Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007772.1 Hibiscus syriacus cultivar Beakdansim tig00110053_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: 1636317
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 9 of 9
Found at i:1573129 original size:81 final size:80
Alignment explanation
Indices: 1572921--1573131 Score: 214
Period size: 81 Copynumber: 2.6 Consensus size: 80
1572911 ATAACACGTG
*
1572921 ATCGCAACGCGATTCTGACTATCGCAACGCG-ATTCAGACTATCGCAACGCGATAATACGTGATC
1 ATCGCAACGCGATTCTGACTATCGCAACGCGAATTCA-AAT-TCGCAACGCGATAATACGTGATC
*
1572985 GCAACGTGATTCAGACT
64 GCAACGCGATTCAGACT
* * ** **
1573002 ATCGCAACGAGATTCTGACTATCGCAACGCGATAAT-ACGTGATCGCAACGCGATTCTGAC-T-A
1 ATCGCAACGCGATTCTGACTATCGCAACGCGA-ATTCAAAT--TCGCAACGCGATAAT-ACGTGA
*
1573064 TCGCAACGCGATTCTGACT
62 TCGCAACGCGATTCAGACT
* * *
1573083 ATCGCAACGCGATTCTGACTAACGCATCACTGAATTTCAAATTCGCAAC
1 ATCGCAACGCGATTCTGACTATCGCAACGC-GAA-TTCAAATTCGCAAC
1573132 AGGTTTTAGT
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
81 83 0.77
82 19 0.18
83 6 0.06
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.23
Consensus pattern (80 bp):
ATCGCAACGCGATTCTGACTATCGCAACGCGAATTCAAATTCGCAACGCGATAATACGTGATCGC
AACGCGATTCAGACT
Found at i:1573981 original size:24 final size:24
Alignment explanation
Indices: 1573923--1573969 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
1573913 AGTCGGTATT
*
1573923 CGAAATTTGATCTTGGTCAATACC
1 CGAACTTTGATCTTGGTCAATACC
1573947 CGAACTTTGATCTTGGTCAATAC
1 CGAACTTTGATCTTGGTCAATAC
1573970 TCGGATTTTG
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:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (24 bp):
CGAACTTTGATCTTGGTCAATACC
Found at i:1574200 original size:14 final size:14
Alignment explanation
Indices: 1574171--1574207 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
1574161 AGAAAAAGAA
1574171 GAAGAAGAAATCCCC
1 GAAGAA-AAATCCCC
*
1574186 GAAGAAAAGTCCCC
1 GAAGAAAAATCCCC
1574200 GAAGAAAA
1 GAAGAAAA
1574208 TGCCGCGAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.51, C:0.22, G:0.22, T:0.05
Consensus pattern (14 bp):
GAAGAAAAATCCCC
Found at i:1576266 original size:18 final size:18
Alignment explanation
Indices: 1576243--1576277 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1576233 AGCAAAAGGC
*
1576243 AATCAAAATCGCAATCAA
1 AATCAAAATCCCAATCAA
1576261 AATCAAAATCCCAATCA
1 AATCAAAATCCCAATCA
1576278 CAACCGGCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.26, G:0.03, T:0.17
Consensus pattern (18 bp):
AATCAAAATCCCAATCAA
Found at i:1576480 original size:20 final size:20
Alignment explanation
Indices: 1576455--1576709 Score: 190
Period size: 20 Copynumber: 13.7 Consensus size: 20
1576445 CACATTCATT
1576455 TGACTATCGCAACGCGAATA
1 TGACTATCGCAACGCGAATA
* *
1576475 TGACTATCGCAACGTGAATT
1 TGACTATCGCAACGCGAATA
* *
1576495 TGAATATCGCAACG-G--GA
1 TGACTATCGCAACGCGAATA
* *
1576512 T-A--ATCGCAATGCGAATT
1 TGACTATCGCAACGCGAATA
*
1576529 TGACTATCGCAACG-G--GA
1 TGACTATCGCAACGCGAATA
* *
1576546 T-A--ATCGCAATGCGAAAA
1 TGACTATCGCAACGCGAATA
*
1576563 TGACTATCGCAACGCGAAAA
1 TGACTATCGCAACGCGAATA
* *
1576583 TGACTATCGCAACACGAATT
1 TGACTATCGCAACGCGAATA
* *
1576603 TAACTATCGCAACGCGAATT
1 TGACTATCGCAACGCGAATA
*
1576623 TGACTATCGCAA--CG-AGA
1 TGACTATCGCAACGCGAATA
1576640 T-A--ATCGCAACGCGAA-A
1 TGACTATCGCAACGCGAATA
*
1576656 TGACTATCGCAACGCGAATT
1 TGACTATCGCAACGCGAATA
* *
1576676 TGATTATCGCAACTG-GAATT
1 TGACTATCGCAAC-GCGAATA
*
1576696 TGACTATCGTAACG
1 TGACTATCGCAACG
1576710 AGAAAATCGC
Statistics
Matches: 189, Mismatches: 26, Indels: 41
0.74 0.10 0.16
Matches are distributed among these distances:
14 23 0.12
15 2 0.01
16 7 0.04
17 9 0.05
18 4 0.02
19 16 0.08
20 127 0.67
21 1 0.01
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.23
Consensus pattern (20 bp):
TGACTATCGCAACGCGAATA
Found at i:1576496 original size:40 final size:40
Alignment explanation
Indices: 1576452--1576709 Score: 223
Period size: 34 Copynumber: 6.9 Consensus size: 40
1576442 TTACACATTC
*
1576452 ATTTGACTATCGCAACGCGAATATGACTATCGCAACGTGA
1 ATTTGACTATCGCAACGCGAATATGACTATCGCAACGCGA
* * *
1576492 ATTTGAATATCGCAACG-G--GAT-A--ATCGCAATGCGA
1 ATTTGACTATCGCAACGCGAATATGACTATCGCAACGCGA
* *
1576526 ATTTGACTATCGCAACG-G--GAT-A--ATCGCAATGCGA
1 ATTTGACTATCGCAACGCGAATATGACTATCGCAACGCGA
** * *
1576560 AAATGACTATCGCAACGCGAAAATGACTATCGCAACACGA
1 ATTTGACTATCGCAACGCGAATATGACTATCGCAACGCGA
* * *
1576600 ATTTAACTATCGCAACGCGAATTTGACTATCGCAACGAG-
1 ATTTGACTATCGCAACGCGAATATGACTATCGCAACGCGA
1576639 A--T-A--ATCGCAACGCGAA-ATGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGAATATGACTATCGCAACGCGA
* * *
1576673 ATTTGATTATCGCAACTG-GAATTTGACTATCGTAACG
1 ATTTGACTATCGCAAC-GCGAATATGACTATCGCAACG
1576710 AGAAAATCGC
Statistics
Matches: 183, Mismatches: 21, Indels: 28
0.79 0.09 0.12
Matches are distributed among these distances:
33 15 0.08
34 72 0.39
35 1 0.01
36 3 0.02
37 6 0.03
38 1 0.01
39 13 0.07
40 72 0.39
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.23
Consensus pattern (40 bp):
ATTTGACTATCGCAACGCGAATATGACTATCGCAACGCGA
Found at i:1576684 original size:73 final size:73
Alignment explanation
Indices: 1576568--1576753 Score: 239
Period size: 73 Copynumber: 2.5 Consensus size: 73
1576558 GAAAATGACT
* * *
1576568 ATCGCAACGCGAAAATGACTATCGCAACACGAATTTAACTATCGCAAC-GCGAATTTGACTATCG
1 ATCGCAACGCG-AAATGACTATCGCAACGCGAATTTGATTATCGCAACTG-GAATTTGACTATCG
*
1576632 CAACGAGATA
64 CAACGAGAAA
*
1576642 ATCGCAACGCGAAATGACTATCGCAACGCGAATTTGATTATCGCAACTGGAATTTGACTATCGTA
1 ATCGCAACGCGAAATGACTATCGCAACGCGAATTTGATTATCGCAACTGGAATTTGACTATCGCA
1576707 ACGAGAAA
66 ACGAGAAA
* * * * * *
1576715 ATCGCAAAGTGTATTAGACTATCACAACGCGAATATGAT
1 ATCGCAACGCGAAAT-GACTATCGCAACGCGAATTTGAT
1576754 GCAGATTAAA
Statistics
Matches: 99, Mismatches: 11, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
