Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008082.1 Hibiscus syriacus cultivar Beakdansim tig00110584_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 6025995
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 11 of 28
Found at i:1888457 original size:18 final size:18
Alignment explanation
Indices: 1888436--1888470 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1888426 TGTAGCATTT
1888436 CAATGCTATGGAGCATCC
1 CAATGCTATGGAGCATCC
* *
1888454 CAATGTTGTGGAGCATC
1 CAATGCTATGGAGCATC
1888471 TAATGACTCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (18 bp):
CAATGCTATGGAGCATCC
Found at i:1891762 original size:18 final size:18
Alignment explanation
Indices: 1891741--1891775 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1891731 TGTAGCATTT
1891741 CAATGCTATGGAGCATCC
1 CAATGCTATGGAGCATCC
* *
1891759 CAATGTTGTGGAGCATC
1 CAATGCTATGGAGCATC
1891776 TAATGACTCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (18 bp):
CAATGCTATGGAGCATCC
Found at i:1894154 original size:31 final size:32
Alignment explanation
Indices: 1894082--1894154 Score: 85
Period size: 32 Copynumber: 2.3 Consensus size: 32
1894072 GGCCTGAGAA
* * *
1894082 CCTACCCAAGATAATTCTCGGGGCCACAGAGG
1 CCTACCCAAGAAAAATCTCAGGGCCACAGAGG
* * *
1894114 CTTACCCAAGAAAAATCTCATGGCCGCAGA-G
1 CCTACCCAAGAAAAATCTCAGGGCCACAGAGG
1894145 CCTACCCAAG
1 CCTACCCAAG
1894155 GGTTGCCTTA
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
31 10 0.29
32 24 0.71
ACGTcount: A:0.32, C:0.33, G:0.21, T:0.15
Consensus pattern (32 bp):
CCTACCCAAGAAAAATCTCAGGGCCACAGAGG
Found at i:1894864 original size:18 final size:18
Alignment explanation
Indices: 1894843--1894877 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1894833 TGTAGCATTT
1894843 CAATGCTATGGAGCATCC
1 CAATGCTATGGAGCATCC
* *
1894861 CAATGTTGTGGAGCATC
1 CAATGCTATGGAGCATC
1894878 TAATGACTCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (18 bp):
CAATGCTATGGAGCATCC
Found at i:1897244 original size:31 final size:32
Alignment explanation
Indices: 1897173--1897244 Score: 83
Period size: 32 Copynumber: 2.3 Consensus size: 32
1897163 GGCCTGAGAA
* * *
1897173 CTACCCAAGATAATTCTCGGGGCCACAGAGGC
1 CTACCCAAGAAAAATCTCAGGGCCACAGAGGC
* * *
1897205 TTACCCAAGAAAAATCTCATGGCCGCAGA-GC
1 CTACCCAAGAAAAATCTCAGGGCCACAGAGGC
1897236 CTACCCAAG
1 CTACCCAAG
1897245 GGTCGCCTTA
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
31 10 0.30
32 23 0.70
ACGTcount: A:0.32, C:0.32, G:0.21, T:0.15
Consensus pattern (32 bp):
CTACCCAAGAAAAATCTCAGGGCCACAGAGGC
Found at i:1897954 original size:18 final size:18
Alignment explanation
Indices: 1897933--1897967 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1897923 TGTAGCATTT
1897933 CAATGCTATGGAGCATCC
1 CAATGCTATGGAGCATCC
* *
1897951 CAATGTTGTGGAGCATC
1 CAATGCTATGGAGCATC
1897968 TAATGACTCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (18 bp):
CAATGCTATGGAGCATCC
Found at i:1901054 original size:18 final size:18
Alignment explanation
Indices: 1901033--1901067 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1901023 TGTAGCATTT
1901033 CAATGCTATGGAGCATCC
1 CAATGCTATGGAGCATCC
* *
1901051 CAATGTTGTGGAGCATC
1 CAATGCTATGGAGCATC
1901068 TAATGACTCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (18 bp):
CAATGCTATGGAGCATCC
Found at i:1903619 original size:12 final size:12
Alignment explanation
Indices: 1903602--1903663 Score: 88
Period size: 12 Copynumber: 5.2 Consensus size: 12
1903592 ATAGAGATAT
1903602 CAGAAATCAGAA
1 CAGAAATCAGAA
*
1903614 CAGAAATCAGAG
1 CAGAAATCAGAA
*
1903626 CAGAAATTAGAA
1 CAGAAATCAGAA
* *
1903638 CAGAATTCAGAG
1 CAGAAATCAGAA
1903650 CAGAAATCAGAA
1 CAGAAATCAGAA
1903662 CA
1 CA
1903664 ATATTCACAA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 42 1.00
ACGTcount: A:0.53, C:0.16, G:0.19, T:0.11
Consensus pattern (12 bp):
CAGAAATCAGAA
Found at i:1903669 original size:24 final size:24
Alignment explanation
Indices: 1903602--1903680 Score: 106
Period size: 24 Copynumber: 3.3 Consensus size: 24
1903592 ATAGAGATAT
*
1903602 CAGAAATCAGAACAGAAATCAGAG
1 CAGAAATCAGAACAGAATTCAGAG
*
1903626 CAGAAATTAGAACAGAATTCAGAG
1 CAGAAATCAGAACAGAATTCAGAG
* *
1903650 CAGAAATCAGAACA-ATATTCACAA
1 CAGAAATCAGAACAGA-ATTCAGAG
1903674 CAGAAAT
1 CAGAAAT
1903681 TAGATAAAAT
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
23 1 0.02
24 48 0.98
ACGTcount: A:0.53, C:0.16, G:0.16, T:0.14
Consensus pattern (24 bp):
CAGAAATCAGAACAGAATTCAGAG
Found at i:1903676 original size:36 final size:36
Alignment explanation
Indices: 1903602--1903680 Score: 97
Period size: 36 Copynumber: 2.2 Consensus size: 36
1903592 ATAGAGATAT
* *
1903602 CAGAAATCAGAACAGAAATCAGAGCAGAAATTAGAA
1 CAGAAATCAGAACAGAAATCAGAACAGAAATTACAA
* * *
1903638 CAGAATTCAGAGCAGAAATCAGAACA-ATATTCACAA
1 CAGAAATCAGAACAGAAATCAGAACAGAAATT-ACAA
1903674 CAGAAAT
1 CAGAAAT
1903681 TAGATAAAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
35 4 0.11
36 32 0.89
ACGTcount: A:0.53, C:0.16, G:0.16, T:0.14
Consensus pattern (36 bp):
CAGAAATCAGAACAGAAATCAGAACAGAAATTACAA
Found at i:1912382 original size:17 final size:17
Alignment explanation
Indices: 1912360--1912423 Score: 85
Period size: 17 Copynumber: 3.8 Consensus size: 17
1912350 CTCGATCGAA
*
1912360 TCAAGCTCGAACTTGGT
1 TCAAGCTCGAACTTGAT
1912377 TCAAGCTCGAACTTGAT
1 TCAAGCTCGAACTTGAT
*
1912394 TCAAGCTCAAACTCT-AT
1 TCAAGCTCGAACT-TGAT
*
1912411 TTAAGCTCGAACT
1 TCAAGCTCGAACT
1912424 CAAACTCAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
17 41 0.98
18 1 0.02
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.30
Consensus pattern (17 bp):
TCAAGCTCGAACTTGAT
Found at i:1912728 original size:31 final size:31
Alignment explanation
Indices: 1912690--1912752 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
1912680 AAAATCTTCA
1912690 ACTACAGTTGTATTACTCTTCAGAAGCAAGG
1 ACTACAGTTGTATTACTCTTCAGAAGCAAGG
1912721 ACTACAGTTGTATTACTCTTCAGAAGCAAGG
1 ACTACAGTTGTATTACTCTTCAGAAGCAAGG
1912752 A
1 A
1912753 TTGGAGATTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (31 bp):
ACTACAGTTGTATTACTCTTCAGAAGCAAGG
Found at i:1913887 original size:2 final size:2
Alignment explanation
Indices: 1913876--1913905 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
1913866 TCAAAGTATT
1913876 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1913906 TAAAATTGCA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1915184 original size:23 final size:23
Alignment explanation
Indices: 1915158--1915206 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
1915148 ATCATTCTAA
*
1915158 AGTTAGTATATTTAGTTTAAATT
1 AGTTAGTATATTTAGCTTAAATT
1915181 AGTTAGTATATTTAGCTTAAATT
1 AGTTAGTATATTTAGCTTAAATT
1915204 AGT
1 AGT
1915207 CCTCACATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.35, C:0.02, G:0.14, T:0.49
Consensus pattern (23 bp):
AGTTAGTATATTTAGCTTAAATT
Found at i:1915493 original size:21 final size:21
Alignment explanation
Indices: 1915463--1915551 Score: 90
Period size: 21 Copynumber: 4.2 Consensus size: 21
1915453 CAGGATTCAT
* *
1915463 GTTTAAGATTTAATGTCTAGG
1 GTTTAGGATTTAATGTTTAGG
*
1915484 GTTTATGATTT-ATAGTTTAGG
1 GTTTAGGATTTAAT-GTTTAGG
*
1915505 GTTTAGGATTTAAGGTTTAGG
1 GTTTAGGATTTAATGTTTAGG
* ** *
1915526 CTTTAGGATTTAGGGTTTAAG
1 GTTTAGGATTTAATGTTTAGG
1915547 GTTTA
1 GTTTA
1915552 AGGTTTAGAG
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
20 2 0.03
21 55 0.95
22 1 0.02
ACGTcount: A:0.25, C:0.02, G:0.27, T:0.46
Consensus pattern (21 bp):
GTTTAGGATTTAATGTTTAGG
Found at i:1915508 original size:7 final size:7
Alignment explanation
Indices: 1915498--1915559 Score: 70
Period size: 7 Copynumber: 8.9 Consensus size: 7
1915488 ATGATTTATA
1915498 GTTTAGG
1 GTTTAGG
1915505 GTTTAGG
1 GTTTAGG
* *
1915512 ATTTAAG
1 GTTTAGG
1915519 GTTTAGG
1 GTTTAGG
*
1915526 CTTTAGG
1 GTTTAGG
*
1915533 ATTTAGG
1 GTTTAGG
*
1915540 GTTTAAG
1 GTTTAGG
*
1915547 GTTTAAG
1 GTTTAGG
1915554 GTTTAG
1 GTTTAG
1915560 AGTTCATTAC
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
7 46 1.00
ACGTcount: A:0.23, C:0.02, G:0.32, T:0.44
Consensus pattern (7 bp):
GTTTAGG
Found at i:1916076 original size:11 final size:11
Alignment explanation
Indices: 1916062--1916123 Score: 58
Period size: 11 Copynumber: 5.8 Consensus size: 11
1916052 TATTATAGAC
1916062 TTTTTAATATA
1 TTTTTAATATA
1916073 TTTTTAA-A-A
1 TTTTTAATATA
1916082 TTTTATAAT-TA
1 TTTT-TAATATA
*** *
1916093 TCAATAATGTA
1 TTTTTAATATA
1916104 TTTTTAATATA
1 TTTTTAATATA
1916115 TTTTTAATA
1 TTTTTAATA
1916124 ATGTAATTTT
Statistics
Matches: 40, Mismatches: 7, Indels: 8
0.73 0.13 0.15
Matches are distributed among these distances:
9 5 0.12
10 8 0.20
11 27 0.68
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (11 bp):
TTTTTAATATA
Found at i:1917749 original size:23 final size:21
Alignment explanation
Indices: 1917708--1917750 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
1917698 ATTTCTTTAA
1917708 TATTTAAAAATAAATAAATAT
1 TATTTAAAAATAAATAAATAT
*
1917729 TATTTATAAAATTAATCAAATA
1 TATTTA-AAAATAAAT-AAATA
1917751 ATATATATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 8 0.42
23 5 0.26
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (21 bp):
TATTTAAAAATAAATAAATAT
Found at i:1917778 original size:29 final size:30
Alignment explanation
Indices: 1917715--1917783 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 30
1917705 TAATATTTAA
* *
1917715 AAATAAATAAATATTATTTATAAAATTAATC
1 AAAT-AATAAATATTATATATAAAATTAAAC
* *
1917746 AAATAATATATATTA-ATATAAAATTAAAG
1 AAATAATAAATATTATATATAAAATTAAAC
1917775 AAAT-ATAAA
1 AAATAATAAA
