21, G:0.06, T:0.38
Consensus pattern (14 bp):
CACTTTTCAAAAGT
Found at i:2000086 original size:49 final size:49
Alignment explanation
Indices: 2000029--2000126 Score: 187
Period size: 49 Copynumber: 2.0 Consensus size: 49
2000019 CCCGAGAAAG
2000029 GAATGAAATCTCAATGATTGAAACATTAGAAAAATAAGAAGCCAACCAA
1 GAATGAAATCTCAATGATTGAAACATTAGAAAAATAAGAAGCCAACCAA
*
2000078 GAATGAAATCTCAATGATTGAAACATTAGAAAAATAATAAGCCAACCAA
1 GAATGAAATCTCAATGATTGAAACATTAGAAAAATAAGAAGCCAACCAA
2000127 AAACTAATTC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.53, C:0.14, G:0.13, T:0.19
Consensus pattern (49 bp):
GAATGAAATCTCAATGATTGAAACATTAGAAAAATAAGAAGCCAACCAA
Found at i:2002414 original size:44 final size:43
Alignment explanation
Indices: 2002364--2002722 Score: 326
Period size: 44 Copynumber: 8.2 Consensus size: 43
2002354 ATAGAAGCAG
* *
2002364 TGGATCAACATCACAATTTTGAATGATTCCATCACATAAGGAGT
1 TGGATCAACATCACCATTTTG-CTGATTCCATCACATAAGGAGT
** ** * *
2002408 TGGATCAACATCATTATTTTGCTCGATAACATTACATAAGGAGC
1 TGGATCAACATCACCATTTTGCT-GATTCCATCACATAAGGAGT
* * * * *
2002452 TGGATCAACATCACCCTTTTGCTCATTTACATCTCATAAGAAGT
1 TGGATCAACATCACCATTTTGCTGA-TTCCATCACATAAGGAGT
* * * *
2002496 TGGATCAACATCACCCTTTTGTTCGATTCAATCACATAAGGATT
1 TGGATCAACATCACCATTTTGCT-GATTCCATCACATAAGGAGT
* *
2002540 TAGAT-AAGCATCACCCTTTTGCTTGATTCCATCACATAAGGAGT
1 TGGATCAA-CATCACCATTTTGC-TGATTCCATCACATAAGGAGT
** * *
2002584 TGGATCAACATCACTTTTTTGCTTGATTTCATCATATAAGGAGT
1 TGGATCAACATCACCATTTTGC-TGATTCCATCACATAAGGAGT
* * * *
2002628 TGGACCAACATCATCATTTTGCTCGATTTCATCACATAAGGAGG
1 TGGATCAACATCACCATTTTGCT-GATTCCATCACATAAGGAGT
* * * * *
2002672 TGGATTAACATCGACC-TTTTGCTAGATTTCATCACAAAATGAGG
1 TGGATCAACATC-ACCATTTTGCT-GATTCCATCACATAAGGAGT
2002716 TGGATCA
1 TGGATCA
2002723 GCACAATCAA
Statistics
Matches: 262, Mismatches: 45, Indels: 16
0.81 0.14 0.05
Matches are distributed among these distances:
43 5 0.02
44 251 0.96
45 6 0.02
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (43 bp):
TGGATCAACATCACCATTTTGCTGATTCCATCACATAAGGAGT
Found at i:2002516 original size:132 final size:131
Alignment explanation
Indices: 2002346--2002722 Score: 377
Period size: 132 Copynumber: 2.9 Consensus size: 131
2002336 TACAAACTCG
* * *
2002346 ATTTCATCATAGAAGCAG-TGGATCAACATCACAATTTTGAAT-GATTCCATCACATAAGGAGTT
1 ATTTCATCATATAAGAAGTTGGATCAACATCACCATTTTG-ATCGATTCCATCACATAAGGAGTT
** *
2002409 GGATCAACATCATTATTTTGCTCGATAACATTACATAAGGAGCTGGATCAACATCACCCTTTTGC
65 GGAT-AACATCACCATTTTGCTCGATAACATCACATAAGGAGCTGGATCAACATCACCCTTTTGC
2002474 -TC
129 TTC
* * * *
2002476 ATTTACATC-TCATAAGAAGTTGGATCAACATCACCCTTTTGTTCGATTCAATCACATAAGGATT
1 ATTT-CATCAT-ATAAGAAGTTGGATCAACATCACCATTTTGATCGATTCCATCACATAAGGAGT
* * * ** * **
2002540 TAGATAAGCATCACCCTTTTGCTTGATTCCATCACATAAGGAGTTGGATCAACATCACTTTTTTG
64 TGGATAA-CATCACCATTTTGCTCGATAACATCACATAAGGAGCTGGATCAACATCACCCTTTTG
*
2002605 CTTG
128 CTTC
* * * * * *
2002609 ATTTCATCATATAAGGAGTTGGACCAACATCATCATTTTGCTCGATTTCATCACATAAGGAGGTG
1 ATTTCATCATATAAGAAGTTGGATCAACATCACCATTTTGATCGATTCCATCACATAAGGAGTTG
* ** * * *
2002674 GATTAACATCGACC-TTTTGCTAGATTTCATCACAAAATGAGGTGGATCA
66 GA-TAACATC-ACCATTTTGCTCGATAACATCACATAAGGAGCTGGATCA
2002723 GCACAATCAA
Statistics
Matches: 204, Mismatches: 34, Indels: 16
0.80 0.13 0.06
Matches are distributed among these distances:
130 5 0.02
131 13 0.06
132 174 0.85
133 12 0.06
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (131 bp):
ATTTCATCATATAAGAAGTTGGATCAACATCACCATTTTGATCGATTCCATCACATAAGGAGTTG
GATAACATCACCATTTTGCTCGATAACATCACATAAGGAGCTGGATCAACATCACCCTTTTGCTT
C
Found at i:2006041 original size:139 final size:137
Alignment explanation
Indices: 2005720--2006238 Score: 550
Period size: 139 Copynumber: 3.8 Consensus size: 137
2005710 CCCCGACCCT
* ** *
2005720 TTTAATTTAGGTGAATTTTT-TTTGGTCCTCACATTTATGCATGAGGTTTCATTTTGATTATTTT
1 TTTAATTTAGGTGAATTTTTATTTGGTCCTCACATTTATGCATGAGGTTCCATTTCAATTATTTG
* * * * *
2005784 CTTTAATTATTGGATAAAATTGGTTAGGATGAATAACTA-AGCCTCAATTTTAGTTTAATTTCA-
66 ATTCAATAATTGGATAAAATTGGTTAGGAT-AATAATTAGAACCTCAATTTTAGTTTAATTTCAT
* *
2005847 CTCTGGTCC
130 TTC-AGTCC
**
2005856 TTTAATTTAGGTGACATTTTTATTTGGTCCT-AGCATTTATATATGAGGTTCCATTTCAATTATT
1 TTTAATTTAGGTGA-ATTTTTATTTGGTCCTCA-CATTTATGCATGAGGTTCCATTTCAATTATT
* * * *
2005920 TGATTCATTAATTGGATAAAATTGGTTAGGAATAATGATTAGATCCTCCATTTTAGTTTAATTTC
64 TGATTCAATAATTGGATAAAATTGGTTAGG-ATAATAATTAGAACCTCAATTTTAGTTTAATTTC
2005985 ATTTCAGTCC
128 ATTTCAGTCC
* * * * *
2005995 TTTAATTTAGATGAATTTTTGATTTGATACTCGCATTTATGCATGAGGTTCCATTTCAATGATTT
1 TTTAATTTAGGTGAATTTTT-ATTTGGTCCTCACATTTATGCATGAGGTTCCATTTCAATTATTT
* * * * * * * ** **
2006060 GATCCAATAATTGGTTAAAATAGATCAGGGTAAT-ATTAAAACCTTTACCTTAGGTTTAAGTTT-
65 GATTCAATAATTGGATAAAATTGGTTAGGATAATAATTAGAACCTCAATTTTA-GTTTAA-TTTC
2006123 ACTTT-AGTCC
128 A-TTTCAGTCC
* * *
2006133 TTTAATTTAGGTGAATTTTTATTTGGTCCTCACATTTATGCCTGAGGTTTCATTTCAATTATCTG
1 TTTAATTTAGGTGAATTTTTATTTGGTCCTCACATTTATGCATGAGGTTCCATTTCAATTATTTG
*
2006198 ATTCAATAATT-TACTAAAATTGGTTAGGATTAATAATTAGA
66 ATTCAATAATTGGA-TAAAATTGGTTAGGA-TAATAATTAGA
2006239 GCTTTGATAA
Statistics
Matches: 317, Mismatches: 52, Indels: 25
0.80 0.13 0.06
Matches are distributed among these distances:
136 14 0.04
137 78 0.25
138 111 0.35
139 112 0.35
140 2 0.01
ACGTcount: A:0.29, C:0.12, G:0.15, T:0.45
Consensus pattern (137 bp):
TTTAATTTAGGTGAATTTTTATTTGGTCCTCACATTTATGCATGAGGTTCCATTTCAATTATTTG
ATTCAATAATTGGATAAAATTGGTTAGGATAATAATTAGAACCTCAATTTTAGTTTAATTTCATT
TCAGTCC
Found at i:2006567 original size:19 final size:19
Alignment explanation
Indices: 2006543--2006579 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
2006533 ATTCAAACAC
2006543 TTTAGATTTTATTATTTTA
1 TTTAGATTTTATTATTTTA
2006562 TTTAGATTTTATTATTTT
1 TTTAGATTTTATTATTTT
2006580 TATTACGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.70
Consensus pattern (19 bp):
TTTAGATTTTATTATTTTA
Found at i:2008604 original size:65 final size:63
Alignment explanation
Indices: 2008530--2008689 Score: 205
Period size: 65 Copynumber: 2.5 Consensus size: 63
2008520 GAATAAATTG
* * *
2008530 AACATCGAATGCATTTTATGTATCGATGCACATACCATGCATCGATGCACTCAAGGT-TTTATGA
1 AACATCGAATGCATTTCATGCATCGATGCACA-ACCATGCATCGATGCACTCAAGCTATTT-TG-
2008594 A
63 A
* * *
2008595 AACATCGAATACATTTGATGCATCGATGCACCAGCCATGCATCGATGCACTCAAGCTATTTTGA
1 AACATCGAATGCATTTCATGCATCGATGCA-CAACCATGCATCGATGCACTCAAGCTATTTTGA
* *
2008659 AACATCAAATGCATTTCATGCGTCGATGCAC
1 AACATCGAATGCATTTCATGCATCGATGCAC
2008690 TCTTAGTGCA
Statistics
Matches: 84, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
63 1 0.01
64 27 0.32
65 51 0.61
66 5 0.06
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (63 bp):
AACATCGAATGCATTTCATGCATCGATGCACAACCATGCATCGATGCACTCAAGCTATTTTGA
Found at i:2014144 original size:44 final size:44
Alignment explanation
Indices: 2014094--2014191 Score: 112
Period size: 44 Copynumber: 2.2 Consensus size: 44
2014084 TTTGTGCTTA
* *
2014094 ATGCATCGATACACT-T-AACAGTGCATCGATGCAT-CCATTTGAAT
1 ATGCATCGATAAACTATGAA-AGTGCACCGATGCATGCC--TTGAAT
*
2014138 ATGCATCGATAAACTATGAAGGTGCACCGATGCATGCCTTGAAT
1 ATGCATCGATAAACTATGAAAGTGCACCGATGCATGCCTTGAAT
*
2014182 GTGCATCGAT
1 ATGCATCGAT
2014192 GCACAAGGCC
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
44 29 0.62
45 14 0.30
46 4 0.09
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (44 bp):
ATGCATCGATAAACTATGAAAGTGCACCGATGCATGCCTTGAAT
Found at i:2016585 original size:14 final size:15
Alignment explanation
Indices: 2016553--2016585 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
2016543 GGGGGAGTAA
2016553 TTTTCAAAATTTAAT
1 TTTTCAAAATTTAAT
2016568 TTTTCAAAATTT-AT
1 TTTTCAAAATTTAAT
2016582 TTTT
1 TTTT
2016586 AAAGAAAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (15 bp):
TTTTCAAAATTTAAT
Found at i:2018271 original size:139 final size:139
Alignment explanation
Indices: 2018057--2018575 Score: 550
Period size: 139 Copynumber: 3.8 Consensus size: 139
2018047 CCCAGACCTT
* * * * ** **
2018057 TTTAATTTAGGTGAATTTTTTATTTGATCCTTGTATTT-TGCATGAGGTTTTATTTTGATTATTT
1 TTTAATTTAGGTGAATTTTTTATTTGGTCATAGTATTTATGCCTGAGGTTCCATTTCAATTATTT
* * * * *
2018121 GATTCAATAATTGGATAAAATTGGTTAGGATGAATAACTATAGCCTCCATTTTAGTTTAATTTCA
66 GATTCAATAATTGGATAAAATTGGTTAGGATTAATAATTAAAACCTTCATTTTAGTTTAATTTCA
* *
2018186 CTATGGTTC
131 CTTTAGTTC
* * **
2018195 TTTTATTTAGGTGACTTTTTTATTTGGTCATAGTATTTATATCTGAGGTTCCATTTCAATTATTT
1 TTTAATTTAGGTGAATTTTTTATTTGGTCATAGTATTTATGCCTGAGGTTCCATTTCAATTATTT
* * * *
2018260 GATTCATTAATTGGATAAAATTGGTTAGGATTAATGATTAGATCCTTCATTTTAGTTTAATTTCA
66 GATTCAATAATTGGATAAAATTGGTTAGGATTAATAATTAAAACCTTCATTTTAGTTTAATTTCA
*
2018325 CTTTAGTCC
131 CTTTAGTTC
* * * * *
2018334 TTTAATTTAGATGAATTTTTGATTTGGT-ACTCGTATTTATGCCTGAGGTTCTATTTCAATGATT
1 TTTAATTTAGGTGAATTTTTTATTTGGTCA-TAGTATTTATGCCTGAGGTTCCATTTCAATTATT
* * * * * * **
2018398 TGATACAATAATTGGTTAAAATTGATCAGG-GTAAT-ATTAAAACCTTTACCTTAGGTTTAATTT
65 TGATTCAATAATTGGATAAAATTGGTTAGGATTAATAATTAAAACCTTCATTTTA-GTTTAATTT
2018461 CACTTTAG-TC
129 CACTTTAGTTC
* * * *
2018471 GTTTAATTTAGGTGAA-TTTTTATTTGGTCCTCACT-TTTATGCCAGAGGCTCCATTTCAATTAT
1 -TTTAATTTAGGTGAATTTTTTATTTGGTCAT-AGTATTTATGCCTGAGGTTCCATTTCAATTAT
* *
2018534 TCGATTCAATAATT-TACTAAAATTGGTTAGGATTAATAATTA
64 TTGATTCAATAATTGGA-TAAAATTGGTTAGGATTAATAATTA
2018576 GAGCTTTGAT
Statistics
Matches: 313, Mismatches: 59, Indels: 17
0.80 0.15 0.04
Matches are distributed among these distances:
137 74 0.24
138 74 0.24
139 165 0.53
ACGTcount: A:0.28, C:0.10, G:0.15, T:0.47
Consensus pattern (139 bp):
TTTAATTTAGGTGAATTTTTTATTTGGTCATAGTATTTATGCCTGAGGTTCCATTTCAATTATTT
GATTCAATAATTGGATAAAATTGGTTAGGATTAATAATTAAAACCTTCATTTTAGTTTAATTTCA
CTTTAGTTC
Found at i:2018564 original size:276 final size:277
Alignment explanation
Indices: 2018057--2018577 Score: 631
Period size: 276 Copynumber: 1.9 Consensus size: 277
2018047 CCCAGACCTT
* * * * * ** *
2018057 TTTAATTTAGGTGAATTTTTTATTTGATCCTTGTATTTTGCATGAGGTTTTATTTTGATTATTTG
1 TTTAATTTAGATGAATTTTTGATTTGATACTCGTATTTTGCATGAGGTTCTATTTCAATGATTTG
* * * * * **
2018122 ATTCAATAATTGGATAAAATTGGTTAGGATGAATAACTATAGCCTCCATTTTAGTTTAATTTCAC
66 ATACAATAATTGGATAAAATTGATCAGGATGAATAACTAAAACCTCCACCTTAGTTTAATTTCAC
* * * * * * *
2018187 TATGGTTCTTTTATTTAGGTGACTTTTTTATTTGGTCATAGTATTTATATCTGAGGTTCCATTTC
131 TATAGTTCTTTAATTTAGGTGACATTTTTATTTGGTCATACTATTTATACCAGAGGCTCCATTTC
* * *
2018252 AATTATTTGATTCATTAATTGGATAAAATTGGTTAGGATTAATGATTAGATCCTTCATTTTAGTT
196 AATTATTCGATTCAATAATTGGATAAAATTGGTTAGGATTAATAATTAGATCCTTCATTTTAGTT
2018317 TAATTTCACTTTAGTCC
261 TAATTTCACTTTAGTCC
* *
2018334 TTTAATTTAGATGAATTTTTGATTTGGTACTCGTATTTATGCCTGAGGTTCTATTTCAATGATTT
1 TTTAATTTAGATGAATTTTTGATTTGATACTCGTATTT-TGCATGAGGTTCTATTTCAATGATTT
* * * **
2018399 GATACAATAATTGGTTAAAATTGATCAGGGT-AAT-ATTAAAACCTTTACCTTAGGTTTAATTTC
65 GATACAATAATTGGATAAAATTGATCAGGATGAATAACTAAAACCTCCACCTTA-GTTTAATTTC
* * *
2018462 ACTTTAG-TCGTTTAATTTAGGTGA-ATTTTTATTTGGTCCTCACT-TTTATGCCAGAGGCTCCA
129 ACTATAGTTC-TTTAATTTAGGTGACATTTTTATTTGGTCAT-ACTATTTATACCAGAGGCTCCA
*
2018524 TTTCAATTATTCGATTCAATAATT-TACTAAAATTGGTTAGGATTAATAATTAGA
192 TTTCAATTATTCGATTCAATAATTGGA-TAAAATTGGTTAGGATTAATAATTAGA
2018578 GCTTTGATAA
Statistics
Matches: 203, Mismatches: 36, Indels: 11
0.81 0.14 0.04
Matches are distributed among these distances:
275 1 0.00
276 89 0.44
277 66 0.33
278 47 0.23
ACGTcount: A:0.28, C:0.10, G:0.15, T:0.47
Consensus pattern (277 bp):
TTTAATTTAGATGAATTTTTGATTTGATACTCGTATTTTGCATGAGGTTCTATTTCAATGATTTG