73 66 0.67
74 33 0.33
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.23
Consensus pattern (73 bp):
ATCGCAACGCGAAATGACTATCGCAACGCGAATTTGATTATCGCAACTGGAATTTGACTATCGCA
ACGAGAAA
Found at i:1576887 original size:25 final size:25
Alignment explanation
Indices: 1576859--1576909 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
1576849 TTAAACAAGC
*
1576859 ACAAATAATAATTATTTACACATCA
1 ACAAATAAGAATTATTTACACATCA
1576884 ACAAATAAGAATTATTTACACATCA
1 ACAAATAAGAATTATTTACACATCA
1576909 A
1 A
1576910 TTAAACAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.53, C:0.16, G:0.02, T:0.29
Consensus pattern (25 bp):
ACAAATAAGAATTATTTACACATCA
Found at i:1578331 original size:21 final size:21
Alignment explanation
Indices: 1578302--1578408 Score: 81
Period size: 21 Copynumber: 5.1 Consensus size: 21
1578292 GAATGTTGGG
* *
1578302 AGGGACCTCTTCAACGATGAC
1 AGGGGCCTCTTGAACGATGAC
* * **
1578323 AGGGGCCTCTTGAATGGTGGG
1 AGGGGCCTCTTGAACGATGAC
* ** *
1578344 AGGGGACTCTTGAGGGATGAT
1 AGGGGCCTCTTGAACGATGAC
*
1578365 AGGGGCCTCTTGAACGAT-AGG
1 AGGGGCCTCTTGAACGATGA-C
* *
1578386 AGAGGCCTCTTAAACGATGAC
1 AGGGGCCTCTTGAACGATGAC
1578407 AG
1 AG
1578409 ATGAGTCGGC
Statistics
Matches: 65, Mismatches: 19, Indels: 4
0.74 0.22 0.05
Matches are distributed among these distances:
20 1 0.02
21 63 0.97
22 1 0.02
ACGTcount: A:0.25, C:0.19, G:0.36, T:0.21
Consensus pattern (21 bp):
AGGGGCCTCTTGAACGATGAC
Found at i:1578354 original size:42 final size:42
Alignment explanation
Indices: 1578292--1578408 Score: 119
Period size: 42 Copynumber: 2.8 Consensus size: 42
1578282 TCGGGCTATA
* *
1578292 GAATGTTGGGA-GGGACCTCTTCAACGATGACAGGGGCCTCTT
1 GAATGATGGGAGGGGA-CTCTTAAACGATGACAGGGGCCTCTT
* * ** *
1578334 GAATGGTGGGAGGGGACTCTTGAGGGATGATAGGGGCCTCTT
1 GAATGATGGGAGGGGACTCTTAAACGATGACAGGGGCCTCTT
* * * *
1578376 GAACGATAGGAGAGGCCTCTTAAACGATGACAG
1 GAATGATGGGAGGGGACTCTTAAACGATGACAG
1578409 ATGAGTCGGC
Statistics
Matches: 60, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
42 56 0.93
43 4 0.07
ACGTcount: A:0.25, C:0.17, G:0.37, T:0.21
Consensus pattern (42 bp):
GAATGATGGGAGGGGACTCTTAAACGATGACAGGGGCCTCTT
Found at i:1578911 original size:20 final size:20
Alignment explanation
Indices: 1578886--1578929 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
1578876 AATAGTTTCT
1578886 GAAACTTAAAATCGCAACAC
1 GAAACTTAAAATCGCAACAC
*
1578906 GAAACTTAAAATCGCAACAT
1 GAAACTTAAAATCGCAACAC
1578926 GAAA
1 GAAA
1578930 ATGATTATCG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.52, C:0.20, G:0.11, T:0.16
Consensus pattern (20 bp):
GAAACTTAAAATCGCAACAC
Found at i:1579006 original size:33 final size:33
Alignment explanation
Indices: 1578936--1579016 Score: 108
Period size: 33 Copynumber: 2.4 Consensus size: 33
1578926 GAAAATGATT
* *
1578936 ATCGCAACGCGAATTTGACTATCGCAACGAGATA
1 ATCGCAACGCGAA-ATGACTATCGCAACGAGAAA
* * *
1578970 ATCGCAATGCGAAATGATTATTGCAACGAGAAA
1 ATCGCAACGCGAAATGACTATCGCAACGAGAAA
1579003 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
1579017 CCAAAATCGC
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
33 29 0.71
34 12 0.29
ACGTcount: A:0.40, C:0.21, G:0.21, T:0.19
Consensus pattern (33 bp):
ATCGCAACGCGAAATGACTATCGCAACGAGAAA
Found at i:1579029 original size:33 final size:33
Alignment explanation
Indices: 1578956--1579029 Score: 85
Period size: 33 Copynumber: 2.2 Consensus size: 33
1578946 GAATTTGACT
* * ** **
1578956 ATCGCAACGAGATAATCGCAATGCGAAATGATT
1 ATCGCAACGAGAAAATCGCAACGCGAAACCAAA
*
1578989 ATTGCAACGAGAAAATCGCAACGCGAAACCAAA
1 ATCGCAACGAGAAAATCGCAACGCGAAACCAAA
1579022 ATCGCAAC
1 ATCGCAAC
1579030 ACGAAACTAA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.43, C:0.23, G:0.19, T:0.15
Consensus pattern (33 bp):
ATCGCAACGAGAAAATCGCAACGCGAAACCAAA
Found at i:1579045 original size:19 final size:19
Alignment explanation
Indices: 1579000--1579036 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
1578990 TTGCAACGAG
*
1579000 AAAATCGCAACGCGAAACC
1 AAAATCGCAACACGAAACC
1579019 AAAATCGCAACACGAAAC
1 AAAATCGCAACACGAAAC
1579037 TAAATTCGCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.51, C:0.30, G:0.14, T:0.05
Consensus pattern (19 bp):
AAAATCGCAACACGAAACC
Found at i:1579088 original size:34 final size:34
Alignment explanation
Indices: 1579045--1579181 Score: 121
Period size: 34 Copynumber: 3.9 Consensus size: 34
1579035 ACTAAATTCG
**
1579045 CGTTGCGATAGTCATTTTCGCATTGCGATTATCC
1 CGTTGCGATAGTCAAATTCGCATTGCGATTATCC
* * *
1579079 CGTTGCGATAGTCAAATTCGCGTTGTGATATTCATTTTCG
1 CGTTGCGATAGTCAAATTCGCATTGCG--ATT-A---TCC
* * ***
1579119 AGTTACGATAGTCGTTTTCGCATTGCGATTATCC
1 CGTTGCGATAGTCAAATTCGCATTGCGATTATCC
*
1579153 CGTTGCGATAGTCAAATTCGCGTTGCGAT
1 CGTTGCGATAGTCAAATTCGCATTGCGAT
1579182 AATCATTTCC
Statistics
Matches: 78, Mismatches: 19, Indels: 12
0.72 0.17 0.11
Matches are distributed among these distances:
34 48 0.62
36 3 0.04
37 2 0.03
38 3 0.04
40 22 0.28
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.37
Consensus pattern (34 bp):
CGTTGCGATAGTCAAATTCGCATTGCGATTATCC
Found at i:1579171 original size:74 final size:74
Alignment explanation
Indices: 1579041--1579189 Score: 253
Period size: 74 Copynumber: 2.0 Consensus size: 74
1579031 CGAAACTAAA
* * *
1579041 TTCGCGTTGCGATAGTCATTTTCGCATTGCGATTATCCCGTTGCGATAGTCAAATTCGCGTTGTG
1 TTCGAGTTACGATAGTCATTTTCGCATTGCGATTATCCCGTTGCGATAGTCAAATTCGCGTTGCG
*
1579106 ATATTCATT
66 ATAATCATT
*
1579115 TTCGAGTTACGATAGTCGTTTTCGCATTGCGATTATCCCGTTGCGATAGTCAAATTCGCGTTGCG
1 TTCGAGTTACGATAGTCATTTTCGCATTGCGATTATCCCGTTGCGATAGTCAAATTCGCGTTGCG
1579180 ATAATCATT
66 ATAATCATT
1579189 T
1 T
1579190 CCGTGTTGCG
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
74 70 1.00
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.38
Consensus pattern (74 bp):
TTCGAGTTACGATAGTCATTTTCGCATTGCGATTATCCCGTTGCGATAGTCAAATTCGCGTTGCG