1917784 ATGAAGAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
28 4 0.12
29 15 0.45
30 10 0.30
31 4 0.12
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.35
Consensus pattern (30 bp):
AAATAATAAATATTATATATAAAATTAAAC
Found at i:1917781 original size:16 final size:17
Alignment explanation
Indices: 1917760--1917799 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
1917750 AATATATATT
* *
1917760 AATATAAAATTAA-AGA
1 AATATAAAATGAAGAAA
1917776 AATATAAAATGAAGAAA
1 AATATAAAATGAAGAAA
1917793 AATATAA
1 AATATAA
1917800 TAATATGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 12 0.57
17 9 0.43
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (17 bp):
AATATAAAATGAAGAAA
Found at i:1917825 original size:20 final size:20
Alignment explanation
Indices: 1917779--1917818 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
1917769 TTAAAGAAAT
*
1917779 ATAAAATGAAGAAAAATATA
1 ATAATATGAAGAAAAATATA
* *
1917799 ATAATATGAATAAAACTATA
1 ATAATATGAAGAAAAATATA
1917819 GATATATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.65, C:0.03, G:0.07, T:0.25
Consensus pattern (20 bp):
ATAATATGAAGAAAAATATA
Found at i:1919149 original size:3 final size:3
Alignment explanation
Indices: 1919141--1919190 Score: 64
Period size: 3 Copynumber: 16.7 Consensus size: 3
1919131 ATTATATTTT
** **
1919141 TAA TAA TAA TAA TAA TAA TTT TAA TAA TTT TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1919189 TA
1 TA
1919191 TTATTATTAT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (3 bp):
TAA
Found at i:1919481 original size:77 final size:76
Alignment explanation
Indices: 1919357--1919602 Score: 402
Period size: 76 Copynumber: 3.2 Consensus size: 76
1919347 AATGGCCCTG
* *
1919357 AGGTTTTGAAAATATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCCTGCACTATAGGTCTTAC
1 AGGTTTTGAAAATATCAAAAAGCTCTCGAAGGCTTTTTGAAAACATCCTGCACTGTAGGTCTTAC
*
1919422 AGATGACCAGA
66 AGATGACCCGA
*
1919433 AGGTTTTGAAAATATCAAAAAAGCTCTCGAAGGCTTTTTGAAATCATCCTGCACTGTAGGTCTTA
1 AGGTTTTGAAAATATC-AAAAAGCTCTCGAAGGCTTTTTGAAAACATCCTGCACTGTAGGTCTTA
*
1919498 CAGATAACCCGA
65 CAGATGACCCGA
* *
1919510 AGGTTTTGAAAATATCAAAAAGATTTCGAAGGCTTTTTGAAAACATCCTGCACTGTAGGTCTTAC
1 AGGTTTTGAAAATATCAAAAAGCTCTCGAAGGCTTTTTGAAAACATCCTGCACTGTAGGTCTTAC
1919575 AGATGACCCGA
66 AGATGACCCGA
* *
1919586 AGGCTTTGAAAACATCA
1 AGGTTTTGAAAATATCA
1919603 TGCACTGAAG
Statistics
Matches: 158, Mismatches: 11, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
76 87 0.55
77 71 0.45
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.28
Consensus pattern (76 bp):
AGGTTTTGAAAATATCAAAAAGCTCTCGAAGGCTTTTTGAAAACATCCTGCACTGTAGGTCTTAC
AGATGACCCGA
Found at i:1919607 original size:45 final size:45
Alignment explanation
Indices: 1919536--1919647 Score: 161
Period size: 45 Copynumber: 2.4 Consensus size: 45
1919526 AAAAAGATTT
* * *
1919536 CGAAGGCTTTTTGAAAACATCCTGCACTGTAGGTCTTACAGATGACC
1 CGAAGGC--TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACC
1919583 CGAAGGCTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACC
1 CGAAGGCTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACC
* *
1919628 CGAAGGTTTTGAAAATATCA
1 CGAAGGCTTTGAAAACATCA
1919648 AAAAGCTCCC
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
45 53 0.88
47 7 0.12
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (45 bp):
CGAAGGCTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACC
Found at i:1919619 original size:121 final size:121
Alignment explanation
Indices: 1919460--1919891 Score: 666
Period size: 121 Copynumber: 3.5 Consensus size: 121
1919450 AAAAAGCTCT
* * * * *
1919460 CGAAGGCTTTTTGAAATCATCCTGCACTGTAGGTCTTACAGATAACCCGAAGGTTTTGAAAATAT
1 CGAAGGC--TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAATAT
* * * **
1919525 CAAAAAGATTTCGAAGGCTTTTTGAAAACATCCTGCACTGTAGGTCTTACAGATGACC
64 CAAAAAGCTCTCGAAGGCTTTTTGAAAACATCCTGCACTGCAGGTCTTATGGATGACC
1919583 CGAAGGCTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAATATCA
1 CGAAGGCTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAATATCA
* *
1919648 AAAAGCTCCCGAAGGCTTTTTGAAAACATCCTGCACTGCAAGTCTTATGGATGACC
66 AAAAGCTCTCGAAGGCTTTTTGAAAACATCCTGCACTGCAGGTCTTATGGATGACC
* *
1919704 CGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCAAAGGTTTTGAAAATATCA
1 CGAAGGCTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAATATCA
* *
1919769 AAAAGCTCTCGAAGGCTTTTTAAAAACATCCTGCACTGCAGGTCTTATGGAAGACC
66 AAAAGCTCTCGAAGGCTTTTTGAAAACATCCTGCACTGCAGGTCTTATGGATGACC
* *
1919825 CGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTTTGAAAACAT
1 CGAAGGCTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG--TTTTGAAAATAT
1919890 CA
64 CA
1919892 TGCACTGCAA
Statistics
Matches: 287, Mismatches: 20, Indels: 4
0.92 0.06 0.01
Matches are distributed among these distances:
121 267 0.93
123 20 0.07
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (121 bp):
CGAAGGCTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAATATCA
AAAAGCTCTCGAAGGCTTTTTGAAAACATCCTGCACTGCAGGTCTTATGGATGACC
Found at i:1919670 original size:76 final size:74
Alignment explanation
Indices: 1919581--1919723 Score: 207
Period size: 76 Copynumber: 1.9 Consensus size: 74
1919571 TTACAGATGA
*
1919581 CCCGAAGGCTTTGAAAACATCATGCACTG-AAGGGCTTACAGATGACCCGAAGGTTTTGAAAATA
1 CCCGAAGGCTTTGAAAACATCATGCACTGCAA-GGCTTACAGATGACCCGAAGGTTTTGAAAACA
1919645 TCAAAAAGCT
65 TCAAAAAGCT
* * **
1919655 CCCGAAGGCTTTTTGAAAACATCCTGCACTGCAAGTCTTATGGATGACCCGAAGGTTTTGAAAAC
1 CCCGAAGGC--TTTGAAAACATCATGCACTGCAAGGCTTACAGATGACCCGAAGGTTTTGAAAAC
1919720 ATCA
64 ATCA
1919724 TGCACTGAAG
Statistics
Matches: 61, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
74 9 0.15
76 50 0.82
77 2 0.03
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.24
Consensus pattern (74 bp):
CCCGAAGGCTTTGAAAACATCATGCACTGCAAGGCTTACAGATGACCCGAAGGTTTTGAAAACAT
CAAAAAGCT
Found at i:1919721 original size:45 final size:45
Alignment explanation
Indices: 1919655--1919768 Score: 140
Period size: 45 Copynumber: 2.5 Consensus size: 45
1919645 TCAAAAAGCT
* * **
1919655 CCCGAAGGCTTTTTGAAAACATCCTGCACTGCAA-GTCTTATGGATGA
1 CCCGAAGG--TTTTGAAAACATCATGCACTG-AAGGGCTTACAGATGA
1919702 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
* *
1919747 CCCAAAGGTTTTGAAAATATCA
1 CCCGAAGGTTTTGAAAACATCA
1919769 AAAAGCTCTC
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
44 2 0.03
45 50 0.83
47 8 0.13
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.25
Consensus pattern (45 bp):
CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
Found at i:1919849 original size:45 final size:45
Alignment explanation
Indices: 1919786--1919976 Score: 242
Period size: 45 Copynumber: 4.2 Consensus size: 45
1919776 CTCGAAGGCT
* * * * **
1919786 TTTTAAAAACATCCTGCACTGCAGGTCTTATGGAAGACCCGAAGG
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGAAGACCCGAAGG
*
1919831 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGAAGACCCGAAGG
* *
1919876 CTTTTTGAAAACATCATGCACTGCAA-GTCTTA-TGAATGACCCGAAGG
1 --TTTTGAAAACATCATGCACTG-AAGGGCTTACAGAA-GACCCGAAGG
*
1919923 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGAAGACCCGAAGG
1919968 TTTTGAAAA
1 TTTTGAAAA
1919977 TACCAAAAAG
Statistics
Matches: 127, Mismatches: 13, Indels: 12
0.84 0.09 0.08
Matches are distributed among these distances:
44 2 0.02
45 83 0.65
46 4 0.03
47 36 0.28
48 2 0.02
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (45 bp):
TTTTGAAAACATCATGCACTGAAGGGCTTACAGAAGACCCGAAGG
Found at i:1919935 original size:92 final size:92
Alignment explanation
Indices: 1919778--1919976 Score: 341
Period size: 92 Copynumber: 2.2 Consensus size: 92
1919768 AAAAAGCTCT
* * *
1919778 CGAAGGCTTTTTAAAAACATCCTGCACTGCAGGTCTTATGGAAGACCCGAAGGTTTTGAAAACAT
1 CGAAGGCTTTTTGAAAACATCATGCACTGCAAGTCTTATGGAAGACCCGAAGGTTTTGAAAACAT
1919843 CATGCACTGAAGGGCTTACAGATGACC
66 CATGCACTGAAGGGCTTACAGATGACC
1919870 CGAAGGCTTTTTGAAAACATCATGCACTGCAAGTCTTAT-GAATGACCCGAAGGTTTTGAAAACA
1 CGAAGGCTTTTTGAAAACATCATGCACTGCAAGTCTTATGGAA-GACCCGAAGGTTTTGAAAACA
1919934 TCATGCACTGAAGGGCTTACAGATGACC
65 TCATGCACTGAAGGGCTTACAGATGACC
1919962 CGAAGG--TTTTGAAAA
1 CGAAGGCTTTTTGAAAA
1919977 TACCAAAAAG
Statistics
Matches: 103, Mismatches: 3, Indels: 4
0.94 0.03 0.04
Matches are distributed among these distances:
90 9 0.09
91 3 0.03
92 91 0.88
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.25
Consensus pattern (92 bp):
CGAAGGCTTTTTGAAAACATCATGCACTGCAAGTCTTATGGAAGACCCGAAGGTTTTGAAAACAT
CATGCACTGAAGGGCTTACAGATGACC
Found at i:1920010 original size:76 final size:76
Alignment explanation
Indices: 1919915--1920110 Score: 306
Period size: 76 Copynumber: 2.6 Consensus size: 76
1919905 TTATGAATGA
* * *
1919915 CCCGAAGG--TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAAT
1 CCCGAAGGCTTTTTGAAAACATCCTGCACTGAAGGTCTTACAGATGACCCGAAGGCTTTGAAAAT
1919978 ACCAAAAAGCT
66 ACCAAAAAGCT
* *
1919989 CCTGAAGGCTTTTTGAAAACATCCTGCACTGTAGGTCTTACAGATGACCCGAAGGCTTTGAAAAT
1 CCCGAAGGCTTTTTGAAAACATCCTGCACTGAAGGTCTTACAGATGACCCGAAGGCTTTGAAAAT
*
1920054 ATCAAAAAGCT
66 ACCAAAAAGCT
* *
1920065 CCCGAAGGCTTTTTGAAAACATCCTACACTGCAGGTCTTACAGATG
1 CCCGAAGGCTTTTTGAAAACATCCTGCACTGAAGGTCTTACAGATG
1920111 TGGGAAATAG
Statistics
Matches: 111, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
74 7 0.06
76 104 0.94
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.24
Consensus pattern (76 bp):
CCCGAAGGCTTTTTGAAAACATCCTGCACTGAAGGTCTTACAGATGACCCGAAGGCTTTGAAAAT
ACCAAAAAGCT
Found at i:1920027 original size:213 final size:213
Alignment explanation
Indices: 1919655--1920057 Score: 691
Period size: 213 Copynumber: 1.9 Consensus size: 213