ATACAATAATTGGATAAAATTGATCAGGATGAATAACTAAAACCTCCACCTTAGTTTAATTTCAC
TATAGTTCTTTAATTTAGGTGACATTTTTATTTGGTCATACTATTTATACCAGAGGCTCCATTTC
AATTATTCGATTCAATAATTGGATAAAATTGGTTAGGATTAATAATTAGATCCTTCATTTTAGTT
TAATTTCACTTTAGTCC
Found at i:2018908 original size:19 final size:19
Alignment explanation
Indices: 2018880--2018917 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
2018870 AAATTCAAAC
2018880 ATTTAGATTTTATTATTTT
1 ATTTAGATTTTATTATTTT
*
2018899 ATTTATATTTTATTATTTT
1 ATTTAGATTTTATTATTTT
2018918 TATTAGGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (19 bp):
ATTTAGATTTTATTATTTT
Found at i:2021021 original size:139 final size:138
Alignment explanation
Indices: 2020857--2021366 Score: 458
Period size: 139 Copynumber: 3.7 Consensus size: 138
2020847 CCCCGAACTT
* * * *
2020857 TTTAATTTAGGTGTATTTTTTATTTGGTCCTCGCAGTTATGCATGATGTTTCATTT-TGATTATT
1 TTTAATTTAGGTG-ATTTTTTATTTGGTCCTCGCATTTATGCATGAGGTTCCATTTCAG-TTATT
* *
2020921 TGATTCAATT-ATTGGATAAAATTGGCTAGGATGAATAACTGTAGCCTCCATTTTAGTTTAATTT
64 TGATTC-ATTAATTGGATAAAATTGGCTAGGATGAACAACTATAGCCTCCATTTTAGTTTAATTT
*
2020985 CACTATGGTCC
128 CACTATCGTCC
* **
2020996 TTTAATTTAGGTGACTTTTTTATTTGGTCCTAGCATTTATATATGAGGTTCCATTTCAGTTATTT
1 TTTAATTTAGGTGA-TTTTTTATTTGGTCCTCGCATTTATGCATGAGGTTCCATTTCAGTTATTT
* * * * *
2021061 GATTCATTAATTGGATAAAATTGGTTAGGATTAACGATTATATCCTCCATTTTAGTTTAATTTCA
65 GATTCATTAATTGGATAAAATTGGCTAGGATGAACAACTATAGCCTCCATTTTAGTTTAATTTCA
* *
2021126 GTTTCGTCC
130 CTATCGTCC
* * * * * * * *
2021135 TTTAATTTAGATGAATTTTTATTTGGTACTCTCATTTATGCCT-AAGTGTCCATTTCAATGATTT
1 TTTAATTTAGGTGATTTTTTATTTGGTCCTCGCATTTATGCATGAGGT-TCCATTTCAGTTATTT
* * * * * * * * ** ** **
2021199 GATCCAATAATTGGTTAAAATT-GATCAGGGT-AA-TATTAAAATCTTTACCTTAGGTTTAATTT
65 GATTCATTAATTGGATAAAATTGGCT-AGGATGAACAACTATAGCCTCCATTTTA-GTTTAATTT
* *
2021261 CACTTTAGTCC
128 CACTATCGTCC
* * * * *
2021272 TTTAATTTAGGTGAATTTTTATTTGGTCCTCACATTTATGCCTGAGGTTCCATTTCAATTATTCG
1 TTTAATTTAGGTGATTTTTTATTTGGTCCTCGCATTTATGCATGAGGTTCCATTTCAGTTATTTG
* * *
2021337 ATTCAATAATT-TACTAAAATTGGTTAGGAT
66 ATTCATTAATTGGA-TAAAATTGGCTAGGAT
2021367 TATTAATTAG
Statistics
Matches: 308, Mismatches: 54, Indels: 20
0.81 0.14 0.05
Matches are distributed among these distances:
136 11 0.04
137 101 0.33
138 68 0.22
139 127 0.41
140 1 0.00
ACGTcount: A:0.26, C:0.13, G:0.15, T:0.46
Consensus pattern (138 bp):
TTTAATTTAGGTGATTTTTTATTTGGTCCTCGCATTTATGCATGAGGTTCCATTTCAGTTATTTG
ATTCATTAATTGGATAAAATTGGCTAGGATGAACAACTATAGCCTCCATTTTAGTTTAATTTCAC
TATCGTCC
Found at i:2021699 original size:19 final size:20
Alignment explanation
Indices: 2021672--2021712 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
2021662 ATTCAAACAC
2021672 TTTAGATTTTATTATTT-TA
1 TTTAGATTTTATTATTTGTA
*
2021691 TTTATATTTTATTATTTGTA
1 TTTAGATTTTATTATTTGTA
2021711 TT
1 TT
2021713 AGGAATTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (20 bp):
TTTAGATTTTATTATTTGTA
Found at i:2023113 original size:13 final size:13
Alignment explanation
Indices: 2023095--2023119 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2023085 GTTTTAAATT
2023095 AAATCAAAATTTG
1 AAATCAAAATTTG
2023108 AAATCAAAATTT
1 AAATCAAAATTT
2023120 TTCAATTTTA
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:0.56, C:0.08, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATCAAAATTTG
Found at i:2024524 original size:13 final size:13
Alignment explanation
Indices: 2024508--2024537 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
2024498 TTTATTTTAA
2024508 TATTTTAAAAAAT
1 TATTTTAAAAAAT
2024521 TATTTTAAAAAAT
1 TATTTTAAAAAAT
2024534 TATT
1 TATT
2024538 AATGACCCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
TATTTTAAAAAAT
Found at i:2025816 original size:40 final size:40
Alignment explanation
Indices: 2025761--2025842 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
2025751 TGGCGACGCT
2025761 AAACGCAATGGGCATAGTAGCCAGTGGATATAATATCACA
1 AAACGCAATGGGCATAGTAGCCAGTGGATATAATATCACA
2025801 AAACGCAATGGGCATAGTAGCCAGTGGATATAATATCACA
1 AAACGCAATGGGCATAGTAGCCAGTGGATATAATATCACA
2025841 AA
1 AA
2025843 CGGTGAAAAG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.41, C:0.17, G:0.22, T:0.20
Consensus pattern (40 bp):
AAACGCAATGGGCATAGTAGCCAGTGGATATAATATCACA
Found at i:2033987 original size:21 final size:21
Alignment explanation
Indices: 2033961--2034002 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
2033951 TATATTTGTC
2033961 TTCAAAC-CATATGTTATATAT
1 TTCAAACAC-TATGTTATATAT
*
2033982 TTCAAACACTATTTTATATAT
1 TTCAAACACTATGTTATATAT
2034003 ATATATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 18 0.95
22 1 0.05
ACGTcount: A:0.38, C:0.14, G:0.02, T:0.45
Consensus pattern (21 bp):
TTCAAACACTATGTTATATAT
Found at i:2034003 original size:2 final size:2
Alignment explanation
Indices: 2033996--2034020 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2033986 AACACTATTT
2033996 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
2034021 TTCAAAACTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2034020 original size:39 final size:39
Alignment explanation
Indices: 2033975--2034089 Score: 108
Period size: 45 Copynumber: 2.8 Consensus size: 39
2033965 AACCATATGT
**
2033975 TATATATTTCAAACACTATTTTATA-TATATATATATATA
1 TATATATTTCAAA-ACTATACTATACTATATATATATATA
* *
2034014 TATATATTTCAAAACTATACTATACTCTATATATATTTCAAAA
1 TATATATTTCAAAACTATACTATA--CTATATATATAT--ATA
*
2034057 CTATTTATTTTCAAAACTATACTATA-TATATAT
1 -TATATA-TTTCAAAACTATACTATACTATATAT
2034090 TTATTTTTCA
Statistics
Matches: 64, Mismatches: 5, Indels: 11
0.80 0.06 0.14
Matches are distributed among these distances:
38 9 0.14
39 13 0.20
41 10 0.16
42 7 0.11
43 2 0.03
44 5 0.08
45 18 0.28
ACGTcount: A:0.43, C:0.11, G:0.00, T:0.46
Consensus pattern (39 bp):
TATATATTTCAAAACTATACTATACTATATATATATATA
Found at i:2034032 original size:29 final size:29
Alignment explanation
Indices: 2034000--2034060 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
2033990 CTATTTTATA
2034000 TATA-TATATATATATATATATTTCAAAAC
1 TATACTATA-ATATATATATATTTCAAAAC
* *
2034029 TATACTATACTCTATATATATTTCAAAAC
1 TATACTATAATATATATATATTTCAAAAC
2034058 TAT
1 TAT
2034061 TTATTTTCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 25 0.86
30 4 0.14
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.44
Consensus pattern (29 bp):
TATACTATAATATATATATATTTCAAAAC
Found at i:2034069 original size:45 final size:46
Alignment explanation
Indices: 2034011--2034132 Score: 176
Period size: 47 Copynumber: 2.6 Consensus size: 46
2034001 ATATATATAT
* *
2034011 ATATATATATTTCAAAACTATACTATACTCTATA-TATATTTCAAAAC
1 ATATTTAT-TTTCAAAACTATACTATA-TATATATTATATTTCAAAAC
*
2034058 -TATTTATTTTCAAAACTATACTATATATATATTTATTTTTCAAAAC
1 ATATTTATTTTCAAAACTATACTATATATATA-TTATATTTCAAAAC
2034104 ATATTTATTTTCAAAACTATACTATATAT
1 ATATTTATTTTCAAAACTATACTATATAT
2034133 TTCAAAACTA
Statistics
Matches: 69, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
44 5 0.07
45 18 0.26
46 18 0.26
47 28 0.41
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.46
Consensus pattern (46 bp):
ATATTTATTTTCAAAACTATACTATATATATATTATATTTCAAAAC
Found at i:2034137 original size:20 final size:19
Alignment explanation
Indices: 2034041--2034168 Score: 113
Period size: 20 Copynumber: 7.3 Consensus size: 19
2034031 TACTATACTC
2034041 TATATATATTTCAAAACTA
1 TATATATATTTCAAAACTA
2034060 T-T-TAT-TTTCAAAACTA
1 TATATATATTTCAAAACTA
2034076 TACTATATA--T----A-TA
1 TA-TATATATTTCAAAACTA
*
2034089 T-T-TATTTTTCAAAAC-A
1 TATATATATTTCAAAACTA
*
2034105 TATTTAT-TTTCAAAACTA
1 TATATATATTTCAAAACTA
2034123 TACTATATATTTCAAAACTA
1 TA-TATATATTTCAAAACTA
2034143 TACTATATATTTCAAAACTA
1 TA-TATATATTTCAAAACTA
2034163 TATATA
1 TATATA
2034169 GTATACATAT
Statistics
Matches: 91, Mismatches: 2, Indels: 32
0.73 0.02 0.26
Matches are distributed among these distances:
10 3 0.03
11 1 0.01
12 1 0.01
13 3 0.03
14 1 0.01
16 15 0.16
17 13 0.14
18 9 0.10
19 12 0.13
20 33 0.36
ACGTcount: A:0.43, C:0.12, G:0.00, T:0.45
Consensus pattern (19 bp):
TATATATATTTCAAAACTA
Found at i:2034139 original size:37 final size:39
Alignment explanation
Indices: 2034085--2034168 Score: 111
Period size: 37 Copynumber: 2.2 Consensus size: 39
2034075 ATACTATATA
* * *
2034085 TATATTTATTTTTCAAAAC-ATA-TTTAT-TTTCAAAAC
1 TATATATATATTTCAAAACTATACTATATATTTCAAAAC
2034121 TATACTATATATTTCAAAACTATACTATATATTTCAAAAC
1 TATA-TATATATTTCAAAACTATACTATATATTTCAAAAC
2034161 TATATATA
1 TATATATA
2034169 GTATACATAT
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
36 4 0.10
37 13 0.32
38 3 0.07
39 8 0.20
40 13 0.32
ACGTcount: A:0.43, C:0.12, G:0.00, T:0.45
Consensus pattern (39 bp):
TATATATATATTTCAAAACTATACTATATATTTCAAAAC
Found at i:2036861 original size:23 final size:23
Alignment explanation
Indices: 2036835--2036892 Score: 98
Period size: 23 Copynumber: 2.5 Consensus size: 23
2036825 ATATATTAGG
2036835 TAGCGCTTATATAATGTAATAGA
1 TAGCGCTTATATAATGTAATAGA
*
2036858 TAGCGCTTATATAATGTAATAGG
1 TAGCGCTTATATAATGTAATAGA
*
2036881 TAGCACTTATAT
1 TAGCGCTTATAT
2036893 TGATCTATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.36
Consensus pattern (23 bp):
TAGCGCTTATATAATGTAATAGA
Found at i:2037570 original size:200 final size:198
Alignment explanation
Indices: 2037058--2037571 Score: 678
Period size: 199 Copynumber: 2.6 Consensus size: 198
2037048 ACAATTTAGG
* * * * * *
2037058 CCTATTTTTTCATAAAACCGGTATATTTCTATCGGGTACATTGTAAATTTACCTATCACATTGTA
1 CCTATTTTCTAATAAAACCGGTATATTTATATCGGTTACATTGTAAATTTACCTATTACATTATA
* *
2037123 ATTATCGATTTCGATATTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCATGCA
66 ATTATCGGTTTCGAT-TTTTTGGGATCGATACTTTTAATAAATGTATCGAAACTTTATGCATGCA
* *
2037188 CCCGTTTGGCATTCATTATGGACAAAATGTATCGAAACAAATTTAATAAGTGTCGATACTTTATG
130 CCCGTTTGGCATTCATTATGGACAAAATGTATCGAAACAAATTTAACAAGTGTCGATACATTATG
2037253 ATGA
195 ATGA
* * *
2037257 CCTATTTTCTCATAAAACCGGTATATTTATACCGGTTACATTGTAAATTTACATATTACATTATA
1 CCTATTTTCTAATAAAACCGGTATATTTATATCGGTTACATTGTAAATTTACCTATTACATTATA
* * * *
2037322 ATTATCGGTTTCAATTTTATTGGGATCGATGCTTTTAATAATTGTATCGAAACTTTATGCGTGCA
66 ATTATCGGTTTCGATTTT-TTGGGATCGATACTTTTAATAAATGTATCGAAACTTTATGCATGCA
* *
2037387 CCTCGTTTGGGCATTCATTCTGGACAATAA-GTATCGACACAAA-TTACACAAGTGTCGATACAT
130 CC-CGTTT-GGCATTCATTATGGACAA-AATGTATCGAAACAAATTTA-ACAAGTGTCGATACAT
*
2037450 TATGTTGA
191 TATGATGA
* * * * *
2037458 CCTGTTTTCTAAT-TAACCGATATATTTATATCGGTTATATTGTTAATTTACCTATTACATTATA
1 CCTATTTTCTAATAAAACCGGTATATTTATATCGGTTACATTGTAAATTTACCTATTACATTATA
*
2037522 ATTATTGGTTTCGATGTTTGTTGGG-TCGATACTTTTAGA-AAATGTATCGA
66 ATTATCGGTTTCGAT-TTT-TTGGGATCGATACTTTTA-ATAAATGTATCGA
2037572 CACATATTTA
Statistics
Matches: 277, Mismatches: 31, Indels: 13
0.86 0.10 0.04
Matches are distributed among these distances:
198 3 0.01
199 115 0.42
200 87 0.31
201 70 0.25
202 2 0.01
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (198 bp):
CCTATTTTCTAATAAAACCGGTATATTTATATCGGTTACATTGTAAATTTACCTATTACATTATA
ATTATCGGTTTCGATTTTTTGGGATCGATACTTTTAATAAATGTATCGAAACTTTATGCATGCAC
CCGTTTGGCATTCATTATGGACAAAATGTATCGAAACAAATTTAACAAGTGTCGATACATTATGA
TGA
Found at i:2037914 original size:25 final size:25
Alignment explanation
Indices: 2037886--2037944 Score: 100
Period size: 25 Copynumber: 2.4 Consensus size: 25
2037876 ACTTTTACAA
*
2037886 GGGCATTCAATGTGGTCACCATTTT
1 GGGCATTCAATGCGGTCACCATTTT
*
2037911 GGGCATTCAATGCGTTCACCATTTT
1 GGGCATTCAATGCGGTCACCATTTT
2037936 GGGCATTCA
1 GGGCATTCA