ATAATCATT
Found at i:1579178 original size:20 final size:20
Alignment explanation
Indices: 1579038--1579182 Score: 71
Period size: 20 Copynumber: 7.8 Consensus size: 20
1579028 ACACGAAACT
1579038 AAATTCGCGTTGCGATAGTC
1 AAATTCGCGTTGCGATAGTC
** *
1579058 ATTTTCGCATTGCGAT--T-
1 AAATTCGCGTTGCGATAGTC
*
1579075 --A-TCCCGTTGCGATAGTC
1 AAATTCGCGTTGCGATAGTC
* *
1579092 AAATTCGCGTTGTGATATTC
1 AAATTCGCGTTGCGATAGTC
** * *
1579112 ATTTTCGAGTTACGATAGTC
1 AAATTCGCGTTGCGATAGTC
*** *
1579132 GTTTTCGCATTGCGAT--T-
1 AAATTCGCGTTGCGATAGTC
*
1579149 --A-TCCCGTTGCGATAGTC
1 AAATTCGCGTTGCGATAGTC
1579166 AAATTCGCGTTGCGATA
1 AAATTCGCGTTGCGATA
1579183 ATCATTTCCG
Statistics
Matches: 90, Mismatches: 23, Indels: 24
0.66 0.17 0.18
Matches are distributed among these distances:
14 20 0.22
16 2 0.02
18 2 0.02
19 2 0.02
20 64 0.71
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.37
Consensus pattern (20 bp):
AAATTCGCGTTGCGATAGTC
Found at i:1581222 original size:20 final size:20
Alignment explanation
Indices: 1581199--1581254 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
1581189 TCTGAAACTT
1581199 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
1581219 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
** *
1581239 ATTATCGCAACTCGAA
1 AAAATCGCAACACGAA
1581255 TTTGACTATC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.50, C:0.21, G:0.14, T:0.14
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:1581264 original size:20 final size:20
Alignment explanation
Indices: 1581202--1581268 Score: 80
Period size: 20 Copynumber: 3.4 Consensus size: 20
1581192 GAAACTTAAA
**
1581202 ATCGCAACACGAAAATGAAA
1 ATCGCAACACGAAAATGACT
*
1581222 ATCGCAACACGAAAATGATT
1 ATCGCAACACGAAAATGACT
* **
1581242 ATCGCAACTCGAATTTGACT
1 ATCGCAACACGAAAATGACT
1581262 ATCGCAA
1 ATCGCAA
1581269 TGAGATAATC
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.43, C:0.22, G:0.15, T:0.19
Consensus pattern (20 bp):
ATCGCAACACGAAAATGACT
Found at i:1581692 original size:21 final size:21
Alignment explanation
Indices: 1581649--1581725 Score: 111
Period size: 22 Copynumber: 3.6 Consensus size: 21
1581639 GATGGAGATA
1581649 GACGGATTTCGCTGGAGATGGG
1 GACGGATTTCGC-GGAGATGGG
1581671 GACGGATTTCGCGGTA-ATGGG
1 GACGGATTTCGCGG-AGATGGG
1581692 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCG-CGGAGATGGG
*
1581714 GACGGATGTCGC
1 GACGGATTTCGC
1581726 CGTAGAGAGT
Statistics
Matches: 51, Mismatches: 1, Indels: 7
0.86 0.02 0.12
Matches are distributed among these distances:
21 20 0.39
22 31 0.61
ACGTcount: A:0.18, C:0.16, G:0.44, T:0.22
Consensus pattern (21 bp):
GACGGATTTCGCGGAGATGGG
Found at i:1581915 original size:20 final size:20
Alignment explanation
Indices: 1581890--1581975 Score: 111
Period size: 20 Copynumber: 4.2 Consensus size: 20
1581880 TTATCGCAAC
*
1581890 GCGATAGTCAGAATCTCGTT
1 GCGATAGTCAGAATCGCGTT
1581910 GCGATAGTCAGAATCGCGTT
1 GCGATAGTCAGAATCGCGTT
** *
1581930 GCGATCACGT-ATTATCACGTT
1 GCGAT-A-GTCAGAATCGCGTT
1581951 GCGATAGTCAGAATCGCGTT
1 GCGATAGTCAGAATCGCGTT
1581971 GCGAT
1 GCGAT
1581976 CACGTGTTAT
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
19 2 0.04
20 38 0.68
21 14 0.25
22 2 0.04
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (20 bp):
GCGATAGTCAGAATCGCGTT
Found at i:1581952 original size:21 final size:21
Alignment explanation
Indices: 1581922--1581996 Score: 91
Period size: 21 Copynumber: 3.6 Consensus size: 21
1581912 GATAGTCAGA
1581922 ATCGCGTTGCGATCACGTATT
1 ATCGCGTTGCGATCACGTATT
* **
1581943 ATCACGTTGCGAT-A-GTCAGA
1 ATCGCGTTGCGATCACGT-ATT
*
1581963 ATCGCGTTGCGATCACGTGTT
1 ATCGCGTTGCGATCACGTATT
1581984 ATCGCGTTGCGAT
1 ATCGCGTTGCGAT
1581997 TTACATATTC
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
19 2 0.05
20 14 0.32
21 26 0.59
22 2 0.05
ACGTcount: A:0.20, C:0.23, G:0.27, T:0.31
Consensus pattern (21 bp):
ATCGCGTTGCGATCACGTATT
Found at i:1582013 original size:20 final size:20
Alignment explanation
Indices: 1581985--1582037 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
1581975 TCACGTGTTA
*
1581985 TCGCGTTGCGATTTACATAT
1 TCGCATTGCGATTTACATAT
1582005 TCGCATTGCGATTTACATAT
1 TCGCATTGCGATTTACATAT
* *
1582025 TCACATTGTGATT
1 TCGCATTGCGATT
1582038 ATCTAAAATC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.23, C:0.19, G:0.17, T:0.42
Consensus pattern (20 bp):
TCGCATTGCGATTTACATAT
Found at i:1582016 original size:41 final size:41
Alignment explanation
Indices: 1581906--1581996 Score: 164
Period size: 41 Copynumber: 2.2 Consensus size: 41
1581896 GTCAGAATCT
1581906 CGTTGCGATAGTCAGAATCGCGTTGCGATCACGTATTATCA
1 CGTTGCGATAGTCAGAATCGCGTTGCGATCACGTATTATCA
* *
1581947 CGTTGCGATAGTCAGAATCGCGTTGCGATCACGTGTTATCG
1 CGTTGCGATAGTCAGAATCGCGTTGCGATCACGTATTATCA
1581988 CGTTGCGAT
1 CGTTGCGAT
1581997 TTACATATTC
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 48 1.00
ACGTcount: A:0.21, C:0.22, G:0.27, T:0.30
Consensus pattern (41 bp):
CGTTGCGATAGTCAGAATCGCGTTGCGATCACGTATTATCA
Found at i:1582135 original size:20 final size:19
Alignment explanation
Indices: 1582111--1582157 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
1582101 TGGAAACTGA
*
1582111 ATTGCGATAATGGAGATCGC
1 ATTGCGAT-ATAGAGATCGC
* *
1582131 GTTGCGATTTAGAGATCGC
1 ATTGCGATATAGAGATCGC
1582150 ATTGCGAT
1 ATTGCGAT
1582158 TTTGTTGGTC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.26, C:0.15, G:0.30, T:0.30
Consensus pattern (19 bp):
ATTGCGATATAGAGATCGC
Found at i:1582147 original size:19 final size:19
Alignment explanation
Indices: 1582123--1582159 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
1582113 TGCGATAATG
*
1582123 GAGATCGCGTTGCGATTTA
1 GAGATCGCATTGCGATTTA
1582142 GAGATCGCATTGCGATTT
1 GAGATCGCATTGCGATTT
1582160 TGTTGGTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.32
Consensus pattern (19 bp):
GAGATCGCATTGCGATTTA