1919645 TCAAAAAGCT
* *
1919655 CCCGAAGGCTTTTTGAAAACATCCTGCACTGCAAGTCTTATGGATGACCCGAAGGTTTTGAAAAC
1 CCCGAAGGCTTTTTGAAAACATCATGCACTGCAAGTCTTATGAATGACCCGAAGGTTTTGAAAAC
*
1919720 ATCATGCACTGAAGGGCTTACAGATGACCCAAAGGTTTTGAAAATATCAAAAAGCTCTCGAAGGC
66 ATCATGCACTGAAGGGCTTACAGATGACCCAAAGGTTTTGAAAATACCAAAAAGCTCTCGAAGGC
** *
1919785 TTTTTAAAAACATCCTGCACTGCAGGTCTTATGGAAGACCCGAAGGTTTTGAAAACATCATGCAC
131 TTTTTAAAAACATCCTGCACTGCAGGTCTTACAGAAGACCCGAAGGCTTTGAAAACATCATGCAC
1919850 TGAAGGGCTTACAGATGA
196 TGAAGGGCTTACAGATGA
1919868 CCCGAAGGCTTTTTGAAAACATCATGCACTGCAAGTCTTATGAATGACCCGAAGGTTTTGAAAAC
1 CCCGAAGGCTTTTTGAAAACATCATGCACTGCAAGTCTTATGAATGACCCGAAGGTTTTGAAAAC
*
1919933 ATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAATACCAAAAAGCTC-CTGAAGG
66 ATCATGCACTGAAGGGCTTACAGATGACCCAAAGGTTTTGAAAATACCAAAAAGCTCTC-GAAGG
* * * *
1919997 CTTTTTGAAAACATCCTGCACTGTAGGTCTTACAGATGACCCGAAGGCTTTGAAAATATCA
130 CTTTTTAAAAACATCCTGCACTGCAGGTCTTACAGAAGACCCGAAGGCTTTGAAAACATCA
1920058 AAAAGCTCCC
Statistics
Matches: 178, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
212 1 0.01
213 177 0.99
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (213 bp):
CCCGAAGGCTTTTTGAAAACATCATGCACTGCAAGTCTTATGAATGACCCGAAGGTTTTGAAAAC
ATCATGCACTGAAGGGCTTACAGATGACCCAAAGGTTTTGAAAATACCAAAAAGCTCTCGAAGGC
TTTTTAAAAACATCCTGCACTGCAGGTCTTACAGAAGACCCGAAGGCTTTGAAAACATCATGCAC
TGAAGGGCTTACAGATGA
Found at i:1920796 original size:22 final size:21
Alignment explanation
Indices: 1920759--1920825 Score: 66
Period size: 19 Copynumber: 3.2 Consensus size: 21
1920749 GTAGAAATAT
* *
1920759 AATAAAGCTTTCATCTTTGAA
1 AATAAATCTATCATCTTTGAA
*
1920780 AATAGAATCTATTATCTTTG-A
1 AATA-AATCTATCATCTTTGAA
*
1920801 GA-AAATCTATCATCTTTGAA
1 AATAAATCTATCATCTTTGAA
1920821 GAATA
1 -AATA
1920826 TAGATTTAGA
Statistics
Matches: 36, Mismatches: 6, Indels: 7
0.73 0.12 0.14
Matches are distributed among these distances:
19 14 0.39
20 2 0.06
21 7 0.19
22 13 0.36
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.37
Consensus pattern (21 bp):
AATAAATCTATCATCTTTGAA
Found at i:1924989 original size:8 final size:7
Alignment explanation
Indices: 1924976--1925040 Score: 64
Period size: 7 Copynumber: 9.3 Consensus size: 7
1924966 TTGATTCACA
*
1924976 TTTTTCC
1 TTTTTTC
1924983 TTTTTTCC
1 TTTTTT-C
1924991 TTCTTTT-
1 TT-TTTTC
1924998 TTTTTTC
1 TTTTTTC
1925005 TTTTTTCC
1 TTTTTT-C
1925013 TTTTTTC
1 TTTTTTC
1925020 TTTTTT-
1 TTTTTTC
*
1925026 TTTTCT-
1 TTTTTTC
1925032 TTTTTTC
1 TTTTTTC
1925039 TT
1 TT
1925041 CAAGTATAAT
Statistics
Matches: 50, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
6 14 0.28
7 22 0.44
8 10 0.20
9 4 0.08
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (7 bp):
TTTTTTC
Found at i:1925003 original size:15 final size:14
Alignment explanation
Indices: 1924983--1925037 Score: 62
Period size: 13 Copynumber: 4.1 Consensus size: 14
1924973 ACATTTTTCC
*
1924983 TTTTTTCCTTCTTT
1 TTTTTTTCTTCTTT
1924997 TTTTTTTCTT-TTT
1 TTTTTTTCTTCTTT
**
1925010 TCCTTTT-TTCTTT
1 TTTTTTTCTTCTTT
1925023 TTTTTTTCTT-TTT
1 TTTTTTTCTTCTTT
1925036 TT
1 TT
1925038 CTTCAAGTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
12 2 0.06
13 21 0.62
14 11 0.32
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (14 bp):
TTTTTTTCTTCTTT
Found at i:1927751 original size:6 final size:7
Alignment explanation
Indices: 1927734--1927774 Score: 50
Period size: 6 Copynumber: 6.0 Consensus size: 7
1927724 ATAAAAGTAT
1927734 AAATGCA
1 AAATGCA
1927741 AAATG-A
1 AAATGCA
1927747 AAATGCA
1 AAATGCA
*
1927754 AAGATACA
1 AA-ATGCA
1927762 AAATGC-
1 AAATGCA
1927768 AAATGCA
1 AAATGCA
1927775 TGTATGAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
6 12 0.41
7 11 0.38
8 6 0.21
ACGTcount: A:0.59, C:0.12, G:0.15, T:0.15
Consensus pattern (7 bp):
AAATGCA
Found at i:1927929 original size:43 final size:43
Alignment explanation
Indices: 1927852--1927934 Score: 112
Period size: 43 Copynumber: 1.9 Consensus size: 43
1927842 TGCATCAAAC
* * *
1927852 AAAACTTTACATATAGGGGACAGCTTTCAGTCCTATCTTCAAT
1 AAAACTTTACATATAGGGGACAACTTTCACTCCTAACTTCAAT
* * *
1927895 AAAACTTTACATATAGGGGATAATTTTCCCTCCTAACTTC
1 AAAACTTTACATATAGGGGACAACTTTCACTCCTAACTTC
1927935 TCTAGAGCCA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.33, C:0.22, G:0.12, T:0.34
Consensus pattern (43 bp):
AAAACTTTACATATAGGGGACAACTTTCACTCCTAACTTCAAT
Found at i:1929349 original size:46 final size:49
Alignment explanation
Indices: 1929282--1929372 Score: 118
Period size: 46 Copynumber: 1.9 Consensus size: 49
1929272 TATAATATAT
* * *
1929282 CCTAACCTCATGCTTTCTAGTT-TCATGC-TTTGTTT-GGAAAAATTAA
1 CCTAACCTCATGATTTCTAGTTCACATGCATTTATTTAGGAAAAATTAA
1929328 CCTAA-CTGCATGATTTCTAGTTCACATGCATTTATTTAGGAAAAA
1 CCTAACCT-CATGATTTCTAGTTCACATGCATTTATTTAGGAAAAA
1929373 ATGAAATAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
45 2 0.05
46 18 0.47
47 5 0.13
48 6 0.16
49 7 0.18
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (49 bp):
CCTAACCTCATGATTTCTAGTTCACATGCATTTATTTAGGAAAAATTAA
Found at i:1930636 original size:2 final size:2
Alignment explanation
Indices: 1930629--1930718 Score: 150
Period size: 2 Copynumber: 46.5 Consensus size: 2
1930619 AAAAGTATTC
1930629 TA TA TA TA TA TA T- TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
1930669 TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1930710 TA TA TA TA T
1 TA TA TA TA T
1930719 TTAGGGTTTT
Statistics
Matches: 83, Mismatches: 2, Indels: 6
0.91 0.02 0.07
Matches are distributed among these distances:
1 3 0.04
2 80 0.96
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1932514 original size:3 final size:3
Alignment explanation
Indices: 1932506--1932571 Score: 105
Period size: 3 Copynumber: 21.7 Consensus size: 3
1932496 ATTATATTTT
**
1932506 TAA TAA TAA TAA TAA TAA TAA TATA TAA TAA TAA TAA TAA TTT TAA
1 TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA
1932552 TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TA
1932572 TGAAAAAATT
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
3 55 0.95
4 3 0.05
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:1934613 original size:18 final size:17
Alignment explanation
Indices: 1934592--1934631 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
1934582 TGTAGCATTT
1934592 CAATGCTATGGAGCATCC
1 CAATGCTATGGAGCAT-C
* *
1934610 CAATGTTGTGGAGCATC
1 CAATGCTATGGAGCATC
1934627 CAATG
1 CAATG
1934632 ACTCAGCTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.25
Consensus pattern (17 bp):
CAATGCTATGGAGCATC
Found at i:1936609 original size:77 final size:78
Alignment explanation
Indices: 1936478--1936623 Score: 197
Period size: 77 Copynumber: 1.9 Consensus size: 78
1936468 GCAAACATTG
* *
1936478 AAAGAATGTAATTCTGATTACAACTCTTTTAATAGATATTTAATTCAGAATAATTAAATAAGAGT
1 AAAGAATGTAATTCGGATCACAACTCTTTTAATAGATATTTAATTCAGAATAATTAAATAAGAGT
1936543 TTAAATAAACGTT
66 TTAAATAAACGTT
* * * * * *
1936556 AAAGACTGTAATTCGGATCATAAGTC-TTTAATGGATATTTAATT-TGAATTAATTAAATAAGAT
1 AAAGAATGTAATTCGGATCACAACTCTTTTAATAGATATTTAATTCAGAA-TAATTAAATAAGAG
1936619 TTTAA
65 TTTAA
1936624 TTAATTCAAA
Statistics
Matches: 59, Mismatches: 8, Indels: 3
0.84 0.11 0.04
Matches are distributed among these distances:
76 3 0.05
77 35 0.59
78 21 0.36
ACGTcount: A:0.43, C:0.07, G:0.12, T:0.38
Consensus pattern (78 bp):
AAAGAATGTAATTCGGATCACAACTCTTTTAATAGATATTTAATTCAGAATAATTAAATAAGAGT
TTAAATAAACGTT
Found at i:1938724 original size:72 final size:73
Alignment explanation
Indices: 1938582--1938724 Score: 207
Period size: 73 Copynumber: 2.0 Consensus size: 73
1938572 TTTTTAAGTT
* * * * **
1938582 TAATAATTAAAAAATATTTTTAAACATATTTTTTTATTTAAAACACTCAACAATATGATAATTTA
1 TAATAATTAAAAAATATTTTTAAACATAATTTTTTATTTAAAAAACTCAAAAAAATGATAATCCA
*
1938647 GTGGGCTC
66 ATGGGCTC
*
1938655 TAATAATTAAAAAATATTTTTAAACATAATTTTTTA-TTAAAAAACTCAAAAAAATGATGATCCA
1 TAATAATTAAAAAATATTTTTAAACATAATTTTTTATTTAAAAAACTCAAAAAAATGATAATCCA
1938719 ATGGGC
66 ATGGGC
1938725 CCTATTTTAA
Statistics
Matches: 62, Mismatches: 8, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
72 27 0.44
73 35 0.56
ACGTcount: A:0.46, C:0.09, G:0.07, T:0.38
Consensus pattern (73 bp):
TAATAATTAAAAAATATTTTTAAACATAATTTTTTATTTAAAAAACTCAAAAAAATGATAATCCA
ATGGGCTC
Found at i:1938858 original size:22 final size:21
Alignment explanation
Indices: 1938833--1938882 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
1938823 TGTTTCGAAG
* * *
1938833 ATCCAATGGCAACAACAAAGTT
1 ATCCAAT-ACAACAAAAAAATT
1938855 ATCCAAATACAACAAAAAAATT
1 ATCC-AATACAACAAAAAAATT
1938877 ATCCAA
1 ATCCAA
1938883 ATAAAATTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 2 0.08
22 19 0.79
23 3 0.12
ACGTcount: A:0.54, C:0.22, G:0.06, T:0.18
Consensus pattern (21 bp):
ATCCAATACAACAAAAAAATT
Found at i:1938883 original size:22 final size:22
Alignment explanation
Indices: 1938842--1938885 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
1938832 GATCCAATGG
* *
1938842 CAACAACAAAGTTATCCAAATA
1 CAACAAAAAAATTATCCAAATA
1938864 CAACAAAAAAATTATCCAAATA
1 CAACAAAAAAATTATCCAAATA
1938886 AAATTGAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.59, C:0.20, G:0.02, T:0.18
Consensus pattern (22 bp):
CAACAAAAAAATTATCCAAATA
Found at i:1941258 original size:102 final size:100
Alignment explanation
Indices: 1941067--1941695 Score: 559
Period size: 102 Copynumber: 6.2 Consensus size: 100
1941057 AATCAAGACG
* * * *
1941067 CAACCTATTACGTTACCATCAAAACCAGA-TTTGTTATCGGTT-TTAATAATATAAACAGTTAAA
1 CAACCTATTACGTTACCATC-AAATCAGATTTTGTTATAGATTATT-ATAATATAAACGGTTAAA
*