2037945 TTCCGGACAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.20, C:0.22, G:0.24, T:0.34
Consensus pattern (25 bp):
GGGCATTCAATGCGGTCACCATTTT
Found at i:2039855 original size:18 final size:18
Alignment explanation
Indices: 2039834--2039869 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
2039824 ATCATCATCA
*
2039834 TCATCATCATCTTCATTG
1 TCATCATCATATTCATTG
*
2039852 TCATCTTCATATTCATTG
1 TCATCATCATATTCATTG
2039870 ACCTCTTGGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.22, C:0.25, G:0.06, T:0.47
Consensus pattern (18 bp):
TCATCATCATATTCATTG
Found at i:2041848 original size:200 final size:199
Alignment explanation
Indices: 2041406--2042513 Score: 1308
Period size: 200 Copynumber: 5.5 Consensus size: 199
2041396 TATATTTTCT
* ** * * *
2041406 CATAAAACCGATATATTTATACCGGTTACATTGGAAATTTACCAATTACATTATAATTATCGGTT
1 CATAAAACCGGTATATTTATACCGGTTACATTACAAAATTACCTATTACATTATAATTATGGGTT
* * *
2041471 TCGATGTTTTTGAGATCGACACTTTTTAA-AAATGTATCGACACTTTATGC--GCAACCCTTTT-
66 TCGATGTTTCTG-GATCGACAC-TTTCAATAAATGTATCGACACTTTATGCGTGC-ACCATTTTG
* * * **
2041532 GACATTCCTTCTGGACAAAAAGTATCGACACAAATTCCACAAGTGTTAATACATGT-TGTAGACC
128 GGCATTCCTTCTGGACAAAAAGTATCGACACAAATTACAAAAGTGTCGATACAT-TATGTAGACC
2041596 TATTCT-A
192 TATTCTCA
* * ** * *
2041603 TCATAAAATCGGTATAGTTATACCGGTTACATTGTAAATTTACCTATTACATTATATTTATGGGT
1 -CATAAAACCGGTATATTTATACCGGTTACATTACAAAATTACCTATTACATTATAATTATGGGT
* *
2041668 TTCGATGTTTCTGGTATCGACACTTTCAATAAATGTATCGACACTTTATGCGTTCATCATTTTGG
65 TTCGATGTTTCTGG-ATCGACACTTTCAATAAATGTATCGACACTTTATGCGTGCACCATTTTGG
* * * *
2041733 GCATTCGTTCTGGACAAAAGGTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAGACCTA
129 GCATTCCTTCTGGACAAAAAGTATCGACACAAATTACAAAAGTGTCGATACATTATGTAGACCTA
2041798 TTCTCA
194 TTCTCA
* * * *
2041804 CATAAAACCGTTATATTTATACCAGTTATATTACAAAATTACCTATTACATTATAATTATGAGTT
1 CATAAAACCGGTATATTTATACCGGTTACATTACAAAATTACCTATTACATTATAATTATGGGTT
* * ** * *
2041869 TCGATGTTTTTAGGATCGACAATTTTTATAAATGTATCGACACTTAATG-GTGCACCCTTTTTGG
66 TCGATGTTTCT-GGATCGACACTTTCAATAAATGTATCGACACTTTATGCGTGCA-CCATTTTGG
* *
2041933 GCATTCCTTCTGGACCAAAAGTATCGACACAAATTACACAAGTGTCGATACA-TATTGTAGACCT
129 GCATTCCTTCTGGACAAAAAGTATCGACACAAATTACAAAAGTGTCGATACATTA-TGTAGACCT
*
2041997 ATTCTCT
193 ATTCTCA
* *
2042004 CATAAAATCGGTATATGTATACCGGTTACATTGA-AAAATTACCTATTACATTATAATTATGGGT
1 CATAAAACCGGTATATTTATACCGGTTACATT-ACAAAATTACCTATTACATTATAATTATGGGT
* * *
2042068 TTCGATGTTTCTAGGATCGATACTTGTTC-ATAAATGTATCGACACTTTTTGCGTGCACCCTTTT
65 TTCGATGTTTCT-GGATCGACAC-T-TTCAATAAATGTATCGACACTTTATGCGTGCA-CCATTT
* * *
2042132 TGGGCATTCCTTATGGA-AAAACAGTATCGACACAAATTCCATAAGTGTCGATACATTATGTAGA
126 TGGGCATTCCTTCTGGACAAAA-AGTATCGACACAAATTACAAAAGTGTCGATACATTATGTAGA
*
2042196 CCTATTCTCT
190 CCTATTCTCA
** * * * ** * *
2042206 CATAAAAATGGTTTAGTTATACCGATTACATTGTAAATTTACCTATTACAATAT-ATCTATGGGT
1 CATAAAACCGGTATATTTATACCGGTTACATTACAAAATTACCTATTACATTATAAT-TATGGGT
* *
2042270 TTCGATGTTTCTGGGATCGACACTTTCAATAAATGTATCGACACTTTATGCGTTCATCATTTTGG
65 TTCGATGTTTCT-GGATCGACACTTTCAATAAATGTATCGACACTTTATGCGTGCACCATTTTGG
** * * *
2042335 GCATTAATTCTGGACAAAACGTATCGACACATTATGA-AAAAGTGTCGATACATTATGT-GCACC
129 GCATTCCTTCTGGACAAAAAGTATCGACACA-AATTACAAAAGTGTCGATACATTATGTAG-ACC
2042398 TATTCTCA
192 TATTCTCA
* * *
2042406 CATAAAACTGGTATATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATGTGTT
1 CATAAAACCGGTATATTTATACCGGTTACATTACAAAATTACCTATTACATTATAATTATGGGTT
* **
2042471 TCGATGTTTTTGGGATCGACACTTTTTATAAATGTATCGACAC
66 TCGATGTTTCT-GGATCGACACTTTCAATAAATGTATCGACAC
2042514 ATATGCTTAC
Statistics
Matches: 788, Mismatches: 99, Indels: 44
0.85 0.11 0.05
Matches are distributed among these distances:
197 6 0.01
198 98 0.12
199 14 0.02
200 454 0.58
201 65 0.08
202 149 0.19
203 2 0.00
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (199 bp):
CATAAAACCGGTATATTTATACCGGTTACATTACAAAATTACCTATTACATTATAATTATGGGTT
TCGATGTTTCTGGATCGACACTTTCAATAAATGTATCGACACTTTATGCGTGCACCATTTTGGGC
ATTCCTTCTGGACAAAAAGTATCGACACAAATTACAAAAGTGTCGATACATTATGTAGACCTATT
CTCA
Found at i:2042335 original size:402 final size:397
Alignment explanation
Indices: 2041406--2042513 Score: 1373
Period size: 402 Copynumber: 2.8 Consensus size: 397
2041396 TATATTTTCT
* * * * * *
2041406 CATAAAACCGATATATTTATACCGGTTACATTGGAAATTTACCAATTACATTATAATTATCGGTT
1 CATAAAACCGTTATAGTTATACCGATTACATTGCAAATTTACCTATTACATTATAATTATGGGTT
* *
2041471 TCGATGTTTTTGAGATCGACACTTTTTAA-AAATGTATCGACACTTTATGCG-CAACCCTTTT-G
66 TCGATGTTTTTGGGATCGACAC-TTTTAATAAATGTATCGACACTTTATGCGTC-ACCATTTTGG
* * * **
2041533 ACATTCCTTCTGGACAAAAAGTATCGACACAAATTCCACAAGTGTTAATACATGTTGTAGACCTA
129 GCATTCCTTCTGGACCAAAAGTATCGACACAAATTACACAAGTGTCGATACAT-TTGTAGACCTA
* * * *
2041598 TTCTATCATAAAATCGGTATA-GTTATACCGGTTACATTGTAAATTTACCTATTACATTATATTT
193 TTCTCTCATAAAATCGGTATATG-TATACCGGTTACATTGAAAAATTACCTATTACATTATAATT
* *
2041662 ATGGGTTTCGATGTTTCTGGTATCGACAC-TTTCAATAAATGTATCGACACTTTATGCGTTCATC
257 ATGGGTTTCGATGTTTCTGG-ATCGACACTTTTC-ATAAATGTATCGACACTTTATGCGTGCACC
* * *
2041726 ATTTTGGGCATTCGTTCTGGACAAAAGGTATCGACACAAAATAAAAAAGTGTCGATACATTATGT
320 ATTTTGGGCATTCCTTATGGACAAAAAGTATCGACACAAAATAAAAAAGTGTCGATACATTATGT
2041791 AGACCTATTCTCA
385 AGACCTATTCTCA
* * * * *
2041804 CATAAAACCGTTATATTTATACC-AGTTATATTACAAAATTACCTATTACATTATAATTATGAGT
1 CATAAAACCGTTATAGTTATACCGA-TTACATTGCAAATTTACCTATTACATTATAATTATGGGT
* * * * *
2041868 TTCGATGTTTTTAGGATCGACAATTTTTATAAATGTATCGACACTTAATG-GTGCACCCTTTTTG
65 TTCGATGTTTTTGGGATCGACACTTTTAATAAATGTATCGACACTTTATGCGT-CA-CCATTTTG
2041932 GGCATTCCTTCTGGACCAAAAGTATCGACACAAATTACACAAGTGTCGATACATATTGTAGACCT
128 GGCATTCCTTCTGGACCAAAAGTATCGACACAAATTACACAAGTGTCGATACAT-TTGTAGACCT
2041997 ATTCTCTCATAAAATCGGTATATGTATACCGGTTACATTGAAAAATTACCTATTACATTATAATT
192 ATTCTCTCATAAAATCGGTATATGTATACCGGTTACATTGAAAAATTACCTATTACATTATAATT
* *
2042062 ATGGGTTTCGATGTTTCTAGGATCGATACTTGTTCATAAATGTATCGACACTTTTTGCGTGCACC
257 ATGGGTTTCGATGTTTCT-GGATCGACACTT-TTCATAAATGTATCGACACTTTATGCGTGCA-C
* * ** *
2042127 CTTTTTGGGCATTCCTTATGGA-AAAACAGTATCGACACAAATTCCATAAGTGTCGATACATTAT
319 CATTTTGGGCATTCCTTATGGACAAAA-AGTATCGACACAAAATAAAAAAGTGTCGATACATTAT
*
2042191 GTAGACCTATTCTCT
383 GTAGACCTATTCTCA
** * *
2042206 CATAAAAATGGTT-TAGTTATACCGATTACATTGTAAATTTACCTATTACAATAT-ATCTATGGG
1 CAT-AAAACCGTTATAGTTATACCGATTACATTGCAAATTTACCTATTACATTATAAT-TATGGG
* * *
2042269 TTTCGATGTTTCTGGGATCGACACTTTCAATAAATGTATCGACACTTTATGCGTTCATCATTTTG
64 TTTCGATGTTTTTGGGATCGACACTTTTAATAAATGTATCGACACTTTATGCG-TCACCATTTTG
** * * *
2042334 GGCATTAATTCTGGA-CAAAACGTATCGACACATTATGA-AAAAGTGTCGATACATTATGT-GCA
128 GGCATTCCTTCTGGACCAAAA-GTATCGACACA-AATTACACAAGTGTCGATACATT-TGTAG-A
* * *
2042396 CCTATTCTCACATAAAA-CTGGTATATTTATACCGGTTATATT-ACAAAATTACCTATTACATTA
189 CCTATTCTCTCATAAAATC-GGTATATGTATACCGGTTACATTGA-AAAATTACCTATTACATTA
* * *
2042459 TAATTATGTGTTTCGATGTTTTTGGGATCGACACTTTTTATAAATGTATCGACAC
252 TAATTATGGGTTTCGATGTTTCT-GGATCGACACTTTTCATAAATGTATCGACAC
2042514 ATATGCTTAC
Statistics
Matches: 619, Mismatches: 68, Indels: 43
0.85 0.09 0.06
Matches are distributed among these distances:
397 6 0.01
398 94 0.15
399 7 0.01
400 143 0.23
401 63 0.10
402 291 0.47
403 14 0.02
404 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (397 bp):
CATAAAACCGTTATAGTTATACCGATTACATTGCAAATTTACCTATTACATTATAATTATGGGTT
TCGATGTTTTTGGGATCGACACTTTTAATAAATGTATCGACACTTTATGCGTCACCATTTTGGGC
ATTCCTTCTGGACCAAAAGTATCGACACAAATTACACAAGTGTCGATACATTTGTAGACCTATTC
TCTCATAAAATCGGTATATGTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGG
GTTTCGATGTTTCTGGATCGACACTTTTCATAAATGTATCGACACTTTATGCGTGCACCATTTTG
GGCATTCCTTATGGACAAAAAGTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAGACCT
ATTCTCA
Found at i:2042443 original size:602 final size:598
Alignment explanation
Indices: 2041398--2042513 Score: 1776
Period size: 602 Copynumber: 1.9 Consensus size: 598
2041388 TATGATGATA
* * * *
2041398 TATTTTCTCATAAAACCGATATATTTATACCGGTTACATTGGAAATTTACCAATTACATTATAAT
1 TATTCTCTCATAAAACCGATATATGTATACCGGTTACATTGAAAAATTACCAATTACATTATAAT
* *
2041463 TATCGGTTTCGATGTTTTTGAGATCGACACTTTTTAAAAATGTATCGACACTTTATGCGCAACCC
66 TATCGGTTTCGATGTTTTAGAGATCGACACTTTTCAAAAATGTATCGACACTTTATGCGCAACCC
* *
2041528 TTTTGACATTCCTTCTGGACAAAAAGTATCGACACAAATTCCACAAGTGTTAATACATGTTGTAG
131 TTTTGACATTCCTTATGGACAAAAAGTATCGACACAAATTCCACAAGTGTCAATACATGTTGTAG
* *
2041593 ACCTATTCTATCATAAAATCGGTATAGTTATACCGGTTACATTGTAAATTTACCTATTACATTAT
196 ACCTATTCTATCATAAAATCGGTATAGTTATACCGATTACATTGTAAATTTACCTATTACAATAT
* *
2041658 ATTTATGGGTTTCGATGTTTCTGGTATCGACACTTTCAATAAATGTATCGACACTTTATGCGTTC
261 ATCTATGGGTTTCGATGTTTCTGGGATCGACACTTTCAATAAATGTATCGACACTTTATGCGTTC
** *
2041723 ATCATTTTGGGCATTCGTTCTGGACAAAAGGTATCGACACAAAATAAAAAAGTGTCGATACATTA
326 ATCATTTTGGGCATTAATTCTGGACAAAACGTATCGACACAAAATAAAAAAGTGTCGATACATTA
*
2041788 TGTAGACCTATTCTCACATAAAACCGTTATATTTATACCAGTTATATTACAAAATTACCTATTAC
391 TGTAGACCTATTCTCACATAAAACCGGTATATTTATACCAGTTATATTACAAAATTACCTATTAC
2041853 ATTATAATTATGAGTTTCGATGTTTTTAGGATCGACAATTTTTATAAATGTATCGACACTTAATG
456 ATTATAATTATGAGTTTCGATGTTTTTAGGATCGACAATTTTTATAAATGTATCGACACTTAATG
2041918 GTGCACCCTTTTTGGGCATTCCTTCTGGACCAAAAGTATCGACACAAATTACACAAGTGTCGATA
521 GTGCACCCTTTTTGGGCATTCCTTCTGGACCAAAAGTATCGACACAAATTACACAAGTGTCGATA
2041983 CATATTGTAGACC
586 CATATTGTAGACC
* * *
2041996 TATTCTCTCATAAAATCGGTATATGTATACCGGTTACATTGAAAAATTACCTATTACATTATAAT
1 TATTCTCTCATAAAACCGATATATGTATACCGGTTACATTGAAAAATTACCAATTACATTATAAT
* * * *
2042061 TATGGGTTTCGATGTTTCTAG-GATCGATACTTGTTCATAAATGTATCGACACTTTTTGCGTGC-
66 TATCGGTTTCGATGTTT-TAGAGATCGACACTT-TTCAAAAATGTATCGACACTTTATGC--GCA
* * *
2042124 ACCCTTTTTGGGCATTCCTTATGGA-AAAACAGTATCGACACAAATTCCATAAGTGTCGATACAT
127 ACCC-TTTT-GACATTCCTTATGGACAAAA-AGTATCGACACAAATTCCACAAGTGTCAATACAT
* *
2042188 -TATGTAGACCTATTCTCTCATAAAAAT-GGTTTAGTTATACCGATTACATTGTAAATTTACCTA
189 GT-TGTAGACCTATTCTATCAT-AAAATCGGTATAGTTATACCGATTACATTGTAAATTTACCTA
2042251 TTACAATATATCTATGGGTTTCGATGTTTCTGGGATCGACACTTTCAATAAATGTATCGACACTT
252 TTACAATATATCTATGGGTTTCGATGTTTCTGGGATCGACACTTTCAATAAATGTATCGACACTT
** *
2042316 TATGCGTTCATCATTTTGGGCATTAATTCTGGACAAAACGTATCGACACATTATGAAAAAGTGTC
317 TATGCGTTCATCATTTTGGGCATTAATTCTGGACAAAACGTATCGACACAAAATAAAAAAGTGTC
* *
2042381 GATACATTATGT-GCACCTATTCTCACATAAAACTGGTATATTTATACCGGTTATATTACAAAAT
382 GATACATTATGTAG-ACCTATTCTCACATAAAACCGGTATATTTATACCAGTTATATTACAAAAT
* * *
2042445 TACCTATTACATTATAATTATGTGTTTCGATGTTTTTGGGATCGACACTTTTTATAAATGTATCG
446 TACCTATTACATTATAATTATGAGTTTCGATGTTTTTAGGATCGACAATTTTTATAAATGTATCG
2042510 ACAC
511 ACAC
2042514 ATATGCTTAC
Statistics
Matches: 472, Mismatches: 36, Indels: 16
0.90 0.07 0.03
Matches are distributed among these distances:
598 84 0.18
599 25 0.05
600 4 0.01
601 12 0.03
602 342 0.72
603 5 0.01
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (598 bp):
TATTCTCTCATAAAACCGATATATGTATACCGGTTACATTGAAAAATTACCAATTACATTATAAT
TATCGGTTTCGATGTTTTAGAGATCGACACTTTTCAAAAATGTATCGACACTTTATGCGCAACCC
TTTTGACATTCCTTATGGACAAAAAGTATCGACACAAATTCCACAAGTGTCAATACATGTTGTAG
ACCTATTCTATCATAAAATCGGTATAGTTATACCGATTACATTGTAAATTTACCTATTACAATAT
ATCTATGGGTTTCGATGTTTCTGGGATCGACACTTTCAATAAATGTATCGACACTTTATGCGTTC
ATCATTTTGGGCATTAATTCTGGACAAAACGTATCGACACAAAATAAAAAAGTGTCGATACATTA
TGTAGACCTATTCTCACATAAAACCGGTATATTTATACCAGTTATATTACAAAATTACCTATTAC
ATTATAATTATGAGTTTCGATGTTTTTAGGATCGACAATTTTTATAAATGTATCGACACTTAATG
GTGCACCCTTTTTGGGCATTCCTTCTGGACCAAAAGTATCGACACAAATTACACAAGTGTCGATA
CATATTGTAGACC
Found at i:2044464 original size:18 final size:18
Alignment explanation