Found at i:1592512 original size:60 final size:61
Alignment explanation
Indices: 1592437--1592579 Score: 175
Period size: 60 Copynumber: 2.4 Consensus size: 61
1592427 ATATTCGTTT
* * ** *
1592437 TAAATTAGTTCTTAAACTTTTGAA-AATTTAAATTTTATTTCTAAACTACGACCTTCATTC
1 TAAATTAGTCCTTAAACTTTTGAAGAATTTAAACTTTATCCCTAAACTACGACATTCATTC
* * * *
1592497 TAAATTAGTCCTTAAACTTTT-AAGTATTTTAACTTTATCCCTAAACTATGACATTCTTTC
1 TAAATTAGTCCTTAAACTTTTGAAGAATTTAAACTTTATCCCTAAACTACGACATTCATTC
*
1592557 TAAATTAGTCC-CAAACTTTTGAA
1 TAAATTAGTCCTTAAACTTTTGAA
1592580 TATTCCCTTT
Statistics
Matches: 71, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
59 10 0.14
60 61 0.86
ACGTcount: A:0.34, C:0.17, G:0.06, T:0.43
Consensus pattern (61 bp):
TAAATTAGTCCTTAAACTTTTGAAGAATTTAAACTTTATCCCTAAACTACGACATTCATTC
Found at i:1593874 original size:18 final size:18
Alignment explanation
Indices: 1593847--1593902 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 18
1593837 TGTAAAATAA
1593847 AAAAGATAAATAAATAACT
1 AAAAG-TAAATAAATAACT
* * *
1593866 AAAAGTAAAAAAAAAAAT
1 AAAAGTAAATAAATAACT
*
1593884 GAAAGT-AAT-AATAACT
1 AAAAGTAAATAAATAACT
1593900 AAA
1 AAA
1593903 GAATAAAAAA
Statistics
Matches: 29, Mismatches: 8, Indels: 3
0.73 0.20 0.08
Matches are distributed among these distances:
16 7 0.24
17 2 0.07
18 15 0.52
19 5 0.17
ACGTcount: A:0.71, C:0.04, G:0.07, T:0.18
Consensus pattern (18 bp):
AAAAGTAAATAAATAACT
Found at i:1593874 original size:32 final size:32
Alignment explanation
Indices: 1593838--1593916 Score: 90
Period size: 35 Copynumber: 2.4 Consensus size: 32
1593828 AAAATGAAAT
1593838 GTAAAATAAAAAAGATAAATA-AATAACTAAA-A
1 GTAAAA-AAAAAA-ATAAATATAATAACTAAAGA
1593870 GTAAAAAAAAAAATGAAAGTAATAATAACTAAAGA
1 GTAAAAAAAAAAAT-AAA-T-ATAATAACTAAAGA
*
1593905 ATAAAAAAAAAA
1 GTAAAAAAAAAA
1593917 CAAATAAATA
Statistics
Matches: 41, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
30 2 0.05
31 9 0.22
32 7 0.17
33 1 0.02
34 10 0.24
35 12 0.29
ACGTcount: A:0.73, C:0.03, G:0.08, T:0.16
Consensus pattern (32 bp):
GTAAAAAAAAAAATAAATATAATAACTAAAGA
Found at i:1593951 original size:45 final size:44
Alignment explanation
Indices: 1593889--1593988 Score: 128
Period size: 45 Copynumber: 2.2 Consensus size: 44
1593879 AAAATGAAAG
*
1593889 TAATAATAACTAAAGAATAAAAAAAAAACAAATAAATATATATA
1 TAATAATAAATAAAGAATAAAAAAAAAACAAATAAATATATATA
* * * * *
1593933 TAATAATCAAATATAGAATAATAAAATAATAAGTAAATATATATA
1 TAATAAT-AAATAAAGAATAAAAAAAAAACAAATAAATATATATA
1593978 TATATAATAAA
1 TA-ATAATAAA
1593989 AAATGTACAT
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
44 7 0.15
45 36 0.75
46 5 0.10
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.28
Consensus pattern (44 bp):
TAATAATAAATAAAGAATAAAAAAAAAACAAATAAATATATATA
Found at i:1593986 original size:26 final size:26
Alignment explanation
Indices: 1593917--1593987 Score: 71
Period size: 26 Copynumber: 2.8 Consensus size: 26
1593907 AAAAAAAAAA
1593917 CAAATA-A-ATATATAT-ATAATAAT
1 CAAATATAGATATATATAATAATAAT
*
1593940 CAAATATAGA-ATAATAAAATAATAAGT
1 CAAATATAGATAT-ATATAATAATAA-T
*
1593967 -AAATATATATATATATAATAA
1 CAAATATAGATATATATAATAA
1593988 AAAATGTACA
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
23 6 0.15
24 3 0.08
25 4 0.10
26 23 0.59
27 3 0.08
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (26 bp):
CAAATATAGATATATATAATAATAAT
Found at i:1594034 original size:28 final size:28
Alignment explanation
Indices: 1593979--1594072 Score: 88
Period size: 28 Copynumber: 3.4 Consensus size: 28
1593969 ATATATATAT
** *
1593979 ATATAATAAAA-AATGTACATGAGAAAA
1 ATATAATAAAATAAAATACATGAAAAAA
1594006 ATATAATAAAATAAAATACATGAAAAAA
1 ATATAATAAAATAAAATACATGAAAAAA
* *
1594034 ATATAGCT-AAATATAAATA-ATG-AGAAA
1 ATATA-ATAAAATA-AAATACATGAAAAAA
1594061 ATAATAATAAAA
1 AT-ATAATAAAA
1594073 ATATAATATA
Statistics
Matches: 56, Mismatches: 6, Indels: 9
0.79 0.08 0.13
Matches are distributed among these distances:
27 18 0.32
28 32 0.57
29 6 0.11
ACGTcount: A:0.66, C:0.03, G:0.07, T:0.23
Consensus pattern (28 bp):
ATATAATAAAATAAAATACATGAAAAAA
Found at i:1594124 original size:21 final size:22
Alignment explanation
Indices: 1594100--1594144 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
1594090 AAAAGACCAA
*
1594100 AAATAGAGAAATAT-AGTAAAT
1 AAATAGAAAAATATAAGTAAAT
*
1594121 AAATAGAAAAATATAATTAAAT
1 AAATAGAAAAATATAAGTAAAT
1594143 AA
1 AA
1594145 TAATAATGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.67, C:0.00, G:0.09, T:0.24
Consensus pattern (22 bp):
AAATAGAAAAATATAAGTAAAT
Found at i:1594187 original size:21 final size:20
Alignment explanation
Indices: 1594108--1594187 Score: 58
Period size: 21 Copynumber: 3.9 Consensus size: 20
1594098 AAAAATAGAG
* *
1594108 AAATATAGTAAATAAATAGAA
1 AAATATAATAAATATATA-AA
1594129 AAATATAATTAAATA-AT-AA
1 AAATATAA-TAAATATATAAA
* *
1594148 TAATGATAA-ATATAGTATAAA
1 AAAT-ATAATAAATA-TATAAA
1594169 AAATAATAATAAATATATA
1 AAAT-ATAATAAATATATA
1594188 TATAGTAATA
Statistics
Matches: 47, Mismatches: 6, Indels: 12
0.72 0.09 0.18
Matches are distributed among these distances:
18 4 0.09
19 5 0.11
20 6 0.13
21 22 0.47
22 10 0.21
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (20 bp):
AAATATAATAAATATATAAA
Found at i:1594197 original size:24 final size:24
Alignment explanation
Indices: 1594143--1594200 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
1594133 ATAATTAAAT
*
1594143 AATAATAATGATAAATATAGTATA
1 AATAATAATAATAAATATAGTATA
*
1594167 AAAAATAATAATAAATATA-TATA
1 AATAATAATAATAAATATAGTATA
*
1594190 TAGTAATAATA
1 -AATAATAATA
1594201 CAATGAAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
23 4 0.14
24 25 0.86
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (24 bp):
AATAATAATAATAAATATAGTATA
Found at i:1594295 original size:15 final size:15
Alignment explanation
Indices: 1594255--1594303 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