1941130 GACTTATAACTTAACCGATTCAAAAAAAAAATCAAGGTA
64 G-CTTATAACTTAACCG-TTCAAAAATAAAATCAAGGTA
* * *
1941169 TAACCTATTATGTTACCATCACAATCAGATTTTTTTATAGATTATTATAATATAAACGGTTAAAG
1 CAACCTATTACGTTACCATCA-AATCAGATTTTGTTATAGATTATTATAATATAAACGGTTAAAG
* *
1941234 CTTAATAACTTAACCAGTTCAAAAATAAAATCAATGTG
65 CTT-ATAACTTAACC-GTTCAAAAATAAAATCAAGGTA
* * *
1941272 CAACCTATTACGTTACCATCTAAACCGGA-TTTGTTATAGATTATTATAATATAAACGATTAAAG
1 CAACCTATTACGTTACCATC-AAATCAGATTTTGTTATAGATTATTATAATATAAACGGTTAAAG
* ** * *
1941336 -TAATATTACTTATAAGGTTCAAAAATAAAATCAAGATG
65 CT--TATAACTTA-ACCGTTCAAAAATAAAATCAAGGTA
* * * *
1941374 CAACCTATTATGTTACCATCGAAA-CTGGATTTATTTTA-AG-TTATTATAATATAAACTGTTAA
1 CAACCTATTACGTTACCATC-AAATC-AGATTT-TGTTATAGATTATTATAATATAAACGGTT-A
* ** * *
1941436 AATCTTATAACTTAATTGGTTCAAAAA-CAAATCAAGGTG
62 AAGCTTATAACTTAA-CCGTTCAAAAATAAAATCAAGGTA
* * * * * **
1941475 CGACATATTACGTTACCATCTAAAT-TGAATTTGTTATAGGTTATTATAATATAAATAGTTAAAG
1 CAACCTATTACGTTACCATC-AAATCAGATTTTGTTATAGATTATTATAATATAAACGGTTAAAG
* * *
1941539 CTTTATAACTTAATCGTTC-AAAA-AAAATAAAGGCA
65 C-TTATAACTTAACCGTTCAAAAATAAAATCAAGGTA
* *
1941574 CAACCTATTACGTTACCATCAAAATCA-ACTTTGTTATA-AGTTATTATAATATAAACGG-AAAA
1 CAACCTATTACGTTACCATC-AAATCAGATTTTGTTATAGA-TTATTATAATATAAACGGTTAAA
* *
1941636 GCCTTATAACTTAACCGGTT-AAAAACTAAAATCAAAGCA
64 G-CTTATAACTTAACC-GTTCAAAAA-TAAAATCAAGGTA
* *
1941675 CAGCCTATTACGTTAACATCA
1 CAACCTATTACGTTACCATCA
1941696 CAACAAGATT
Statistics
Matches: 441, Mismatches: 60, Indels: 54
0.79 0.11 0.10
Matches are distributed among these distances:
98 16 0.04
99 72 0.16
100 16 0.04
101 91 0.21
102 148 0.34
103 89 0.20
104 9 0.02
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (100 bp):
CAACCTATTACGTTACCATCAAATCAGATTTTGTTATAGATTATTATAATATAAACGGTTAAAGC
TTATAACTTAACCGTTCAAAAATAAAATCAAGGTA
Found at i:1945843 original size:20 final size:20
Alignment explanation
Indices: 1945807--1945844 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1945797 ATCCTATTCC
**
1945807 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
1945827 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
1945845 GTGAACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:1946521 original size:2 final size:2
Alignment explanation
Indices: 1946509--1946546 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
1946499 TTGTATGAAT
1946509 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1946547 TAGAAATAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:1947166 original size:14 final size:14
Alignment explanation
Indices: 1947147--1947178 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
1947137 CGTTCGTGAA
1947147 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
1947161 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
1947175 CGTT
1 CGTT
1947179 TATGTTCATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.06, C:0.16, G:0.28, T:0.50
Consensus pattern (14 bp):
CGTTCGGTTATGTT
Found at i:1947195 original size:24 final size:24
Alignment explanation
Indices: 1947148--1947198 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
1947138 GTTCGTGAAC
* *
1947148 GTTCGGTTATGTTCGTTCGGTTAT
1 GTTCGGTTATGTTCATTCAGTTAT
* *
1947172 GTTCGTTTATGTTCATTCATTTAT
1 GTTCGGTTATGTTCATTCAGTTAT
1947196 GTT
1 GTT
1947199 TAACCCAAAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.12, C:0.12, G:0.22, T:0.55
Consensus pattern (24 bp):
GTTCGGTTATGTTCATTCAGTTAT
Found at i:1948299 original size:16 final size:16
Alignment explanation
Indices: 1948277--1948333 Score: 96
Period size: 16 Copynumber: 3.6 Consensus size: 16
1948267 GGCCTCCAAT
1948277 GTTTATGTTTGTGTTC
1 GTTTATGTTTGTGTTC
* *
1948293 ATTTATGTTCGTGTTC
1 GTTTATGTTTGTGTTC
1948309 GTTTATGTTTGTGTTC
1 GTTTATGTTTGTGTTC
1948325 GTTTATGTT
1 GTTTATGTT
1948334 CGTTTATTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 37 1.00
ACGTcount: A:0.09, C:0.07, G:0.23, T:0.61
Consensus pattern (16 bp):
GTTTATGTTTGTGTTC
Found at i:1948745 original size:19 final size:19
Alignment explanation
Indices: 1948721--1948761 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
1948711 GGTTGTGTTG
1948721 GCTCAGCCTTCACCCCTCT
1 GCTCAGCCTTCACCCCTCT
1948740 GCTCAGCCTTCACCCCTCT
1 GCTCAGCCTTCACCCCTCT
1948759 GCT
1 GCT
1948762 TACCATCCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.10, C:0.51, G:0.12, T:0.27
Consensus pattern (19 bp):
GCTCAGCCTTCACCCCTCT
Found at i:1952491 original size:25 final size:28
Alignment explanation
Indices: 1952440--1952491 Score: 65
Period size: 25 Copynumber: 2.0 Consensus size: 28
1952430 TCATGAATAG
**
1952440 TTTAAAATTTAATATATTATTTTTAATT
1 TTTAAAATTTAATATATTATTAATAATT
1952468 TTTAAAATTT-A-A-ATTATTAATAAT
1 TTTAAAATTTAATATATTATTAATAAT
1952492 ATTAATGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 10 0.45
26 1 0.05
27 1 0.05
28 10 0.45
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (28 bp):
TTTAAAATTTAATATATTATTAATAATT
Found at i:1958094 original size:7 final size:7
Alignment explanation
Indices: 1958082--1958107 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
1958072 TATGAGTAAT
1958082 ATATTAA
1 ATATTAA
1958089 ATATTAA
1 ATATTAA
1958096 ATATTAA
1 ATATTAA
1958103 ATATT
1 ATATT
1958108 TTTAGTTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (7 bp):
ATATTAA
Found at i:1967954 original size:24 final size:24
Alignment explanation
Indices: 1967910--1967955 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
1967900 ATTGACAGAG
** *
1967910 GCCTTCTTCGATGGGCGAGAAGAT
1 GCCTTCTTCGATGCACAAGAAGAT
1967934 GCCTTCTTCGATGCACAAGAAG
1 GCCTTCTTCGATGCACAAGAAG
1967956 CCGGCTTTCG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (24 bp):
GCCTTCTTCGATGCACAAGAAGAT
Found at i:1971360 original size:24 final size:24
Alignment explanation
Indices: 1971333--1971382 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
1971323 TTACATTACA
1971333 TTATATATTA-TATTAATATTATTT
1 TTATATATTATTATTAAT-TTATTT
* *
1971357 TTATTTATTATTATTTATTTATTT
1 TTATATATTATTATTAATTTATTT
1971381 TT
1 TT
1971383 TCAAGTCTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 17 0.74
25 6 0.26
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (24 bp):
TTATATATTATTATTAATTTATTT
Found at i:1972583 original size:24 final size:24
Alignment explanation
Indices: 1972551--1972596 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
1972541 TTAATTTAAA
* *
1972551 TTTTCTTTTATTTACCTTATTTAT
1 TTTTATTTTAATTACCTTATTTAT
*
1972575 TTTTATTTTAATTACTTTATTT
1 TTTTATTTTAATTACCTTATTT
1972597 TAACCCTAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.20, C:0.09, G:0.00, T:0.72
Consensus pattern (24 bp):
TTTTATTTTAATTACCTTATTTAT
Found at i:1974876 original size:24 final size:24
Alignment explanation
Indices: 1974844--1974919 Score: 143
Period size: 24 Copynumber: 3.2 Consensus size: 24
1974834 CAGAATAATC
1974844 AAAGCACCCTGGAATCGATCACTA
1 AAAGCACCCTGGAATCGATCACTA
1974868 AAAGCACCCTGGAATCGATCACTA
1 AAAGCACCCTGGAATCGATCACTA
*
1974892 AAAGAACCCTGGAATCGATCACTA
1 AAAGCACCCTGGAATCGATCACTA
1974916 AAAG
1 AAAG
1974920 TCAAGAGTCT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 51 1.00
ACGTcount: A:0.41, C:0.26, G:0.17, T:0.16
Consensus pattern (24 bp):
AAAGCACCCTGGAATCGATCACTA
Found at i:1983547 original size:14 final size:16
Alignment explanation
Indices: 1983516--1983553 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
1983506 AGCTAATCAT
1983516 AATATGAACATGCATAC
1 AATAT-AACATGCATAC
1983533 AA-ATAACAT-CATAC
1 AATATAACATGCATAC
1983547 AATATAA
1 AATATAA
1983554 AAACATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 7 0.35
15 9 0.45
16 2 0.10
17 2 0.10
ACGTcount: A:0.55, C:0.16, G:0.05, T:0.24
Consensus pattern (16 bp):
AATATAACATGCATAC
Found at i:1985927 original size:9 final size:9
Alignment explanation
Indices: 1985913--1985981 Score: 63
Period size: 9 Copynumber: 7.8 Consensus size: 9
1985903 TAATAGCTTT
1985913 TATTTTTAA
1 TATTTTTAA
*
1985922 TATTTTTTA
1 TATTTTTAA
*
1985931 TATATTTAA
1 TATTTTTAA
*
1985940 AATTTTT-A
1 TATTTTTAA
1985948 TATTTTTAA
1 TATTTTTAA
1985957 TAATTTTTTAA
1 T-A-TTTTTAA
*
1985968 -ATTATTAA
1 TATTTTTAA
1985976 T-TTTTT
1 TATTTTT
1985982 CACTTAAACA
Statistics
Matches: 48, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
8 17 0.35
9 23 0.48
10 1 0.02
11 7 0.15
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (9 bp):
TATTTTTAA
Found at i:1985944 original size:27 final size:28
Alignment explanation
Indices: 1985914--1985981 Score: 79
Period size: 27 Copynumber: 2.5 Consensus size: 28
1985904 AATAGCTTTT
*
1985914 ATTTTTAATATTTTTTAT-ATATTTAAA
1 ATTTTTAATATTTTTAATAATATTTAAA
* *
1985941 ATTTTT-ATATTTTTAATAATTTTTTAA
1 ATTTTTAATATTTTTAATAATATTTAAA
*
1985968 ATTATTAAT-TTTTT
1 ATTTTTAATATTTTT
1985982 CACTTAAACA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
26 10 0.29
27 23 0.66
28 2 0.06
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (28 bp):
ATTTTTAATATTTTTAATAATATTTAAA
Found at i:1985964 original size:19 final size:19
Alignment explanation
Indices: 1985913--1985976 Score: 80
Period size: 17 Copynumber: 3.5 Consensus size: 19
1985903 TAATAGCTTT
1985913 TATTTTTAAT-ATTTTTTA
1 TATTTTTAATAATTTTTTA
*
1985931 TATATTTAA-AA-TTTTTA
1 TATTTTTAATAATTTTTTA
1985948 TATTTTTAATAATTTTTTA
1 TATTTTTAATAATTTTTTA
* *
1985967 AATTATTAAT
1 TATTTTTAAT
1985977 TTTTTCACTT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
17 14 0.36
18 11 0.28
19 14 0.36
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
TATTTTTAATAATTTTTTA
Found at i:1991432 original size:12 final size:12
Alignment explanation