Indices: 2044441--2044476 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
2044431 TTCCTCCTCA
*
2044441 TTTCCTCTATCTTTTCTT
1 TTTCCTCCATCTTTTCTT
*
2044459 TTTCCTCCCTCTTTTCTT
1 TTTCCTCCATCTTTTCTT
2044477 CTTCATATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.03, C:0.33, G:0.00, T:0.64
Consensus pattern (18 bp):
TTTCCTCCATCTTTTCTT
Found at i:2044712 original size:33 final size:33
Alignment explanation
Indices: 2044664--2044730 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
2044654 CCATCTTAAG
* *
2044664 TTCACTCCTCGACACCTCAACTTCTTTCACCAC
1 TTCACACCTCAACACCTCAACTTCTTTCACCAC
*
2044697 TTCACACCTCAACACCTCAACTTCTTTTACCAC
1 TTCACACCTCAACACCTCAACTTCTTTCACCAC
2044730 T
1 T
2044731 CCATATATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.24, C:0.43, G:0.01, T:0.31
Consensus pattern (33 bp):
TTCACACCTCAACACCTCAACTTCTTTCACCAC
Found at i:2044910 original size:15 final size:15
Alignment explanation
Indices: 2044890--2044922 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
2044880 ACTCTGTTTT
*
2044890 CCCTCACCGTCATCC
1 CCCTCACCATCATCC
2044905 CCCTCACCATCATCC
1 CCCTCACCATCATCC
2044920 CCC
1 CCC
2044923 AATACAACCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.15, C:0.64, G:0.03, T:0.18
Consensus pattern (15 bp):
CCCTCACCATCATCC
Found at i:2047527 original size:182 final size:182
Alignment explanation
Indices: 2047214--2047701 Score: 699
Period size: 182 Copynumber: 2.7 Consensus size: 182
2047204 TATGCGTACT
* * *
2047214 TATTAAAGTGTCGACACTTTCAATATATCTGGTAGCGCTTTACCGGTTTTTTCATTTAGAGACCG
1 TATTAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTTGTCATTTAGAGACCG
* * * *
2047279 ATTTTGTCATATTTTTACTTGTTATATCGTTATGGATCGATACATTTTTATAAAGTATCGACACT
66 GTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATTTTTATAAAGTATCAACACT
2047344 TTATAGGTGCTAAAACTACTTCTCTTTTAAATTCACAAAGTGTCGATACTTA
131 TTATAGGTGCTAAAACTACTTCTCTTTTAAATTCACAAAGTGTCGATACTTA
* * * * * * *
2047396 TATTAAAGTATCGACACTTTCAATATATCCGGTCGCTCTATACTGGATTTGTCCTTTAGAGACTG
1 TATTAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTTGTCATTTAGAGACCG
*
2047461 GTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGTATCAACACT
66 GTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATTTTTATAAAGTATCAACACT
* * * * * *
2047526 TTATAGGTTCTAAAACTGCTTCTCTTTTAAATTCATAATGTTTTGATACTTA
131 TTATAGGTGCTAAAACTACTTCTCTTTTAAATTCACAAAGTGTCGATACTTA
* * * *
2047578 TATTAAAGTATAGACACTTCCAATATATCCGGTAGCGCTTTACCGGTTTTGTCTTTTCA-CGACC
1 TATTAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTTGTCATTT-AGAGACC
* * * *
2047642 GGTTTTGTCATATTTTTTCCTGTTATATTGATGTGGATCGTTACATTTTTATAAAGTATC
65 GGTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATTTTTATAAAGTATC
2047702 GACATAAACC
Statistics
Matches: 269, Mismatches: 36, Indels: 2
0.88 0.12 0.01
Matches are distributed among these distances:
182 268 1.00
183 1 0.00
ACGTcount: A:0.27, C:0.16, G:0.15, T:0.43
Consensus pattern (182 bp):
TATTAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTTGTCATTTAGAGACCG
GTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATTTTTATAAAGTATCAACACT
TTATAGGTGCTAAAACTACTTCTCTTTTAAATTCACAAAGTGTCGATACTTA
Found at i:2058277 original size:22 final size:23
Alignment explanation
Indices: 2058239--2058288 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 23
2058229 CCATACCAAA
2058239 ATTTTATTTCTTGTAACAT-TTT
1 ATTTTATTTCTTGTAACATGTTT
* *
2058261 ATTTTATTTAGTT-TAACTTGTTT
1 ATTTTATTT-CTTGTAACATGTTT
2058284 ATTTT
1 ATTTT
2058289 TTTTGAAGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 14 0.58
23 10 0.42
ACGTcount: A:0.22, C:0.06, G:0.06, T:0.66
Consensus pattern (23 bp):
ATTTTATTTCTTGTAACATGTTT
Found at i:2059628 original size:20 final size:20
Alignment explanation
Indices: 2059592--2059630 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
2059582 CGTTGCAAGA
2059592 ATTTATGGCCTCAAACAAAT
1 ATTTATGGCCTCAAACAAAT
*
2059612 ATTTCATGGCTTC-AACAAA
1 ATTT-ATGGCCTCAAACAAA
2059631 AACCTTGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (20 bp):
ATTTATGGCCTCAAACAAAT
Found at i:2063074 original size:29 final size:29
Alignment explanation
Indices: 2063032--2063096 Score: 123
Period size: 29 Copynumber: 2.3 Consensus size: 29
2063022 GAATTATATA
2063032 AGTCATATGATCGTTTTCAGAGCACTGGG
1 AGTCATATGATCGTTTTCAGAGCACTGGG
2063061 AGTCATATGATCGTTTTCAGAGCACTGGG
1 AGTCATATGATCGTTTTCAGAGCACTGGG
2063090 AG-CATAT
1 AGTCATAT
2063097 CAAAGAGACA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 5 0.14
29 31 0.86
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (29 bp):
AGTCATATGATCGTTTTCAGAGCACTGGG
Found at i:2069945 original size:116 final size:116
Alignment explanation
Indices: 2069731--2070196 Score: 529
Period size: 116 Copynumber: 4.0 Consensus size: 116
2069721 AATCCGTCAT
* * * * * * ** * * *
2069731 AGAATGAGGTGGATCAACATTTACAATGGAATGATTCATAACAAGAATAACTCATCTGATAAGGG
1 AGAAGGAGATGGATCAACATTTCCAATAGAAGGGTTCATAATGAGAAGAACTCATCCGATGAGGG
* * * *
2069796 AGAAGAAGTTCCTAATGAGAAGAACTTATTCAACTTTGGTTCATCCATCAC
66 AGAAGAAATTCCTAATGAGAAGAACTTGTTCAACCTTGGTTCGTCCATCAC
* * *
2069847 ATAAGGAGATGGATCAACATTTCCAATAGAAGGGTTCATAATGAGGAGAACTCATCCCATGAGGG
1 AGAAGGAGATGGATCAACATTTCCAATAGAAGGGTTCATAATGAGAAGAACTCATCCGATGAGGG
* * * * * *
2069912 AGAATAAGTTCCTGATGAGAAGAGCTTGGTCAACCTTGGTTTGTCCATCAC
66 AGAAGAAATTCCTAATGAGAAGAACTTGTTCAACCTTGGTTCGTCCATCAC
* * * * * *
2069963 AGAAGGAGATGGATCAACGTTTCTAATGGAAGAGTTCATAATGAGAATAACTCGTCCGATGAGGG
1 AGAAGGAGATGGATCAACATTTCCAATAGAAGGGTTCATAATGAGAAGAACTCATCCGATGAGGG
* * * **
2070028 AGAAGAAATTCCTAATGAAAATAACTTGTTAAACCTTGGTTCGTTAATCAC
66 AGAAGAAATTCCTAATGAGAAGAACTTGTTCAACCTTGGTTCGTCCATCAC
* * *
2070079 AGAAGGAGATGGATCAACATTTCCAA-AGGAAGGGTTCATAATGATAAGAACTCGTCTGATGAGG
1 AGAAGGAGATGGATCAACATTTCCAATA-GAAGGGTTCATAATGAGAAGAACTCATCCGATGAGG
* * * *
2070143 GAGAAAAAAATTCCTAATGATAAGAACTTGTTCAACTTTGGCTCGTCCATCAC
65 GAG-AAGAAATTCCTAATGAGAAGAACTTGTTCAACCTTGGTTCGTCCATCAC
2070196 A
1 A
2070197 TAAGAAGTTG
Statistics
Matches: 291, Mismatches: 57, Indels: 3
0.83 0.16 0.01
Matches are distributed among these distances:
116 249 0.86
117 42 0.14
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (116 bp):
AGAAGGAGATGGATCAACATTTCCAATAGAAGGGTTCATAATGAGAAGAACTCATCCGATGAGGG
AGAAGAAATTCCTAATGAGAAGAACTTGTTCAACCTTGGTTCGTCCATCAC
Found at i:2070146 original size:232 final size:233
Alignment explanation
Indices: 2069731--2070196 Score: 589
Period size: 232 Copynumber: 2.0 Consensus size: 233
2069721 AATCCGTCAT
* * *
2069731 AGAATGAGGTGGATCAACATTTACAATGGAATGATTCATAACAAGAATAACTCATCTGATAAGGG
1 AGAAGGAGATGGATCAACATTTACAATGGAATGATTCATAACAAGAATAACTCATCCGATAAGGG
* * * * * *
2069796 AGAAGAAGTTCCTAATGAGAAGAACTTATTCAACTTTGGTTCATCCATCACATAAGGAGATGGAT
66 AGAAGAAATTCCTAATGAAAAGAACTTATTAAACCTTGGTTCATCAATCACAGAAGGAGATGGAT
* * *
2069861 CAACATTTCCAATAGAAGGGTTCATAATGAGGAGAACTCATCCCATGAGGGAG-AATAAGTTCCT
131 CAACATTTCCAATAGAAGGGTTCATAATGAGAAGAACTCATCCCATGAGGGAGAAAAAAATTCCT
* * * *
2069925 GATGAGAAGAGCTTGGTCAACCTTGGTTTGTCCATCAC
196 AATGAGAAGAACTTGGTCAACCTTGGCTCGTCCATCAC
* ** * *
2069963 AGAAGGAGATGGATCAACGTTT-CTAATGGAA-GAGTTCATAATGAGAATAACTCGTCCGATGAG
1 AGAAGGAGATGGATCAACATTTAC-AATGGAATGA-TTCATAACAAGAATAACTCATCCGATAAG
* * * *
2070026 GGAGAAGAAATTCCTAATGAAAATAACTTGTTAAACCTTGGTTCGTTAATCACAGAAGGAGATGG
64 GGAGAAGAAATTCCTAATGAAAAGAACTTATTAAACCTTGGTTCATCAATCACAGAAGGAGATGG
* * **
2070091 ATCAACATTTCCAA-AGGAAGGGTTCATAATGATAAGAACTCGTCTGATGAGGGAGAAAAAAATT
129 ATCAACATTTCCAATA-GAAGGGTTCATAATGAGAAGAACTCATCCCATGAGGGAGAAAAAAATT
* * *
2070155 CCTAATGATAAGAACTTGTTCAACTTTGGCTCGTCCATCAC
193 CCTAATGAGAAGAACTTGGTCAACCTTGGCTCGTCCATCAC
2070196 A
1 A
2070197 TAAGAAGTTG
Statistics
Matches: 198, Mismatches: 32, Indels: 7
0.84 0.14 0.03
Matches are distributed among these distances:
231 4 0.02
232 153 0.77
233 41 0.21
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (233 bp):
AGAAGGAGATGGATCAACATTTACAATGGAATGATTCATAACAAGAATAACTCATCCGATAAGGG
AGAAGAAATTCCTAATGAAAAGAACTTATTAAACCTTGGTTCATCAATCACAGAAGGAGATGGAT
CAACATTTCCAATAGAAGGGTTCATAATGAGAAGAACTCATCCCATGAGGGAGAAAAAAATTCCT
AATGAGAAGAACTTGGTCAACCTTGGCTCGTCCATCAC
Found at i:2070323 original size:35 final size:38
Alignment explanation
Indices: 2070279--2070401 Score: 114
Period size: 38 Copynumber: 3.3 Consensus size: 38
2070269 AAAAACTTTG
* *
2070279 TCTCACTCGAGATTG-TTTTCTT-AAAAC-AAATTTTA
1 TCTCACTCGAGACTGTTTTTCTTAAAAACAAAATTTCA
*
2070314 TCTCTCTCGAGACTGTTTTTCTTAAAAACAAAATTTCA
1 TCTCACTCGAGACTGTTTTTCTTAAAAACAAAATTTCA
* * *
2070352 TCTCACAT-GAGACAGTTTTAT-TT-GAAACAAATATTTTA
1 TCTCAC-TCGAGACTGTTTT-TCTTAAAAACAAA-ATTTCA
*
2070390 TCTCACTTGAGA
1 TCTCACTCGAGA
2070402 TAGTTTCCCT
Statistics
Matches: 74, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
35 13 0.18
36 7 0.09
37 13 0.18
38 39 0.53
39 2 0.03
ACGTcount: A:0.33, C:0.18, G:0.10, T:0.40
Consensus pattern (38 bp):
TCTCACTCGAGACTGTTTTTCTTAAAAACAAAATTTCA
Found at i:2070364 original size:38 final size:36
Alignment explanation
Indices: 2070294--2070407 Score: 115
Period size: 38 Copynumber: 3.1 Consensus size: 36
2070284 CTCGAGATTG
* *
2070294 TTTTCTTAAAAC-AAATTTTATCTCTCTCGAGACTGT
1 TTTTCTTAAAACAAAATTTTATCTCACT-GAGACAGT
*
2070330 TTTTCTTAAAAACAAAATTTCATCTCACATGAGACAGT
1 TTTTCTT-AAAACAAAATTTTATCTCAC-TGAGACAGT
* *
2070368 TTTAT-TTGAAACAAATATTTTATCTCACTTGAGATAGT
1 TTT-TCTTAAAACAAA-ATTTTATCTCAC-TGAGACAGT
2070406 TT
1 TT
2070408 CCCTTGAATA
Statistics
Matches: 66, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
36 7 0.11
37 12 0.18
38 45 0.68
39 2 0.03
ACGTcount: A:0.33, C:0.16, G:0.09, T:0.42
Consensus pattern (36 bp):
TTTTCTTAAAACAAAATTTTATCTCACTGAGACAGT
Found at i:2070415 original size:38 final size:37
Alignment explanation
Indices: 2070339--2070415 Score: 91
Period size: 38 Copynumber: 2.1 Consensus size: 37
2070329 TTTTTCTTAA
* *
2070339 AAACAAAATTTCATCTCACATGAGACAGTTTTATTTG
1 AAACAAAATTTCATCTCACATGAGACAGTTTCACTTG
* * * *
2070376 AAACAAATATTTTATCTCACTTGAGATAGTTTCCCTTG
1 AAACAAA-ATTTCATCTCACATGAGACAGTTTCACTTG
2070414 AA
1 AA
2070416 TAGTTTCCCT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
37 7 0.21
38 26 0.79
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.36
Consensus pattern (37 bp):
AAACAAAATTTCATCTCACATGAGACAGTTTCACTTG
Found at i:2070420 original size:14 final size:15
Alignment explanation
Indices: 2070395--2070426 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
2070385 TTTTATCTCA
2070395 CTTGAGATAGTTTCC
1 CTTGAGATAGTTTCC
2070410 CTTGA-ATAGTTTCC
1 CTTGAGATAGTTTCC
2070424 CTT
1 CTT
2070427 AAAACAAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.19, C:0.22, G:0.16, T:0.44
Consensus pattern (15 bp):
CTTGAGATAGTTTCC
Found at i:2074125 original size:3 final size:3
Alignment explanation
Indices: 2074117--2074162 Score: 74
Period size: 3 Copynumber: 15.3 Consensus size: 3
2074107 TTTAGATATA
* *
2074117 CTT CTT CTT ATT CTT CGT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
2074163 ATATGATAGG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.02, C:0.33, G:0.02, T:0.63
Consensus pattern (3 bp):
CTT
Found at i:2075811 original size:12 final size:12
Alignment explanation
Indices: 2075794--2075819 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
2075784 TATTATTATG
2075794 TATTAATCTACA
1 TATTAATCTACA
2075806 TATTAATCTACA
1 TATTAATCTACA
2075818 TA
1 TA
2075820 CTTACAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.15, G:0.00, T:0.42
Consensus pattern (12 bp):