1594245 TAATAGTAAT
1594255 TATAATAAAAAT-AAA
1 TATAA-AAAAATAAAA
* *
1594270 TAGAAATAAATAAAA
1 TATAAAAAAATAAAA
1594285 TATAAAAAAATAAAA
1 TATAAAAAAATAAAA
1594300 -ATAA
1 TATAA
1594304 GCGTAACAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
14 9 0.31
15 20 0.69
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (15 bp):
TATAAAAAAATAAAA
Found at i:1594295 original size:19 final size:20
Alignment explanation
Indices: 1594258--1594298 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
1594248 TAGTAATTAT
1594258 AATAAAAATAAATAGAAATA
1 AATAAAAATAAATAGAAATA
1594278 AATAAAATATAAA-A-AAATA
1 AATAAAA-ATAAATAGAAATA
1594297 AA
1 AA
1594299 AATAAGCGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 7 0.35
20 8 0.40
21 5 0.25
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (20 bp):
AATAAAAATAAATAGAAATA
Found at i:1596302 original size:111 final size:110
Alignment explanation
Indices: 1595832--1596301 Score: 535
Period size: 106 Copynumber: 4.3 Consensus size: 110
1595822 TGTTCCAAGG
* * * * *
1595832 CCAATATCCTTCACCGTGAAGTTGATATTGGCTCTG---GAACTGGGAAA-TTGTTTGTTGACAG
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGATAAAACTGGAAAAGTTGTTTGTTGACAG
* * * ** *
1595893 CCAACCGCCCCTTTGCTATGAAGTTGAGCTTGTATTGTCTCGAGT
66 CCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTTGAGT
* * *
1595938 CCAATATACTTCGCTGTGAAGTTGAAATTGACTCTGGATAAAACT-GAAAAGTTATTTGTTGACA
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCT-GATAAAACTGGAAAAGTTGTTTGTTGACA
** * * * *
1596002 ATCAGTCGCCCCTTCGTTGTGAAGTTGAGCTTGTGTTGTCTTAAGT
65 GCCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTTGAGT
* * *
1596048 CCAATATCTTTCGCTGTGAAGTTGAAATTGG--CT-ATAAAATTGGGAAAG-TGTTTGTTGACAG
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGATAAAACTGGAAAAGTTGTTTGTTGACAG
1596109 CCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTTGAGT
66 CCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTTGAGT
* * * * *
1596154 CTAATATCCTTCACTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAAGTTGTTTGTTGACA
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTG-ATAAAACTGGAAAAGTTGTTTGTTGACA
* ** * *
1596219 GTCAGTTGCCCCTTCGCTGTGAAGTTGAGTTTGTGCTATCTTGAGT
65 GCCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTTGAGT
* * *
1596265 CTAATATCCTTCGCTGTGAAATTGATATTGGCTCTGA
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGA
1596302 AACTGGGAAG
Statistics
Matches: 306, Mismatches: 47, Indels: 18
0.82 0.13 0.05
Matches are distributed among these distances:
106 115 0.38
107 6 0.02
108 4 0.01
109 4 0.01
110 92 0.30
111 85 0.28
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (110 bp):
CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGATAAAACTGGAAAAGTTGTTTGTTGACAG
CCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTTGAGT
Found at i:1597382 original size:7 final size:7
Alignment explanation
Indices: 1597366--1597405 Score: 62
Period size: 7 Copynumber: 5.6 Consensus size: 7
1597356 ACCTACCTTA
1597366 TTTTTCT
1 TTTTTCT
*
1597373 TTTCTCT
1 TTTTTCT
1597380 TTTTTCT
1 TTTTTCT
1597387 TTTTTCT
1 TTTTTCT
1597394 TTTGTTCT
1 TTT-TTCT
1597402 TTTT
1 TTTT
1597406 GTTCCCTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
7 23 0.77
8 7 0.23
ACGTcount: A:0.00, C:0.15, G:0.03, T:0.82
Consensus pattern (7 bp):
TTTTTCT
Found at i:1597486 original size:17 final size:16
Alignment explanation
Indices: 1597459--1597504 Score: 65
Period size: 17 Copynumber: 2.8 Consensus size: 16
1597449 CCTAAACATT
1597459 TTTTCTCTTTTTTATTC
1 TTTT-TCTTTTTTATTC
*
1597476 TTTATTCTTTTTTGTTC
1 TTT-TTCTTTTTTATTC
1597493 TTTTTCTTTTTT
1 TTTTTCTTTTTT
1597505 CTTTTTTCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 9 0.33
17 17 0.63
18 1 0.04
ACGTcount: A:0.04, C:0.13, G:0.02, T:0.80
Consensus pattern (16 bp):
TTTTTCTTTTTTATTC
Found at i:1597503 original size:7 final size:7
Alignment explanation
Indices: 1597468--1597515 Score: 51
Period size: 7 Copynumber: 6.4 Consensus size: 7
1597458 TTTTTCTCTT
1597468 TTTTATTC
1 TTTT-TTC
*
1597476 TTTATTC
1 TTTTTTC
*
1597483 TTTTTTGT
1 TTTTTT-C
1597491 TCTTTTTC
1 T-TTTTTC
1597499 TTTTTTC
1 TTTTTTC
1597506 TTTTTTC
1 TTTTTTC
1597513 TTT
1 TTT
1597516 CTTCGATTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
7 24 0.71
8 5 0.15
9 5 0.15
ACGTcount: A:0.04, C:0.12, G:0.02, T:0.81
Consensus pattern (7 bp):
TTTTTTC
Found at i:1598777 original size:75 final size:75
Alignment explanation
Indices: 1598654--1598801 Score: 251
Period size: 75 Copynumber: 2.0 Consensus size: 75
1598644 TTGATTATGG
* * *
1598654 CTTCTCTTGTATAAGAGCTCCCCGTCAAGGACGTATCTAGCTGCCATCCTTCTAATGGTTCTTTT
1 CTTCTCTTGTACAAGACCTCCCCGTCAAGGACGTATCCAGCTGCCATCCTTCTAATGGTTCTTTT
1598719 ATCGGTTTGA
66 ATCGGTTTGA
* *
1598729 CTTCTCTTGTACAAGACCTCCCCGTCAAGGATGTATCCAGCTGTCATCCTTCTAATGGTTCTTTT
1 CTTCTCTTGTACAAGACCTCCCCGTCAAGGACGTATCCAGCTGCCATCCTTCTAATGGTTCTTTT
1598794 ATCGGTTT
66 ATCGGTTT
1598802 CGGTGGCTTA
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
75 68 1.00
ACGTcount: A:0.18, C:0.26, G:0.18, T:0.38
Consensus pattern (75 bp):
CTTCTCTTGTACAAGACCTCCCCGTCAAGGACGTATCCAGCTGCCATCCTTCTAATGGTTCTTTT
ATCGGTTTGA
Found at i:1603943 original size:378 final size:379
Alignment explanation
Indices: 1603248--1604003 Score: 1433
Period size: 378 Copynumber: 2.0 Consensus size: 379
1603238 GAATGCCCCT
1603248 TGTTAACTTCCTAAAAAGGCTACTTTTAAAGCCTTTTTCACTTAAGTTATTGTTTGTTTAAAAGC
1 TGTTAACTTCCTAAAAAGGCTACTTTTAAAGCCTTTTTCACTTAAGTTATTGTTTGTTTAAAAGC
1603313 TCATTTTAGTCATTTTAGGATCATGTAGTTGCATATAGTTGCATTTGTGGTGGTTGTGCTATTTT
66 TCATTTTAGTCATTTTAGGATCATGTAGTTGCATATAGTTGCATTTGTGGTGGTTGTGCTATTTT
*
1603378 ATTTCTTAATGATGCTGTTTGAAGGAAAGGTGCAGTTTGTCTATGGTGTGCAGGGAATAGCAAGG
131 ATTTCTTAATGATGCTGTTTGAAGGAAAGGTGAAGTTTGTCTATGGTGTGCAGGGAATAGCAAGG
*