Indices: 1991415--1991439 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1991405 GTCAAATAAT
1991415 TTAGGCACCAAA
1 TTAGGCACCAAA
1991427 TTAGGCACCAAA
1 TTAGGCACCAAA
1991439 T
1 T
1991440 GGTACTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.24, G:0.16, T:0.20
Consensus pattern (12 bp):
TTAGGCACCAAA
Found at i:1999500 original size:30 final size:29
Alignment explanation
Indices: 1999439--1999508 Score: 79
Period size: 30 Copynumber: 2.4 Consensus size: 29
1999429 AAAAAATGAT
* *
1999439 TTATTTTTAAAATATAAAATATCACATAA
1 TTATTTTAAAAATATAAAATATCACAAAA
*
1999468 TTATTTTAAAAATTATAAAATATTGA-AAAA
1 TTATTTTAAAAA-TATAAAATA-TCACAAAA
*
1999498 TTATTATAAAA
1 TTATTTTAAAA
1999509 TGTTAAATAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
29 11 0.31
30 22 0.63
31 2 0.06
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.41
Consensus pattern (29 bp):
TTATTTTAAAAATATAAAATATCACAAAA
Found at i:1999523 original size:21 final size:21
Alignment explanation
Indices: 1999479--1999523 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1999469 TATTTTAAAA
*
1999479 ATTATAAAATATTGAAAAATT
1 ATTATAAAATATTGAAAAACT
*
1999500 ATTATAAAATGTT-AAATAACT
1 ATTATAAAATATTGAAA-AACT
1999521 ATT
1 ATT
1999524 TAATTTTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 3 0.14
21 18 0.86
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.40
Consensus pattern (21 bp):
ATTATAAAATATTGAAAAACT
Found at i:2002961 original size:8 final size:8
Alignment explanation
Indices: 2002950--2002983 Score: 59
Period size: 8 Copynumber: 4.2 Consensus size: 8
2002940 ATATTTTATA
2002950 TATTTAAT
1 TATTTAAT
2002958 TATTTAAT
1 TATTTAAT
*
2002966 TATTTAAC
1 TATTTAAT
2002974 TATTTAAT
1 TATTTAAT
2002982 TA
1 TA
2002984 CTTATCCGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (8 bp):
TATTTAAT
Found at i:2003405 original size:54 final size:53
Alignment explanation
Indices: 2003259--2003577 Score: 345
Period size: 54 Copynumber: 5.9 Consensus size: 53
2003249 TCTTCAAAAT
* ** * * ***
2003259 CGGGTTCGCTCCCTATCGTTTCAGGGAACATAGAACTTGAAGAATCTTCTGGGGA
1 CGGGTTCGCTCCCTAT-TTTTCAGGGAGTATAGAACTCGAA-TATCTTCTGCAAA
*
2003314 CGGGTTCGCTCCCTATTGTTTCAGGGAGTATAGAACTCGAATAATCTTCTGCTAA
1 CGGGTTCGCTCCCTATT-TTTCAGGGAGTATAGAACTCGAAT-ATCTTCTGCAAA
* * *
2003369 CGGGTCCGCT-CCTATTGTTTCAGGGAGTATAGAACTC-AAGAATCTTCTGCTAA
1 CGGGTTCGCTCCCTATT-TTTCAGGGAGTATAGAACTCGAA-TATCTTCTGCAAA
* * *
2003422 CTGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTCGAATATCTTCTTCAAA
1 CGGGTTCGCTCCCTATTT-TTCAGGGAGTATAGAACTCGAATATCTTCTGCAAA
* * *
2003476 CGGGTTCGCTCCCTCTTTCTTCAGGGAGAATAGAACTCGAATATCTTCTTCAAA
1 CGGGTTCGCTCCCTATTT-TTCAGGGAGTATAGAACTCGAATATCTTCTGCAAA
* * * *
2003530 CGGGTTTGCTCCCTCTTTCTCTAGGGAGAATAGAACTCGAATATCTTC
1 CGGGTTCGCTCCCTATTTTTC-AGGGAGTATAGAACTCGAATATCTTC
2003578 AACAATCGTC
Statistics
Matches: 237, Mismatches: 20, Indels: 15
0.87 0.07 0.06
Matches are distributed among these distances:
53 25 0.11
54 156 0.66
55 56 0.24
ACGTcount: A:0.23, C:0.24, G:0.21, T:0.32
Consensus pattern (53 bp):
CGGGTTCGCTCCCTATTTTTCAGGGAGTATAGAACTCGAATATCTTCTGCAAA
Found at i:2003445 original size:108 final size:108
Alignment explanation
Indices: 2003259--2003577 Score: 380
Period size: 108 Copynumber: 2.9 Consensus size: 108
2003249 TCTTCAAAAT
* * ***
2003259 CGGGTTCGCTCCCTATCGTTTCAGGGA-ACATAGAACTTGAAGAATCTTCTGGGGACGGGTTCGC
1 CGGGTTCGCTCCCTATTGTTTCAGGGAGA-ATAGAAC-TCAAGAATCTTCTGCAAACGGGTTCGC
* *
2003323 TCCCTATTGT-TTCAGGGAGTATAGAACTCGAATAATCTTCTGCTAA
64 TCCCTCTT-TCTTCAGGGAGTATAGAACTCGAAT-ATCTTCTGCAAA
* * * *
2003369 CGGGTCCGCT-CCTATTGTTTCAGGGAGTATAGAACTCAAGAATCTTCTGCTAACTGGTTCGCTC
1 CGGGTTCGCTCCCTATTGTTTCAGGGAGAATAGAACTCAAGAATCTTCTGCAAACGGGTTCGCTC
*
2003433 CCTCTTTCTTCAGGGAGTATAGAACTCGAATATCTTCTTCAAA
66 CCTCTTTCTTCAGGGAGTATAGAACTCGAATATCTTCTGCAAA
* * * *
2003476 CGGGTTCGCTCCCTCTT-TCTTCAGGGAGAATAGAACTCGAA-TATCTTCTTCAAACGGGTTTGC
1 CGGGTTCGCTCCCTATTGT-TTCAGGGAGAATAGAACTC-AAGAATCTTCTGCAAACGGGTTCGC
*
2003539 TCCCTCTTTC-TCTAGGGAGAATAGAACTCGAATATCTTC
64 TCCCTCTTTCTTC-AGGGAGTATAGAACTCGAATATCTTC
2003578 AACAATCGTC
Statistics
Matches: 183, Mismatches: 20, Indels: 14
0.84 0.09 0.06
Matches are distributed among these distances:
107 23 0.13
108 127 0.69
109 24 0.13
110 9 0.05
ACGTcount: A:0.23, C:0.24, G:0.21, T:0.32
Consensus pattern (108 bp):
CGGGTTCGCTCCCTATTGTTTCAGGGAGAATAGAACTCAAGAATCTTCTGCAAACGGGTTCGCTC
CCTCTTTCTTCAGGGAGTATAGAACTCGAATATCTTCTGCAAA
Found at i:2003760 original size:53 final size:55
Alignment explanation
Indices: 2003564--2003801 Score: 315
Period size: 55 Copynumber: 4.4 Consensus size: 55
2003554 GGAGAATAGA
* * *
2003564 ACTCGAA-TATCTTCAACAA-T-CGTCTGCTCCCTATTTCTTCAGAGAGTATGAG
1 ACTCGAACAATCTTCAACAATTGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
* *
2003616 ACTCGAACAATCTTCAACAATCGCGTCTGCCCCCTATTTCTCCAGAGAGTATAAG
1 ACTCGAACAATCTTCAACAATTGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
* * * *
2003671 ACTCGAACGATCTTCAACGATTGTGTCTGCCCCCTATATCTTCAGAGAGTATAAG
1 ACTCGAACAATCTTCAACAATTGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
* * * *
2003726 AC-C-CACAATCTTCATCAATTGCGTCTGCTCCCTATTTCTTCAGAGAGTATGAG
1 ACTCGAACAATCTTCAACAATTGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
*
2003779 ACTCGAACAATCTTCAATAATTG
1 ACTCGAACAATCTTCAACAATTG
2003802 TTGGGAAATC
Statistics
Matches: 159, Mismatches: 22, Indels: 7
0.85 0.12 0.04
Matches are distributed among these distances:
52 7 0.04
53 55 0.35
54 2 0.01
55 95 0.60
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (55 bp):
ACTCGAACAATCTTCAACAATTGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
Found at i:2003802 original size:108 final size:110
Alignment explanation
Indices: 2003564--2003802 Score: 317
Period size: 108 Copynumber: 2.2 Consensus size: 110
2003554 GGAGAATAGA
* * * * *
2003564 ACTCGAA-TATCTTCAACAA-T-CGTCTGCTCCCTATTTCTTCAGAGAGTATGAGACTCGAACAA
1 ACTCGAACAATCTTCAACAATTGTGTCTGCCCCCTATATCTTCAGAGAGTATAAGACTCGAACAA
2003626 TCTTCAACAATCGCGTCTGCCCCCTATTTCTCCAGAGAGTATAAG
66 TCTTCAACAATCGCGTCTGCCCCCTATTTCTCCAGAGAGTATAAG
* * *
2003671 ACTCGAACGATCTTCAACGATTGTGTCTGCCCCCTATATCTTCAGAGAGTATAAGAC-C-CACAA
1 ACTCGAACAATCTTCAACAATTGTGTCTGCCCCCTATATCTTCAGAGAGTATAAGACTCGAACAA
* * * * *
2003734 TCTTCATCAATTGCGTCTGCTCCCTATTTCTTCAGAGAGTATGAG
66 TCTTCAACAATCGCGTCTGCCCCCTATTTCTCCAGAGAGTATAAG
*
2003779 ACTCGAACAATCTTCAATAATTGT
1 ACTCGAACAATCTTCAACAATTGT
2003803 TGGGAAATCT
Statistics
Matches: 114, Mismatches: 15, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
107 7 0.06
108 75 0.66
109 2 0.02
110 30 0.26
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (110 bp):
ACTCGAACAATCTTCAACAATTGTGTCTGCCCCCTATATCTTCAGAGAGTATAAGACTCGAACAA
TCTTCAACAATCGCGTCTGCCCCCTATTTCTCCAGAGAGTATAAG
Found at i:2004739 original size:8 final size:8
Alignment explanation
Indices: 2004721--2004771 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
2004711 GAACCCTTCT
2004721 TTTTTTCCA
1 TTTTTT-CA
2004730 TTTTTTCA
1 TTTTTTCA
2004738 TTTTTT-A
1 TTTTTTCA
*
2004745 TTTTTTTA
1 TTTTTTCA
*
2004753 TTTTTTTA
1 TTTTTTCA
2004761 -TTTTTCA
1 TTTTTTCA
2004768 TTTT
1 TTTT
2004772 CACTCATTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
7 13 0.33
8 20 0.51
9 6 0.15
ACGTcount: A:0.12, C:0.08, G:0.00, T:0.80
Consensus pattern (8 bp):
TTTTTTCA
Found at i:2004747 original size:15 final size:15
Alignment explanation
Indices: 2004729--2004771 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
2004719 CTTTTTTTCC
2004729 ATTTTTTCATTTTTT
1 ATTTTTTCATTTTTT
*
2004744 ATTTTTTTATTTTTT
1 ATTTTTTCATTTTTT
2004759 -TATTTTTCATTTT
1 AT-TTTTTCATTTT
2004772 CACTCATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 1 0.04
15 24 0.96
ACGTcount: A:0.14, C:0.05, G:0.00, T:0.81
Consensus pattern (15 bp):
ATTTTTTCATTTTTT
Found at i:2004749 original size:23 final size:23
Alignment explanation
Indices: 2004722--2004771 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
2004712 AACCCTTCTT
*
2004722 TTTTTCCATTTTTTCATTTTTTA
1 TTTTTCCATTTTTTCATTTTTCA
** *
2004745 TTTTTTTATTTTTTTATTTTTCA
1 TTTTTCCATTTTTTCATTTTTCA
2004768 TTTT
1 TTTT
2004772 CACTCATTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.12, C:0.08, G:0.00, T:0.80
Consensus pattern (23 bp):
TTTTTCCATTTTTTCATTTTTCA
Found at i:2008293 original size:8 final size:8
Alignment explanation
Indices: 2008280--2008307 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
2008270 GAAAAAGAAG
2008280 ATATATAC
1 ATATATAC
2008288 ATATATAC
1 ATATATAC
2008296 ATATATAC
1 ATATATAC
2008304 ATAT
1 ATAT
2008308 GGGAGAATCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (8 bp):
ATATATAC
Found at i:2017851 original size:8 final size:8
Alignment explanation
Indices: 2017840--2017873 Score: 59
Period size: 8 Copynumber: 4.2 Consensus size: 8
2017830 ATATTTTATA
2017840 TATTTAAT
1 TATTTAAT
2017848 TATTTAAT
1 TATTTAAT
*
2017856 TATTTAAC
1 TATTTAAT
2017864 TATTTAAT
1 TATTTAAT
2017872 TA
1 TA
2017874 CTTATCCGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (8 bp):
TATTTAAT
Found at i:2019880 original size:30 final size:29
Alignment explanation
Indices: 2019823--2019957 Score: 171
Period size: 29 Copynumber: 4.6 Consensus size: 29
2019813 TTTTTCTTTG
* * *
2019823 ATTGCAATTTATAAATAGTTTTGGTATTT
1 ATTGTAATTTATAAAAAGTTATGGTATTT
* *
2019852 ATTGTAATTTACAAAAAAATTATGGTATTT
1 ATTGTAATTTA-TAAAAAGTTATGGTATTT
*
2019882 ATTGTAATTTATAAAAAGTTATGGCATTT
1 ATTGTAATTTATAAAAAGTTATGGTATTT
* * *
2019911 ATTGTAATTTATAGAAAGTTTTGATATTT
1 ATTGTAATTTATAAAAAGTTATGGTATTT
2019940 ATTGTAATTTATTAAAAA
1 ATTGTAATTTA-TAAAAA
2019958 TTTGGGCCTT
Statistics