TATTAATCTACA
Found at i:2082530 original size:19 final size:20
Alignment explanation
Indices: 2082499--2082537 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
2082489 AACAATTTAA
2082499 AAAAATCAAATAAAA-AAAT
1 AAAAATCAAATAAAATAAAT
2082518 AAAAA-CAACATAAAATAAAT
1 AAAAATCAA-ATAAAATAAAT
2082538 TAAAGTAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 3 0.17
19 11 0.61
20 4 0.22
ACGTcount: A:0.77, C:0.08, G:0.00, T:0.15
Consensus pattern (20 bp):
AAAAATCAAATAAAATAAAT
Found at i:2082541 original size:21 final size:20
Alignment explanation
Indices: 2082499--2082555 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 20
2082489 AACAATTTAA
2082499 AAAAATCAA-ATAAAA-AAAT
1 AAAAA-CAACATAAAATAAAT
2082518 AAAAACAACATAAAATAAATT
1 AAAAACAACATAAAATAAA-T
*
2082539 AAAGTA-AACATAAAATA
1 AAA-AACAACATAAAATA
2082556 TGAGGACCTA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
18 3 0.09
19 11 0.33
20 3 0.09
21 15 0.45
22 1 0.03
ACGTcount: A:0.74, C:0.07, G:0.02, T:0.18
Consensus pattern (20 bp):
AAAAACAACATAAAATAAAT
Found at i:2084228 original size:42 final size:41
Alignment explanation
Indices: 2084125--2084228 Score: 93
Period size: 42 Copynumber: 2.5 Consensus size: 41
2084115 CTTATGGATG
* ** * *
2084125 GCCCGAAGGTCTTATCATCTTGCTTGAAAGACTTATAAATG
1 GCCCGAAGGACTTATCATCACGCTCGAAAGACTTATAAATA
* * * *
2084166 GCCCAAATGACTTACGCATCACGCTCGAAAGACTTACT-GATA
1 GCCCGAAGGACTTA-TCATCACGCTCGAAAGACTTA-TAAATA
2084208 GCCCGAAGGACTTATTCATCA
1 GCCCGAAGGACTTA-TCATCA
2084229 AGAAACCCTT
Statistics
Matches: 48, Mismatches: 13, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
41 11 0.23
42 36 0.75
43 1 0.02
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (41 bp):
GCCCGAAGGACTTATCATCACGCTCGAAAGACTTATAAATA
Found at i:2084391 original size:98 final size:98
Alignment explanation
Indices: 2084222--2084554 Score: 533
Period size: 98 Copynumber: 3.4 Consensus size: 98
2084212 GAAGGACTTA
*
2084222 TTCATCAAGAAACCCTTGAAAATCAAGCTTAGTTTCTTAGTTGTCAAGGAACCCCTAAAAATTAG
1 TTCATCAAGAAACCCTTGAAAATCAGGCTTAGTTTCTTAGTTGTCAAGGAACCCCTAAAAATTAG
* **
2084287 GCTTAGCTTACTTAAAAAAAATCATTGAAAATC
66 GCTTAGCTTCCTTTTAAAAAATCATTGAAAATC
* * *
2084320 TTCATAAAGAAACCCGTGAAAATCAGGCTTAGTTTCTTAGTTGTCAATGAACCCCTAAAAATTAG
1 TTCATCAAGAAACCCTTGAAAATCAGGCTTAGTTTCTTAGTTGTCAAGGAACCCCTAAAAATTAG
*
2084385 GCTTAGCTTCCTTTTAAAAACTCATTGAAAATC
66 GCTTAGCTTCCTTTTAAAAAATCATTGAAAATC
* * *
2084418 TTCATCTAGAAACCCTTGAAAATCAGGCTTAGATTCTTACTTGTCAAGGAACCCCTAAAAATTAG
1 TTCATCAAGAAACCCTTGAAAATCAGGCTTAGTTTCTTAGTTGTCAAGGAACCCCTAAAAATTAG
*
2084483 GCTTAGCTTCCTTTTAAAAATTCATTGGAAAAT-
66 GCTTAGCTTCCTTTTAAAAAATCATT-GAAAATC
*
2084516 TTCATCAAGAAACCCCTGAAAATCAGGCTTAGTTTCTTA
1 TTCATCAAGAAACCCTTGAAAATCAGGCTTAGTTTCTTA
2084555 AAATCTTTTG
Statistics
Matches: 216, Mismatches: 18, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
98 210 0.97
99 6 0.03
ACGTcount: A:0.36, C:0.20, G:0.13, T:0.31
Consensus pattern (98 bp):
TTCATCAAGAAACCCTTGAAAATCAGGCTTAGTTTCTTAGTTGTCAAGGAACCCCTAAAAATTAG
GCTTAGCTTCCTTTTAAAAAATCATTGAAAATC
Found at i:2084647 original size:39 final size:39
Alignment explanation
Indices: 2084553--2085420 Score: 1146
Period size: 39 Copynumber: 22.3 Consensus size: 39
2084543 CTTAGTTTCT
* * *
2084553 TAAAATCTTTTGTTTCGAGTGAAACTATCTCAAGTGAGA
1 TAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGA
*
2084592 T-AAATCTTCTGTTTCGAGTGAAACTATCTCAAGCGAGA
1 TAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGA
* *
2084630 TAAAATCTTCTGTTTCGAGGGAAACTATCTTAAGTGAGA
1 TAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGA
* * *
2084669 TAAAATCTTCTATTTCAAGGGAAACTATCTCAAGCAAGA
1 TAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGA
* * *
2084708 CAAAATCTTCTGTTTTGATGGAAACTATCTCAAGCGAGA
1 TAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGA
* * *
2084747 TAAAATCTTCTGTTTTGAGAGAAACTATCTCAAGGGAGA
1 TAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGA
*
2084786 TAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGTGAGA
1 TAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGA
** * *
2084825 TAAAATCTTCTAATTCAAGGGAAACTAGCTCAAGCGAGA
1 TAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGA
* * * *
2084864 TAAAATCTTTTGTTTCGAGGGACATTATCTCAATCGAGA
1 TAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGA
* *
2084903 TAAAATCTTCTGTTTCAAGTGAAACTATCTCAAGCGAGA
1 TAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGA
* * * * *
2084942 CAAAATCTTATGTTTCAAGTGAAACTATCTCAAGTGAGA
1 TAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGA
* * *
2084981 TAAAATCTTTTGTTTCAAAGGAAACTATCTCAAGCGAGA
1 TAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGA
2085020 TAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGA
1 TAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGA
* *
2085059 TAAAATCTTCTGTTTCAAGTGAAACTATCTCAAGCGAGA
1 TAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGA
* *
2085098 TAAAATTTTCTGTTTCGAGGGAAATTATCTCAAGCGAGA
1 TAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGA
* * * *
2085137 TAAAATCTTATATTTCCAGTGAAACTATCTCAAGCGAGA
1 TAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGA
* *
2085176 TAAAATCTTGTATTTCGAGGGAAACTATCTCAAGCGAGA
1 TAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGA
*
2085215 TAAAATCTTCTGTTTCGAGGGAAACTATATCAAGCGAGA
1 TAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGA
* * *
2085254 TAAAATCTTCTATTTCGAGGGAAACTATCTAAAGCAAGA
1 TAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGA
* * * * * *
2085293 TAAAATATTCTATTTAGAGTGAAACTACCTCAAGTGAGA
1 TAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGA
* * *
2085332 TACAATCTTCTGTTTCGA-GTAATACTATCTCAAGCAAGA
1 TAAAATCTTCTGTTTCGAGGGAA-ACTATCTCAAGCGAGA
* * * * * *
2085371 TAAAATTTTATATTTCGAGTGAAACTATCCCAAGAGAGA
1 TAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGA
2085410 TAAAATCTTCT
1 TAAAATCTTCT
2085421 TTAAAAACAA
Statistics
Matches: 724, Mismatches: 102, Indels: 6
0.87 0.12 0.01
Matches are distributed among these distances:
38 38 0.05
39 684 0.94
40 2 0.00
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31
Consensus pattern (39 bp):
TAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGA
Found at i:2085516 original size:76 final size:76
Alignment explanation
Indices: 2085423--2085812 Score: 466
Period size: 76 Copynumber: 5.1 Consensus size: 76
2085413 AATCTTCTTT
*
2085423 AAAAACAATCTTGAGTGAAATGAAATGTCTTCTTTCGAGTAAAAACTTTTTCAAGTGAGACAAAT
1 AAAAACAATCTTGAGTGAAATGAAATGTCTTCTTTCGAGTAAAAACTTTTTCAAGCGAGACAAAT
*
2085488 CTGGTTTTAAG
66 CTTGTTTTAAG
* * * * * * * *
2085499 AAAAACAATCTTAAGTGAAATGAAATATGTTCTTTTGAGTAAAAAC-TGTCCTAAGGGAGACAAT
1 AAAAACAATCTTGAGTGAAATGAAATGTCTTCTTTCGAGTAAAAACTTTTTC-AAGCGAGACAAA
2085563 TCTTGTTTTAAG
65 TCTTGTTTTAAG
* * * * *
2085575 GAAAACAATCTTGAGTGAAATGATATGTCTTCTTTCGAGTAAAAAATGTTTCAAGCGAAACAAAT
1 AAAAACAATCTTGAGTGAAATGAAATGTCTTCTTTCGAGTAAAAACTTTTTCAAGCGAGACAAAT
*
2085640 ATTGTTTTAA-
66 CTTGTTTTAAG
* * * *
2085650 AGAAAACAATCTTGAGTGAAATGAAATATCTTCTTTCAAGTAAAAACTGTTTCAAGAGAGACAAA
1 A-AAAACAATCTTGAGTGAAATGAAATGTCTTCTTTCGAGTAAAAACTTTTTCAAGCGAGACAAA
2085715 TCTTGTTTTAAG
65 TCTTGTTTTAAG
* * * * * *
2085727 ATAAACAATCTTGAGTTAAAGGAAATGTCTTATTTCGGGT-AAAA-TTATCTCAAGCGAGACAAC
1 AAAAACAATCTTGAGTGAAATGAAATGTCTTCTTTCGAGTAAAAACTT-TTTCAAGCGAGACAA-
*
2085790 GT-TTGTTTTAAG
64 ATCTTGTTTTAAG
2085802 AAAAACAATCT
1 AAAAACAATCT
2085813 CAAGTGAGAT
Statistics
Matches: 265, Mismatches: 43, Indels: 13
0.83 0.13 0.04
Matches are distributed among these distances:
74 1 0.00
75 40 0.15
76 221 0.83
77 3 0.01
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.32
Consensus pattern (76 bp):
AAAAACAATCTTGAGTGAAATGAAATGTCTTCTTTCGAGTAAAAACTTTTTCAAGCGAGACAAAT
CTTGTTTTAAG
Found at i:2085544 original size:40 final size:40
Alignment explanation
Indices: 2085422--2085544 Score: 103
Period size: 40 Copynumber: 3.2 Consensus size: 40
2085412 AAATCTTCTT
* * * *
2085422 TAAAAACAATCTTGAGTGAAATGAAATGTCTTCTTTCGAG
1 TAAAAACAATCTTAAGTGAAATGAAATATGTTCTTTTGAG
* * * * * * *
2085462 TAAAAAC-TTTTTCAAGTGAGA-CAAATCTG--GTTTTAAG
1 TAAAAACAATCTT-AAGTGAAATGAAATATGTTCTTTTGAG
2085499 -AAAAACAATCTTAAGTGAAATGAAATATGTTCTTTTGAG
1 TAAAAACAATCTTAAGTGAAATGAAATATGTTCTTTTGAG
2085538 TAAAAAC
1 TAAAAAC
2085545 TGTCCTAAGG
Statistics
Matches: 60, Mismatches: 17, Indels: 12
0.67 0.19 0.13
Matches are distributed among these distances:
36 13 0.22
37 14 0.23
39 14 0.23
40 19 0.32
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.33
Consensus pattern (40 bp):
TAAAAACAATCTTAAGTGAAATGAAATATGTTCTTTTGAG
Found at i:2090515 original size:21 final size:21
Alignment explanation
Indices: 2090486--2090534 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
2090476 AAAAATAAAA
2090486 AAAAGTAAAAT-AAGAACAACAT
1 AAAA-TAAAATAAAGAA-AACAT
* *
2090508 AAAATAAATTAAAGTAAACAT
1 AAAATAAAATAAAGAAAACAT
2090529 AAAATA
1 AAAATA
2090535 TGAGGACCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 16 0.67
22 8 0.33
ACGTcount: A:0.69, C:0.06, G:0.06, T:0.18
Consensus pattern (21 bp):
AAAATAAAATAAAGAAAACAT
Found at i:2090520 original size:5 final size:5
Alignment explanation
Indices: 2090457--2090534 Score: 61
Period size: 5 Copynumber: 15.4 Consensus size: 5
2090447 TTAAACAATT
* * * *
2090457 TAAAA -AAAA TCAAA TAAAA AAAAA TAAAA -AAAA GTAAAA TAAGAA CAACA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA -TAAAA TAA-AA TAAAA
* *
2090507 TAAAA TAAAT TAAAG TAAACA TAAAA TA
1 TAAAA TAAAA TAAAA TAAA-A TAAAA TA
2090535 TGAGGACCTA
Statistics
Matches: 57, Mismatches: 11, Indels: 10
0.73 0.14 0.13
Matches are distributed among these distances:
4 8 0.14
5 37 0.65
6 12 0.21
ACGTcount: A:0.74, C:0.05, G:0.04, T:0.17
Consensus pattern (5 bp):
TAAAA
Found at i:2091442 original size:26 final size:26
Alignment explanation
Indices: 2091413--2091462 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
2091403 AAATGTACCT
2091413 TCAAAAGAAAACACAATATAAGCTCC
1 TCAAAAGAAAACACAATATAAGCTCC
2091439 TCAAAAGAAAACACAATATAAGCT
1 TCAAAAGAAAACACAATATAAGCT
2091463 AAGGTATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.56, C:0.20, G:0.08, T:0.16
Consensus pattern (26 bp):
TCAAAAGAAAACACAATATAAGCTCC
Found at i:2093346 original size:2 final size:2
Alignment explanation
Indices: 2093339--2093369 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
2093329 AAACTGAAAC
2093339 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 A
2093370 ATAATTCTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2093696 original size:17 final size:17
Alignment explanation
Indices: 2093656--2093697 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
2093646 AAGTTTGTTG
*
2093656 TTCATTAAAGCATGCAT
1 TTCATTTAAGCATGCAT
*
2093673 TTCATTTAAGCATGTAT
1 TTCATTTAAGCATGCAT
2093690 TTCATTTA
1 TTCATTTA
2093698 GGGAAGTAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.31, C:0.14, G:0.10, T:0.45
Consensus pattern (17 bp):
TTCATTTAAGCATGCAT
Found at i:2093724 original size:17 final size:17
Alignment explanation
Indices: 2093704--2093762 Score: 50
Period size: 17 Copynumber: 3.5 Consensus size: 17
2093694 TTTAGGGAAG
2093704 TAGTTCATTTATGCATC
1 TAGTTCATTTATGCATC
* *
2093721 TAG-TCATTTAAT-AAAC
1 TAGTTCATTT-ATGCATC
* * *
2093737 TACTTCATTCATGCATT
1 TAGTTCATTTATGCATC
2093754 TAGTTCATT
1 TAGTTCATT
2093763 GAATAAAGTT
Statistics
Matches: 31, Mismatches: 8, Indels: 6
0.69 0.18 0.13
Matches are distributed among these distances:
16 12 0.39
17 19 0.61
ACGTcount: A:0.29, C:0.17, G:0.08, T:0.46
Consensus pattern (17 bp):
TAGTTCATTTATGCATC
Found at i:2094339 original size:8 final size:8
Alignment explanation
Indices: 2094320--2094348 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
2094310 TGGGTTAGTA
2094320 AAAAAATC
1 AAAAAATC
2094328 -AAAAATC
1 AAAAAATC
2094335 AAAAAATC
1 AAAAAATC
2094343 AAAAAA
1 AAAAAA
2094349 AGAAAAGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.35
8 13 0.65
ACGTcount: A:0.79, C:0.10, G:0.00, T:0.10
Consensus pattern (8 bp):
AAAAAATC
Found at i:2094354 original size:15 final size:15
Alignment explanation
Indices: 2094318--2094347 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2094308 CCTGGGTTAG
2094318 TAAAAAAATCAAAAA
1 TAAAAAAATCAAAAA
*
2094333 TCAAAAAATCAAAAA
1 TAAAAAAATCAAAAA
2094348 AAGAAAAGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.77, C:0.10, G:0.00, T:0.13
Consensus pattern (15 bp):
TAAAAAAATCAAAAA
Found at i:2097151 original size:17 final size:17
Alignment explanation
Indices: 2097128--2097179 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 17
2097118 GAATAAAGTA
*
2097128 AGTTCATTAATTAAATT
1 AGTTCATTAATTAAACT
* * *
2097145 GGTTCATTCATCAAACT
1 AGTTCATTAATTAAACT
*
2097162 AGTTCATTTATTAAACT
1 AGTTCATTAATTAAACT
2097179 A
1 A
2097180 CCTCTTAATT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.37, C:0.13, G:0.08, T:0.42
Consensus pattern (17 bp):
AGTTCATTAATTAAACT
Found at i:2098849 original size:26 final size:26
Alignment explanation
Indices: 2098815--2098867 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
2098805 AATTTCTTAA
*
2098815 ATTAGTTCACCCTAACATTCTAAATT
1 ATTAGTTCACCCTAACAATCTAAATT
* *
2098841 ATTATTTCACTCTAACAATCTAAATT
1 ATTAGTTCACCCTAACAATCTAAATT
2098867 A
1 A
2098868 ATTCTTTTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.38, C:0.21, G:0.02, T:0.40
Consensus pattern (26 bp):
ATTAGTTCACCCTAACAATCTAAATT
Found at i:2099005 original size:16 final size:18
Alignment explanation
Indices: 2098986--2099018 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
2098976 GTAAATATTT
2098986 TTTAAA-AATA-ATATAA
1 TTTAAAGAATATATATAA
2099002 TTTAAAGAATATATATA
1 TTTAAAGAATATATATA
2099019 TATATATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 4 0.27
18 5 0.33
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (18 bp):
TTTAAAGAATATATATAA
Found at i:2102824 original size:21 final size:21
Alignment explanation
Indices: 2102798--2102841 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
2102788 GATCTATAAC
* *
2102798 TTATTTTATTTAA-AAATATTA
1 TTATTTGAATTAATAAAT-TTA
2102819 TTATTTGAATTAATAAATTTA
1 TTATTTGAATTAATAAATTTA
2102840 TT
1 TT
2102842 TAAAATTATC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (21 bp):
TTATTTGAATTAATAAATTTA
Found at i:2104409 original size:17 final size:17
Alignment explanation
Indices: 2104387--2104421 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
2104377 CTTTCATGCC
*
2104387 TTAAAACCGTCATTGAT
1 TTAAAACCGCCATTGAT
2104404 TTAAAACCGCCATTGAT
1 TTAAAACCGCCATTGAT
2104421 T
1 T
2104422 ACCCCAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.34
Consensus pattern (17 bp):
TTAAAACCGCCATTGAT
Found at i:2104638 original size:131 final size:131
Alignment explanation
Indices: 2104431--2104847 Score: 464
Period size: 131 Copynumber: 3.2 Consensus size: 131
2104421 TACCCCAATT
* * * *
2104431 GAAATGAAGAGATATCACTATTTTGTCTTAAAATTCAATATTGATTCGAGTGAAAATGATAATAT
1 GAAATGAAGAGATATTACTATTCTGTCTTAAAAATCAATATTGATTCGAGAGAAAATGATAATAT
* ** * * *
2104496 CAAATGGTTTCCAATCGAGAATAAATGGCCTCTCATGCCTTAAAGCAGTCATTTATTATCTCAAG
66 CAAATGATTTCCAATCGAGAATAAATTACCTCTCATGCCTTAAAACAATCATTTATTATCTCAAC
2104561 C
131 C
* ** * * * *
2104562 GAAATGAAGGGATATTACTATTCCATCTTAAAAATCAATAATAACTCGAGAGAAAACGATAATAT
1 GAAATGAAGAGATATTACTATTCTGTCTTAAAAATCAATATTGATTCGAGAGAAAATGATAATAT
** * * * *
2104627 TTAGTGATTTCCAATCGAGAATAAATTACATCTCATAG-CTTAAAACAATCATTTTTTGT-TCTA
66 CAAATGATTTCCAATCGAGAATAAATTACCTCTCAT-GCCTTAAAACAATCATTTATTATCTC-A
*
2104690 ATC
129 ACC
* * *
2104693 GAAAAGAAGAGATATCT-CTATTCTGTCTTAAAAATCAATATTGATTGGAGAGAAAATTATAATA
1 GAAATGAAGAGATAT-TACTATTCTGTCTTAAAAATCAATATTGATTCGAGAGAAAATGATAATA
* * * *
2104757 TCAAATTATTTCCAATCGTGAATAAATTACCTCTCATACCTTAAAACAATTATTTATTA-CTCCA
65 TCAAATGATTTCCAATCGAGAATAAATTACCTCTCATGCCTTAAAACAATCATTTATTATCT-CA
2104821 ACC
129 ACC
* * *
2104824 GAAATGAAAATATATTATTATTCT
1 GAAATGAAGAGATATTACTATTCT
2104848 CAATATCGAT
Statistics
Matches: 231, Mismatches: 48, Indels: 14
0.79 0.16 0.05
Matches are distributed among these distances:
130 3 0.01
131 225 0.97
132 3 0.01
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.34
Consensus pattern (131 bp):
GAAATGAAGAGATATTACTATTCTGTCTTAAAAATCAATATTGATTCGAGAGAAAATGATAATAT
CAAATGATTTCCAATCGAGAATAAATTACCTCTCATGCCTTAAAACAATCATTTATTATCTCAAC
C
Found at i:2106377 original size:25 final size:25
Alignment explanation
Indices: 2106343--2106430 Score: 169
Period size: 25 Copynumber: 3.6 Consensus size: 25
2106333 CCCATTTACA
2106343 TTGTT-CAATTTTTATAACCCATAT
1 TTGTTACAATTTTTATAACCCATAT
2106367 TTGTTACAATTTTTATAACCCATAT
1 TTGTTACAATTTTTATAACCCATAT
2106392 TTGTTACAATTTTTATAACCCATAT
1 TTGTTACAATTTTTATAACCCATAT
2106417 TTGTTACAATTTTT
1 TTGTTACAATTTTT
2106431 TTCTTCTGTT
Statistics
Matches: 63, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
24 5 0.08
25 58 0.92
ACGTcount: A:0.30, C:0.15, G:0.05, T:0.51
Consensus pattern (25 bp):
TTGTTACAATTTTTATAACCCATAT
Found at i:2106783 original size:3 final size:3
Alignment explanation
Indices: 2106775--2106823 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
2106765 CTACACAAAT
2106775 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2106823 T
1 T
2106824 GGTGTCAGGA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:2107420 original size:133 final size:134
Alignment explanation
Indices: 2106956--2107819 Score: 915
Period size: 133 Copynumber: 6.5 Consensus size: 134
2106946 GCTCTACTGT
* * ** * * **
2106956 TTCTTTAGGGTAAATCAGATCAAGAAACGTTGATTTATTCCACTGTTCTTCAGAAAAGATTGAAT
1 TTCTTGAGGGAAAATCAGATCTGGAAATGTTGATTCATTCCACTGTTCTTCAGGGAAGATTGAAT
* * * * *
2107021 CGAGGTAGATTTATTCCACTGCTACTCAAGGAAGATCAAATCTTGAAAGAGAGGGATTTGTTCCG
66 CGAGGCAGACTTGTTCCACTGCTACTCAAGGAAGATCAAATCTTGAAAAAGAGGGATATGTTCCG
2107086 CTGC
131 CTGC
* * * *
2107090 TTCTTGAGGAAAAATCAGATCTGGAAATATTGATTCATTTCACTGTTCTTTAGGGAAGATTGAAT
1 TTCTTGAGGGAAAATCAGATCTGGAAATGTTGATTCATTCCACTGTTCTTCAGGGAAGATTGAAT
* * * * * * *
2107155 CGAGG-ATGACTTGTTCCACTGTTACTCAGGGAAGATCAAGTCTTGAAAGATAGGGATCTATTCC
66 CGAGGCA-GACTTGTTCCACTGCTACTCAAGGAAGATCAAATCTTGAAAAAGAGGGATATGTTCC
**
2107219 GCTTT
130 GCTGC
* *
2107224 TTCTTGAGGGAAAATCATATCTGGAAATGTTGATTTATTCCACTGTTCTTCA-GGAAGATTGAAT
1 TTCTTGAGGGAAAATCAGATCTGGAAATGTTGATTCATTCCACTGTTCTTCAGGGAAGATTGAAT
* * *
2107288 CGAGGCAGACTTGTTCCACTGCTACTCATGGAATATCAGAT-TTGAAAAAGAGGGATATGTTCAC
66 CGAGGCAGACTTGTTCCACTGCTACTCAAGGAAGATCAAATCTTGAAAAAGAGGGATATGTTC-C
2107352 -CTGC
130 GCTGC
* * * *
2107356 TTCTTGAGGGAAAATCAGACCTGGAAATGTTTATTCATTCTACTATTCTTCAGGGAAGATTGAAT
1 TTCTTGAGGGAAAATCAGATCTGGAAATGTTGATTCATTCCACTGTTCTTCAGGGAAGATTGAAT
* ** * * * * * *
2107421 CGAGGCA-ACTTGTTTCACTATTACT-AAGAGAAAATCAAGTCTTGAAAGAGAGGGATTTGTACT
66 CGAGGCAGACTTGTTCCACTGCTACTCAAG-GAAGATCAAATCTTGAAAAAGAGGGATATGTTCC
* *
2107484 ACT-T
130 GCTGC
* * * *
2107488 TTCTTGAGGGAAAATCGGA-CTTGGAAATGTTGATTCATTCCATTATTCTTCAGGGAATATTGAA
1 TTCTTGAGGGAAAATCAGATC-TGGAAATGTTGATTCATTCCACTGTTCTTCAGGGAAGATTGAA
* ** * * * * * * * *
2107552 TCCATACAAACTTGTTCCACTGTTACTCAAAGACGATTAAATC-TAAAAAAGTGGGATCTGTTCC
65 TCGAGGCAGACTTGTTCCACTGCTACTCAAGGAAGATCAAATCTTGAAAAAGAGGGATATGTTCC
2107616 GCTGC
130 GCTGC
* *
2107621 TTCGTGAGGGAAAATCAGATCTAGAAATGTTGATTCATTCCACTGTTCTTCAGGGAAGATTGAAT
1 TTCTTGAGGGAAAATCAGATCTGGAAATGTTGATTCATTCCACTGTTCTTCAGGGAAGATTGAAT
* * * * *
2107686 CGAGGTAGACTTGTTCTACTACTACTC-AGAAAAGATCAAATC-TAAAAAAGAGGGATATGTTCC
66 CGAGGCAGACTTGTTCCACTGCTACTCAAG-GAAGATCAAATCTTGAAAAAGAGGGATATGTTCC
**
2107749 TATGC
130 GCTGC
* * * * *
2107754 TTATTGAGGGAAAATCAGATCTGGAAATGTTAATTCATTCCATTAGTACTT-GGGGAAGATTGAA
1 TTCTTGAGGGAAAATCAGATCTGGAAATGTTGATTCATTCCACT-GTTCTTCAGGGAAGATTGAA
2107818 TC
65 TC
2107820 TGAAAGAGTA
Statistics
Matches: 607, Mismatches: 109, Indels: 29
0.81 0.15 0.04
Matches are distributed among these distances:
131 3 0.00
132 168 0.28
133 271 0.45
134 165 0.27
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.32
Consensus pattern (134 bp):
TTCTTGAGGGAAAATCAGATCTGGAAATGTTGATTCATTCCACTGTTCTTCAGGGAAGATTGAAT
CGAGGCAGACTTGTTCCACTGCTACTCAAGGAAGATCAAATCTTGAAAAAGAGGGATATGTTCCG
CTGC
Found at i:2107631 original size:265 final size:264
Alignment explanation
Indices: 2106949--2107819 Score: 912
Period size: 265 Copynumber: 3.3 Consensus size: 264
2106939 AGGATCTGCT
* * ** * * * * *
2106949 CTACTGTTTCTTTAGGGTAAATCAGATCAAGAAACGTTGATTTATTCCACTGTTCTTCAGAAAAG
1 CTACT-TTTCTTGAGGGAAAATCAGATCTGGAAATGTTGATTCATTCCATTATTCTTCAG-GAAG
* ** * * * * *
2107014 ATTGAATCGAGGTAGATTTATTCCACTGCTACTCAAGGAAGATCAAATCTTGAAAGAGAGGGATT
64 ATTGAATCCAGACAAACTTGTTCCACTGCTACTCAAGGAAGATCAAATC-TGAAAAAGAGGGATA
* * *
2107079 TGTTCCGCTGCTTCTTGAGGAAAAATCAGATCTGGAAATATTGATTCATT-TCACTGTTCTTTAG
128 TGTTCCGCTGCTTCTTGAGGGAAAATCAGATCTGGAAATGTTGATTCATTCT-ACTGTTCTTCAG
* * * * *
2107143 GGAAGATTGAATCGAGGATGACTTGTTCCACTGTTACTCAGGGAAGATCAAGTCTTGAAAGATAG
192 GGAAGATTGAATCGAGGA-GACTTGTTTCACTATTACTCAGAGAAAATCAAGTCTTGAAAGAGAG
* * *
2107208 GGATCTATT
256 GGATATGTA
** * * * *
2107217 CCGCTTTTTCTTGAGGGAAAATCATATCTGGAAATGTTGATTTATTCCACTGTTCTTCAGGAAGA
1 CTAC-TTTTCTTGAGGGAAAATCAGATCTGGAAATGTTGATTCATTCCATTATTCTTCAGGAAGA
* * * * * * *
2107282 TTGAATCGAGGCAGACTTGTTCCACTGCTACTCATGGAATATCAGATTTGAAAAAGAGGGATATG
65 TTGAATCCAGACAAACTTGTTCCACTGCTACTCAAGGAAGATCAAATCTGAAAAAGAGGGATATG
* * *
2107347 TTCAC-CTGCTTCTTGAGGGAAAATCAGACCTGGAAATGTTTATTCATTCTACTATTCTTCAGGG
130 TTC-CGCTGCTTCTTGAGGGAAAATCAGATCTGGAAATGTTGATTCATTCTACTGTTCTTCAGGG
*
2107411 AAGATTGAATCGAGGCA-ACTTGTTTCACTATTACTAAGAGAAAATCAAGTCTTGAAAGAGAGGG
194 AAGATTGAATCGAGG-AGACTTGTTTCACTATTACTCAGAGAAAATCAAGTCTTGAAAGAGAGGG
*
2107475 ATTTGTA
258 ATATGTA
* *
2107482 CTACTTTTCTTGAGGGAAAATCGGA-CTTGGAAATGTTGATTCATTCCATTATTCTTCAGGGAAT
1 CTACTTTTCTTGAGGGAAAATCAGATC-TGGAAATGTTGATTCATTCCATTATTCTTCA-GGAAG
* * * * * * * *
2107546 ATTGAATCCATACAAACTTGTTCCACTGTTACTCAAAGACGATTAAATCTAAAAAAGTGGGATCT
64 ATTGAATCCAGACAAACTTGTTCCACTGCTACTCAAGGAAGATCAAATCTGAAAAAGAGGGATAT
* * *
2107611 GTTCCGCTGCTTCGTGAGGGAAAATCAGATCTAGAAATGTTGATTCATTCCACTGTTCTTCAGGG
129 GTTCCGCTGCTTCTTGAGGGAAAATCAGATCTGGAAATGTTGATTCATTCTACTGTTCTTCAGGG
* * * *
2107676 AAGATTGAATCGAGGTAGACTTG-TTCTACTACTACTCAGA-AAAGATCAAATC-TAAAAAAGAG
194 AAGATTGAATCGAGG-AGACTTGTTTC-ACTATTACTCAGAGAAA-ATCAAGTCTTGAAAGAGAG
*
2107738 GGATATGTTC
256 GGATATG-TA
* * * * **
2107748 CTA-TGCTTATTGAGGGAAAATCAGATCTGGAAATGTTAATTCATTCCATTAGTACTTGGGGAAG
1 CTACT-TTTCTTGAGGGAAAATCAGATCTGGAAATGTTGATTCATTCCATTA-TTCTTCAGGAAG
2107812 ATTGAATC
64 ATTGAATC
2107820 TGAAAGAGTA
Statistics
Matches: 511, Mismatches: 78, Indels: 30
0.83 0.13 0.05
Matches are distributed among these distances:
263 1 0.00
264 48 0.09
265 195 0.38
266 163 0.32
267 53 0.10
268 50 0.10
269 1 0.00
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.32
Consensus pattern (264 bp):
CTACTTTTCTTGAGGGAAAATCAGATCTGGAAATGTTGATTCATTCCATTATTCTTCAGGAAGAT
TGAATCCAGACAAACTTGTTCCACTGCTACTCAAGGAAGATCAAATCTGAAAAAGAGGGATATGT