1603443 AAAAGGATTCTTTGGGAAGTAATGTCGCGGCATCACACGTTGCTAAAGCAGATTGAAATGCCTTG
196 AAAAGGATTCTTTGGGAAGTAATGCCGCGGCATCACACGTTGCTAAAGCAGATTGAAATGCCTTG
*
1603508 GCATTTCTGGCGCAGAAAAAGACAAAAAGATATTTCTGCATGAGGACAGCTGGCACTGG-AGCTG
261 GCATTTCTGGCGCAGAAAAAGACAAAAAGATATTTCTGCATGAGGACAGCTGGCACTGGAAACTG
1603572 TCCCTACACGTGGAGGACTGCTGTAACCGCCTGCCAGAGCTACCAATGGACCTG
326 TCCCTACACGTGGAGGACTGCTGTAACCGCCTGCCAGAGCTACCAATGGACCTG
1603626 TGTTAACTTCCTAAAAAGGCTACTTTTAAAGCCTTTTTCACTTAAGTTATTGTTTGTTTAAAAGC
1 TGTTAACTTCCTAAAAAGGCTACTTTTAAAGCCTTTTTCACTTAAGTTATTGTTTGTTTAAAAGC
*
1603691 TCATTTTAGTCATTTTAGGATCATGTAGTTGCATATAGTTGCATTTGTGGTGGTTGTGTTATTTT
66 TCATTTTAGTCATTTTAGGATCATGTAGTTGCATATAGTTGCATTTGTGGTGGTTGTGCTATTTT
* *
1603756 ATTTCTTAATGATGCTGTTTGAGGGAAATGTGAAGTTTGTCTATGGTGTGCAGGGAATAGCAAGG
131 ATTTCTTAATGATGCTGTTTGAAGGAAAGGTGAAGTTTGTCTATGGTGTGCAGGGAATAGCAAGG
1603821 AAAAGGATTCTTTGGGAAGTAATGCCGCGGCATCACACGTTGCTAAAGCAGATTGAAATGCCTTG
196 AAAAGGATTCTTTGGGAAGTAATGCCGCGGCATCACACGTTGCTAAAGCAGATTGAAATGCCTTG
1603886 GCATTTCTGGCGCAGAAAAAGACAAAAAGATATTTCTGCATGAGGACAGCTGGCACTGGACAACT
261 GCATTTCTGGCGCAGAAAAAGACAAAAAGATATTTCTGCATGAGGACAGCTGGCACTGGA-AACT
*
1603951 GTCCCTGCACGTGGAGGACTGCTGTAACCGCCTGCCAGAGCTACCAATGGACC
325 GTCCCTACACGTGGAGGACTGCTGTAACCGCCTGCCAGAGCTACCAATGGACC
1604004 ACTGCCACTT
Statistics
Matches: 369, Mismatches: 7, Indels: 2
0.98 0.02 0.01
Matches are distributed among these distances:
378 314 0.85
380 55 0.15
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (379 bp):
TGTTAACTTCCTAAAAAGGCTACTTTTAAAGCCTTTTTCACTTAAGTTATTGTTTGTTTAAAAGC
TCATTTTAGTCATTTTAGGATCATGTAGTTGCATATAGTTGCATTTGTGGTGGTTGTGCTATTTT
ATTTCTTAATGATGCTGTTTGAAGGAAAGGTGAAGTTTGTCTATGGTGTGCAGGGAATAGCAAGG
AAAAGGATTCTTTGGGAAGTAATGCCGCGGCATCACACGTTGCTAAAGCAGATTGAAATGCCTTG
GCATTTCTGGCGCAGAAAAAGACAAAAAGATATTTCTGCATGAGGACAGCTGGCACTGGAAACTG
TCCCTACACGTGGAGGACTGCTGTAACCGCCTGCCAGAGCTACCAATGGACCTG
Found at i:1611390 original size:19 final size:21
Alignment explanation
Indices: 1611353--1611395 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
1611343 TAACTTTTTC
1611353 TTTTATCTTTCATTATTAA-T
1 TTTTATCTTTCATTATTAACT
*
1611373 TTTTCTCTTTCATT-TTAACT
1 TTTTATCTTTCATTATTAACT
1611393 TTT
1 TTT
1611396 ACCTTTTCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.19, C:0.14, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTTATCTTTCATTATTAACT
Found at i:1611401 original size:19 final size:20
Alignment explanation
Indices: 1611352--1611401 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
1611342 TTAACTTTTT
*
1611352 CTTTTATCTTTCATTATTAA
1 CTTTTACCTTTCATTATTAA
*
1611372 -TTTTTCTCTTTCATT-TTAA
1 CTTTTAC-CTTTCATTATTAA
1611391 CTTTTACCTTT
1 CTTTTACCTTT
1611402 TCTCTTTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
19 12 0.48
20 13 0.52
ACGTcount: A:0.18, C:0.18, G:0.00, T:0.64
Consensus pattern (20 bp):
CTTTTACCTTTCATTATTAA
Found at i:1615254 original size:17 final size:16
Alignment explanation
Indices: 1615223--1615256 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
1615213 CAAGTGAGGA
1615223 TTATTTTCTTCTTATT
1 TTATTTTCTTCTTATT
*
1615239 TTATTTATCTTTTTATT
1 TTATTT-TCTTCTTATT
1615256 T
1 T
1615257 ACTGTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (16 bp):
TTATTTTCTTCTTATT
Found at i:1620791 original size:21 final size:22
Alignment explanation
Indices: 1620767--1620811 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
1620757 AAAAGACCAA
*
1620767 AAATAGAGAAATAT-AGTAAAT
1 AAATAGAAAAATATAAGTAAAT
*
1620788 AAATAGAAAAATATAATTAAAT
1 AAATAGAAAAATATAAGTAAAT
1620810 AA
1 AA
1620812 TAATAATGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.67, C:0.00, G:0.09, T:0.24
Consensus pattern (22 bp):
AAATAGAAAAATATAAGTAAAT
Found at i:1620840 original size:30 final size:32
Alignment explanation
Indices: 1620800--1620871 Score: 96
Period size: 30 Copynumber: 2.3 Consensus size: 32
1620790 ATAGAAAAAT
*
1620800 ATAATTAAATAATAAT-AATGATAGATATAGT-
1 ATAATAAAATAATAATAAAT-ATAGATATAGTA
*
1620831 ATAA-AAAATAATAATAAATATATATATAGTA
1 ATAATAAAATAATAATAAATATAGATATAGTA
1620862 ATAATAAAAT
1 ATAATAAAAT
1620872 GAAAATATGA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
30 20 0.56
31 11 0.31
32 5 0.14
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (32 bp):
ATAATAAAATAATAATAAATATAGATATAGTA
Found at i:1620932 original size:38 final size:36
Alignment explanation
Indices: 1620868--1620970 Score: 111
Period size: 38 Copynumber: 2.8 Consensus size: 36
1620858 AGTAATAATA
* *
1620868 AAATGAAAATATGAAAATATACAAAATAAGAT-GAAAT
1 AAAT-AAAATATAAAAAAATA-AAAATAAGATAGAAAT
* *
1620905 AAATAATAATAGTAATTATAATAAAAATAA-ATAGAAAT
1 AAATAA-AATA-TAA-AAAAATAAAAATAAGATAGAAAT
1620943 AAATAAAATATAAAAAAATAAAAATAAG
1 AAATAAAATATAAAAAAATAAAAATAAG
1620971 CGTAACAGGT
Statistics
Matches: 55, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
35 12 0.22
36 5 0.09
37 14 0.25
38 20 0.36
39 4 0.07
ACGTcount: A:0.69, C:0.01, G:0.07, T:0.23
Consensus pattern (36 bp):
AAATAAAATATAAAAAAATAAAAATAAGATAGAAAT
Found at i:1620961 original size:15 final size:15
Alignment explanation
Indices: 1620921--1620969 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
1620911 TAATAGTAAT
1620921 TATAATAAAAAT-AAA
1 TATAA-AAAAATAAAA
* *
1620936 TAGAAATAAATAAAA
1 TATAAAAAAATAAAA
1620951 TATAAAAAAATAAAA
1 TATAAAAAAATAAAA
1620966 -ATAA
1 TATAA
1620970 GCGTAACAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
14 9 0.31
15 20 0.69
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (15 bp):
TATAAAAAAATAAAA
Found at i:1620961 original size:19 final size:20
Alignment explanation
Indices: 1620901--1620964 Score: 62
Period size: 21 Copynumber: 3.1 Consensus size: 20
1620891 AAATAAGATG
*
1620901 AAATAAATAAT-AATAGTAATT
1 AAATAAA-AATAAATAG-AAAT
1620922 ATAATAAAAATAAATAGAAAT
1 A-AATAAAAATAAATAGAAAT
1620943 AAATAAAATATAAA-A-AAAT
1 AAATAAAA-ATAAATAGAAAT