Matches: 91, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
29 61 0.67
30 30 0.33
ACGTcount: A:0.39, C:0.02, G:0.12, T:0.47
Consensus pattern (29 bp):
ATTGTAATTTATAAAAAGTTATGGTATTT
Found at i:2019911 original size:59 final size:58
Alignment explanation
Indices: 2019823--2020037 Score: 172
Period size: 58 Copynumber: 3.7 Consensus size: 58
2019813 TTTTTCTTTG
* * * * *
2019823 ATTGCAATTTATAAATAGTTTTGGTATTTATTGTAATTTACAAAAAAATTATGGTATTT
1 ATTGTAATTTATAAAAAGTTATGGCATTTATTGTAATTTA-AAAAAAATTATGATATTT
* * * *
2019882 ATTGTAATTTATAAAAAGTTATGGCATTTATTGTAATTTATAGAAAGTTTTGATATTT
1 ATTGTAATTTATAAAAAGTTATGGCATTTATTGTAATTTAAAAAAAATTATGATATTT
* * *
2019940 ATTGTAATTTATTAAAAA-TT-TGGGCCTTTATTATAATATT-TAAAAAATTA-GAGT-TTT
1 ATTGTAATTTA-TAAAAAGTTAT-GGCATTTATTGTAAT-TTAAAAAAAATTATGA-TATTT
** ** * *
2019997 ATAATAATTTATATAAATTTTAT-ACTTTTATTGTAATTTAA
1 ATTGTAATTTATA-AAAAGTTATGGCATTTATTGTAATTTAA
2020038 TAATTTTATT
Statistics
Matches: 127, Mismatches: 21, Indels: 18
0.77 0.13 0.11
Matches are distributed among these distances:
56 4 0.03
57 29 0.23
58 49 0.39
59 45 0.35
ACGTcount: A:0.38, C:0.03, G:0.10, T:0.49
Consensus pattern (58 bp):
ATTGTAATTTATAAAAAGTTATGGCATTTATTGTAATTTAAAAAAAATTATGATATTT
Found at i:2019969 original size:29 final size:27
Alignment explanation
Indices: 2019823--2019985 Score: 121
Period size: 29 Copynumber: 5.6 Consensus size: 27
2019813 TTTTTCTTTG
* * *
2019823 ATTGCAATTTATAAATAGTTTTGGTATTT
1 ATTGTAATTTATAAA-A-ATTTGGCATTT
* *
2019852 ATTGTAATTTACAAAAAAATTATGGTATTT
1 ATTGTAATTT--ATAAAAATT-TGGCATTT
2019882 ATTGTAATTTATAAAAAGTTATGGCATTT
1 ATTGTAATTTATAAAAA-TT-TGGCATTT
* **
2019911 ATTGTAATTTATAGAAAGTTTTGATATTT
1 ATTGTAATTTATA-AAA-ATTTGGCATTT
*
2019940 ATTGTAATTTATTAAAAATTTGGGCCTTT
1 ATTGTAATTTA-TAAAAATTT-GGCATTT
*
2019969 ATTATAATATT-TAAAAA
1 ATTGTAAT-TTATAAAAA
2019986 ATTAGAGTTT
Statistics
Matches: 112, Mismatches: 13, Indels: 19
0.78 0.09 0.13
Matches are distributed among these distances:
28 15 0.13
29 65 0.58
30 28 0.25
31 4 0.04
ACGTcount: A:0.38, C:0.03, G:0.12, T:0.47
Consensus pattern (27 bp):
ATTGTAATTTATAAAAATTTGGCATTT
Found at i:2019986 original size:88 final size:85
Alignment explanation
Indices: 2019823--2020036 Score: 197
Period size: 88 Copynumber: 2.5 Consensus size: 85
2019813 TTTTTCTTTG
* * * *
2019823 ATTGCAATTTATAAATAGTTTTGGTATTTATTGTAATTTACAAAAAAATTATGGTATTTATTGTA
1 ATTGTAATTTATAAA-AGTTTTGATATTTATTGTAATTTACAAAAAAATTATGGCATTTATTATA
2019888 ATTTATAAAAAGTTATG-GCATTT
65 ATTTATAAAAA-TTA-GAG-ATTT
** *
2019911 ATTGTAATTTATAGAAAGTTTTGATATTTATTGTAATTTA-TTAAAAATT-TGGGCCTTTATTAT
1 ATTGTAATTTATA-AAAGTTTTGATATTTATTGTAATTTACAAAAAAATTAT-GGCATTTATTAT
*
2019974 AATATT-TAAAAAATTAGAGTTTT
64 AAT-TTAT-AAAAATTAGAGATTT
**
2019997 ATAATAATTTATATAAA-TTTT-ATACTTTTATTGTAATTTA
1 ATTGTAATTTATA-AAAGTTTTGATA--TTTATTGTAATTTA
2020037 ATAATTTTAT
Statistics
Matches: 108, Mismatches: 11, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
84 3 0.03
85 4 0.04
86 33 0.31
87 24 0.22
88 42 0.39
89 2 0.02
ACGTcount: A:0.38, C:0.03, G:0.10, T:0.49
Consensus pattern (85 bp):
ATTGTAATTTATAAAAGTTTTGATATTTATTGTAATTTACAAAAAAATTATGGCATTTATTATAA
TTTATAAAAATTAGAGATTT
Found at i:2020026 original size:29 final size:27
Alignment explanation
Indices: 2019993--2020046 Score: 72
Period size: 29 Copynumber: 1.9 Consensus size: 27
2019983 AAAATTAGAG
2019993 TTTTATAATAATTTATATAAATTTTATAC
1 TTTTATAATAATTTA-AT-AATTTTATAC
**
2020022 TTTTATTGTAATTTAATAATTTTAT
1 TTTTATAATAATTTAATAATTTTAT
2020047 TTTAATAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 8 0.35
28 2 0.09
29 13 0.57
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (27 bp):
TTTTATAATAATTTAATAATTTTATAC
Found at i:2020034 original size:19 final size:19
Alignment explanation
Indices: 2020012--2020052 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
2020002 AATTTATATA
* *
2020012 AATTTTATACTTTTATTGT
1 AATTTAATAATTTTATTGT
*
2020031 AATTTAATAATTTTATTTT
1 AATTTAATAATTTTATTGT
2020050 AAT
1 AAT
2020053 AATTTTTTAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (19 bp):
AATTTAATAATTTTATTGT
Found at i:2026684 original size:20 final size:20
Alignment explanation
Indices: 2026648--2026685 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2026638 ATTCTATTTC
**
2026648 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
2026668 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
2026686 ATGAACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:2055573 original size:18 final size:18
Alignment explanation
Indices: 2055550--2055584 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
2055540 TAAAGAAAAT
2055550 GAGAAGAATGA-GAATGAA
1 GAGAAGAA-GATGAATGAA
2055568 GAGAAGAAGATGAATGA
1 GAGAAGAAGATGAATGA
2055585 GGATATAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 2 0.12
18 14 0.88
ACGTcount: A:0.54, C:0.00, G:0.34, T:0.11
Consensus pattern (18 bp):
GAGAAGAAGATGAATGAA
Found at i:2056318 original size:21 final size:21
Alignment explanation
Indices: 2056291--2056344 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
2056281 CAAGCCTTCT
2056291 GTATGGATACTAGTTCATCCGA
1 GTATGGATACTAGTTCAT-CGA
2056313 -TATGGATACCT-GTTCATCGA
1 GTATGGATA-CTAGTTCATCGA
*
2056333 GTATTGATACTA
1 GTATGGATACTA
2056345 AACCTCCAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
20 5 0.18
21 21 0.75
22 2 0.07
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (21 bp):
GTATGGATACTAGTTCATCGA
Found at i:2056435 original size:15 final size:15
Alignment explanation
Indices: 2056415--2056443 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
2056405 AAACCTCTAT
2056415 TATCAATACCACTAC
1 TATCAATACCACTAC
2056430 TATCAATACCACTA
1 TATCAATACCACTA
2056444 TCCTCAGTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.31, G:0.00, T:0.28
Consensus pattern (15 bp):
TATCAATACCACTAC
Found at i:2059953 original size:33 final size:33
Alignment explanation
Indices: 2059827--2059963 Score: 130
Period size: 33 Copynumber: 4.2 Consensus size: 33
2059817 GACCCTTTGA
* **
2059827 TGAAGAGACACAACTTTTGGAGGCACCTCTTGG
1 TGAAGAGACACAACTTTTGGAGGCACCCCTACG
* * ** * ** * *
2059860 TGAAGAGTCAAAACTTTTCAAAGCACCATTTCT
1 TGAAGAGACACAACTTTTGGAGGCACCCCTACG
* *
2059893 TGAAGAAACACAACTTTTGTAGGCACCCCTACG
1 TGAAGAGACACAACTTTTGGAGGCACCCCTACG
* *
2059926 TGAAGCGACACAACTTTTGGAGGCACCCATACG
1 TGAAGAGACACAACTTTTGGAGGCACCCCTACG
2059959 TGAAG
1 TGAAG
2059964 TGAAATGACA
Statistics
Matches: 81, Mismatches: 23, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
33 81 1.00
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.23
Consensus pattern (33 bp):
TGAAGAGACACAACTTTTGGAGGCACCCCTACG
Found at i:2061849 original size:17 final size:18
Alignment explanation
Indices: 2061827--2061863 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
2061817 AGGTTCGTAT
2061827 TAAATA-ATTGCATATTA
1 TAAATAGATTGCATATTA
2061844 TAAATAGTATTGCATATTA
1 TAAATAG-ATTGCATATTA
2061863 T
1 T
2061864 GTTAGATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.33
19 12 0.67
ACGTcount: A:0.43, C:0.05, G:0.08, T:0.43
Consensus pattern (18 bp):
TAAATAGATTGCATATTA
Found at i:2062627 original size:32 final size:31
Alignment explanation
Indices: 2062591--2062667 Score: 91
Period size: 31 Copynumber: 2.5 Consensus size: 31
2062581 CGGGGCCGTG
*
2062591 GGGCCTACCTAAGAACACATCTTAGGGCCGCA
1 GGGCCTACCTAAGAA-ACATCTCAGGGCCGCA
** **
2062623 GGGCCTACCCGAGAATGATCTCAGGGCCGCA
1 GGGCCTACCTAAGAAACATCTCAGGGCCGCA
*
2062654 GAGCCTACCTAAGA
1 GGGCCTACCTAAGA
2062668 GTCACATTAG
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
31 24 0.65
32 13 0.35
ACGTcount: A:0.27, C:0.31, G:0.27, T:0.14
Consensus pattern (31 bp):
GGGCCTACCTAAGAAACATCTCAGGGCCGCA
Found at i:2062650 original size:63 final size:63
Alignment explanation
Indices: 2062544--2062667 Score: 153
Period size: 63 Copynumber: 2.0 Consensus size: 63
2062534 CCCTAAGGGA
* * ** *
2062544 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATTTCGGGGCCGTGGGGCCTACCTAAGAAC
1 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCTACCTAAGAAC
* *
2062607 ACATCTTAGGGCC-GCAGGGCCTACCCGAGA-ATGATCTCAGGGCCGCAGAGCCTACCTAAGA
1 ACATCTTAGGGCCTG-AGAGCCTACCCAAGATA-GATCTCAGGGCCGCAGAGCCTACCTAAGA
2062668 GTCACATTAG
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
62 2 0.04
63 50 0.96
ACGTcount: A:0.26, C:0.29, G:0.28, T:0.17
Consensus pattern (63 bp):
ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCTACCTAAGAAC
Found at i:2063548 original size:7 final size:7
Alignment explanation
Indices: 2063536--2063573 Score: 76
Period size: 7 Copynumber: 5.4 Consensus size: 7
2063526 GTCAAAGAAA
2063536 GTCAACG
1 GTCAACG
2063543 GTCAACG
1 GTCAACG
2063550 GTCAACG
1 GTCAACG
2063557 GTCAACG
1 GTCAACG
2063564 GTCAACG
1 GTCAACG
2063571 GTC
1 GTC
2063574 GGGTCGGGTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.26, C:0.29, G:0.29, T:0.16
Consensus pattern (7 bp):
GTCAACG
Found at i:2063580 original size:5 final size:5
Alignment explanation
Indices: 2063570--2063649 Score: 70
Period size: 5 Copynumber: 14.8 Consensus size: 5
2063560 AACGGTCAAC
* *
2063570 GGTCG GGTCG GGTCG GGTCAAC GGTCG GGTCG GGTCG GGTCAAC GGTCG
1 GGTCG GGTCG GGTCG GGTC--G GGTCG GGTCG GGTCG GGTC--G GGTCG
* *
2063619 GGTCG GGTCA GGTCAAC GGTCG GGTCG GGTC
1 GGTCG GGTCG GGTC--G GGTCG GGTCG GGTC
2063650 AGACCGGTCA
Statistics
Matches: 62, Mismatches: 7, Indels: 12
0.77 0.09 0.15
Matches are distributed among these distances:
5 50 0.81
7 12 0.19
ACGTcount: A:0.09, C:0.23, G:0.50, T:0.19
Consensus pattern (5 bp):
GGTCG
Found at i:2063591 original size:22 final size:22