TCCGCTGCTTCTTGAGGGAAAATCAGATCTGGAAATGTTGATTCATTCTACTGTTCTTCAGGGAA
GATTGAATCGAGGAGACTTGTTTCACTATTACTCAGAGAAAATCAAGTCTTGAAAGAGAGGGATA
TGTA
Found at i:2107713 original size:398 final size:400
Alignment explanation
Indices: 2106956--2107819 Score: 1010
Period size: 398 Copynumber: 2.2 Consensus size: 400
2106946 GCTCTACTGT
* * ** * * * * **
2106956 TTCTTTAGGGTAAATCAGATCAAGAAACGTTGATTTATTCCACTGTTCTTCAGAAAAGATTGAAT
1 TTCTTGAGGGAAAATCAGATCTGGAAATGTTAATTCATTCCACTATTCTTCAGGGAAGATTGAAT
* * * * * *
2107021 CGAGGTAGATTTATTCCACTGCTACTCAAGGAAGATCAAATCTTGAAAGAGAGGGATTTGTTCCG
66 CGAGGCAGACTTATTCCACTACTACTCAAGGAAAATCAAATCTTGAAAGAGAGGGATTTGTACCA
* * *
2107086 CTGCTTCTTGAGGAAAAATCAGATCTGGAAATATTGATTCATTTCACTGTTCTTTAGGGAAGATT
131 CTGCTTCTTGAGGAAAAATCAGATCTGGAAATATTGATTCATTCCACTATTCTTCAGGGAAGATT
* ** ** * **
2107151 GAATCGAGGATGACTTGTTCCACTGTTACTCAGGGAAGATCAAGTCTTGAAAGATAGGGATCTAT
196 GAATCCAGGAAAACTTGTTCCACTGTTACTCAAAGAAGATCAAATCTAAAAAGATAGGGATCTAT
** * * * *
2107216 TCCGCTTTTTCTTGAGGGAAAATCATATCTGGAAATGTTGATTTATTCCACTGTTCTTCAGGAAG
261 TCCGCTGCTTCGTGAGGGAAAATCAGATCTAGAAATGTTGATTCATTCCACTGTTCTTCAGGAAG
* * * * * *
2107281 ATTGAATCGAGGCAGACTTGTTCCACTGCTACTCATG-GAATATCAGATTTGAAAAAGAGGGATA
326 ATTGAATCGAGGCAGACTTGTTCCACTACTACTCA-GAAAAGATCAAATCTAAAAAAGAGGGATA
*
2107345 TGTTCAC-CTGC
390 TGTTC-CTATGC
* * *
2107356 TTCTTGAGGGAAAATCAGACCTGGAAATGTTTATTCATTCTACTATTCTTCAGGGAAGATTGAAT
1 TTCTTGAGGGAAAATCAGATCTGGAAATGTTAATTCATTCCACTATTCTTCAGGGAAGATTGAAT
* * * * *
2107421 CGAGGCA-ACTTGTTTCACTATTACT-AAGAGAAAATCAAGTCTTGAAAGAGAGGGATTTGTACT
66 CGAGGCAGACTTATTCCACTACTACTCAAG-GAAAATCAAATCTTGAAAGAGAGGGATTTGTACC
* * * * * *
2107484 ACT-TTTCTTGAGGGAAAATCGGA-CTTGGAAATGTTGATTCATTCCATTATTCTTCAGGGAATA
130 ACTGCTTCTTGAGGAAAAATCAGATC-TGGAAATATTGATTCATTCCACTATTCTTCAGGGAAGA
* * *
2107547 TTGAATCCA-TACAAACTTGTTCCACTGTTACTCAAAGACGATTAAATCTAAAAA-AGT-GGGAT
194 TTGAATCCAGGA-AAACTTGTTCCACTGTTACTCAAAGAAGATCAAATCTAAAAAGA-TAGGGAT
*
2107609 CTGTTCCGCTGCTTCGTGAGGGAAAATCAGATCTAGAAATGTTGATTCATTCCACTGTTCTTCAG
257 CTATTCCGCTGCTTCGTGAGGGAAAATCAGATCTAGAAATGTTGATTCATTCCACTGTTCTTCA-
* *
2107674 GGAAGATTGAATCGAGGTAGACTTGTTCTACTACTACTCAGAAAAGATCAAATCTAAAAAAGAGG
321 GGAAGATTGAATCGAGGCAGACTTGTTCCACTACTACTCAGAAAAGATCAAATCTAAAAAAGAGG
2107739 GATATGTTCCTATGC
386 GATATGTTCCTATGC
* * * *
2107754 TTATTGAGGGAAAATCAGATCTGGAAATGTTAATTCATTCCATTAGTACTT-GGGGAAGATTGAA
1 TTCTTGAGGGAAAATCAGATCTGGAAATGTTAATTCATTCCACTA-TTCTTCAGGGAAGATTGAA
2107818 TC
65 TC
2107820 TGAAAGAGTA
Statistics
Matches: 390, Mismatches: 66, Indels: 18
0.82 0.14 0.04
Matches are distributed among these distances:
397 67 0.17
398 215 0.55
399 49 0.13
400 59 0.15
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.32
Consensus pattern (400 bp):
TTCTTGAGGGAAAATCAGATCTGGAAATGTTAATTCATTCCACTATTCTTCAGGGAAGATTGAAT
CGAGGCAGACTTATTCCACTACTACTCAAGGAAAATCAAATCTTGAAAGAGAGGGATTTGTACCA
CTGCTTCTTGAGGAAAAATCAGATCTGGAAATATTGATTCATTCCACTATTCTTCAGGGAAGATT
GAATCCAGGAAAACTTGTTCCACTGTTACTCAAAGAAGATCAAATCTAAAAAGATAGGGATCTAT
TCCGCTGCTTCGTGAGGGAAAATCAGATCTAGAAATGTTGATTCATTCCACTGTTCTTCAGGAAG
ATTGAATCGAGGCAGACTTGTTCCACTACTACTCAGAAAAGATCAAATCTAAAAAAGAGGGATAT
GTTCCTATGC
Found at i:2108038 original size:133 final size:133
Alignment explanation
Indices: 2107852--2108097 Score: 352
Period size: 133 Copynumber: 1.8 Consensus size: 133
2107842 CTGAGGGAAG
* * *
2107852 ATCAGATCTAGAAATGTTGATTTATTCCACTATTCTTAAGGGAAGATTGAATCGAGGAAGAATTG
1 ATCAGATCTAGAAATGTTGATTTATTCCACTATTCTTAAGGGAAAATTAAATCGAGGAAGAATTA
* * *
2107917 TTCCACTGTTACTCAAGGAATATCAAATATGAAAAAA-AGGGATTTGTTCCACTTTTTCTTGATG
66 TTCCACTGCTACTCAAGGAAGATCAAATAT-AAAAAATAAGGATTTGTTCCACTTTTTCTTGATG
2107981 AAAA
130 AAAA
* * * *
2107985 ATCAGATTTGGAAATGTTGATTTATTCCACTGTTCTTCAA-GGAAAATTAAATCGAGGAAGACTT
1 ATCAGATCTAGAAATGTTGATTTATTCCACTATTCTT-AAGGGAAAATTAAATCGAGGAAGAATT
* *
2108049 ATTCCACTGCTACTCAGGGAAGATCAAATCTAAAAAATAAGGATTTGTT
65 ATTCCACTGCTACTCAAGGAAGATCAAATATAAAAAATAAGGATTTGTT
2108098 TAGCTGCTTC
Statistics
Matches: 99, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
132 6 0.06
133 91 0.92
134 2 0.02
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (133 bp):
ATCAGATCTAGAAATGTTGATTTATTCCACTATTCTTAAGGGAAAATTAAATCGAGGAAGAATTA
TTCCACTGCTACTCAAGGAAGATCAAATATAAAAAATAAGGATTTGTTCCACTTTTTCTTGATGA
AAA
Found at i:2108245 original size:45 final size:45
Alignment explanation
Indices: 2108111--2108339 Score: 140
Period size: 46 Copynumber: 5.0 Consensus size: 45
2108101 CTGCTTCTTG
*
2108111 CAGATCTAGAAATGTGGATTCATTCCACTATTCCTCAGGGAAGAT
1 CAGATCTAGAAATGTGGATTCATTCCACTATTCTTCAGGGAAGAT
* * * ** *
2108156 -TGAATCT-GAAAGAGAGGGATTTGTTCCACTACTTCTTGAGGGAAGAT
1 CAG-ATCTAGAAA-TG-TGGATTCATTCCACTA-TTCTTCAGGGAAGAT
* * *
2108203 CAGATCTAGAAATGTTGATTCATTCCACTGTTCTTCATGGAAGAT
1 CAGATCTAGAAATGTGGATTCATTCCACTATTCTTCAGGGAAGAT
* * * * * ** * * * * *
2108248 CAAATATAAAAAAGAGGGATTTGTTCCTCTGCTTATTGAGGGAATAT
1 CAGATCTAGAAATG-TGGATTCATTCCACT-ATTCTTCAGGGAAGAT
* * * *
2108295 CAGATCTGGAAATGTTGATTCATT-CAGATATTCTTCAAGGAAGAT
1 CAGATCTAGAAATGTGGATTCATTCCA-CTATTCTTCAGGGAAGAT
2108340 TGAATCGAGT
Statistics
Matches: 129, Mismatches: 46, Indels: 18
0.67 0.24 0.09
Matches are distributed among these distances:
44 5 0.04
45 40 0.31
46 41 0.32
47 38 0.29
48 5 0.04
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (45 bp):
CAGATCTAGAAATGTGGATTCATTCCACTATTCTTCAGGGAAGAT
Found at i:2108329 original size:92 final size:92
Alignment explanation
Indices: 2108111--2108339 Score: 298
Period size: 92 Copynumber: 2.5 Consensus size: 92
2108101 CTGCTTCTTG
* * * ** * * *
2108111 CAGATCTAGAAATGTGGATTCATTCCACTATTCCTCAGGGAAGATTGAATCTGAAAGAGAGGGAT
1 CAGATCTAGAAATGTTGATTCATTCCACTATTCTTCAAGGAAGATCAAATATAAAAAAGAGGGAT
*
2108176 TTGTTCCACTACTTCTTGAGGGAAGAT
66 TTGTTCCACTACTTATTGAGGGAAGAT
* *
2108203 CAGATCTAGAAATGTTGATTCATTCCACTGTTCTTCATGGAAGATCAAATATAAAAAAGAGGGAT
1 CAGATCTAGAAATGTTGATTCATTCCACTATTCTTCAAGGAAGATCAAATATAAAAAAGAGGGAT
* * *
2108268 TTGTTCCTCTGCTTATTGAGGGAATAT
66 TTGTTCCACTACTTATTGAGGGAAGAT
* *
2108295 CAGATCTGGAAATGTTGATTCATT-CAGATATTCTTCAAGGAAGAT
1 CAGATCTAGAAATGTTGATTCATTCCA-CTATTCTTCAAGGAAGAT
2108340 TGAATCGAGT
Statistics
Matches: 119, Mismatches: 17, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
91 2 0.02
92 117 0.98
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (92 bp):
CAGATCTAGAAATGTTGATTCATTCCACTATTCTTCAAGGAAGATCAAATATAAAAAAGAGGGAT
TTGTTCCACTACTTATTGAGGGAAGAT
Found at i:2112706 original size:16 final size:17
Alignment explanation
Indices: 2112685--2112717 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
2112675 TAAACAAATT
2112685 TGTTCA-TTTTTTCCTC
1 TGTTCATTTTTTTCCTC
2112701 TGTTCATTTTTTTCCTC
1 TGTTCATTTTTTTCCTC
2112718 GTAAGAAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.06, C:0.24, G:0.06, T:0.64
Consensus pattern (17 bp):
TGTTCATTTTTTTCCTC
Found at i:2114003 original size:20 final size:20
Alignment explanation
Indices: 2113975--2114015 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
2113965 AGTTTACTTG
2113975 ATCATAAAACCCTTTA-TCT
1 ATCATAAAACCCTTTACTCT
*
2113994 ATCATGAAAACCTTTTACTCT
1 ATCAT-AAAACCCTTTACTCT
2114015 A
1 A
2114016 ATGACCACTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 5 0.26
20 10 0.53
21 4 0.21
ACGTcount: A:0.37, C:0.24, G:0.02, T:0.37
Consensus pattern (20 bp):
ATCATAAAACCCTTTACTCT
Found at i:2115994 original size:131 final size:132
Alignment explanation
Indices: 2115760--2116261 Score: 541
Period size: 131 Copynumber: 3.8 Consensus size: 132
2115750 ATAATTTTAA
* * * * * * * *
2115760 GAGAGAAAACAATAATATCTAATTATTTACGATCGAGAATAAATGATCTT-TCATGCCTTAAAAC
1 GAGAGAAAACGATAATATATAATGATTTCCAATCGAGAATAAATGACCTTCTCATACCTTAAAGC
* * * * * * * *
2115824 AATCATTTATTACCCCAATTGAAATGAAGAGATATCACTATTTCTTATTAAAATTTAATATTAAT
66 ATTCATTTATTACTCCAATCGAAATGAAGAAATATCACTATTCCATCTTAAAATTCAATATTAAT
2115889 TC
131 TC
* * *
2115891 GAGAGAAAATGATAATATATAATGATTTCTAATCGAGAATAAATGACCTTC-CATGCCTTAAAGC
1 GAGAGAAAACGATAATATATAATGATTTCCAATCGAGAATAAATGACCTTCTCATACCTTAAAGC
* *
2115955 ATTCATTTATTACTCTAATCGAAATGAAGAAATATCACTATTCCATCTTAAAATTCAATATTAAA
66 ATTCATTTATTACTCCAATCGAAATGAAGAAATATCACTATTCCATCTTAAAATTCAATATTAAT
2116020 TC
131 TC
** * *
2116022 GAGAGAAAAAAATATAATATATAGTGATTTCCAATCGAAAATAAATGACC-TCTCATACCTTAAA
1 GAGAG--AAAACGATAATATATAATGATTTCCAATCGAGAATAAATGACCTTCTCATACCTTAAA
* * * * * * *
2116086 GCATTCATTTATTGCACTAATCAAAATGAAGAGATATCTA-TATTCCGTCTTAAAAATCAATATT
64 GCATTCATTTATTACTCCAATCGAAATGAAGAAATATC-ACTATTCCATCTTAAAATTCAATATT
* *
2116150 GATTT
128 AATTC
* * * *
2116155 GAGAGAAAACGTTAATATCA-AATTATTTCCAATCGAGAATAAATGA-CATCTCATACCTAAAAG
1 GAGAGAAAACGATAATAT-ATAATGATTTCCAATCGAGAATAAATGACCTTCTCATACCTTAAAG
* * *
2116218 CAGTCATTTATTACTCCAACCGAAATGAA-AAGATATTACTATTC
65 CATTCATTTATTACTCCAATCGAAATGAAGAA-ATATCACTATTC
2116262 TCAATAACGA
Statistics
Matches: 313, Mismatches: 49, Indels: 18
0.82 0.13 0.05
Matches are distributed among these distances:
130 3 0.01
131 195 0.62
132 3 0.01
133 111 0.35
134 1 0.00
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.32
Consensus pattern (132 bp):
GAGAGAAAACGATAATATATAATGATTTCCAATCGAGAATAAATGACCTTCTCATACCTTAAAGC
ATTCATTTATTACTCCAATCGAAATGAAGAAATATCACTATTCCATCTTAAAATTCAATATTAAT
TC
Found at i:2118208 original size:3 final size:3
Alignment explanation
Indices: 2118200--2118266 Score: 134
Period size: 3 Copynumber: 22.3 Consensus size: 3
2118190 CTGCACAAAT
2118200 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2118248 TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA T
2118267 GGTGTCAGGA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 64 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:2120104 original size:36 final size:36
Alignment explanation
Indices: 2120064--2120160 Score: 135
Period size: 36 Copynumber: 2.7 Consensus size: 36
2120054 GATACAATCT
*
2120064 GTCCATCATCATTATCACGCCTTTATCATCACCATA
1 GTCCATCATCATTATCACGCCTATATCATCACCATA
2120100 GTCCATC-TCCATTATCACGCCTATATCATCACCATA
1 GTCCATCAT-CATTATCACGCCTATATCATCACCATA
* * *
2120136 TTCCACCACCA-TATCACGCCTATAT
1 GTCCATCATCATTATCACGCCTATAT
2120161 TTTCACCCAC
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
35 15 0.27
36 40 0.73
ACGTcount: A:0.28, C:0.36, G:0.05, T:0.31
Consensus pattern (36 bp):
GTCCATCATCATTATCACGCCTATATCATCACCATA
Found at i:2120586 original size:24 final size:24
Alignment explanation
Indices: 2120546--2120592 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
2120536 AAAGTGCTAC
2120546 AACAAAAAGCAACAAGAAAGAAGAA
1 AACAAAAAGCAACAAGAAA-AAGAA
2120571 AACAAAAGAG-AA-AAGAAAAAGA
1 AACAAAA-AGCAACAAGAAAAAGA
2120593 CTCCTACAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 4 0.19
24 6 0.29
25 9 0.43
26 2 0.10
ACGTcount: A:0.74, C:0.09, G:0.17, T:0.00
Consensus pattern (24 bp):
AACAAAAAGCAACAAGAAAAAGAA
Found at i:2125805 original size:36 final size:36
Alignment explanation
Indices: 2125765--2125861 Score: 126
Period size: 36 Copynumber: 2.7 Consensus size: 36
2125755 GATACAATCT
* *
2125765 GTCCATCATCATTATCACGCCTTTATCATTACCATA
1 GTCCATCATCATTATCACGCCTATATCATCACCATA
2125801 GTCCATC-TCCATTATCACGCCTATATCATCACCATA
1 GTCCATCAT-CATTATCACGCCTATATCATCACCATA
* * *
2125837 TTCCACCACCA-TATCACGCCTATAT
1 GTCCATCATCATTATCACGCCTATAT
2125862 TTTCACCCAC
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
35 15 0.28
36 39 0.72
ACGTcount: A:0.28, C:0.35, G:0.05, T:0.32
Consensus pattern (36 bp):
GTCCATCATCATTATCACGCCTATATCATCACCATA