1620962 AAA
1 AAA
1620965 AATAAGCGTA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
19 7 0.18
20 8 0.21
21 13 0.33
22 11 0.28
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (20 bp):
AAATAAAAATAAATAGAAAT
Found at i:1622001 original size:17 final size:19
Alignment explanation
Indices: 1621979--1622023 Score: 58
Period size: 17 Copynumber: 2.5 Consensus size: 19
1621969 AAAATAAAAT
*
1621979 TATAATTTATA-ATAT-TA
1 TATAATATATATATATATA
1621996 TATAATATATATATATATA
1 TATAATATATATATATATA
*
1622015 TATATTATA
1 TATAATATA
1622024 ATTTGGACGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 10 0.42
18 4 0.17
19 10 0.42
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TATAATATATATATATATA
Found at i:1624503 original size:31 final size:31
Alignment explanation
Indices: 1624462--1624557 Score: 97
Period size: 31 Copynumber: 3.1 Consensus size: 31
1624452 GGAATAATCT
* * *
1624462 CTAACGTTATCAATCCGTTTGATTTTAGTCC
1 CTAACATTATCAATCCATTCGATTTTAGTCC
*
1624493 CTAACATTATCGATCCATTCGATTTTAGTCC
1 CTAACATTATCAATCCATTCGATTTTAGTCC
* *
1624524 CTCAATCA-TA-GACTCTCATTCGATTTTAGTCC
1 CT-AA-CATTATCAATC-CATTCGATTTTAGTCC
1624556 CT
1 CT
1624558 CAGCCATGTT
Statistics
Matches: 55, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
31 31 0.56
32 22 0.40
33 2 0.04
ACGTcount: A:0.24, C:0.26, G:0.10, T:0.40
Consensus pattern (31 bp):
CTAACATTATCAATCCATTCGATTTTAGTCC
Found at i:1624549 original size:32 final size:31
Alignment explanation
Indices: 1624482--1624559 Score: 104
Period size: 32 Copynumber: 2.5 Consensus size: 31
1624472 CAATCCGTTT
* * *
1624482 GATTTTAGTCCCTAACATTATCGATCCATTC
1 GATTTTAGTCCCTCACATCATAGATCCATTC
1624513 GATTTTAGTCCCTCA-ATCATAGACTCTCATTC
1 GATTTTAGTCCCTCACATCATAGA-TC-CATTC
1624545 GATTTTAGTCCCTCA
1 GATTTTAGTCCCTCA
1624560 GCCATGTTAG
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
30 6 0.14
31 16 0.38
32 20 0.48
ACGTcount: A:0.24, C:0.27, G:0.10, T:0.38
Consensus pattern (31 bp):
GATTTTAGTCCCTCACATCATAGATCCATTC
Found at i:1627507 original size:11 final size:11
Alignment explanation
Indices: 1627491--1627526 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
1627481 ATTGCCAGAG
*
1627491 TTCTCTCTGGC
1 TTCTCTCTAGC
1627502 TTCTCTCTAGC
1 TTCTCTCTAGC
*
1627513 TTCCCTCTAGC
1 TTCTCTCTAGC
1627524 TTC
1 TTC
1627527 CCTCATCGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.06, C:0.39, G:0.11, T:0.44
Consensus pattern (11 bp):
TTCTCTCTAGC
Found at i:1627527 original size:11 final size:11
Alignment explanation
Indices: 1627495--1627530 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
1627485 CCAGAGTTCT
* *
1627495 CTCTGGCTTCT
1 CTCTAGCTTCC
1627506 CTCTAGCTTCC
1 CTCTAGCTTCC
1627517 CTCTAGCTTCC
1 CTCTAGCTTCC
1627528 CTC
1 CTC
1627531 ATCGGAGGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.06, C:0.44, G:0.11, T:0.39
Consensus pattern (11 bp):
CTCTAGCTTCC
Found at i:1628659 original size:120 final size:118
Alignment explanation
Indices: 1628436--1628704 Score: 387
Period size: 120 Copynumber: 2.3 Consensus size: 118
1628426 ATTCTTCTCT
* * * * *
1628436 TTCTTCAGATGAGTTCTTCTCATTATGAACTTTCCGCTGGGGATGATGTTGACCTATTTCCTTAT
1 TTCTTCAGATGAGTTCTTCTCATTATGAACTTTCCGCTGGAGATGATGCTAACCTATCTCATTAT
* *
1628501 GTGATAGAGTCATTCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTC
66 GTGATAGAATCATGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTC
* * *
1628554 TTCTTCAGATGAGTTCTTCTCATTATGAACTTT-CTCTGGAAAAGCTGATGCTAATCTATCTCAT
1 TTCTTCAGATGAGTTCTTCTCATTATGAACTTTCCGCTGG---AGATGATGCTAACCTATCTCAT
* * *
1628618 TCTGTGATAGAATTATGCAAAAGGTTGAACAAGCTCTTCTCATTGTGAACTTCTTC
63 TATGTGATAGAATCATGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTC
1628674 TTCTTCAGATGAGTTCTTCTCATTATGAACT
1 TTCTTCAGATGAGTTCTTCTCATTATGAACT
1628705 CTACCTGGCA
Statistics
Matches: 135, Mismatches: 13, Indels: 4
0.89 0.09 0.03
Matches are distributed among these distances:
117 5 0.04
118 33 0.24
120 97 0.72
ACGTcount: A:0.25, C:0.19, G:0.16, T:0.39
Consensus pattern (118 bp):
TTCTTCAGATGAGTTCTTCTCATTATGAACTTTCCGCTGGAGATGATGCTAACCTATCTCATTAT
GTGATAGAATCATGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTC
Found at i:1629072 original size:111 final size:112
Alignment explanation
Indices: 1628635--1629238 Score: 779
Period size: 111 Copynumber: 5.4 Consensus size: 112
1628625 TAGAATTATG
** *
1628635 CAAAAGGTTGAACAAGCTCTTCTCATTGTGAA--CTTCTT-CTTCTTCAGATGAGTTCTTCTCAT
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
*
1628697 TATGAACTCTACCTGGCAATGTTGATCCATC-AA--ATGAATTCAAA
66 TATGAACTCTTCCTGGCAATGTTGATCCATCAAATGATGAATTCAAA
1628741 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGATGAGTTCTTC
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAAC-TCTTCTTCCTTCTTC--A-GATGAGTTCTTC
*
1628806 TCATTATGAACTCTACCTGGCAATGTTGATCCATCAAATGATGAATTCAAA
62 TCATTATGAACTCTTCCTGGCAATGTTGATCCATCAAATGATGAATTCAAA
*
1628857 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTGTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAAC-TCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * * * * ** *
1628922 TTATGAACT-TTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAG
65 TTATGAACTCTTC-CTGGCAATGTTGATCCATCAAATGATGAATTCAAA
*
1628970 TAAAA-GTTGAACAAATTCTTCTCATTATGAA-T-TTCTT-CTTCTTCAGATGACGAGTTCTTCT
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTCTTCTTCCTTCTTCAGAT---GAGTTCTTCT
1629031 CATTATGAACTCTTCCTGGCAATGTTGATCCATCAAATGATGAATTCAAA
63 CATTATGAACTCTTCCTGGCAATGTTGATCCATCAAATGATGAATTCAAA
1629081 CAAAAGGTTG-ACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAAC-TCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * * * * * ** *
1629145 TTATGAA-TTTTCTCTGG-AAAGCTAATCCATCAAGTGATGGATTTGAG
65 TTATGAACTCTTC-CTGGCAATGTTGATCCATCAAATGATGAATTCAAA
1629192 CAAAAGGTTGAACAAATTCTTCTCATTATG-ACTTCTTCTTCCTTCTT