Alignment explanation
Indices: 2063563--2063649 Score: 165
Period size: 22 Copynumber: 4.0 Consensus size: 22
2063553 AACGGTCAAC
2063563 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
2063585 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
*
2063607 GGTCAACGGTCGGGTCGGGTCA
1 GGTCAACGGTCGGGTCGGGTCG
2063629 GGTCAACGGTCGGGTCGGGTC
1 GGTCAACGGTCGGGTCGGGTC
2063650 AGACCGGTCA
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 64 1.00
ACGTcount: A:0.10, C:0.23, G:0.48, T:0.18
Consensus pattern (22 bp):
GGTCAACGGTCGGGTCGGGTCG
Found at i:2063664 original size:9 final size:9
Alignment explanation
Indices: 2063646--2063744 Score: 81
Period size: 9 Copynumber: 10.3 Consensus size: 9
2063636 GGTCGGGTCG
*
2063646 GGTCAGACC
1 GGTCAAACC
2063655 GGTCAAACC
1 GGTCAAACC
* *
2063664 GATTCAGACC
1 G-GTCAAACC
2063674 GGTCAAACC
1 GGTCAAACC
*
2063683 GGTTCGAACC
1 GG-TCAAACC
*
2063693 GGTTGAAACC
1 GG-TCAAACC
*
2063703 GGCCAAACC
1 GGTCAAACC
2063712 GGTCAGAACC
1 GGTCA-AACC
*
2063722 GGTTGAAAACC
1 GG-T-CAAACC
2063733 GGTCAAACC
1 GGTCAAACC
2063742 GGT
1 GGT
2063745 TTCCAGCAGC
Statistics
Matches: 72, Mismatches: 13, Indels: 10
0.76 0.14 0.11
Matches are distributed among these distances:
9 34 0.47
10 30 0.42
11 7 0.10
12 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.27, T:0.14
Consensus pattern (9 bp):
GGTCAAACC
Found at i:2063693 original size:19 final size:19
Alignment explanation
Indices: 2063652--2063745 Score: 86
Period size: 19 Copynumber: 4.8 Consensus size: 19
2063642 GTCGGGTCAG
*
2063652 ACCGGTCAAACCGATTC-A
1 ACCGGTCAAACCGGTTCGA
2063670 GACCGGTCAAACCGGTTCGA
1 -ACCGGTCAAACCGGTTCGA
* * *
2063690 ACCGGTTGAAACCGG-CCAA
1 ACCGG-TCAAACCGGTTCGA
2063709 ACCGGTCAGAACCGGTT-GAAA
1 ACCGGTCA-AACCGGTTCG--A
2063730 ACCGGTCAAACCGGTT
1 ACCGGTCAAACCGGTT
2063746 TCCAGCAGCC
Statistics
Matches: 62, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
18 2 0.03
19 34 0.55
20 17 0.27
21 9 0.15
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.15
Consensus pattern (19 bp):
ACCGGTCAAACCGGTTCGA
Found at i:2063703 original size:29 final size:31
Alignment explanation
Indices: 2063671--2063745 Score: 120
Period size: 29 Copynumber: 2.5 Consensus size: 31
2063661 ACCGATTCAG
2063671 ACCGGTCAAACCGGTTC-GAACCGGTTG-AA
1 ACCGGTCAAACCGGTTCAGAACCGGTTGAAA
*
2063700 ACCGGCCAAACCGG-TCAGAACCGGTTGAAA
1 ACCGGTCAAACCGGTTCAGAACCGGTTGAAA
2063730 ACCGGTCAAACCGGTT
1 ACCGGTCAAACCGGTT
2063746 TCCAGCAGCC
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
28 2 0.05
29 23 0.56
30 15 0.37
31 1 0.02
ACGTcount: A:0.29, C:0.29, G:0.27, T:0.15
Consensus pattern (31 bp):
ACCGGTCAAACCGGTTCAGAACCGGTTGAAA
Found at i:2069973 original size:32 final size:31
Alignment explanation
Indices: 2069937--2070013 Score: 91
Period size: 31 Copynumber: 2.5 Consensus size: 31
2069927 CGGGGCCGTG
*
2069937 GGGCCTACCTAAGAACACATCTTAGGGCCGCA
1 GGGCCTACCTAAGAA-ACATCTCAGGGCCGCA
** **
2069969 GGGCCTACCCGAGAATGATCTCAGGGCCGCA
1 GGGCCTACCTAAGAAACATCTCAGGGCCGCA
*
2070000 GAGCCTACCTAAGA
1 GGGCCTACCTAAGA
2070014 GTCACATTAG
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
31 24 0.65
32 13 0.35
ACGTcount: A:0.27, C:0.31, G:0.27, T:0.14
Consensus pattern (31 bp):
GGGCCTACCTAAGAAACATCTCAGGGCCGCA
Found at i:2069996 original size:63 final size:63
Alignment explanation
Indices: 2069890--2070013 Score: 153
Period size: 63 Copynumber: 2.0 Consensus size: 63
2069880 CCCTAAGGGA
* * ** *
2069890 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATTTCGGGGCCGTGGGGCCTACCTAAGAAC
1 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCTACCTAAGAAC
* *
2069953 ACATCTTAGGGCC-GCAGGGCCTACCCGAGA-ATGATCTCAGGGCCGCAGAGCCTACCTAAGA
1 ACATCTTAGGGCCTG-AGAGCCTACCCAAGATA-GATCTCAGGGCCGCAGAGCCTACCTAAGA
2070014 GTCACATTAG
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
62 2 0.04
63 50 0.96
ACGTcount: A:0.26, C:0.29, G:0.28, T:0.17
Consensus pattern (63 bp):
ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCTACCTAAGAAC
Found at i:2070895 original size:7 final size:7
Alignment explanation
Indices: 2070883--2070920 Score: 76
Period size: 7 Copynumber: 5.4 Consensus size: 7
2070873 GTCAAAGAAA
2070883 GTCAACG
1 GTCAACG
2070890 GTCAACG
1 GTCAACG
2070897 GTCAACG
1 GTCAACG
2070904 GTCAACG
1 GTCAACG
2070911 GTCAACG
1 GTCAACG
2070918 GTC
1 GTC
2070921 GGGTCGGGTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.26, C:0.29, G:0.29, T:0.16
Consensus pattern (7 bp):
GTCAACG
Found at i:2070927 original size:5 final size:5
Alignment explanation
Indices: 2070917--2070969 Score: 52
Period size: 5 Copynumber: 9.8 Consensus size: 5
2070907 AACGGTCAAC
* *
2070917 GGTCG GGTCG GGTCG GGTCAAC GGTCG GGTCG GGTCAAC GGTCG GGTCG
1 GGTCG GGTCG GGTCG GGTC--G GGTCG GGTCG GGTC--G GGTCG GGTCG
2070966 GGTC
1 GGTC
2070970 AGACCGGTCA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
5 32 0.80
7 8 0.20
ACGTcount: A:0.08, C:0.23, G:0.51, T:0.19
Consensus pattern (5 bp):
GGTCG
Found at i:2070942 original size:17 final size:17
Alignment explanation
Indices: 2070922--2070970 Score: 98
Period size: 17 Copynumber: 2.9 Consensus size: 17
2070912 TCAACGGTCG
2070922 GGTCGGGTCGGGTCAAC
1 GGTCGGGTCGGGTCAAC
2070939 GGTCGGGTCGGGTCAAC
1 GGTCGGGTCGGGTCAAC
2070956 GGTCGGGTCGGGTCA
1 GGTCGGGTCGGGTCA
2070971 GACCGGTCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 32 1.00
ACGTcount: A:0.10, C:0.22, G:0.49, T:0.18
Consensus pattern (17 bp):
GGTCGGGTCGGGTCAAC
Found at i:2070965 original size:22 final size:22
Alignment explanation
Indices: 2070910--2070952 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
2070900 AACGGTCAAC
2070910 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
2070932 GGTCAACGGTCGGGTCGGGTC
1 GGTCAACGGTCGGGTCGGGTC
2070953 AACGGTCGGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.09, C:0.23, G:0.49, T:0.19
Consensus pattern (22 bp):
GGTCAACGGTCGGGTCGGGTCG
Found at i:2071005 original size:9 final size:9
Alignment explanation
Indices: 2070966--2071064 Score: 72
Period size: 9 Copynumber: 10.3 Consensus size: 9
2070956 GGTCGGGTCG
*
2070966 GGTCAGACC
1 GGTCAAACC
*
2070975 GGTCAAACT
1 GGTCAAACC
* *
2070984 GATTCAGACC
1 G-GTCAAACC
2070994 GGTCAAACC
1 GGTCAAACC
*
2071003 GGTTCGAACC
1 GG-TCAAACC
*
2071013 GGTTGAAACC
1 GG-TCAAACC
*
2071023 GGCCAAACC
1 GGTCAAACC
2071032 GGTCAGAACC
1 GGTCA-AACC
*
2071042 GGTTGAAAACC
1 GG-T-CAAACC
2071053 GGTCAAACC
1 GGTCAAACC
2071062 GGT
1 GGT
2071065 TTCCAGCAGC
Statistics
Matches: 70, Mismatches: 15, Indels: 10
0.74 0.16 0.11
Matches are distributed among these distances:
9 33 0.47
10 29 0.41
11 7 0.10
12 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.27, T:0.15
Consensus pattern (9 bp):
GGTCAAACC
Found at i:2071013 original size:19 final size:19
Alignment explanation
Indices: 2070972--2071065 Score: 77
Period size: 19 Copynumber: 4.8 Consensus size: 19
2070962 GTCGGGTCAG
* *
2070972 ACCGGTCAAACTGATTC-A
1 ACCGGTCAAACCGGTTCGA
2070990 GACCGGTCAAACCGGTTCGA
1 -ACCGGTCAAACCGGTTCGA
* * *
2071010 ACCGGTTGAAACCGG-CCAA
1 ACCGG-TCAAACCGGTTCGA
2071029 ACCGGTCAGAACCGGTT-GAAA
1 ACCGGTCA-AACCGGTTCG--A
2071050 ACCGGTCAAACCGGTT
1 ACCGGTCAAACCGGTT
2071066 TCCAGCAGCC
Statistics
Matches: 61, Mismatches: 8, Indels: 11
0.76 0.10 0.14
Matches are distributed among these distances:
18 2 0.03
19 33 0.54
20 17 0.28
21 9 0.15
ACGTcount: A:0.30, C:0.29, G:0.26, T:0.16
Consensus pattern (19 bp):
ACCGGTCAAACCGGTTCGA
Found at i:2071029 original size:29 final size:31
Alignment explanation
Indices: 2070991--2071065 Score: 120
Period size: 29 Copynumber: 2.5 Consensus size: 31
2070981 ACTGATTCAG
2070991 ACCGGTCAAACCGGTTC-GAACCGGTTG-AA
1 ACCGGTCAAACCGGTTCAGAACCGGTTGAAA
*
2071020 ACCGGCCAAACCGG-TCAGAACCGGTTGAAA
1 ACCGGTCAAACCGGTTCAGAACCGGTTGAAA
2071050 ACCGGTCAAACCGGTT
1 ACCGGTCAAACCGGTT
2071066 TCCAGCAGCC
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
28 2 0.05
29 23 0.56
30 15 0.37
31 1 0.02
ACGTcount: A:0.29, C:0.29, G:0.27, T:0.15
Consensus pattern (31 bp):
ACCGGTCAAACCGGTTCAGAACCGGTTGAAA
Found at i:2071063 original size:20 final size:21
Alignment explanation
Indices: 2071027--2071065 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
2071017 GAAACCGGCC
2071027 AAACCGGTCAGAACCGGTTGA
1 AAACCGGTCAGAACCGGTTGA
2071048 AAACCGGTCA-AACCGGTT
1 AAACCGGTCAGAACCGGTT
2071066 TCCAGCAGCC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.33, C:0.26, G:0.26, T:0.15
Consensus pattern (21 bp):
AAACCGGTCAGAACCGGTTGA
Found at i:2083640 original size:60 final size:60
Alignment explanation
Indices: 2083567--2083714 Score: 185
Period size: 60 Copynumber: 2.5 Consensus size: 60
2083557 AAGTATAACT
* *
2083567 TTCATTTTAAATTAGTCTTTAAA-TTTGTAAATATTT-TAATTTCATCCCTAAACTATGA-C
1 TTCATTTTAAATTAGTCTTTAAACTTT-TAAACATTTCT-ATATCATCCCTAAACTATGATC
* *
2083626 TATTATTTTAAATTAATCTTTAAACTTTTAAACATTTCTATATCATCCCTAAACTATGATC
1 T-TCATTTTAAATTAGTCTTTAAACTTTTAAACATTTCTATATCATCCCTAAACTATGATC
* **
2083687 TTCATTTTAAATTGGTCTCCAAACTTTT
1 TTCATTTTAAATTAGTCTTTAAACTTTT
2083715 TGAGCATTCC
Statistics
Matches: 76, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
59 1 0.01
60 69 0.91
61 6 0.08
ACGTcount: A:0.33, C:0.16, G:0.04, T:0.47
Consensus pattern (60 bp):
TTCATTTTAAATTAGTCTTTAAACTTTTAAACATTTCTATATCATCCCTAAACTATGATC
Found at i:2089117 original size:31 final size:30
Alignment explanation
Indices: 2089082--2089155 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 30
2089072 GGGGCCGTGG
*
2089082 GGCCTACCTAAGAACACATCTTAGGGCCGCA
1 GGCCTACCTAAGAA-ACATCTCAGGGCCGCA