Found at i:2126608 original size:25 final size:25
Alignment explanation
Indices: 2126574--2126625 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
2126564 CTGAATGAAA
2126574 CCTAGAATCTATAGCCTAAAACCTC
1 CCTAGAATCTATAGCCTAAAACCTC
2126599 CCTAGAATCTATAGCCTAAAACCTC
1 CCTAGAATCTATAGCCTAAAACCTC
2126624 CC
1 CC
2126626 ATGCTGCCGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.35, C:0.35, G:0.08, T:0.23
Consensus pattern (25 bp):
CCTAGAATCTATAGCCTAAAACCTC
Found at i:2128965 original size:64 final size:64
Alignment explanation
Indices: 2128869--2129077 Score: 194
Period size: 65 Copynumber: 3.2 Consensus size: 64
2128859 TTTCAAAGGG
* *
2128869 ATGCACCGATGCACCAATCCATGCATCGATGCAC-CATTGAATAAATTGAACATCGAATGCATTT
1 ATGCATCGATGCA-CAAGCCATGCATCGATGCACTCATTGAAT-AATTGAACATCGAATGCATTT
2128933 T
64 T
* * ** ** *
2128934 ATGCATCGATGCATATA-CCATGCATCAATGCACTCAGGGTTTTA-TGAAAACATCGAATGCATT
1 ATGCATCGATGCACA-AGCCATGCATCGATGCACTCATTGAATAATTG--AACATCGAATGCATT
*
2128997 TG
63 TT
* * * *
2128999 ATGCATCGATGCACAAGACATGCATCGATGCACTCA-GGCCAT-TTTGAAACATCGAATGCATTT
1 ATGCATCGATGCACAAGCCATGCATCGATGCACTCATTG-AATAATTG-AACATCGAATGCATTT
2129062 T
64 T
2129063 ATGCATCGATGCACA
1 ATGCATCGATGCACA
2129078 CTTAGTGCAC
Statistics
Matches: 121, Mismatches: 16, Indels: 15
0.80 0.11 0.10
Matches are distributed among these distances:
63 2 0.02
64 52 0.43
65 67 0.55
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.27
Consensus pattern (64 bp):
ATGCATCGATGCACAAGCCATGCATCGATGCACTCATTGAATAATTGAACATCGAATGCATTTT
Found at i:2129096 original size:64 final size:64
Alignment explanation
Indices: 2128917--2129077 Score: 227
Period size: 65 Copynumber: 2.5 Consensus size: 64
2128907 GAATAAATTG
* * **
2128917 AACATCGAATGCATTTTATGCATCGATGCATATACCATGCATCAATGCACTCAGGGTTTTATGAA
1 AACATCGAATGCATTTTATGCATCGATGCACATA-CATGCATCGATGCACTCAGGCATTTATGAA
* *
2128982 AACATCGAATGCATTTGATGCATCGATGCACAAGACATGCATCGATGCACTCAGGCCATTT-TG-
1 AACATCGAATGCATTTTATGCATCGATGCAC-ATACATGCATCGATGCACTCAGG-CATTTATGA
2129045 A
64 A
2129046 AACATCGAATGCATTTTATGCATCGATGCACA
1 AACATCGAATGCATTTTATGCATCGATGCACA
2129078 CTTAGTGCAC
Statistics
Matches: 87, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
63 1 0.01
64 31 0.36
65 50 0.57
66 5 0.06
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (64 bp):
AACATCGAATGCATTTTATGCATCGATGCACATACATGCATCGATGCACTCAGGCATTTATGAA
Found at i:2134906 original size:21 final size:22
Alignment explanation
Indices: 2134843--2134906 Score: 53
Period size: 21 Copynumber: 2.9 Consensus size: 22
2134833 AATAGTGCAT
2134843 CGATGCATCCCTTTGAATGTACA
1 CGATGCATCCC-TTGAATGTACA
* *
2134866 TCGATACAT--CATGAAGATGTAC-
1 -CGATGCATCCCTTG-A-ATGTACA
2134888 CGATGCATCCCTTGAATGT
1 CGATGCATCCCTTGAATGT
2134907 GCATCAATGC
Statistics
Matches: 32, Mismatches: 4, Indels: 11
0.68 0.09 0.23
Matches are distributed among these distances:
21 13 0.41
22 3 0.09
23 9 0.28
24 7 0.22
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (22 bp):
CGATGCATCCCTTGAATGTACA
Found at i:2137159 original size:14 final size:14
Alignment explanation
Indices: 2137140--2137166 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2137130 TAACAAAAAG
2137140 AGGGAGAAAGTGTA
1 AGGGAGAAAGTGTA
2137154 AGGGAGAAAGTGT
1 AGGGAGAAAGTGT
2137167 TAAAGTAAGG
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:0.41, C:0.00, G:0.44, T:0.15
Consensus pattern (14 bp):
AGGGAGAAAGTGTA
Found at i:2137720 original size:64 final size:65
Alignment explanation
Indices: 2137564--2137724 Score: 231
Period size: 65 Copynumber: 2.5 Consensus size: 65
2137554 AAATAAATTG
*
2137564 AACATCGAATGCATTTTATGCATCGATGCACATACCATGAATCGATGCACTCAGGGTTTTATGAA
1 AACATCGAATGCATTTTATGCATCGATGCACATAACATGAATCGATGCACTCAGGGTTTTATGAA
* * *
2137629 AACATCGAATGCATTTGATGCATCGATGCACA-AGACATGCATCGATGCCCTC-GGGCTATTT-T
1 AACATCGAATGCATTTTATGCATCGATGCACATA-ACATGAATCGATGCACTCAGGG-T-TTTAT
2137691 G-A
63 GAA
2137693 AACATCGAATGCATTTTATGCATCGATGCACA
1 AACATCGAATGCATTTTATGCATCGATGCACA
2137725 CATAGTGCAC
Statistics
Matches: 88, Mismatches: 5, Indels: 7
0.88 0.05 0.07
Matches are distributed among these distances:
64 36 0.41
65 49 0.56
66 3 0.03
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (65 bp):
AACATCGAATGCATTTTATGCATCGATGCACATAACATGAATCGATGCACTCAGGGTTTTATGAA
Found at i:2142710 original size:153 final size:152
Alignment explanation
Indices: 2142483--2142782 Score: 354
Period size: 153 Copynumber: 2.0 Consensus size: 152
2142473 TAGTATGCTG
* * * * *
2142483 AATTTATATCAAAATCTCAGGATTACAATTCAAATCAAACTAAACAGACCTCAGCACTATGATAT
1 AATTTATATCAAAATATCAGGATTAAAAGTCAAATCAAACTAAACAGACCTCAACACTATAATAT
* *
2142548 TTACCAATCATTTGAAC-T-GAGATACTT-CTCATATATTTACCTCATAGAGTTGACTACACTAG
66 TTACCAATCA-TT-AACATCGAGATACTTCCT-AAATATTCACCTCATAGAGTTGACTACACTAG
*
2142610 TTTAATTGATCACCCCTTTAACTAA
128 TTGAATTGATCACCCCTTTAACTAA
* * ** * *
2142635 AATTATATATCAAATTATCAGGATTAAAAGTCAAATCAAACTAAGCTTACTTTAACACTATAATA
1 AATT-TATATCAAAATATCAGGATTAAAAGTCAAATCAAACTAAACAGACCTCAACACTATAATA
* * * * *
2142700 TTTTCTAATCATTCACATCGAGATACTTCCTAAATATTCACCTCATAGATTTGACTGCACTAGTT
65 TTTACCAATCATTAACATCGAGATACTTCCTAAATATTCACCTCATAGAGTTGACTACACTAGTT
* *
2142765 GAATTGATTACCCTTTTA
130 GAATTGATCACCCCTTTA
2142783 GAGTCATCAC
Statistics
Matches: 123, Mismatches: 21, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
151 2 0.02
152 7 0.06
153 112 0.91
154 2 0.02
ACGTcount: A:0.37, C:0.20, G:0.08, T:0.35
Consensus pattern (152 bp):
AATTTATATCAAAATATCAGGATTAAAAGTCAAATCAAACTAAACAGACCTCAACACTATAATAT
TTACCAATCATTAACATCGAGATACTTCCTAAATATTCACCTCATAGAGTTGACTACACTAGTTG
AATTGATCACCCCTTTAACTAA
Found at i:2143865 original size:11 final size:11
Alignment explanation
Indices: 2143835--2143868 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
2143825 GTCCCCAAAA
**
2143835 AGTCAACGCCC
1 AGTCAACGGTC
2143846 AGTCAACGGTC
1 AGTCAACGGTC
2143857 AGTCAACGGTC
1 AGTCAACGGTC
2143868 A
1 A
2143869 ACATGGCTCG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.29, C:0.32, G:0.24, T:0.15
Consensus pattern (11 bp):
AGTCAACGGTC
Found at i:2144922 original size:5 final size:5
Alignment explanation
Indices: 2144897--2144955 Score: 64
Period size: 5 Copynumber: 11.6 Consensus size: 5
2144887 ACTTAGATTT
* * * * *
2144897 AAATA AAACA TAATA AAATA ACATAA AAATA GAATA AAATA AAATA AGATA
1 AAATA AAATA AAATA AAATA AAAT-A AAATA AAATA AAATA AAATA AAATA
2144948 AAATA AAA
1 AAATA AAA
2144956 AATATTACCA
Statistics
Matches: 43, Mismatches: 10, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
5 39 0.91
6 4 0.09
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:2144932 original size:16 final size:16
Alignment explanation
Indices: 2144908--2144956 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
2144898 AATAAAACAT
*
2144908 AATAAAATAACATAAA
1 AATAAAATAAAATAAA
*
2144924 AATAGAATAAAAT-AA
1 AATAAAATAAAATAAA
*
2144939 AATAAGATAAAATAAA
1 AATAAAATAAAATAAA
2144955 AA
1 AA
2144957 ATATTACCAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
15 13 0.46
16 15 0.54
ACGTcount: A:0.76, C:0.02, G:0.04, T:0.18
Consensus pattern (16 bp):
AATAAAATAAAATAAA
Found at i:2144933 original size:31 final size:31
Alignment explanation
Indices: 2144898--2144956 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
2144888 CTTAGATTTA
* *
2144898 AATAAAACATAATAAAATAACATAAAAATAG
1 AATAAAACAAAATAAAATAAAATAAAAATAG
* *
2144929 AATAAAATAAAATAAGATAAAATAAAAA
1 AATAAAACAAAATAAAATAAAATAAAAA
2144957 ATATTACCAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.19
Consensus pattern (31 bp):
AATAAAACAAAATAAAATAAAATAAAAATAG
Found at i:2145143 original size:2 final size:2
Alignment explanation
Indices: 2145136--2145166 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
2145126 AGATGAGAAC
2145136 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2145167 GATTCTAGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2145710 original size:64 final size:65
Alignment explanation
Indices: 2145641--2145773 Score: 198
Period size: 65 Copynumber: 2.1 Consensus size: 65
2145631 CCCTATTTCA
* *
2145641 AATGCATTTTGTGTACCGATGCACA-ACCATGCATCAATGCATTCTTGAAT-TTATTGAAACATC
1 AATGCATTTTGTGTACCGATGCACAGACCATGCATCAATGCACTCCTGAATCTT-TTGAAACATC
2145704 G
65 G
* **
2145705 AATGCATTTTGTGTACCGATGCACAGACCATGCATCGATGCACTCCTGCCTCTTTTGAAACATCG
1 AATGCATTTTGTGTACCGATGCACAGACCATGCATCAATGCACTCCTGAATCTTTTGAAACATCG
2145770 AATG
1 AATG
2145774 TAATTATTGT
Statistics
Matches: 62, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
64 25 0.40
65 35 0.56
66 2 0.03
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (65 bp):
AATGCATTTTGTGTACCGATGCACAGACCATGCATCAATGCACTCCTGAATCTTTTGAAACATCG
Found at i:2145790 original size:65 final size:64
Alignment explanation
Indices: 2145641--2145793 Score: 175
Period size: 65 Copynumber: 2.4 Consensus size: 64
2145631 CCCTATTTCA
* * * *
2145641 AATGCATTTTGTGTACCGATGCACAACCATGCATCAATGCATTCTTGAATTTATTGAAACATCG
1 AATGAATTATGTGTACCGATGCACAACCATGCATCAATGCACTCCTGAATTTATTGAAACATCG
* * * **
2145705 AATGCATTTTGTGTACCGATGCACAGACCATGCATCGATGCACTCCTGCCTCTT-TTGAAACATC
1 AATGAATTATGTGTACCGATGCACA-ACCATGCATCAATGCACTCCTGAAT-TTATTGAAACATC
2145769 G
64 G
*
2145770 AATGTAATTAT-TGTATCGATGCAC
1 AATG-AATTATGTGTACCGATGCAC
2145794 CCCTAGTGTA
Statistics
Matches: 78, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
64 25 0.32
65 47 0.60
66 6 0.08
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (64 bp):
AATGAATTATGTGTACCGATGCACAACCATGCATCAATGCACTCCTGAATTTATTGAAACATCG
Found at i:2147231 original size:12 final size:12
Alignment explanation
Indices: 2147214--2147238 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2147204 AAAGAAGGTG
2147214 AAAAGAAGAAGA
1 AAAAGAAGAAGA
2147226 AAAAGAAGAAGA
1 AAAAGAAGAAGA
2147238 A
1 A
2147239 TGAGGTAGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (12 bp):
AAAAGAAGAAGA
Found at i:2148662 original size:108 final size:107
Alignment explanation
Indices: 2148310--2148670 Score: 339
Period size: 108 Copynumber: 3.3 Consensus size: 107
2148300 CAAAATTGGT
2148310 TTTAAATGCAAATGA-ATCTCTCTAACAATTGATATCAACTTTTCAAATACTTTGATTTTATAAA
1 TTTAAATGCAAATGATATCTCTCTAACAATTGATATCAACTTTTCAAATACTTTGATTTTATAAA
2148374 TCTTT-AAAAATTCTACTAAATTTAAATATTTATGCATGTGG
66 TCTTTAAAAAATTCTACTAAATTTAAATATTTATGCATGTGG
* * * * *
2148415 TTTAAATG-AAATGATATCTCTCTACAATGAATTATGTTTATAAACTTTATGCATATGTAC-TTA
1 TTTAAATGCAAATGATATCTCTCT--AA-CAA-T-TG-ATATCAACTTT-T-CA-A-ATACTTTG
** * ** * * * * *
2148478 ATTTACTATGGTAT-TCATAAAGTATT-T--TAGACTTGGATATATTGAATTCATGT-G
56 ATTT--TAT-AAATCT-TTAAAAAATTCTACTA-AATT-TAAATATT-TATGCATGTGG
2148532 --TAAATGCAAATGATATCTCTCTAACAATTGATATCAACTTTTCAAATACTTTGATTTTATAAA
1 TTTAAATGCAAATGATATCTCTCTAACAATTGATATCAACTTTTCAAATACTTTGATTTTATAAA
2148595 TCTTTAAAAAATTCTACCTAAATTTAAATATTTATGCATGTGG
66 TCTTTAAAAAATTCTA-CTAAATTTAAATATTTATGCATGTGG
*
2148638 TTTAAATGAAAATGATATCTCTCTAACAATTGA
1 TTTAAATGCAAATGATATCTCTCTAACAATTGA
2148671 ATTATGTTTA
Statistics
Matches: 196, Mismatches: 31, Indels: 55
0.70 0.11 0.20
Matches are distributed among these distances:
104 15 0.08
105 28 0.14
106 10 0.05
107 12 0.06
108 36 0.18
109 2 0.01
110 11 0.06
111 11 0.06
112 2 0.01
113 4 0.02
114 9 0.05
115 11 0.06
116 22 0.11
117 11 0.06
118 12 0.06
ACGTcount: A:0.37, C:0.12, G:0.09, T:0.42
Consensus pattern (107 bp):
TTTAAATGCAAATGATATCTCTCTAACAATTGATATCAACTTTTCAAATACTTTGATTTTATAAA
TCTTTAAAAAATTCTACTAAATTTAAATATTTATGCATGTGG
Done.