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAAC-TCTTCTTCCTTCTT
1629239 ATTATGAACT
Statistics
Matches: 443, Mismatches: 33, Indels: 39
0.86 0.06 0.08
Matches are distributed among these distances:
106 29 0.07
108 10 0.02
109 11 0.02
110 8 0.02
111 126 0.28
112 78 0.18
113 103 0.23
114 8 0.02
115 11 0.02
116 59 0.13
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.37
Consensus pattern (112 bp):
CAAAAGGTTGAACAAATTCTTCTCATTATGAACTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
TATGAACTCTTCCTGGCAATGTTGATCCATCAAATGATGAATTCAAA
Found at i:1629208 original size:223 final size:225
Alignment explanation
Indices: 1628635--1629232 Score: 896
Period size: 223 Copynumber: 2.7 Consensus size: 225
1628625 TAGAATTATG
** *
1628635 CAAAAGGTTGAACAAGCTCTTCTCATTGTGAA---CTTCTT-CTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * * * * * ** *
1628696 TTATGAACTCTAC-CTGGCAATGTTGATCCATCAA---ATGAATTCAAACAAAAGGTTGAACAAA
66 TTATGAA-TTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAA
*
1628757 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGATGAGTTCTTCTCATTATGAACTCTAC
130 TTCTTCTCATTATGAA--T-TTCTT-CTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTAC
1628822 CTGGCAATGTTGATCCATCAAATGATGAATTCAAA
191 CTGGCAATGTTGATCCATCAAATGATGAATTCAAA
*
1628857 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTGTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* *
1628922 TTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGTAAAA-GTTGAACAAAT
66 TTATGAATTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAAT
*
1628986 TCTTCTCATTATGAATTTCTTCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTTCCTGGC
131 TCTTCTCATTATGAATTTCTTCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGGC
1629051 AATGTTGATCCATCAAATGATGAATTCAAA
196 AATGTTGATCCATCAAATGATGAATTCAAA
1629081 CAAAAGGTTG-ACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
*
1629145 TTATGAATTTTCTCTGG-AAAGCTAATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAAT
66 TTATGAATTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAAT
*
1629209 TCTTCTCATTATG-ACTTCTTCTTC
131 TCTTCTCATTATGAATTTCTTCTTC
1629233 CTTCTTATTA
Statistics
Matches: 345, Mismatches: 22, Indels: 18
0.90 0.06 0.05
Matches are distributed among these distances:
222 72 0.21
223 93 0.27
224 82 0.24
225 13 0.04
226 48 0.14
228 26 0.08
229 11 0.03
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.37
Consensus pattern (225 bp):
CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
TTATGAATTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAAT
TCTTCTCATTATGAATTTCTTCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGGC
AATGTTGATCCATCAAATGATGAATTCAAA
Found at i:1630144 original size:111 final size:112
Alignment explanation
Indices: 1629985--1630200 Score: 337
Period size: 111 Copynumber: 1.9 Consensus size: 112
1629975 GATCATGCAG
* * * * * *
1629985 TTCATCTTTTAATTCCAATGATTGGTTCTTGGTTCTTACCGAACCAGATCAGATGACTCAAAGAA
1 TTCATCTTTCAAATCCAATGATTGATTCTTGGTTCATACCAAACCAGATCAGATAACTCAAAGAA
1630050 -ACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCAA
66 CACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCAA
*
1630096 TTCATCTTTCAAATCCAATGATTGATT-TTGGGTTCATACCAAATCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGATTCTT-GGTTCATACCAAACCAGATCAGATAACTCAAAGA
*
1630160 ACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTTTACTA
65 ACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTA
1630201 CGAGAACGTA
Statistics
Matches: 95, Mismatches: 8, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
110 2 0.02
111 55 0.58
112 38 0.40
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.36
Consensus pattern (112 bp):
TTCATCTTTCAAATCCAATGATTGATTCTTGGTTCATACCAAACCAGATCAGATAACTCAAAGAA
CACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCAA
Found at i:1630526 original size:19 final size:17
Alignment explanation
Indices: 1630498--1630546 Score: 55
Period size: 16 Copynumber: 2.8 Consensus size: 17
1630488 AAAATAAAAG
*
1630498 AATAAGTTGAATTTTCGAA
1 AATAAATTGAATTTTC--A
*
1630517 AATAAATTGAA-TCTCA
1 AATAAATTGAATTTTCA
1630533 AATAAATTGAATTT
1 AATAAATTGAATTT
1630547 AGAGAAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 12 0.46
17 1 0.04
18 3 0.12
19 10 0.38
ACGTcount: A:0.47, C:0.06, G:0.10, T:0.37
Consensus pattern (17 bp):
AATAAATTGAATTTTCA
Found at i:1630889 original size:1 final size:1
Alignment explanation
Indices: 1630883--1630934 Score: 59
Period size: 1 Copynumber: 52.0 Consensus size: 1
1630873 CATCTTGACC
* * * * *
1630883 TTTTTTTTTTCTTTTTCTTTTTTCTTTTTTTTTTTTTTTTCTTTTTTCTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1630935 CTTCTTCAAG
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 41 1.00
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (1 bp):
T
Found at i:1630904 original size:7 final size:7
Alignment explanation
Indices: 1630883--1630940 Score: 65
Period size: 6 Copynumber: 9.0 Consensus size: 7
1630873 CATCTTGACC
1630883 TTTT-TT
1 TTTTCTT
1630889 TTTTC-T
1 TTTTCTT
1630895 TTTTCTT
1 TTTTCTT
1630902 TTTTC--
1 TTTTCTT
1630907 TTTT-TT
1 TTTTCTT
1630913 TTTT-TT
1 TTTTCTT
1630919 TTTTCTT
1 TTTTCTT
1630926 TTTTCTT
1 TTTTCTT
1630933 TTCTTCTT
1 TT-TTCTT
1630941 CAAGCATAAT
Statistics
Matches: 46, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
5 4 0.09
6 20 0.43
7 17 0.37
8 5 0.11
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTCTT
Found at i:1630914 original size:24 final size:24
Alignment explanation
Indices: 1630882--1630934 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
1630872 TCATCTTGAC
1630882 CTTTTTTTTTTCTTTTTCTTTTTT
1 CTTTTTTTTTTCTTTTTCTTTTTT
*
1630906 CTTTTTTTTTTTTTTTTCTTTTTT
1 CTTTTTTTTTTCTTTTTCTTTTTT
1630930 CTTTT
1 CTTTT
1630935 CTTCTTCAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (24 bp):
CTTTTTTTTTTCTTTTTCTTTTTT
Done.