** **
2089113 GGCCTACCCGAGAATGATCTCAGGGCCGCA
1 GGCCTACCTAAGAAACATCTCAGGGCCGCA
2089143 GAGCCTACCTAAG
1 G-GCCTACCTAAG
2089156 TGTCACATTA
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
30 14 0.40
31 21 0.60
ACGTcount: A:0.27, C:0.32, G:0.26, T:0.15
Consensus pattern (30 bp):
GGCCTACCTAAGAAACATCTCAGGGCCGCA
Found at i:2089150 original size:62 final size:63
Alignment explanation
Indices: 2089034--2089155 Score: 151
Period size: 62 Copynumber: 2.0 Consensus size: 63
2089024 ACCTAAGGGA
* * ** *
2089034 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATTTCGGGGCCGTGGGGCCTACCTAAGAAC
1 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCTACCTAAGAAC
*
2089097 ACATCTTAGGGCC-GCAG-GCCTACCCGAGA-ATGATCTCAGGGCCGCAGAGCCTACCTAAG
1 ACATCTTAGGGCCTG-AGAGCCTACCCAAGATA-GATCTCAGGGCCGCAGAGCCTACCTAAG
2089156 TGTCACATTA
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
61 1 0.02
62 35 0.69
63 15 0.29
ACGTcount: A:0.25, C:0.30, G:0.28, T:0.17
Consensus pattern (63 bp):
ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCTACCTAAGAAC
Found at i:2091942 original size:7 final size:7
Alignment explanation
Indices: 2091930--2091968 Score: 62
Period size: 7 Copynumber: 5.6 Consensus size: 7
2091920 TGGTCAACGT
2091930 GGTCAAC
1 GGTCAAC
2091937 GGTCAAC
1 GGTCAAC
2091944 GGTCAAC
1 GGTCAAC
2091951 GGTC-AC
1 GGTCAAC
2091957 GGGTCAAC
1 -GGTCAAC
2091965 GGTC
1 GGTC
2091969 GGGTCGGGTC
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
6 2 0.07
7 26 0.87
8 2 0.07
ACGTcount: A:0.23, C:0.28, G:0.33, T:0.15
Consensus pattern (7 bp):
GGTCAAC
Found at i:2091988 original size:13 final size:12
Alignment explanation
Indices: 2091968--2092023 Score: 57
Period size: 13 Copynumber: 4.8 Consensus size: 12
2091958 GGTCAACGGT
2091968 CGGGTCGGGTCAA
1 CGGGTCGGGT-AA
*
2091981 CTGGTC-GGTAA
1 CGGGTCGGGTAA
2091992 CGGGTCGGGTAAA
1 CGGGTCGGGT-AA
2092005 CGGGTC-GGT--
1 CGGGTCGGGTAA
2092014 CGGGTCGGGT
1 CGGGTCGGGT
2092024 TATGACCGGT
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
9 6 0.16
10 3 0.08
11 7 0.18
12 9 0.24
13 13 0.34
ACGTcount: A:0.12, C:0.20, G:0.48, T:0.20
Consensus pattern (12 bp):
CGGGTCGGGTAA
Found at i:2091995 original size:24 final size:22
Alignment explanation
Indices: 2091964--2092023 Score: 84
Period size: 24 Copynumber: 2.6 Consensus size: 22
2091954 CACGGGTCAA
* *
2091964 CGGTCGGGTCGGGTCAACTGGT
1 CGGTCGGGTCGGGTAAACGGGT
2091986 CGGTAACGGGTCGGGTAAACGGGT
1 CGGT--CGGGTCGGGTAAACGGGT
2092010 CGGTCGGGTCGGGT
1 CGGTCGGGTCGGGT
2092024 TATGACCGGT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
22 14 0.41
24 20 0.59
ACGTcount: A:0.12, C:0.20, G:0.48, T:0.20
Consensus pattern (22 bp):
CGGTCGGGTCGGGTAAACGGGT
Found at i:2092034 original size:24 final size:22
Alignment explanation
Indices: 2091964--2092034 Score: 70
Period size: 24 Copynumber: 3.0 Consensus size: 22
2091954 CACGGGTCAA
* *
2091964 CGGTCGGGTCGGGTCAACTGGT
1 CGGTCGGGTCGGGTTAACCGGT
* *
2091986 CGGTAACGGGTCGGGTAAACGGGT
1 CGGT--CGGGTCGGGTTAACCGGT
2092010 CGGTCGGGTCGGGTTATGACCGGT
1 CGGTCGGGTCGGGTTA--ACCGGT
2092034 C
1 C
2092035 AAAACTGGTC
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
22 15 0.37
24 26 0.63
ACGTcount: A:0.13, C:0.21, G:0.45, T:0.21
Consensus pattern (22 bp):
CGGTCGGGTCGGGTTAACCGGT
Found at i:2097225 original size:10 final size:10
Alignment explanation
Indices: 2097212--2097246 Score: 61
Period size: 10 Copynumber: 3.5 Consensus size: 10
2097202 GTTCGTGAAC
2097212 GTTCGGTTAT
1 GTTCGGTTAT
2097222 GTTCGGTTAT
1 GTTCGGTTAT
*
2097232 GTTCGTTTAT
1 GTTCGGTTAT
2097242 GTTCG
1 GTTCG
2097247 TTCGGTTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.09, C:0.11, G:0.29, T:0.51
Consensus pattern (10 bp):
GTTCGGTTAT
Found at i:2097247 original size:10 final size:10
Alignment explanation
Indices: 2097198--2097248 Score: 57
Period size: 10 Copynumber: 5.1 Consensus size: 10
2097188 TCGTTCGTCA
2097198 TTATGTTCGT
1 TTATGTTCGT
** * *
2097208 GAACGTTCGG
1 TTATGTTCGT
*
2097218 TTATGTTCGG
1 TTATGTTCGT
2097228 TTATGTTCGT
1 TTATGTTCGT
2097238 TTATGTTCGT
1 TTATGTTCGT
2097248 T
1 T
2097249 CGGTTATTCG
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
10 33 1.00
ACGTcount: A:0.12, C:0.12, G:0.25, T:0.51
Consensus pattern (10 bp):
TTATGTTCGT
Found at i:2098154 original size:259 final size:249
Alignment explanation
Indices: 2097657--2098164 Score: 926
Period size: 259 Copynumber: 2.0 Consensus size: 249
2097647 TTACAATATG
2097657 AGCATCGAAGGATTTGGATCTATGTATTGCCTTGTAGTCCAATTTGTACCGTTCGAAATCTTTAT
1 AGCATCGAAGGATTTGGATCTATGTATTGCCTTGTAGTCCAATTTGTACCGTTCGAAATCTTTAT
2097722 ACTGTTAAATTTACTCTGCCAACGGAAATGACCATTATTAACAATCACTAAAGTCTGACATTGAT
66 ACTGTTAAATTTACTCTGCCAACGGAAATGACCATTATTAACAATCACTAAAGTCTGACATTGAT
2097787 GTCACAAAATTTTAGCCAGCGAATTTATTAGAATAACGTAGTGGAAAATGAATGTTATATGTAAT
131 GTCACAAAATTTTAGCCAGCGAATTTATTAGAATAACGTAGTGGAAAATGAATGTTATATGTAAT
2097852 CATGGACCACTAAGATAAATGTTATAGCGTTAAATGAAAGTCGTGTGAATCATT
196 CATGGACCACTAAGATAAATGTTATAGCGTTAAATGAAAGTCGTGTGAATCATT
2097906 AGCATCGAAGGGATTTGGATCTATGTTATTGCCTTGTAGTCCAATTTGTACCGTTCGAAATCTTT
1 AGCATCGAA-GGATTTGGATCTATG-TATTGCCTTGTAGTCCAATTTGTACCGTTCGAAATCTTT
2097971 ATACTGTTAAATTTTCTACTCTGCCAACGGAAATGACCATTATTAACAAACCTCACTAAAGTCTG
64 ATACTGTTAAA--TT-TACTCTGCCAACGGAAATGACCATTATTAAC-AA--TCACTAAAGTCTG
2098036 ACATTGATGTCACAAAACTTTTAGCCAGCGAATTTATTAGAATAACGTAGTGGAAAATGAATGTT
123 ACATTGATGTCACAAAA-TTTTAGCCAGCGAATTTATTAGAATAACGTAGTGGAAAATGAATGTT
2098101 CATATGTAATCATGGACCACTAAGATAAATGTTATAGCGTTAAATGAAAGTCGTGTGAATCATT
187 -ATATGTAATCATGGACCACTAAGATAAATGTTATAGCGTTAAATGAAAGTCGTGTGAATCATT
2098165 TAATATCTTT
Statistics
Matches: 249, Mismatches: 0, Indels: 10
0.96 0.00 0.04
Matches are distributed among these distances:
249 9 0.04
250 15 0.06
251 50 0.20
253 2 0.01
254 31 0.12
255 2 0.01
257 30 0.12
258 47 0.19
259 63 0.25
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.33
Consensus pattern (249 bp):
AGCATCGAAGGATTTGGATCTATGTATTGCCTTGTAGTCCAATTTGTACCGTTCGAAATCTTTAT
ACTGTTAAATTTACTCTGCCAACGGAAATGACCATTATTAACAATCACTAAAGTCTGACATTGAT
GTCACAAAATTTTAGCCAGCGAATTTATTAGAATAACGTAGTGGAAAATGAATGTTATATGTAAT
CATGGACCACTAAGATAAATGTTATAGCGTTAAATGAAAGTCGTGTGAATCATT
Found at i:2098339 original size:16 final size:16
Alignment explanation
Indices: 2098318--2098384 Score: 102
Period size: 16 Copynumber: 4.3 Consensus size: 16
2098308 GTCTCCAACG
2098318 TTTATGTTCGTGTTCA
1 TTTATGTTCGTGTTCA
*
2098334 TTTATGTTCGTGTTCG
1 TTTATGTTCGTGTTCA
*
2098350 TTTATGTTCGTGTTCG
1 TTTATGTTCGTGTTCA
2098366 TTTATGTTCGT-TT-A
1 TTTATGTTCGTGTTCA
2098380 TTTAT
1 TTTAT
2098385 TAAATGAACG
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
14 5 0.10
15 2 0.04
16 42 0.86
ACGTcount: A:0.10, C:0.10, G:0.19, T:0.60
Consensus pattern (16 bp):
TTTATGTTCGTGTTCA
Found at i:2098357 original size:32 final size:32
Alignment explanation
Indices: 2098316--2098376 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
2098306 GGGTCTCCAA
2098316 CGTTTATGTTCGTGTTCATTTATGTTCGTGTT
1 CGTTTATGTTCGTGTTCATTTATGTTCGTGTT
*
2098348 CGTTTATGTTCGTGTTCGTTTATGTTCGT
1 CGTTTATGTTCGTGTTCATTTATGTTCGT
2098377 TTATTTATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.08, C:0.13, G:0.23, T:0.56
Consensus pattern (32 bp):
CGTTTATGTTCGTGTTCATTTATGTTCGTGTT
Found at i:2100080 original size:28 final size:28
Alignment explanation
Indices: 2100041--2100097 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
2100031 TCGCCATTGT
* *
2100041 TTTCAAGTATTGGCTCGACGACACAATG
1 TTTCAAGCATTGGCTCAACGACACAATG
*
2100069 TTTCAAGCATTGGCTCAACGACATAATG
1 TTTCAAGCATTGGCTCAACGACACAATG
2100097 T
1 T
2100098 AAACGAAGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (28 bp):
TTTCAAGCATTGGCTCAACGACACAATG
Found at i:2100858 original size:29 final size:28
Alignment explanation
Indices: 2100810--2100870 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 28
2100800 TTTTTTATTT
2100810 TTATAATTATATTATTAT-AATATATAACA
1 TTATAATTATATTATTATAAATA-ATAA-A
*
2100839 TTATAATT-TTTTATTAATAAATAATAAA
1 TTATAATTATATTATT-ATAAATAATAAA
2100867 TTAT
1 TTAT
2100871 TAATAAAAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
28 11 0.38
29 14 0.48
30 4 0.14
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.51
Consensus pattern (28 bp):
TTATAATTATATTATTATAAATAATAAA
Found at i:2100888 original size:18 final size:19
Alignment explanation
Indices: 2100847--2100889 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
2100837 CATTATAATT
2100847 TTTTATTAATAAATAATAA
1 TTTTATTAATAAATAATAA
* *
2100866 -ATTATTAATAAA-AGTAA
1 TTTTATTAATAAATAATAA
2100883 TTTTATT
1 TTTTATT
2100890 TATTAATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 3
0.77 0.12 0.12
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (19 bp):
TTTTATTAATAAATAATAA
Found at i:2100994 original size:5 final size:5
Alignment explanation
Indices: 2100928--2101080 Score: 184
Period size: 5 Copynumber: 30.4 Consensus size: 5
2100918 GTTGAATATT
* * * * * * * * *
2100928 TATAA TGTAA TGTAA TGTAA TGTAA TGTAA TGTAA TGTAA TGTAA TGTAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
2100978 TATAA TATAA TATAATA TATAA TATAA TATAA TAT-A -ATAA TATAAA
1 TATAA TATAA TAT-A-A TATAA TATAA TATAA TATAA TATAA TAT-AA
2101024 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
2101074 TATAA TA
1 TATAA TA
2101081 CTCTTATTTT
Statistics
Matches: 141, Mismatches: 2, Indels: 10
0.92 0.01 0.07
Matches are distributed among these distances:
3 2 0.01
4 2 0.01
5 126 0.89
6 7 0.05
7 4 0.03
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (5 bp):
TATAA
Done.